Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 64 of 141
Found at i:18886900 original size:35 final size:35
Alignment explanation
Indices: 18886845--18886913 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
18886835 TTATTTAATA
* *
18886845 ATATAATATCATTATAATTTAATTATCATAAATTC
1 ATATAATATAATTATAATTTAAATATCATAAATTC
*
18886880 ATATAATATAAATTAT-ATTTAAATATCATTAATT
1 ATATAATAT-AATTATAATTTAAATATCATAAATT
18886914 AAATAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAATTATAATTTAAATATCATAAATTC
Found at i:18892530 original size:25 final size:23
Alignment explanation
Indices: 18892486--18892546 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
18892476 ATTTTGATTT
*
18892486 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
18892510 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
18892534 ATATAAATTATAT
1 AT-TTAATTATAT
18892547 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:18892549 original size:35 final size:35
Alignment explanation
Indices: 18892494--18892573 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
18892484 TTATTTAATA
* *
18892494 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
18892528 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
18892563 ATATAAT-TAAA
1 ATATAATATAAA
18892574 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:18894574 original size:17 final size:17
Alignment explanation
Indices: 18894552--18894585 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18894542 TTCTTTTTTA
18894552 ATTTAT-ATTTATTATTT
1 ATTTATGATTT-TTATTT
18894569 ATTTATGATTTTTATTT
1 ATTTATGATTTTTATTT
18894586 GTTTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTATGATTTTTATTT
Found at i:18895946 original size:26 final size:26
Alignment explanation
Indices: 18895917--18895993 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
18895907 AACATATTTC
* *
18895917 TCAAAATTTTAATAGGGGTAAAATTA
1 TCAAAATTTTACTAGGGGTAAAATCA
* * *
18895943 TCAAAAAATTTACCAGGGGTAAAATCG
1 TC-AAAATTTTACTAGGGGTAAAATCA
*
18895970 TTAAAATTTTACT-GAGGGTAAAAT
1 TCAAAATTTTACTAG-GGGTAAAAT
18895994 AGAGATGAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 20 0.49
27 20 0.49
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:18901523 original size:51 final size:52
Alignment explanation
Indices: 18901401--18901558 Score: 273
Period size: 52 Copynumber: 3.1 Consensus size: 52
18901391 GAGAAGAATC
18901401 TGTGGCATCCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCGATACA
1 TGTGGCATCCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCGATACA
* *
18901453 TGTGGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATAATGGATG-GATACA
1 TGTGGCATCCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCGATACA
* *
18901504 TGTGGCATCCGAGCTCGTTGAGTTTGTCCAAGTTCATAATGGATGCGATACA
1 TGTGGCATCCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCGATACA
18901556 TGT
1 TGT
18901559 AATTGGGTTC
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 48 0.48
52 52 0.52
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (52 bp):
TGTGGCATCCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCGATACA
Found at i:18906045 original size:23 final size:24
Alignment explanation
Indices: 18906003--18906054 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
18905993 AAATGTAAAA
*
18906003 GAAT-AAAAAATGACACTAAT-AT
1 GAATAAAAAAATGACAATAATAAT
*
18906025 GAATAAAAAAATGATAATAATAAT
1 GAATAAAAAAATGACAATAATAAT
18906049 -AATAAA
1 GAATAAA
18906055 GGCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 4 0.15
23 20 0.77
24 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (24 bp):
GAATAAAAAAATGACAATAATAAT
Found at i:18906479 original size:75 final size:76
Alignment explanation
Indices: 18906342--18906486 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 76
18906332 AACAATAATA
*
18906342 GTAATAATAATACAAAATTAATCTAATAATATGAAAATAATAACCAATAAGTAAATAAAAAAAGA
1 GTAATAATAATACAAAATTAATCTAATAATATGAAAATAATAACCAATAAATAAATAAAAAAAGA
18906407 AAATAATAGTC
66 AAATAATAGTC
** * ** *
18906418 GTAATAATAATATTAAATTAGT-TAAT-ATAAT-AATAATAATAACGTATAAATAAATACAAAAA
1 GTAATAATAATACAAAATTAATCTAATAAT-ATGAA-AATAATAACCAATAAATAAATAAAAAAA
18906480 GAAAATA
64 GAAAATA
18906487 TAATAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
74 4 0.07
75 37 0.62
76 19 0.32
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (76 bp):
GTAATAATAATACAAAATTAATCTAATAATATGAAAATAATAACCAATAAATAAATAAAAAAAGA
AAATAATAGTC
Found at i:18906494 original size:3 final size:3
Alignment explanation
Indices: 18906486--18906573 Score: 70
Period size: 3 Copynumber: 28.7 Consensus size: 3
18906476 AAAAGAAAAT
* * * *
18906486 ATA ATA ATA ATA ATA ATG GTA ATA AAA ATAA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * *
18906532 CATCA ATA AGA ATA ATA ATG AT- ATG TTA ATA ATA ATA ATA AT
1 -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18906574 TAATTAATTA
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.03
3 57 0.85
4 7 0.10
5 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18918056 original size:24 final size:24
Alignment explanation
Indices: 18918028--18918076 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
18918018 TATCTTGAAA
18918028 AGAAGATAAAGTAAACGGACTGAC
1 AGAAGATAAAGTAAACGGACTGAC
18918052 AGAAGATAAAGTAAACGGACTGAC
1 AGAAGATAAAGTAAACGGACTGAC
18918076 A
1 A
18918077 TTTTTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.24, T:0.12
Consensus pattern (24 bp):
AGAAGATAAAGTAAACGGACTGAC
Found at i:18919275 original size:47 final size:47
Alignment explanation
Indices: 18919221--18919315 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
18919211 TAGTGCCTAG
* * *
18919221 TGATTGAAATAAAAACTTCTAAATAGTTGAGTGACTTGATGAAAACT
1 TGATTGAAATAAAAACTTCTAAATAATTGAGTGAATTAATGAAAACT
*
18919268 TGATTGAAATAAAAACTTCTAAATAATTTAGTGAATTAATGAAAACT
1 TGATTGAAATAAAAACTTCTAAATAATTGAGTGAATTAATGAAAACT
18919315 T
1 T
18919316 TCGAATAGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (47 bp):
TGATTGAAATAAAAACTTCTAAATAATTGAGTGAATTAATGAAAACT
Found at i:18924825 original size:58 final size:58
Alignment explanation
Indices: 18924761--18924878 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
18924751 ATAAACTATA
18924761 AAACGAACATGAAAAATATAATATAGAGAGAGAGAGAAAAGAAAGAAAAAGAGAAATG
1 AAACGAACATGAAAAATATAATATAGAGAGAGAGAGAAAAGAAAGAAAAAGAGAAATG
*
18924819 AAACGAACATGAAAAATATAATATATAGAGAGAGAGAAAAGAAAGAAAAAGAGAAATG
1 AAACGAACATGAAAAATATAATATAGAGAGAGAGAGAAAAGAAAGAAAAAGAGAAATG
18924877 AA
1 AA
18924879 TGAGATGAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.11
Consensus pattern (58 bp):
AAACGAACATGAAAAATATAATATAGAGAGAGAGAGAAAAGAAAGAAAAAGAGAAATG
Found at i:18929934 original size:41 final size:41
Alignment explanation
Indices: 18929877--18929958 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
18929867 AAAATGGTGT
18929877 TGCTAAGCACAAACACAGGCACATTTTGGAAACTAGTCTTA
1 TGCTAAGCACAAACACAGGCACATTTTGGAAACTAGTCTTA
18929918 TGCTAAGCACAAACACAGGCACATTTTGGAAACTAGTCTTA
1 TGCTAAGCACAAACACAGGCACATTTTGGAAACTAGTCTTA
18929959 CACTTTTGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
TGCTAAGCACAAACACAGGCACATTTTGGAAACTAGTCTTA
Found at i:18933731 original size:18 final size:17
Alignment explanation
Indices: 18933698--18933731 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18933688 GCAATTAATA
*
18933698 TAAAAAATAAAGATATT
1 TAAAAAATAAAAATATT
18933715 TAAAAAATATAAAATAT
1 TAAAAAATA-AAAATAT
18933732 AGCCTTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAAATAAAAATATT
Found at i:18940269 original size:17 final size:18
Alignment explanation
Indices: 18940237--18940270 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18940227 AGTCAACAAA
*
18940237 ATAATAACAGTAAAATAC
1 ATAATAACAATAAAATAC
18940255 ATAATAA-AATAAAATA
1 ATAATAACAATAAAATA
18940271 AAACATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATAACAATAAAATAC
Found at i:18940455 original size:3 final size:3
Alignment explanation
Indices: 18940447--18940527 Score: 89
Period size: 3 Copynumber: 27.7 Consensus size: 3
18940437 TAAAAATGGA
** *
18940447 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GGT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18940495 -AT AAT AA- AACT AAT -AT AAT AAT AAAT AA- AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AA
18940528 ACAAAAAGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
2 8 0.12
3 53 0.80
4 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18950441 original size:23 final size:23
Alignment explanation
Indices: 18950411--18950456 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18950401 TTTCTAGAGA
18950411 AAGAACAGTAACTTTGGAGGGAT
1 AAGAACAGTAACTTTGGAGGGAT
18950434 AAGAACAGTAACTTTGGAGGGAT
1 AAGAACAGTAACTTTGGAGGGAT
18950457 TTTGATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (23 bp):
AAGAACAGTAACTTTGGAGGGAT
Found at i:18954785 original size:19 final size:19
Alignment explanation
Indices: 18954761--18954805 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18954751 TCCCCCTTTT
* *
18954761 TTTATTTTAATGCAATTTA
1 TTTATTTTAATACAATATA
*
18954780 TTTATTTTTATACAATATA
1 TTTATTTTAATACAATATA
18954799 TTT-TTTT
1 TTTATTTT
18954806 CTTCATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATTTTAATACAATATA
Found at i:18964753 original size:227 final size:227
Alignment explanation
Indices: 18964350--18964795 Score: 732
Period size: 227 Copynumber: 2.0 Consensus size: 227
18964340 TCATTGGTTG
*
18964350 AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGATTACCAGTGGTGGAATACATTAACT
1 AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGATTACCAGTGATGGAATACATTAACT
* * * *
18964415 TTTGTTGTGCCAAAAGAGAGGATTGCTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATATAT
66 TCTATTGTGCCAAAAGAGAGGATTACTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATACAT
* * * *
18964480 CAGTCAGAGGTTTCTCGACCAGAAACGTAAAGAATTTTTAGAGCTTAAATAGGGTCATATGACAA
131 CAGTCAGAGGTTTCTCGACCAAAAACGTAAAAAATTCTTAGAGCTTAAACAGGGTCATATGACAA
*
18964545 TGTCCGAATATGAATTAGAATTTGTTCGGCTA
196 TGTCCGAATATGAACTAGAATTTGTTCGGCTA
*
18964577 AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGCTTACCAGTGATGGAATACATTAACT
1 AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGATTACCAGTGATGGAATACATTAACT
* * * *
18964642 TCTATTGTGCCGAAAGAGATGATTACTTGGGAATTCTTTCAAATTGAG-TTCTGAAAGAAATACA
66 TCTATTGTGCCAAAAGAGAGGATTACTTGGGAATTCTTTCAAACTGAGTTTC-AAAAGAAATACA
*
18964706 TCAGTCAGAGGTTTCTCGACCAAAAACGTAAAAAATTCTTGGAGCTTAAACAGGGTCATATGACA
130 TCAGTCAGAGGTTTCTCGACCAAAAACGTAAAAAATTCTTAGAGCTTAAACAGGGTCATATGACA
18964771 ATGTCCGAATATGAACTAGAATTTG
195 ATGTCCGAATATGAACTAGAATTTG
18964796 CTCGATTGAG
Statistics
Matches: 202, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
226 3 0.01
227 199 0.99
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (227 bp):
AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGATTACCAGTGATGGAATACATTAACT
TCTATTGTGCCAAAAGAGAGGATTACTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATACAT
CAGTCAGAGGTTTCTCGACCAAAAACGTAAAAAATTCTTAGAGCTTAAACAGGGTCATATGACAA
TGTCCGAATATGAACTAGAATTTGTTCGGCTA
Found at i:18969641 original size:25 final size:24
Alignment explanation
Indices: 18969613--18969693 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 24
18969603 GACACACCAC
*
18969613 AGCTCGTATGAGCTTCCCATTATAT
1 AGCTCGCATGAGCTTCCCATTAT-T
*
18969638 AGCTCACATGAGCTT-CCAGTTACTT
1 AGCTCGCATGAGCTTCCCA-TTA-TT
*
18969663 AGCTCGCATGAGCTTCCCTTTATT
1 AGCTCGCATGAGCTTCCCATTATT
18969687 CAGCTCG
1 -AGCTCG
18969694 GAGAAGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 5 0.10
25 40 0.83
26 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.33
Consensus pattern (24 bp):
AGCTCGCATGAGCTTCCCATTATT
Found at i:18976497 original size:24 final size:21
Alignment explanation
Indices: 18976444--18976487 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18976434 ATATGGTCTT
18976444 TTGTTTTGCATGAGGCACATG
1 TTGTTTTGCATGAGGCACATG
18976465 TTGTTTTGCATGAGGCACATG
1 TTGTTTTGCATGAGGCACATG
18976486 TT
1 TT
18976488 CTTGTTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (21 bp):
TTGTTTTGCATGAGGCACATG
Found at i:18979889 original size:22 final size:23
Alignment explanation
Indices: 18979863--18979911 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
18979853 AAATATAAAC
18979863 TTTATTATTCTATTATTA-ATTA
1 TTTATTATTCTATTATTACATTA
* *
18979885 TTTATTTTTGTATTATTACTATTA
1 TTTATTATTCTATTATTAC-ATTA
18979909 TTT
1 TTT
18979912 TGTCTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTATTCTATTATTACATTA
Found at i:18983520 original size:30 final size:31
Alignment explanation
Indices: 18983479--18983554 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
18983469 CATAGAGGGA
* *
18983479 TTAATTAATTTTT-TATTATTTTATA-AGGAC
1 TTAATTGATTTTTAAATTATTTTA-AGAGGAC
*
18983509 TTAATTGATTTTTAAAATTATTTTAAGAGGTC
1 TTAATTGATTTTT-AAATTATTTTAAGAGGAC
18983541 TTAATTGATTTTTA
1 TTAATTGATTTTTA
18983555 GGGATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 12 0.30
31 2 0.05
32 26 0.65
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (31 bp):
TTAATTGATTTTTAAATTATTTTAAGAGGAC
Found at i:18983544 original size:32 final size:32
Alignment explanation
Indices: 18983493--18983554 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
18983483 TTAATTTTTT
18983493 ATTATTTTATAAGGACTTAATTGATTTTTAAA
1 ATTATTTTATAAGGACTTAATTGATTTTTAAA
*
18983525 ATTATTTTA-AGAGGTCTTAATTGATTTTTA
1 ATTATTTTATA-AGGACTTAATTGATTTTTA
18983555 GGGATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTATTTTATAAGGACTTAATTGATTTTTAAA
Found at i:18984204 original size:20 final size:19
Alignment explanation
Indices: 18984181--18984221 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18984171 ATTTTAAAAT
18984181 AATTTAAAAAATTAATTAAA
1 AATTTAAAAAA-TAATTAAA
**
18984201 AATTTGTAAAATAATTAAA
1 AATTTAAAAAATAATTAAA
18984220 AA
1 AA
18984222 ATCAATTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AATTTAAAAAATAATTAAA
Found at i:18984222 original size:20 final size:21
Alignment explanation
Indices: 18984159--18984223 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
18984149 CATACTTTTC
18984159 AAAA-TTATAAAAATT--TTAA
1 AAAATTTA-AAAAATTAATTAA
18984178 AATAATTTAAAAAATTAATT-A
1 AA-AATTTAAAAAATTAATTAA
**
18984199 AAAATTTGTAAAA-TAATTAA
1 AAAATTTAAAAAATTAATTAA
18984219 AAAAT
1 AAAAT
18984224 CAATTAAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 7 0.18
20 24 0.62
21 6 0.15
22 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATTTAAAAAATTAATTAA
Found at i:18984505 original size:20 final size:20
Alignment explanation
Indices: 18984482--18984524 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18984472 TTTAGTTATT
*
18984482 AAATGATAATTTTATAAATA
1 AAATGATAATCTTATAAATA
*
18984502 AAATTATAATCTTATAAATA
1 AAATGATAATCTTATAAATA
18984522 AAA
1 AAA
18984525 CAATTTAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATGATAATCTTATAAATA
Found at i:18985136 original size:32 final size:32
Alignment explanation
Indices: 18985100--18985161 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
18985090 AAAAATGAAC
* *
18985100 TTTTA-AATGTATATCTTTTTTAATTTTTAAAG
1 TTTTATAATGTAT-TATTTTTCAATTTTTAAAG
*
18985132 TTTTATTATGTATTATTTTTCAATTTTTAA
1 TTTTATAATGTATTATTTTTCAATTTTTAA
18985162 GAAGTAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (32 bp):
TTTTATAATGTATTATTTTTCAATTTTTAAAG
Found at i:18985856 original size:22 final size:22
Alignment explanation
Indices: 18985823--18985883 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
18985813 GCCCGGCCCG
* *
18985823 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
18985846 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
18985868 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
18985884 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:18985896 original size:16 final size:16
Alignment explanation
Indices: 18985859--18985898 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18985849 TTAATAAAAT
* *
18985859 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
18985875 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
18985891 TAAAATTA
1 TAAAATTA
18985899 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:18985977 original size:59 final size:60
Alignment explanation
Indices: 18985909--18986087 Score: 261
Period size: 59 Copynumber: 2.9 Consensus size: 60
18985899 TCAAATTATT
* *
18985909 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-A
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCAA
18985968 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCAA
18986028 ATTATTAATTGTTTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
1 A--ATT-A-----TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
18986088 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 9
0.91 0.02 0.08
Matches are distributed among these distances:
59 56 0.51
60 2 0.02
62 3 0.03
63 1 0.01
68 47 0.43
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (60 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCAA
Found at i:18986194 original size:22 final size:24
Alignment explanation
Indices: 18986154--18986197 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18986144 AAATAAACTT
18986154 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
18986178 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
18986198 CTTGCCCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:18991158 original size:28 final size:28
Alignment explanation
Indices: 18991100--18991180 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 28
18991090 TGATAAGCCT
18991100 AAAAATTACAAAAATA-TATAAAAGTGAA
1 AAAAATTA-AAAAATATTATAAAAGTGAA
18991128 AAAAATTAAAAAATATTAT-AAA-TGACTA
1 AAAAATTAAAAAATATTATAAAAGTGA--A
*
18991156 AAAAATTTAAAAAAAATTATTAAAA
1 AAAAA-TTAAAAAATATTA-TAAAA
18991181 TAAAGATTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.07
27 10 0.22
28 17 0.37
29 12 0.26
30 1 0.02
31 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAATTAAAAAATATTATAAAAGTGAA
Found at i:18991159 original size:29 final size:28
Alignment explanation
Indices: 18991100--18991180 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
18991090 TGATAAGCCT
*
18991100 AAAAATTACAAAAATA-TATAAAAGTGAA
1 AAAAATTA-AAAAATATTATAAAACTGAA
18991128 AAAAATTAAAAAATATTATAAATGACT-AA
1 AAAAATTAAAAAATATTATAAA--ACTGAA
* *
18991157 AAAATTTAAAAAAAATTATTAAAA
1 AAAAATTAAAAAATATTA-TAAAA
18991181 TAAAGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.15
28 15 0.33
29 18 0.39
30 6 0.13
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAATTAAAAAATATTATAAAACTGAA
Found at i:18991246 original size:17 final size:18
Alignment explanation
Indices: 18991214--18991261 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
18991204 ATTAAAAATA
*
18991214 AAAATTTTAAAAATATGG
1 AAAATTTTAAAAATATAG
*
18991232 AAAATTTT-CAAATATAG
1 AAAATTTTAAAAATATAG
18991249 AAAATTATTAAAA
1 AAAATT-TTAAAA
18991262 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 13 0.52
18 10 0.40
19 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (18 bp):
AAAATTTTAAAAATATAG
Found at i:18991281 original size:9 final size:9
Alignment explanation
Indices: 18991249--18991282 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18991239 TCAAATATAG
18991249 AAAATTATT
1 AAAATTATT
18991258 AAAATTATT
1 AAAATTATT
*
18991267 AAAAATATAT
1 AAAATTAT-T
18991277 AAAATT
1 AAAATT
18991283 GTAAATAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATT
Found at i:18991383 original size:20 final size:21
Alignment explanation
Indices: 18991355--18991403 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
18991345 CAAAGTAACT
*
18991355 CAAATAAATAATA-AAAAATA
1 CAAAAAAATAATATAAAAATA
* * *
18991375 CAAAAAAATGATATAAAATTG
1 CAAAAAAATAATATAAAAATA
18991396 CAAAAAAA
1 CAAAAAAA
18991404 AATTTTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.18
Consensus pattern (21 bp):
CAAAAAAATAATATAAAAATA
Found at i:18991745 original size:18 final size:19
Alignment explanation
Indices: 18991724--18991793 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
18991714 ATTCATGTAA
18991724 TTTTATA-ATTTTTTACAC
1 TTTTATATATTTTTTACAC
* * * *
18991742 TTTTTTATATTTTATAATAT
1 TTTTATATATTTT-TTACAC
*
18991762 TTTTA-AT-TATTTTTGCAC
1 TTTTATATAT-TTTTTACAC
18991780 TTTTATATATTTTT
1 TTTTATATATTTTT
18991794 ATAGTTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
18 14 0.37
19 16 0.42
20 8 0.21
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTATATATTTTTTACAC
Found at i:18991766 original size:38 final size:39
Alignment explanation
Indices: 18991724--18991849 Score: 111
Period size: 38 Copynumber: 3.3 Consensus size: 39
18991714 ATTCATGTAA
18991724 TTTTATAATTTTTTACACTTTTTTATA-TTTTATAATAT
1 TTTTATAATTTTTTACACTTTTTTATATTTTTATAATAT
* * * *
18991762 TTTTA-ATTATTTTTGCACTTTTATATATTTTTATAGT-T
1 TTTTATAAT-TTTTTACACTTTTTTATATTTTTATAATAT
* * *
18991800 TTTTGTAA-TTTGTA-A-TTTTTTATTATTTTTTAAAATAT
1 TTTTATAATTTTTTACACTTTTTTA-TA-TTTTTATAATAT
*
18991838 TTTTATGATTTT
1 TTTTATAATTTT
18991850 AAGTATAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
35 6 0.09
36 3 0.04
37 14 0.21
38 33 0.49
39 12 0.18
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (39 bp):
TTTTATAATTTTTTACACTTTTTTATATTTTTATAATAT
Found at i:18991774 original size:28 final size:27
Alignment explanation
Indices: 18991723--18991830 Score: 85
Period size: 28 Copynumber: 3.9 Consensus size: 27
18991713 AATTCATGTA
* *
18991723 ATTTTATAATTTTTTACACTTTTTTAT
1 ATTTTATAATTTTTTACATTTTTTTGT
*
18991750 ATTTTATAATATTTTTA-ATTATTTTTGC
1 ATTTTATAAT-TTTTTACATT-TTTTTGT
* *
18991778 ACTTTTAT-ATATTTTTATAGTTTTTTGT
1 A-TTTTATAAT-TTTTTACATTTTTTTGT
* * *
18991806 AATTTGTAATTTTTTATTATTTTTT
1 ATTTTATAATTTTTTA-CATTTTTT
18991831 AAAATATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
27 22 0.33
28 37 0.55
29 8 0.12
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (27 bp):
ATTTTATAATTTTTTACATTTTTTTGT
Found at i:19009867 original size:85 final size:84
Alignment explanation
Indices: 19009764--19009922 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 84
19009754 GAAATTAAAA
* * * *
19009764 TTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGATTAACAAGATTTTATTCGATTTTAATTTT
1 TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATATTAA-TTT
19009829 ATTTCCAAATTAGAATTAAT
65 ATTTCCAAATTAGAATTAAT
* * * *
19009849 TTAAATAAAATCTATTTCGAGATTTATTCCCGTCGTTTAAGAAGATTTTATTCAATATTAATTTG
1 TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATATTAATTTA
19009914 TTTCCAAAT
66 TTTCCAAAT
19009923 GAAGACTTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 12 0.18
85 54 0.82
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (84 bp):
TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATATTAATTTA
TTTCCAAATTAGAATTAAT
Found at i:19014915 original size:14 final size:14
Alignment explanation
Indices: 19014896--19014940 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
19014886 AATCATTCTA
19014896 TTTATATATTTTAT
1 TTTATATATTTTAT
19014910 TTTATATA-TTTAT
1 TTTATATATTTTAT
*
19014923 TTTATATTTATTTAT
1 TTTATATAT-TTTAT
19014938 TTT
1 TTT
19014941 GTTCGATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.43
14 8 0.29
15 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATATATTTTAT
Found at i:19015613 original size:21 final size:21
Alignment explanation
Indices: 19015589--19015630 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19015579 CCTTAACTTA
19015589 AATTGTTCATC-TCCTCTTTTT
1 AATTGTTCATCGT-CTCTTTTT
* *
19015610 AATTTTTCTTCGTCTCTTTTT
1 AATTGTTCATCGTCTCTTTTT
19015631 TTTTAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (21 bp):
AATTGTTCATCGTCTCTTTTT
Found at i:19024021 original size:2 final size:2
Alignment explanation
Indices: 19024016--19024055 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19024006 AAAAAAAGAA
19024016 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
19024056 GGGGGGGGGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19029951 original size:17 final size:17
Alignment explanation
Indices: 19029929--19029962 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19029919 GAGTAATATG
19029929 AAATTGTGACTTTAGGT
1 AAATTGTGACTTTAGGT
19029946 AAATTGTGACTTTAGGT
1 AAATTGTGACTTTAGGT
19029963 TTACATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
AAATTGTGACTTTAGGT
Found at i:19031635 original size:90 final size:90
Alignment explanation
Indices: 19031377--19031636 Score: 326
Period size: 89 Copynumber: 2.9 Consensus size: 90
19031367 ATTTGCAGCT
** * *
19031377 CTGGTGGTTCATCCATAGA-TTTCTGACAGCTCTTATCTACAAATATGTTATGCATTCACAACCA
1 CTGGTGGTTCATCCATCCATTTTCTGGCAGCTCTTATATACAAATATGTTATGCATTCACAACCA
19031441 TCTGGCAGCGTATTAACCTGCAACA
66 TCTGGCAGCGTATTAACCTGCAACA
* * * * ** *
19031466 CTGGTGGTTCATCAACCCATTTT-TTGCAGCTCTTATGTGTAAATATGTTCTGCATTCACAACCA
1 CTGGTGGTTCATCCATCCATTTTCTGGCAGCTCTTATATACAAATATGTTATGCATTCACAACCA
* * *
19031530 TCTGACAACGTATTAATCTGCAACA
66 TCTGGCAGCGTATTAACCTGCAACA
* * * *
19031555 CTGGTGGTTCACCCATCCATTTTCTGGCAGCTCTCATATACAAATATGTTGTGCATTCACAACCG
1 CTGGTGGTTCATCCATCCATTTTCTGGCAGCTCTTATATACAAATATGTTATGCATTCACAACCA
* *
19031620 TTTGGCAGCGAATTAAC
66 TCTGGCAGCGTATTAAC
19031637 ATACAAATTT
Statistics
Matches: 141, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
89 92 0.65
90 49 0.35
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (90 bp):
CTGGTGGTTCATCCATCCATTTTCTGGCAGCTCTTATATACAAATATGTTATGCATTCACAACCA
TCTGGCAGCGTATTAACCTGCAACA
Found at i:19034693 original size:14 final size:14
Alignment explanation
Indices: 19034671--19034710 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
19034661 CATTGATCTA
19034671 TAAAATAATTAAAT
1 TAAAATAATTAAAT
*
19034685 TAAATTAATTAAAT
1 TAAAATAATTAAAT
19034699 TAAAATATATTA
1 TAAAATA-ATTA
19034711 TCATATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAAATAATTAAAT
Found at i:19036397 original size:17 final size:18
Alignment explanation
Indices: 19036364--19036397 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19036354 TACTTCTTAT
19036364 GTATAAAAAACTTAAGTA
1 GTATAAAAAACTTAAGTA
*
19036382 GTATATAAAA-TTAAGT
1 GTATAAAAAACTTAAGT
19036398 TTTGTCTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (18 bp):
GTATAAAAAACTTAAGTA
Found at i:19036768 original size:21 final size:21
Alignment explanation
Indices: 19036742--19036817 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 21
19036732 TACGAGGAGG
19036742 ATTCATTGTTATGATTTCGATATT
1 ATTCATTGTTATGATTTCG--A-T
* *
19036766 CATTCAATTTTTATGATTTTCTG-G
1 -ATTC-ATTGTTATGA-TTTC-GAT
19036790 ATTCATTGTTATGATTTCGAT
1 ATTCATTGTTATGATTTCGAT
19036811 ATTCATT
1 ATTCATT
19036818 CAATTTTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.02
21 11 0.26
22 9 0.21
23 4 0.09
25 4 0.09
26 9 0.21
27 4 0.09
28 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.54
Consensus pattern (21 bp):
ATTCATTGTTATGATTTCGAT
Found at i:19037167 original size:16 final size:18
Alignment explanation
Indices: 19037138--19037182 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
19037128 TAAAAATTAT
19037138 AAATTAA-A-TTTTATT-
1 AAATTAATATTTTTATTC
19037153 AAA-TAATATTTTTATTC
1 AAATTAATATTTTTATTC
19037170 AAATTAATATTTT
1 AAATTAATATTTT
19037183 GAAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 7 0.27
17 3 0.12
18 9 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATTAATATTTTTATTC
Found at i:19038304 original size:17 final size:16
Alignment explanation
Indices: 19038278--19038309 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
19038268 GTGCTTTTCT
19038278 AAAACACTTCTGAAAG
1 AAAACACTTCTGAAAG
19038294 AAAATCACTTCTGAAA
1 AAAA-CACTTCTGAAA
19038310 AGGAGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (16 bp):
AAAACACTTCTGAAAG
Found at i:19038795 original size:13 final size:13
Alignment explanation
Indices: 19038779--19038831 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
19038769 TTTAAACCAA
19038779 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* * *
19038792 ACTTTCCCACAAC
1 ACTTTTCAAAAAC
19038805 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
19038818 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
19038831 A
1 A
19038832 ATGAAAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:19042502 original size:46 final size:45
Alignment explanation
Indices: 19042435--19042760 Score: 368
Period size: 46 Copynumber: 7.6 Consensus size: 45
19042425 TTTGAGTACT
*
19042435 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
19042481 TCTGATCAAGTGAAAAAGTGATAA---GT-G--T---TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
19042517 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
19042563 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
19042599 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
19042645 TCTGATCAAGTGAGAAAGTTATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
19042691 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
19042736 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
19042761 ATCATATGTA
Statistics
Matches: 242, Mismatches: 18, Indels: 43
0.80 0.06 0.14
Matches are distributed among these distances:
36 58 0.24
38 1 0.00
39 4 0.02
40 4 0.02
41 1 0.00
42 5 0.02
43 18 0.07
44 3 0.01
45 19 0.08
46 129 0.53
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:19042514 original size:36 final size:36
Alignment explanation
Indices: 19042473--19042628 Score: 177
Period size: 36 Copynumber: 4.1 Consensus size: 36
19042463 TAGCATTAGC
19042473 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
19042509 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T
*
19042552 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
19042591 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
19042627 TA
1 TA
19042629 GCCTTAGCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
36 65 0.64
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 30 0.29
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:19042538 original size:82 final size:81
Alignment explanation
Indices: 19042435--19042760 Score: 431
Period size: 82 Copynumber: 3.9 Consensus size: 81
19042425 TTTGAGTACT
*
19042435 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
19042500 GATAAGTGTTACACTTA
65 GATAAGTGTTACACTTA
*
19042517 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
19042582 GATAAGTGCTATACTTA
65 GATAAGTGTTACACTTA
* *
19042599 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
19042664 TATAAGTGGTAGCCTTAGCTACTCTTA
65 GATAA---GT-G--TTA-C-A--CTTA
* * *
19042691 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
19042754 ATAAGTG
66 ATAAGTG
19042761 ATCATATGTA
Statistics
Matches: 216, Mismatches: 17, Indels: 19
0.86 0.07 0.08
Matches are distributed among these distances:
82 141 0.65
83 1 0.00
85 3 0.01
86 3 0.01
88 2 0.01
89 9 0.04
90 3 0.01
91 20 0.09
92 34 0.16
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGTTACACTTA
Found at i:19042753 original size:128 final size:126
Alignment explanation
Indices: 19042435--19042760 Score: 357
Period size: 128 Copynumber: 2.6 Consensus size: 126
19042425 TTTGAGTACT
* *
19042435 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGT
* *
19042500 GATAAGTGTTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
64 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
19042563 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTG
* * *
19042619 ATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTTATAAGTGGTAGCCTTAGCT
65 AT-A-----AG---T-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCT
*
19042684 ACTCTTA
120 ACACTTA
* * *
19042691 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGA
19042755 TAAGTG
66 TAAGTG
19042761 ATCATATGTA
Statistics
Matches: 166, Mismatches: 12, Indels: 43
0.75 0.05 0.19
Matches are distributed among these distances:
117 1 0.01
118 23 0.14
119 1 0.01
120 1 0.01
122 2 0.01
124 4 0.02
125 3 0.02
126 1 0.01
127 1 0.01
128 96 0.58
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.01
135 8 0.05
136 4 0.02
137 12 0.07
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGA
TAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:19045691 original size:19 final size:20
Alignment explanation
Indices: 19045663--19045701 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19045653 GCTCATCTCA
*
19045663 ATGCATATTTCGT-AAAACG
1 ATGCAGATTTCGTGAAAACG
*
19045682 ATGCAGATTTTGTGAAAACG
1 ATGCAGATTTCGTGAAAACG
19045702 GTCTTACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGCAGATTTCGTGAAAACG
Found at i:19060856 original size:16 final size:16
Alignment explanation
Indices: 19060835--19060865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19060825 CTATGAGTGC
*
19060835 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
19060851 AAAATACAAAAGACA
1 AAAATACAAAAGACA
19060866 TAATAATGAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:19061800 original size:6 final size:6
Alignment explanation
Indices: 19061789--19061816 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19061779 TAAAGTTCGT
19061789 ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATAT
19061817 TTTAATAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:19062117 original size:23 final size:24
Alignment explanation
Indices: 19062041--19062116 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
19062031 TTATAAGATT
* ***
19062041 AAAAAATTTAGTAATCAAT-CCCC
1 AAAAAATTTATTAATCAATATATC
* *
19062064 AAAAAAATTGTTAATCAATATATC
1 AAAAAATTTATTAATCAATATATC
*
19062088 AAAAAATTTATTAATCAATATATG
1 AAAAAATTTATTAATCAATATATC
19062112 AAAAA
1 AAAAA
19062117 TTGATTTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 16 0.37
24 27 0.63
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAATTTATTAATCAATATATC
Found at i:19065130 original size:22 final size:22
Alignment explanation
Indices: 19065112--19065194 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
19065102 ATTAATTTCT
19065112 TTCAAAAATTCTCTCAATT-CC
1 TTCAAAAATTCTCTCAATTCCC
*
19065133 TTTAAAAATTTCTCTCAATTCCC
1 TTCAAAAA-TTCTCTCAATTCCC
* *
19065156 TTCAAAATTTC-CATCAATTTCC
1 TTCAAAAATTCTC-TCAATTCCC
*
19065178 TTCCAAAATTCTCTCAA
1 TTCAAAAATTCTCTCAA
19065195 ACTCTCAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.15
22 35 0.67
23 9 0.17
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCAAAAATTCTCTCAATTCCC
Found at i:19065201 original size:52 final size:51
Alignment explanation
Indices: 19065144--19065246 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
19065134 TTAAAAATTT
* *
19065144 CTCTC-AATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
19065196 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
19065247 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:19065235 original size:21 final size:22
Alignment explanation
Indices: 19065196--19065237 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19065186 TTCTCTCAAA
19065196 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
19065218 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
19065238 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:19065334 original size:29 final size:29
Alignment explanation
Indices: 19065279--19065334 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
19065269 ATTAAATTTC
19065279 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
19065308 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
19065335 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:19065342 original size:29 final size:29
Alignment explanation
Indices: 19065279--19065342 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
19065269 ATTAAATTTC
*
19065279 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
19065308 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
19065336 ATATTTT
1 ATTTTTT
19065343 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:19065487 original size:24 final size:23
Alignment explanation
Indices: 19065432--19065487 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
19065422 TTAATTTTAA
*
19065432 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
19065455 ATCTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
19065481 ATTTTTT
1 ATTTTTT
19065488 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:19067640 original size:17 final size:18
Alignment explanation
Indices: 19067618--19067653 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19067608 TAAAATCCCT
19067618 AAACCCT-ACTTAATTAA
1 AAACCCTAACTTAATTAA
*
19067635 AAACCCTAATTTAATTAA
1 AAACCCTAACTTAATTAA
19067653 A
1 A
19067654 TTAAAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACCCTAACTTAATTAA
Found at i:19067659 original size:23 final size:23
Alignment explanation
Indices: 19067629--19067741 Score: 111
Period size: 23 Copynumber: 4.7 Consensus size: 23
19067619 AACCCTACTT
*
19067629 AATTAAAAACCCTAATTTAATTA
1 AATTAAAAACCCTAATCTAATTA
* * *
19067652 AATTAAAAACTCTAACCTAATTT
1 AATTAAAAACCCTAATCTAATTA
19067675 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAA--T---CTAATTA
* *
19067703 AATTAAAAACCCTAACCCT-ATTT
1 AATTAAAAACCCTAA-TCTAATTA
19067726 AATTAAAAACCCTAAT
1 AATTAAAAACCCTAAT
19067742 TAAATTGTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
23 51 0.68
24 2 0.03
27 1 0.01
28 21 0.28
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (23 bp):
AATTAAAAACCCTAATCTAATTA
Found at i:19067670 original size:28 final size:28
Alignment explanation
Indices: 19067639--19067732 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
19067629 AATTAAAAAC
*
19067639 CCTAATTTAATTAAATTAAAAACTCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
19067667 CCTAA--T--TT-AATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
**
19067690 CCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
19067718 CCCT-ATTTAATTAAA
1 -CCTAATTTAATTAAA
19067733 AACCCTAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
23 19 0.33
24 2 0.04
25 1 0.02
26 1 0.02
27 2 0.04
28 29 0.51
29 3 0.05
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (28 bp):
CCTAATTTAATTAAATTAAAAACCCTAA
Found at i:19071049 original size:83 final size:84
Alignment explanation
Indices: 19070851--19071052 Score: 379
Period size: 83 Copynumber: 2.4 Consensus size: 84
19070841 CAAACTTGCT
19070851 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
19070916 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
* *
19070935 ACTGTAGCAAAATCGCGTCCACGAGGTCGCGATTTGACACTATTTGCTCAGAAACGTC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
19070999 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
19071018 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
19071053 CACAATTTCT
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 58 0.51
84 56 0.49
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
ATTATTTCCTACATGACCA
Found at i:19071182 original size:124 final size:123
Alignment explanation
Indices: 19070963--19071241 Score: 366
Period size: 124 Copynumber: 2.3 Consensus size: 123
19070953 CCACGAGGTC
*
19070963 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
* * * * * **
19071028 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AATCGCGTCCACGAGGCCACGATGTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
19071086 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTGACACTATTTCCTCAG-AAACGTC-AAAAAAATTATTTCCT-ACATGACCAACTGTAG
* *
19071149 CGAAATCGCGTCCACGAGGCCACTATGTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
63 CGAAATCGCGTCCACGAGGCCACGATGTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
** *
19071210 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTGACACTATTT-CCTCAGAAACGTCAA
19071242 CTCAAAAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.01
123 27 0.20
124 85 0.62
125 22 0.16
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (123 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATGTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:19074118 original size:18 final size:18
Alignment explanation
Indices: 19074069--19074118 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
19074059 AAAAAAAATG
*
19074069 TTTTGAAATTGAATAACA
1 TTTTGAAAATGAATAACA
* * *
19074087 ATTTGTAAATGAATAATA
1 TTTTGAAAATGAATAACA
*
19074105 TTTTGAAAACGAAT
1 TTTTGAAAATGAAT
19074119 GACACGATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (18 bp):
TTTTGAAAATGAATAACA
Found at i:19076104 original size:41 final size:41
Alignment explanation
Indices: 19076059--19076154 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
19076049 GAACACTGGA
* *
19076059 ATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGC
1 ATTAAGCCTGCTAGACATAAAGTATGAAATATTTCACCAGC
* *
19076100 ATTAAGCCTGTTAGACGTAAAGTATGAAATATTTCACCAGC
1 ATTAAGCCTGCTAGACATAAAGTATGAAATATTTCACCAGC
*
19076141 ATTAAACCTGCTAG
1 ATTAAGCCTGCTAG
19076155 GCACAGAGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (41 bp):
ATTAAGCCTGCTAGACATAAAGTATGAAATATTTCACCAGC
Found at i:19076558 original size:65 final size:67
Alignment explanation
Indices: 19076433--19076586 Score: 172
Period size: 65 Copynumber: 2.3 Consensus size: 67
19076423 CCTCTTATAT
* **
19076433 ATATATATATATATATTTCATAACATTACATTCAATTCAAAGACATTGCATCATTTATTCGAAC-
1 ATATATATATATA-ATTT-ATAACATTACATTCAACTCAAAGACATTGCATCATACATTCGAACA
19076497 CA-C
64 CATC
* * *
19076500 ATATATATATACAATTTATAACATTA-AGTTCAACTCAAAGA-ATTTGTATTATACATTCGAACA
1 ATATATATATATAATTTATAACATTACA-TTCAACTCAAAGACA-TTGCATCATACATTCGAACA
19076563 TCATC
64 -CATC
*
19076568 ATATATTTATATAATTTAT
1 ATATATATATATAATTTAT
19076587 GCTATTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 2 0.03
65 36 0.49
66 4 0.05
67 14 0.19
68 18 0.24
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (67 bp):
ATATATATATATAATTTATAACATTACATTCAACTCAAAGACATTGCATCATACATTCGAACACA
TC
Found at i:19079250 original size:6 final size:6
Alignment explanation
Indices: 19079239--19079268 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
19079229 AATAATTGTA
19079239 AATTAT AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT
19079269 CACAAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:19080376 original size:21 final size:21
Alignment explanation
Indices: 19080350--19080390 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19080340 TCAAAAGCTG
*
19080350 AACAGAAGCTCGTGAGAGTTA
1 AACAGAAGCTCGTAAGAGTTA
19080371 AACAGAAGCTCGTAAGAGTT
1 AACAGAAGCTCGTAAGAGTT
19080391 GATCCACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGTTA
Found at i:19083797 original size:34 final size:34
Alignment explanation
Indices: 19083753--19083820 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
19083743 GCACAGTTGA
* *
19083753 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
19083788 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
19083821 TTAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:19090963 original size:67 final size:67
Alignment explanation
Indices: 19090879--19091036 Score: 280
Period size: 67 Copynumber: 2.4 Consensus size: 67
19090869 TCTGGTTCTA
*
19090879 CCGATGAAGCACTGGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
1 CCGATGAGGCACTGGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
19090944 GT
66 GT
*
19090946 CCGATGAGGCACTGGGTGCCAAACACACTAATGATCACTGAGTGCAAACTATTTACCTCGGCATT
1 CCGATGAGGCACTGGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
19091011 GT
66 GT
* *
19091013 CCGATGAGGCATTGGGTGTCAAAC
1 CCGATGAGGCACTGGGTGCCAAAC
19091037 TAGTGTAATT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 87 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (67 bp):
CCGATGAGGCACTGGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
GT
Found at i:19096249 original size:5 final size:5
Alignment explanation
Indices: 19096241--19096278 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
19096231 TATAGATACT
19096241 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
19096279 TTCTCTCGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:19096796 original size:7 final size:7
Alignment explanation
Indices: 19096780--19096813 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
19096770 GTTCTTTAAA
19096780 CTTTTCTT
1 CTTTT-TT
19096788 CTTTTTT
1 CTTTTTT
19096795 CTTTTTT
1 CTTTTTT
19096802 CTTTTTT
1 CTTTTTT
19096809 -TTTTT
1 CTTTTT
19096814 CATTCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.19
7 16 0.62
8 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:19096824 original size:17 final size:15
Alignment explanation
Indices: 19096780--19096824 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
19096770 GTTCTTTAAA
19096780 CTTTTCTTCTTTTTT
1 CTTTTCTTCTTTTTT
19096795 CTTTT-TTCTTTTTT
1 CTTTTCTTCTTTTTT
* *
19096809 TTTTTCATTCTATTTT
1 CTTTTC-TTCTTTTTT
19096825 ACTTATCCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
15 5 0.19
16 8 0.31
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTTCTTCTTTTTT
Found at i:19100758 original size:5 final size:5
Alignment explanation
Indices: 19100750--19100782 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
19100740 TATAAAATAA
19100750 TTATT TTA-- TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
19100783 CATTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.12
5 23 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:19100778 original size:23 final size:24
Alignment explanation
Indices: 19100750--19100796 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19100740 TATAAAATAA
* *
19100750 TTATTTTATT-ATTTTATTTTATT
1 TTATTTTATTCATTTAATTATATT
19100773 TTATTTTATTCATTTAATTATATT
1 TTATTTTATTCATTTAATTATATT
19100797 AAACTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTATTTTATTCATTTAATTATATT
Found at i:19105653 original size:239 final size:239
Alignment explanation
Indices: 19105234--19105711 Score: 947
Period size: 239 Copynumber: 2.0 Consensus size: 239
19105224 TGGGGAGATG
19105234 GCTAGTCTCAGCTATCGAAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAAAA
1 GCTAGTCTCAGCTATCGAAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAAAA
19105299 TGATACATTGGATTGGACCCAATATGAATTAATTTTGAATCCGTTTGTGAATTAATTCACTTGTG
66 TGATACATTGGATTGGACCCAATATGAATTAATTTTGAATCCGTTTGTGAATTAATTCACTTGTG
19105364 ACATTCATGGTGTGATTTACCTAAATCCTGAGTTAGTCCCTGACCATGTGCATGCAACTCATGTG
131 ACATTCATGGTGTGATTTACCTAAATCCTGAGTTAGTCCCTGACCATGTGCATGCAACTCATGTG
19105429 CTTTGATATAAGTAGAGGCTTATGCTCTAAAGATGATCAAGCCC
196 CTTTGATATAAGTAGAGGCTTATGCTCTAAAGATGATCAAGCCC
19105473 GCTAGTCTCAGCTATCGAAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAAAA
1 GCTAGTCTCAGCTATCGAAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAAAA
*
19105538 TGATACATTGGATTGGGCCCAATATGAATTAATTTTGAATCCGTTTGTGAATTAATTCACTTGTG
66 TGATACATTGGATTGGACCCAATATGAATTAATTTTGAATCCGTTTGTGAATTAATTCACTTGTG
19105603 ACATTCATGGTGTGATTTACCTAAATCCTGAGTTAGTCCCTGACCATGTGCATGCAACTCATGTG
131 ACATTCATGGTGTGATTTACCTAAATCCTGAGTTAGTCCCTGACCATGTGCATGCAACTCATGTG
19105668 CTTTGATATAAGTAGAGGCTTATGCTCTAAAGATGATCAAGCCC
196 CTTTGATATAAGTAGAGGCTTATGCTCTAAAGATGATCAAGCCC
19105712 ATAACCAGTA
Statistics
Matches: 238, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 238 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (239 bp):
GCTAGTCTCAGCTATCGAAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAAAA
TGATACATTGGATTGGACCCAATATGAATTAATTTTGAATCCGTTTGTGAATTAATTCACTTGTG
ACATTCATGGTGTGATTTACCTAAATCCTGAGTTAGTCCCTGACCATGTGCATGCAACTCATGTG
CTTTGATATAAGTAGAGGCTTATGCTCTAAAGATGATCAAGCCC
Found at i:19106988 original size:62 final size:59
Alignment explanation
Indices: 19106920--19107036 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
19106910 AGTGATTATC
* * * *
19106920 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAACTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTCATC-T-T-GATAAATATTATATTAACTTAATAAGAT
*
19106982 TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAACTTAATA
19107037 TTAATATGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAACTTAATAAGAT
Found at i:19112045 original size:132 final size:131
Alignment explanation
Indices: 19111909--19113235 Score: 1797
Period size: 132 Copynumber: 10.1 Consensus size: 131
19111899 TGGGGTCTTC
* * * * ** * * *
19111909 GATCTGCTCCATTATTGCCTAGAGAGGTAAGATCTGTAATCTTCAATATATTCCACTGCTGCCTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC-A
* * **
19111974 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGTTATCC
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCC
19112039 TT
130 TT
* * * * *
19112041 GATCTGCTCCACTACTACTTAGGGAGACAAGATCTAAAATATTGAATCTATTCCACTGCTGCCCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CCA
* * * *
19112106 GGGAAGTAGAATTACTGGCTTCAATGTACTCCTCTATATCCACAGGGAGGTAAAAT-TCACCATC
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
*
19112170 TTT
129 CTT
* * * *
19112173 GATCTGCCCCACTACTGCTTAGGGAGACAATATCTGAAATTTTCAATCTATTCCACTGCTGCCCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CCA
* * *
19112238 GGGAAGTAGAATTATTGGTTTCAATGTACTCCACTATAACCACAGGGAGGTAAAAT-T-CACTAT
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGC-C-AT
19112301 -CTT
128 CCTT
*
19112304 CGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCC
1 -GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CC
* * *
19112369 AGGGAAGTAGAATTGCTGGTTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATC
64 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
*
19112434 TTT
129 CTT
* * * *
19112437 GACCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTACTGTCTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CCA
* *
19112502 GGGAAGTAGAATTGCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCC
19112567 TT
130 TT
* * * *
19112569 GATCTACTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTACTGTCTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CCA
* *
19112634 GGGAAGTAGAATTGCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCC
19112699 TT
130 TT
* * *
19112701 GATCTACTCCACTACTGTTTAGGGAGACAAGATCTGAAATATTCAATCTATTCCGCTGCTGTCCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CCA
* * * * *
19112766 GGGAAGTAGAATTACTGGCTTCAATGTACTTCACTGTAACCTCGGGGAGGTAAAATCCGTCAT-C
65 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCC
19112830 TT
130 TT
*
19112832 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTACTGTCC
1 -GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CC
* * * * *
19112897 AGGGAAGTAGAATTACTGGCTTCAATGTACTTCACTGTAACCTCGGGGAGGTAAAATCCGTCAT-
64 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
19112961 CTT
129 CTT
* * *
19112964 CGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAAATATTCAATCTATTCCGCTGCTATCC
1 -GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCT-GCC
* * *
19113029 AGGGAAGTAGAATTACTGGCTTCAATGT-CTTCACTGTAACCTCAGGGAGGTAAAATCCGCCAT-
64 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
19113092 CTT
129 CTT
19113095 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCC
1 -GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG-CC
* * *
19113160 AGGAAAGTAGAATTACTGGCTTCAATGTACTCCGCTGTAACTACAGGGAGGTAAAATCTGCCATC
64 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
*
19113225 TTT
129 CTT
*
19113228 GATATGCT
1 GATCTGCT
19113236 TCGCTGTTTA
Statistics
Matches: 1099, Mismatches: 83, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
130 1 0.00
131 130 0.12
132 960 0.87
133 8 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCAG
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCCT
T
Found at i:19112496 original size:44 final size:44
Alignment explanation
Indices: 19112443--19112637 Score: 121
Period size: 44 Copynumber: 4.4 Consensus size: 44
19112433 CTTTGACCTG
* *
19112443 CTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCGCTACTGTCTAGGGAGACAAGATCTGAAATCTTCAATCTA
* ** **** *
19112487 TTCCGCTACTGTCTAGGGA-AGTAGAAT-TGCTGGCTTCAATGTA
1 CTCCGCTACTGTCTAGGGAGACAAG-ATCTGAAATCTTCAATCTA
* ** * ** **
19112530 CT-C-C-ACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTA
1 CTCCGCTACTGT---C-TAGGGAGACAAGATCTGAAATCTTCAATCTA
* *
19112575 CTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCGCTACTGTCTAGGGAGACAAGATCTGAAATCTTCAATCTA
*
19112619 TTCCGCTACTGTCTAGGGA
1 CTCCGCTACTGTCTAGGGA
19112638 AGTAGAATTG
Statistics
Matches: 107, Mismatches: 34, Indels: 20
0.66 0.21 0.12
Matches are distributed among these distances:
40 5 0.05
41 1 0.01
42 1 0.01
43 16 0.15
44 64 0.60
45 13 0.12
46 1 0.01
47 1 0.01
48 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCGCTACTGTCTAGGGAGACAAGATCTGAAATCTTCAATCTA
Found at i:19112736 original size:44 final size:44
Alignment explanation
Indices: 19112443--19112750 Score: 119
Period size: 44 Copynumber: 7.0 Consensus size: 44
19112433 CTTTGACCTG
**
19112443 CTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCACTACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
* * * ** *** *
19112487 TTCCGCTACTGTCTAGGGA-AGTAGAAT-TGCTGGCTTCAATGTA
1 CTCCACTACTGTTTAGGGAGACAAG-ATCTGCCATCTTCAATCTA
*** ** * **
19112530 CTCCACTGTAAC--CACAGGGAGGTAAAATCTGCCATCTTTGATCTA
1 CTCCAC--T-ACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
**
19112575 CTCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCACTACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
* * * ** *** *
19112619 TTCCGCTACTGTCTAGGGA-AGTAGAAT-TGCTGGCTTCAATGTA
1 CTCCACTACTGTTTAGGGAGACAAG-ATCTGCCATCTTCAATCTA
*** ** * **
19112662 CTCCACTGTAAC--CACAGGGAGGTAAAATCTGCCATCTTTGATCTA
1 CTCCAC--T-ACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
** *
19112707 CTCCACTACTGTTTAGGGAGACAAGATCTGAAATATTCAATCTA
1 CTCCACTACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
19112751 TTCCGCTGCT
Statistics
Matches: 177, Mismatches: 71, Indels: 32
0.63 0.25 0.11
Matches are distributed among these distances:
42 4 0.02
43 38 0.21
44 95 0.54
45 36 0.20
46 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGTTTAGGGAGACAAGATCTGCCATCTTCAATCTA
Found at i:19114619 original size:8 final size:7
Alignment explanation
Indices: 19114584--19114616 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
19114574 CTATTTTTAC
19114584 TTTTTCA
1 TTTTTCA
19114591 TTTTTCA
1 TTTTTCA
19114598 -TTTTCA
1 TTTTTCA
19114604 TCTTTTCA
1 T-TTTTCA
19114612 TTTTT
1 TTTTT
19114617 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:19121283 original size:42 final size:42
Alignment explanation
Indices: 19121236--19121324 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
19121226 AATATGTAAT
*
19121236 TCACTAACACATCTTGCCATATACAATATCCAATTGGTGAAA
1 TCACTAACACATCTTGCCAAATACAATATCCAATTGGTGAAA
19121278 TCACTAACACATCTTGCCAAATACAATATCCAATTGGTGAAA
1 TCACTAACACATCTTGCCAAATACAATATCCAATTGGTGAAA
19121320 TCACT
1 TCACT
19121325 TAAATGAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (42 bp):
TCACTAACACATCTTGCCAAATACAATATCCAATTGGTGAAA
Found at i:19121495 original size:49 final size:48
Alignment explanation
Indices: 19121442--19121580 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 48
19121432 CTTATTTTCT
*
19121442 CGATGTCATAGTCCAACTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGTCATAG-CCAGCTATGGTCTTACACGTAATCACATAACATATAC
*
19121491 CGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGTCATAGCC-AGCTATGGTCTTACACGTAATCACATAACATATAC
* *
19121540 CGATGTTATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 CGATGTCATAG-CCAGCTATGGTCTTACACGTAATCACATA
19121581 TCACTTATTG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
48 2 0.02
49 79 0.95
50 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (48 bp):
CGATGTCATAGCCAGCTATGGTCTTACACGTAATCACATAACATATAC
Found at i:19122792 original size:23 final size:23
Alignment explanation
Indices: 19122766--19122909 Score: 236
Period size: 23 Copynumber: 6.3 Consensus size: 23
19122756 ATAAGTGCCA
19122766 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
19122789 CACTGATACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
19122812 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
19122834 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
19122857 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
19122880 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
19122903 CACTGAT
1 CACTGAT
19122910 CAATAACACT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
22 19 0.17
23 92 0.83
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:19122875 original size:68 final size:69
Alignment explanation
Indices: 19122766--19122908 Score: 243
Period size: 68 Copynumber: 2.1 Consensus size: 69
19122756 ATAAGTGCCA
* *
19122766 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGAAGCTACCACTG-GATGTAGCCAAAG
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGAAGCTACCACTGAAATGTAGCCAAAG
19122830 CTAC
66 CTAC
* *
19122834 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAG
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGAAGCTACCACTGAAATGTAGCCAAAG
19122899 CTAC
66 CTAC
19122903 CACTGA
1 CACTGA
19122909 TCAATAACAC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
68 49 0.70
69 21 0.30
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (69 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGAAGCTACCACTGAAATGTAGCCAAAG
CTAC
Found at i:19123153 original size:18 final size:17
Alignment explanation
Indices: 19123127--19123165 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19123117 ATTTTCCTTC
19123127 CACATTC-AATAATAATT
1 CACATTCAAAT-ATAATT
19123144 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
19123162 CACA
1 CACA
19123166 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:19124539 original size:19 final size:19
Alignment explanation
Indices: 19124470--19124542 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
19124460 ATTTTAAAAT
*
19124470 TTATTAAATTGAACTATAA
1 TTATTAAATTAAACTATAA
* * *
19124489 TTATTAAA-AAAATTAGAA
1 TTATTAAATTAAACTATAA
19124507 TTACATTTAAAAATTAAACTATAA
1 TT--A-TT--AAATTAAACTATAA
19124531 TTATTAAATTAA
1 TTATTAAATTAA
19124543 GTTATTCGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 8 0.20
19 15 0.37
20 1 0.02
21 4 0.10
22 1 0.02
23 3 0.07
24 9 0.22
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAACTATAA
Found at i:19130826 original size:17 final size:17
Alignment explanation
Indices: 19130790--19130823 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19130780 ATATAAAAAG
*
19130790 TTAAATAAAAAATTAAA
1 TTAAATAAAAAAATAAA
19130807 TTAAATTAAAAAAATAA
1 TTAAA-TAAAAAAATAA
19130824 TTAGACCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAATAAAAAAATAAA
Found at i:19134212 original size:35 final size:35
Alignment explanation
Indices: 19134166--19134236 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
19134156 ACACAGATGA
19134166 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
1 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
*
19134201 CACATTATATTTTAAACGGCATCTGAAAGTTAATT
1 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
19134236 C
1 C
19134237 TCAAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
CACATTATATTTTAAACAGCATCTGAAAGTTAATT
Found at i:19138043 original size:16 final size:17
Alignment explanation
Indices: 19138022--19138054 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
19138012 ATATTTATTT
19138022 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
19138038 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
19138055 AATACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:19138075 original size:40 final size:40
Alignment explanation
Indices: 19138029--19138106 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
19138019 TTTTTTTAAA
19138029 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTT
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTT
19138069 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
19138107 AATTTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTT
Found at i:19138125 original size:21 final size:21
Alignment explanation
Indices: 19138087--19138126 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19138077 ATTTTAAAAT
**
19138087 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
19138108 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
19138127 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:19138133 original size:22 final size:21
Alignment explanation
Indices: 19138086--19138144 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
19138076 AATTTTAAAA
* *
19138086 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
19138106 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
19138129 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
19138145 AGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:19138545 original size:18 final size:17
Alignment explanation
Indices: 19138522--19138564 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
19138512 ATATTTTTTT
19138522 ATTTAAATCAAAATCAAA
1 ATTTAAATCAAAAT-AAA
*
19138540 ATTTAAATCAAAATGAA
1 ATTTAAATCAAAATAAA
19138557 ATTTAAAT
1 ATTTAAAT
19138565 TTTATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTTAAATCAAAATAAA
Found at i:19138608 original size:111 final size:111
Alignment explanation
Indices: 19138429--19138660 Score: 299
Period size: 111 Copynumber: 2.1 Consensus size: 111
19138419 ACAATTTTGT
* *
19138429 ATTTAAGTCAGAAAGAAATTTGAAATTTATACACTATCATGGTTATCCTGTTAAAATTTTACAAT
1 ATTTAAATCAGAAAGAAATTTGAAATTTATACACTATCATGGTTATCCAGTTAAAATTTTACAAT
* * * *
19138494 TTAAAAATAACTAAATAA-ATATTTTTTTATTTAAATCAAAATCAAA
66 TTAAAAATAACTAAATAAGAAAATTGTGTATTTAAATCAAAAT-AAA
* * * *
19138540 ATTTAAATCA-AAATGAAATTT-AAATTTTATATATTATCATTGTTATCCAGTTAAAATTTTATA
1 ATTTAAATCAGAAA-GAAATTTGAAA-TTTATACACTATCATGGTTATCCAGTTAAAATTTTACA
*
19138603 ATTTAAAAATAATTAAATAAGTAAAATTGTGTATTTAAATCAAAATAAA
64 ATTTAAAAATAACTAAATAAG-AAAATTGTGTATTTAAATCAAAATAAA
19138652 ATTTGAAAT
1 ATTT-AAAT
19138661 TTATACTAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
110 6 0.06
111 68 0.65
112 7 0.07
113 24 0.23
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (111 bp):
ATTTAAATCAGAAAGAAATTTGAAATTTATACACTATCATGGTTATCCAGTTAAAATTTTACAAT
TTAAAAATAACTAAATAAGAAAATTGTGTATTTAAATCAAAATAAA
Found at i:19138825 original size:20 final size:22
Alignment explanation
Indices: 19138777--19138832 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
19138767 TAAATTAAAC
* *
19138777 AATTTTTAAAATAAAGTTTTGA
1 AATTCTTAAAATATAGTTTTGA
*
19138799 TATTCTTAAAATATA-TTTT-A
1 AATTCTTAAAATATAGTTTTGA
19138819 AATTCTTAAAATAT
1 AATTCTTAAAATAT
19138833 TTTCTTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.47
21 4 0.13
22 12 0.40
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTCTTAAAATATAGTTTTGA
Found at i:19138927 original size:17 final size:17
Alignment explanation
Indices: 19138905--19138937 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19138895 ATTGATAACA
19138905 TTAAAAA-AATTTAAATT
1 TTAAAAATAA-TTAAATT
19138922 TTAAAAATAATTAAAT
1 TTAAAAATAATTAAAT
19138938 AAATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATAATTAAATT
Found at i:19139619 original size:26 final size:27
Alignment explanation
Indices: 19139561--19139622 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
19139551 GAAAAAAATA
*
19139561 TAAATTATTATTTTAATATAATTAAAT
1 TAAATTATTATTTTAATATAATTAAAC
* *
19139588 TGAATTGTT-TTTTAATATAATTAAAC
1 TAAATTATTATTTTAATATAATTAAAC
19139614 TAAATTATT
1 TAAATTATT
19139623 GAGCTAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TAAATTATTATTTTAATATAATTAAAC
Found at i:19139715 original size:48 final size:48
Alignment explanation
Indices: 19139663--19139767 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
19139653 TATGTTGAAG
* *
19139663 AAATTAATTTA-TTATGAGTTTATTTATTTTTGTGTCTTTTCTTGGATT
1 AAATTAATGTATTTATGAGTTTATTTATTTTTG-CTCTTTTCTTGGATT
*
19139711 AAATTAATGTATTTATGATTTTATTTATTTTTGCTCTTTTCTTGGATT
1 AAATTAATGTATTTATGAGTTTATTTATTTTTGCTCTTTTCTTGGATT
19139759 AAATTAATG
1 AAATTAATG
19139768 CGTTTATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 33 0.62
49 20 0.38
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (48 bp):
AAATTAATGTATTTATGAGTTTATTTATTTTTGCTCTTTTCTTGGATT
Found at i:19139878 original size:26 final size:28
Alignment explanation
Indices: 19139823--19139880 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
19139813 GAAAAAACTA
**
19139823 AATTATTATTTTAATATAAATTAAGTTG
1 AATTATTATTTTAATATAAATTAAAATG
19139851 AATTATT-TTTTAATAT-AATTAAAATG
1 AATTATTATTTTAATATAAATTAAAATG
19139877 AATT
1 AATT
19139881 GTTGAGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
27 9 0.32
28 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (28 bp):
AATTATTATTTTAATATAAATTAAAATG
Found at i:19139986 original size:14 final size:15
Alignment explanation
Indices: 19139967--19139995 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19139957 AACGCCCTGA
19139967 TTTCGT-AATTTTAT
1 TTTCGTAAATTTTAT
19139981 TTTCGTAAATTTTAT
1 TTTCGTAAATTTTAT
19139996 CATAAATGAG
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:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTCGTAAATTTTAT
Found at i:19150133 original size:23 final size:23
Alignment explanation
Indices: 19150102--19150152 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
19150092 ACCTACTTTC
* * *
19150102 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
19150125 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19150148 TTACA
1 TTACA
19150153 TTAATTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:19150921 original size:28 final size:28
Alignment explanation
Indices: 19150889--19150944 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19150879 TCGCCTAAGG
19150889 CTGAGGATTACCTGCACAGTTAAGAGGA
1 CTGAGGATTACCTGCACAGTTAAGAGGA
19150917 CTGAGGATTACCTGCACAGTTAAGAGGA
1 CTGAGGATTACCTGCACAGTTAAGAGGA
19150945 GAGGGTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (28 bp):
CTGAGGATTACCTGCACAGTTAAGAGGA
Found at i:19151083 original size:28 final size:28
Alignment explanation
Indices: 19151050--19151123 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
19151040 AGTACAATGA
** *
19151050 AGGCCTTAGCCCAATTTAGTAGCAGTGT
1 AGGCCTTAGCCCAATACAATAGCAGTGT
* *
19151078 GGGCCTTAGCCCAATACAATATCAGTGT
1 AGGCCTTAGCCCAATACAATAGCAGTGT
19151106 AGGCCTTAGCCCAATACA
1 AGGCCTTAGCCCAATACA
19151124 GTAACATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (28 bp):
AGGCCTTAGCCCAATACAATAGCAGTGT
Found at i:19151508 original size:27 final size:26
Alignment explanation
Indices: 19151478--19151917 Score: 425
Period size: 27 Copynumber: 16.4 Consensus size: 26
19151468 GGTATAAAAA
19151478 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCT-TAGGGGTATTTCGG
* * *
19151505 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCT-TAGGGGTATTTCGG
* * **
19151532 TCATTTTATCCTTCGGGGGTATTTCTA
1 TCATTTTACCCTT-AGGGGTATTTCGG
* *
19151559 TTATTTTACCCTTTGAGGGTA-TTCAGG
1 TCATTTTACCCTTAG-GGGTATTTC-GG
* *
19151586 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTAG-GGGTATTTCGG
*
19151613 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTT-AGGGGTATTTCGG
* * * *
19151640 TCATTTTACCCGTCAAGGTTATTTCGA
1 TCATTTTACCC-TTAGGGGTATTTCGG
*
19151667 TCATTTTACCCTTTGGGGTATTTCGG
1 TCATTTTACCCTTAGGGGTATTTCGG
* * *
19151693 TCATTTTACCTTTGGGGGTATTTTGG
1 TCATTTTACCCTTAGGGGTATTTCGG
**
19151719 TCATTTTACCCTTAGAGGGTATTTCAA
1 TCATTTTACCCTTAG-GGGTATTTCGG
* *
19151746 TCATTTTACCCTTTGAGGGTATTTTGG
1 TCATTTTACCCTTAG-GGGTATTTCGG
*
19151773 TCATTTTATCCTTTAGGGGTATTTCGG
1 TCATTTTA-CCCTTAGGGGTATTTCGG
* *
19151800 TCATTTTACCATTCGAGGGTATTTCGG
1 TCATTTTACCCTTAG-GGGTATTTCGG
* *
19151827 TCATTTTACCCTTTGAGGGTATTTTGG
1 TCATTTTACCCTTAG-GGGTATTTCGG
* * **
19151854 TCATTTTACCCTTCGAGTGTATTTCAT
1 TCATTTTACCCTTAG-GGGTATTTCGG
*
19151881 TCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCC-TTAGGGGTATTTCGG
19151908 TCA-TTTACCC
1 TCATTTTACCC
19151918 ATAACTCGCA
Statistics
Matches: 351, Mismatches: 52, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
26 63 0.18
27 275 0.78
28 13 0.04
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTTAGGGGTATTTCGG
Found at i:19151535 original size:54 final size:54
Alignment explanation
Indices: 19151478--19151917 Score: 512
Period size: 54 Copynumber: 8.2 Consensus size: 54
19151468 GGTATAAAAA
* * * *
19151478 TCATTTTACCCTATAG-GGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* * ** * *
19151532 TCATTTTATCCTTCGGGGGTATTTCTATTATTTTACCCTTTGAGGGTA-TTCAGG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTC-GG
* ** *
19151586 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* * * *
19151640 TCATTTTACCCGTCAAGGTTATTTCGATCATTTTACCCTTT-GGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* * * * * **
19151693 TCATTTTA-CCTTTGGGGGTATTTTGGTCATTTTACCCTTAGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* * * *
19151746 TCATTTTACCCTTTGAGGGTATTTTGGTCATTTTATCCTTTAGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* * *
19151800 TCATTTTACCATTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
* **
19151854 TCATTTTACCCTTCGAGTGTATTTCATTCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
19151908 TCA-TTTACCC
1 TCATTTTACCC
19151918 ATAACTCGCA
Statistics
Matches: 328, Mismatches: 53, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
52 24 0.07
53 48 0.15
54 253 0.77
55 3 0.01
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCGG
Found at i:19151588 original size:81 final size:80
Alignment explanation
Indices: 19151477--19151917 Score: 489
Period size: 81 Copynumber: 5.5 Consensus size: 80
19151467 GGGTATAAAA
* * * * *
19151477 ATCATTTTACCCTAT-AGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTAT
1 ATCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCCT-TGAGGGTATTTCGGTCATTTTAC
*
19151541 CCTTCGGGGGTATTTCT
64 CCTTCGGGGGTATTTCG
* *
19151558 ATTATTTTACCCTTTGAGGGTA-TTCAGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
1 ATCATTTTACCCTTTGAGGGTATTTC-GGTCATTTTACCCTT-GAGGGTATTTCGGTCATTTTAC
*
19151622 CCTTCAGGGGTATTTCG
64 CCTTCGGGGGTATTTCG
* ** * *
19151639 ATCATTTTACCCGTCAAGGTTATTTCGATCATTTTACCCTTTG-GGGTATTTCGGTCATTTTA-C
1 ATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACC
* *
19151702 CTTTGGGGGTATTTTG
65 CTTCGGGGGTATTTCG
* * ** * *
19151718 GTCATTTTACCCTTAGAGGGTATTTCAATCATTTTACCCTTTGAGGGTATTTTGGTCATTTTATC
1 ATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACC
**
19151783 CTTTAGGGGTATTTCG
65 CTTCGGGGGTATTTCG
* * * *
19151799 GTCATTTTACCATTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACC
1 ATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACC
* *
19151864 CTTCGAGTGTATTTC-
65 CTTCGGGGGTATTTCG
*
19151879 ATTCATTTTACCCTTTGGGGGTATTTCGGTCA-TTTACCC
1 A-TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC
19151918 ATAACTCGCA
Statistics
Matches: 313, Mismatches: 39, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
79 51 0.16
80 47 0.15
81 209 0.67
82 6 0.02
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (80 bp):
ATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTGAGGGTATTTCGGTCATTTTACCC
TTCGGGGGTATTTCG
Found at i:19157705 original size:12 final size:11
Alignment explanation
Indices: 19157688--19157722 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
19157678 GCCACCCCCT
19157688 ACCACTGCGACA
1 ACCACTGC-ACA
19157700 ACCACTGCAC-
1 ACCACTGCACA
19157710 ACCACTGCACA
1 ACCACTGCACA
19157721 AC
1 AC
19157723 TCCTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.34, C:0.46, G:0.11, T:0.09
Consensus pattern (11 bp):
ACCACTGCACA
Found at i:19159771 original size:101 final size:101
Alignment explanation
Indices: 19159596--19159851 Score: 503
Period size: 101 Copynumber: 2.5 Consensus size: 101
19159586 ATACTGAACC
*
19159596 TTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGACTCCTA
1 TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGACTCCTA
19159661 ATTTATTATAATTTTTTCTTAAGAACATATCAAACA
66 ATTTATTATAATTTTTTCTTAAGAACATATCAAACA
19159697 TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGACTCCTA
1 TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGACTCCTA
19159762 ATTTATTATAATTTTTTCTTAAGAACATATCAAACA
66 ATTTATTATAATTTTTTCTTAAGAACATATCAAACA
19159798 TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCA
1 TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCA
19159852 ATATGTTCTT
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 154 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
TTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGACTCCTA
ATTTATTATAATTTTTTCTTAAGAACATATCAAACA
Found at i:19160738 original size:10 final size:10
Alignment explanation
Indices: 19160723--19160755 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19160713 AAGTAAAGAA
19160723 AAATAATAAT
1 AAATAATAAT
19160733 AAATAATAAT
1 AAATAATAAT
*
19160743 AAATAAAAAT
1 AAATAATAAT
19160753 AAA
1 AAA
19160756 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAATAAT
Found at i:19167176 original size:15 final size:14
Alignment explanation
Indices: 19167155--19167190 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19167145 ATAATCTTTA
19167155 ATAATTATCTCAAT
1 ATAATTATCTCAAT
*
19167169 ATTAATTATCTTAAT
1 A-TAATTATCTCAAT
19167184 ATAATTA
1 ATAATTA
19167191 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCTCAAT
Found at i:19168142 original size:20 final size:21
Alignment explanation
Indices: 19168106--19168146 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
19168096 CTTACATGCC
*
19168106 AAAGTGAAAAAATTGATTTTT
1 AAAGTGAAAAAAGTGATTTTT
19168127 AAAGTG-AAAAAGTGATTTTT
1 AAAGTGAAAAAAGTGATTTTT
19168147 GGTCATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (21 bp):
AAAGTGAAAAAAGTGATTTTT
Done.