Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 35 of 50
Found at i:15523487 original size:4 final size:4
Alignment explanation
Indices: 15523400--15523496 Score: 77
Period size: 4 Copynumber: 24.2 Consensus size: 4
15523390 AAAACAAATG
* * * * * * *
15523400 GTGT GTGT GCGT GTGC GCGC GTGC GTGC GTGC GTGT GTGT GTGT GTGT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
* * * * * *
15523448 GCGT GTGC GTGT GCGT GTGC GTGT GTGC GTGC GTGT GTGT GTGT GTGT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
15523496 G
1 G
15523497 AACTGAATCT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.00, C:0.13, G:0.51, T:0.36
Consensus pattern (4 bp):
GTGT
Found at i:15531357 original size:77 final size:77
Alignment explanation
Indices: 15531230--15531384 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
15531220 TGGATAACTG
*
15531230 CCCTAGTGCAGTACAATGACAATTATATTAAATAACAAATCTTCCAAAATCTTCCTTCCCGGGCG
1 CCCTAGTGCAGTACAATGACAATTATATTAAATAACAAATCTTCCAAAATCTTCCTTCCCCGGCG
*
15531295 TCAATTTTCATT
66 TCAATATTCATT
*
15531307 CCCTAGTGCAGTACAATGACAATTATATTAAATAACAAATCTTCCAAAATCTTCCTTCCCCGGTG
1 CCCTAGTGCAGTACAATGACAATTATATTAAATAACAAATCTTCCAAAATCTTCCTTCCCCGGCG
15531372 TCAATATTCATT
66 TCAATATTCATT
15531384 C
1 C
15531385 TTCCTCTCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (77 bp):
CCCTAGTGCAGTACAATGACAATTATATTAAATAACAAATCTTCCAAAATCTTCCTTCCCCGGCG
TCAATATTCATT
Found at i:15532910 original size:28 final size:28
Alignment explanation
Indices: 15532878--15532937 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
15532868 ACATTGGAAA
15532878 TTTGTTATGTTCTTATACAAAGGTGGCG
1 TTTGTTATGTTCTTATACAAAGGTGGCG
15532906 TTTGTTATGTTCTTATACAAAGGTGGCG
1 TTTGTTATGTTCTTATACAAAGGTGGCG
15532934 TTTG
1 TTTG
15532938 GAATGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (28 bp):
TTTGTTATGTTCTTATACAAAGGTGGCG
Found at i:15551845 original size:21 final size:21
Alignment explanation
Indices: 15551785--15551846 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
15551775 AGCAGTTGGT
*
15551785 TGAGATTTGAGATTGAGAATG
1 TGAGATTTGAGATTGAGAGTG
* * *
15551806 TGAAATTTTTA-ATTTAGAGTG
1 TGAGA-TTTGAGATTGAGAGTG
15551827 TGAGATTTGAGATTGAGAGT
1 TGAGATTTGAGATTGAGAGT
15551847 AATTTCGTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (21 bp):
TGAGATTTGAGATTGAGAGTG
Found at i:15553500 original size:25 final size:25
Alignment explanation
Indices: 15553462--15553515 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
15553452 AAATAAAAAA
*
15553462 TAAAAATTCATATTAA-ACTTTTAAT
1 TAAAAATTCATATTAATA-TTTTAAG
**
15553487 TAAAAATTTTTATTAATATTTTAAG
1 TAAAAATTCATATTAATATTTTAAG
15553512 TAAA
1 TAAA
15553516 TTATAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
TAAAAATTCATATTAATATTTTAAG
Found at i:15553848 original size:21 final size:21
Alignment explanation
Indices: 15553835--15553875 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15553825 TTTAAGATAT
15553835 TTTAATTCAAATTTTATAAATA
1 TTTAATTCAAA-TTTATAAATA
*
15553857 TTTAATTAAAATTT-TAAAT
1 TTTAATTCAAATTTATAAAT
15553876 TATTATACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTCAAATTTATAAATA
Found at i:15553995 original size:18 final size:17
Alignment explanation
Indices: 15553974--15554029 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
15553964 AATTATATAT
15553974 ATTAATAAAAAAAATTAA
1 ATTAATAAAAAAAATT-A
* *
15553992 ATTAATAAATTAAAATTT
1 ATTAATAAA-AAAAATTA
15554010 ATTAAT--AAAAAATTA
1 ATTAATAAAAAAAATTA
15554025 ATTAA
1 ATTAA
15554030 AATTTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 11 0.33
16 1 0.03
18 15 0.45
19 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAATAAAAAAAATTA
Found at i:15565309 original size:20 final size:22
Alignment explanation
Indices: 15565276--15565319 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
15565266 GGTCGTGACA
15565276 TAATATATATAAAATTAATATT
1 TAATATATATAAAATTAATATT
*
15565298 TAATAT-TA-AAAATTATTATT
1 TAATATATATAAAATTAATATT
15565318 TA
1 TA
15565320 TAATCGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATATATAAAATTAATATT
Found at i:15565615 original size:6 final size:6
Alignment explanation
Indices: 15565601--15565636 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
15565591 AGACACCAAA
*
15565601 CAAAAC CAAACC CAAACC CAAACC CAAACC CAAACC
1 CAAACC CAAACC CAAACC CAAACC CAAACC CAAACC
15565637 ATAAAACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:15570170 original size:41 final size:41
Alignment explanation
Indices: 15570113--15570191 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
15570103 TGTGACAATT
*
15570113 CTATTCTATTACATATGAGAATGCATTCAAAACAAACCATA
1 CTATTCTATTACATATGAGAATACATTCAAAACAAACCATA
* *
15570154 CTATTTTATTACATATGATAATACATTCAAAACAAACC
1 CTATTCTATTACATATGAGAATACATTCAAAACAAACC
15570192 GTTTCTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (41 bp):
CTATTCTATTACATATGAGAATACATTCAAAACAAACCATA
Found at i:15574737 original size:24 final size:24
Alignment explanation
Indices: 15574719--15574769 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 24
15574709 TTTCTACTTG
15574719 TTTTTTTCTTTCTCATTCTATCTC
1 TTTTTTTCTTTCTCATTCTATCTC
*
15574743 TTTTTTTCTTT-TC-TT-TTTCTC
1 TTTTTTTCTTTCTCATTCTATCTC
15574764 TTTTTT
1 TTTTTT
15574770 CATACGGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 2 0.08
23 2 0.08
24 11 0.42
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTCTTTCTCATTCTATCTC
Found at i:15586581 original size:29 final size:30
Alignment explanation
Indices: 15586533--15586601 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 30
15586523 ACATTCAATC
15586533 AAATTTTTATATTTTTA-TTTAAATCT-AAT
1 AAATTTTTATATTTTTATTTTAAA-CTAAAT
15586562 AAATTTTTATATTTTTATTTTAAACTAAAT
1 AAATTTTTATATTTTTATTTTAAACTAAAT
*
15586592 AATTTTTTAT
1 AAATTTTTAT
15586602 GACCAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 19 0.51
30 18 0.49
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
AAATTTTTATATTTTTATTTTAAACTAAAT
Found at i:15591459 original size:2 final size:2
Alignment explanation
Indices: 15591454--15591503 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
15591444 ATGTACAAAG
15591454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15591496 AT AT AT AT
1 AT AT AT AT
15591504 TGCAATGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15592248 original size:33 final size:33
Alignment explanation
Indices: 15592211--15592273 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
15592201 TAGCATATTC
15592211 TATCATCATCAATTATGATATATTAACATGTCA
1 TATCATCATCAATTATGATATATTAACATGTCA
* *
15592244 TATCATCATCAATTATGATATTTTAGCATG
1 TATCATCATCAATTATGATATATTAACATG
15592274 CCACGTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (33 bp):
TATCATCATCAATTATGATATATTAACATGTCA
Found at i:15592387 original size:30 final size:30
Alignment explanation
Indices: 15592351--15592425 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
15592341 AGTTTATTTT
*
15592351 ACTCAAAATAAAAGTAC-AATGACTTATGTG
1 ACTCAAAATAAAAGTACAAAAG-CTTATGTG
* * *
15592381 ACTCAAAATAAAAATATAAAAGCTTATTTG
1 ACTCAAAATAAAAGTACAAAAGCTTATGTG
*
15592411 GCTCAAAATAAAAGT
1 ACTCAAAATAAAAGT
15592426 TTAAGAGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.27
Consensus pattern (30 bp):
ACTCAAAATAAAAGTACAAAAGCTTATGTG
Found at i:15616389 original size:16 final size:16
Alignment explanation
Indices: 15616368--15616406 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15616358 AGTTTAAGGG
*
15616368 AATAAAATAAATAA-AT
1 AATAAAAT-AATAAGAA
15616384 AATAAAATAATAAGAA
1 AATAAAATAATAAGAA
15616400 AATAAAA
1 AATAAAA
15616407 GAATTGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AATAAAATAATAAGAA
Found at i:15617056 original size:16 final size:16
Alignment explanation
Indices: 15617035--15617070 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
15617025 AAAGAAACTG
15617035 GAAAAAAAGAAAGAA-A
1 GAAAAAAA-AAAGAAGA
15617051 GAAAAAAAAAAGAAGA
1 GAAAAAAAAAAGAAGA
15617067 GAAA
1 GAAA
15617071 GTGGGCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAGAAGA
Found at i:15617090 original size:24 final size:24
Alignment explanation
Indices: 15617063--15617112 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
15617053 AAAAAAAAAG
15617063 AAGAGAAAG-TGGGCATAGCCCAAT
1 AAGA-AAAGATGGGCATAGCCCAAT
*
15617087 AAGAAAAGAATGGGCATGGCCCAAT
1 AAGAAAAG-ATGGGCATAGCCCAAT
15617112 A
1 A
15617113 GGAAGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 15 0.65
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (24 bp):
AAGAAAAGATGGGCATAGCCCAAT
Found at i:15617132 original size:24 final size:26
Alignment explanation
Indices: 15617079--15617133 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
15617069 AAGTGGGCAT
*
15617079 AGCCCAATAAGAAAAGAATGGGCATG
1 AGCCCAATAAGAAAAGAATGGGCAAG
* *
15617105 -GCCCAATAGGAAGA-AATGGG-AAG
1 AGCCCAATAAGAAAAGAATGGGCAAG
15617128 AGCCCA
1 AGCCCA
15617134 TGGAAAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 11 0.44
25 12 0.48
ACGTcount: A:0.44, C:0.18, G:0.29, T:0.09
Consensus pattern (26 bp):
AGCCCAATAAGAAAAGAATGGGCAAG
Found at i:15618203 original size:2 final size:2
Alignment explanation
Indices: 15618192--15618241 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
15618182 TATTAATGTG
15618192 TA TA -A TA TA TA TA TA TA TA TA TA -A 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
15618232 T- TA TA TA TA T
1 TA TA TA TA TA T
15618242 TATGTCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15618212 original size:17 final size:17
Alignment explanation
Indices: 15618198--15618241 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
15618188 TGTGTATAAT
15618198 ATATATATATATATATA
1 ATATATATATATATATA
15618215 ATATATATATATATATA
1 ATATATATATATATATA
*
15618232 TTATATATAT
1 ATATATATAT
15618242 TATGTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:15618214 original size:19 final size:19
Alignment explanation
Indices: 15618192--15618241 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
15618182 TATTAATGTG
15618192 TATAATATATATATATATA
1 TATAATATATATATATATA
15618211 TATAATATATATATATATA
1 TATAATATATATATATATA
*
15618230 TATTATATATAT
1 TATAATATATAT
15618242 TATGTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATATATATATA
Found at i:15624380 original size:17 final size:17
Alignment explanation
Indices: 15624351--15624383 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15624341 TTTAATTAGA
15624351 AATTGGTTAAATATTAT
1 AATTGGTTAAATATTAT
15624368 AATT-GTTATAATATTA
1 AATTGGTTA-AATATTA
15624384 AGGACTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTGGTTAAATATTAT
Found at i:15625771 original size:32 final size:32
Alignment explanation
Indices: 15625734--15625803 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
15625724 GCTCCTTGAA
* *
15625734 AGCACCGGAGCCCTGATCGAGCTCTCCAAAGG
1 AGCACCGAAGCCCCGATCGAGCTCTCCAAAGG
* * * *
15625766 AGCACCTAAGCCCCGATCGGGCTCTCTAAGGG
1 AGCACCGAAGCCCCGATCGAGCTCTCCAAAGG
15625798 AGCACC
1 AGCACC
15625804 AAAAGGGAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.13
Consensus pattern (32 bp):
AGCACCGAAGCCCCGATCGAGCTCTCCAAAGG
Found at i:15639389 original size:24 final size:26
Alignment explanation
Indices: 15639330--15639390 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
15639320 ACTTACTATC
* *
15639330 TATAATTATATAGTGTATATCTATTG
1 TATAATTATATAGTGTATATATAGTG
*
15639356 TATTGA-TATATA-T-TATATATAGTG
1 TA-TAATTATATAGTGTATATATAGTG
15639380 TATAATTATAT
1 TATAATTATAT
15639391 CTTAATACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 2 0.07
24 16 0.55
25 1 0.03
26 8 0.28
27 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.51
Consensus pattern (26 bp):
TATAATTATATAGTGTATATATAGTG
Found at i:15639646 original size:15 final size:18
Alignment explanation
Indices: 15639625--15639739 Score: 68
Period size: 18 Copynumber: 6.7 Consensus size: 18
15639615 TATATTGTTA
15639625 TATATTA-TAATAT-AGT
1 TATATTATTAATATAAGT
15639641 TA-ATTATTAATATAAGT
1 TATATTATTAATATAAGT
* *
15639658 TATATTACT-ATA-AA-A
1 TATATTATTAATATAAGT
*
15639673 TACTAATATTAATATAAGT
1 TA-TATTATTAATATAAGT
* *
15639692 TACT-TTAGTAATAAAAGT
1 TA-TATTATTAATATAAGT
*
15639710 TATACTA-TAATAATATAGT
1 TATATTATTAAT-ATA-AGT
*
15639729 T-TATTAATAAT
1 TATATTATTAAT
15639740 TTATAAAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
15 6 0.08
16 15 0.19
17 16 0.21
18 28 0.36
19 12 0.16
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (18 bp):
TATATTATTAATATAAGT
Found at i:15639800 original size:16 final size:17
Alignment explanation
Indices: 15639759--15639802 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
15639749 AATAAGTTAC
* *
15639759 TATAGTCTATAGTACTC
1 TATAGTGTATAGTACTA
15639776 TATAGTGTATAG-ACTA
1 TATAGTGTATAGTACTA
*
15639792 TATATTGTATA
1 TATAGTGTATA
15639803 TTAATGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (17 bp):
TATAGTGTATAGTACTA
Found at i:15639848 original size:16 final size:16
Alignment explanation
Indices: 15639838--15639868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15639828 ATAATATACT
15639838 AATAACTTAATATAAA
1 AATAACTTAATATAAA
*
15639854 AATAAGTTAATATAA
1 AATAACTTAATATAA
15639869 TAAGTTATAT
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:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAACTTAATATAAA
Found at i:15649942 original size:3 final size:3
Alignment explanation
Indices: 15649930--15649961 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
15649920 AAGGTACACG
15649930 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
15649962 AAAAGTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15661095 original size:60 final size:60
Alignment explanation
Indices: 15661025--15661152 Score: 195
Period size: 60 Copynumber: 2.1 Consensus size: 60
15661015 AACGTAGAAC
* * *
15661025 AAAAAGTTTAAAATTATAAAACTACTCTATGTTGTATGTAAATTAGAATTCTAATTAAAT
1 AAAAAGTTTAAAATTATAAAACTACTCAAAGTTGTATGTAAATTAGAATTCTAATCAAAT
* * *
15661085 AAAAATTTTAAAATTATAAAACTACTGAAAGTTGTATGTATATTAGAATTCTAATCAAAT
1 AAAAAGTTTAAAATTATAAAACTACTCAAAGTTGTATGTAAATTAGAATTCTAATCAAAT
15661145 -AAAAGTTT
1 AAAAAGTTT
15661153 CGAATCTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
59 7 0.11
60 54 0.89
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (60 bp):
AAAAAGTTTAAAATTATAAAACTACTCAAAGTTGTATGTAAATTAGAATTCTAATCAAAT
Found at i:15663166 original size:18 final size:18
Alignment explanation
Indices: 15663143--15663186 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
15663133 AGCCATTCAT
*
15663143 GCCATCACATTGTCATAA
1 GCCATCAAATTGTCATAA
15663161 GCCATCAAATTGTCATAA
1 GCCATCAAATTGTCATAA
15663179 GCCATCAA
1 GCCATCAA
15663187 TTCCAACCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (18 bp):
GCCATCAAATTGTCATAA
Found at i:15667867 original size:15 final size:17
Alignment explanation
Indices: 15667821--15667867 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15667811 CCTCTTGAAT
*
15667821 AAAAAATCAAAATAAAC
1 AAAAAATAAAAATAAAC
15667838 AAAAAATAAATAA-ATAA-
1 AAAAAATAAA-AATA-AAC
15667855 AAAAAATAAAAAT
1 AAAAAATAAAAAT
15667868 GATAAGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.08
17 20 0.77
18 4 0.15
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAAATAAAC
Found at i:15667867 original size:19 final size:19
Alignment explanation
Indices: 15667830--15667867 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15667820 TAAAAAATCA
*
15667830 AAATAAACAAAAAATAAAT
1 AAATAAACAAAAAAAAAAT
15667849 AAATAAA-AAAAATAAAAAT
1 AAATAAACAAAAA-AAAAAT
15667868 GATAAGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAACAAAAAAAAAAT
Found at i:15668392 original size:8 final size:8
Alignment explanation
Indices: 15668379--15668439 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
15668369 AATTTTTATT
15668379 AAATAATA
1 AAATAATA
15668387 AAATAATA
1 AAATAATA
*
15668395 ATATACATTA
1 AAATA-A-TA
*
15668405 AAAAAAT-
1 AAATAATA
15668412 AAATAAT-
1 AAATAATA
15668419 AAA-AATAA
1 AAATAAT-A
15668427 AAATAATA
1 AAATAATA
15668435 AAATA
1 AAATA
15668440 TGTAAATAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 3 0.07
7 9 0.20
8 22 0.50
9 5 0.11
10 5 0.11
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATAATA
Found at i:15668419 original size:22 final size:21
Alignment explanation
Indices: 15668379--15668436 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
15668369 AATTTTTATT
*
15668379 AAATAATAAAAT-AATAATATA
1 AAATAAAAAAATAAATAATA-A
* *
15668400 CATTAAAAAAATAAATAATAA
1 AAATAAAAAAATAAATAATAA
15668421 AAATAAAAATAATAAA
1 AAATAAAAA-AATAAA
15668437 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAAAATAAATAATAA
Found at i:15668421 original size:15 final size:15
Alignment explanation
Indices: 15668378--15668437 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 15
15668368 TAATTTTTAT
*
15668378 TAAATAATAAAATAA
1 TAAATAATAAAAAAA
15668393 TAATATACATTAAAAAAA
1 TAA-ATA-A-TAAAAAAA
15668411 TAAATAATAAAAATAA
1 TAAATAATAAAAA-AA
15668427 -AAATAATAAAA
1 TAAATAATAAAA
15668438 TATGTAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 20 0.50
16 6 0.15
17 4 0.10
18 10 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAATAATAAAAAAA
Found at i:15668429 original size:214 final size:214
Alignment explanation
Indices: 15668005--15668435 Score: 471
Period size: 214 Copynumber: 2.0 Consensus size: 214
15667995 TTATAAGAAA
* *
15668005 AATGAAATGATTATTTGAGTGATTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCGGGTGGGTT
1 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
* ** **
15668070 ATTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAGTGTTGGGATAAATCTGAACTCTAAACTT
66 ACTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAACGTCAGGATAAATCTGAACTCTAAACTT
* * ***
15668135 CGATACCCGTTAAGTCAAATAATCGTTGTTAAAATATAATAAATAAAAAAATACATGATGTAAAT
131 CAATACCCATTAAGTCAAATAATC-TTGTTAAAATATAATAAATAAAAAAATACATGAAAAAAAT
****
15668200 ATAATTGTTATAAAAA-AAT
195 ATAATAAAAATAAAAATAAT
* * * *
15668219 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGTAAATAGTTGCCTCTTTCAGGTGGGTT
1 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
* * * *
15668284 ACTTAGGTATGGAGTTTGAGAC-GAATTTTCATC-GAAACGTCAGGATAAAT-TCGAACTTTATA
66 ACTTAGGTACGGAGTTCGAGACAG-ATTTTCA-CAGAAACGTCAGGATAAATCT-GAACTCTAAA
* * * * * *
15668346 CTTCAATACCCATTAATTTAAATAAT-TT-TTATTAA-ATAATAAAATAATAATATACATTAAAA
128 CTTCAATACCCATTAAGTCAAATAATCTTGTTA-AAATATAAT-AAATAAAAAAATACATGAAAA
15668408 AAATAAATAATAAAAATAAAAATAAT
191 AAAT--ATAATAAAAATAAAAATAAT
15668434 AA
1 AA
15668436 AATATGTAAA
Statistics
Matches: 179, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
211 8 0.04
212 23 0.13
213 2 0.01
214 140 0.78
215 6 0.03
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (214 bp):
AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
ACTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAACGTCAGGATAAATCTGAACTCTAAACTT
CAATACCCATTAAGTCAAATAATCTTGTTAAAATATAATAAATAAAAAAATACATGAAAAAAATA
TAATAAAAATAAAAATAAT
Found at i:15668717 original size:26 final size:24
Alignment explanation
Indices: 15668687--15668758 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 24
15668677 ATTTTTTATT
15668687 TTTAAATTTATATTTTCACTTAATAA
1 TTTAAATTTATATTTT-A-TTAATAA
* *
15668713 TTTAAAAATTAATATTTTATTTATAA
1 TTT--AAATTTATATTTTATTAATAA
* *
15668739 TTT-AATATATATTATATTAA
1 TTTAAATTTATATTTTATTAA
15668759 AATATGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
23 13 0.34
26 12 0.32
27 1 0.03
28 12 0.32
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAAATTTATATTTTATTAATAA
Found at i:15672534 original size:16 final size:16
Alignment explanation
Indices: 15672500--15672545 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
15672490 CTTTCTATCC
* * *
15672500 CTCTCTCTCTTTCTCT
1 CTCTCTATCTATCTAT
*
15672516 CTCTTTATCTATCTAT
1 CTCTCTATCTATCTAT
15672532 CTCTCTATCTATCT
1 CTCTCTATCTATCT
15672546 TCTTATTGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54
Consensus pattern (16 bp):
CTCTCTATCTATCTAT
Found at i:15673816 original size:2 final size:2
Alignment explanation
Indices: 15673809--15673854 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15673799 ACCTCTTCAT
15673809 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15673851 TC TC
1 TC TC
15673855 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15673895 original size:2 final size:2
Alignment explanation
Indices: 15673883--15673934 Score: 95
Period size: 2 Copynumber: 25.5 Consensus size: 2
15673873 NNNNNNNNNN
15673883 CT CT ACT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT -CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15673926 CT CT CT CT C
1 CT CT CT CT C
15673935 ATGTACACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15674703 original size:33 final size:33
Alignment explanation
Indices: 15674666--15674746 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
15674656 TAAGTATAAT
15674666 ATTAATTAATTAATTGAAAACTTCAAGTAGATA
1 ATTAATTAATTAATTGAAAACTTCAAGTAGATA
15674699 ATTAATTAATTAATTGAAAACTTCAAGTAGATA
1 ATTAATTAATTAATTGAAAACTTCAAGTAGATA
15674732 ATTAATTAATTAATT
1 ATTAATTAATTAATT
15674747 AATCTTCGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (33 bp):
ATTAATTAATTAATTGAAAACTTCAAGTAGATA
Found at i:15676318 original size:19 final size:19
Alignment explanation
Indices: 15676294--15676334 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
15676284 GTTGAGCAAG
*
15676294 ATGAGCATTTTGAATATTC
1 ATGAGCATTCTGAATATTC
15676313 ATGAGCATTCTGAATATTC
1 ATGAGCATTCTGAATATTC
15676332 ATG
1 ATG
15676335 CTCATCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (19 bp):
ATGAGCATTCTGAATATTC
Found at i:15680769 original size:40 final size:40
Alignment explanation
Indices: 15680723--15680868 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
15680713 AATATTGTAA
* *
15680723 ACATAAACTTAAATAATTAAAAATAAATATCCATACAACG
1 ACATAAACTTAAATAACTAAAAATAAATATCCAAACAACG
* * * * * * *
15680763 ATATAAACTTAAATAACTATACATAAATTTTCAAATAACA
1 ACATAAACTTAAATAACTAAAAATAAATATCCAAACAACG
* * *
15680803 ACATAAACTTAAATAACTAAACACAAATATCCAAACAAATG
1 ACATAAACTTAAATAACTAAAAATAAATATCCAAAC-AACG
*
15680844 ACATAAACTTAAATAACAAAAAATA
1 ACATAAACTTAAATAACTAAAAATA
15680869 TAATTTTTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 61 0.72
41 24 0.28
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (40 bp):
ACATAAACTTAAATAACTAAAAATAAATATCCAAACAACG
Found at i:15680788 original size:20 final size:19
Alignment explanation
Indices: 15680765--15680822 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
15680755 ATACAACGAT
15680765 ATAAACTTAAATAACTATAC
1 ATAAACTTAAATAACTA-AC
*
15680785 ATAAATTTTCAAATAAC-AAC
1 ATAAA-CTT-AAATAACTAAC
15680805 ATAAACTTAAATAACTAA
1 ATAAACTTAAATAACTAA
15680823 ACACAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 7 0.21
19 4 0.12
20 12 0.36
21 3 0.09
22 7 0.21
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAACTTAAATAACTAAC
Found at i:15681310 original size:15 final size:17
Alignment explanation
Indices: 15681290--15681322 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15681280 ATTACAATTA
15681290 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
15681305 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
15681322 A
1 A
15681323 ACACAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:15685554 original size:2 final size:2
Alignment explanation
Indices: 15685547--15685590 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
15685537 ATCCAATCTC
* *
15685547 TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
15685589 TG
1 TG
15685591 AGAGAGAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.05, G:0.50, T:0.45
Consensus pattern (2 bp):
TG
Found at i:15698459 original size:18 final size:18
Alignment explanation
Indices: 15698417--15698474 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
15698407 TTATTAAAAC
15698417 ATATATGAATATATAT-AT
1 ATATAT-AATATATATAAT
15698435 ATATATAATATATATAAT
1 ATATATAATATATATAAT
*
15698453 ATATAT-ATATAAAATAAT
1 ATATATAATAT-ATATAAT
15698471 ATAT
1 ATAT
15698475 NCCCTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 13 0.35
18 24 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATATAATATATATAAT
Found at i:15698474 original size:2 final size:2
Alignment explanation
Indices: 15698425--15698463 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
15698415 ACATATATGA
15698425 AT AT AT AT AT AT AT AT A- AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15698464 AAATAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15698952 original size:17 final size:16
Alignment explanation
Indices: 15698932--15698965 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15698922 GAAAAATAAA
*
15698932 ATTATATTTTTAATATT
1 ATTATATTATTAA-ATT
15698949 ATTATATTATTAAATT
1 ATTATATTATTAAATT
15698965 A
1 A
15698966 ATAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATATTATTAAATT
Found at i:15700056 original size:7 final size:7
Alignment explanation
Indices: 15700041--15700087 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
15700031 GAGAAGAGAG
15700041 AAAAGAAT
1 AAAA-AAT
15700049 AAAAAAT
1 AAAAAAT
15700056 AAAAAAT
1 AAAAAAT
15700063 -AAAAA-
1 AAAAAAT
*
15700068 AAGAAAT
1 AAAAAAT
*
15700075 ATAAAAT
1 AAAAAAT
15700082 AAAAAA
1 AAAAAA
15700088 ATAAGACCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 9 0.27
7 20 0.61
8 4 0.12
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:15700065 original size:14 final size:14
Alignment explanation
Indices: 15700041--15700087 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
15700031 GAGAAGAGAG
15700041 AAAAGAATAAAAAAT
1 AAAA-AATAAAAAAT
15700056 AAAAAAT-AAAAA-
1 AAAAAATAAAAAAT
* *
15700068 AAGAAATATAAAAT
1 AAAAAATAAAAAAT
15700082 AAAAAA
1 AAAAAA
15700088 ATAAGACCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.22
13 9 0.33
14 8 0.30
15 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:15700080 original size:19 final size:19
Alignment explanation
Indices: 15700052--15700088 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15700042 AAAGAATAAA
15700052 AAATAAAAAATAAAAAAAG
1 AAATAAAAAATAAAAAAAG
*
15700071 AAATATAAAATAAAAAAA
1 AAATAAAAAATAAAAAAA
15700089 TAAGACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (19 bp):
AAATAAAAAATAAAAAAAG
Found at i:15703688 original size:40 final size:40
Alignment explanation
Indices: 15703630--15703705 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
15703620 TTATGAAAAA
*
15703630 CACCAATCGTGACGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
*
15703670 CACCAATCTTGACAAGGTTGAAAACCCCACTAAGGT
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGT
15703706 AAAAAATAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (40 bp):
CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:15706459 original size:40 final size:40
Alignment explanation
Indices: 15706404--15706481 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
15706394 TATGAAAAAT
15706404 ACCAATCGTGGCAAGGTTGAAAACCCCACTAAAGTGAATC
1 ACCAATCGTGGCAAGGTTGAAAACCCCACTAAAGTGAATC
* * *
15706444 ACCAATCTTGGCAAGGTTGAAAACCTCACTAAGGTGAA
1 ACCAATCGTGGCAAGGTTGAAAACCCCACTAAAGTGAA
15706482 AATAGCCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (40 bp):
ACCAATCGTGGCAAGGTTGAAAACCCCACTAAAGTGAATC
Found at i:15713520 original size:18 final size:18
Alignment explanation
Indices: 15713469--15713525 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
15713459 ATTAATGGTG
15713469 TTAAT-GTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
* * * * *
15713486 TTAAACATATAAACGTGT
1 TTAATCGTGTTATCGTGT
15713504 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
15713522 TTAA
1 TTAA
15713526 GTATGTTTAC
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (18 bp):
TTAATCGTGTTATCGTGT
Found at i:15717135 original size:5 final size:5
Alignment explanation
Indices: 15717125--15717149 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15717115 TCTCCGTTTT
15717125 CCCTC CCCTC CCCTC CCCTC CCCTC
1 CCCTC CCCTC CCCTC CCCTC CCCTC
15717150 TTTATTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CCCTC
Found at i:15727911 original size:42 final size:42
Alignment explanation
Indices: 15727864--15729097 Score: 583
Period size: 42 Copynumber: 29.2 Consensus size: 42
15727854 AATAATATCC
* * * * *
15727864 ACCTTTGCTATCTTTTTAGGTTCCTTGTTTTCATCCAACTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * *
15727906 ACCTTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAACTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* *
15727948 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAGCCAATTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * *
15727990 TCCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * * *
15728032 ACCATTGGTACCTTTTTAGGTTCCTTTTTTTCAACCAATTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * *
15728074 ACCTTTGGTTCCTCTTCAGGTTGCTTCTTTTCAA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * * * **
15728116 AACTTTGGTAGCTCTTGAGGTTTTTTCTTTTCAA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * * * * * *
15728158 ACCCTTGGTACCTTATCAAGTT-TTTTTTCTTCACCCAATTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTT-TTCAACCAACTCT
* * * *
15728200 ACCTTTGGTACCTCTTCAGG-T--TTATTTTCAGCAAACTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * *
15728239 ATCC-TTGGTACCTCTTGAGGTTTCTTCTTTTCAA-CAAGCTTT
1 A-CCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * * * * *
15728281 ACCCTTGGCACCTCTTGAGGTTTCTTCTTTTCGA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * * * *
15728323 ACCCTTGGTACCTCTTCAGGTTCATTCTCTTCAACCAATTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
** * *
15728365 ACCTTTTTTACCTCTTCAGGTTTCTTCTTTTCAA-CAAGC-CTT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTC-T
** * *
15728407 ACCCGTGGTACCTCTTT-AGGTTTCTTCTTTTCGA-CAAGCTCT
1 ACCTTTGGTACCT-TTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * *
15728449 GCCCTTT-GTACCTTTTCAGGTTCTTTCTTTTCAACCAATTCT
1 -ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * * * * *
15728491 ACCTTTGTTATCTCTCCAGTTTTCTTTTTTTCAA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * *
15728533 ACCTTTGGTACCTCTTGAGGTTTCTTCTTTTCAA-CAAGCTCT
1 ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAA-CTCT
* * *
15728575 ACGC-TTGGTACCTTTTCAGCTTCTTTCTTTTCAACCACCTCT
1 AC-CTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * *
15728617 -TCTCTTGGT-CCTTTTTCAGCTT-CTTCCTGCAATTCAACCACCTCT
1 ACCT-TTGGTACC-TTTTCAGGTTCCTT-CT---TTTCAACCAACTCT
* * *
15728662 TCCTTTGGT-CCTTCTTCAGATTCCTTCCTTTCAACC-ACTTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAAC-TCT
* * * * * * *
15728704 TCTTTTTGTACTTCTTCTTCAGCTTCCTTCCTTTCGACCATCTCT
1 ACCTTTGGTAC--CTT-TTCAGGTTCCTTCTTTTCAACCAACTCT
* * * * * * * *
15728749 TCCTTTAGTA-CTTCTTTAGCTTCTTTCCTTTGAACCACCTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAACTCT
* ** * * * * *
15728791 TCCTTCCGTACTTCCTCTTCAGTTTCCTTC-CTTCGAGCCATCTCT
1 ACCTTTGGTA---CCTTTTCAGGTTCCTTCTTTTC-AACCAACTCT
* * ** * * *
15728836 TCCTTTAGTA-CTTCTTCAACTTCCTTCCTTTGAACCACCTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAACTCT
* * ** * *
15728878 -TCTATTGGTACTTTTTCAACTTCCTTCTTTTGAACCACCTCT
1 ACCT-TTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
* * * * *
15728920 TCCATTGGTA-CTTCTTCAGCTTCCTTCCTTTCAGCC-ACTTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAAC-TCT
* * ** *
15728962 -TCTATTGGTACTTTTTCAACTTCCTTCTTTTGAACC-ACATCCT
1 ACCT-TTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAAC-T-CT
* * * *
15729005 -CCATTGGTA-CTTCTTCAGCTTCCTTCCTTTCAACCACCTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAACTCT
* * ** * *
15729046 TCCATTGGTA-CTTCTTCAACTTCCTTCCTTTCAACCACCTCT
1 ACCTTTGGTACCTT-TTCAGGTTCCTTCTTTTCAACCAACTCT
* *
15729088 TCCATTGGTA
1 ACCTTTGGTA
15729098 GTTCTTCAAC
Statistics
Matches: 953, Mismatches: 183, Indels: 112
0.76 0.15 0.09
Matches are distributed among these distances:
39 26 0.03
40 8 0.01
41 48 0.05
42 737 0.77
43 33 0.03
44 4 0.00
45 89 0.09
46 8 0.01
ACGTcount: A:0.16, C:0.30, G:0.10, T:0.44
Consensus pattern (42 bp):
ACCTTTGGTACCTTTTCAGGTTCCTTCTTTTCAACCAACTCT
Found at i:15727963 original size:84 final size:83
Alignment explanation
Indices: 15727881--15728609 Score: 647
Period size: 84 Copynumber: 8.7 Consensus size: 83
15727871 CTATCTTTTT
* * *
15727881 AGGTTCCTTGTTTTCATCCAACTCTACCTTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAACT
1 AGGTTCCTTCTTTTCA-CCAACTCTACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGCT
*
15727946 CTACCTTTGGTACCTTTTC
65 CTACCTTTGGTACCTCTTC
* * *
15727965 AGGTTCCTTCTTTTCAGCCAATTCTTCCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAGCT
1 AGGTTCCTTCTTTTCA-CCAACTCTACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGCT
* * *
15728030 CTACCATTGGTACCTTTTT
65 CTACCTTTGGTACCTCTTC
* * * * * *
15728049 AGGTTCCTTTTTTTCAACCAATTCTACCTTTGGTTCCTCTTCAGGTTGCTTCTTTTCAACAAGCT
1 AGGTTCCTTCTTTTC-ACCAACTCTACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGCT
* * *
15728114 CTAACTTTGGTAGCTCTTG
65 CTACCTTTGGTACCTCTTC
** * * *
15728133 AGGTTTTTTCTTTTCAACAAGCTCTACCCTTGGTACCT-TATCAAGTTT-TTTTTCTTCACCCAA
1 AGGTTCCTTCTTTTCACCAA-CTCTACCCTTGGTACCTCT-TCAAGTTTCTTCTT-TTCA-ACAA
*
15728196 -TTCTACCTTTGGTACCTCTTC
62 GCTCTACCTTTGGTACCTCTTC
* * * * *
15728217 AGG-T--TTATTTTCAGCAAACTCTATCCTTGGTACCTCTTGAGGTTTCTTCTTTTCAACAAGCT
1 AGGTTCCTTCTTTTCA-CCAACTCTACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGCT
* * * *
15728279 TTACCCTTGGCACCTCTTG
65 CTACCTTTGGTACCTCTTC
* * *
15728298 AGGTTTCTTCTTTTCGA-CAAGCTCTACCCTTGGTACCTCTTC-AGGTTCATTCTCTTCAACCAA
1 AGGTTCCTTCTTTTC-ACCAA-CTCTACCCTTGGTACCTCTTCAAGTTTC-TTCTTTTCAA-CAA
* **
15728361 -TTCTACCTTTTTTACCTCTTC
62 GCTCTACCTTTGGTACCTCTTC
* * * * * *
15728382 AGGTTTCTTCTTTTCAACAAGC-CTTACCCGTGGTACCTCTTTAGGTTTCTTCTTTTCGACAAGC
1 AGGTTCCTTCTTTTCACCAA-CTC-TACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGC
* *
15728446 TCTGCCCTTT-GTACCTTTTC
64 TCT-ACCTTTGGTACCTCTTC
* * * * * * *
15728466 AGGTTCTTTCTTTTCAACCAATTCTACCTTTGTTATCTC-TCCAGTTTTCTTTTTTTCAACAAGC
1 AGGTTCCTTCTTTTC-ACCAACTCTACCCTTGGTACCTCTTCAAG-TTTCTTCTTTTCAACAAGC
*
15728530 TCTACCTTTGGTACCTCTTG
64 TCTACCTTTGGTACCTCTTC
* * * * *
15728550 AGGTTTCTTCTTTTCAACAAGCTCTACGCTTGGTACCTTTTC-AGCTTCTTTCTTTTCAAC
1 AGGTTCCTTCTTTTCACCAA-CTCTACCCTTGGTACCTCTTCAAGTTTC-TTCTTTTCAAC
15728610 CACCTCTTCT
Statistics
Matches: 519, Mismatches: 98, Indels: 56
0.77 0.15 0.08
Matches are distributed among these distances:
80 3 0.01
81 53 0.10
82 8 0.02
83 35 0.07
84 396 0.76
85 24 0.05
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.44
Consensus pattern (83 bp):
AGGTTCCTTCTTTTCACCAACTCTACCCTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAGCTC
TACCTTTGGTACCTCTTC
Found at i:15728032 original size:126 final size:126
Alignment explanation
Indices: 15727902--15728625 Score: 746
Period size: 126 Copynumber: 5.8 Consensus size: 126
15727892 TTTCATCCAA
* * *
15727902 CTCTACCTTTGGTACCTCTTCAAGTTTCTTCTTTTCAACAAACTCTACCTTTGGTACCTTTTCAG
1 CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCTACCTTTGGTACCTCTTCAG
* * *
15727967 GTTCCTTCTTTTCAGCCAATTCTTCCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
66 GTTCCTTCTTTTCAACCAACTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
* * * * * * * *
15728028 CTCTACCATTGGTACCTTTTTAGGTTCCTTTTTTTCAACCAATTCTACCTTTGGTTCCTCTTCAG
1 CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCTACCTTTGGTACCTCTTCAG
* * * * * *
15728093 GTTGCTTCTTTTCAA-CAAGCTCTAACTTTGGTAGCTCTTGAGGTTTTTTCTTTTCAACAAG
66 GTTCCTTCTTTTCAACCAA-CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
* * * * *
15728154 CTCTACCCTTGGTACCT-TATCAAGTTT-TTTTTCTTCACCCAATTCTACCTTTGGTACCTCTTC
1 CTCTACCCTTGGTACCTCT-TCAGGTTTCTTCTT-TTCAACAAACTCTACCTTTGGTACCTCTTC
* * * * *
15728217 AGG-T--TTATTTTCAGCAAACTCTATCCTTGGTACCTCTTGAGGTTTCTTCTTTTCAACAAG
64 AGGTTCCTTCTTTTCAACCAACTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
* * * * * *
15728277 CTTTACCCTTGGCACCTCTTGAGGTTTCTTCTTTTCGACAAGCTCTACCCTTGGTACCTCTTCAG
1 CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCTACCTTTGGTACCTCTTCAG
* * * * **
15728342 GTTCATTCTCTTCAACCAATTCTACCTTTTTTACCTCTTCAGGTTTCTTCTTTTCAACAAG
66 GTTCCTTCTTTTCAACCAACTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
* * * * * *
15728403 C-CTTACCCGTGGTACCTCTTTAGGTTTCTTCTTTTCGACAAGCTCTGCCCTTT-GTACCTTTTC
1 CTC-TACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCT-ACCTTTGGTACCTCTTC
* * * * * * * *
15728466 AGGTTCTTTCTTTTCAACCAATTCTACCTTTGTTATCTCTCCAGTTTTCTTTTTTTCAACAAG
64 AGGTTCCTTCTTTTCAACCAACTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
* * * *
15728529 CTCTACCTTTGGTACCTCTTGAGGTTTCTTCTTTTCAACAAGCTCTACGC-TTGGTACCTTTTCA
1 CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCTAC-CTTTGGTACCTCTTCA
* * * * *
15728593 GCTTCTTTCTTTTCAACCACCTCTTCTCTTGGT
65 GGTTCCTTCTTTTCAACCAACTCTACCCTTGGT
15728626 CCTTTTTCAG
Statistics
Matches: 505, Mismatches: 79, Indels: 28
0.83 0.13 0.05
Matches are distributed among these distances:
123 94 0.19
124 8 0.02
125 13 0.03
126 385 0.76
127 5 0.01
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (126 bp):
CTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAACTCTACCTTTGGTACCTCTTCAG
GTTCCTTCTTTTCAACCAACTCTACCCTTGGTACCTCTTCAGGTTTCTTCTTTTCAACAAG
Found at i:15728670 original size:45 final size:46
Alignment explanation
Indices: 15728604--15728690 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
15728594 CTTCTTTCTT
* *
15728604 TTCAACCACCTCTTCTCTTGGTCCTTTTTCAGCTT-CTTCCTGCAA
1 TTCAACCACCTCTTCTCTTGGTCCTTCTTCAGATTCCTTCCTGCAA
15728649 TTCAACCACCTCTTC-CTTTGGTCCTTCTTCAGATTCCTTCCT
1 TTCAACCACCTCTTCTC-TTGGTCCTTCTTCAGATTCCTTCCT
15728691 TTCAACCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.03
45 31 0.82
46 6 0.16
ACGTcount: A:0.13, C:0.37, G:0.08, T:0.43
Consensus pattern (46 bp):
TTCAACCACCTCTTCTCTTGGTCCTTCTTCAGATTCCTTCCTGCAA
Found at i:15740459 original size:19 final size:19
Alignment explanation
Indices: 15740435--15740472 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15740425 ATATTTTTAA
*
15740435 AAAATTATTAAATTATTTT
1 AAAATTATTAAATAATTTT
*
15740454 AAAATTTTTAAATAATTTT
1 AAAATTATTAAATAATTTT
15740473 TATTTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAAATTATTAAATAATTTT
Found at i:15744540 original size:29 final size:28
Alignment explanation
Indices: 15744498--15744553 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
15744488 CTCCATATAT
15744498 AATGGAATGTGTATATATCACTTTTTGA
1 AATGGAATGTGTATATATCACTTTTTGA
*
15744526 NAATGGAATGTGTATATATCTCTTTTTG
1 -AATGGAATGTGTATATATCACTTTTTG
15744554 TCTTCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.45
Consensus pattern (28 bp):
AATGGAATGTGTATATATCACTTTTTGA
Found at i:15744570 original size:2 final size:2
Alignment explanation
Indices: 15744563--15744607 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
15744553 GTCTTCAATA
15744563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15744604 AT AT
1 AT AT
15744608 TTCAAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15745031 original size:25 final size:25
Alignment explanation
Indices: 15744993--15745040 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
15744983 GTACAAAATT
*
15744993 GAAATAAGAGAGAAAGTGGAAAAAAA
1 GAAAGAAGAGAGAAAGT-GAAAAAAA
*
15745019 GAAAGAAGA-AGAAGGTGAAAAA
1 GAAAGAAGAGAGAAAGTGAAAAA
15745041 TAACTGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 6 0.30
26 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (25 bp):
GAAAGAAGAGAGAAAGTGAAAAAAA
Found at i:15745245 original size:167 final size:174
Alignment explanation
Indices: 15744933--15745245 Score: 428
Period size: 167 Copynumber: 1.8 Consensus size: 174
15744923 GATTCAAGAT
* * * *
15744933 TTTTCCATTCATCTTGAAATAAATAGAAGGTTTCAATTTTTTCAAAGTTAGTACAAAATTGAAAT
1 TTTTCCATCCATCTTGAAATAAACAGAAAGTTTCAATTGTTTCAAAGTTAGTACAAAATTGAAAT
* * **
15744998 AAGAGAGAAAGTGGAAAAAAAGAAAGAAGAAGAAGGTGAAAAATAACTGCATGGAAGAAAATAGT
66 AAGAGAGAAAGTGGAAAAAAAGAAAGAAGAAGAAAGTGAAAAAGAACTGCACAGAAGAAAATAGT
**
15745063 TTTTGTGTTTTAGTTGTAGAGGAAAAGAAATTAATAGTTCAATA
131 TTTTGCATTTTAGTTGTAGAGGAAAAGAAATTAATAGTTCAATA
*
15745107 TTTTCCATCCATCTTTAAATAAACA-AAAGTTTCAATTGTTTCAAA-TTCAGTACAAAATTGAAA
1 TTTTCCATCCATCTTGAAATAAACAGAAAGTTTCAATTGTTTCAAAGTT-AGTACAAAATTGAAA
* *
15745170 TGAAGA-A-AAAGT-G-AAAAAA-AAA-AA-AAGAAAGTGAAAAGGAACTGCACAGAAGAAAATG
65 T-AAGAGAGAAAGTGGAAAAAAAGAAAGAAGAAGAAAGTGAAAAAGAACTGCACAGAAGAAAATA
15745228 GTTTTTGCATTTTAGTTG
129 GTTTTTGCATTTTAGTTG
15745246 CTTCCATCCA
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
167 44 0.35
168 2 0.02
169 3 0.02
170 6 0.05
171 1 0.01
172 7 0.06
173 35 0.28
174 26 0.21
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.29
Consensus pattern (174 bp):
TTTTCCATCCATCTTGAAATAAACAGAAAGTTTCAATTGTTTCAAAGTTAGTACAAAATTGAAAT
AAGAGAGAAAGTGGAAAAAAAGAAAGAAGAAGAAAGTGAAAAAGAACTGCACAGAAGAAAATAGT
TTTTGCATTTTAGTTGTAGAGGAAAAGAAATTAATAGTTCAATA
Found at i:15745563 original size:53 final size:56
Alignment explanation
Indices: 15745428--15745563 Score: 147
Period size: 53 Copynumber: 2.5 Consensus size: 56
15745418 GAGATGATTG
* * *
15745428 TAATATTTTTTT-CAATATGATATGTAATCACTTTTTCTTTTCAACATGACGAGTAA
1 TAAT-TTTTTTTCCAATATGACATGTAATCAATTTTTCTTTCCAACATGACGAGTAA
* * ** *
15745484 TAATTTTTTTTCCAACATAAGGTGTAAT-AATTTTT-TTTCCAACAT-AGCGTGT-A
1 TAATTTTTTTTCCAATATGACATGTAATCAATTTTTCTTTCCAACATGA-CGAGTAA
15745537 TAATTTTTTTTCCAATATGACATGTAA
1 TAATTTTTTTTCCAATATGACATGTAA
15745564 CAACATTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 25 0.37
54 13 0.19
55 13 0.19
56 16 0.24
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (56 bp):
TAATTTTTTTTCCAATATGACATGTAATCAATTTTTCTTTCCAACATGACGAGTAA
Found at i:15745625 original size:26 final size:27
Alignment explanation
Indices: 15745569--15745662 Score: 100
Period size: 29 Copynumber: 3.4 Consensus size: 27
15745559 TGTAACAACA
*
15745569 TTTTGAACATGATGTGTAATAACAATATT
1 TTTTTAACATGATGTGTAATAAC-AT-TT
* *
15745598 TTTTTAACATGATGTATAATAACTTTT
1 TTTTTAACATGATGTGTAATAACATTT
* *
15745625 TTTTCTAACATGGTATGTAATAAC-TTT
1 TTTT-TAACATGATGTGTAATAACATTT
*
15745652 TTTTCAACATG
1 TTTTTAACATG
15745663 GGTGTATGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.11
27 13 0.23
28 17 0.30
29 21 0.37
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.47
Consensus pattern (27 bp):
TTTTTAACATGATGTGTAATAACATTT
Found at i:15745636 original size:28 final size:28
Alignment explanation
Indices: 15745433--15745662 Score: 128
Period size: 27 Copynumber: 8.5 Consensus size: 28
15745423 GATTGTAATA
* * *
15745433 TTTTTTTC-AATATGATATGTAATCACT
1 TTTTTTTCTAACATGATGTGTAATAACT
* *
15745460 TTTTCTTT-TCAACATGACGAGTAATAA-T
1 TTTT-TTTCT-AACATGATGTGTAATAACT
* * *
15745488 TTTTTTTCCAACATAAGGTGTAATAA-T
1 TTTTTTTCTAACATGATGTGTAATAACT
* *
15745515 TTTTTTTCCAACAT-AGCGTGT-ATAA-T
1 TTTTTTTCTAACATGA-TGTGTAATAACT
* * ** *
15745541 TTTTTTTCCAATATGACATGTAACAAC-
1 TTTTTTTCTAACATGATGTGTAATAACT
* *
15745568 --ATTTT-GAACATGATGTGTAATAACAAT
1 TTTTTTTCTAACATGATGTGTAATAAC--T
* *
15745595 ATTTTTT-TAACATGATGTATAATAACT
1 TTTTTTTCTAACATGATGTGTAATAACT
* *
15745622 TTTTTTTCTAACATGGTATGTAATAAC-
1 TTTTTTTCTAACATGATGTGTAATAACT
15745649 TTTTTTTC-AACATG
1 TTTTTTTCTAACATG
15745663 GGTGTATGTA
Statistics
Matches: 163, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
24 14 0.09
25 4 0.02
26 29 0.18
27 59 0.36
28 24 0.15
29 33 0.20
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (28 bp):
TTTTTTTCTAACATGATGTGTAATAACT
Found at i:15745674 original size:26 final size:27
Alignment explanation
Indices: 15745596--15745674 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
15745586 AATAACAATA
15745596 TTTTTTT-AACAT-GATGTATAATAACT
1 TTTTTTTCAACATGGATGTAT-ATAACT
15745622 TTTTTTTCTAACATGGTATGTA-ATAAC-
1 TTTTTTTC-AACATGG-ATGTATATAACT
* *
15745649 TTTTTTTCAACATGGGTGTATGTAAC
1 TTTTTTTCAACATGGATGTATATAAC
15745675 AATATTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
25 4 0.09
26 18 0.39
27 8 0.17
28 10 0.22
29 1 0.02
30 5 0.11
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (27 bp):
TTTTTTTCAACATGGATGTATATAACT
Found at i:15745682 original size:29 final size:29
Alignment explanation
Indices: 15745588--15745684 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
15745578 TGATGTGTAA
* *
15745588 TAACAA-TATTTTTTTAACATGATGTA--
1 TAACAACTATTTTTTCAACATGGTGTATG
* *
15745614 TAATAACTTTTTTTTCTAACAT-G-GTATG
1 TAACAACTATTTTTTC-AACATGGTGTATG
*
15745642 TAATAACT-TTTTTTCAACATGGGTGTATG
1 TAACAACTATTTTTTCAACAT-GGTGTATG
15745671 TAACAA-TATTTTTT
1 TAACAACTATTTTTT
15745685 TCACGTGCGC
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
26 13 0.22
27 14 0.24
28 15 0.26
29 16 0.28
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.48
Consensus pattern (29 bp):
TAACAACTATTTTTTCAACATGGTGTATG
Found at i:15768949 original size:16 final size:16
Alignment explanation
Indices: 15768930--15768960 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15768920 TTTTATGGAT
15768930 TATTTATTATTTTTTA
1 TATTTATTATTTTTTA
15768946 TATTTATTATTTTTT
1 TATTTATTATTTTTT
15768961 TGTTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTATTATTTTTTA
Found at i:15770460 original size:13 final size:12
Alignment explanation
Indices: 15770442--15770616 Score: 82
Period size: 13 Copynumber: 13.3 Consensus size: 12
15770432 TAATGTCATA
15770442 TTTTATTTTTAT
1 TTTTATTTTTAT
* *
15770454 TTCTTATTATAAT
1 TT-TTATTTTTAT
15770467 TTTATATATTTTAT
1 TTT-TAT-TTTTAT
*
15770481 TTTTATTTTTTAA
1 TTTTA-TTTTTAT
* *
15770494 TATAATTTTTAAT
1 TTTTATTTTT-AT
*
15770507 ATTATATATTTTAT
1 -TTTTAT-TTTTAT
*
15770521 TTTAATTTTTTAT
1 TTTTA-TTTTTAT
* * * *
15770534 CTATATTATATAAA
1 TTTTATT-T-TTAT
15770548 TTTTATTTTTTAT
1 TTTTA-TTTTTAT
15770561 ATTTTA-TTTTAT
1 -TTTTATTTTTAT
*
15770573 TTTAATTTTTAAT
1 TTTTATTTTT-AT
*
15770586 TTTTATATTATAT
1 TTTTAT-TTTTAT
15770599 ATTTTATTTTTAT
1 -TTTTATTTTTAT
15770612 ATTTT
1 -TTTT
15770617 TATATTTAAT
Statistics
Matches: 121, Mismatches: 26, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
11 4 0.03
12 20 0.17
13 57 0.47
14 34 0.28
15 6 0.05
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:15770476 original size:33 final size:33
Alignment explanation
Indices: 15770439--15770522 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
15770429 TTTTAATGTC
*
15770439 ATATTTTATTTTTATTTCTTATTATAA-TTTTA
1 ATATTTTATTTTTATTTCTTAATATAATTTTTA
*
15770471 TATATTTTATTTTTATTTTTTAATATAATTTTTA
1 -ATATTTTATTTTTATTTCTTAATATAATTTTTA
*
15770505 ATATTATATATTTTATTT
1 ATATTTTAT-TTTTATTT
15770523 TAATTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 33 0.72
34 13 0.28
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATTTTATTTTTATTTCTTAATATAATTTTTA
Found at i:15770512 original size:40 final size:40
Alignment explanation
Indices: 15770463--15770627 Score: 156
Period size: 40 Copynumber: 4.0 Consensus size: 40
15770453 TTTCTTATTA
* *
15770463 TAATTTTATATATTTTATTTTTATTTTTTAATATAATTTT
1 TAATATTATATATTTTATTTTTATTTTTTAATTTAATTTT
* * *
15770503 TAATATTATATATTTTATTTTAATTTTTT-ATCTATATTATA
1 TAATATTATATATTTTATTTTTATTTTTTAATTTA-ATT-TT
* *
15770544 TAA-ATTTTATTTTTTATATTTTATTTTATTTTAATTTTTAATTTT
1 TAATATTATATATTTTAT-TTTTA--TT-TTTTAA--TTTAATTTT
15770589 T-ATATTATATATTTTATTTTTATATTTTTATATTTAATT
1 TAATATTATATATTTTATTTTTAT-TTTTTA-ATTTAATT
15770628 ATAACGTGAC
Statistics
Matches: 102, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
39 4 0.04
40 42 0.41
41 15 0.15
42 6 0.06
43 4 0.04
44 10 0.10
45 15 0.15
46 3 0.03
47 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (40 bp):
TAATATTATATATTTTATTTTTATTTTTTAATTTAATTTT
Found at i:15770558 original size:7 final size:7
Alignment explanation
Indices: 15770548--15770623 Score: 53
Period size: 7 Copynumber: 10.1 Consensus size: 7
15770538 ATTATATAAA
15770548 TTTTATT
1 TTTTATT
15770555 TTTTATAT
1 TTTTAT-T
*
15770563 TTTATTTT
1 TTT-TATT
*
15770571 ATTTTAAT
1 -TTTTATT
*
15770579 TTTTAAT
1 TTTTATT
*
15770586 TTTTATA
1 TTTTATT
* *
15770593 TTATATA
1 TTTTATT
15770600 TTTTATT
1 TTTTATT
15770607 TTTATATT
1 TTT-TATT
15770615 TTTATATT
1 TTT-TATT
15770623 T
1 T
15770624 AATTATAACG
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
7 32 0.56
8 20 0.35
9 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTATT
Found at i:15770580 original size:52 final size:51
Alignment explanation
Indices: 15770498--15770616 Score: 152
Period size: 52 Copynumber: 2.3 Consensus size: 51
15770488 TTTTAATATA
*
15770498 ATTTTTAATATTATATATTTTATTTTAATTTTT-TATCTATATTATATAAATTTT
1 ATTTTTTATATT-T-TATTTTATTTTAATTTTTATATCTATATTATAT--ATTTT
* *
15770552 ATTTTTTATATTTTATTTTATTTTAATTTTTAATTTTTATATTATATATTTT
1 ATTTTTTATATTTTATTTTATTTTAATTTTT-ATATCTATATTATATATTTT
15770604 A-TTTTTATATTTT
1 ATTTTTTATATTTT
15770617 TATATTTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
51 12 0.20
52 24 0.40
53 1 0.02
54 23 0.38
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (51 bp):
ATTTTTTATATTTTATTTTATTTTAATTTTTATATCTATATTATATATTTT
Found at i:15770607 original size:33 final size:35
Alignment explanation
Indices: 15770548--15770630 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 35
15770538 ATTATATAAA
*
15770548 TTTTATTTTTTATATT-T-TATTTTA-TTTTA-AT
1 TTTTAATTTTTATATTATATATTTTATTTTTATAT
15770579 TTTTAATTTTTATATTATATATTTTATTTTTATAT
1 TTTTAATTTTTATATTATATATTTTATTTTTATAT
*
15770614 TTTT-ATATTTA-ATTATA
1 TTTTAATTTTTATATTATA
15770631 ACGTGACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 15 0.33
32 1 0.02
33 13 0.28
34 11 0.24
35 6 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (35 bp):
TTTTAATTTTTATATTATATATTTTATTTTTATAT
Found at i:15770850 original size:32 final size:33
Alignment explanation
Indices: 15770812--15770881 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
15770802 AATTATATAA
* *
15770812 ATTTTAATTTCTTATATTTTAT-TTTATTTTAAT
1 ATTTTAAGTT-TTATATTATATATTTATTTTAAT
15770845 -TTTTAAGTTTTATATTATATATTTATTTTAAT
1 ATTTTAAGTTTTATATTATATATTTATTTTAAT
15770877 ATTTT
1 ATTTT
15770882 TTATTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 10 0.30
32 19 0.58
33 4 0.12
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (33 bp):
ATTTTAAGTTTTATATTATATATTTATTTTAAT
Found at i:15770862 original size:24 final size:25
Alignment explanation
Indices: 15770812--15770862 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
15770802 AATTATATAA
*
15770812 ATTTTAATTTCTTATATTTTATTTT
1 ATTTTAATTTCTTATATTTTATATT
15770837 ATTTTAATTT-TTA-AGTTTTATATT
1 ATTTTAATTTCTTATA-TTTTATATT
15770861 AT
1 AT
15770863 ATATTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 13 0.54
25 10 0.42
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTAATTTCTTATATTTTATATT
Found at i:15771011 original size:265 final size:265
Alignment explanation
Indices: 15770538--15771056 Score: 810
Period size: 265 Copynumber: 2.0 Consensus size: 265
15770528 TTTTATCTAT
* *
15770538 ATTATATAAATTTTATTTTTTATATTTTATTTTATTTTAATTTTTAATTTTTATATTATATATTT
1 ATTATATAAATTTTATTTCTTATATTTTATTTTATTTTAATTTTTAAGTTTTATATTATATATTT
* *
15770603 TATTTTTATATTTTTATATTTAATTATAACGTGACAAAATATTTTTAACAACATAATAAAGTTGA
66 TATTTTAATATTTTTATATTTAATTATAACATGACAAAATATTTTTAACAACATAATAAAGTTGA
* *
15770668 AGGGTAAAAGTATCTTTAAGAATATTGTAAAGTGTAATGTAATGTGATTGCATTAATTTTGGACT
131 AGGGTAAAAGTATCTTTAAGAATATTGTAAAGTGTAATGTAATATGATTGCATTAATTTTGAACT
* ** **
15770733 GCAATCACATTACATCCTTTAGTTATAATGTGATTGTATT-CTAATCTTATATTGCAGTGTGTAA
196 GCAATCACATTACATCCCTTAACTATAATGTGATTACATTAC-AATCTTATATTGCAGTGTGTAA
15770797 TATAAA
260 TATAAA
15770803 ATTATATAAATTTTAATTTCTTATATTTTATTTTATTTTAATTTTTAAGTTTTATATTATATA-T
1 ATTATATAAATTTT-ATTTCTTATATTTTATTTTATTTTAATTTTTAAGTTTTATATTATATATT
* *
15770867 TTATTTTAATATTTTT-TATTTTAATTATAACATTACAAAATATTTTTAACAAGATAATAAAGTT
65 TTATTTTAATATTTTTATA-TTTAATTATAACATGACAAAATATTTTTAACAACATAATAAAGTT
* * **
15770931 TAAGGGTAAAAGTATCTTTAAGAATATTGTAGAGTGTAATGTAATATGATTGCATTGGTTTTGAA
129 GAAGGGTAAAAGTATCTTTAAGAATATTGTAAAGTGTAATGTAATATGATTGCATTAATTTTGAA
* * *
15770996 CTGTAATCACATTACATCCCTTAACTGTAATGTGATTACATTACAATTTTATATTGCAGTG
194 CTGCAATCACATTACATCCCTTAACTATAATGTGATTACATTACAATCTTATATTGCAGTG
15771057 GTATGTTACA
Statistics
Matches: 231, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
264 2 0.01
265 182 0.79
266 47 0.20
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (265 bp):
ATTATATAAATTTTATTTCTTATATTTTATTTTATTTTAATTTTTAAGTTTTATATTATATATTT
TATTTTAATATTTTTATATTTAATTATAACATGACAAAATATTTTTAACAACATAATAAAGTTGA
AGGGTAAAAGTATCTTTAAGAATATTGTAAAGTGTAATGTAATATGATTGCATTAATTTTGAACT
GCAATCACATTACATCCCTTAACTATAATGTGATTACATTACAATCTTATATTGCAGTGTGTAAT
ATAAA
Found at i:15771285 original size:2 final size:2
Alignment explanation
Indices: 15771278--15771310 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
15771268 GCTTGAATTG
15771278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
15771311 CATGCTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15777658 original size:25 final size:25
Alignment explanation
Indices: 15777600--15777678 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
15777590 ATAAACTAAC
15777600 ATTATATAA-TATGAAATAATTAG-TA
1 ATTAT-TAATTAT-AAATAATTAGTTA
*
15777625 ATATTTTAATT-TATAATAATTAGTTA
1 AT-TATTAATTATA-AATAATTAGTTA
* *
15777651 ATTATTAATTATAAATATTTATTTA
1 ATTATTAATTATAAATAATTAGTTA
15777676 ATT
1 ATT
15777679 TAAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 1 0.02
25 35 0.78
26 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTATTAATTATAAATAATTAGTTA
Found at i:15777694 original size:30 final size:30
Alignment explanation
Indices: 15777660--15777732 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
15777650 AATTATTAAT
* *
15777660 TATAAATATTTATTTAATTTAAAATAAAA-A
1 TATAAATATTTATTAAATATAAAA-AAAATA
*
15777690 TATAAAATTTTTATTAAATATAAAAAAAATA
1 TAT-AAATATTTATTAAATATAAAAAAAATA
* *
15777721 AAAAAATATTTA
1 TATAAATATTTA
15777733 AATTTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 15 0.43
31 20 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TATAAATATTTATTAAATATAAAAAAAATA
Found at i:15778033 original size:5 final size:5
Alignment explanation
Indices: 15778023--15778049 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15778013 CCCAAAGGGA
15778023 TTAGC TTAGC TTAGC TTAGC TTAGC TT
1 TTAGC TTAGC TTAGC TTAGC TTAGC TT
15778050 TTTCAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTAGC
Found at i:15783270 original size:16 final size:16
Alignment explanation
Indices: 15783232--15783291 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
15783222 TCATTGTTCA
* *
15783232 AAAGTAACA-CACTCT
1 AAAGTAAAAGCACACT
15783247 AAAGTAAAAGCACACT
1 AAAGTAAAAGCACACT
*
15783263 AAAATAAAAGCACACT
1 AAAGTAAAAGCACACT
15783279 AAAGTAAAAGCAC
1 AAAGTAAAAGCAC
15783292 CGGTACTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 8 0.20
16 32 0.80
ACGTcount: A:0.57, C:0.20, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAGTAAAAGCACACT
Found at i:15787098 original size:28 final size:28
Alignment explanation
Indices: 15787054--15787117 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
15787044 CATAATAACT
* * *
15787054 TATATTAATATAATATATCTTACAATAC
1 TATAGTAATATAATATAACTTACAATAA
* *
15787082 TATAGTAATATAGTATAACTTACATTAA
1 TATAGTAATATAATATAACTTACAATAA
15787110 TATAGTAA
1 TATAGTAA
15787118 CTTATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (28 bp):
TATAGTAATATAATATAACTTACAATAA
Found at i:15787120 original size:18 final size:17
Alignment explanation
Indices: 15787087--15787129 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 17
15787077 AATACTATAG
15787087 TAATATAGTATAACTTACAT
1 TAATATAG-ATAACTT--AT
15787107 TAATATAG-TAACTTAT
1 TAATATAGATAACTTAT
15787123 TAATATA
1 TAATATA
15787130 CTATATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.39
18 6 0.26
20 8 0.35
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (17 bp):
TAATATAGATAACTTAT
Found at i:15794302 original size:2 final size:2
Alignment explanation
Indices: 15794290--15794328 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
15794280 ACCAGTTCAA
*
15794290 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15794329 TTTTGAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15794375 original size:2 final size:2
Alignment explanation
Indices: 15794368--15794418 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
15794358 GAACTATGTN
15794368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15794410 AT AT -T AT AT
1 AT AT AT AT AT
15794419 TTTTGAGTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15794442 original size:90 final size:89
Alignment explanation
Indices: 15794290--15794456 Score: 316
Period size: 90 Copynumber: 1.9 Consensus size: 89
15794280 ACCAGTTCAA
*
15794290 ATATCTATATATATATATATATATATATATATATTATATTTTTGAGTTAAATATCTAAATAAATC
1 ATATATATATATATATATATATATATATATATATTATATTTTTGAGTTAAATATCTAAATAAATC
15794355 TCTGAACTATGTNATATATATATAT
66 TCTGAACTATGT-ATATATATATAT
15794380 ATATATATATATATATATATATATATATATATATTATATTTTTGAGTTAAATATCTAAATAAATC
1 ATATATATATATATATATATATATATATATATATTATATTTTTGAGTTAAATATCTAAATAAATC
15794445 TCTGAACTATGT
66 TCTGAACTATGT
15794457 CAAAAAAATT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (89 bp):
ATATATATATATATATATATATATATATATATATTATATTTTTGAGTTAAATATCTAAATAAATC
TCTGAACTATGTATATATATATAT
Found at i:15796142 original size:16 final size:15
Alignment explanation
Indices: 15796086--15796145 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 15
15796076 CAAGTCAATT
*
15796086 AATAATAATAACAAAA
1 AATAATAA-AATAAAA
*
15796102 AATAATAAAA-AAGA
1 AATAATAAAATAAAA
15796116 AATAATATAAAATAATAA
1 AAT-A-ATAAAATAA-AA
15796134 AATAATAAAATA
1 AATAATAAAATA
15796146 TTGATTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 22 0.58
17 3 0.08
18 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AATAATAAAATAAAA
Found at i:15796145 original size:13 final size:12
Alignment explanation
Indices: 15796089--15796135 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
15796079 GTCAATTAAT
15796089 AATAATAACAAAA
1 AATAATAA-AAAA
15796102 AATAATAAAAAA
1 AATAATAAAAAA
* *
15796114 GA-AATAATATAA
1 AATAATAA-AAAA
15796126 AATAATAAAA
1 AATAATAAAA
15796136 TAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 5 0.18
12 10 0.36
13 13 0.46
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:15797061 original size:24 final size:24
Alignment explanation
Indices: 15797034--15797084 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15797024 TGGCCTGGCT
*
15797034 GAAACGGGAGTGGATTACAAGAAG
1 GAAACGGAAGTGGATTACAAGAAG
*
15797058 GAAATGGAAGTGGATTACAAGAAG
1 GAAACGGAAGTGGATTACAAGAAG
15797082 GAA
1 GAA
15797085 GAAAAGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.06, G:0.35, T:0.14
Consensus pattern (24 bp):
GAAACGGAAGTGGATTACAAGAAG
Found at i:15800155 original size:39 final size:38
Alignment explanation
Indices: 15800110--15800217 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 38
15800100 AATTTATTTA
15800110 TAAATTATAAAATATTAATATTTTAATCATAATAATGTT
1 TAAATTATAAAATATTAATATTTTAA-CATAATAATGTT
*
15800149 TAAATTATAAATAAAATATTAATATTTTAACATATTAATGTT
1 TAAA-T-T--ATAAAATATTAATATTTTAACATAATAATGTT
** * *
15800191 TATCTTATTAAATTATTAATATATTAA
1 TAAATTA-TAAAATATTAATATTTTAA
15800218 AATTTTAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
38 1 0.02
39 21 0.36
40 2 0.03
41 2 0.03
42 13 0.22
43 20 0.34
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (38 bp):
TAAATTATAAAATATTAATATTTTAACATAATAATGTT
Found at i:15800185 original size:16 final size:16
Alignment explanation
Indices: 15800164--15800225 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
15800154 TATAAATAAA
15800164 ATATTAATATTTTAAC
1 ATATTAATATTTTAAC
* *
15800180 ATATTAAT-GTTTATC
1 ATATTAATATTTTAAC
* *
15800195 TTATTAA-ATTATTAAT
1 ATATTAATATT-TTAAC
*
15800211 ATATTAAAATTTTAA
1 ATATTAATATTTTAA
15800226 TGAAGAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
15 12 0.33
16 21 0.58
17 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTAATATTTTAAC
Found at i:15800601 original size:25 final size:25
Alignment explanation
Indices: 15800569--15800616 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
15800559 TATTATTATT
15800569 TAAAATATTAAT-TATTAAATTATAA
1 TAAAATATTAATAT-TTAAATTATAA
15800594 TAAAATATTAATATTTAAATTAT
1 TAAAATATTAATATTTAAATTAT
15800617 TAAGTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAAATATTAATATTTAAATTATAA
Found at i:15800609 original size:40 final size:41
Alignment explanation
Indices: 15800513--15800626 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 41
15800503 AAATTACTTA
* *
15800513 AAAATATTAATATTT-TAATCATAAGAATATTAAATTATAAAT
1 AAAATATTAATATTTAAAAT-ATTA-AATATTAAATTATAAAT
* *
15800555 AAAATATTATTATTTAAAATATTAATTATTAAATTAT-AAT
1 AAAATATTAATATTTAAAATATTAAATATTAAATTATAAAT
* *
15800595 AAAATATTAATATTTAAATTATTAAGTATTAA
1 AAAATATTAATATTTAAAATATTAAATATTAA
15800627 TAGTTTAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
40 32 0.50
41 12 0.19
42 17 0.27
43 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (41 bp):
AAAATATTAATATTTAAAATATTAAATATTAAATTATAAAT
Found at i:15800626 original size:15 final size:14
Alignment explanation
Indices: 15800538--15800626 Score: 66
Period size: 15 Copynumber: 6.6 Consensus size: 14
15800528 TAATCATAAG
15800538 AATATTAAATTA-T
1 AATATTAAATTATT
*
15800551 AA-A-TAAAATATT
1 AATATTAAATTATT
* *
15800563 ATTATTTAAAATATT
1 AATA-TTAAATTATT
15800578 AATTATTAAATTA-T
1 AA-TATTAAATTATT
15800592 AATA--AAA-TATT
1 AATATTAAATTATT
15800603 AATATTTAAATTATT
1 AATA-TTAAATTATT
15800618 AAGTATTAA
1 AA-TATTAA
15800627 TAGTTTAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
10 2 0.03
11 14 0.23
12 3 0.05
13 5 0.08
14 6 0.10
15 27 0.44
16 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (14 bp):
AATATTAAATTATT
Found at i:15800642 original size:27 final size:26
Alignment explanation
Indices: 15800608--15800660 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
15800598 ATATTAATAT
* *
15800608 TTAAATTATTAAGTATTAATAGTTTAA
1 TTAAATTATAAAGTATGAAT-GTTTAA
*
15800635 TTAAATTATAAATTATGAATGTTTAA
1 TTAAATTATAAAGTATGAATGTTTAA
15800661 AAAATAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (26 bp):
TTAAATTATAAAGTATGAATGTTTAA
Found at i:15802653 original size:30 final size:30
Alignment explanation
Indices: 15802583--15802653 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
15802573 GTATTCAATC
* * *
15802583 AAACTCTTCTCTTTTTATTTTAAGCCAAAT
1 AAACTCTTATATTTTTAATTTAAGCCAAAT
* *
15802613 -AAGTCTTTATATTTTTAATTTAAGTCAAAT
1 AAACTC-TTATATTTTTAATTTAAGCCAAAT
15802643 AAACTCTTATA
1 AAACTCTTATA
15802654 ACTAATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 4 0.12
30 25 0.76
31 4 0.12
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (30 bp):
AAACTCTTATATTTTTAATTTAAGCCAAAT
Found at i:15802752 original size:33 final size:33
Alignment explanation
Indices: 15802711--15802788 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
15802701 TTGCGCTGAC
* *
15802711 ATGATATGTTAACATATTATAATTTATGATATT
1 ATGATATGTTAACATATTATAATTGATGATAAT
* *
15802744 GTGGTATG-TAGACATATTATAATTGATGATAAT
1 ATGATATGTTA-ACATATTATAATTGATGATAAT
15802777 ATGATATGTTAA
1 ATGATATGTTAA
15802789 TTTAATATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (33 bp):
ATGATATGTTAACATATTATAATTGATGATAAT
Found at i:15809730 original size:24 final size:25
Alignment explanation
Indices: 15809678--15809732 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
15809668 ATATTTCTCA
*
15809678 TTTTCTTAGTTTGAATTCTTTTTGCG
1 TTTTATTAGTTTG-ATTCTTTTTGCG
15809704 TTTTATTAGTTTG-TTCTTTTTAG-G
1 TTTTATTAGTTTGATTCTTTTT-GCG
15809728 TTTTA
1 TTTTA
15809733 CTTTTCAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 14 0.52
25 1 0.04
26 12 0.44
ACGTcount: A:0.13, C:0.07, G:0.15, T:0.65
Consensus pattern (25 bp):
TTTTATTAGTTTGATTCTTTTTGCG
Found at i:15810202 original size:8 final size:8
Alignment explanation
Indices: 15810171--15810238 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
15810161 GGGGTAAAAA
*
15810171 AATAAATT
1 AATAATTT
15810179 AATAATTTT
1 AATAA-TTT
15810188 AATTAATTT
1 AA-TAATTT
15810197 AATAATTT
1 AATAATTT
*
15810205 TATATATTT
1 AATA-ATTT
*
15810214 AACT-ATAT
1 AA-TAATTT
15810222 AA-AA-TT
1 AATAATTT
15810228 AATAATTT
1 AATAATTT
15810236 AAT
1 AAT
15810239 TACCAATGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 24 0.50
9 14 0.29
10 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (8 bp):
AATAATTT
Found at i:15817136 original size:16 final size:16
Alignment explanation
Indices: 15817088--15817137 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
15817078 TCTAAAAATT
*
15817088 TTACTTTTAGATTTTA
1 TTACTTTTATATTTTA
*
15817104 TTTA-TTTT-TGTTATTA
1 -TTACTTTTATATT-TTA
15817120 TTACTTTTATATTTTA
1 TTACTTTTATATTTTA
15817136 TT
1 TT
15817138 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 16 0.59
17 6 0.22
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (16 bp):
TTACTTTTATATTTTA
Found at i:15820594 original size:31 final size:32
Alignment explanation
Indices: 15820559--15820621 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
15820549 TTTTTAAGTT
*
15820559 TAAGGGGAGAGA-GAAACAATGAAAAGATAAA
1 TAAGGGGAAAGAGGAAACAATGAAAAGATAAA
* * *
15820590 TAAGGTGAAAGAGGGAAGAATGAAAAGATAAA
1 TAAGGGGAAAGAGGAAACAATGAAAAGATAAA
15820622 CGATGGGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.57, C:0.02, G:0.30, T:0.11
Consensus pattern (32 bp):
TAAGGGGAAAGAGGAAACAATGAAAAGATAAA
Found at i:15825630 original size:25 final size:27
Alignment explanation
Indices: 15825597--15825647 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
15825587 TCCCTAACAA
15825597 TTTT-AAAAA-TTTTATAATTTTTTAT
1 TTTTAAAAAAGTTTTATAATTTTTTAT
15825622 TTTTAAAAAAGTTTTTATAATTTTTT
1 TTTTAAAAAAG-TTTTATAATTTTTT
15825648 TCCTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.17
26 5 0.22
28 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTAAAAAAGTTTTATAATTTTTTAT
Found at i:15825658 original size:28 final size:28
Alignment explanation
Indices: 15825606--15825659 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15825596 ATTTTAAAAA
**
15825606 TTTTATAATTTTTTATTTTTAAAAAAGT
1 TTTTATAATTTTTTATCCTTAAAAAAGT
15825634 TTTTATAATTTTTT-TCCTTACAAAAA
1 TTTTATAATTTTTTATCCTTA-AAAAA
15825660 TTTAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTATAATTTTTTATCCTTAAAAAAGT
Found at i:15828043 original size:30 final size:30
Alignment explanation
Indices: 15827979--15828035 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15827969 AATTAAATCT
15827979 TTATATTTTCATTTTAAACCAAATAAACTA
1 TTATATTTTCATTTTAAACCAAATAAACTA
**
15828009 TTATACTTTT-ATTTTAAGTCAAATAAA
1 TTATA-TTTTCATTTTAAACCAAATAAA
15828036 TTCTTATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.46
Consensus pattern (30 bp):
TTATATTTTCATTTTAAACCAAATAAACTA
Found at i:15836368 original size:33 final size:33
Alignment explanation
Indices: 15836326--15836388 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
15836316 TTTTTTCAAA
15836326 TGAAAATGTTGATGGTCAACTAATTAACTGCTG
1 TGAAAATGTTGATGGTCAACTAATTAACTGCTG
15836359 TGAAAATGTTGATGGTCAACTAATTAACTG
1 TGAAAATGTTGATGGTCAACTAATTAACTG
15836389 TTGTATCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (33 bp):
TGAAAATGTTGATGGTCAACTAATTAACTGCTG
Found at i:15857590 original size:2 final size:2
Alignment explanation
Indices: 15857583--15857627 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15857573 ATATGAAAAT
15857583 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15857625 AC A
1 AC A
15857628 TATATATATA
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:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15857757 original size:2 final size:2
Alignment explanation
Indices: 15857752--15857782 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15857742 TATGAAAATT
15857752 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15857783 TAAATAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15864076 original size:13 final size:13
Alignment explanation
Indices: 15864058--15864082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15864048 GGAGAAATTG
15864058 TGATTTTATAAAA
1 TGATTTTATAAAA
15864071 TGATTTTATAAA
1 TGATTTTATAAA
15864083 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15872969 original size:100 final size:100
Alignment explanation
Indices: 15872830--15873029 Score: 283
Period size: 100 Copynumber: 2.0 Consensus size: 100
15872820 ATATTTCTCG
* * * * *
15872830 AGTCTGTTGCCTGTTGCCTTATTTTTTAAACATCTAGAATATTCTGTTGATTCATATTTCTTAAA
1 AGTCTGTTGCCTATTGCCTGATTTCTTAAACATCCAGAATATTCTGTTGACTCATATTTCTTAAA
* *
15872895 TATTATCTAACTTGATATTTTATTTGACTTAGCTT
66 CATTATCTAACTTGATATTTTATTTGACTCAGCTT
* * *
15872930 AGTCTGTTGCCTATTGCCTGATTTCTTAAACATCCAGAATATTCTGTTGGCTGATATTTCTTAGA
1 AGTCTGTTGCCTATTGCCTGATTTCTTAAACATCCAGAATATTCTGTTGACTCATATTTCTTAAA
* * *
15872995 CATTATTTGAGTTGATATTTTATTTGACTCAGCTT
66 CATTATCTAACTTGATATTTTATTTGACTCAGCTT
15873030 CTTGATTTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (100 bp):
AGTCTGTTGCCTATTGCCTGATTTCTTAAACATCCAGAATATTCTGTTGACTCATATTTCTTAAA
CATTATCTAACTTGATATTTTATTTGACTCAGCTT
Found at i:15884040 original size:18 final size:20
Alignment explanation
Indices: 15884003--15884041 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
15883993 CCAAGTCAAT
15884003 GGTGGAACTGTTGCTGACAA
1 GGTGGAACTGTTGCTGACAA
*
15884023 GGTGG-ACT-TTGCTTACAA
1 GGTGGAACTGTTGCTGACAA
15884041 G
1 G
15884042 TTCTTTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.28
Consensus pattern (20 bp):
GGTGGAACTGTTGCTGACAA
Found at i:15890247 original size:2 final size:2
Alignment explanation
Indices: 15890240--15890264 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15890230 TTCTAAAAAT
15890240 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
15890265 TGTATATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15891716 original size:2 final size:2
Alignment explanation
Indices: 15891711--15891760 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
15891701 ACTAGTTTTT
15891711 TA TA TA T- TA TA TA TA TA TA TA TA T- TA -A TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
15891749 TT TT TA TA TA TA
1 TA TA TA TA TA TA
15891761 CTAAGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:15891733 original size:17 final size:17
Alignment explanation
Indices: 15891711--15891760 Score: 70
Period size: 15 Copynumber: 3.1 Consensus size: 17
15891701 ACTAGTTTTT
15891711 TATATATTATATATATA
1 TATATATTATATATATA
15891728 TATATATTA-ATATATA
1 TATATATTATATATATA
*
15891744 TA-ATATT-TTTATATA
1 TATATATTATATATATA
15891759 TA
1 TA
15891761 CTAAGAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 13 0.42
16 9 0.29
17 9 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATTATATATATA
Found at i:15892040 original size:2 final size:2
Alignment explanation
Indices: 15892028--15892078 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
15892018 AATGTTATGA
* *
15892028 AT AT AT CT AT AT AT AT A- AT -T AT AT AA AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15892067 AT AT AT AT AT AT
1 AT AT AT AT AT AT
15892079 TTAATTCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15892041 original size:26 final size:25
Alignment explanation
Indices: 15892012--15892067 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
15892002 ATATTTCGTA
*
15892012 ATATAAAATGT-TATGAATATATCTAT
1 ATATAAAAT-TATATAAATATAT-TAT
*
15892038 ATATATAATTATATAAATATATTAT
1 ATATAAAATTATATAAATATATTAT
15892063 ATATA
1 ATATA
15892068 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
ATATAAAATTATATAAATATATTAT
Done.