Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 133 of 172
Found at i:44014201 original size:95 final size:95
Alignment explanation
Indices: 44014003--44014230 Score: 264
Period size: 95 Copynumber: 2.4 Consensus size: 95
44013993 TGAGGTTATA
* * * * * * * *
44014003 ATAGCGAATCTTATTTTCCTGAAGTTGCAATGGAACAAATTGAAGCTATAATTACAGATCTTATC
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAATTACAGACCTTATC
44014068 TCCCTGAAGTTGCAATGGAGCAGACTAAAG
66 TCCCTGAAGTTGCAATGGAGCAGACTAAAG
*
44014098 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AGAGCTACAAATTACAGACCTTG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCTA-AAATTACAGACCTTA
* * * *
44014162 TTTCCCTGAAGTTGTAGTGGAGCAG-GTCAAAG
64 TCTCCCTGAAGTTGCAATGGAGCAGACT-AAAG
* * *
44014194 TTA-CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
44014231 GAAAATACAC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 73 0.64
96 40 0.35
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (95 bp):
ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAATTACAGACCTTATC
TCCCTGAAGTTGCAATGGAGCAGACTAAAG
Found at i:44014218 original size:44 final size:43
Alignment explanation
Indices: 44014168--44014306 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
44014158 CTTGTTTCCC
44014168 TGAAGTTGTAGTGGAGCAGGTCAAAGTTACAAATCTTATCTCCT
1 TGAAGTTGTAGTGGAGCAGGT-AAAGTTACAAATCTTATCTCCT
* * * * *
44014212 TGAAGTTGTAGTGGAGCAGG-AAAATACACAAACCATATCTCCC
1 TGAAGTTGTAGTGGAGCAGGTAAAGT-TACAAATCTTATCTCCT
* * * * *
44014255 TGAATTTGCAGTGGAGCAGGTTGAAGTTACTAATTCTGATCTCCT
1 TGAAGTTGTAGTGGAGCAGG-TAAAGTTAC-AAATCTTATCTCCT
*
44014300 TTAAGTT
1 TGAAGTT
44014307 CCAACGGAGT
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 4 0.05
43 31 0.42
44 22 0.30
45 17 0.23
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TGAAGTTGTAGTGGAGCAGGTAAAGTTACAAATCTTATCTCCT
Found at i:44015901 original size:15 final size:15
Alignment explanation
Indices: 44015881--44015909 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44015871 TTTCTATCAT
44015881 TATTATATTTCTATG
1 TATTATATTTCTATG
44015896 TATTATATTTCTAT
1 TATTATATTTCTAT
44015910 TTCTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATTTCTATG
Found at i:44015911 original size:21 final size:20
Alignment explanation
Indices: 44015886--44015924 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44015876 ATCATTATTA
44015886 TATTTCTATGTATTATATTTC
1 TATTTCTATGTA-TATATTTC
*
44015907 TATTTCTATTTATATATT
1 TATTTCTATGTATATATT
44015925 AATATCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTTCTATGTATATATTTC
Found at i:44015944 original size:3 final size:3
Alignment explanation
Indices: 44015916--44016098 Score: 84
Period size: 3 Copynumber: 59.3 Consensus size: 3
44015906 CTATTTCTAT
* * * * *
44015916 TTA TATA TTA ATA TCA TTA TTTA TTA TTA TTT TTA TAAA CTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * * * *
44015964 TCA TTA TCA TTA TTA TTA TTA TCA GTT- CTA TTA TTA TTT TCTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA
* * * ** *
44016010 TTA TTA CTA TTA CTT- TT- TTA CTA TTA TTA TTT TGTA CCA TTA TTG
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * *
44016055 TTA TTA TTA TTA TTT TTC TTA CTA TTA TTTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
44016099 CTATAGTATA
Statistics
Matches: 129, Mismatches: 41, Indels: 20
0.68 0.22 0.11
Matches are distributed among these distances:
2 5 0.04
3 108 0.84
4 16 0.12
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:44016068 original size:15 final size:14
Alignment explanation
Indices: 44015992--44016093 Score: 54
Period size: 13 Copynumber: 7.5 Consensus size: 14
44015982 TTATCAGTTC
*
44015992 TATTATTATTTT-C
1 TATTATTATTTTAT
* *
44016005 TATCATTA--TTAC
1 TATTATTATTTTAT
*
44016017 TATTACTT-TTTTAC
1 TATTA-TTATTTTAT
*
44016031 TATTATTATTTT-G
1 TATTATTATTTTAT
**
44016044 TACCATTATTGTTAT
1 TATTATTATT-TTAT
*
44016059 TATTATTATTTTTCT
1 TATTATTA-TTTTAT
*
44016074 TACTATTA-TTTAT
1 TATTATTATTTTAT
44016087 TATTATT
1 TATTATT
44016094 GTTATCTATA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
11 2 0.03
12 5 0.07
13 29 0.42
14 15 0.22
15 16 0.23
16 2 0.03
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATTATTTTAT
Found at i:44016822 original size:39 final size:39
Alignment explanation
Indices: 44016727--44016822 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
44016717 CGTTTGGACA
*
44016727 AAAAACGCCGCTAAAGACTGAGCATTAGCGGCGCTTTCAG
1 AAAAACGCCGCTAAA-AATGAGCATTAGCGGCGCTTTCAG
* ** * * **
44016767 GAAAACGATGCCAAAAATGAGCATTAGCGGCGTTTTTTG
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
44016806 AAAAACGCCGCTAAAAA
1 AAAAACGCCGCTAAAAA
44016823 CTTAAGCCCA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
Found at i:44016933 original size:41 final size:40
Alignment explanation
Indices: 44016858--44017009 Score: 198
Period size: 41 Copynumber: 3.8 Consensus size: 40
44016848 ACCTTTCGGA
44016858 GCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTCAG
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* *
44016897 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCTGG
1 GC-TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-AG
** * *
44016939 GCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTTAGG
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA-G
* *
44016980 GCTTTAACGGCGTTTTTAAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
44017010 AAAAACATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 16 0.16
41 76 0.78
42 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
Found at i:44016994 original size:82 final size:81
Alignment explanation
Indices: 44016858--44017007 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
44016848 ACCTTTCGGA
** * *
44016858 GCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTGAAAAAGC
1 GCTTTAGCGGCGTTTTCCAAAAGCGCCGCTAATGCTCAGGCTTTTAACGGCGTTTTTAAAAAAGC
44016923 GCCACTAATGCTCTGG
66 GCCACTAATGCTCTGG
*
44016939 GCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTTAGGGC-TTTAACGGCGTTTTTAAAAAA
1 GCTTTAGCGGCGTTTTCCAA-AAGCGCCGCTAATGCTCA-GGCTTTTAACGGCGTTTTTAAAAAA
44017003 GCGCC
64 GCGCC
44017008 GCAAAAACAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 18 0.29
82 41 0.66
83 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (81 bp):
GCTTTAGCGGCGTTTTCCAAAAGCGCCGCTAATGCTCAGGCTTTTAACGGCGTTTTTAAAAAAGC
GCCACTAATGCTCTGG
Found at i:44017458 original size:20 final size:19
Alignment explanation
Indices: 44017418--44017485 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 19
44017408 GATTATGGAA
*
44017418 TTAGGGATTCTGGTTTAAGGG
1 TTAGGGATT-TGGGTT-AGGG
*
44017439 TT-GTGATTTAGGGGTTAGGG
1 TTAGGGATTT--GGGTTAGGG
44017459 ATTAGGGATTTGGGTTAGGG
1 -TTAGGGATTTGGGTTAGGG
44017479 TTTAGGG
1 -TTAGGG
44017486 TTTAGATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.03
20 24 0.62
21 8 0.21
22 6 0.15
ACGTcount: A:0.18, C:0.01, G:0.43, T:0.38
Consensus pattern (19 bp):
TTAGGGATTTGGGTTAGGG
Found at i:44017552 original size:7 final size:7
Alignment explanation
Indices: 44017542--44017593 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
44017532 TGGGTTAGTA
*
44017542 GTTATGG
1 GTTAGGG
44017549 GTTA-GG
1 GTTAGGG
44017555 GTTAGGG
1 GTTAGGG
44017562 GTTAGGG
1 GTTAGGG
*
44017569 GTTTGGG
1 GTTAGGG
44017576 GTTAGGG
1 GTTAGGG
44017583 GTTAGGG
1 GTTAGGG
44017590 GTTA
1 GTTA
44017594 AGAGTTAGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.13, C:0.00, G:0.52, T:0.35
Consensus pattern (7 bp):
GTTAGGG
Found at i:44017600 original size:14 final size:14
Alignment explanation
Indices: 44017542--44017601 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
44017532 TGGGTTAGTA
*
44017542 GTTATGGGTT-AGG
1 GTTAGGGGTTAAGG
*
44017555 GTTAGGGGTTAGGG
1 GTTAGGGGTTAAGG
* *
44017569 GTTTGGGGTTAGGG
1 GTTAGGGGTTAAGG
*
44017583 GTTAGGGGTTAAGA
1 GTTAGGGGTTAAGG
44017597 GTTAG
1 GTTAG
44017602 TGATTTAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 9 0.22
14 31 0.77
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (14 bp):
GTTAGGGGTTAAGG
Found at i:44020162 original size:5 final size:5
Alignment explanation
Indices: 44020152--44020178 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
44020142 AAAACCAATC
44020152 AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AA
44020179 AAATAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:44020370 original size:22 final size:21
Alignment explanation
Indices: 44020344--44020407 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
44020334 GTACTTTTAA
*
44020344 TTATTTTATTTTTTCTAATTTG
1 TTATTTAATTTTTT-TAATTTG
*
44020366 TTATTAAAATTTTTTTAATTTG
1 TTATT-TAATTTTTTTAATTTG
* * *
44020388 GTGTTTGATTTTTTTAATTT
1 TTATTTAATTTTTTTAATTT
44020408 AGTACTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 13 0.37
22 15 0.43
23 7 0.20
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.69
Consensus pattern (21 bp):
TTATTTAATTTTTTTAATTTG
Found at i:44023822 original size:23 final size:22
Alignment explanation
Indices: 44023792--44023835 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
44023782 CCCATATAAT
*
44023792 GAAATTTATTTATTTATTGTTAG
1 GAAATTTAATTATTTA-TGTTAG
*
44023815 GAAATTTAATTGTTTATGTTA
1 GAAATTTAATTATTTATGTTA
44023836 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (22 bp):
GAAATTTAATTATTTATGTTAG
Found at i:44024039 original size:43 final size:43
Alignment explanation
Indices: 44023992--44024169 Score: 232
Period size: 43 Copynumber: 4.2 Consensus size: 43
44023982 TTTAGCTGAA
* ** * *
44023992 AAAAGCGCCGCTAAAAGTTATAATTTATAGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* *
44024035 AAAAGTGTCGCTAAAGGTCCTAATCT-TAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* * * *
44024077 AAAAGCGTCGCTAAAGGTCCTGATCTATAGCGGCATTTGTGGA
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* *
44024120 AAAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
44024163 AAAAGCG
1 AAAAGCG
44024170 ACATTGAGTA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 39 0.33
43 80 0.67
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
Found at i:44024073 original size:42 final size:43
Alignment explanation
Indices: 44024017--44024169 Score: 236
Period size: 43 Copynumber: 3.6 Consensus size: 43
44024007 AGTTATAATT
* * *
44024017 TATAGCGACGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTAATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
44024060 T-TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
* * *
44024102 TATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
*
44024145 TATAGTGGCGTTTGTGGGAAAAGCG
1 TATAGCGGCGTTTGTGGGAAAAGCG
44024170 ACATTGAGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.39
43 61 0.61
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (43 bp):
TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
Found at i:44024332 original size:43 final size:42
Alignment explanation
Indices: 44024270--44024360 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 42
44024260 TTACGAAGTG
* *
44024270 GCGTTTGTGGGAAAGCGCCGCTAAAAGTCTTGATC-TATAGCA
1 GCGTTTGTGGAAAAGCGCCGCTAAAAGTCCTGATCAT-TAGCA
* *
44024312 GCGTTTGTGAGAAAAGCGCCGCTAAATGTCCTGATCATTAGCG
1 GCGTTTGTG-GAAAAGCGCCGCTAAAAGTCCTGATCATTAGCA
44024355 GCGTTT
1 GCGTTT
44024361 ATTTCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 9 0.21
43 33 0.77
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (42 bp):
GCGTTTGTGGAAAAGCGCCGCTAAAAGTCCTGATCATTAGCA
Found at i:44025754 original size:21 final size:22
Alignment explanation
Indices: 44025716--44025763 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
44025706 TTTAATTTAG
*
44025716 TTTTGTATTTTTATTTTTAAGAA
1 TTTTGTATTTTCATTTTTAA-AA
44025739 TTTTGT-TTTTCATTTTTAAAA
1 TTTTGTATTTTCATTTTTAAAA
44025760 TTTT
1 TTTT
44025764 AAAATTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTGTATTTTCATTTTTAAAA
Found at i:44028938 original size:14 final size:16
Alignment explanation
Indices: 44028909--44028941 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
44028899 ATTGGATTAT
44028909 TTTAAGTTTAATTAAA
1 TTTAAGTTTAATTAAA
44028925 TTTAAG-TT-ATTAAA
1 TTTAAGTTTAATTAAA
44028939 TTT
1 TTT
44028942 TGTCGATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTAAGTTTAATTAAA
Found at i:44029119 original size:27 final size:26
Alignment explanation
Indices: 44029076--44029131 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
44029066 CTAGACATTA
44029076 TATAAAAAAATAGATA-TAACAAAAACT
1 TATAAAAAAATAGATATTAA-AAAAA-T
*
44029103 TATAATAAAATTA-ATATTAAAAAAAT
1 TATAA-AAAAATAGATATTAAAAAAAT
44029129 TAT
1 TAT
44029132 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.15
27 13 0.50
28 9 0.35
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (26 bp):
TATAAAAAAATAGATATTAAAAAAAT
Found at i:44034433 original size:26 final size:26
Alignment explanation
Indices: 44034404--44034511 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
44034394 TGGTACAAAT
44034404 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
44034430 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44034456 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
44034482 TGATAATGCTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44034508 TGAT
1 TGAT
44034512 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44041082 original size:26 final size:26
Alignment explanation
Indices: 44041053--44041161 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
44041043 TGGTACAAAT
44041053 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44041079 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44041105 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44041131 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44041157 TGATA
1 TGATA
44041162 GGCATTTCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44043268 original size:137 final size:137
Alignment explanation
Indices: 44042949--44043368 Score: 761
Period size: 137 Copynumber: 3.1 Consensus size: 137
44042939 TAGTCTCCCC
44042949 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
* *
44043014 TATCTGAATAAAGGGCTAA-GCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
*
44043078 GTTACCC
131 GTTACCA
44043085 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
44043150 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
44043215 GTTACCA
131 GTTACCA
* *
44043222 AAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
*
44043287 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACCACT
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
*
44043352 GTTACCT
131 GTTACCA
*
44043359 GAATGGGCTT
1 AAATGGGCTT
44043369 AGGCCCAATG
Statistics
Matches: 275, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 83 0.30
137 192 0.70
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCA
Found at i:44045325 original size:18 final size:18
Alignment explanation
Indices: 44045298--44045332 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44045288 ATAAAATTTT
44045298 ATAGGCCCAATATATTAG
1 ATAGGCCCAATATATTAG
*
44045316 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
44045333 CGTAAGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:44045343 original size:18 final size:18
Alignment explanation
Indices: 44045302--44045348 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
44045292 AATTTTATAG
*
44045302 GCCCAATATATTAGATAG
1 GCCCAATATATTAGATAA
*
44045320 GTCCAATATATTACG-TAA
1 GCCCAATATATTA-GATAA
*
44045338 GCCCAAAATAT
1 GCCCAATATAT
44045349 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (18 bp):
GCCCAATATATTAGATAA
Found at i:44059319 original size:12 final size:12
Alignment explanation
Indices: 44059302--44059327 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44059292 TTTTTATATA
44059302 TTATTTAGAATT
1 TTATTTAGAATT
44059314 TTATTTAGAATT
1 TTATTTAGAATT
44059326 TT
1 TT
44059328 TAAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATTTAGAATT
Found at i:44059339 original size:19 final size:22
Alignment explanation
Indices: 44059284--44059339 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
44059274 AATTTAAAAA
*
44059284 ATTT-GAA-TTTTTTATATATT
1 ATTTAGAATTTTTTTAGATATT
44059304 ATTTAGAATTTTATTTAGA-ATT
1 ATTTAGAATTTT-TTTAGATATT
44059326 -TTTA-AATTTTTTTA
1 ATTTAGAATTTTTTTA
44059340 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 7 0.22
22 6 0.19
23 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
ATTTAGAATTTTTTTAGATATT
Found at i:44059392 original size:12 final size:12
Alignment explanation
Indices: 44059377--44059405 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44059367 AATATTTTGA
44059377 ATTTTAAAAATT
1 ATTTTAAAAATT
44059389 ATTTTAAAAATT
1 ATTTTAAAAATT
44059401 ATTTT
1 ATTTT
44059406 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:44061749 original size:21 final size:21
Alignment explanation
Indices: 44061723--44061762 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44061713 CACCTGCAAC
*
44061723 AAAAAGTATCAATACTTTTTG
1 AAAAAGTATCAATAATTTTTG
*
44061744 AAAAAGTATCGATAATTTT
1 AAAAAGTATCAATAATTTT
44061763 ATCATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAAAGTATCAATAATTTTTG
Found at i:44063998 original size:25 final size:23
Alignment explanation
Indices: 44063946--44064000 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
44063936 TATAAATAGT
44063946 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
44063969 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
44063994 AATAGTG
1 AATAGTG
44064001 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:44064082 original size:22 final size:22
Alignment explanation
Indices: 44064056--44064130 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
44064046 TATAAAATAG
*
44064056 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
44064078 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
44064103 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
44064125 AGATAA
1 ATATAA
44064131 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:44064100 original size:25 final size:24
Alignment explanation
Indices: 44064062--44064124 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
44064052 ATAGATATAA
** *
44064062 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
44064087 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
44064111 AAAATATATACATA
1 AAAA-A-ATACATA
44064125 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:44064175 original size:25 final size:24
Alignment explanation
Indices: 44064147--44064278 Score: 92
Period size: 23 Copynumber: 5.6 Consensus size: 24
44064137 GAAAAAATAT
44064147 ATATATAAATAATATAGTATTAAAG
1 ATATATAAATAATATAGTATT-AAG
* * *
44064172 ATATATACATAAAATAGTA-TAAT
1 ATATATAAATAATATAGTATTAAG
** * *
44064195 ATATATATGTAATATAGAATTTAG
1 ATATATAAATAATATAGTATTAAG
** * *
44064219 A-ATATACCTAATATATTA-AAAG
1 ATATATAAATAATATAGTATTAAG
* *
44064241 AATATATATATAATATAATATTAAG
1 -ATATATAAATAATATAGTATTAAG
*
44064266 AAATAT-AATAATA
1 ATATATAAATAATA
44064279 ACAAAAAAGA
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
22 2 0.02
23 37 0.45
24 23 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATAAATAATATAGTATTAAG
Found at i:44064175 original size:29 final size:28
Alignment explanation
Indices: 44064075--44064184 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
44064065 AAATATGTAC
* *
44064075 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
44064100 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* ** *
44064126 GATAACAT-GTAGAAAAAATATATATATAA
1 -ATAATATAGTA-TTAAAATATATACATAA
44064155 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
44064184 A
1 A
44064185 ATAGTATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
24 5 0.08
25 9 0.14
26 7 0.11
27 6 0.09
28 10 0.15
29 29 0.44
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:44064202 original size:27 final size:25
Alignment explanation
Indices: 44064143--44064202 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
44064133 TGTAGAAAAA
*
44064143 ATATATATATAAATAATATAGTATT
1 ATATATATATAAATAAAATAGTATT
* * * *
44064168 AAAGATATATACATAAAATAGTATA
1 ATATATATATAAATAAAATAGTATT
44064193 ATATATATAT
1 ATATATATAT
44064203 GTAATATAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (25 bp):
ATATATATATAAATAAAATAGTATT
Found at i:44064254 original size:24 final size:23
Alignment explanation
Indices: 44064227--44064278 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
44064217 AGAATATACC
*
44064227 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
44064251 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
44064274 TAATA
1 TAATA
44064279 ACAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:44064599 original size:16 final size:16
Alignment explanation
Indices: 44064561--44064599 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44064551 ATCTCCAAAA
*
44064561 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
44064577 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
44064593 AATAACT
1 AAAAACT
44064600 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:44064798 original size:30 final size:30
Alignment explanation
Indices: 44064757--44064855 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
44064747 TAGGTACAAG
44064757 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
44064787 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
44064817 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
44064847 TGGTGGTGG
1 TGGTGGTGG
44064856 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:44065642 original size:87 final size:87
Alignment explanation
Indices: 44065491--44065696 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 87
44065481 TCCTGAGCTT
* * *
44065491 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
44065556 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
* **
44065579 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
44065642 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* *
44065666 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
44065697 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 72 0.71
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:44065821 original size:103 final size:96
Alignment explanation
Indices: 44065545--44066070 Score: 377
Period size: 91 Copynumber: 5.7 Consensus size: 96
44065535 TAAAAACAGA
* ** * *
44065545 AATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 AATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
44065607 TTT-A-AAACA-AAATTTGTAAAACAG----AT
65 TTTGACAAACATAAA-TTGAAAAAAAGAAAAAT
* * ** * *
44065633 -TTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
44065695 TTG-CAAAGCATAAATTGAAAAAAAAATAAAATGAAAAAT
66 TTGACAAA-CATAAATTG------AAA-AAAA-GAAAAAT
* *
44065734 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 -AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
44065799 TTTGACAAACATAAATTG-AAAAAA-AAAAA-
65 TTTGACAAACATAAATTGAAAAAAAGAAAAAT
* *
44065828 AATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
44065891 TGGAAAAACA-AAATTTGAAAAACAG---AAT
66 TTGACAAACATAAA-TTGAAAAAAAGAAAAAT
* * * *
44065919 --TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
44065981 TTTGA-AACACAGAAATTGAAGAACAG----A-
65 TTTGACAA-ACATAAATTGAAAAAAAGAAAAAT
* * * * *
44066008 AATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
44066069 TT
66 TT
44066071 TTAAAGACAG
Statistics
Matches: 367, Mismatches: 37, Indels: 69
0.78 0.08 0.15
Matches are distributed among these distances:
86 2 0.01
87 90 0.25
88 4 0.01
89 26 0.07
90 12 0.03
91 114 0.31
92 8 0.02
93 20 0.05
95 7 0.02
96 3 0.01
97 5 0.01
98 2 0.01
101 2 0.01
103 53 0.14
105 15 0.04
106 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (96 bp):
AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGACAAACATAAATTGAAAAAAAGAAAAAT
Found at i:44065873 original size:91 final size:88
Alignment explanation
Indices: 44065735--44066090 Score: 387
Period size: 91 Copynumber: 3.9 Consensus size: 88
44065725 ATGAAAAATC
* * *
44065735 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
44065800 TTGACAAACATAAATTGAAAAAAAAAAA
65 TTGA-AAACA-AAATTG--AAAAACAGA
* * *
44065828 AATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
44065892 GGAAAAACAAAATTTGAAAAACAGA
66 TG-AAAACAAAA-TTGAAAAACAGA
* ** * *
44065917 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
*
44065982 TTGAAACACAGAAATTGAAGAACAGA
65 TTGAAA-ACA-AAATTGAAAAACAGA
* * * *
44066008 AATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTT
*
44066070 TTTAAAGACAGAAATTGAAAA
65 TTGAAA-ACA-AAATTGAAAA
44066091 TACCTCAACG
Statistics
Matches: 228, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
87 30 0.13
88 24 0.11
89 29 0.13
90 7 0.03
91 114 0.50
92 4 0.02
93 20 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAAACAAAATTGAAAAACAGA
Found at i:44065925 original size:13 final size:14
Alignment explanation
Indices: 44065893--44065925 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44065883 TGATTTTTTG
44065893 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
44065907 GAAAAACAGAATTT
1 GAAAAACAAAATTT
44065921 GAAAA
1 GAAAA
44065926 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:44065966 original size:182 final size:178
Alignment explanation
Indices: 44065737--44066069 Score: 463
Period size: 182 Copynumber: 1.8 Consensus size: 178
44065727 GAAAAATCAA
* * * *
44065737 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * * *
44065802 GACAA-ACATAAATTGAAAAAAAAAAAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCA
66 GA-AACACAGAAATTG--AAAAAAAAAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTCA
*
44065866 CCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
126 CCTCTCGCAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
44065919 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
* * * * *
44065983 TGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTC
65 TGAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTC
44066048 TCGCAATATGAGCTGATTTTTT
130 TCGCAATATGAGCTGATTTTTT
44066070 TTTAAAGACA
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
178 40 0.30
180 21 0.16
181 2 0.01
182 69 0.51
183 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (178 bp):
TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:44066277 original size:75 final size:75
Alignment explanation
Indices: 44066003--44066823 Score: 1016
Period size: 75 Copynumber: 11.2 Consensus size: 75
44065993 AAATTGAAGA
* * * * *
44066003 ACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
44066066 TTTTTTTAAAG
65 TTTTTTAAAAG
44066077 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
44066141 TTTTGACAA-
66 TTTTTAAAAG
* * * * * * *
44066150 ACAAAAATTGAAATTACCTC-A-GCGTCTTAAGGTTCAACTCGCCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
44066213 TTTTTAAAAG
66 TTTTTAAAAG
*
44066223 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
44066287 TTTTGACAA-
66 TTTTTAAAAG
* * * * * * *
44066296 ACAAAAATTGAAATTACCTC-A-GCGTCTTAAGGTTCAACTCGCCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
44066359 TTTTTAAAAG
66 TTTTTAAAAG
* *
44066369 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
44066434 TTTTTAAAAG
66 TTTTTAAAAG
* *
44066444 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
44066509 TTTTTAAAAG
66 TTTTTAAAAG
* *
44066519 ACAGAAAGTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
44066583 TTTTGACAA-
66 TTTTTAAAAG
* * * * * *
44066592 ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCACAATATGAGTTGAAT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
*
44066657 TTTTTGAAAA-
65 TTTTTTAAAAG
* *
44066667 ACAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
44066730 GTTTT----G
66 TTTTTAAAAG
* * * * * *
44066736 ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
44066801 TTTTTAGAA-
66 TTTTTAAAAG
* *
44066810 ACATAAATTAAAAA
1 ACAGAAATTGAAAA
44066824 AAACGAAAAT
Statistics
Matches: 652, Mismatches: 76, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
69 57 0.09
71 73 0.11
72 21 0.03
73 127 0.19
74 56 0.09
75 281 0.43
76 37 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTAAAAG
Found at i:44066679 original size:148 final size:146
Alignment explanation
Indices: 44066018--44066823 Score: 1185
Period size: 146 Copynumber: 5.5 Consensus size: 146
44066008 AATGGAAAAC
*
44066018 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTAAAGACAGAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTAAAAGACAGAA
*
44066083 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
65 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAC
44066148 AAACAAAAATTGAAATT
130 AAACAAAAATTGAAATT
* *
44066165 ACCTCAGCGTCTTAAGGTTCAACTCGCCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAA
44066230 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGACA
44066295 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* *
44066311 ACCTCAGCGTCTTAAGGTTCAACTCGCCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAA
* * * * *
44066376 TTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGA-TTTTTGAC
* *
44066441 AAGACAGAAATTGAAAAT
130 AA-ACAAAAATTGAAATT
*
44066459 ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGA
1 ACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGA
*
44066524 AAGTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGA
64 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGA
44066589 CAAACAAAAATTGAAATT
129 CAAACAAAAATTGAAATT
* * * * * *
44066607 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCACAATATGAGTTGAATTTTTTGAAAA-ACAG
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTG-ATTTTTTTAAAAGACAG
* *
44066671 AAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCT-TGCAATATGAGTTGAGTTTT
63 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCT-CAATATGAGTTGATTTTT
44066735 G----ACAAAAATTGAAATT
127 GACAAACAAAAATTGAAATT
* * * * * * *
44066751 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTAGAA-ACATA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGA
*
44066815 AATTAAAAA
64 AATTGAAAA
44066824 AAACGAAAAT
Statistics
Matches: 611, Mismatches: 40, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
143 22 0.04
144 58 0.09
146 217 0.36
147 54 0.09
148 132 0.22
149 20 0.03
150 108 0.18
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:44067029 original size:14 final size:13
Alignment explanation
Indices: 44066994--44067038 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
44066984 TTGATTTTTG
*
44066994 AAAAATAGAAATT
1 AAAAACAGAAATT
*
44067007 AAAAGCAGAAATT
1 AAAAACAGAAATT
44067020 GAAAAACAGAAATT
1 -AAAAACAGAAATT
44067034 AAAAA
1 AAAAA
44067039 TACCTTGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:44067059 original size:100 final size:102
Alignment explanation
Indices: 44066822--44067111 Score: 376
Period size: 100 Copynumber: 2.9 Consensus size: 102
44066812 ATAAATTAAA
* * *
44066822 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACTTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
44066886 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTGT
65 TGATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTGT
*
44066922 AAAAA-AGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGTGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
44066986 GATTTTTGAAAAATAGAAATT-AAAAGCAGAAATTG-
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTGT
* ** * *
44067021 AAAAACAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
44067086 GATTTTTGAAAAGCATAAATTGAAAA
66 GATTTTTGAAAAACAGAAATTGAAAA
44067112 AACGGAAATT
Statistics
Matches: 166, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
99 60 0.36
100 88 0.53
101 18 0.11
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (102 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTGT
Found at i:44067180 original size:90 final size:87
Alignment explanation
Indices: 44067007--44067182 Score: 226
Period size: 90 Copynumber: 2.0 Consensus size: 87
44066997 AATAGAAATT
* * * * *
44067007 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTAGGCGTGACCCGAAGCCCAACTCACCTC
*
44067072 TCGCAATATGAGTTGATTTTTG
66 TCACAATATGAGTTGATTTTTG
* * * * *
44067094 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAAGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCT-AG-GCGTGACCCGAAGCCCAACTCAC
44067159 CTCTCACAATATGAGTTGATTTTT
63 CTCTCACAATATGAGTTGATTTTT
44067183 TTGAAAGATA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
87 13 0.17
88 21 0.28
89 1 0.01
90 40 0.53
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTAGGCGTGACCCGAAGCCCAACTCACCTC
TCACAATATGAGTTGATTTTTG
Found at i:44068080 original size:17 final size:16
Alignment explanation
Indices: 44068057--44068094 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
44068047 TCCCTCTCTC
*
44068057 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTCTCTTT
44068073 TCTTTTCTTTTCTCTTT
1 T-TTTTCTTTTCTCTTT
44068090 TTTTT
1 TTTTT
44068095 AAGATGCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTT
Found at i:44074193 original size:14 final size:14
Alignment explanation
Indices: 44074174--44074203 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44074164 ATTCTAATTC
*
44074174 AATTTCATTAGAAG
1 AATTTCACTAGAAG
44074188 AATTTCACTAGAAG
1 AATTTCACTAGAAG
44074202 AA
1 AA
44074204 AAATTTCTTT
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:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (14 bp):
AATTTCACTAGAAG
Found at i:44081062 original size:2 final size:2
Alignment explanation
Indices: 44081055--44081090 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
44081045 ACATACATGC
* *
44081055 AT AT AT AT AT AT AT GT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44081091 GAGCTTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44082840 original size:130 final size:131
Alignment explanation
Indices: 44082643--44082936 Score: 420
Period size: 130 Copynumber: 2.3 Consensus size: 131
44082633 GAATTTCTAG
* ** * * * *
44082643 ACATTGAACATTGCCTT-GTTTT--AGAATTTAGAAA-ATATGAGTGAAGTTTTAAAGGGATATT
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAGACATGAGTGAAATTTCAAAGGAATATT
** *
44082704 CGATTATTTTGAACAAACGGGAAATTGCAATCC-AGCACGATAGGGCACGATTCCCCGAATTGCC
66 CGATTATTTTGAACAAACGAAAAATTG-AAACCTAGCACGATAGGGCACGATTCCCCGAATTGCC
44082768 AA
130 AA
44082770 ACATCGAACATT-CCTTCGTTTTAAAGAATTTTTAAAGACATGAGTGAAATTTCAAAGGAATATT
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAGACATGAGTGAAATTTCAAAGGAATATT
*
44082834 CGATTATTTTGAACAAACGAAAAATTGAAACCTAGCACGATTGGGCACGATTCCCCGAATTGCCA
66 CGATTATTTTGAACAAACGAAAAATTGAAACCTAGCACGATAGGGCACGATTCCCCGAATTGCCA
44082899 A
131 A
* *
44082900 ACATCGAACATTGCCTTTGTTTTAAATAATTTTTAAA
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
44082937 TGAATAATTA
Statistics
Matches: 148, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
126 4 0.03
127 16 0.11
129 14 0.09
130 92 0.62
131 22 0.15
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (131 bp):
ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAGACATGAGTGAAATTTCAAAGGAATATT
CGATTATTTTGAACAAACGAAAAATTGAAACCTAGCACGATAGGGCACGATTCCCCGAATTGCCA
A
Found at i:44084049 original size:14 final size:14
Alignment explanation
Indices: 44084030--44084056 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44084020 AATGTAAAAT
44084030 AAAATAATGATTTC
1 AAAATAATGATTTC
44084044 AAAATAATGATTT
1 AAAATAATGATTT
44084057 ATTTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAATAATGATTTC
Found at i:44094939 original size:3 final size:3
Alignment explanation
Indices: 44094933--44095046 Score: 61
Period size: 3 Copynumber: 36.0 Consensus size: 3
44094923 ATAATGTGAC
* *
44094933 AAT AAT AAT AAC AA- AAGT AAT AAAT AAAT AAAT AAAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT -AAT -AAT -AAT -AAT AAT AAT AAT
* * * ** * *
44094979 AAA AAT AAT AGT AAT GAT AAT GGT AAT AAT AAAT AGT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
44095025 AAT AAT ACA- AAT AAT AAAT AAT
1 AAT AAT A-AT AAT AAT -AAT AAT
44095047 CTAAAGTTTG
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.03
3 60 0.69
4 24 0.28
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:44095214 original size:3 final size:3
Alignment explanation
Indices: 44095208--44095387 Score: 145
Period size: 3 Copynumber: 59.7 Consensus size: 3
44095198 AAAAGAAAAT
*
44095208 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AGGTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
* *
44095255 ATA AT- ATA TTA GATA GTAA ATA ATA ATA ATA ATA ATA ATA A-A AGTA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
44095301 ATA A-A A-A ATG GTA ATA GTG ATA TTA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * *
44095347 GCA AT- ATA TTA ATA ATA ATA ATA ATA GTA TATA TTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT
44095388 GACAATAGTA
Statistics
Matches: 140, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
2 10 0.07
3 119 0.85
4 8 0.06
5 3 0.02
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:44095406 original size:22 final size:22
Alignment explanation
Indices: 44095357--44095407 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
44095347 GCAATATATT
* * *
44095357 AATAATAATAATAATAGTATAT
1 AATAATAATAACAATAGTAGAA
* *
44095379 ATTAATAATGACAATAGTAGAA
1 AATAATAATAACAATAGTAGAA
44095401 AATAATA
1 AATAATA
44095408 GAAATAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (22 bp):
AATAATAATAACAATAGTAGAA
Found at i:44095496 original size:13 final size:12
Alignment explanation
Indices: 44095450--44095492 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
44095440 ATGAAACAAT
*
44095450 AATAATGATAAA
1 AATAATAATAAA
*
44095462 TATAATAATAGAA
1 AATAATAATA-AA
*
44095475 AGTAATAATAAA
1 AATAATAATAAA
44095487 AATAAT
1 AATAAT
44095493 TAATTTGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:44096384 original size:182 final size:182
Alignment explanation
Indices: 44096040--44096462 Score: 611
Period size: 182 Copynumber: 2.3 Consensus size: 182
44096030 CTATCTACTG
*
44096040 CAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAAAC
1 CAACTTCAGGGAAATAAGTTTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAAAC
* * **
44096105 TAGTGACTTCAACCAGCTTTGCTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTA
66 TAGTAACTTCAAACAGCTCCGCTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTA
* *
44096170 CAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATTTGTTCCACTA
131 CAACTTTAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCCACTA
* * * * *
44096222 CAACTTCAAGGAAATAAGTTTCGCTATCTTTAGTCTGCTCCACTCCAACTTCAGAGAGATAATAC
1 CAACTTCAGGGAAATAAGTTTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAAAC
* *
44096287 T-TTAACTTCAAACTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGTGTTTTGATCTTGCTCTAC
66 TAGTAACTTCAAACAGCTCCGCTGCAACTTCAGGGAGATAAGGTT-TGTTTTGATC-TGCTCTAC
* * * *
44096351 TGCAACTTTAGGGAGATAAGATCTG-TGATTTATAGGTTCAATCTGTTCCACTG
129 TACAACTTTAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCCACTA
*
44096404 CAACTTCAGGGAAATAAGATTT-GCTATC-TTCGATCTACTCCACTGCAACTTCAGGGAGA
1 CAACTTCAGGGAAATAAG-TTTCGCTATCTTTAG-TCTACTCCACTGCAACTTCAGGGAGA
44096463 CAAGATTTAC
Statistics
Matches: 214, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
181 40 0.19
182 140 0.65
183 34 0.16
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (182 bp):
CAACTTCAGGGAAATAAGTTTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAAAC
TAGTAACTTCAAACAGCTCCGCTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTA
CAACTTTAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCCACTA
Found at i:44096448 original size:45 final size:45
Alignment explanation
Indices: 44096215--44097253 Score: 309
Period size: 45 Copynumber: 23.4 Consensus size: 45
44096205 TTCAATTTGT
* * * * * *
44096215 TCCACTACAACTTCAAGGAAATAAG-TTTCGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTT-GCTATCTTCAATCTAC
* * * * * * *
44096260 TCCACTCCAACTTCAGAGAGATAATACTT--TAACTTCAAACTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * *
44096303 TCCGCTGCAACTTCAGGGAGATAAGGTTGTG-T-T-TT-GATCTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGCTATCTTCAATC-TAC
* * * * **
44096346 TCTACTGCAACTTTAGGGAGATAAGATCTGTGATTTATAGGTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGAT-T-TG--CTAT--CTTCAATCTAC
* *
44096397 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * **
44096442 TCCACTGCAACTTCAGGGAGACAAGATTTACAATCTTCAGCCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* ** * * * ** * *
44096487 TCCACTAC-TGTTTAGGGAGATAGGA-TAG-TGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * **
44096529 TTCACTGTAACTTCAGGAAG-TCAAGATTCGCCATCTTTGATCTAC
1 TCCACTGCAACTTCAGGGAGAT-AAGATTTGCTATCTTCAATCTAC
* * * * **
44096574 TCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
**** * * ** * *
44096619 TCCACTATTGCTT-AGGGAGATAGGA-TAG-TGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * *
44096661 TTCACTGCAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGAT-AAGATTTGCTATCTTCAATCTAC
* * * * * **
44096706 TCCACTGCAACTTCAAGGAGACAAGATCTACAATCTTCAGCCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
**** * * ** * *
44096751 TCCACTATTGCTT-AGGGAGATAGGA-TAG-TGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * ** * *
44096793 TTCACTGCAACTTCAGGAAGATAAGATTCGCCGTCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * *
44096838 TCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* ** * * ** * *
44096883 TCCACTACTGCTT-AGGGAGATAGGA--TGGTGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * ** ** *
44096925 TTCACTGCAACTTCAGGAAGATAAGATTCACCGTCTTCGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * *
44096970 TCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * ** * **
44097015 TCCA---CAACTGTTTAGGGAGATAGGA--TGGTGGCTTAAATCCGC
1 TCCACTGCAAC--TTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * ** * *
44097057 TTCACTGCAACTTCAAGAAGACAAGATTCGCCGTCTTCGATCTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* ** * * * * **
44097102 TCCGCTGCAACTTCAGGGAGGCAAGATCTACAATCTTTAGCCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* ** * * * * *
44097147 TCCACTACTTCTT-AGGGAGATAGGA--TGGTAGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
* * * * * *
44097189 TTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
44097234 TCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAG
44097254 GCAAGATCTA
Statistics
Matches: 682, Mismatches: 273, Indels: 78
0.66 0.26 0.08
Matches are distributed among these distances:
42 97 0.14
43 119 0.17
44 73 0.11
45 352 0.52
46 2 0.00
47 4 0.01
48 1 0.00
49 2 0.00
50 1 0.00
51 28 0.04
52 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTAC
Found at i:44096542 original size:132 final size:132
Alignment explanation
Indices: 44096390--44097349 Score: 1505
Period size: 132 Copynumber: 7.3 Consensus size: 132
44096380 TTATAGGTTC
* *
44096390 AATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTATCTTCGATCTACTCCACTGCAAC
1 AATCTGCTT-CACTGCAACTTCA-GGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAAC
* * *
44096453 TTCAGGGAGACAAGATTTACAATCTTCAGCCTACTCCACTACTGTTTAGGGAGATAGGATAGTGG
64 TTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
44096518 CTTA
129 CTTA
* *
44096522 AATCTGCTTCACTGTAACTTCAGGAAG-TCAAGATTCGCCATCTTTGATCTACTCCACTGCAACT
1 AATCTGCTTCACTGCAACTTCAGGAAGAT-AAGATTCGCCATCTTCGATCTACTCCACTGCAACT
* *
44096586 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATAGTGGC
65 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
44096651 TTA
130 TTA
*
44096654 AATCTGCTTCACTGCAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACT
1 AATCTGCTTCACTGCAACTTCAGGAAGAT-AAGATTCGCCATCTTCGATCTACTCCACTGCAACT
* * *
44096718 TCAAGGAGACAAGATCTACAATCTTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATAGTGGC
65 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
44096783 TTA
130 TTA
* * *
44096786 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCTACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAACTT
*
44096851 CAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
44096916 TA
131 TA
* * *
44096918 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAACTT
* * *
44096983 CAGGGAGACAAGATCTACAATCTTCAACCTACTCCACAACTGTTTAGGGAGATAGGATGGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
44097048 TA
131 TA
* * * * * *
44097050 AATCCGCTTCACTGCAACTTCAAGAAGACAAGATTCGCCGTCTTCGATCTTCTCCGCTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAACTT
* * * *
44097115 CAGGGAGGCAAGATCTACAATCTTTAGCCTACTCCACTACTTCTTAGGGAGATAGGATGGTAGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
44097180 TA
131 TA
*
44097182 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTTCTCCACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAACTT
* * *
44097247 CAGGGAGGCAAGATCTACAATCCTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
44097312 TA
131 TA
* *
44097314 AATCTGCTTCACTGCAACTTTAGGAAGACAAGATTC
1 AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTC
44097350 ACATAATTCG
Statistics
Matches: 775, Mismatches: 49, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 5 0.01
132 767 0.99
133 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTGCAACTT
CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
TA
Found at i:44097963 original size:15 final size:15
Alignment explanation
Indices: 44097943--44097980 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
44097933 ATCGTAGCAT
44097943 GAACTTCTCTGCACA
1 GAACTTCTCTGCACA
44097958 GAACTTCTCTGCACA
1 GAACTTCTCTGCACA
44097973 GAACTTCT
1 GAACTTCT
44097981 TGAGGACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (15 bp):
GAACTTCTCTGCACA
Found at i:44104422 original size:30 final size:30
Alignment explanation
Indices: 44104388--44104445 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44104378 CCTTAGCTCT
44104388 AACTTTTGAAAAATTACAATTTTGCCCCTA
1 AACTTTTGAAAAATTACAATTTTGCCCCTA
* * * *
44104418 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGAAAAATTACAATTTTGCCCC
44104446 AAAGCTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGAAAAATTACAATTTTGCCCCTA
Found at i:44107454 original size:19 final size:19
Alignment explanation
Indices: 44107426--44107470 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
44107416 GGATCTTTTC
*
44107426 ATGCATATG-ATGAAATGTA
1 ATGCAAATGAATGAAATG-A
44107445 ATGCAAATGAATGAAATGA
1 ATGCAAATGAATGAAATGA
44107464 ATGCAAA
1 ATGCAAA
44107471 AAGAGGCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (19 bp):
ATGCAAATGAATGAAATGA
Found at i:44108917 original size:24 final size:25
Alignment explanation
Indices: 44108890--44108941 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
44108880 GCCTAGCCTC
*
44108890 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
44108914 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
44108939 TTT
1 TTT
44108942 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:44109011 original size:11 final size:11
Alignment explanation
Indices: 44108997--44109049 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
44108987 GTATATCATA
44108997 GCATATCATGT
1 GCATATCATGT
* *
44109008 GCATCTCAT-A
1 GCATATCATGT
*
44109018 ACATATCATGT
1 GCATATCATGT
44109029 GCATATCATGT
1 GCATATCATGT
44109040 -CATATCATGT
1 GCATATCATGT
44109050 ATAACAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:44109016 original size:21 final size:21
Alignment explanation
Indices: 44108989--44109049 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
44108979 TATAATGAGT
44108989 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
44109010 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
44109031 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
44109050 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:44109048 original size:10 final size:10
Alignment explanation
Indices: 44108989--44109049 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
44108979 TATAATGAGT
44108989 ATATCATAG-C
1 ATATCAT-GTC
44108999 ATATCATGTGC
1 ATATCATGT-C
* **
44109010 ATCTCATAAC
1 ATATCATGTC
44109020 ATATCATGTGC
1 ATATCATGT-C
44109031 ATATCATGTC
1 ATATCATGTC
44109041 ATATCATGT
1 ATATCATGT
44109050 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:44116133 original size:86 final size:86
Alignment explanation
Indices: 44115988--44116158 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 86
44115978 ACATGCCCAT
44115988 AACCATTGCCACAATTTGATGCGAGGTTAGGTTTTGGAAGAAAAATCGAGTTGGAATTCACTTAA
1 AACCATTGCCACAATTTGATGCGAGGTTAGGTTTTGGAAGAAAAATCGAGTTGGAATTCACTTAA
44116053 GTAGATATTTTTGATAAACTC
66 GTAGATATTTTTGATAAACTC
*
44116074 AACCATTGCCACACTTTGATGCGAGGTTAGGTTTTGGAAGAAAAATCGAGTTGGAATTCACTTAA
1 AACCATTGCCACAATTTGATGCGAGGTTAGGTTTTGGAAGAAAAATCGAGTTGGAATTCACTTAA
44116139 GTAGATATTTTTGATAAACT
66 GTAGATATTTTTGATAAACT
44116159 AATTAGTTGT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (86 bp):
AACCATTGCCACAATTTGATGCGAGGTTAGGTTTTGGAAGAAAAATCGAGTTGGAATTCACTTAA
GTAGATATTTTTGATAAACTC
Found at i:44116884 original size:21 final size:21
Alignment explanation
Indices: 44116857--44116917 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
44116847 TATAATGAGT
44116857 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
44116878 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
44116899 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
44116918 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:44116916 original size:10 final size:10
Alignment explanation
Indices: 44116857--44116917 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
44116847 TATAATGAGT
44116857 ATATCATAG-C
1 ATATCAT-GTC
44116867 ATATCATGTGC
1 ATATCATGT-C
* **
44116878 ATCTCATAAC
1 ATATCATGTC
44116888 ATATCATGTGC
1 ATATCATGT-C
44116899 ATATCATGTC
1 ATATCATGTC
44116909 ATATCATGT
1 ATATCATGT
44116918 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:44116998 original size:25 final size:26
Alignment explanation
Indices: 44116954--44117003 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
44116944 ATAATTAAAC
* *
44116954 CCTAGGGGGTATAATGGTCATTTTTA
1 CCTAGGGGGTAAAATAGTCATTTTTA
44116980 CCTA-GGGGTAAAATAGTCATTTTT
1 CCTAGGGGGTAAAATAGTCATTTTT
44117004 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (26 bp):
CCTAGGGGGTAAAATAGTCATTTTTA
Found at i:44117223 original size:33 final size:33
Alignment explanation
Indices: 44117186--44117284 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
44117176 AAGCCCACTG
44117186 AACCCAAATTTTACAACAGTACTAACCGTGTTA
1 AACCCAAATTTTACAACAGTACTAACCGTGTTA
*
44117219 AACCCAAATTTTACAATAGTACTAACCGTGTT-
1 AACCCAAATTTTACAACAGTACTAACCGTGTTA
***
44117251 AACATGAATTTTACAACAGTACTAACCGTGTTA
1 AACCCAAATTTTACAACAGTACTAACCGTGTTA
44117284 A
1 A
44117285 CATGCAACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 28 0.47
33 32 0.53
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (33 bp):
AACCCAAATTTTACAACAGTACTAACCGTGTTA
Found at i:44117266 original size:32 final size:32
Alignment explanation
Indices: 44117192--44117288 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
44117182 ACTGAACCCA
***
44117192 AATTTTACAACAGTACTAACCGTGTTAAACCCA
1 AATTTTACAACAGTACTAACCGTGTT-AACATG
*
44117225 AATTTTACAATAGTACTAACCGTGTTAACATG
1 AATTTTACAACAGTACTAACCGTGTTAACATG
44117257 AATTTTACAACAGTACTAACCGTGTTAACATG
1 AATTTTACAACAGTACTAACCGTGTTAACATG
44117289 CAACTTTTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 34 0.58
33 25 0.42
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (32 bp):
AATTTTACAACAGTACTAACCGTGTTAACATG
Found at i:44122156 original size:22 final size:21
Alignment explanation
Indices: 44122107--44122160 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
44122097 AATAAAGATA
44122107 GAAT-TAATAATGATACTAAC
1 GAATATAATAATGATACTAAC
*
44122127 GAATATAAGTAATGATAGTAA-
1 GAATATAA-TAATGATACTAAC
*
44122148 TAATAATAATAAT
1 GAAT-ATAATAAT
44122161 AATAATGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 10 0.34
22 15 0.52
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (21 bp):
GAATATAATAATGATACTAAC
Found at i:44122244 original size:24 final size:24
Alignment explanation
Indices: 44122217--44122276 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
44122207 AAAATAAAAT
*
44122217 ATAATCATAATAAAAATAATAGTC
1 ATAATCATAATAAAAATAATAGTA
* *
44122241 ATAATAATAATAGAAATAATAGTA
1 ATAATCATAATAAAAATAATAGTA
*
44122265 ATAA-CACAATAA
1 ATAATCATAATAA
44122277 TAATGGTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.27
Consensus pattern (24 bp):
ATAATCATAATAAAAATAATAGTA
Found at i:44122280 original size:3 final size:3
Alignment explanation
Indices: 44122131--44122268 Score: 65
Period size: 3 Copynumber: 46.3 Consensus size: 3
44122121 ACTAACGAAT
* * * * *
44122131 ATA AGTA ATG ATA GTA ATA ATA ATA ATA ATA ATA ATG CTA A-A TTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
44122176 ATTA ATA ATA A-A ATA ATA AGCA GATA A-A CTCA A-A ATA A-A AT- ATA
1 A-TA ATA ATA ATA ATA ATA A-TA -ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * *
44122220 ATC ATA ATA AAA ATA ATA GTC ATA ATA ATA ATA GA-A ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
44122265 ATA A
1 ATA A
44122269 CACAATAATA
Statistics
Matches: 98, Mismatches: 24, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
2 11 0.11
3 76 0.78
4 10 0.10
5 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:44125853 original size:66 final size:66
Alignment explanation
Indices: 44125761--44125892 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
44125751 CCGATGGCTA
44125761 GACCGGACCAGGCAGGCCATCACTAGCCCGAACTGAATTGACAGAAATCGAACCAACTCGGGGTG
1 GACCGGACCAGGCAGGCCATCACTAGCCCGAACTGAATTGACAGAAATCGAACCAACTCGGGGTG
44125826 T
66 T
*
44125827 GACCGGACCAGGTAGGCCATCACTAGCCCGAACTGAATTGACAGAAATCGAACCAACTCGGGGTG
1 GACCGGACCAGGCAGGCCATCACTAGCCCGAACTGAATTGACAGAAATCGAACCAACTCGGGGTG
44125892 T
66 T
44125893 CGATAGTTGT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.14
Consensus pattern (66 bp):
GACCGGACCAGGCAGGCCATCACTAGCCCGAACTGAATTGACAGAAATCGAACCAACTCGGGGTG
T
Found at i:44126123 original size:56 final size:59
Alignment explanation
Indices: 44126061--44126175 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 59
44126051 TAATATTAAA
44126061 TTTAATTTAAAACTTATCTTAATAG-T-AAT-TTA-TTAATTTAATATTAAAGTCATTAT
1 TTTAATTTAAAACTTATCTT-ATAGATAAATATTAGTTAATTTAATATTAAAGTCATTAT
* * * *
44126117 TTTAATTTTAAATTTATCTTGTAGATAAATATTATGTTAATTTAATATTAAAGTGATTA
1 TTTAATTTAAAACTTATCTTATAGATAAATATTA-GTTAATTTAATATTAAAGTCATTA
44126176 AATTTAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
55 3 0.06
56 19 0.38
57 3 0.06
58 3 0.06
60 22 0.44
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (59 bp):
TTTAATTTAAAACTTATCTTATAGATAAATATTAGTTAATTTAATATTAAAGTCATTAT
Found at i:44128380 original size:51 final size:51
Alignment explanation
Indices: 44128304--44128417 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
44128294 AGCAACAAGC
* *
44128304 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGT
* *
44128355 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGT
*
44128406 AACAAGTGATAA
1 GACAAGTGATAA
44128418 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGT
Found at i:44131237 original size:20 final size:20
Alignment explanation
Indices: 44131212--44131252 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44131202 TGAGATTATT
44131212 CATAACATCATTTAAATGGA
1 CATAACATCATTTAAATGGA
*
44131232 CATAACGTCATTTAAATGGA
1 CATAACATCATTTAAATGGA
44131252 C
1 C
44131253 CCTCGAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
CATAACATCATTTAAATGGA
Found at i:44133007 original size:18 final size:18
Alignment explanation
Indices: 44132961--44132996 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44132951 ACGGGAAATC
*
44132961 ACATGTATCCATTGATTT
1 ACATATATCCATTGATTT
44132979 ACATATATCCATTGATTT
1 ACATATATCCATTGATTT
44132997 TCATTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (18 bp):
ACATATATCCATTGATTT
Found at i:44139697 original size:17 final size:17
Alignment explanation
Indices: 44139675--44139707 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44139665 TTTTTATCAT
*
44139675 TTATCATTTATCGGGCA
1 TTATCATTAATCGGGCA
44139692 TTATCATTAATCGGGC
1 TTATCATTAATCGGGC
44139708 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (17 bp):
TTATCATTAATCGGGCA
Found at i:44143709 original size:21 final size:21
Alignment explanation
Indices: 44143666--44143716 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
44143656 TTATCTACAT
44143666 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-T-AACTTA
44143689 TTAAACACATTTAAA-AACTTA
1 TTAAACACA-TTAAATAACTTA
*
44143710 TTGAACA
1 TTAAACA
44143717 TGCACTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 12 0.46
23 9 0.35
24 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAAACACATTAAATAACTTA
Found at i:44147697 original size:68 final size:66
Alignment explanation
Indices: 44147625--44147801 Score: 173
Period size: 67 Copynumber: 2.7 Consensus size: 66
44147615 CATCATGTGT
* * * *
44147625 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCACATGCGTGGAT-CTAGTGAAGGACACC
44147687 ATGTAG
61 ATGTAG
** *
44147693 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGCTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCACATGCGTGGATCTA-GTGAAGGACACCATGT
44147758 AG
65 AG
* * * *
44147760 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCACATGCGTGG
44147802 TACTGAGTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
64 22 0.23
65 5 0.05
66 22 0.23
67 32 0.34
68 13 0.14
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCACATGCGTGGATCTAGTGAAGGACACCATGTA
G
Found at i:44153915 original size:20 final size:20
Alignment explanation
Indices: 44153890--44153928 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44153880 AATATAAGTG
*
44153890 ATAATGATGATAATAATAAT
1 ATAATGATGACAATAATAAT
44153910 ATAATGATGACAATAATAA
1 ATAATGATGACAATAATAA
44153929 GGAACAGCAC
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:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (20 bp):
ATAATGATGACAATAATAAT
Found at i:44163876 original size:40 final size:40
Alignment explanation
Indices: 44163832--44163907 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
44163822 TCCTACAATC
* * *
44163832 TTTGAAAATAACTTATTATAAACTTAATAACTATACATTA
1 TTTGAAAATAAATCATTATAAACTCAATAACTATACATTA
*
44163872 TTTGAAAATAAATCATTATGAACTCAATAACTATAC
1 TTTGAAAATAAATCATTATAAACTCAATAACTATAC
44163908 CGTAGAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (40 bp):
TTTGAAAATAAATCATTATAAACTCAATAACTATACATTA
Found at i:44166418 original size:15 final size:17
Alignment explanation
Indices: 44166388--44166421 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
44166378 CGAAATTAAA
44166388 TTATAATTTTTAATAAT
1 TTATAATTTTTAATAAT
44166405 TTAT-ATTTTT-ATAAT
1 TTATAATTTTTAATAAT
44166420 TT
1 TT
44166422 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 6 0.35
17 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATAATTTTTAATAAT
Found at i:44166503 original size:29 final size:29
Alignment explanation
Indices: 44166419--44166492 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44166409 ATTTTTATAA
44166419 TTTTTAAAAAATTAAATCAAAATTTTATT
1 TTTTTAAAAAATTAAATCAAAATTTTATT
44166448 TTTTTAAAAAATTAAATCAAAATTTTATT
1 TTTTTAAAAAATTAAATCAAAATTTTATT
*
44166477 TTTTTTAAAAATTAAA
1 TTTTTAAAAAATTAAA
44166493 ATATAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTTTAAAAAATTAAATCAAAATTTTATT
Found at i:44166933 original size:13 final size:13
Alignment explanation
Indices: 44166917--44166941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44166907 TTATTTTTTT
44166917 AATAAATTTAATG
1 AATAAATTTAATG
44166930 AATAAATTTAAT
1 AATAAATTTAAT
44166942 ATTTTAATCT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAAATTTAATG
Found at i:44168784 original size:21 final size:21
Alignment explanation
Indices: 44168760--44168807 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44168750 TTATATTCAA
*
44168760 AAAAATAAAAA-TTAAATTCTT
1 AAAAATAAAAATTTAAA-TATT
44168781 AAAAATAAAAATTTAAATATT
1 AAAAATAAAAATTTAAATATT
44168802 AAAAAT
1 AAAAAT
44168808 TAAATATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATAAAAATTTAAATATT
Found at i:44168784 original size:22 final size:22
Alignment explanation
Indices: 44168759--44168811 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
44168749 TTTATATTCA
44168759 AAAAAATAAAAA-TTAAAT-TCT
1 AAAAAATAAAAATTTAAATAT-T
*
44168780 TAAAAATAAAAATTTAAATATT
1 AAAAAATAAAAATTTAAATATT
*
44168802 AAAAATTAAA
1 AAAAAATAAA
44168812 TATATGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.41
22 15 0.56
23 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAATAAAAATTTAAATATT
Found at i:44168806 original size:16 final size:16
Alignment explanation
Indices: 44168785--44168828 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
44168775 ATTCTTAAAA
44168785 ATAAAAATTTAAATAT
1 ATAAAAATTTAAATAT
44168801 -TAAAAA-TTAAATAT
1 ATAAAAATTTAAATAT
*
44168815 ATGAAAAATATAAA
1 AT-AAAAATTTAAA
44168829 AACTTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 5 0.21
17 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAAAAATTTAAATAT
Found at i:44176764 original size:40 final size:40
Alignment explanation
Indices: 44176708--44176788 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
44176698 CCTAATTGGG
* * * *
44176708 AAAATAATTCCCTTATTCTAATAAAGTACTAGAAGATAAA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAACATAAA
44176748 AAAATAATTCCATTATTCTAATAAACTACTAAAACATAAA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAACATAAA
44176788 A
1 A
44176789 TAAAATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.30
Consensus pattern (40 bp):
AAAATAATTCCATTATTCTAATAAACTACTAAAACATAAA
Found at i:44176848 original size:19 final size:19
Alignment explanation
Indices: 44176824--44176864 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
44176814 TGATTTATTC
44176824 TAAGATTTACCTACCTAAA
1 TAAGATTTACCTACCTAAA
**
44176843 TAAGATTTATTTACCTAAA
1 TAAGATTTACCTACCTAAA
44176862 TAA
1 TAA
44176865 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTACCTACCTAAA
Found at i:44179068 original size:47 final size:47
Alignment explanation
Indices: 44178998--44179091 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
44178988 AAATCTAAAA
*
44178998 AAAAATTATTTGCATGATAAGTTGCAAC-TAAGTTTGCGACTTGTTAC
1 AAAAATTAGTTGCATGATAAGTTGCAACGT-AGTTTGCGACTTGTTAC
* * *
44179045 AAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTAC
1 AAAAATTAGTTGCATGATAAGTTGCAACGTAGTTTGCGACTTGTTAC
44179092 GACAAAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 41 0.98
48 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (47 bp):
AAAAATTAGTTGCATGATAAGTTGCAACGTAGTTTGCGACTTGTTAC
Found at i:44179163 original size:60 final size:61
Alignment explanation
Indices: 44179041--44179167 Score: 220
Period size: 60 Copynumber: 2.1 Consensus size: 61
44179031 TTGCGACTTG
*
44179041 TTACAAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTACGACAAAGCCA
1 TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTACGACAAAGCCA
* *
44179102 TTACTAAAATTAGTTGCATGGTGAGTTGCAAC-TTGTTTGTGACTTGTTGCGACAAAGCCA
1 TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTACGACAAAGCCA
44179162 TTACTA
1 TTACTA
44179168 TGAGCTGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
60 32 0.51
61 31 0.49
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (61 bp):
TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTACGACAAAGCCA
Found at i:44180672 original size:18 final size:18
Alignment explanation
Indices: 44180645--44180737 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
44180635 TACGACCGTT
44180645 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44180663 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44180681 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44180699 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44180717 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
44180735 TAC
1 TAC
44180738 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:44188538 original size:12 final size:12
Alignment explanation
Indices: 44188521--44188555 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
44188511 TTAATATGTT
44188521 TATACACATATA
1 TATACACATATA
44188533 TATACACATATA
1 TATACACATATA
*
44188545 TATATACATAT
1 TATACACATAT
44188556 GTAAGTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (12 bp):
TATACACATATA
Found at i:44200449 original size:15 final size:16
Alignment explanation
Indices: 44200431--44200473 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44200421 GGCATTTATT
44200431 TTTTTAAAAAAAA-TA
1 TTTTTAAAAAAAACTA
44200446 TTTTTAAATAAAAACTA
1 TTTTTAAA-AAAAACTA
* *
44200463 ATCTTAAAAAA
1 TTTTTAAAAAA
44200474 TTAAATATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 8 0.33
17 8 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTTTAAAAAAAACTA
Found at i:44213549 original size:31 final size:31
Alignment explanation
Indices: 44213485--44213568 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 31
44213475 AAGTTATGGA
* *
44213485 TTTAGTCTTTATA--TTTTAATTTGATCAAT
1 TTTAGTCCTTATACTTTTTAATTTGATCAAG
*
44213514 TTTAGTCCTTATACTTTTTGAA-TTGGTCAAG
1 TTTAGTCCTTATACTTTTT-AATTTGATCAAG
* * *
44213545 TTTAGTCCCTATTCTTTTCAATTT
1 TTTAGTCCTTATACTTTTTAATTT
44213569 TTGAAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 12 0.27
30 2 0.04
31 29 0.64
32 2 0.04
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (31 bp):
TTTAGTCCTTATACTTTTTAATTTGATCAAG
Found at i:44216140 original size:23 final size:22
Alignment explanation
Indices: 44216104--44216146 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
44216094 TATCCCTAAA
44216104 AAATTTTTGAAATAATCTCTGG
1 AAATTTTTGAAATAATCTCTGG
44216126 AAATTTTCTGAAATAATCTCT
1 AAATTTT-TGAAATAATCTCT
44216147 TCAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTTTGAAATAATCTCTGG
Found at i:44222523 original size:43 final size:42
Alignment explanation
Indices: 44222471--44222582 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
44222461 ATATATTGAA
* * *
44222471 GCCACTGTCCCAAACAGGGTCTTACACGA-AA-TCAATTAACGAT
1 GCCAATGTCCCAGACAGGGTCTTACAC-ATAACTCAA-T-ACAAT
* *
44222514 GCCAATGTCCTAGATAGGGTCTTACACATAATCTCAATACAAT
1 GCCAATGTCCCAGACAGGGTCTTACACATAA-CTCAATACAAT
* *
44222557 GCCAATGTCCCAGACATGGCCTTACA
1 GCCAATGTCCCAGACAGGGTCTTACA
44222583 TGTAATCACA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 51 0.89
44 1 0.02
45 4 0.07
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
GCCAATGTCCCAGACAGGGTCTTACACATAACTCAATACAAT
Found at i:44231728 original size:44 final size:43
Alignment explanation
Indices: 44231647--44231779 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 43
44231637 ACATAGGATT
* * * *
44231647 TCGATATGTGATTTCGTGTAAGACCACGTCTGAGACATTGGCA
1 TCGATATGAGATTTCGTGTAAGACTATGTCTGGGACATTGGCA
* * * *
44231690 TCGATTTGAGATTTACGTGTAAGACTATGTTTGGGACATCGACA
1 TCGATATGAGATTT-CGTGTAAGACTATGTCTGGGACATTGGCA
* * *
44231734 TCG-TAT-ATGATTTCGTGTAAGACTCTGTGTGGGACAGTGGCA
1 TCGATATGA-GATTTCGTGTAAGACTATGTCTGGGACATTGGCA
44231776 TCGA
1 TCGA
44231780 CATTTGATTA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
42 28 0.38
43 19 0.26
44 26 0.36
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGAGATTTCGTGTAAGACTATGTCTGGGACATTGGCA
Found at i:44233949 original size:35 final size:35
Alignment explanation
Indices: 44233908--44233998 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
44233898 CATAAGTAAG
*
44233908 TACATGTAAGCTTATATTGAACTTGTA-TATTCGGT
1 TACATGTAAGCTTATATTGAA-TTGTAGTATTCGAT
* * * *
44233943 TGCATGTAAGGTTGTATTGAATTTTAGTATTCGAT
1 TACATGTAAGCTTATATTGAATTGTAGTATTCGAT
44233978 TACATGTGAA-CTTATATTGAA
1 TACATGT-AAGCTTATATTGAA
44233999 AATGTATACT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 4 0.09
35 40 0.87
36 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (35 bp):
TACATGTAAGCTTATATTGAATTGTAGTATTCGAT
Found at i:44238775 original size:59 final size:59
Alignment explanation
Indices: 44238668--44238831 Score: 136
Period size: 59 Copynumber: 2.7 Consensus size: 59
44238658 TTTATTTTTA
* * * * * *
44238668 AATTTAGTACCTAAATTTTTTTTGGCT-AGATTCGATATCTGAACTTGACA-CATTTTCCT
1 AATTTAGTACTTAAATTTTTTTAGGCTCA-ATTTGGTA-CTAAATTTGACAGCATTTTCCT
* **
44238727 AATTTAGTACTTAAATTTTTTTGGGCTCAATTTGGTACATAAATTTGACAGTTTTTTCCT
1 AATTTAGTACTTAAATTTTTTTAGGCTCAATTTGGTAC-TAAATTTGACAGCATTTTCCT
* ** *
44238787 AATTTGGTA-TCTAGGCTTTTTTTAGGTTCAATTTGGTACCTAAAT
1 AATTTAGTACT-TA-AATTTTTTTAGGCTCAATTTGGTA-CTAAAT
44238832 ATACAAATTG
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
59 41 0.48
60 18 0.21
61 25 0.29
62 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.46
Consensus pattern (59 bp):
AATTTAGTACTTAAATTTTTTTAGGCTCAATTTGGTACTAAATTTGACAGCATTTTCCT
Found at i:44239334 original size:30 final size:31
Alignment explanation
Indices: 44239277--44239350 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
44239267 CTCCAAAAGA
* * * *
44239277 TTAAATACCAACTTAATAAAAAGTATCAAGT
1 TTAAGTACCAAATTAATAAAAAATATCAAAT
44239308 TTAAGTACCAAATTAA-AAAAAATATCAAAT
1 TTAAGTACCAAATTAATAAAAAATATCAAAT
*
44239338 TCAAGTACCAAAT
1 TTAAGTACCAAAT
44239351 ATTATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 24 0.63
31 14 0.37
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (31 bp):
TTAAGTACCAAATTAATAAAAAATATCAAAT
Found at i:44249236 original size:23 final size:23
Alignment explanation
Indices: 44249187--44249236 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
44249177 ATTACCTTTT
*
44249187 TATTACTATTGTTATTAACCTAC
1 TATTACTATTGTTATTAACATAC
* * * *
44249210 TATTATTATTTTTATTAATATAG
1 TATTACTATTGTTATTAACATAC
44249233 TATT
1 TATT
44249237 GCTTTCTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTACTATTGTTATTAACATAC
Found at i:44249441 original size:22 final size:21
Alignment explanation
Indices: 44249416--44249456 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44249406 TTATCATCAT
*
44249416 TTACCATTATATTTTTTTATTA
1 TTACCATTAT-TTTTATTATTA
*
44249438 TTACTATTATTTTTATTAT
1 TTACCATTATTTTTATTAT
44249457 CCGTCCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
TTACCATTATTTTTATTATTA
Found at i:44249452 original size:18 final size:16
Alignment explanation
Indices: 44249421--44249456 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
44249411 ATCATTTACC
44249421 ATTATATTTTTTTATT
1 ATTATATTTTTTTATT
44249437 ATTACTATTATTTTTATT
1 ATTA-TATT-TTTTTATT
44249455 AT
1 AT
44249457 CCGTCCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATATTTTTTTATT
Found at i:44256212 original size:133 final size:133
Alignment explanation
Indices: 44255967--44256227 Score: 380
Period size: 133 Copynumber: 2.0 Consensus size: 133
44255957 AACATCGGTG
* * *
44255967 AAATTGCAGATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCTCTAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCCA
* * * * * * * *
44256032 TGTAGTGGCAATGGAGTAGATTTAAGCCACTAGTCTTATTTCCCTGAAGTTGCTGTGGAGCAGAC
66 TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATACCTGAAGTTGCAGTGGAGCAGAC
44256097 TGA
131 TGA
**
44256100 AAATTGCAGATCTTATCTC-CTTAAGCAGTAGTAGAGCAGATTGAAGACCGTAAATCTTATCTCC
1 AAATTGCAGATCTTATCTCTC-TAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCC
*
44256164 ATGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATATCTGAAGTTGCAGTGGAGCAG
65 ATGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATACCTGAAGTTGCAGTGGAGCAG
44256228 GTTCAAGATA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
132 1 0.01
133 112 0.99
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (133 bp):
AAATTGCAGATCTTATCTCTCTAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCCA
TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATACCTGAAGTTGCAGTGGAGCAGAC
TGA
Found at i:44256226 original size:44 final size:44
Alignment explanation
Indices: 44256178--44256268 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 44
44256168 AGTGGCAATA
* * * *
44256178 GAGCAAATTTAAGCCACCAATCTTATATATCTGAAGTTGCAGTG
1 GAGCAAATTCAAGACACAAATCTTATATACCTGAAGTTGCAGTG
** * * *
44256222 GAGCAGGTTCAAGATACAAATCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAAATTCAAGACACAAATCTTATATACCTGAAGTTGCAGTG
44256266 GAG
1 GAG
44256269 TAGACTAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
GAGCAAATTCAAGACACAAATCTTATATACCTGAAGTTGCAGTG
Found at i:44256339 original size:177 final size:176
Alignment explanation
Indices: 44256065--44256580 Score: 737
Period size: 177 Copynumber: 2.9 Consensus size: 176
44256055 AAGCCACTAG
* *
44256065 TCTTATTTCCCTGAAGTTGCTGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTA
* * *
44256130 GTAGAGCAGATTGAAGACCGTAAATCTTATCTCCATGTAGTGGCAATAGAGCAAATTTAAGCCAC
66 GTAGAGCAGATCGAAGA-CGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCAC
* **
44256195 CAATCTTATATATCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAA
130 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAA
* * * * * *
44256242 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAATTACAGATCTCATCTTCTTAAGTAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTA
* * * * * * *
44256307 GTGGAGTAGATCGAAGACGACAAATTTTATCTCCATGTAGCGACAATGGAACAGATTTAAGCCAC
66 GTAGAGCAGATCGAAGACG-CAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCAC
* *
44256372 C-ATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAG
130 CAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAA
* * *
44256419 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTA
*
44256484 GTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCAC
66 GTAGAGCAGATCGAAG-ACGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCAC
*
44256549 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
130 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
44256581 AACTGAAAAT
Statistics
Matches: 293, Mismatches: 42, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
176 4 0.01
177 286 0.98
178 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTA
GTAGAGCAGATCGAAGACGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACC
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAA
Found at i:44256424 original size:44 final size:45
Alignment explanation
Indices: 44256376--44256920 Score: 157
Period size: 44 Copynumber: 12.3 Consensus size: 45
44256366 AGCCACCATC
* * *
44256376 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGA-TACAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
* * *
44256420 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTGCAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
** * * **
44256465 CTTATCTCCCT-AAGCAGTAGTAGAGCAGA-TCGAAGAA-GGCAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTC-AA-AATTACAAAT
* ** * * * * *** * *
44256509 CTTATCTCCATGTAGTGGCAATAGAGCAGATT-TAAGCCACCAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
* * * * *
44256553 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
**** * * * ***
44256598 CTTATCTCCCT-AAGCAATAGTGAAGTAGA-TCGAATACGGCAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTC-AAAATTACAAAT
* ** * * * * * *
44256642 CTTATCTCCATGTAG-CGAAAATGGAGCAGATTTAAGCCA-T-C-AGT
1 CTTATCTCCCTAAAGTTG-CAGTGGAGCAGATTCAA--AATTACAAAT
* * * * * *
44256686 CTTATCTTCCTAAAGTTGCAGTGAAGCAGGTTTAAGA-TACAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
* * * * *
44256730 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
* * * * * **
44256775 CTTATCT-CCTTAAGTAGTAGTGGAGCAGA-CCGAAGACGACAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTC-AAAATTACAAAT
** * ** * * * *** ***
44256819 CTTATCTCTATATAGCAGCAATGGAGTAGATT-TAAGCCACCGGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
* * * *
44256863 CTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACAGAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
*
44256908 CTTATCTCTCTAA
1 CTTATCTCCCTAA
44256921 GTAGTAGTAA
Statistics
Matches: 355, Mismatches: 125, Indels: 41
0.68 0.24 0.08
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 242 0.68
45 104 0.29
46 2 0.01
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAAATTACAAAT
Found at i:44256513 original size:133 final size:133
Alignment explanation
Indices: 44256376--44256713 Score: 374
Period size: 133 Copynumber: 2.5 Consensus size: 133
44256366 AGCCACCATC
* * * * * *
44256376 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCATAAAGTGGCAATAGAGCAGATTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
44256441 TGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT-AGAGCAGATCGAAGAAGGC
66 TGGAGCAAACTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGA-AGCAGATCGAAGAAGGC
44256505 AAAT
130 AAAT
** * * *
44256509 CTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCATAAAGTGGCAATAGAGCAGATTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
44256574 TGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGAAGTAGATCGAATACGGCA
66 TGGAGCAAACTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGAAGGCA
44256639 AAT
131 AAT
** * ** * * * * *
44256642 CTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGCCATC-AGTCTTATCTTCCTAAAGTTGCA
1 CTTATCTCCATAAAGTGGCAATAGAGCAGATTCAAGACA-CAAGTCTTATCTCCCTGAAGTTGCA
*
44256706 GTGAAGCA
65 GTGGAGCA
44256714 GGTTTAAGAT
Statistics
Matches: 177, Mismatches: 26, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
133 175 0.99
134 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (133 bp):
CTTATCTCCATAAAGTGGCAATAGAGCAGATTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAAACTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGAAGGCA
AAT
Found at i:44256558 original size:310 final size:309
Alignment explanation
Indices: 44256242--44257190 Score: 1292
Period size: 310 Copynumber: 3.1 Consensus size: 309
44256232 AAGATACAAA
* * *
44256242 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAATTACAGATCTCATCTTCTTAAGTAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
* * *
44256307 GTGGAGTAGATCGAAGACGACAAATTTTATCTCCATGTAGCGACAATGGAACAGATTTAAGCCAC
66 GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
44256372 CATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
131 CATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
*
44256437 GCAGTGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGAA
196 GCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGAAGAA
* * * *
44256502 GGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAG
260 GGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* * * * *
44256552 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
* * * *
44256617 GTGAAGTAGATCGAATACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGCCAT
66 GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
* * *
44256682 CAGT-CTTATCTTCCTAAAGTTGCAGTGAAGCAGGTTTAAGATACAAGTCTTATCTCCCTGAAGT
131 CA-TCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGT
* * * *
44256746 TGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGACCGAAGA
195 TGCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGAAGA
* * * * *
44256811 CGACAAATCTTATCTCTATATAGCAGCAATGGAGTAGATTTAAGCCACCGG
259 AGGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* *
44256862 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACAGATCTTATC-TCTCTAAGTAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCT-TAAGTAGT
* * * * * * * * *
44256926 AGTAAAGTAGATCGAGGGC-AGCGAATCTTATCTCTATGTAGCGGCAATAGAGCTGATTTAAGCT
65 AGTGAAGTAGATCGAAGACGA-CAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCC
* ** * *
44256990 ACCAGCCTTATCTCTTTAAAGTTGCAGTGGAGCAGGTTCAATATACAAGTCTTATCTCCTTGAAG
129 ACCATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAG
* * ** * *
44257055 TTGCAGTGGAGCAAACTGAAGATAACGAATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAT
194 TTGCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTG-AGCAGATCGAAG
* *
44257120 ATGGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGTCACCAG
258 AAGGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* *
44257172 ATCTTATTTCCTTGAAGTT
1 -TCTTATCTCCCTGAAGTT
44257191 ACAGCGGAAT
Statistics
Matches: 553, Mismatches: 80, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
309 2 0.00
310 535 0.97
311 16 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (309 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
CATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTGAGCAGATCGAAGAAG
GCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
Found at i:44256642 original size:177 final size:177
Alignment explanation
Indices: 44256065--44256826 Score: 625
Period size: 177 Copynumber: 4.3 Consensus size: 177
44256055 AAGCCACTAG
* * * * *
44256065 TCTTATTTCCCTGAAGTTGCTGTGGAGCAGA-CTGAAAATTG-CAGATCTTATCTCCTTAAGCAG
1 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATC-GAAAA-CGACAAATCTTATCTCCTTAAGCAG
* ** * *
44256128 TAGTAGAGCAGATTGAAGACCGTAAATCTTATCTCCATGTAGTGGCAATAGAGCAAATTTAAGCC
64 TAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCC
* * ** ** * *
44256193 ACCAATCTTATATATCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAA
129 ACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAAATACAGA
* * * ** * * * *
44256242 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTAAAAATTACAGATCTCATCTTCTTAAGTAGT
1 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATC-GAAAACGACAAATCTTATCTCCTTAAGCAGT
* * * * * * * * *
44256306 AGTGGAGTAGATCGAAGACGACAAATTTTATCTCCATGTAGCGACAATGGAACAGATTTAAGCCA
65 AGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCA
* ** *
44256371 CCA-TCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACA-A
130 CCAGT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAAATACAGA
* * * *
44256418 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTG-CAAATCTTATCTCCCTAAGCAG
1 -TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAA-CGACAAATCTTATCTCCTTAAGCAG
44256482 TAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCC
64 TAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCC
* *
44256547 ACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGA
129 ACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAAA-TACAGA
* ** * * * *
44256597 TCTTATCTCCCT-AAGCAATAGTGAAGTAGATCGAATACGGCAAATCTTATCTCCATGT-AGC-G
1 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAACGACAAATCTTATCTCC-T-TAAGCAG
* * * ** * * * ** * * *
44256659 AAAATGGAGCAGATTTAAGCCA-TC-AGTCTTATCTTCC-TAAAGTTGCAGT-GAAGCAGGTTTA
64 -TAGTAGAGCAGATCGAAG-AAGGCAAATCTTATC-TCCATGTAGTGGCAATAG-AGCAGATTTA
** * * *
44256720 AGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGA
125 AGCCACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAAA-TACAGA
* * * *
44256774 TCTTATCT-CCTTAAGTAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTC
1 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAACGACAAATCTTATCTC
44256827 TATATAGCAG
Statistics
Matches: 486, Mismatches: 83, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
176 8 0.02
177 437 0.90
178 38 0.08
179 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAACGACAAATCTTATCTCCTTAAGCAGTA
GTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCAC
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAAATACAGA
Found at i:44256777 original size:133 final size:132
Alignment explanation
Indices: 44256417--44256783 Score: 434
Period size: 133 Copynumber: 2.8 Consensus size: 132
44256407 TCAAGATACA
* *
44256417 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTACAAGTCTTATCTCCCTAAGCAG
* * **
44256482 TAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCC
66 TAGTGGAGCAGATCGAA-AAGGCAAATCTTATCTCCATGTAGCGAAAATAGAGCAGATTTAAGCC
44256547 ACC
130 ACC
* *
44256550 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTAC-AGATCTTATCTCCCTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTACAAG-TCTTATCTCCCTAAGCA
* * * * *
44256614 ATAGTGAAGTAGATCGAATACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGC
65 GTAGTGGAGCAGATCGAA-AAGGCAAATCTTATCTCCATGTAGCGAAAATAGAGCAGATTTAAGC
*
44256679 CATC
129 CACC
* * * * * * **
44256683 AGTCTTATCTTCCTAAAGTTGCAGTGAAGCAGGTTTAAGA-TACAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTACAAGTCTTATCTCCCT-AAGCA
* * *
44256747 GCAGTGGAGCAGA-CTGAAAATTGCAGATCTTATCTCC
65 GTAGTGGAGCAGATC-GAAAA-GGCAAATCTTATCTCC
44256784 TTAAGTAGTA
Statistics
Matches: 197, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
132 18 0.09
133 179 0.91
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (132 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTACAAGTCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAAAGGCAAATCTTATCTCCATGTAGCGAAAATAGAGCAGATTTAAGCCA
CC
Found at i:44256822 original size:133 final size:133
Alignment explanation
Indices: 44256707--44257024 Score: 347
Period size: 133 Copynumber: 2.4 Consensus size: 133
44256697 AAAGTTGCAG
* * * * *
44256707 TGAAGCAGGTTTAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCA
1 TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACA
44256772 GATCTTATCTC-CTTAAGTAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTCTATATAGCA
66 GATCTTATCTCTC-TAAGTAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTCTATATAGCA
44256836 GCAA
130 GCAA
* * * **
44256840 TGGAGTAGATTTAAGCCACCGGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACA
1 TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACA
** * * * * * * *
44256905 GATCTTATCTCTCTAAGTAGTAGTAAAGTAGATCGAGGGC-AGCGAATCTTATCTCTATGTAGCG
66 GATCTTATCTCTCTAAGTAGTAGTGGAGCAGACCGAAGACGA-CAAATCTTATCTCTATATAGCA
44256969 GCAA
130 GCAA
* * * ** *
44256973 T-AGAGCTGATTTAAG-CTACCAGCCTTATCTCTTTAAAGTTGCAGTGGAGCAG
1 TGA-AGCAGATTTAAGAC-ACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAG
44257025 GTTCAATATA
Statistics
Matches: 154, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
132 2 0.01
133 151 0.98
134 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (133 bp):
TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAAATTACA
GATCTTATCTCTCTAAGTAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTCTATATAGCAG
CAA
Found at i:44256844 original size:177 final size:177
Alignment explanation
Indices: 44256550--44256891 Score: 515
Period size: 177 Copynumber: 1.9 Consensus size: 177
44256540 TTAAGCCACC
44256550 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAA
* * * * *
44256615 TAGTGAAGTAGATCGAATACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGCC
66 TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGAAAATGGAGCAGATTTAAGCC
* *
44256680 ATCAGTCTTATCTTCCTAAAGTTGCAGTGAAGCAGGTTTAAGATACA
131 ACCAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTTAAGATACA
* * * * *
44256727 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGTAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAA
* * * *
44256792 TAGTGGAGCAGACCGAAGACGACAAATCTTATCTCTATATAGC-AGCAATGGAGTAGATTTAAGC
66 TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGA-AAATGGAGCAGATTTAAGC
*
44256856 CACCGGTCTTATCTCCCTAAAGTTGCAGTGAAGCAG
130 CACCAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAG
44256892 ACTGAAAATT
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.01
177 146 0.99
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (177 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAA
TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGAAAATGGAGCAGATTTAAGCC
ACCAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTTAAGATACA
Done.