Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 81 of 129
Found at i:12954791 original size:30 final size:29
Alignment explanation
Indices: 12954698--12954792 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
12954688 TATTAGGAGT
* * *
12954698 TTATTTAAGTATAAATAAAAA-ATAAAATT
1 TTATTTAAGTACAAATAAAAATTTAAAA-A
* ** * *
12954727 TTATTTAAATACAAATTTAAATTTATAGAC
1 TTATTTAAGTACAAATAAAAATTTA-AAAA
12954757 TTATTTAAGTACAAAATAAAAATTTAAAAA
1 TTATTTAAGTAC-AAATAAAAATTTAAAAA
12954787 TTATTT
1 TTATTT
12954793 GAATGTAATA
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
29 17 0.33
30 21 0.41
31 13 0.25
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
TTATTTAAGTACAAATAAAAATTTAAAAA
Found at i:12954985 original size:31 final size:31
Alignment explanation
Indices: 12954950--12955010 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
12954940 ATCTCTGAAT
*
12954950 TTAATCATTTAATTA-AATTATAATTTATTAA
1 TTAATCATTTAA-TAGAATAATAATTTATTAA
* *
12954981 TTAATTATTTAATAGTATAATAATTTATTA
1 TTAATCATTTAATAGAATAATAATTTATTA
12955011 TATAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
TTAATCATTTAATAGAATAATAATTTATTAA
Found at i:12955022 original size:21 final size:21
Alignment explanation
Indices: 12954978--12955040 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
12954968 TATAATTTAT
* *
12954978 TAATTAATTATTTAATAGTATAA
1 TAATTTATTATATAA-A-TATAA
12955001 TAATTTATTATATAAATATAA
1 TAATTTATTATATAAATATAA
* *
12955022 T-ACTTAAT-TATAAATATAA
1 TAATTTATTATATAAATATAA
12955041 ATATAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 6 0.17
22 1 0.03
23 13 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATTTATTATATAAATATAA
Found at i:12955076 original size:17 final size:18
Alignment explanation
Indices: 12955057--12955104 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
12955047 ATAATATATA
12955057 TTTATAAATTAT-TTTAAT
1 TTTAT-AATTATATTTAAT
*
12955075 TTTATTATTATATTTAAT
1 TTTATAATTATATTTAAT
*
12955093 TTTATCATTATA
1 TTTATAATTATA
12955105 ATAATTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATAATTATATTTAAT
Found at i:12955090 original size:18 final size:18
Alignment explanation
Indices: 12955064--12955104 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12955054 ATATTTATAA
*
12955064 ATTAT-TTTAATTTTATT
1 ATTATATTTAATTTTATC
12955081 ATTATATTTAATTTTATC
1 ATTATATTTAATTTTATC
12955099 ATTATA
1 ATTATA
12955105 ATAATTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTATATTTAATTTTATC
Found at i:12957393 original size:60 final size:60
Alignment explanation
Indices: 12957300--12957421 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
12957290 CAATGTGCCA
* * * *
12957300 CAGATGCATTACCCTTCTCAGCTTTTGATAAGGTTGAAAAAGTGTTTTCATGAACGTTAT
1 CAGATGCATTACCCTTCTCAGCATTTGATAAGGTTGAAAAAGTGCTTCCATGAACATTAT
*
12957360 CAGATGCATTACCCTTCTCAGCATTTGATAAGGTTGACAAAGTGCTTCCATGAACATTAT
1 CAGATGCATTACCCTTCTCAGCATTTGATAAGGTTGAAAAAGTGCTTCCATGAACATTAT
12957420 CA
1 CA
12957422 CGAGCAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (60 bp):
CAGATGCATTACCCTTCTCAGCATTTGATAAGGTTGAAAAAGTGCTTCCATGAACATTAT
Found at i:12959954 original size:2 final size:2
Alignment explanation
Indices: 12959947--12959988 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12959937 TTTATAGGGT
12959947 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12959989 CTTCAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12961426 original size:6 final size:6
Alignment explanation
Indices: 12961399--12961453 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
12961389 TTTTCTAATT
*
12961399 AAAAAG AAAAA- ATAAAG AAAAAAG AAAAAG AAAAGATG AAAAAG CAAAAAG
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAA-A-G AAAAAG -AAAAAG
12961450 AAAA
1 AAAA
12961454 GACGTGGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
5 4 0.10
6 20 0.48
7 13 0.31
8 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:12961441 original size:14 final size:13
Alignment explanation
Indices: 12961399--12961453 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
12961389 TTTTCTAATT
12961399 AAAAAG-AAAAA-
1 AAAAAGAAAAAAG
*
12961410 ATAAAGAAAAAAG
1 AAAAAGAAAAAAG
*
12961423 AAAAAGAAAAGATG
1 AAAAAGAAAA-AAG
*
12961437 AAAAAGCAAAAAG
1 AAAAAGAAAAAAG
12961450 AAAA
1 AAAA
12961454 GACGTGGCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 15 0.42
14 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:12961441 original size:21 final size:19
Alignment explanation
Indices: 12961399--12961455 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 19
12961389 TTTTCTAATT
12961399 AAAAAGAAAAA-ATAAAGA-
1 AAAAAGAAAAAGA-AAAGAG
12961417 AAAAAGAAAAAGAAAAGATG
1 AAAAAGAAAAAGAAAAGA-G
12961437 AAAAAGCAAAAAGAAAAGA
1 AAAAAG-AAAAAGAAAAGA
12961456 CGTGGCATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
20 6 0.17
21 12 0.34
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAGAG
Found at i:12961527 original size:22 final size:20
Alignment explanation
Indices: 12961491--12961537 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
12961481 GATCTCATAA
12961491 AAAAAGAAATTTAAAA-TCT
1 AAAAAGAAATTTAAAACTCT
*
12961510 AAAAAGAATATTTATAAAACTGT
1 AAAAAGAA-A-TT-TAAAACTCT
12961533 AAAAA
1 AAAAA
12961538 AGAACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 2 0.09
22 5 0.22
23 7 0.30
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (20 bp):
AAAAAGAAATTTAAAACTCT
Found at i:12964073 original size:298 final size:297
Alignment explanation
Indices: 12963136--12964328 Score: 2233
Period size: 297 Copynumber: 4.0 Consensus size: 297
12963126 AATAACTACG
* *
12963136 ACTCTTGGAATTAAATTTCCAAGGAAATTCAACTACAATAGGTCTATTACTGCCCACAGGAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
*
12963201 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTATTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
*
12963266 CAATACCAGGCCTTTATGTACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
131 CAATACCAGGCCTTGA--TACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
12963331 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
194 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
12963396 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
259 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
*
12963435 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGGAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
*
12963500 CAGATGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
*
12963565 CAATACCAGGGCTTGATACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTG
131 CAATACCAGGCCTTGATACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTG
12963630 GCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGT
196 GCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGT
12963695 GATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
261 GATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
*
12963732 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTGTTACTGCCCACAGAAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
*
12963797 CAGACGGGATATGGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
12963862 CAATACCAGGCCTTGATACTTTGATCAGAAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCT
131 CAATACCAGGCCTTGATACTTTGATCAG-AAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCT
12963927 GGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTG
195 GGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTG
*
12963992 TGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTAA
260 TGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
12964030 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
* *
12964095 CAGACGGTATATGGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
*
12964160 CAATACCAGGGCTTGATACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTG
131 CAATACCAGGCCTTGATACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTG
12964225 GCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGT
196 GCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGT
*
12964290 GATGTTTAGTCCCTCTACCCCACTTTTAATGAATTTA
261 GATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
12964327 AC
1 AC
12964329 CCGTAGACTT
Statistics
Matches: 877, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
297 443 0.51
298 293 0.33
299 141 0.16
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (297 bp):
ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
CAATACCAGGCCTTGATACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTG
GCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGT
GATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTA
Found at i:12964268 original size:595 final size:595
Alignment explanation
Indices: 12963136--12964328 Score: 2253
Period size: 595 Copynumber: 2.0 Consensus size: 595
12963126 AATAACTACG
* *
12963136 ACTCTTGGAATTAAATTTCCAAGGAAATTCAACTACAATAGGTCTATTACTGCCCACAGGAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
*
12963201 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTATTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
*
12963266 CAATACCAGGCCTTTATGTACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
131 CAATACCAGGCCTTGA-GTACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
12963331 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
195 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
*
12963396 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTTAACTCTTGGAATTAAATTTCCAAGGAA
260 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTAAACTCTTGGAATTAAATTTCCAAGGAA
* *
12963461 ACTCAACTACAATAGGTCTATTACTGCCCACAGGAAAGTCAGATGGGATATAGTAAGAAGACATT
325 ACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGTCAGACGGGATATAGTAAGAAGACATT
12963526 AGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACACAATACCAGGGCTTGATACTTTGATC
390 AGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACACAATACCAGGGCTTGATACTTTGATC
12963591 AGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTGGCAAAGAATTTTGAGCATAAAGAAAG
455 AGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTGGCAAAGAATTTTGAGCATAAAGAAAG
12963656 CATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGTGATGTTTAGTCCCTCTACCCCAATTT
520 CATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGTGATGTTTAGTCCCTCTACCCCAATTT
12963721 TAATGAATTTA
585 TAATGAATTTA
*
12963732 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTGTTACTGCCCACAGAAAAGT
1 ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
*
12963797 CAGACGGGATATGGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
66 CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
12963862 CAATACCAGGCCTTGA-TACTTTGATCAGAAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
131 CAATACCAGGCCTTGAGTACTTTGATCAG-AAAAAAAAAATGTTATGAGATCCCGGTAACAAGTC
12963926 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
195 TGGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATT
12963991 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTAAACTCTTGGAATTAAATTTCCAAGGAA
260 GTGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTAAACTCTTGGAATTAAATTTCCAAGGAA
* *
12964056 ACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGTCAGACGGTATATGGTAAGAAGACATT
325 ACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGTCAGACGGGATATAGTAAGAAGACATT
12964121 AGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACACAATACCAGGGCTTGATACTTTGATC
390 AGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACACAATACCAGGGCTTGATACTTTGATC
12964186 AGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTGGCAAAGAATTTTGAGCATAAAGAAAG
455 AGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTGGCAAAGAATTTTGAGCATAAAGAAAG
*
12964251 CATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGTGATGTTTAGTCCCTCTACCCCACTTT
520 CATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGTGATGTTTAGTCCCTCTACCCCAATTT
12964316 TAATGAATTTA
585 TAATGAATTTA
12964327 AC
1 AC
12964329 CCGTAGACTT
Statistics
Matches: 584, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
594 12 0.02
595 432 0.74
596 140 0.24
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (595 bp):
ACTCTTGGAATTAAATTTCCAAGGAAACTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGT
CAGACGGGATATAGTAAGAAGACATTAGCGAATAACTCCCAGGACAGATGAATTCTTTACTTACA
CAATACCAGGCCTTGAGTACTTTGATCAGAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCT
GGCAAAGAATTTTGAGCATAAAGAAAGCATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTG
TGATGTTTAGTCCCTCTACCCCAATTTTAATGAATTAAACTCTTGGAATTAAATTTCCAAGGAAA
CTCAACTACAATAGGTCTATTACTGCCCACAGAAAAGTCAGACGGGATATAGTAAGAAGACATTA
GCGAATAACTCCCAGGACAGATGAATTCTTTACTTACACAATACCAGGGCTTGATACTTTGATCA
GAAAAAAAAAATGTTATGAGATCCCGGTAACAAGTCTGGCAAAGAATTTTGAGCATAAAGAAAGC
ATCAAAGTTTTTAAATTTAGTCCTATTATCTCAATTGTGATGTTTAGTCCCTCTACCCCAATTTT
AATGAATTTA
Found at i:12972977 original size:3 final size:3
Alignment explanation
Indices: 12972963--12973010 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
12972953 CTCCCTTCTC
* * * *
12972963 TTA TTT TTA TTA TTA ATA TTA TTA TTA TTA TTA TT- TTA ATA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12973010 T
1 T
12973011 GTAGTTTGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12973572 original size:26 final size:25
Alignment explanation
Indices: 12973509--12973593 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 25
12973499 ATCTGACTCG
*
12973509 ATATTATATAAAATTTATTTTTTAAT
1 ATATT-TATATAATTTATTTTTTAAT
* *
12973535 -TAATTATTTAATTT-TTTATTTATAT
1 ATATTTATATAATTTATTT-TTTA-AT
*
12973560 ATATTTATATAA-TGATATTTTTAA-
1 ATATTTATATAATTTAT-TTTTTAAT
12973584 ATATTTATAT
1 ATATTTATAT
12973594 TTAAAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
23 3 0.06
24 22 0.46
25 7 0.15
26 14 0.29
27 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
ATATTTATATAATTTATTTTTTAAT
Found at i:12973613 original size:21 final size:22
Alignment explanation
Indices: 12973583--12973634 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
12973573 GATATTTTTA
12973583 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
12973603 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
12973625 AATATTTTAT
1 AATATTTTAT
12973635 TAATTCGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:12974625 original size:20 final size:18
Alignment explanation
Indices: 12974600--12974639 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
12974590 TGAATCGAAT
12974600 TATATTTTTATTAATTTTTA
1 TATATTTTTA--AATTTTTA
12974620 TATATTTTTAAATTTTTA
1 TATATTTTTAAATTTTTA
12974638 TA
1 TA
12974640 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATTTTTAAATTTTTA
Found at i:12974636 original size:8 final size:9
Alignment explanation
Indices: 12974599--12974640 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
12974589 CTGAATCGAA
12974599 TTAT-ATTT
1 TTATAATTT
12974607 TTATTAATTT
1 TTA-TAATTT
12974617 TTATATATTT
1 TTATA-ATTT
12974627 TTA-AATTT
1 TTATAATTT
12974635 TTATAA
1 TTATAA
12974641 AATAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 10 0.33
9 6 0.20
10 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATAATTT
Found at i:12975274 original size:34 final size:36
Alignment explanation
Indices: 12975221--12975287 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
12975211 AGTAATGAAA
* *
12975221 AAAATATTTTAATAATTTAATATGTAAT-TAATTTT
1 AAAATATGTTAATAATTTAATAGGTAATCTAATTTT
12975256 AAAATATGTTAA-AATTTAATAGGTAATCTAAT
1 AAAATATGTTAATAATTTAATAGGTAATCTAAT
12975288 AAGAGCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAATATGTTAATAATTTAATAGGTAATCTAATTTT
Found at i:12975886 original size:128 final size:128
Alignment explanation
Indices: 12975688--12976002 Score: 356
Period size: 128 Copynumber: 2.5 Consensus size: 128
12975678 TTAATGTATG
* * * * * *
12975688 TTAT-TTAACATTTAATA-AGTAATTCAATAGA-GCTATTATATTAAATTTCAAACAAAATACCA
1 TTATGTTAAAATTTAATATA-TAATTTAATAAATG-TATTATAAT-AATTTTAAATAAAATACCA
* * * * *
12975750 CATGTCAAATTTTTATGAAA-CAATGGTAA-AGGTATTTTAGTAATTTAATATGT-AGTTAATTT
63 CATATCAAACTTTTAT-AAATCAATGGTAATA-ATATTTTAATAATTTAATATATGA-TTAATTT
*
12975812 TATA
125 TACA
* * * *
12975816 TTATGTTAAAATTTCATATGTAATTTAGT-AATGGTATTATAATAATTTTAAATAAAATATCACA
1 TTATGTTAAAATTTAATATATAATTTAATAAAT-GTATTATAATAATTTTAAATAAAATACCACA
*
12975880 TATCAAACTTTTATAAATCAATTGTAATAATATTTTAATAATTTAATATATGATTAATTTTACA
65 TATCAAACTTTTATAAATCAATGGTAATAATATTTTAATAATTTAATATATGATTAATTTTACA
12975944 TTATGTTAAAATTTAATATATAATTTAATAAATGTATTATAATAATTTTGAAATAAAAT
1 TTATGTTAAAATTTAATATATAATTTAATAAATGTATTATAATAATTTT-AAATAAAAT
12976003 GTCAAATGTG
Statistics
Matches: 158, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
127 3 0.02
128 114 0.72
129 40 0.25
130 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (128 bp):
TTATGTTAAAATTTAATATATAATTTAATAAATGTATTATAATAATTTTAAATAAAATACCACAT
ATCAAACTTTTATAAATCAATGGTAATAATATTTTAATAATTTAATATATGATTAATTTTACA
Found at i:12975989 original size:68 final size:66
Alignment explanation
Indices: 12975781--12975991 Score: 170
Period size: 68 Copynumber: 3.2 Consensus size: 66
12975771 AATGGTAAAG
* * * * * * *
12975781 GTATTTTAGTAATTTAATATGTAGTTAATTTTATATTATGTTAAAATTTCATATGTAATTTAGTA
1 GTATTATAATAATTTAATATATA-TTAATTTTACATTATGTTAAAATTTAATATATAATTTAATA
12975846 AT
65 AT
* * * * * *
12975848 GGTATTATAATAATTTTAA-ATA-A--AATATCACA-TA--TCAAACTTTTATAAATCAATTGTA
1 -GTATTATAATAA-TTTAATATATATTAATTTTACATTATGTTAAAATTTAATATAT-AATT-TA
12975906 ATAA-
62 ATAAT
*
12975910 -TATTTTAATAATTTAATATATGATTAATTTTACATTATGTTAAAATTTAATATATAATTTAATA
1 GTATTATAATAATTTAATATAT-ATTAATTTTACATTATGTTAAAATTTAATATATAATTTAAT-
12975974 AAT
64 AAT
12975977 GTATTATAATAATTT
1 GTATTATAATAATTT
12975992 TGAAATAAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
59 5 0.05
60 13 0.12
61 11 0.10
62 5 0.05
63 7 0.06
64 13 0.12
65 6 0.06
66 6 0.06
67 13 0.12
68 25 0.23
69 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (66 bp):
GTATTATAATAATTTAATATATATTAATTTTACATTATGTTAAAATTTAATATATAATTTAATAA
T
Found at i:12978896 original size:16 final size:16
Alignment explanation
Indices: 12978839--12978896 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
12978829 TAATCTGATA
* *
12978839 ATAAAAAAAACTAAAG
1 ATAAATAAAATTAAAG
* * *
12978855 ATAAATCAAATAAAAA
1 ATAAATAAAATTAAAG
12978871 ATGAAA-AAAATTAAAG
1 AT-AAATAAAATTAAAG
12978887 ATAAATAAAA
1 ATAAATAAAA
12978897 AAATAGATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 3 0.09
16 26 0.81
17 3 0.09
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.17
Consensus pattern (16 bp):
ATAAATAAAATTAAAG
Found at i:12979295 original size:41 final size:44
Alignment explanation
Indices: 12979199--12979415 Score: 193
Period size: 43 Copynumber: 5.1 Consensus size: 44
12979189 CATAACACTT
* * *
12979199 CTCTAAGCAAAGGCTC-ACAATTTTTGAAAAAATAAATACGGCTC
1 CTCTAAACAAAGGTTCAACAA-CTTTGAAAAAATAAATACGGCTC
*
12979243 CTCTAAACAAAGGTTCAACGACTTTGAAAAAAT-AA-A-GGCTC
1 CTCTAAACAAAGGTTCAACAACTTTGAAAAAATAAATACGGCTC
* *
12979284 CTCTAATCAAAGGTTCAACAACTTTGAAAATTGAATAAA-AC--TTC
1 CTCTAAACAAAGGTTCAACAACTTTGAAAA---AATAAATACGGCTC
* * **
12979328 C-CTAAACAAAAGCTCAACAACTTT-AAAAAATAAATAAAGCTC
1 CTCTAAACAAAGGTTCAACAACTTTGAAAAAATAAATACGGCTC
* * * **
12979370 CTCTAAACAGAGGCTCAACAACTTAG-AAAAATAAATAAAGCTC
1 CTCTAAACAAAGGTTCAACAACTTTGAAAAAATAAATACGGCTC
12979413 CTC
1 CTC
12979416 GATAATCTTG
Statistics
Matches: 147, Mismatches: 15, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
39 6 0.04
40 1 0.01
41 33 0.22
42 8 0.05
43 62 0.42
44 31 0.21
45 6 0.04
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.23
Consensus pattern (44 bp):
CTCTAAACAAAGGTTCAACAACTTTGAAAAAATAAATACGGCTC
Found at i:12980104 original size:22 final size:22
Alignment explanation
Indices: 12980070--12980127 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12980060 TTTCTCATTC
*
12980070 AAAGGTTCTCATTCACAAA-TTT
1 AAAGATTCTCATTCA-AAAGTTT
*
12980092 AAAGATTCACATTCAAAAGTTT
1 AAAGATTCTCATTCAAAAGTTT
*
12980114 AAAGCTTCTCATTC
1 AAAGATTCTCATTC
12980128 TAGTTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (22 bp):
AAAGATTCTCATTCAAAAGTTT
Found at i:12980216 original size:22 final size:22
Alignment explanation
Indices: 12980170--12980231 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
12980160 GGTTTCACAT
*
12980170 CTTAAATATT-TTCATTTG-AAA
1 CTTAAAAATTCTT-ATTTGAAAA
*
12980191 CTTAAAGATTCTTATTTGAAAA
1 CTTAAAAATTCTTATTTGAAAA
12980213 CTTAAAAATTCTTATTTGA
1 CTTAAAAATTCTTATTTGA
12980232 TACCAAAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 14 0.38
22 23 0.62
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (22 bp):
CTTAAAAATTCTTATTTGAAAA
Found at i:12980260 original size:22 final size:21
Alignment explanation
Indices: 12980177--12980268 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 21
12980167 CATCTTAAAT
* * *
12980177 ATTTTCATTTGAAACTTAAAG
1 ATTTTCATTTAAAACTCAAAA
*
12980198 ATTCTT-ATTTGAAAACTTAAAA
1 ATT-TTCATTT-AAAACTCAAAA
* * *
12980220 ATTCTT-ATTTGATAC-CAAAG
1 ATT-TTCATTTAAAACTCAAAA
12980240 ATTTTCATTTAAAAACTCAAAA
1 ATTTTCATTT-AAAACTCAAAA
12980262 ATTTTCA
1 ATTTTCA
12980269 AAGATTCTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.04
20 10 0.18
21 13 0.23
22 32 0.56
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTTTCATTTAAAACTCAAAA
Found at i:12980273 original size:32 final size:32
Alignment explanation
Indices: 12980235--12980298 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
12980225 TATTTGATAC
*
12980235 CAAAGATTTTCATTTAAAAACTCAAAAATTTT
1 CAAAGATTCTCATTTAAAAACTCAAAAATTTT
* *
12980267 CAAAGATTCTCATTTGAAAACTCAAAGATTTT
1 CAAAGATTCTCATTTAAAAACTCAAAAATTTT
12980299 TATTTGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (32 bp):
CAAAGATTCTCATTTAAAAACTCAAAAATTTT
Found at i:12980273 original size:74 final size:76
Alignment explanation
Indices: 12980194--12980611 Score: 273
Period size: 66 Copynumber: 5.8 Consensus size: 76
12980184 TTTGAAACTT
* * * *
12980194 AAAGATTCTTATTTGAAAACTTAAAAATTCTTATTTG-ATAC-CAAAGATTTTCATTTAAAAACT
1 AAAGATTCTCATTTGAAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTAAAAACT
12980257 CAAAAATTTTC
66 CAAAAATTTTC
* * * *
12980268 AAAGATTCTCATTTGAAAACTCAAAGATTTTTATTTGAAAACTCAAATATTCTCATTTGAAAA--
1 AAAGATTCTCATTTGAAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTAAAAACT
12980331 C--------TC
66 CAAAAATTTTC
* * * * *
12980334 AAAGATTCTCATTTGAAAAACTCAAAGATTATCATTTGAAAACTC--A-A-TCTGAAATTCAAAG
1 AAAGATTCTCATTTG-AAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCT--CATTTAAA-
* * *
12980395 ATTCTCATTTGAAA-TCTC
62 A-ACTCA---AAAATTTTC
* * * * *
12980413 AAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAATCT
1 AAAGATTCTCATTTGAAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTAAAAACT
12980478 CAAAAA---T-
66 CAAAAATTTTC
* * *
12980485 -----TT-TCATTTGAAAACTAAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTT-GAAATT
1 AAAGATTCTCATTTGAAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTAAAAACT
* *
12980543 CAAAGATTCTC
66 CAAAAATTTTC
* * * * *
12980554 AAAGATTCTTATTTAAAAACT-AAAATATTCTCATTTGAAATCTCAAAGATTCTTATTT
1 AAAGATTCTCATTTGAAAACTCAAAA-ATTCTTATTTGAAAACTCAAAGATTCTCATTT
12980612 GAAATTTTAA
Statistics
Matches: 278, Mismatches: 32, Indels: 67
0.74 0.08 0.18
Matches are distributed among these distances:
63 3 0.01
64 1 0.00
65 14 0.05
66 67 0.24
67 29 0.10
68 1 0.00
69 1 0.00
73 1 0.00
74 40 0.14
75 46 0.17
76 17 0.06
78 31 0.11
79 17 0.06
80 6 0.02
81 1 0.00
82 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (76 bp):
AAAGATTCTCATTTGAAAACTCAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTAAAAACT
CAAAAATTTTC
Found at i:12980291 original size:22 final size:22
Alignment explanation
Indices: 12980266--12980380 Score: 185
Period size: 22 Copynumber: 5.2 Consensus size: 22
12980256 TCAAAAATTT
12980266 TCAAAGATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
* *
12980288 TCAAAGATTTTTATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
*
12980310 TCAAATATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
12980332 TCAAAGATTCTCATTTGAAAAAC
1 TCAAAGATTCTCATTTG-AAAAC
*
12980355 TCAAAGATTATCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
12980377 TCAA
1 TCAA
12980381 TCTGAAATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
22 64 0.75
23 21 0.25
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAAAC
Found at i:12980329 original size:44 final size:44
Alignment explanation
Indices: 12980266--12980749 Score: 443
Period size: 44 Copynumber: 10.6 Consensus size: 44
12980256 TCAAAAATTT
* *
12980266 TCAAAGATTCTCATTTGAAAACTCAAAGATTTTTATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
*
12980310 TCAAATATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAAC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTG-AAAAC
* *
12980355 TCAAAGATTATCATTTGAAAACTCAATCTGAAATTCAAAGATTCTCATTTGAAATC
1 TCAAAGATTCTCATTTG--AA---AA-C------TCAAAGATTCTCATTTGAAAAC
* * *
12980411 TCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
* * *
12980455 TCAAAGATTCTCATTTGAAATCTCAAAAATTTTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
* * *
12980499 TAAAAAATTCTTATTTGAAAACTCAAAGATTCTCATTTGAAATTCAAAGATTC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTG------AAA-A--C
* * * * *
12980552 TCAAAGATTCTTATTTAAAAACTAAAATATTCTCATTTGAAATC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
* ** * * *
12980596 TCAAAGATTCTTATTTGAAATTTTAAAGATTTTCATTTAAAAAC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
* * * *
12980640 TTAAATATTCTCATTTGAAAACTCAAAGATTCTTATTTG-AAAT
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
* * * * *
12980683 TCAAAGATTCTTATTAG-AAATTCAAATATTCTCA-TTGAAATC
1 TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
12980725 TCAAAGATTCTCATTTGAAAACTCA
1 TCAAAGATTCTCATTTGAAAACTCA
12980750 TAATTTTATC
Statistics
Matches: 360, Mismatches: 56, Indels: 49
0.77 0.12 0.11
Matches are distributed among these distances:
41 3 0.01
42 31 0.09
43 22 0.06
44 195 0.54
45 20 0.06
47 5 0.01
50 6 0.02
51 4 0.01
53 35 0.10
54 2 0.01
56 20 0.06
57 17 0.05
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (44 bp):
TCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAAAC
Found at i:12980401 original size:22 final size:22
Alignment explanation
Indices: 12980389--12980554 Score: 226
Period size: 22 Copynumber: 7.6 Consensus size: 22
12980379 AATCTGAAAT
*
12980389 TCAAAGATTCTCATTTGAAATC
1 TCAAAGATTCTCATTTGAAAAC
*
12980411 TCAAAGATTTTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
* *
12980433 TAAAAAATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
*
12980455 TCAAAGATTCTCATTTGAAATC
1 TCAAAGATTCTCATTTGAAAAC
* *
12980477 TCAAAAATTTTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
* * *
12980499 TAAAAAATTCTTATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
*
12980521 TCAAAGATTCTCATTTG-AAAT
1 TCAAAGATTCTCATTTGAAAAC
12980542 TCAAAGATTCTCA
1 TCAAAGATTCTCA
12980555 AAGATTCTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
21 16 0.13
22 110 0.87
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAAAC
Found at i:12980415 original size:123 final size:119
Alignment explanation
Indices: 12980168--12980507 Score: 436
Period size: 123 Copynumber: 2.8 Consensus size: 119
12980158 AAGGTTTCAC
* * * * * * * *
12980168 ATCTTAAATATTTTCATTTG-AAACTTAAAGATTCTTATTTGAAAACTTAAAAATTCTTATTTG-
1 ATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
* *
12980231 ATAC-CAAAGATTTTCATTTAAAAACTCAAAAATTTTCAAAGATTCTCATTTGAA
66 AAACTCAAAGATTTTCATTTGAAAACTCAAAAA-TTTCAAAGATTCTCATTTGAA
* * * *
12980285 AACTCAAAGATTTTTATTTGAAAACTCAAATATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
1 ATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTG-
*
12980350 AAAACTCAAAGATTATCATTTGAAAACTCAATCTGAAA-TTCAAAGATTCTCATTTGAA
65 AAAACTCAAAGATTTTCATTTGAAAACTCAA----AAATTTCAAAGATTCTCATTTGAA
12980408 ATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
1 ATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
* * *
12980473 AATCTCAAAAATTTTCATTTGAAAACTAAAAAATT
66 AAACTCAAAGATTTTCATTTGAAAACTCAAAAATT
12980508 CTTATTTGAA
Statistics
Matches: 193, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
117 16 0.08
118 40 0.21
119 1 0.01
120 3 0.02
121 23 0.12
122 27 0.14
123 80 0.41
125 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.37
Consensus pattern (119 bp):
ATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
AAACTCAAAGATTTTCATTTGAAAACTCAAAAATTTCAAAGATTCTCATTTGAA
Found at i:12980466 original size:66 final size:66
Alignment explanation
Indices: 12980389--12980749 Score: 435
Period size: 66 Copynumber: 5.4 Consensus size: 66
12980379 AATCTGAAAT
*
12980389 TCAAAGATTCTCATTTGAAATCTCAAAGATTTTCATTTGAAAACTAAAAAATTCTCATTTGAAAA
1 TCAAAGATTCTCATTTGAAATCTCAAAGATTTTCATTTGAAAACTAAAATATTCTCATTTGAAAA
12980454 C
66 C
* * *
12980455 TCAAAGATTCTCATTTGAAATCTCAAAAATTTTCATTTGAAAACTAAAAAATTCTTATTTGAAAA
1 TCAAAGATTCTCATTTGAAATCTCAAAGATTTTCATTTGAAAACTAAAATATTCTCATTTGAAAA
12980520 C
66 C
*
12980521 TCAAAGATTCTCATTTGAAAT-TCAAAGATTCTCAAAGATTCTTATTTAAAAACTAAAATATTCT
1 TCAAAGATTCTCATTTGAAATCTCAAAGA-T-T------TTC--ATTTGAAAACTAAAATATTCT
*
12980585 CATTTGAAATC
56 CATTTGAAAAC
* * * * *
12980596 TCAAAGATTCTTATTTGAAATTTTAAAGATTTTCATTTAAAAACTTAAATATTCTCATTTGAAAA
1 TCAAAGATTCTCATTTGAAATCTCAAAGATTTTCATTTGAAAACTAAAATATTCTCATTTGAAAA
12980661 C
66 C
* * * *
12980662 TCAAAGATTCTTATTTGAAAT-TCAAAGATTCTT-ATTAG-AAATTCAAATATTCTCA-TTGAAA
1 TCAAAGATTCTCATTTGAAATCTCAAAGATT-TTCATTTGAAAACTAAAATATTCTCATTTGAAA
*
12980723 TC
65 AC
*
12980725 TCAAAGATTCTCATTTGAAAACTCA
1 TCAAAGATTCTCATTTGAAATCTCA
12980750 TAATTTTATC
Statistics
Matches: 263, Mismatches: 19, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
63 26 0.10
64 18 0.07
65 17 0.06
66 139 0.53
67 1 0.00
68 3 0.01
73 3 0.01
74 1 0.00
75 49 0.19
76 6 0.02
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (66 bp):
TCAAAGATTCTCATTTGAAATCTCAAAGATTTTCATTTGAAAACTAAAATATTCTCATTTGAAAA
C
Found at i:12980563 original size:53 final size:54
Alignment explanation
Indices: 12980505--12980606 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 54
12980495 AAACTAAAAA
* *
12980505 ATTCTTATTTGAAAACTCAAAGATTCTCATTTGAAAT-TCAAAGATTCTCAAAG
1 ATTCTTATTTAAAAACTAAAAGATTCTCATTTGAAATCTCAAAGATTCTCAAAG
*
12980558 ATTCTTATTTAAAAACTAAAATATTCTCATTTGAAATCTCAAAGATTCT
1 ATTCTTATTTAAAAACTAAAAGATTCTCATTTGAAATCTCAAAGATTCT
12980607 TATTTGAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 34 0.76
54 11 0.24
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (54 bp):
ATTCTTATTTAAAAACTAAAAGATTCTCATTTGAAATCTCAAAGATTCTCAAAG
Found at i:12980589 original size:22 final size:22
Alignment explanation
Indices: 12980551--12980749 Score: 197
Period size: 22 Copynumber: 9.2 Consensus size: 22
12980541 TTCAAAGATT
* *
12980551 CTCAAAGATTCTTATTTAAAAA
1 CTCAAAGATTCTCATTTGAAAA
* * *
12980573 CTAAAATATTCTCATTTGAAAT
1 CTCAAAGATTCTCATTTGAAAA
* *
12980595 CTCAAAGATTCTTATTTGAAAT
1 CTCAAAGATTCTCATTTGAAAA
* * * *
12980617 TTTAAAGATTTTCATTTAAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
12980639 CTTAAATATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
*
12980661 CTCAAAGATTCTTATTTG-AAA
1 CTCAAAGATTCTCATTTGAAAA
* * *
12980682 TTCAAAGATTCTTATTAG-AAA
1 CTCAAAGATTCTCATTTGAAAA
* * *
12980703 TTCAAATATTCTCA-TTGAAAT
1 CTCAAAGATTCTCATTTGAAAA
12980724 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
12980746 CTCA
1 CTCA
12980750 TAATTTTATC
Statistics
Matches: 145, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
20 2 0.01
21 48 0.33
22 95 0.66
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAA
Found at i:12980727 original size:141 final size:141
Alignment explanation
Indices: 12980181--12980765 Score: 143
Period size: 141 Copynumber: 4.2 Consensus size: 141
12980171 TTAAATATTT
* * * * * *
12980181 TCATTTGAAA-CTTAAAGATTCTT-ATTTGAAAACTTAAAAATTCTTATTTG-ATAC-CAAAGAT
1 TCATTTGAAATCTCAAAAATT-TTCATTTAAAAACTAAAAAATTCTCATTTGAAAACTCAAAGAT
* * * * * * ** * * * * *
12980242 TTTCATTTAAAAACTCAAAAATTTTCAAAGATTCTCATTTGAAAACTCAAAGATTTTTATTTGAA
65 TCTCATTT-GAAATTCAAAGATTCTCAAAAATTCAAATTTAAAAACTAAAATATTCTCATTTGAA
*
12980307 AACTCAAATATTC
129 AACTCAAAGATTC
* * * * * *
12980320 TCATTTGAAAACTCAAAGATTCTCATTTGAAAAACTCAAAGATTATCATTTGAAAACTC--A-A-
1 TCATTTGAAATCTCAAAAATTTTCATTT-AAAAACTAAAAAATTCTCATTTGAAAACTCAAAGAT
* * *
12980381 --TC---TGAAATTCAAAGATTCTC---ATTTGAAATCT-----C-AAAGAT-TT-TCATTTGAA
65 TCTCATTTGAAATTCAAAGATTCTCAAAAATTCAAATTTAAAAACTAAA-ATATTCTCATTTGAA
* *
12980430 AACTAAAAAATTC
129 AACTCAAAGATTC
* * * * * * * * *
12980443 TCATTTGAAAACTCAAAGATTCTCATTTGAAATCTCAAAAATTTTCATTTGAAAACTAAAAAATT
1 TCATTTGAAATCTCAAAAATTTTCATTTAAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATT
* * * * * * * * * *
12980508 CTTATTTGAAAACTCAAAGATTCTC---ATTTGAAATTCAAAGATTCTCAAAGATTCTTATTTAA
66 CTCATTTG-AAATTCAAAGATTCTCAAAAATTCAAATTTAAA-A-ACTAAAATATTCTCATTTGA
* *
12980570 AAACTAAAATATTC
128 AAACTCAAAGATTC
* * ** * * * * * *
12980584 TCATTTGAAATCTCAAAGATTCTT-ATTTGAAATTTTAAAGATTTTCATTTAAAAACTTAAATAT
1 TCATTTGAAATCTCAAAAATT-TTCATTTAAAAACTAAAAAATTCTCATTTGAAAACTCAAAGAT
* * * * *
12980648 TCTCATTTGAAAACTCAAAGATTCTTATTTGAAATTCAAAGATTCTTATTAGAAATTCAAATATT
65 TCTCATTTG-AAATTCAAAGATTCTCA---AAAATTC-AA-A-T-TTA--A-AAACTAAAATATT
*
12980713 CTCA-TTGAAATCTCAAAGATTC
119 CTCATTTGAAAACTCAAAGATTC
* *
12980735 TCATTTGAAAACTC-ATAATTTT-ATCTTAAAA
1 TCATTTGAAATCTCAAAAATTTTCAT-TTAAAA
12980766 GACTTCATCA
Statistics
Matches: 343, Mismatches: 62, Indels: 71
0.72 0.13 0.15
Matches are distributed among these distances:
122 25 0.07
123 47 0.14
124 5 0.01
125 3 0.01
128 1 0.00
130 5 0.01
131 2 0.01
132 24 0.07
133 13 0.04
134 1 0.00
137 2 0.01
139 13 0.04
140 18 0.05
141 116 0.34
142 4 0.01
143 1 0.00
147 3 0.01
148 2 0.01
149 5 0.01
150 10 0.03
151 29 0.08
152 11 0.03
153 2 0.01
154 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (141 bp):
TCATTTGAAATCTCAAAAATTTTCATTTAAAAACTAAAAAATTCTCATTTGAAAACTCAAAGATT
CTCATTTGAAATTCAAAGATTCTCAAAAATTCAAATTTAAAAACTAAAATATTCTCATTTGAAAA
CTCAAAGATTC
Found at i:12981904 original size:10 final size:10
Alignment explanation
Indices: 12981891--12981958 Score: 70
Period size: 10 Copynumber: 7.0 Consensus size: 10
12981881 TCCTTTTACA
12981891 TTTTTCTATT
1 TTTTTCTATT
* *
12981901 TTTTCCTCTT
1 TTTTTCTATT
*
12981911 TTTTTCTTTT
1 TTTTTCTATT
12981921 TTTTTC-ATT
1 TTTTTCTATT
*
12981930 TTTTTTTCA-T
1 TTTTTCT-ATT
12981940 TTTTTC-ATT
1 TTTTTCTATT
12981949 TTTTTCTATT
1 TTTTTCTATT
12981959 GATATCTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.02
9 14 0.30
10 31 0.66
11 1 0.02
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTATT
Found at i:12981913 original size:19 final size:18
Alignment explanation
Indices: 12981891--12981958 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
12981881 TCCTTTTACA
*
12981891 TTTTTCTATTTTTTCCTCTT
1 TTTTTCTATTTTTT-C-ATT
*
12981911 TTTTTCTTTTTTTTTCATT
1 TTTTTC-TATTTTTTCATT
*
12981930 TTTTTTTCATTTTTTCATT
1 TTTTTCT-ATTTTTTCATT
12981949 TTTTTCTATT
1 TTTTTCTATT
12981959 GATATCTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 4 0.10
19 23 0.56
20 7 0.17
21 7 0.17
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTATTTTTTCATT
Found at i:12981953 original size:11 final size:11
Alignment explanation
Indices: 12981899--12981944 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
12981889 CATTTTTCTA
* *
12981899 TTTTTTCCTCT
1 TTTTTTCATTT
12981910 TTTTTTC-TTT
1 TTTTTTCATTT
12981920 TTTTTTCATTT
1 TTTTTTCATTT
12981931 TTTTTTCATTT
1 TTTTTTCATTT
12981942 TTT
1 TTT
12981945 CATTTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:12986032 original size:24 final size:25
Alignment explanation
Indices: 12986004--12986051 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
12985994 TAGAGATTTT
12986004 CTAAGAATTTATCATTTGA-AATTC
1 CTAAGAATTTATCATTTGATAATTC
* *
12986028 CTAAGATTTTATCCTTTGATAATT
1 CTAAGAATTTATCATTTGATAATT
12986052 ATCAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (25 bp):
CTAAGAATTTATCATTTGATAATTC
Found at i:12986543 original size:16 final size:16
Alignment explanation
Indices: 12986524--12986554 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12986514 AAACCTATAA
*
12986524 ATATAACTAAATAAAT
1 ATATAAATAAATAAAT
12986540 ATATAAATAAATAAA
1 ATATAAATAAATAAA
12986555 ATACCAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATAAATAAATAAAT
Found at i:12986548 original size:12 final size:14
Alignment explanation
Indices: 12986520--12986552 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
12986510 AAAAAAACCT
12986520 ATAAATATAACTAA
1 ATAAATATAACTAA
12986534 ATAAATAT-A-TAA
1 ATAAATATAACTAA
12986546 ATAAATA
1 ATAAATA
12986553 AAATACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 1 0.05
14 8 0.42
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATATAACTAA
Found at i:12987032 original size:31 final size:30
Alignment explanation
Indices: 12986997--12987061 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
12986987 AAGCTTATAG
*
12986997 AAAAATTCAATC-GATGTCAAAAAATTCACCC
1 AAAAATTCAA-CAGATGCCAAAAAATTCA-CC
*
12987028 AAAAATTCAACAGGTGCCAAAAAATTCACC
1 AAAAATTCAACAGATGCCAAAAAATTCACC
12987058 AAAA
1 AAAA
12987062 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.18
Consensus pattern (30 bp):
AAAAATTCAACAGATGCCAAAAAATTCACC
Found at i:12987215 original size:15 final size:16
Alignment explanation
Indices: 12987187--12987219 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
12987177 ATCTACCTGA
12987187 TCTTTATATTTTGTAT
1 TCTTTATATTTTGTAT
12987203 TCTTTAT-TTTTGTAT
1 TCTTTATATTTTGTAT
12987218 TC
1 TC
12987220 CTCTTTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (16 bp):
TCTTTATATTTTGTAT
Found at i:12991206 original size:13 final size:13
Alignment explanation
Indices: 12991187--12991217 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12991177 TACGGTATAA
12991187 ATAAAAAAAATTC
1 ATAAAAAAAATTC
*
12991200 CTAAAAAAAATTC
1 ATAAAAAAAATTC
12991213 ATAAA
1 ATAAA
12991218 TTTTCTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAAAATTC
Found at i:12998749 original size:3 final size:3
Alignment explanation
Indices: 12998741--12998770 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12998731 ACAAATCATA
12998741 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12998771 GATGTACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13000086 original size:2 final size:2
Alignment explanation
Indices: 13000081--13000114 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13000071 AAAAAAATAC
* *
13000081 TA TA TA TA TA TC TC TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13000115 GAGAGAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13002010 original size:17 final size:17
Alignment explanation
Indices: 13001968--13002019 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
13001958 TGATTTAATC
13001968 TAAAATTAATA-AAATA
1 TAAAATTAATATAAATA
***
13001984 TTATTTTTAATATAAATA
1 -TAAAATTAATATAAATA
13002002 TAAAATTAA-ATAAATA
1 TAAAATTAATATAAATA
13002018 TA
1 TA
13002020 TCTAAATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.32
17 14 0.50
18 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTAATATAAATA
Found at i:13004810 original size:2 final size:2
Alignment explanation
Indices: 13004805--13004834 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13004795 TCTCTCTCTC
*
13004805 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13004835 AGAGCTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13010255 original size:7 final size:7
Alignment explanation
Indices: 13010228--13010266 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
13010218 TTATTAAGAT
13010228 AAAAATA
1 AAAAATA
*
13010235 ATAAA-A
1 AAAAATA
*
13010241 ATAAATA
1 AAAAATA
13010248 AAAAATA
1 AAAAATA
13010255 AAAAATA
1 AAAAATA
13010262 AAAAA
1 AAAAA
13010267 AAGATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:13012877 original size:14 final size:13
Alignment explanation
Indices: 13012849--13012873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13012839 AACAAAGCTT
13012849 AAAAAAAGATTTA
1 AAAAAAAGATTTA
13012862 AAAAAAAGATTT
1 AAAAAAAGATTT
13012874 TAAAGCCTTT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAAAAGATTTA
Found at i:13013135 original size:13 final size:13
Alignment explanation
Indices: 13013103--13013178 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
13013093 CGTAAATTCC
*
13013103 TAAAACCCT-AAG
1 TAAAACCCTAAAA
*
13013115 TAAAATCCTAAAA
1 TAAAACCCTAAAA
* *
13013128 TGAAATCCTAAAA
1 TAAAACCCTAAAA
*
13013141 TAAAACCCTAAAG
1 TAAAACCCTAAAA
13013154 TAAAACCCTAAAA
1 TAAAACCCTAAAA
**
13013167 CGAAACCCTAAA
1 TAAAACCCTAAA
13013179 TTCTATATGA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
12 8 0.15
13 46 0.85
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.17
Consensus pattern (13 bp):
TAAAACCCTAAAA
Found at i:13013164 original size:39 final size:38
Alignment explanation
Indices: 13013103--13013178 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 38
13013093 CGTAAATTCC
* * *
13013103 TAAAACCCTAAGTAAAATCCTAAAATGAAATCCTAAAA
1 TAAAACCCTAAGTAAAACCCTAAAACGAAACCCTAAAA
13013141 TAAAACCCTAAAGTAAAACCCTAAAACGAAACCCTAAA
1 TAAAACCCT-AAGTAAAACCCTAAAACGAAACCCTAAA
13013179 TTCTATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 9 0.26
39 25 0.74
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.17
Consensus pattern (38 bp):
TAAAACCCTAAGTAAAACCCTAAAACGAAACCCTAAAA
Found at i:13018970 original size:11 final size:11
Alignment explanation
Indices: 13018951--13019063 Score: 55
Period size: 11 Copynumber: 9.5 Consensus size: 11
13018941 CATTTTATTG
* *
13018951 TTTTGTTTTGA
1 TTTTATTTTTA
13018962 TTTTATTTTTA
1 TTTTATTTTTA
*
13018973 TTTCATTTTTCCTA
1 TTTTA-TTTT--TA
*
13018987 TTTTATTTTCA
1 TTTTATTTTTA
*
13018998 TTTTATTATGTA
1 TTTTATT-TTTA
* *
13019010 TATTTGTTTCTTT
1 T-TTTATTT-TTA
* *
13019023 TTTTACTATTA
1 TTTTATTTTTA
*
13019034 TTTTATTCCTTA
1 TTTTATT-TTTA
13019046 TTCTTATTTATTA
1 TT-TTATTT-TTA
13019059 TTTTA
1 TTTTA
13019064 AATTGAGCAA
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
11 29 0.38
12 20 0.26
13 21 0.28
14 6 0.08
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13031422 original size:120 final size:119
Alignment explanation
Indices: 13031199--13031422 Score: 299
Period size: 120 Copynumber: 1.9 Consensus size: 119
13031189 AATCCATAAA
* * * *
13031199 AAAATTTGGAATAGATTCTTAAAGGCATTTTGGCCAAAAGCGCTTTTAATAATCCATTCAATAAA
1 AAAATTTAGAATAGATTCTTAAAGGCATTTTGGCCAAAAGCACTTTCAATAATCCATTCAACAAA
* * * *
13031264 TTTTTATGAGGGATTATTGAAGTTACTTTTGGTAAAAAAATGCCATCTATACAC
66 TTTGTATGAAGGATTATTGAAGTGACTTTTAGTAAAAAAATGCCATCTATACAC
* * *
13031318 AAAATTTAGAATGGATTCTTAAATGCATTTTTGGCTTAAAA-CACTTTCAATAATCCATTCAACA
1 AAAATTTAGAATAGATTCTTAAAGGCA-TTTTGGC-CAAAAGCACTTTCAATAATCCATTCAACA
*
13031382 AATTTGTATGAAGGATTATTGAAGGTGA-TTTTAGTTAAAAA
64 AATTTGTATGAAGGATTATTGAA-GTGACTTTTAGTAAAAAA
13031423 TACCTTCAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 24 0.27
120 59 0.66
121 7 0.08
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (119 bp):
AAAATTTAGAATAGATTCTTAAAGGCATTTTGGCCAAAAGCACTTTCAATAATCCATTCAACAAA
TTTGTATGAAGGATTATTGAAGTGACTTTTAGTAAAAAAATGCCATCTATACAC
Found at i:13032322 original size:15 final size:14
Alignment explanation
Indices: 13032298--13032327 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13032288 ATGAAAAAAC
13032298 ATAAAATATATAAT
1 ATAAAATATATAAT
13032312 ATAATAATATATAAT
1 ATAA-AATATATAAT
13032327 A
1 A
13032328 CCTATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAATATATAAT
Found at i:13034713 original size:12 final size:12
Alignment explanation
Indices: 13034696--13034775 Score: 79
Period size: 12 Copynumber: 6.2 Consensus size: 12
13034686 TGTGTTTAGA
*
13034696 AAACCATTCAGC
1 AAACCATTCAAC
*
13034708 AAACCATTCAAA
1 AAACCATTCAAC
*
13034720 AACACCATTTAAC
1 AA-ACCATTCAAC
*
13034733 AAACCATTCAGC
1 AAACCATTCAAC
13034745 AAACCAATATCATAC
1 AAACC-AT-TCA-AC
13034760 AATACCATTCAAC
1 AA-ACCATTCAAC
13034773 AAA
1 AAA
13034776 ACAATATCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
12 26 0.46
13 16 0.29
14 6 0.11
15 5 0.09
16 3 0.05
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.19
Consensus pattern (12 bp):
AAACCATTCAAC
Found at i:13034767 original size:28 final size:27
Alignment explanation
Indices: 13034707--13034794 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
13034697 AACCATTCAG
* *
13034707 CAAACCATTCAA-AAACACCAT-TTA-A
1 CAAACCATTCAACAAA-ACAATATCATA
* *
13034732 CAAACCATTCAGCAAACCAATATCATA
1 CAAACCATTCAACAAAACAATATCATA
13034759 CAATACCATTCAACAAAACAATATCATA
1 CAA-ACCATTCAACAAAACAATATCATA
13034787 -AACACCAT
1 CAA-ACCAT
13034795 GCATGCAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.27
26 5 0.10
27 11 0.21
28 22 0.42
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (27 bp):
CAAACCATTCAACAAAACAATATCATA
Found at i:13035409 original size:65 final size:62
Alignment explanation
Indices: 13035309--13035495 Score: 186
Period size: 65 Copynumber: 2.9 Consensus size: 62
13035299 ATATTACGAT
*
13035309 GATTATTGAAGGCATT-TTACAAAAAAATACCTTCAATAATTTCTTTTAAAAATTTTGAAAAGG
1 GATTATTGAAGG-ATTATTAGAAAAAAATACCTTCAATAATTT-TTTTAAAAATTTTGAAAAGG
** *
13035372 AGATTATTGAAGGTATTATTAGTTAAAAATACCTTCAATAATTTTTTTGTTAAAA-TTT--AAAG
1 -GATTATTGAAGG-ATTATTAGAAAAAAATACCTTCAATAA-TTTTTT-TAAAAATTTTGAAAAG
13035434 G
62 G
* *
13035435 GATTATTGAA-GATGTATTATGCCAAAAAACACCTTCAATAAATTTTTTTAAAAATATTTGA
1 GATTATTGAAGGAT-TATTA-G-AAAAAAATACCTTCAAT-AATTTTTTTAAAAAT-TTTGA
13035496 GTGGATTATT
Statistics
Matches: 103, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
60 2 0.02
61 6 0.06
62 16 0.16
63 25 0.24
64 20 0.19
65 26 0.25
66 8 0.08
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (62 bp):
GATTATTGAAGGATTATTAGAAAAAAATACCTTCAATAATTTTTTTAAAAATTTTGAAAAGG
Found at i:13035502 original size:64 final size:61
Alignment explanation
Indices: 13035309--13035535 Score: 185
Period size: 63 Copynumber: 3.6 Consensus size: 61
13035299 ATATTACGAT
*
13035309 GATTATTGAAGGCATT-TTA-CAAAAAAATACCTTCAAT-AATTTCTTTTAAAAATTTTGAAAAG
1 GATTATTGAAGGTATTATTAGC-AAAAAATACCTTCAATAAATTT-TTTTAAAAATTTTG---AG
13035371 G
61 G
** * * **
13035372 AGATTATTGAAGGTATTATTAGTTAAAAATACCTTCAATAATTTTTTTGTTAAAATTTAAAGG
1 -GATTATTGAAGGTATTATTAGCAAAAAATACCTTCAATAAATTTTTT-TAAAAATTTTGAGG
*
13035435 GATTATTGAA-G-ATGTATTATGCCAAAAAACACCTTCAATAAATTTTTTTAAAAATATTTGAGT
1 GATTATTGAAGGTAT-TATTA-G-CAAAAAATACCTTCAATAAATTTTTTTAAAAAT-TTTGAG-
13035498 G
61 G
** * * *
13035499 GATTATTGAATATATTTTTGGTAAAAAATCACCTTCA
1 GATTATTGAAGGTATTATTAGCAAAAAAT-ACCTTCA
13035536 CTGATATTCT
Statistics
Matches: 132, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
60 2 0.02
61 6 0.05
62 17 0.13
63 35 0.27
64 34 0.26
65 24 0.18
66 14 0.11
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (61 bp):
GATTATTGAAGGTATTATTAGCAAAAAATACCTTCAATAAATTTTTTTAAAAATTTTGAGG
Found at i:13036058 original size:61 final size:62
Alignment explanation
Indices: 13035945--13036085 Score: 162
Period size: 62 Copynumber: 2.3 Consensus size: 62
13035935 TTGAAAATGA
* * *** *
13035945 GATTATTGAAGGCGTTTTTAGTCAAAAATACCTTCAAAAATCATTTTGTT-AAAATTTAAGGG
1 GATTATTGAAGGCGTTTAT-GTAAAAAATACCTTCAAAAATCAAGCTATTAAAAATTTAAGGG
13036007 GATTATTG-AGGCGTATTATGTAAAAAATACCTTCAATAAAT-AAGCTATTAAAAATTTAAGGG
1 GATTATTGAAGGCGT-TTATGTAAAAAATACCTTCAA-AAATCAAGCTATTAAAAATTTAAGGG
* *
13036069 AATTAGTGAAGGCGTTT
1 GATTATTGAAGGCGTTT
13036086 GTATTAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
61 26 0.39
62 35 0.52
63 6 0.09
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.35
Consensus pattern (62 bp):
GATTATTGAAGGCGTTTATGTAAAAAATACCTTCAAAAATCAAGCTATTAAAAATTTAAGGG
Found at i:13036519 original size:7 final size:7
Alignment explanation
Indices: 13036507--13036532 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13036497 ACTTAGTGCA
13036507 CCCAATC
1 CCCAATC
13036514 CCCAATC
1 CCCAATC
13036521 CCCAATC
1 CCCAATC
13036528 CCCAA
1 CCCAA
13036533 CTTCAGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.58, G:0.00, T:0.12
Consensus pattern (7 bp):
CCCAATC
Found at i:13042427 original size:161 final size:160
Alignment explanation
Indices: 13042209--13042514 Score: 377
Period size: 161 Copynumber: 1.9 Consensus size: 160
13042199 TATTATTCCG
* *
13042209 TTTTAATAGTTTTGAAAGTTTTCAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTT
1 TTTTAATAGTTTGGAAAGCTTTCAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTT
* * *
13042274 CCATGGTTGATATACATGAAAAAGTTATTATTTACGTCTATTTAGGACT-TTTTGTGCC-ATTAA
66 CCATGATTGATATACATGAAAAAGTTATCATTTACATCTATTT-GGACTATTTT-TGCCTATTAA
**
13042337 TAGGTTAAAATACAAATTGTTGTTATTGTTCTA
129 -AGGCAAAAATACAAATTGTTGTTATTGTTCTA
* * ** *
13042370 TTTTAATAGTTTGGATAGCCTTT-AATACATGATATTAAATTTATCTGAA-TGATTGAACTTGGT
1 TTTTAATAGTTTGGAAAG-CTTTCAATACATGATATTAAACTTATCCAAAGT-ATTGAACTTAGT
* *** * *
13042433 TTCTATGATTGATATGTGTGAAAAAGTTATCGTTTACATCTATTTGGACTATTTTTGCCTTTTAA
64 TTCCATGATTGATATACATGAAAAAGTTATCATTTACATCTATTTGGACTATTTTTGCCTATTAA
13042498 AGGCAAAAATACAAATT
129 AGGCAAAAATACAAATT
13042515 AAAACTTTTG
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
160 25 0.20
161 95 0.77
162 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (160 bp):
TTTTAATAGTTTGGAAAGCTTTCAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTT
CCATGATTGATATACATGAAAAAGTTATCATTTACATCTATTTGGACTATTTTTGCCTATTAAAG
GCAAAAATACAAATTGTTGTTATTGTTCTA
Found at i:13047765 original size:907 final size:908
Alignment explanation
Indices: 13045961--13048284 Score: 2557
Period size: 907 Copynumber: 2.5 Consensus size: 908
13045951 AAGCATCCTA
* * * * *
13045961 ATTATTGAGAATAATGACTCAAATCCCATAAAAGATTTTGTTT-AAGATTTGTTAGATGTTACCT
1 ATTATTGAGAATAGTGACTCAAATCTCATAAAAGA-TTTGTTTGAA-ATTTGTTAGATATTGCTT
* * * * *
13046025 GATGGATAAGTTTGACTTGTAGAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATA-AGCAAGTT
64 GATGAACAAGTTTGACTTATAGAAGAAAAATTTTAAGAGAAAAGAAATTCTTAATAGA-CAAGTT
* * *
13046089 TGTATGCTTATAAATAGGTAAAGTCTCTATAAGATT-AGTTATGAGAAAAGATATAAGAGAGTTA
128 TGTATGCTTATAAATAGGTAAAGTCTCTAT-AGGTTAAG-TATGAGAAAAAATATAAGAGAATTA
* * ** * * *
13046153 TAGGATTTTATAGGATAGACACCCAATAAGACTATT-AGAGATTTACATATTATGGGTGTGTATA
191 TAGGAGTTTATAGGATAGACACCCCATAAGACTATTGA-AGATTTATGTATTATAGGTATGTATG
** * * ** *
13046217 TTTGTATGGTGCATGGAAGTGGACTAGAAGAGACTGAGA-GAATCCACATAAGTGTGATGAAT-A
255 TTTGTATAATGCATGAAAGTAGACTAGAAGAGACTGAGAGGGCTACACA-AA-TGTGATGAATGA
* * *
13046280 GGTACATATAGGTATGTATTTATTTGTATTGAAAAG-ACGCATATGGATATGTGTTTGTTTAGGT
318 -GTACATATAGGTATGTATTTATTTGTATTGAAAGGTACACATA-GG-TATGTATTTGTTT-GGT
* * * ** * * *
13046344 TAAGAATACTCTATAGGATTAGAGGAGATTGAGAGGGTTTATAGGTATTGATTGTTGAAAGGTTG
379 TGATAATACTCTATAAGACAAGAGGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAATGGTTG
* * * *
13046409 ATATATTTTGATGTATATTTGTAATTTTTTATAACTAATAGATCTTATTTCTCATCCATAGACAT
444 ATATGTTTTGATATATATTTGTAA-TTTTTACAACTAATGGATCTTATTTCTCATCCATAGACAT
* * * *
13046474 AGGTCAGTTAGATTGAAAAATGTTAAATCGTTATCTCTTGTGTGATTATTTAATTGTTTTATTGA
508 AGGTCAATTAGACTGAAAAATGTTAAATCATTATCTCTTGTGTGATTATTTAATTGTTTGATTGA
* * * * *** * * *
13046539 TTATTTGATTTTTTTTTCGTTGATATGATTGGATTGAAGTTTTTTAGCTTAACAAGTGATATTAG
573 TTATTTGATTTTCTTTCCATTGATATGATTAGATTGAAGGCCTTTAGCCTAACAAGTGATATCAA
* * * * *
13046604 AGCTATAATGATCTTCAACAAGTGATAACAGAGCTATGGTGATTCCCTAACAAGTGGTATCAGAG
638 AACTATAATGATCTCCAACAAGTGATAACAGAGCTATGGTAATTCCCTAACAAGTGGCATCAGAA
* * * ** *
13046669 CATAGTTTAAGACATAAGAAGAGGTAAGTTCAGAAGAGCTTGATTCAAAAAAAGAGTTCGAGTTC
703 CATAGTTCAAGACATAAGAAGAGGTAAGTCCAGAAGAACTCAATTCAAAAAAAGAGTTCAAGTTC
* * * * * *
13046734 AAGTTTTAAGAATTGAGGATCAATTTGCATGAAGAGTGAAGACATACAAGAGAAGATGATTGTGA
768 AAGTTTTAAGAATTAAGGATCAATTTGCATAAAGAGTGAAAACACACAAGAGAAGATGATTATAA
* * * *
13046799 GACTTTCATTATAGATGGAACCAAGTATGTCTAACTTAAAAATAGATGATTTGATGAAATTTGAG
833 GACTTCCATTATAGATGGAACCAAGCATATCTAACTTAAAAATAGATGATTTAATGAAATTTGAG
*
13046864 TCAAGGTGAAG
898 TCAAGATGAAG
* * * *
13046875 ATTATTAAGAATAGTAACTTAAATCTCATAAGAGATTTGTTTGAAATTTGTTAGATATTGCTTGA
1 ATTATTGAGAATAGTGACTCAAATCTCATAAAAGATTTGTTTGAAATTTGTTAGATATTGCTTGA
* *
13046940 TGAACAAGTTTGACTTATAGAAGAAAAATTTTAAAAGAAAAGATA-TCTTAATAGACAAGTTTGT
66 TGAACAAGTTTGACTTATAGAAGAAAAATTTTAAGAGAAAAGAAATTCTTAATAGACAAGTTTGT
*
13047004 ATGCTTATAAATAGGTAAAGTCTCTATAGCGTTAAGCATGAGAAAAAATATAAGAGAATTATAGG
131 ATGCTTATAAATAGGTAAAGTCTCTATAG-GTTAAGTATGAGAAAAAATATAAGAGAATTATAGG
* * *
13047069 AGTTTATAGGATAGACACCCCATAAGATTATTGAAGATTTATGTTTTCTAGGTATGTATGTTTGT
195 AGTTTATAGGATAGACACCCCATAAGACTATTGAAGATTTATGTATTATAGGTATGTATGTTTGT
* * * * *
13047134 ATAATGCATGAAAGTAGATTAAAAGAGACTGAGAGGGCTAAACAAATGTGATAAATGAGAACATA
260 ATAATGCATGAAAGTAGACTAGAAGAGACTGAGAGGGCTACACAAATGTGATGAATGAGTACATA
*
13047199 TAGGTATGTATTTATTTGTATTGAAAGGGTACACATAGGTATGTATTTGTTTGGATTGATAATAT
325 TAGGTATGTATTTATTTGTATTGAAA-GGTACACATAGGTATGTATTTGTTTGG-TTGATAATAC
* * * * * *
13047264 TTTATAAGACAAGAGGAGATTGAAAGGATCTATGGGCATTGATTGTTGAGTGGTTGATATGCTTT
388 TCTATAAGACAAGAGGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAATGGTTGATATGTTTT
* * * ** * *
13047329 GATATATATTTTTAATTATTTACAACTAATGGATCTTGTTTCTTATCTGTGGATATAGGTCAATT
453 GATATATATTTGTAATT-TTTACAACTAATGGATCTTATTTCTCATCCATAGACATAGGTCAATT
** * *
13047394 AGACTGAACCATGTT-AATTATTATCT-TT-TGTGATT-TTTCAATTGTTTGATTGATTGTTTGA
517 AGACTGAAAAATGTTAAATCATTATCTCTTGTGTGATTATTT-AATTGTTTGATTGATTATTTGA
* * * * **
13047455 TTTTCTTTCCATTGATATGATTATATT-AGGGCCTTTAGCCTAACAAGTGATATCAAAATTGTGG
581 TTTTCTTTCCATTGATATGATTAGATTGAAGGCCTTTAGCCTAACAAGTGATATCAAAACTATAA
* * * *** *
13047519 TGATCTCCAATAAGTGGTAACAGAGCTGTGGTAATTTTTTAACAAGTGGCATCAGAACATGGTTC
646 TGATCTCCAACAAGTGATAACAGAGCTATGGTAATTCCCTAACAAGTGGCATCAGAACATAGTTC
* * * * *
13047584 AATACATAAGAAGAGGTAAGTCCA-AAGGAACTCAATTCAAAAGAAGAGTTTAAGTTTAATTTTT
711 AAGACATAAGAAGAGGTAAGTCCAGAA-GAACTCAATTCAAAAAAAGAGTTCAAGTTCAAGTTTT
* * *
13047648 GAA-AATTAAGGATCAGTTTGCGTAAAGTGTGAAAACACACAAGAGAAGATGATTATAAGACTTC
775 -AAGAATTAAGGATCAATTTGCATAAAGAGTGAAAACACACAAGAGAAGATGATTATAAGACTTC
* * * * * * *
13047712 CATTATAGGTGGAGCCAAGCATATCTAACTTGAAGATAGATGATTTAATGAAATTTGATTTAATA
839 CATTATAGATGGAACCAAGCATATCTAACTTAAAAATAGATGATTTAATGAAATTTGAGTCAAGA
*
13047777 TGGAG
904 TGAAG
* * * * * * * * *
13047782 ATCATTGAGAATAGTGACTCAAATATTATAAAAGAATTATTTGAGATTTATTAGATA-TGTTTAA
1 ATTATTGAGAATAGTGACTCAAATCTCATAAAAGATTTGTTTGAAATTTGTTAGATATTGCTTGA
* * * * * *
13047846 TTGAACAAGTTTGACTTATAAAAGAAGAATTCTAAGAGGAAAGAAATTTTTAATAGACAA-CTTG
66 -TGAACAAGTTTGACTTATAGAAGAAAAATTTTAAGAGAAAAGAAATTCTTAATAGACAAGTTTG
* * * * * *
13047910 TATGCTTATAAATAGGTGAAGTCTTTATAGGTTAGGTATAAGAAAAAATGTAAGA-AAGTTATAA
130 TATGCTTATAAATAGGTAAAGTCTCTATAGGTTAAGTATGAGAAAAAATATAAGAGAA-TTATAG
* * * * * *
13047974 G-GTTTCATAAGATAGATACCTCATAAGACTACTGAAGATTTATGTCTTATCGGTATGTATGTTT
194 GAGTTT-ATAGGATAGACACCCCATAAGACTATTGAAGATTTATGTATTATAGGTATGTATGTTT
* * * *
13048038 GTATAATGCATGAAAATAGACTAGAAGAGACTTGAGAGGGTCTACATAAGTGTGATGAATGGGTA
258 GTATAATGCATGAAAGTAGACTAGAAGAGAC-TGAGAGGG-CTACACAAATGTGATGAATGAGTA
* * * * * ** *
13048103 CATATGGGTATATATTTGTTTGTGTTGAAATGATGTACATGGGTATGTATTTGTTTGGGTTGAGT
321 CATATAGGTATGTATTTATTTGTATTGAAA-GGTACACATAGGTATGTATTTGTTT-GGTTGA-T
* * *
13048168 -ATACTCGATAAGACTAA-AAGAGATTGAGAGGGTCTATGTGTATTGATTGTTGAATGGTTGATA
383 AATACTCTATAAGAC-AAGAGGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAATGGTTGATA
* * * *
13048231 TGTTTTGATATATGTTTGTAATTTTCTACAACTAGTGAATCTTATTTTTCATCC
447 TGTTTTGATATATATTTGTAATTTT-TACAACTAATGGATCTTATTTCTCATCC
13048285 CTGAGGTAGA
Statistics
Matches: 1175, Mismatches: 211, Indels: 54
0.82 0.15 0.04
Matches are distributed among these distances:
905 6 0.01
906 112 0.10
907 367 0.31
908 225 0.19
909 7 0.01
910 13 0.01
911 177 0.15
912 159 0.14
913 78 0.07
914 31 0.03
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (908 bp):
ATTATTGAGAATAGTGACTCAAATCTCATAAAAGATTTGTTTGAAATTTGTTAGATATTGCTTGA
TGAACAAGTTTGACTTATAGAAGAAAAATTTTAAGAGAAAAGAAATTCTTAATAGACAAGTTTGT
ATGCTTATAAATAGGTAAAGTCTCTATAGGTTAAGTATGAGAAAAAATATAAGAGAATTATAGGA
GTTTATAGGATAGACACCCCATAAGACTATTGAAGATTTATGTATTATAGGTATGTATGTTTGTA
TAATGCATGAAAGTAGACTAGAAGAGACTGAGAGGGCTACACAAATGTGATGAATGAGTACATAT
AGGTATGTATTTATTTGTATTGAAAGGTACACATAGGTATGTATTTGTTTGGTTGATAATACTCT
ATAAGACAAGAGGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAATGGTTGATATGTTTTGAT
ATATATTTGTAATTTTTACAACTAATGGATCTTATTTCTCATCCATAGACATAGGTCAATTAGAC
TGAAAAATGTTAAATCATTATCTCTTGTGTGATTATTTAATTGTTTGATTGATTATTTGATTTTC
TTTCCATTGATATGATTAGATTGAAGGCCTTTAGCCTAACAAGTGATATCAAAACTATAATGATC
TCCAACAAGTGATAACAGAGCTATGGTAATTCCCTAACAAGTGGCATCAGAACATAGTTCAAGAC
ATAAGAAGAGGTAAGTCCAGAAGAACTCAATTCAAAAAAAGAGTTCAAGTTCAAGTTTTAAGAAT
TAAGGATCAATTTGCATAAAGAGTGAAAACACACAAGAGAAGATGATTATAAGACTTCCATTATA
GATGGAACCAAGCATATCTAACTTAAAAATAGATGATTTAATGAAATTTGAGTCAAGATGAAG
Found at i:13051095 original size:23 final size:23
Alignment explanation
Indices: 13051069--13051113 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13051059 TCTTCCGCCT
13051069 GAAGTTAG-AGAGGCTCAAGAAAA
1 GAAGTTAGAAG-GGCTCAAGAAAA
*
13051092 GAAGTTAGAAGGGCTTAAGAAA
1 GAAGTTAGAAGGGCTCAAGAAA
13051114 CAACAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.47, C:0.07, G:0.31, T:0.16
Consensus pattern (23 bp):
GAAGTTAGAAGGGCTCAAGAAAA
Found at i:13054130 original size:18 final size:19
Alignment explanation
Indices: 13054085--13054135 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
13054075 CGATTTAAAA
13054085 TTAATAAAATATTAATTTT
1 TTAATAAAATATTAATTTT
13054104 TTGATATAAAATATT-ATTTT
1 TT-A-ATAAAATATTAATTTT
13054124 TTAATAAAATAT
1 TTAATAAAATAT
13054136 AAAATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
20 8 0.27
21 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAATAAAATATTAATTTT
Found at i:13054396 original size:20 final size:17
Alignment explanation
Indices: 13054352--13054386 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13054342 AACGAAAACT
13054352 TAATAAAACCTTGGCAA
1 TAATAAAACCTTGGCAA
13054369 TAATAAAACCTTGGCAA
1 TAATAAAACCTTGGCAA
13054386 T
1 T
13054387 TGTGATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (17 bp):
TAATAAAACCTTGGCAA
Found at i:13054869 original size:28 final size:29
Alignment explanation
Indices: 13054838--13054893 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
13054828 TTGTTAGTCT
13054838 TTTTTAATTTTAAAT-ATAGTTGAATTTC
1 TTTTTAATTTTAAATAATAGTTGAATTTC
**
13054866 TTTTTTTTTTTAAATAAATAGTTGAATT
1 TTTTTAATTTTAAAT-AATAGTTGAATT
13054894 CCACTTAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
30 11 0.46
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTTTAATTTTAAATAATAGTTGAATTTC
Found at i:13054887 original size:30 final size:29
Alignment explanation
Indices: 13054835--13054893 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
13054825 ATCTTGTTAG
13054835 TCTTTTTTAATTTTAAATATAGTTGAATT
1 TCTTTTTTAATTTTAAATATAGTTGAATT
*
13054864 TCTTTTTT-TTTTTAAATAAATAGTTGAATT
1 TCTTTTTTAATTTTAAAT--ATAGTTGAATT
13054894 CCACTTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.30
29 8 0.30
30 11 0.41
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (29 bp):
TCTTTTTTAATTTTAAATATAGTTGAATT
Found at i:13061456 original size:32 final size:32
Alignment explanation
Indices: 13061417--13061480 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13061407 TTGTTGTCTT
*
13061417 GTCATTTACAGTATAATCTTGTTTATAACCTC
1 GTCATTTACAGTATAATCTTGTCTATAACCTC
13061449 GTCATTTACAGTATAATCTTGTCTATAACCTC
1 GTCATTTACAGTATAATCTTGTCTATAACCTC
13061481 TCAACATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (32 bp):
GTCATTTACAGTATAATCTTGTCTATAACCTC
Found at i:13077787 original size:24 final size:24
Alignment explanation
Indices: 13077730--13077787 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
13077720 ATATGATATA
13077730 ATAATA-TAATACGAATATAAAAT
1 ATAATATTAATACGAATATAAAAT
* *
13077753 ATAA-ATGTAATA-TAATTTAAAATT
1 ATAATAT-TAATACGAATATAAAA-T
13077777 ATAATATTAAT
1 ATAATATTAAT
13077788 TATATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 12 0.41
24 14 0.48
25 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (24 bp):
ATAATATTAATACGAATATAAAAT
Found at i:13077858 original size:37 final size:37
Alignment explanation
Indices: 13077787--13077910 Score: 126
Period size: 37 Copynumber: 3.2 Consensus size: 37
13077777 ATAATATTAA
*
13077787 TTATATATAAATTTAATA-AAATAAAAAAATTATATT
1 TTATATATAAATTTAATATAAATAATAAAATTATATT
* * *
13077823 TTATATTTTAATATTAATATAAATAATAACA-TATATT
1 TTATATATAAAT-TTAATATAAATAATAAAATTATATT
* *
13077860 TTTTATATAAATTATAATATAAATATATAAATTATAATATT
1 TTATATATAAATT-TAATATAAATA-ATAAA--ATTATATT
13077901 TTATACTATA
1 TTATA-TATA
13077911 CAAATACACA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
36 11 0.16
37 32 0.46
38 13 0.19
40 1 0.01
41 9 0.13
42 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (37 bp):
TTATATATAAATTTAATATAAATAATAAAATTATATT
Found at i:13078467 original size:13 final size:12
Alignment explanation
Indices: 13078450--13078484 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
13078440 TTTTCTATCA
*
13078450 ATTTTGATTTTT
1 ATTTTTATTTTT
13078462 ATTTTTAATTTTT
1 ATTTTT-ATTTTT
13078475 ATTTTTATTT
1 ATTTTTATTT
13078485 AATCAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:13078479 original size:5 final size:6
Alignment explanation
Indices: 13078450--13078484 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
13078440 TTTTCTATCA
*
13078450 ATTTTG ATTTTT ATTTTT AATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT -ATTTTT ATTTTT ATTT
13078485 AATCAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:13084833 original size:32 final size:32
Alignment explanation
Indices: 13084794--13084857 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13084784 TTGTTGTCTT
*
13084794 GTCATTTACAGTATAATCTTGTTTATAACCTC
1 GTCATTTACAGTATAATCTTGTCTATAACCTC
13084826 GTCATTTACAGTATAATCTTGTCTATAACCTC
1 GTCATTTACAGTATAATCTTGTCTATAACCTC
13084858 TCAACATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (32 bp):
GTCATTTACAGTATAATCTTGTCTATAACCTC
Found at i:13089425 original size:21 final size:21
Alignment explanation
Indices: 13089396--13089440 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13089386 ATTTTTATTT
* *
13089396 TATAAAAATTTAATATACATA
1 TATAAAAATTAAAAATACATA
* *
13089417 TATATAAATTAAAAATATATA
1 TATAAAAATTAAAAATACATA
13089438 TAT
1 TAT
13089441 GATTCGGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAATTAAAAATACATA
Found at i:13099012 original size:2 final size:2
Alignment explanation
Indices: 13099007--13099051 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13098997 TATATACTAA
13099007 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13099049 AG A
1 AG A
13099052 AAATAAAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13099373 original size:19 final size:20
Alignment explanation
Indices: 13099331--13099375 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13099321 TATTTTATTA
*
13099331 ATTAAAATAATAAAAAATAT
1 ATTAAAATAATAAAAAATAG
* *
13099351 ATTAAAAT-ATAAAAATTCG
1 ATTAAAATAATAAAAAATAG
13099370 ATTAAA
1 ATTAAA
13099376 TTTATGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
ATTAAAATAATAAAAAATAG
Found at i:13101155 original size:18 final size:18
Alignment explanation
Indices: 13101134--13101289 Score: 54
Period size: 18 Copynumber: 8.3 Consensus size: 18
13101124 ATATAATACG
13101134 AATATAAAATATAAATAT
1 AATATAAAATATAAATAT
**
13101152 AATATAATTTA-AAATTAT
1 AATATAAAATATAAA-TAT
13101170 AATATTAATTATATATAAAT-T
1 AATA-TAA--A-ATATAAATAT
* *
13101191 TA-ATAAAATA-AAAAAT
1 AATATAAAATATAAATAT
* * * *
13101207 TATATTATATATTTTAATAT
1 AATA-TA-AAATATAAATAT
13101227 CAATAT-AAATAATAACATAT
1 -AATATAAAAT-ATAA-ATAT
***
13101247 AAT-TTTTATATAAATTAT
1 AATATAAAATATAAA-TAT
13101265 AATATAAATATATAAATTAT
1 AATATAAA-ATATAAA-TAT
13101285 AATAT
1 AATAT
13101290 TTTATACCAT
Statistics
Matches: 101, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
15 3 0.03
16 6 0.06
17 6 0.06
18 32 0.32
19 17 0.17
20 26 0.26
21 5 0.05
22 3 0.03
23 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATAAAATATAAATAT
Found at i:13101178 original size:24 final size:24
Alignment explanation
Indices: 13101121--13101178 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
13101111 ATATGATACA
13101121 ATAATA-TAATACGAATATAAAAT
1 ATAATATTAATACGAATATAAAAT
* *
13101144 ATAA-ATATAATA-TAATTTAAAATT
1 ATAATAT-TAATACGAATATAAAA-T
13101168 ATAATATTAAT
1 ATAATATTAAT
13101179 TATATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 12 0.41
24 14 0.48
25 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATAATATTAATACGAATATAAAAT
Found at i:13101249 original size:25 final size:25
Alignment explanation
Indices: 13101221--13101275 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
13101211 TTATATATTT
13101221 TAATATCAATATAAATAATAACATA
1 TAATATCAATATAAATAATAACATA
* ** * *
13101246 TAATTTTTATATAAATTATAATATA
1 TAATATCAATATAAATAATAACATA
13101271 -AATAT
1 TAATAT
13101276 ATAAATTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATATCAATATAAATAATAACATA
Found at i:13107421 original size:30 final size:30
Alignment explanation
Indices: 13107387--13107446 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13107377 TGAACTATAC
* *
13107387 TTAAATATAATCATGCGATTTATTGAAAGA
1 TTAAAAATAATCATGCAATTTATTGAAAGA
*
13107417 TTAAAAATAATCGTGCAATTTATTGAAAGA
1 TTAAAAATAATCATGCAATTTATTGAAAGA
13107447 ATACTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (30 bp):
TTAAAAATAATCATGCAATTTATTGAAAGA
Found at i:13110307 original size:12 final size:12
Alignment explanation
Indices: 13110288--13110317 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13110278 GTGAGAAAGC
13110288 TAGCAGCGGCAG
1 TAGCAGCGGCAG
*
13110300 TGGCAGCGGCAG
1 TAGCAGCGGCAG
13110312 TAGCAG
1 TAGCAG
13110318 TAGCAGTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.43, T:0.10
Consensus pattern (12 bp):
TAGCAGCGGCAG
Found at i:13123776 original size:11 final size:11
Alignment explanation
Indices: 13123760--13123785 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13123750 CTTGGCAGGA
13123760 AGAACAAGAAC
1 AGAACAAGAAC
13123771 AGAACAAGAAC
1 AGAACAAGAAC
13123782 AGAA
1 AGAA
13123786 AATTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.15, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAACAAGAAC
Found at i:13124782 original size:19 final size:19
Alignment explanation
Indices: 13124760--13124812 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
13124750 TATATTTATA
13124760 TATTTAATAAATTAATTTT
1 TATTTAATAAATTAATTTT
*
13124779 TATTTAAT-AATATAAATTT
1 TATTTAATAAAT-TAATTTT
13124798 TATTT--TAAATTAATT
1 TATTTAATAAATTAATT
13124813 AAAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTAATAAATTAATTTT
Found at i:13124835 original size:25 final size:22
Alignment explanation
Indices: 13124765--13124835 Score: 52
Period size: 25 Copynumber: 2.9 Consensus size: 22
13124755 TTATATATTT
13124765 AATAAATTAATTTTTATTTAATAA
1 AATAAATT-A-TTTTATTTAATAA
* *
13124789 TATAAATTTTATTTTAAATTAATTAA
1 AATAAA--TTATTTT-ATTTAA-TAA
13124815 AATAAATATATTTATATTTAA
1 AATAAAT-TATTT-TATTTAA
13124836 AATTATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
24 10 0.27
25 16 0.43
26 11 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATAAATTATTTTATTTAATAA
Found at i:13124881 original size:20 final size:21
Alignment explanation
Indices: 13124851--13124891 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13124841 TATATTTAGA
* *
13124851 AAAAATATAAATATATAAAAT
1 AAAAATATAAAAAAATAAAAT
13124872 AAAAAT-TAAAAAAATAAAAT
1 AAAAATATAAAAAAATAAAAT
13124892 TATTTATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATATAAAAAAATAAAAT
Found at i:13128272 original size:11 final size:11
Alignment explanation
Indices: 13128251--13128293 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
13128241 TTTTCGTATT
*
13128251 TTATTTTTATA
1 TTATATTTATA
*
13128262 TCATATTTATA
1 TTATATTTATA
13128273 TTATATTATCATA
1 TTATATT-T-ATA
13128286 TTATATTT
1 TTATATTT
13128294 TAAATTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 15 0.56
12 2 0.07
13 10 0.37
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTTATA
Found at i:13128302 original size:20 final size:19
Alignment explanation
Indices: 13128260--13128303 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
13128250 TTTATTTTTA
*
13128260 TATCATATTTATATTATAT
1 TATCATATTTATATTAAAT
*
13128279 TATCATATTATATTTTAAAT
1 TATCATATT-TATATTAAAT
13128299 TATCA
1 TATCA
13128304 AATCTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
TATCATATTTATATTAAAT
Found at i:13130276 original size:31 final size:31
Alignment explanation
Indices: 13130241--13130312 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
13130231 GTCATATTTT
13130241 ATACGAAAATTACTTATCACAATTTATATCG
1 ATACGAAAATTACTTATCACAATTTATATCG
13130272 ATACGAAAATTACTTATCACAATTTATATCG
1 ATACGAAAATTACTTATCACAATTTATATCG
13130303 ATACGAAAAT
1 ATACGAAAAT
13130313 ATTAAATTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (31 bp):
ATACGAAAATTACTTATCACAATTTATATCG
Found at i:13133252 original size:20 final size:20
Alignment explanation
Indices: 13133227--13133266 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13133217 TGAATTAAAA
13133227 ACTTGTGTGAAAAACTTAAT
1 ACTTGTGTGAAAAACTTAAT
13133247 ACTTGTGTGAAAAACTTAAT
1 ACTTGTGTGAAAAACTTAAT
13133267 GAGATGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
ACTTGTGTGAAAAACTTAAT
Found at i:13134771 original size:3 final size:3
Alignment explanation
Indices: 13134763--13134808 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
13134753 ATTTTTTAAA
* ** *
13134763 ATT ATT ATT ATT ATT ATT AAT ATT ATT ATT AAA ATT ATT GTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13134809 AATTGAAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:13135722 original size:111 final size:111
Alignment explanation
Indices: 13135507--13135909 Score: 444
Period size: 111 Copynumber: 3.6 Consensus size: 111
13135497 ATGCAAATTA
** *
13135507 AAAAGATAAAAGAGACTGGGATTAAACCACAAGTCA-GAAAAATA-ATGAAATGATCGGGATTAA
1 AAAAGATAAAAGAGACTGGGATTAAACCGTAAGTCAGGAAAACTATA-GAAATGATCGGGATTAA
* * * * * *
13135570 ACCATGAGTCA-AATATTGACAACAACTGGGATTGAACCACAAGTTAG
65 ACCACGAGTGAGAAAAATAAAAACAACT-GGATTGAACCACAAGTTAG
*
13135617 AAAA-ATAAAAGAGACTGGGATTAAACCGTAAGTTAGGAAAACTATAGAAATGATCGGGATTAAA
1 AAAAGATAAAAGAGACTGGGATTAAACCGTAAGTCAGGAAAACTATAGAAATGATCGGGATTAAA
13135681 CCACGAGTGAGAAAAATAAAAACAACTAGGATTGAACCACAAGTTA-
66 CCACGAGTGAGAAAAATAAAAACAACT-GGATTGAACCACAAGTTAG
* * * *
13135727 AAAAGATAAAAGAAATTGAGATTAAACCGTAAGTCAGGAAAACTATAGAAATGATTGAGGATTAA
1 AAAAGATAAAAGAGACTGGGATTAAACCGTAAGTCAGGAAAACTATAGAAATGATCG-GGATTAA
** * * *
13135792 ACCACGAGTGAGAAAAATAAAAATGACTGGAATTAAACCACGAGTCAG
65 ACCACGAGTGAGAAAAATAAAAACAACTGG-ATTGAACCACAAGTTAG
* * * * ** * *
13135840 ---GGATTAAAGATGACTGGGACTAAACCGTAAGTAAAAAAAACTATAGAAATGATTGAGATTAA
1 AAAAGATAAAAGA-GACTGGGATTAAACCGTAAGTCAGGAAAACTATAGAAATGATCGGGATTAA
*
13135902 ATCACGAG
65 ACCACGAG
13135910 CCAAAGATTA
Statistics
Matches: 253, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
109 28 0.11
110 62 0.25
111 117 0.46
112 46 0.18
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.19
Consensus pattern (111 bp):
AAAAGATAAAAGAGACTGGGATTAAACCGTAAGTCAGGAAAACTATAGAAATGATCGGGATTAAA
CCACGAGTGAGAAAAATAAAAACAACTGGATTGAACCACAAGTTAG
Found at i:13135833 original size:36 final size:36
Alignment explanation
Indices: 13135507--13135865 Score: 185
Period size: 36 Copynumber: 9.8 Consensus size: 36
13135497 ATGCAAATTA
13135507 AAAAGATAAAAGA-GACTGGGATTAAACCACAAGTCAG
1 AAAA-ATAAAA-ATGACTGGGATTAAACCACAAGTCAG
**
13135544 AAAAATAATGAAATGA-TCGGGATTAAACCATGAGTCA-
1 AAAAATAA--AAATGACT-GGGATTAAACCACAAGTCAG
* * * * ** * *
13135581 AATATTGACAACAACTGGGATTGAACCACAAGTTAG
1 AAAAATAAAAATGACTGGGATTAAACCACAAGTCAG
** *
13135617 AAAAATAAAAGA-GACTGGGATTAAACCGTAAGTTAGG
1 AAAAATAAAA-ATGACTGGGATTAAACCACAAGTCA-G
* * *
13135654 AAAACTATAGAAATGA-TCGGGATTAAACCACGAGTGAG
1 AAAA--ATAAAAATGACT-GGGATTAAACCACAAGTCAG
** * * *
13135692 AAAAATAAAAACAACTAGGATTGAACCACAAGTTA-
1 AAAAATAAAAATGACTGGGATTAAACCACAAGTCAG
* * * **
13135727 AAAAGATAAAAGA-AATTGAGATTAAACCGTAAGTCAGG
1 AAAA-ATAAAA-ATGACTGGGATTAAACCACAAGTCA-G
* * * *
13135765 AAAACTATAGAAATGATTGAGGATTAAACCACGAGTGAG
1 AAAA--ATAAAAATGACTG-GGATTAAACCACAAGTCAG
* *
13135804 AAAAATAAAAATGACTGGAATTAAACCACGAGTCAG
1 AAAAATAAAAATGACTGGGATTAAACCACAAGTCAG
** * * *
13135840 -GGATTAAAGATGACTGGGACTAAACC
1 AAAAATAAAAATGACTGGGATTAAACC
13135866 GTAAGTAAAA
Statistics
Matches: 245, Mismatches: 57, Indels: 42
0.71 0.17 0.12
Matches are distributed among these distances:
35 42 0.17
36 91 0.37
37 30 0.12
38 33 0.13
39 36 0.15
40 13 0.05
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (36 bp):
AAAAATAAAAATGACTGGGATTAAACCACAAGTCAG
Found at i:13138532 original size:28 final size:28
Alignment explanation
Indices: 13138492--13138552 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
13138482 AAAGGGAGTC
13138492 GCCACTAATCTTTGTTAGGGTGTGATTG
1 GCCACTAATCTTTGTTAGGGTGTGATTG
13138520 GCCACTAATCTTTGTTAGGGTGTGATTG
1 GCCACTAATCTTTGTTAGGGTGTGATTG
13138548 GCCAC
1 GCCAC
13138553 CTAAAAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (28 bp):
GCCACTAATCTTTGTTAGGGTGTGATTG
Found at i:13139697 original size:3 final size:3
Alignment explanation
Indices: 13139691--13139723 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13139681 ATAATTATTC
13139691 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13139724 CTTAAGCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13145322 original size:26 final size:26
Alignment explanation
Indices: 13145293--13145346 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
13145283 GAATATTTAG
* *
13145293 ATAAACTGTGCTTCTTGTGTCTGGAT
1 ATAAACCGTGCTTCTTGTGTCTGCAT
*
13145319 ATAATCCGTGCTTCTTGTGTCTGCAT
1 ATAAACCGTGCTTCTTGTGTCTGCAT
13145345 AT
1 AT
13145347 CCATATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
ATAAACCGTGCTTCTTGTGTCTGCAT
Found at i:13146798 original size:3 final size:3
Alignment explanation
Indices: 13146790--13146816 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13146780 TTCATTTAAT
13146790 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
13146817 AAACGCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13147055 original size:15 final size:15
Alignment explanation
Indices: 13147024--13147061 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
13147014 TACAATTTAA
13147024 TTTTAATTATAAAAT
1 TTTTAATTATAAAAT
13147039 TTTT-ATT-TAAAAT
1 TTTTAATTATAAAAT
13147052 ATTTTAATTA
1 -TTTTAATTA
13147062 AGTAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAATTATAAAAT
Found at i:13147760 original size:25 final size:25
Alignment explanation
Indices: 13147726--13147774 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
13147716 TAATAATAAA
13147726 AATTATTATAATTGTAATTAAAAAT
1 AATTATTATAATTGTAATTAAAAAT
*
13147751 AATTATTATAATTGTGATTAAAAA
1 AATTATTATAATTGTAATTAAAAA
13147775 AAAATTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (25 bp):
AATTATTATAATTGTAATTAAAAAT
Found at i:13154708 original size:28 final size:28
Alignment explanation
Indices: 13154677--13154732 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13154667 TTTAGATTTT
*
13154677 TTTTTTAATAT-TTAAATATTTTTTTTAA
1 TTTTTT-ATATCTTAAATATTTTCTTTAA
*
13154705 TTTTTTATTTCTTAAATATTTTCTTTAA
1 TTTTTTATATCTTAAATATTTTCTTTAA
13154733 CCATGATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTTTATATCTTAAATATTTTCTTTAA
Found at i:13155371 original size:22 final size:22
Alignment explanation
Indices: 13155320--13155372 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
13155310 TAGATCGTAT
**
13155320 CACATGATATTTATGATTTGTA
1 CACATGATATTTATGATAAGTA
**
13155342 CATGTGATATTTATG-TAAAGTA
1 CACATGATATTTATGAT-AAGTA
13155364 CACATGATA
1 CACATGATA
13155373 ATAACGTGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
CACATGATATTTATGATAAGTA
Found at i:13162668 original size:2 final size:2
Alignment explanation
Indices: 13162661--13162700 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13162651 CCTCAAATAG
13162661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13162701 CATGAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13165080 original size:32 final size:32
Alignment explanation
Indices: 13165031--13165129 Score: 105
Period size: 31 Copynumber: 3.1 Consensus size: 32
13165021 TGTCAATTCA
*
13165031 TATATTTAATATTAAAATTTAAATATTTATAT
1 TATATTTAATATAAAAATTTAAATATTTATAT
* *
13165063 TATATTTTATATAAAAA-TTATATA-TTATAAT
1 TATATTTAATATAAAAATTTAAATATTTAT-AT
* *
13165094 T-TATATTAATATAAAAATATAAAATATTTATTT
1 TATAT-TTAATATAAAAAT-TTAAATATTTATAT
13165127 TAT
1 TAT
13165130 TAAAATTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
30 7 0.13
31 20 0.37
32 15 0.28
33 7 0.13
34 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATTTAATATAAAAATTTAAATATTTATAT
Found at i:13165086 original size:25 final size:24
Alignment explanation
Indices: 13165050--13165099 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
13165040 TATTAAAATT
* *
13165050 TAAATATTTATATTATATTTTATA
1 TAAAAATTTATATTATAATTTATA
13165074 TAAAAATTATATATTATAATTTATA
1 TAAAAATT-TATATTATAATTTATA
13165099 T
1 T
13165100 TAATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAAAATTTATATTATAATTTATA
Found at i:13165133 original size:25 final size:29
Alignment explanation
Indices: 13165059--13165145 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 29
13165049 TTAAATATTT
*
13165059 ATATTATATTTTATATAAAAATTATATATT
1 ATATT-TATTTTATATAAAAATTATATATA
*
13165089 ATAATTTATATTAATATAAAAA-TATA-A-A
1 AT-ATTTAT-TTTATATAAAAATTATATATA
*
13165117 ATATTTATTTTAT-TAAAATTTA-ATATA
1 ATATTTATTTTATATAAAAATTATATATA
13165144 AT
1 AT
13165146 TATAATTACA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
25 6 0.12
26 7 0.15
27 9 0.19
28 2 0.04
29 1 0.02
30 9 0.19
31 14 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATTTATTTTATATAAAAATTATATATA
Found at i:13176216 original size:86 final size:87
Alignment explanation
Indices: 13176050--13176216 Score: 273
Period size: 86 Copynumber: 1.9 Consensus size: 87
13176040 CATACTCTTA
* *
13176050 TTTGAAAGTTTTCGAATGTAAAGCATTCATGCATGTGTCGAAGAGAGTAGAGGTCAAAGCTTGAT
1 TTTGAAAGTTTTCGAATGTAAAACATTCATGCATGTGTCGAAGAGAGCAGAGGTCAAAGCTTGAT
13176115 AGTAAAATCACACACTATGTGT
66 AGTAAAATCACACACTATGTGT
** * *
13176137 TTTGAAAGTTTTCGGGTGTAAAACATTCATGCATGTGTTG-AGAGAGCAGATGTCAAAGCTTGAT
1 TTTGAAAGTTTTCGAATGTAAAACATTCATGCATGTGTCGAAGAGAGCAGAGGTCAAAGCTTGAT
13176201 AGTAAAATCACACACT
66 AGTAAAATCACACACT
13176217 GTGTTTGTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
86 38 0.51
87 36 0.49
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (87 bp):
TTTGAAAGTTTTCGAATGTAAAACATTCATGCATGTGTCGAAGAGAGCAGAGGTCAAAGCTTGAT
AGTAAAATCACACACTATGTGT
Found at i:13182384 original size:2 final size:2
Alignment explanation
Indices: 13182379--13182416 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13182369 TGTGTGTGTG
*
13182379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13182417 CTCAAATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13186666 original size:2 final size:2
Alignment explanation
Indices: 13186659--13186705 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
13186649 AGATAAGGAG
13186659 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13186701 GA GA G
1 GA GA G
13186706 CTTGAATGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13193353 original size:24 final size:23
Alignment explanation
Indices: 13193303--13193357 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
13193293 TTGATTTAAC
*
13193303 ATAAT-AATTAATTTTTTATTAT
1 ATAATAAATGAATTTTTTATTAT
13193325 ATAATAAATGAATTTTATTATTAT
1 ATAATAAATGAATTTT-TTATTAT
*
13193349 CTAATAAAT
1 ATAATAAAT
13193358 ATTATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.17
23 9 0.31
24 15 0.52
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATAATAAATGAATTTTTTATTAT
Found at i:13193368 original size:21 final size:22
Alignment explanation
Indices: 13193303--13193368 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 22
13193293 TTGATTTAAC
* *
13193303 ATAATAATTAATTTTTTATTAT
1 ATAATAAATAATTATTTATTAT
*
13193325 ATAATAAATGAATTTTATTATTAT
1 ATAATAAAT-AATTAT-TTATTAT
*
13193349 CTAATAAAT-ATTATTTATTA
1 ATAATAAATAATTATTTATTA
13193369 ATATTTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.15
22 12 0.31
23 6 0.15
24 15 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATAAATAATTATTTATTAT
Found at i:13201801 original size:299 final size:295
Alignment explanation
Indices: 13201091--13201980 Score: 1598
Period size: 294 Copynumber: 3.0 Consensus size: 295
13201081 TATTCATTTT
13201091 ATCTGTTGACATCTATGCTGATGTATTTCATTACAATTGGCAACAGCGGTTGTGGAGATAGAAGC
1 ATCTGTTGACATCTATGCTGATGTATTTCATTACAATTGGCAACAGCGGTTGTGGAGATAGAAGC
*
13201156 TGCAGCAGAAGTTTCTATTGTTCTTGACAAGGGAACTTGAT-CTTTTCTTTTTTTTAAAGAGTGG
66 TGCAGCAGAAGTTTCTATTGTTCTTGACAAGGGAACTTGATCCTTTTTTTTTTTTTAAAGAGTGG
13201220 ATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATGGTTTGGC
131 ATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATGGTTTGGC
13201285 CGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTTGTCTCGGGGCAATTAATGAAGC
196 CGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAG-TTTGTCTC-GGGCAATTAATGAAGC
13201350 TGAAGATGAG-TGAGCCAGCAAAACGCCACAGAACTTG
259 TGAAGATGAGTTGAGCCAGCAAAACGCCA-AGAACTTG
*
13201387 ATCTG-TGACATCTATGCTTGACGTATTTCATTTACAATTGGCAACAGCGCGTTTGTGGAG-TAG
1 ATCTGTTGACATCTATGC-TGATGTATTTCA-TTACAATTGGCAACAGCG-G-TTGTGGAGATAG
13201450 -AGCTGCAGGCAGAAGTTTCTATT-TTCTTGAC-AGGGAAACTTGATCCTTTTTTTTTTTTTTAA
62 AAGCTGCA-GCAGAAGTTTCTATTGTTCTTGACAAGGG-AACTTGATCC-TTTTTTTTTTTTTAA
13201512 AGAGTGGATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATG
124 AGAGTGGATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATG
*
13201577 GTTTGGCCGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTGTCTTGGGCAATTAAT
189 GTTTGGCCGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTGTCTCGGGCAATTAAT
13201642 GAAGCTGAAGATGAGTTGAGCCAGCAAAACGCCAAGAACTTG
254 GAAGCTGAAGATGAGTTGAGCCAGCAAAACGCCAAGAACTTG
13201684 ATCTGTTGACATCTATGCTGATGTATTTCATTACAATTGGCAACAGCGGTTGTGGAGATAGAAGC
1 ATCTGTTGACATCTATGCTGATGTATTTCATTACAATTGGCAACAGCGGTTGTGGAGATAGAAGC
13201749 TGCAGCAGAAGTTTCTATTGTTCTTGACAAGGGAACTTGATCC-TTTTTTTTTTTTAAAGAGTGG
66 TGCAGCAGAAGTTTCTATTGTTCTTGACAAGGGAACTTGATCCTTTTTTTTTTTTTAAAGAGTGG
13201813 ATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATGGTTTGGC
131 ATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATGGTTTGGC
13201878 CGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTGTCTCGGGCAATTAATGAAGCTG
196 CGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTGTCTCGGGCAATTAATGAAGCTG
*
13201943 AAGATGAGTTGAGCCAGCAAAACGCCAAGAACCTG
261 AAGATGAGTTGAGCCAGCAAAACGCCAAGAACTTG
13201978 ATC
1 ATC
13201981 GACACAAGTG
Statistics
Matches: 574, Mismatches: 6, Indels: 30
0.94 0.01 0.05
Matches are distributed among these distances:
294 195 0.34
295 31 0.05
296 63 0.11
297 95 0.17
298 57 0.10
299 133 0.23
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (295 bp):
ATCTGTTGACATCTATGCTGATGTATTTCATTACAATTGGCAACAGCGGTTGTGGAGATAGAAGC
TGCAGCAGAAGTTTCTATTGTTCTTGACAAGGGAACTTGATCCTTTTTTTTTTTTTAAAGAGTGG
ATAGATGGTTAAGATCGACTCAGCTGTGTAGCAATAAACTGTGCATTTTCATGTTATGGTTTGGC
CGGAGTGCTTTTGTCATCCATGTGATTCTAAAAGCGAAGTTTGTCTCGGGCAATTAATGAAGCTG
AAGATGAGTTGAGCCAGCAAAACGCCAAGAACTTG
Found at i:13202255 original size:21 final size:22
Alignment explanation
Indices: 13202225--13202271 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13202215 TATTGAGTTA
* *
13202225 AATTTAAAT-ATTTTTATATTT
1 AATTTAAATAATTTATAAATTT
*
13202246 AATTTGAATAATTTATAAATTT
1 AATTTAAATAATTTATAAATTT
13202268 AATT
1 AATT
13202272 CTAGCTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTAAATAATTTATAAATTT
Found at i:13202553 original size:18 final size:18
Alignment explanation
Indices: 13202530--13202568 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13202520 AAAACTTTCA
13202530 CAAATTATGGTGAGAATT
1 CAAATTATGGTGAGAATT
* *
13202548 CAAATTATTGTTAGAATT
1 CAAATTATGGTGAGAATT
13202566 CAA
1 CAA
13202569 TGGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (18 bp):
CAAATTATGGTGAGAATT
Found at i:13206185 original size:24 final size:23
Alignment explanation
Indices: 13206158--13206205 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
13206148 GGGATTTGAC
13206158 ACTGGAGTTGAAACTAGAATAGAA
1 ACTGGAGTTGAAACTAGAAT-GAA
* *
13206182 ACTGGATTTGAAACTGGAATGAA
1 ACTGGAGTTGAAACTAGAATGAA
13206205 A
1 A
13206206 ATTAGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (23 bp):
ACTGGAGTTGAAACTAGAATGAA
Found at i:13206194 original size:12 final size:12
Alignment explanation
Indices: 13206149--13206199 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
13206139 AACATTGACG
*
13206149 GGATTTGACACT
1 GGATTTGAAACT
*
13206161 GGAGTTGAAACT
1 GGATTTGAAACT
* * *
13206173 AGAATAGAAACT
1 GGATTTGAAACT
13206185 GGATTTGAAACT
1 GGATTTGAAACT
13206197 GGA
1 GGA
13206200 ATGAAAATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (12 bp):
GGATTTGAAACT
Found at i:13208944 original size:33 final size:34
Alignment explanation
Indices: 13208885--13209022 Score: 124
Period size: 33 Copynumber: 4.1 Consensus size: 34
13208875 TATCTTTTTG
* * * * * *
13208885 CCTTAAAGACATATTC-ATTTCCTACCCTTACTG
1 CCTTAAATACATCTTCAATCTCTTACCCTTGCTT
*
13208918 CTTTAAATACATCTTCAATCT-TTACCCTTGCTT
1 CCTTAAATACATCTTCAATCTCTTACCCTTGCTT
* * *
13208951 CCTCAATTACATCTTC-ATTTCTTACCCTTGCTT
1 CCTTAAATACATCTTCAATCTCTTACCCTTGCTT
*
13208984 CCTTGAATACATCTTCAAT-TCTTATCCCTT-CATT
1 CCTTAAATACATCTTCAATCTCTTA-CCCTTGC-TT
13209018 CCTTA
1 CCTTA
13209023 CTGCCTCAGC
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
32 3 0.04
33 66 0.78
34 16 0.19
ACGTcount: A:0.23, C:0.30, G:0.04, T:0.43
Consensus pattern (34 bp):
CCTTAAATACATCTTCAATCTCTTACCCTTGCTT
Found at i:13209098 original size:41 final size:42
Alignment explanation
Indices: 13209012--13209117 Score: 162
Period size: 41 Copynumber: 2.5 Consensus size: 42
13209002 TTCTTATCCC
*
13209012 TTCATTCCTTACTGCCTCAGCTATATATTGATTTTTTACCAT
1 TTCATTCCTTACTACCTCAGCTATATATTGATTTTTTACCAT
*
13209054 TTCATTCCTTACTACCTCAGCTA-ATATTGATTTTTTACCCT
1 TTCATTCCTTACTACCTCAGCTATATATTGATTTTTTACCAT
*
13209095 TTCATTTCC-TACCACCTCAGCTA
1 TTCA-TTCCTTACTACCTCAGCTA
13209118 CATCTTTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
41 34 0.57
42 26 0.43
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (42 bp):
TTCATTCCTTACTACCTCAGCTATATATTGATTTTTTACCAT
Found at i:13210169 original size:176 final size:173
Alignment explanation
Indices: 13209867--13210402 Score: 591
Period size: 176 Copynumber: 3.1 Consensus size: 173
13209857 TTTTTTTCGA
* * * * *
13209867 TGTTATTTTGTTATTAGAATTAGAATTTATATGATTGACTTGATGTCTCGATTTGGTAAT-ATTT
1 TGTTTTTTTGTTCTGAGAATTAGAATTCACATGATTGACTTGATGTCT-GATTTGGTAATGA-TT
* * * * *
13209931 TTGGAAAAATAATTTATAAAGTGAACTTGAGGTTGTGAACATACTTATACTTGATCTTGGTTATA
64 TTGGCAAGATAATTTATAAAGTGGACTTAAGGTTGTGAACATACTTATACTTAATCTTGGTTATA
*
13209996 TTTTTGATGATTTTGTAGCTAGTTATGTGGATATTCTTCTCATCTG
129 TTTTT-ATGATTTTGTGGCTAGTTATGTGGATATTCTTCTCATCTG
*
13210042 TGTTTTTTTGTTCTCGA-AATTAGAATTCACGTGATTGACTTGATGTACTGATTTGGTAATGCAT
1 TGTTTTTTTGTTCT-GAGAATTAGAATTCACATGATTGACTTGATGT-CTGATTTGGTAATG-AT
* *
13210106 TTTGGCAAGATAATTTATAAAGTGGACTTAAGGTTGTGAACATGCTTATACTTAATATTGGTTAT
63 TTTGGCAAGATAATTTATAAAGTGGACTTAAGGTTGTGAACATACTTATACTTAATCTTGGTTAT
* * * * *
13210171 ATTTCTTATGATTTTGTGGTTGGTTCTATGGATATTTTTCTCATC--
128 ATTT-TTATGATTTTGTGGCTAGTTATGTGGATATTCTTCTCATCTG
* * * * * * * * *
13210216 TATATTATTGTCCTTAGAATTAGAGTTCACATTATTTACTTGATGT-TGTTATTTGGTAATGTTT
1 TGTTTTTTTGTTCTGAGAATTAGAATTCACATGATTGACTTGATGTCTG--ATTTGGTAATGATT
* * * * *
13210280 TTGACAAGATAATTTATAAAGTGGACTTGAA-GTTATGAACATATTTATTCTTAATCTTTGTTAT
64 TTGGCAAGATAATTTATAAAGTGGACTT-AAGGTTGTGAACATACTTATACTTAATCTTGGTTAT
* *
13210344 ATTTCTAATGATTTTGTGGCTAGTTATGTGGATATTCCTT-TCATATG
128 ATTT-TTATGATTTTGTGGCTAGTTATGTGGATATT-CTTCTCATCTG
*
13210391 TGTTATTTTGTT
1 TGTTTTTTTGTT
13210403 ATTGGACTGC
Statistics
Matches: 301, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
172 2 0.01
173 92 0.31
174 50 0.17
175 56 0.19
176 98 0.33
177 3 0.01
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (173 bp):
TGTTTTTTTGTTCTGAGAATTAGAATTCACATGATTGACTTGATGTCTGATTTGGTAATGATTTT
GGCAAGATAATTTATAAAGTGGACTTAAGGTTGTGAACATACTTATACTTAATCTTGGTTATATT
TTTATGATTTTGTGGCTAGTTATGTGGATATTCTTCTCATCTG
Found at i:13213450 original size:14 final size:15
Alignment explanation
Indices: 13213431--13213459 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13213421 ACTGCTGCAA
13213431 TGAAGA-TTAATTCT
1 TGAAGATTTAATTCT
13213445 TGAAGATTTAATTCT
1 TGAAGATTTAATTCT
13213460 AAATTATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (15 bp):
TGAAGATTTAATTCT
Done.