Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 66 of 255
Found at i:19401343 original size:43 final size:43
Alignment explanation
Indices: 19401217--19401380 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
19401207 CGATATGTAT
* * * * *
19401217 TTTCGTGTAAGACCATGTCTAGGA-TGTTGGCATAGACT-TATGA
1 TTTCATGTAAGACCATGTCTGGGACAG-TGGCATTGA-TATTTGA
* *
19401260 TTTACGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGA
1 TTT-CATGTAAGACCATGTCTGGGACAGT-GGCATTGATATTTGA
* *
19401303 TTTCATGTAAGACCCTGTCTGGGATAGTGGCATTGATATTTGA
1 TTTCATGTAAGACCATGTCTGGGACAGTGGCATTGATATTTGA
* * *
19401346 TTACATGTAAGACCACGTCTGGGACATTGGCATTG
1 TTTCATGTAAGACCATGTCTGGGACAGTGGCATTG
19401381 TACGAGCTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
42 27 0.26
43 49 0.48
44 26 0.25
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTCATGTAAGACCATGTCTGGGACAGTGGCATTGATATTTGA
Found at i:19401378 original size:85 final size:86
Alignment explanation
Indices: 19401217--19401378 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
19401207 CGATATGTAT
* * *
19401217 TTTCGTGTAAGACCATGTCTAGGATGTTGGCATAGACTTATGATTTACGTGTAAGACCATGTCTG
1 TTTCATGTAAGACCATGTCTAGGATGTTGGCATAGACTTATGATTTACATGTAAGACCACGTCTG
19401282 GGACATCGGCATCGTATTTGA
66 GGACATCGGCATCGTATTTGA
* * * *
19401303 TTTCATGTAAGACCCTGTCTGGGATAG-TGGCATTGA-TATTTGA-TTACATGTAAGACCACGTC
1 TTTCATGTAAGACCATGTCTAGGAT-GTTGGCATAGACT-TATGATTTACATGTAAGACCACGTC
*
19401365 TGGGACATTGGCAT
64 TGGGACATCGGCAT
19401379 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 31 0.47
86 34 0.52
87 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (86 bp):
TTTCATGTAAGACCATGTCTAGGATGTTGGCATAGACTTATGATTTACATGTAAGACCACGTCTG
GGACATCGGCATCGTATTTGA
Found at i:19407325 original size:27 final size:27
Alignment explanation
Indices: 19407292--19407498 Score: 306
Period size: 27 Copynumber: 7.6 Consensus size: 27
19407282 TAAATTGTGC
*
19407292 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
19407319 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
19407347 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
19407374 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19407402 AGCACGAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19407429 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
19407457 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19407484 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19407499 GACTTAATAT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
27 90 0.54
28 76 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19407356 original size:55 final size:55
Alignment explanation
Indices: 19407292--19407498 Score: 351
Period size: 55 Copynumber: 3.8 Consensus size: 55
19407282 TAAATTGTGC
19407292 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
19407347 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
19407402 AGCACGAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
19407457 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
19407499 GACTTAATAT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:19415724 original size:37 final size:37
Alignment explanation
Indices: 19415674--19415789 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
19415664 TTATTACGAA
19415674 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
19415711 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * * *
19415748 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
19415785 GTCTT
1 GTCTT
19415790 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:19416035 original size:49 final size:49
Alignment explanation
Indices: 19415910--19416243 Score: 531
Period size: 47 Copynumber: 7.0 Consensus size: 49
19415900 CTTCGGGACT
* * * * *
19415910 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
19415957 TGTCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
19416004 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
19416053 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
19416102 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
19416149 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
19416196 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
19416244 TTACTATCAT
Statistics
Matches: 270, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
47 139 0.51
48 1 0.00
49 130 0.48
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:19416246 original size:96 final size:96
Alignment explanation
Indices: 19415910--19416243 Score: 532
Period size: 96 Copynumber: 3.5 Consensus size: 96
19415900 CTTCGGGACT
* * * * * * *
19415910 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
19415973 TTTCACATTCATCACATCGGCCATTAGGCCC
66 TTTCACATTCATCACATCGGCCATTAGGCCC
19416004 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
19416069 ACTTTCACATTCATCACATCGGCCATTAGGCCT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
19416102 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
19416165 TTTCACATTCATCACATCGGCCATTAGGCCC
66 TTTCACATTCATCACATCGGCCATTAGGCCC
19416196 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
19416244 TTACTATCAT
Statistics
Matches: 222, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 54 0.24
95 1 0.00
96 122 0.55
98 45 0.20
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:19419680 original size:40 final size:40
Alignment explanation
Indices: 19419567--19419680 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
19419557 CGAATACACG
* * * * *
19419567 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATA
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
19419607 ACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
19419647 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCG
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCG
19419681 AATTTAGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:19419708 original size:40 final size:41
Alignment explanation
Indices: 19419613--19419755 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 41
19419603 TATAACACCA
* ** * *
19419613 GCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TCACTA
1 GCACGAATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTC
*
19419653 GCATGAATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTC
1 GCACGAATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTC
* * * *
19419694 GCACCAATGC-CTTCGG-GCTTAGCCCGAAATTAGTATCTC
1 GCACGAATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTC
* *
19419733 GCACAAATGC-CTTCGGATCTTAG
1 GCACGAATGCTCTTCGGAACTTAG
19419756 TCCGGATATG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.40
40 41 0.47
41 12 0.14
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (41 bp):
GCACGAATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTC
Found at i:19419720 original size:39 final size:40
Alignment explanation
Indices: 19419658--19419755 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 40
19419648 CACTAGCATG
* *
19419658 AATGCTCTTCGGAACTTAGCCCGAATTTAGTAACTCGCACC
1 AATGC-CTTCGGAACTTAGCCCGAAATTAGTAACTCGCACA
* *
19419699 AATGCCTTCGG-GCTTAGCCCGAAATTAGTATCTCGCACA
1 AATGCCTTCGGAACTTAGCCCGAAATTAGTAACTCGCACA
*
19419738 AATGCCTTCGGATCTTAG
1 AATGCCTTCGGAACTTAG
19419756 TCCGGATATG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.69
40 11 0.22
41 5 0.10
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
AATGCCTTCGGAACTTAGCCCGAAATTAGTAACTCGCACA
Found at i:19420146 original size:29 final size:29
Alignment explanation
Indices: 19420107--19420185 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
19420097 CTTAATAATG
* *
19420107 AACCACGCACACTTAGTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
19420137 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
19420166 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19420186 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:19420228 original size:43 final size:43
Alignment explanation
Indices: 19420167--19420269 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
19420157 TGCATTTCAA
19420167 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19420210 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19420253 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
19420270 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:19422064 original size:37 final size:37
Alignment explanation
Indices: 19422014--19422129 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
19422004 TTATTACGAA
*
19422014 GTCTTACCCGGACATAATCTCCGCACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
19422051 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * * *
19422088 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
19422125 GTCTT
1 GTCTT
19422130 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:19422424 original size:47 final size:47
Alignment explanation
Indices: 19422248--19422727 Score: 771
Period size: 47 Copynumber: 10.1 Consensus size: 47
19422238 CCCTTCGGGA
* * * * * *
19422248 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19422295 CCTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19422344 CCTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19422393 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19422440 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19422487 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19422534 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19422581 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19422628 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19422675 CCTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19422724 CTTA
1 CTTA
19422728 CTATCATTTC
Statistics
Matches: 408, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 280 0.69
49 128 0.31
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19433459 original size:54 final size:54
Alignment explanation
Indices: 19433368--19433479 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
19433358 AGCATGGCTG
*
19433368 CCAGAACAGACAATGTGACAGAGTCACCACATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGACAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
* * * * *
19433422 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGACA-ATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
19433476 CCAG
1 CCAG
19433480 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGACAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
Found at i:19433479 original size:27 final size:27
Alignment explanation
Indices: 19433368--19433479 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
19433358 AGCATGGCTG
* * * *
19433368 CCAGAACAGACAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
19433394 CCACATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
19433422 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
19433449 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
19433476 CCAG
1 CCAG
19433480 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:19435593 original size:68 final size:65
Alignment explanation
Indices: 19435479--19435728 Score: 240
Period size: 68 Copynumber: 3.8 Consensus size: 65
19435469 TAGATGGTAT
* * * *
19435479 GTAGCTAGGTCACATGGGTAATAC-AGGATGTATAGCATGTGTACAAGAGAGCTACGAGACATTA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAG--A-TA
19435543 TGAA
63 -GAA
*
19435547 GTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGT-GTACAAGAGAGCTACGAGATAGA
*
19435610 T
65 A
** * * * * * * ** *
19435611 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAATAAGAGAGCTACGAGATA-
1 GTAGCTAGGTCACATGGGTGATACTA--TGATGTACACCATGTGTACAAGAGAGCTACGAGATAG
19435675 AA
64 AA
*
19435677 GTGGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTGTACAAGAGAGC
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGC
19435729 CAAAATTATG
Statistics
Matches: 148, Mismatches: 28, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
63 19 0.13
64 25 0.17
65 2 0.01
66 23 0.16
67 28 0.19
68 48 0.32
69 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (65 bp):
GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAGATAGAA
Found at i:19437164 original size:93 final size:93
Alignment explanation
Indices: 19437052--19437222 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
19437042 GCCCATAAGA
*
19437052 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
19437116 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
19437145 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
19437210 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19437223 TCAATCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19437217 original size:46 final size:46
Alignment explanation
Indices: 19437044--19437219 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
19437034 TGTAACCCGC
* * *
19437044 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACAT
19437090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
19437140 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
19437183 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19437220 TGCTCAATCA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:19441751 original size:37 final size:37
Alignment explanation
Indices: 19441698--19441833 Score: 245
Period size: 37 Copynumber: 3.7 Consensus size: 37
19441688 CGAATAGTCC
* *
19441698 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
19441735 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
19441772 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
19441809 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
19441834 GGAATATATT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:19442035 original size:48 final size:48
Alignment explanation
Indices: 19441977--19442314 Score: 604
Period size: 48 Copynumber: 7.0 Consensus size: 48
19441967 ATATACACAC
*
19441977 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
19442025 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
19442073 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
19442121 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
19442169 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
19442217 ATCTCATACATATTTCACACTAGACATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
19442265 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
19442313 AT
1 AT
19442315 TTATCTTGTA
Statistics
Matches: 277, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 277 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:19449498 original size:13 final size:13
Alignment explanation
Indices: 19449480--19449507 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19449470 CCGTGTCAGG
19449480 CACACGGCCTGTT
1 CACACGGCCTGTT
19449493 CACACGGCCTGTT
1 CACACGGCCTGTT
19449506 CA
1 CA
19449508 TATGGGCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.21
Consensus pattern (13 bp):
CACACGGCCTGTT
Found at i:19449880 original size:17 final size:18
Alignment explanation
Indices: 19449844--19449882 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19449834 TTTCATTTGC
*
19449844 ATAATATAAAGCATAAGT
1 ATAATATAAACCATAAGT
*
19449862 ATAATATAATCCA-AAGT
1 ATAATATAAACCATAAGT
19449879 ATAA
1 ATAA
19449883 GCTTGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (18 bp):
ATAATATAAACCATAAGT
Found at i:19454645 original size:8 final size:8
Alignment explanation
Indices: 19454632--19454656 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19454622 CAGCACCTGG
19454632 ATCACAAT
1 ATCACAAT
19454640 ATCACAAT
1 ATCACAAT
19454648 ATCACAAT
1 ATCACAAT
19454656 A
1 A
19454657 ACCCCTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
ATCACAAT
Found at i:19454688 original size:236 final size:235
Alignment explanation
Indices: 19454276--19454747 Score: 863
Period size: 236 Copynumber: 2.0 Consensus size: 235
19454266 TCAACGGGCC
19454276 TGCTCACACAAGCTATGGGTCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
1 TGCTCACACAAGCTATGGGTCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
19454341 ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
66 ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
*
19454406 CATAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
131 CACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
* *
19454471 GGGGTTTTCACGTTTGTCGAATCATCGTCGAACATGTCCA
196 GGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
* *
19454511 TGCTCACACAAGCTATGGGTTAAGACGTAGATGCACGGTGCTACTCACACAAGCTGTCAAGTAAC
1 TGCTCACACAAGCTATGGGTCAAGACGTAGATACACGGTGCTACTCACACAAGCTGT-AAGTAAC
* * *
19454576 CGCAACACATGATAGTATACTTAGCCACAGTTAGGACATACAGGACCAGCACCTGGATCACAATA
65 CACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATA
19454641 TCACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGAC
130 TCACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGAC
19454706 CGGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
195 CGGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
19454747 T
1 T
19454748 AGTCTCATAT
Statistics
Matches: 228, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
235 55 0.24
236 173 0.76
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (235 bp):
TGCTCACACAAGCTATGGGTCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
CACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
GGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
Found at i:19455075 original size:27 final size:25
Alignment explanation
Indices: 19455027--19455079 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
19455017 GTTTTATTTT
19455027 ATTAACCTTAATAAATAAATTACTAA
1 ATTAACCTTAATAAATAAATTA-TAA
19455053 ATTAACCTTTAATAAA-AACATTATAA
1 ATTAACC-TTAATAAATAA-ATTATAA
19455079 A
1 A
19455080 ACATCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTAACCTTAATAAATAAATTATAA
Found at i:19456702 original size:18 final size:18
Alignment explanation
Indices: 19456679--19456733 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
19456669 CATAACCAAT
19456679 GAACAAAAATAAATAAAA
1 GAACAAAAATAAATAAAA
*
19456697 GAACAAAAAATAAATTAAA
1 GAAC-AAAAATAAATAAAA
19456716 GTAA-AAAAATAAATAAAA
1 G-AACAAAAATAAATAAAA
19456734 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.52
19 14 0.42
20 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (18 bp):
GAACAAAAATAAATAAAA
Found at i:19456732 original size:22 final size:22
Alignment explanation
Indices: 19456704--19456745 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19456694 AAAGAACAAA
* *
19456704 AAATAAATTAAAGTAAAAAAAT
1 AAATAAAATAAAATAAAAAAAT
19456726 AAATAAAATAAAATAAAAAA
1 AAATAAAATAAAATAAAAAA
19456746 TTTCTAACTC
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:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAAATAAAAAAAT
Found at i:19456743 original size:19 final size:18
Alignment explanation
Indices: 19456683--19456743 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
19456673 ACCAATGAAC
*
19456683 AAAAATAAATAAAAGAACA
1 AAAAATAAATAAAATAA-A
*
19456702 AAAAATAAATTAAAGT-AA
1 AAAAATAAA-TAAAATAAA
19456720 AAAAATAAATAAAATAAA
1 AAAAATAAATAAAATAAA
19456738 ATAAAA
1 A-AAAA
19456744 AATTTCTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.14
18 13 0.36
19 14 0.39
20 4 0.11
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAAATAAA
Found at i:19459106 original size:46 final size:48
Alignment explanation
Indices: 19459018--19459289 Score: 182
Period size: 46 Copynumber: 5.9 Consensus size: 48
19459008 TGGGTAAGGT
*
19459018 GCCGATGACATGTCCCAGACATGGTCTTACACT-AGCACTCATC-C-TT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
* * *
19459064 GTCGATGCCATATCCCATACATGGTCTTACACTGA-CTA-TCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGC-ACTCATCTCGTA
* * *
19459112 GCCGATGCATGTCCCAGACAT-GTCTTACACTG-GC-TTACGTCTC-AA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACT-CATCTCGTA
* ** * * *
19459157 GGTCGATGCATGTCCTGGACAT-GTCTTATACT-AGCCCTCGTCTCG-A
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
* * * *
19459203 TGCCGATGCCAT-TCCCAGACATGGTCTTACACTG-GCTCTCATAAT-ATG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGCACTCAT-CTCGTA
* *
19459251 GCTGATGCATGTCCCAGACAT-GTCTTACACT-AGCCCTCA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCA
19459290 ATAACCCATA
Statistics
Matches: 181, Mismatches: 27, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.01
46 121 0.67
47 50 0.28
48 8 0.04
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
Found at i:19459264 original size:93 final size:92
Alignment explanation
Indices: 19459017--19459288 Score: 231
Period size: 93 Copynumber: 2.9 Consensus size: 92
19459007 GTGGGTAAGG
* **** *
19459017 TGCCGATGACATGTCCCAGACATGGTCTTACACTAGC--AC-TCATCCTTGTCGATGCCATATCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TAAAGGTCGATG-CATGTCC
* ** *
19459079 CATACATGGTCTTACACT-GACTATCATCTCG-
62 CAGACAT-GTCTTACACTAG-CCCTCGTCTCGA
* **
19459110 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGTCGATGCATGTCCTGG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTAAAGGTCGATGCATGTCCCAG
*
19459175 ACATGTCTTATACTAGCCCTCGTCTCGA
65 ACATGTCTTACACTAGCCCTCGTCTCGA
19459203 TGCCGATGCCAT-TCCCAGACATGGTCTTACACTGGC-T-C-TCATAATATGG-CTGATGCATGT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TAA-A-GGTC-GATGCATGT
19459263 CCCAGACATGTCTTACACTAGCCCTC
60 CCCAGACATGTCTTACACTAGCCCTC
19459289 AATAACCCAT
Statistics
Matches: 151, Mismatches: 16, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
90 2 0.01
91 3 0.02
92 49 0.32
93 77 0.51
94 18 0.12
95 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.29
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTAAAGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCGTCTCGA
Found at i:19461748 original size:40 final size:40
Alignment explanation
Indices: 19461703--19461974 Score: 368
Period size: 40 Copynumber: 6.8 Consensus size: 40
19461693 ATAACCACAA
* * * *
19461703 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
19461743 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
19461783 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
19461823 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
19461863 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
19461903 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
19461943 GCATAAATGCCTTCAGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
19461975 CATTCAAATG
Statistics
Matches: 205, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.02
40 193 0.94
41 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:19461900 original size:120 final size:120
Alignment explanation
Indices: 19461683--19461970 Score: 488
Period size: 120 Copynumber: 2.4 Consensus size: 120
19461673 TCTTCGGAAT
* * *
19461683 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
19461747 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTC
19461802 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
19461867 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTC
* * * * *
19461922 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCAGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
19461971 ATATCATTCA
Statistics
Matches: 159, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 4 0.03
120 155 0.97
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTC
Found at i:19464510 original size:16 final size:16
Alignment explanation
Indices: 19464478--19464550 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 16
19464468 GATATTAAAA
*
19464478 ATATATACATAACATAT
1 ATATATA-ATAAAATAT
19464495 A-ATAATAATAAAATAT
1 ATAT-ATAATAAAATAT
*
19464511 ATATATAATATTAAAAAT
1 ATATATAATA--AAATAT
19464529 ATATAT-ATACATAATAT
1 ATATATAATA-A-AATAT
19464546 ATATA
1 ATATA
19464551 ATATATACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
16 18 0.38
17 18 0.38
18 11 0.23
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATATAATAAAATAT
Found at i:19464520 original size:11 final size:11
Alignment explanation
Indices: 19464477--19464591 Score: 82
Period size: 11 Copynumber: 10.7 Consensus size: 11
19464467 TGATATTAAA
*
19464477 AATATATACAT
1 AATATATATAT
*
19464488 AACATATA-AT
1 AATATATATAT
19464498 AATA-ATA-A-
1 AATATATATAT
19464506 AATATATATAT
1 AATATATATAT
*
19464517 AATAT-TA-AA
1 AATATATATAT
19464526 AATATATATAT
1 AATATATATAT
19464537 ACATAATATATAT
1 A-AT-ATATATAT
*
19464550 AATATATACAT
1 AATATATATAT
*
19464561 AAT-TAGTATTAA
1 AATATA-TA-TAT
*
19464573 AATATATACAT
1 AATATATATAT
*
19464584 AACATATA
1 AATATATA
19464592 CATATTAGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
8 4 0.05
9 13 0.15
10 12 0.14
11 34 0.40
12 10 0.12
13 11 0.13
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (11 bp):
AATATATATAT
Found at i:19464521 original size:9 final size:9
Alignment explanation
Indices: 19464509--19464557 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
19464499 ATAATAAAAT
19464509 ATATATATA
1 ATATATATA
19464518 ATAT-TA-A
1 ATATATATA
*
19464525 AAATATAT-
1 ATATATATA
*
19464533 ATATACATA
1 ATATATATA
19464542 ATATATATA
1 ATATATATA
19464551 ATATATA
1 ATATATA
19464558 CATAATTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 4 0.12
8 10 0.30
9 19 0.58
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATATATA
Found at i:19464527 original size:20 final size:19
Alignment explanation
Indices: 19464491--19464563 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
19464481 TATACATAAC
19464491 ATATA-ATAATAATAAAAT
1 ATATATATAATAATAAAAT
*
19464509 ATATATATAATATTAAAAAT
1 ATATATATAATAAT-AAAAT
*
19464529 ATATATATACATAAT-ATAT
1 ATATATATA-ATAATAAAAT
19464548 ATAATATATACATAAT
1 AT-ATATATA-ATAAT
19464564 TAGTATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.10
19 12 0.25
20 27 0.56
21 4 0.08
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATATAATAATAAAAT
Found at i:19464527 original size:49 final size:47
Alignment explanation
Indices: 19464469--19464596 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 47
19464459 GAATAATGTG
*
19464469 ATATTAAAAATATATACATAACATATAATAATAATAAAATATATATATA
1 ATATTAAAAATATATACATAACATATAAT-AT-ATAAAATATATACATA
* *
19464518 ATATTAAAAATATATATAT-AC--ATAATATATATAATATATACATA
1 ATATTAAAAATATATACATAACATATAATATATAAAATATATACATA
*
19464562 ATTAGTATTAAAATATATACATAACATATACATAT
1 A-TA-T-TAAAAATATATACATAACATATA-ATAT
19464597 TAGAAATGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
44 15 0.22
45 4 0.06
46 6 0.09
47 13 0.19
48 4 0.06
49 18 0.27
50 3 0.04
51 4 0.06
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (47 bp):
ATATTAAAAATATATACATAACATATAATATATAAAATATATACATA
Found at i:19464751 original size:27 final size:25
Alignment explanation
Indices: 19464697--19464819 Score: 87
Period size: 27 Copynumber: 5.0 Consensus size: 25
19464687 TAAGAGTATG
*
19464697 TACATAATATAATGTTAAAAATACA
1 TACATAATATAATATTAAAAATACA
* *
19464722 TACATAATATAGTTATTAAAAAATATA
1 TACATAATATA-ATATT-AAAAATACA
*
19464749 TACATAAGATAATATGTAAGAAA-A-A
1 TACATAATATAATAT-TAA-AAATACA
* ** *
19464774 T--ATAATATAGTATTCGAAATATA
1 TACATAATATAATATTAAAAATACA
*
19464797 TACATGATAT-ATA-TAAAAATACA
1 TACATAATATAATATTAAAAATACA
19464820 ATATTAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 2 0.03
23 19 0.25
24 2 0.03
25 19 0.25
26 9 0.12
27 22 0.29
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
TACATAATATAATATTAAAAATACA
Found at i:19465039 original size:12 final size:12
Alignment explanation
Indices: 19465024--19465091 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 12
19465014 AATAAGGATA
19465024 ATATAAAAATAT
1 ATATAAAAATAT
19465036 ATATACATGAAATAGT
1 ATATA-A--AAATA-T
19465052 ATATAAAAA-A-
1 ATATAAAAATAT
*
19465062 ATATAACTAATA-
1 ATATAA-AAATAT
19465074 ATATAAAATATAT
1 ATATAAAA-ATAT
19465087 ATATA
1 ATATA
19465092 CATGAGATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
10 6 0.13
11 3 0.07
12 16 0.35
13 9 0.20
15 6 0.13
16 6 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (12 bp):
ATATAAAAATAT
Found at i:19465254 original size:18 final size:20
Alignment explanation
Indices: 19465220--19465256 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19465210 ATATATATGC
19465220 ATGTATTAAAAATAATAATA
1 ATGTATTAAAAATAATAATA
19465240 ATGT-TTAAAAA-AATAAT
1 ATGTATTAAAAATAATAAT
19465257 TATTAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATGTATTAAAAATAATAATA
Found at i:19465382 original size:3 final size:3
Alignment explanation
Indices: 19465348--19465489 Score: 62
Period size: 3 Copynumber: 47.3 Consensus size: 3
19465338 ATGATATGAT
* *
19465348 ATA AT- ATA AT- ATA ATA A-A AAA ATA ATG A-A ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** * *
19465391 ATGA AGA TTA ATA ATA GTA ATA GTA ACC ATA ATG ATA ATA TATA CGTA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA
* * * *
19465439 CATGA ATA GTA TTA ATA ATA ATA ATA ATA A-A ATAA ATA ATT TTA ATA
1 -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
19465486 ATA A
1 ATA A
19465490 AGTAATTAAA
Statistics
Matches: 102, Mismatches: 27, Indels: 20
0.68 0.18 0.13
Matches are distributed among these distances:
2 11 0.11
3 77 0.75
4 13 0.13
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19472611 original size:204 final size:204
Alignment explanation
Indices: 19472261--19472866 Score: 1185
Period size: 204 Copynumber: 3.0 Consensus size: 204
19472251 TTTCATTATA
19472261 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
1 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
19472326 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
66 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
*
19472391 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGATGAAGATTTGGC
131 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
19472456 AACTTCAGG
196 AACTTCAGG
19472465 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
1 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
*
19472530 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCATATGTTAATAAGCCTTAAGGTAATTGTATAT
66 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
19472595 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
131 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
19472660 AACTTCAGG
196 AACTTCAGG
*
19472669 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGAATTGATAGT
1 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
19472734 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
66 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
19472799 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
131 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
19472864 AAC
196 AAC
19472867 GTGTGAAATC
Statistics
Matches: 398, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 398 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (204 bp):
AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
AACTTCAGG
Found at i:19474481 original size:30 final size:30
Alignment explanation
Indices: 19474446--19474511 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
19474436 GGGTTGTTCG
*
19474446 TGTGTCACACACGGCCTAGACACATGCCCA
1 TGTGTCACACACAGCCTAGACACATGCCCA
19474476 TGTGTCACACACAGCCTAGACACATGCCCA
1 TGTGTCACACACAGCCTAGACACATGCCCA
19474506 TGTGTC
1 TGTGTC
19474512 TACCCATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.20
Consensus pattern (30 bp):
TGTGTCACACACAGCCTAGACACATGCCCA
Found at i:19477661 original size:3 final size:3
Alignment explanation
Indices: 19477646--19477886 Score: 125
Period size: 3 Copynumber: 80.0 Consensus size: 3
19477636 AGAAATATAT
* * * ** * * *
19477646 ATA ATA GTA ATA ATA AAA ATA ATG GCA GTA ATG ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
19477694 ATA GTA ATA ATAA ACA ACA ACA ACA ACA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * *
19477741 ATG ATA ATA AAA ATA ATA GTA A-A GAAA ATA A-A GACA A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA A-TA ATA
* * * *
19477786 ATA ATA GTA ATA ATA ATA ACA ATA ATA ATG GTA ATA ATA ATA A-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * *
19477834 ATA ATA AT- ATG TTA AGTT ATA ATA GTA A-A ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19477878 ATA ATA ATA
1 ATA ATA ATA
19477887 TATTAAATTA
Statistics
Matches: 183, Mismatches: 42, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
2 10 0.05
3 160 0.87
4 13 0.07
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:19479458 original size:44 final size:45
Alignment explanation
Indices: 19479408--19479695 Score: 147
Period size: 44 Copynumber: 6.5 Consensus size: 45
19479398 AATTCGACCT
* *
19479408 ACTGCAACTTCAGAGG-TATAGGACTTA-TCA-CTTTAATCTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGA-TTACT-AGCTTCAATCTGCTCC
* *
19479452 ACTGCAACTTTA-AGGAGATAGGATTACTAGCTTCAATTTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGATTACTAGCTTCAATCTGCTCC
* * * ** * *
19479496 GCTGCAACTTCAG-GGAGATAAGACTT-GTAATTTCAACCTACTCC
1 ACTGCAACTTCAGAGGAGATAGGA-TTACTAGCTTCAATCTGCTCC
* * * *
19479540 ACTACAACTTCAG-GGAGATAAGG-TT--T-GTTTTAATCTGCTCT
1 ACTGCAACTTCAGAGGAGAT-AGGATTACTAGCTTCAATCTGCTCC
* * *
19479581 ACTGCAACTTCATA-GAGATAAGATCTGTAATTA-TAGCTTCAATTTGTTCC
1 ACTGCAACTTCAGAGGAGAT-AG----G--ATTACTAGCTTCAATCTGCTCC
* * * * * *
19479631 ACTGCAACTCCAG-GGAAATAAGATTCGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGATT-ACTAGCTTCAATCTGCTCC
19479676 ACTGCAACTTCAG-GGAGATA
1 ACTGCAACTTCAGAGGAGATA
19479696 AGACTTGTGA
Statistics
Matches: 186, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
41 29 0.16
42 1 0.01
43 12 0.06
44 78 0.42
45 37 0.20
48 2 0.01
49 2 0.01
50 25 0.13
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ACTGCAACTTCAGAGGAGATAGGATTACTAGCTTCAATCTGCTCC
Found at i:19482898 original size:23 final size:20
Alignment explanation
Indices: 19482866--19482907 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
19482856 CATGTGTGAA
19482866 AATTTCATGTTTGAATTTAGTC
1 AATTTCATG--TGAATTTAGTC
19482888 AATTTGCATGTGAATTTAGT
1 AATTT-CATGTGAATTTAGT
19482908 TAATAGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
AATTTCATGTGAATTTAGTC
Found at i:19485559 original size:45 final size:46
Alignment explanation
Indices: 19485462--19485570 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
19485452 AGCTTAAGAT
*
19485462 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
19485509 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
19485554 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
19485571 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:19496323 original size:3 final size:3
Alignment explanation
Indices: 19496303--19496534 Score: 152
Period size: 3 Copynumber: 75.7 Consensus size: 3
19496293 ATAATGGCAG
* * ** *
19496303 TAA TGA TAA TAC TAA TAA TAA TTG TAA TAA TAAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * *
19496349 TAA TTAA TGA TAA TAA AAA TAA TAG TAA -AGA AAA TAA -AGA CAA -AA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA
* * *
19496394 TTAA TAA TGA TAC TAA TGAA T-G TAA GTAA TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
** *
19496441 TAA TAA TAA TAA TGG TAA TAA TAA TAA -AA GTAA TAA TAA TACGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA--A TAA
* * *
19496488 GTTA TAA TAG TAA -AA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19496533 TA
1 TA
19496535 TATTAAATTA
Statistics
Matches: 177, Mismatches: 35, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
2 9 0.05
3 147 0.83
4 19 0.11
5 2 0.01
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:19497327 original size:2 final size:2
Alignment explanation
Indices: 19497320--19497346 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19497310 TTTTAGTTTT
19497320 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
19497347 TTGAATCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19500091 original size:29 final size:29
Alignment explanation
Indices: 19500050--19500112 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
19500040 TGTGGCAAAG
*
19500050 TCTAT-TGAATTCTTCCTCCACTGTTGTT
1 TCTATCTGAATTCTTCCTCCACTGTCGTT
19500078 TCTATCTGAATTCTTCCTCCACTGTCGTT
1 TCTATCTGAATTCTTCCTCCACTGTCGTT
19500107 TCTATC
1 TCTATC
19500113 AAACAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (29 bp):
TCTATCTGAATTCTTCCTCCACTGTCGTT
Found at i:19502524 original size:93 final size:93
Alignment explanation
Indices: 19502417--19502587 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19502407 GCCCCTAAGT
* *
19502417 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19502482 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
19502510 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19502575 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19502588 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19502584 original size:46 final size:46
Alignment explanation
Indices: 19502412--19502584 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
19502402 AACCCGCCCC
* * *
19502412 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
19502458 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
19502506 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
19502551 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19502585 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:19503041 original size:30 final size:30
Alignment explanation
Indices: 19503007--19503066 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19502997 ATTTAATACG
19503007 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
19503037 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
19503067 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:19510103 original size:93 final size:93
Alignment explanation
Indices: 19509996--19510166 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19509986 GCCCCTAAGT
* *
19509996 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19510061 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
19510089 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19510154 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19510167 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19510163 original size:46 final size:46
Alignment explanation
Indices: 19509991--19510163 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
19509981 AACCCGCCCC
* * *
19509991 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
19510037 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
19510085 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
19510130 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19510164 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:19510617 original size:30 final size:30
Alignment explanation
Indices: 19510583--19510642 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19510573 ATTTAATACG
19510583 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
19510613 AACTTTTGCATAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19510643 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19512836 original size:15 final size:15
Alignment explanation
Indices: 19512816--19512845 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19512806 CTTGTAGAGA
*
19512816 TTAAATATAACTAAT
1 TTAAATAAAACTAAT
19512831 TTAAATAAAACTAAT
1 TTAAATAAAACTAAT
19512846 ACAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAATAAAACTAAT
Found at i:19516543 original size:45 final size:45
Alignment explanation
Indices: 19516479--19516568 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
19516469 ATATAACAAG
19516479 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
1 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
19516524 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
1 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
19516569 TTCCAAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (45 bp):
AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
Found at i:19516941 original size:14 final size:14
Alignment explanation
Indices: 19516922--19516948 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19516912 TTTAAATGAA
19516922 TTTTAAATATAATT
1 TTTTAAATATAATT
19516936 TTTTAAATATAAT
1 TTTTAAATATAAT
19516949 ACATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATAATT
Found at i:19517452 original size:16 final size:16
Alignment explanation
Indices: 19517428--19517462 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19517418 ATTATTTATC
* *
19517428 ACAGTTCTATTCTATT
1 ACAGCTCTATTCCATT
19517444 ACAGCTCTATTCCATT
1 ACAGCTCTATTCCATT
19517460 ACA
1 ACA
19517463 ATCTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTCTATTCCATT
Found at i:19528801 original size:46 final size:46
Alignment explanation
Indices: 19528734--19528905 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
19528724 AACCCGCCCC
*
19528734 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
19528780 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
19528828 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
19528873 CAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
19528906 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:19528846 original size:93 final size:93
Alignment explanation
Indices: 19528739--19528909 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19528729 GCCCCTAAGT
* * * *
19528739 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGGACTCAACTCAA
19528804 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
19528832 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGGACTCAACTCAA
19528897 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19528910 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19529367 original size:29 final size:30
Alignment explanation
Indices: 19529323--19529382 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
19529313 CATTTAATAC
19529323 AAACTTTGGCAAAATTACA-TTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
19529352 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
19529382 A
1 A
19529383 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:19531591 original size:15 final size:15
Alignment explanation
Indices: 19531571--19531600 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19531561 CTTGTAGAGA
*
19531571 TTAAATATAACTAAT
1 TTAAATAAAACTAAT
19531586 TTAAATAAAACTAAT
1 TTAAATAAAACTAAT
19531601 ACAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAATAAAACTAAT
Found at i:19535317 original size:45 final size:45
Alignment explanation
Indices: 19535253--19535342 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
19535243 ATATAACAAG
19535253 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
1 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
19535298 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
1 AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
19535343 TTCCAAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (45 bp):
AAAGAATAAAAATTCATTTCTCAACAGTTTCAACTCTCAATCAAT
Found at i:19535718 original size:14 final size:15
Alignment explanation
Indices: 19535699--19535727 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19535689 TTTAAATGAA
19535699 TTTT-AAATATAATT
1 TTTTAAAATATAATT
19535713 TTTTAAAATATAATT
1 TTTTAAAATATAATT
19535728 ACATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAAAATATAATT
Found at i:19536078 original size:58 final size:59
Alignment explanation
Indices: 19535954--19536069 Score: 152
Period size: 58 Copynumber: 2.0 Consensus size: 59
19535944 TTCATATTTT
* * * *
19535954 AATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTTATTAAATTGTATTT
1 AATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTTATTAAATTCTATTA
19536013 AATAATAATTATATTAA-AATATGATTAAATTAGT-TATTA-TTTT-TT-AATTCTATTA
1 AATAATAATTATATTAAGAATATGATTAAATTA-TATATTATTTTTATTAAATTCTATTA
19536068 AA
1 AA
19536070 ATTTAATAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
55 10 0.19
56 2 0.04
57 4 0.08
58 18 0.35
59 18 0.35
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (59 bp):
AATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTTATTAAATTCTATTA
Found at i:19536245 original size:16 final size:16
Alignment explanation
Indices: 19536221--19536255 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19536211 ATTATTTATC
* *
19536221 ACAGTTCTATTCTATT
1 ACAGCTCTATTCCATT
19536237 ACAGCTCTATTCCATT
1 ACAGCTCTATTCCATT
19536253 ACA
1 ACA
19536256 ATCTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTCTATTCCATT
Found at i:19536523 original size:24 final size:24
Alignment explanation
Indices: 19536479--19536527 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
19536469 TAAATATTGA
* *
19536479 TTATTTTTTGTTTTTAATAAAAAT
1 TTATTTTTTGTTATAAATAAAAAT
19536503 TTATTTTTT-TTATAAACTAAAAAT
1 TTATTTTTTGTTATAAA-TAAAAAT
19536527 T
1 T
19536528 ATAAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTTTTTGTTATAAATAAAAAT
Found at i:19536531 original size:14 final size:15
Alignment explanation
Indices: 19536512--19536549 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19536502 TTTATTTTTT
*
19536512 TTATAAACTA-AAAA
1 TTATAAAATACAAAA
19536526 TTATAAAATATCAAAA
1 TTATAAAATA-CAAAA
19536542 TTATAAAA
1 TTATAAAA
19536550 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TTATAAAATACAAAA
Found at i:19544270 original size:11 final size:11
Alignment explanation
Indices: 19544254--19544280 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19544244 TAGAAATTAG
19544254 TTTGTGAAACT
1 TTTGTGAAACT
19544265 TTTGTGAAACT
1 TTTGTGAAACT
19544276 TTTGT
1 TTTGT
19544281 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:19545816 original size:92 final size:92
Alignment explanation
Indices: 19545679--19545872 Score: 277
Period size: 92 Copynumber: 2.1 Consensus size: 92
19545669 TTGATTTTAG
* * *
19545679 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGGAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
19545743 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
19545770 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
19545835 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
19545863 CAAATTCATA
1 TAAATTCATA
19545873 AACTATAATC
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
91 17 0.18
92 42 0.46
93 30 0.33
94 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:19545920 original size:48 final size:52
Alignment explanation
Indices: 19545850--19545948 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
19545840 AATAATTATT
19545850 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
19545898 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
19545949 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:19545930 original size:17 final size:17
Alignment explanation
Indices: 19545905--19545938 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19545895 ATAATTTTAA
*
19545905 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
19545922 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
19545939 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:19545955 original size:17 final size:16
Alignment explanation
Indices: 19545910--19545957 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
19545900 TTTAAATTTT
19545910 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
19545927 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
19545941 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
19545958 TAATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:19546045 original size:16 final size:17
Alignment explanation
Indices: 19546007--19546046 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
19545997 AATTTTATTA
19546007 AATAA-TATATTTTAAT
1 AATAATTATATTTTAAT
*
19546023 TAT-ATTATA-TTTAAT
1 AATAATTATATTTTAAT
19546038 AATAATTAT
1 AATAATTAT
19546047 GTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTATATTTTAAT
Found at i:19546151 original size:18 final size:17
Alignment explanation
Indices: 19546123--19546157 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19546113 ATTATTAAGA
*
19546123 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19546140 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19546158 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19546157 original size:16 final size:17
Alignment explanation
Indices: 19546123--19546164 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19546113 ATTATTAAGA
19546123 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
19546140 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
19546156 ATTTATAAT
1 ATTT-TAAT
19546165 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:19546266 original size:143 final size:147
Alignment explanation
Indices: 19546111--19546381 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
19546101 ATAAGAATAT
*
19546111 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
19546175 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
19546237 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
19546254 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
19546319 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
19546382 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 48 0.40
144 42 0.35
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:19546294 original size:18 final size:17
Alignment explanation
Indices: 19546266--19546300 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19546256 ATTATTAAGA
*
19546266 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19546283 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19546301 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19546511 original size:44 final size:44
Alignment explanation
Indices: 19546462--19546555 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
19546452 TTACACCTCT
* *
19546462 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTAC-ACTCTATTCC
** *
19546506 ATTACATTCAACCAAACAGTTGATTTGCTATTACACTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACTCTATTCC
19546550 ATTACA
1 ATTACA
19546556 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 33 0.75
45 11 0.25
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACTCTATTCC
Found at i:19546576 original size:21 final size:21
Alignment explanation
Indices: 19546547--19546589 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19546537 TACACTCTAT
*
19546547 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
19546568 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
19546589 T
1 T
19546590 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:19547433 original size:39 final size:38
Alignment explanation
Indices: 19547367--19547450 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
19547357 TTGCATTCAA
* * * *
19547367 ATTATATATGTGCAATATCTTATATGATTTTTACAATC
1 ATTATAAATCTGCAATATCATAGATGATTTTTACAATC
*
19547405 ATGTATAAATCTGCAATATCATAGATGATTTTTACTATC
1 AT-TATAAATCTGCAATATCATAGATGATTTTTACAATC
19547444 ATTATAA
1 ATTATAA
19547451 TATCATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 7 0.17
39 33 0.82
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (38 bp):
ATTATAAATCTGCAATATCATAGATGATTTTTACAATC
Found at i:19553452 original size:30 final size:32
Alignment explanation
Indices: 19553411--19553480 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
19553401 CAGTAATTAA
*
19553411 TTAATTTTTTAAAAATTT-AAAA-A-AAAAAT
1 TTAAATTTTTAAAAATTTAAAAACATAAAAAT
*
19553440 TTATAATTTTTAATAATTTAAAAACATAAAAAT
1 TTA-AATTTTTAAAAATTTAAAAACATAAAAAT
19553473 TTAAATTT
1 TTAAATTT
19553481 AAAAAAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 13 0.37
31 4 0.11
32 6 0.17
33 9 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (32 bp):
TTAAATTTTTAAAAATTTAAAAACATAAAAAT
Found at i:19554327 original size:30 final size:30
Alignment explanation
Indices: 19554288--19554344 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
19554278 TTTTATAAGT
19554288 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
19554318 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
19554345 AACAAGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:19557657 original size:29 final size:29
Alignment explanation
Indices: 19557622--19557678 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
19557612 TATATAAAAA
*
19557622 ATAATAAGTAATATAGAATAAAATATAAT
1 ATAATAAATAATATAGAATAAAATATAAT
** *
19557651 ATAATAAATGTTATATAATAAAATATAA
1 ATAATAAATAATATAGAATAAAATATAA
19557679 GTTAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
ATAATAAATAATATAGAATAAAATATAAT
Found at i:19557806 original size:13 final size:13
Alignment explanation
Indices: 19557759--19557835 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 13
19557749 ATATATATAA
19557759 ATAATTAATAAATAT
1 ATAA-TAAT-AATAT
*
19557774 ATAATACAAGTAAAAT
1 ATAAT--AA-TAATAT
19557790 ATAATAATAATAT
1 ATAATAATAATAT
*
19557803 ATAAAAATAATGAT
1 ATAATAATAAT-AT
**
19557817 GGAA-AATAATA-
1 ATAATAATAATAT
19557828 ATAATAAT
1 ATAATAAT
19557836 TTGTGAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 4 0.08
13 21 0.42
14 7 0.14
15 4 0.08
16 11 0.22
17 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:19557829 original size:35 final size:36
Alignment explanation
Indices: 19557785--19557889 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 36
19557775 TAATACAAGT
*
19557785 AAAAT-ATAATAATAATATAT-AAAAATAATGAT-GG
1 AAAATAATAATAATAATATATGAAAAATAAT-ATACG
* *
19557819 AAAATAATAATAATAATTTGTGAAAAAATAATATACG
1 AAAATAATAATAATAATATATG-AAAAATAATATACG
19557856 ATAAATAATAATAATATATATATGATAAAATAAT
1 A-AAATAATAATAATA-ATATATGA-AAAATAAT
19557890 CTTATAGTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
34 5 0.08
35 13 0.22
36 2 0.03
37 11 0.19
38 15 0.25
39 13 0.22
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (36 bp):
AAAATAATAATAATAATATATGAAAAATAATATACG
Found at i:19557833 original size:22 final size:22
Alignment explanation
Indices: 19557798--19557851 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
19557788 ATATAATAAT
*
19557798 AATATATAAAAATAATGATG-GAA
1 AATA-ATAATAATAAT-ATGTGAA
*
19557821 AATAATAATAATAATTTGTGAA
1 AATAATAATAATAATATGTGAA
19557843 AA-AATAATA
1 AATAATAATA
19557852 TACGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AATAATAATAATAATATGTGAA
Found at i:19559988 original size:206 final size:205
Alignment explanation
Indices: 19559653--19560298 Score: 979
Period size: 206 Copynumber: 3.1 Consensus size: 205
19559643 TCTAATCATT
* * * *
19559653 TGAAGGCCAAATCTA-CTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCTAAATCATCTT
1 TGAAAGCCAAATC-AGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTT
* *
19559717 GGATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATATGTCTGCCCTTCGTCGAAGTG
65 GGATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
19559782 GAGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCCGAATCATCTTAGATTTGCTTC
130 GAGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCC-AATCATCTTAGATTTGCTTC
19559847 ATCGTAAACACG
194 ATCGTAAACACG
19559859 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
* *
19559924 GATCTTGCTTTAGTCTAATCATTTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
66 GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
19559989 AGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAAATGCCAAATCATCTTAGATTTGCTTCA
131 AGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCC-AATCATCTTAGATTTGCTTCA
19560054 TCGTAAACACG
195 TCGTAAACACG
*
19560065 TGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
* * * * * * * * *
19560130 GATCTTGCTTCAGTCTAATCACCTAAAAGTCAGATCTGCTATGTATCTACTCTCCATTGAAGTGG
66 GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
* **** * *** *
19560195 AGATGCCAGACTTCGATTTGTTCTTTAACAATACAAAGACAACAATCATCTTAGATTTTACTTCA
131 AGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCCAATCATCTTAGA-TTTGCTTCA
19560260 TCGTAAACACG
195 TCGTAAACACG
*
19560271 TGAAAGCCAAATCAGCTATATCTTCGAT
1 TGAAAGCCAAATCAGCTATGTCTTCGAT
19560299 CTGCTCCCCG
Statistics
Matches: 403, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
205 13 0.03
206 390 0.97
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (205 bp):
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCCAATCATCTTAGATTTGCTTCAT
CGTAAACACG
Found at i:19573196 original size:21 final size:22
Alignment explanation
Indices: 19573148--19573196 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
19573138 TGGTAATTGT
* *
19573148 ATAATTTTTTATATATTATAAA
1 ATAATTTTTAAAATATTATAAA
19573170 AT-ATTTTTAAAATATT-TAAA
1 ATAATTTTTAAAATATTATAAA
19573190 ATAATTT
1 ATAATTT
19573197 AGAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAATTTTTAAAATATTATAAA
Found at i:19573205 original size:21 final size:22
Alignment explanation
Indices: 19573158--19573209 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
19573148 ATAATTTTTT
*
19573158 ATATATTATAAAATATTTTTAA
1 ATATATTATAAAATATATTTAA
19573180 A-ATATT-TAAAATA-ATTTAGA
1 ATATATTATAAAATATATTTA-A
19573200 ATATATTATA
1 ATATATTATA
19573210 TTAATAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 9 0.35
21 10 0.38
22 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATATTATAAAATATATTTAA
Found at i:19579522 original size:11 final size:11
Alignment explanation
Indices: 19579508--19579552 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
19579498 AGATAAATAT
19579508 TATTTTATTAA
1 TATTTTATTAA
*
19579519 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
19579532 TATTTTATTAT
1 TATTTTATTAA
19579543 TATTTTATTA
1 TATTTTATTA
19579553 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19581448 original size:46 final size:46
Alignment explanation
Indices: 19581396--19581761 Score: 491
Period size: 46 Copynumber: 8.0 Consensus size: 46
19581386 GCTCTCTGAA
*
19581396 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
19581442 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
19581488 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
19581534 ATGAAATGTGTAAGACCATAGCTGAGAGATACCATGGGAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
19581580 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
19581626 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
19581672 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
19581718 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
19581762 TCAAAGATAA
Statistics
Matches: 289, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 288 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:19584039 original size:43 final size:43
Alignment explanation
Indices: 19583974--19584139 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
19583964 AGCTCGTACA
* * * * *
19583974 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA-CG
* * * * *
19584016 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* *
19584059 ATGCCAATGTCCCAGACATGGTTTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* * *
19584102 ATGCCAATTTCCCAGATATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
19584140 TCTCGATAAC
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 5 0.05
43 94 0.92
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
Found at i:19584620 original size:28 final size:28
Alignment explanation
Indices: 19584582--19584640 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
19584572 GCTAGCCGAA
*
19584582 TTTTGTATAGCTTCATAGCAGGGCATAT
1 TTTTGTATAGCTTCATAGCAGCGCATAT
*
19584610 TTTTGTATAGCTTCATAGCAGCTCATAT
1 TTTTGTATAGCTTCATAGCAGCGCATAT
19584638 TTT
1 TTT
19584641 CATTTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (28 bp):
TTTTGTATAGCTTCATAGCAGCGCATAT
Found at i:19591768 original size:43 final size:43
Alignment explanation
Indices: 19591703--19591875 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
19591693 AGCTCGCACA
* * * *
19591703 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
19591745 ATGCCACTGTCCCAGACAAGGTCTTACACT-AAATCATAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACA-TGTAATCA-CATATCG
* * *
19591788 ATGCCAATGTCCCAGACATGGTTTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
19591831 ATGCCAATGTCTCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
19591874 AT
1 AT
19591876 AACCTAATGT
Statistics
Matches: 105, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 91 0.87
44 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:19592856 original size:20 final size:20
Alignment explanation
Indices: 19592827--19592877 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
19592817 AACAAAGTGT
*
19592827 TGAG-AATGTGTCCTTAACA
1 TGAGAAATGTGTCATTAACA
*
19592846 TGTGAAATGTGTCATTAACA
1 TGAGAAATGTGTCATTAACA
19592866 TGAGAAAT-TGTC
1 TGAGAAATGTGTC
19592878 TTCTTCACGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
TGAGAAATGTGTCATTAACA
Found at i:19595069 original size:21 final size:21
Alignment explanation
Indices: 19595017--19595070 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
19595007 ATTAATTACG
*
19595017 TTAATTTTTAATAATATAAATGA
1 TTAATTTTT--TAATATAAATCA
* *
19595040 ATAAATTTTTAATATAAATCA
1 TTAATTTTTTAATATAAATCA
19595061 TTAATTTTTT
1 TTAATTTTTT
19595071 CTTTAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 19 0.73
23 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTTTTTAATATAAATCA
Found at i:19595081 original size:30 final size:32
Alignment explanation
Indices: 19595047--19595109 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
19595037 TGAATAAATT
*
19595047 TTTAATATAAAT-CATTAATTTT-TTCTTTAA
1 TTTAATATAAATAAATTAATTTTATTCTTTAA
* * *
19595077 TTTAATGTATATAAATTAATTTTATTTTTTAA
1 TTTAATATAAATAAATTAATTTTATTCTTTAA
19595109 T
1 T
19595110 AAAAAGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.37
31 9 0.33
32 8 0.30
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTAATATAAATAAATTAATTTTATTCTTTAA
Found at i:19601367 original size:115 final size:115
Alignment explanation
Indices: 19601234--19601523 Score: 406
Period size: 115 Copynumber: 2.5 Consensus size: 115
19601224 TTTTCAGGTT
* * * * * *
19601234 ATTTTCATTTTGGAGAAAATCATAGTCATTTCCAAATGATTCCATTTCTACACTTTCATTTTCAT
1 ATTTTCATTTTGGAGAAAACCATAATCATTTACAAATGATTCCATTTCTCCATTTTCACTTTCAT
* * *
19601299 TTTGGAGAAAACCATAGTCATTTCTAAATGA-TT-CTATTTCTCCATTTTTC
66 TTTGAAGAAAACCATAATCATTTC-AAATGATTTCCCATTTCTCCA-TTTTC
* *
19601349 ATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCATTTCTCCATTTTCACTTTCAT
1 ATTTTCATTTTGGAGAAAACCATAATCATTTACAAATGATTCCATTTCTCCATTTTCACTTTCAT
19601414 TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
66 TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
* *
19601464 ATTTTTATTTTGAAGAAAACCATAATCA-TTACAAATGATTTTCCATTTCTCCATTTTCAC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTACAAATGA--TTCCATTTCTCCATTTTCAC
19601524 CATTTTTATT
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
114 14 0.09
115 113 0.72
116 30 0.19
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (115 bp):
ATTTTCATTTTGGAGAAAACCATAATCATTTACAAATGATTCCATTTCTCCATTTTCACTTTCAT
TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
Found at i:19601371 original size:58 final size:56
Alignment explanation
Indices: 19601234--19601522 Score: 398
Period size: 58 Copynumber: 5.0 Consensus size: 56
19601224 TTTTCAGGTT
* * * *
19601234 ATTTTCATTTTGGAGAAAATCATAGTCATTTCCAAATGATTCCATTTCTACACTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTT-CAAATGATTCCATTTCTCCATTTTC
* *
19601291 ATTTTCATTTTGGAGAAAACCATAGTCATTTCTAAATGATTCTATTTCTCCATTTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTC-AAATGATTCCATTTCTCCA-TTTTC
*
19601349 ATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCA-TTTCAAATGATTCCATTTCTCCATTTTC
* *
19601406 ACTTTCATTTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCAAATGA-TT-CCATTTCTCCATTTTC
* * *
19601464 ATTTTTATTTTGAAGAAAACCATAATCATTACAAATGATTTTCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCAAATGA--TTCCATTTCTCCATTTTC
19601522 A
1 A
19601523 CCATTTTTAT
Statistics
Matches: 213, Mismatches: 13, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
56 10 0.05
57 80 0.38
58 116 0.54
59 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (56 bp):
ATTTTCATTTTGGAGAAAACCATAATCATTTCAAATGATTCCATTTCTCCATTTTC
Found at i:19603792 original size:24 final size:24
Alignment explanation
Indices: 19603742--19603828 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
19603732 GAACGCTATT
* * * *
19603742 AGTGGTTTGTCCATAATGTAAACG
1 AGTGGTTTGACCACAATATAAATG
*
19603766 AGTGGTTTGACCACAACTAT-ATTG
1 AGTGGTTTGACCACAA-TATAAATG
* * * *
19603790 AGTTGCTTGGCCACAATGTAAATG
1 AGTGGTTTGACCACAATATAAATG
19603814 AGTGGTTTGACCACA
1 AGTGGTTTGACCACA
19603829 CCATAGAACT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (24 bp):
AGTGGTTTGACCACAATATAAATG
Found at i:19604786 original size:229 final size:229
Alignment explanation
Indices: 19604396--19604855 Score: 911
Period size: 229 Copynumber: 2.0 Consensus size: 229
19604386 AATAAAATTT
19604396 GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
1 GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
19604461 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
66 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
19604526 AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
131 AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
19604591 AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
196 AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
19604625 GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
1 GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
*
19604690 GATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
66 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
19604755 AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
131 AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
19604820 AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
196 AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
19604854 GA
1 GA
19604856 ACGATTGTCG
Statistics
Matches: 230, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (229 bp):
GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
Found at i:19619923 original size:46 final size:46
Alignment explanation
Indices: 19619873--19620045 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
19619863 TGGTTGAGCA
*
19619873 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
19619919 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
19619966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19620012 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19620046 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 63 0.59
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19620029 original size:93 final size:93
Alignment explanation
Indices: 19619870--19620040 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19619860 GGATGGTTGA
***
19619870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
19619935 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
19619963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
19620028 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19620041 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:19627260 original size:49 final size:49
Alignment explanation
Indices: 19627199--19627479 Score: 219
Period size: 49 Copynumber: 5.9 Consensus size: 49
19627189 CGTCCTTCTA
* * *
19627199 GGACATGACATCGGCACTGATAGATGAGAGCCAGTGTAAAACCTGTCTG
1 GGACATGGCATCGGCACTGATAGATGAGAGCCAGTGTAAGACCTATCTG
* * *
19627248 GGACATGGCATCGAC-CTCA-AGAT-ATGCAAGCTAGTGTAAGACCTATCTG
1 GGACATGGCATCGGCACTGATAGATGA-G--AGCCAGTGTAAGACCTATCTG
* * ** *
19627297 GGACATGGCATC-G-ACT--T-GAGGAGTGTTAGTGTAAGACCTGTCTG
1 GGACATGGCATCGGCACTGATAGATGAGAGCCAGTGTAAGACCTATCTG
* * * *
19627341 GGACATGGCATCGACACAGATAAATGAGAGTCAGTGTAAGACCTATCTG
1 GGACATGGCATCGGCACTGATAGATGAGAGCCAGTGTAAGACCTATCTG
* ** * *
19627390 GGACATCGCATCGGCTTTGAT-GTATG-GAAGTCAGTGTAAGACCTATTTG
1 GGACATGGCATCGGCACTGATAG-ATGAG-AGCCAGTGTAAGACCTATCTG
* *
19627439 GGACATGGCAT-TG-ACTGAGATG-TGAGAGCCAGTGTAAGACC
1 GGACATGGCATCGGCACTGATA-GATGAGAGCCAGTGTAAGACC
19627480 ATATTTGGAA
Statistics
Matches: 185, Mismatches: 31, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
44 30 0.16
46 6 0.03
47 25 0.14
48 9 0.05
49 115 0.62
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
GGACATGGCATCGGCACTGATAGATGAGAGCCAGTGTAAGACCTATCTG
Found at i:19627330 original size:93 final size:92
Alignment explanation
Indices: 19627231--19627402 Score: 251
Period size: 93 Copynumber: 1.8 Consensus size: 92
19627221 GATGAGAGCC
*
19627231 AGTGTAAAACCTGTCTGGGACATGGCATCGACCTCAAGAT-ATGCA-AG-CTAGTGTAAGACCTA
1 AGTGTAAAACCTGTCTGGGACATGGCATCGA-CAC-AGATAATG-AGAGTC-AGTGTAAGACCTA
*
19627293 TCTGGGACATGGCATCGACTTGAGGAGTGTT
62 TCTGGGACATCGCATCGACTTGAGGAGTGTT
*
19627324 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAATGAGAGTCAGTGTAAGACCTATCT
1 AGTGTAAAACCTGTCTGGGACATGGCATCGACACAGAT-AATGAGAGTCAGTGTAAGACCTATCT
19627389 GGGACATCGCATCG
65 GGGACATCGCATCG
19627403 GCTTTGATGT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
91 4 0.06
92 3 0.04
93 64 0.89
94 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
AGTGTAAAACCTGTCTGGGACATGGCATCGACACAGATAATGAGAGTCAGTGTAAGACCTATCTG
GGACATCGCATCGACTTGAGGAGTGTT
Found at i:19632983 original size:63 final size:63
Alignment explanation
Indices: 19632806--19633024 Score: 208
Period size: 63 Copynumber: 3.5 Consensus size: 63
19632796 GGTAGTTTTA
* * * * ** *
19632806 CTGCAATATTGAGTGGTTTGGCCACAACGTTATTGAGTGGCTTGACCATAACATGTAGCTTGT
1 CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGTGTAACTTGT
* ** * * *
19632869 TTGTGATATTCAA-TGGCTTGACCATAATGTTATTAAGTGGCTTGACCATAATGTGCAACTTGT
1 CTGCAATATT-AAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGTGTAACTTGT
* * * * * *
19632932 CTGCGATATTAAGTGGCTTGACCACAACGTTATTCAGTGGTTTGACTATAATGAGTAACTTCT
1 CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGTGTAACTTGT
* * *
19632995 CCGCAATA-TACAGTGGTTTGACCATAACGT
1 CTGCAATATTA-AGTGGCTTGACCACAACGT
19633025 GGAGTGTTAT
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
62 4 0.03
63 121 0.96
64 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (63 bp):
CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGTGTAACTTGT
Found at i:19635927 original size:34 final size:35
Alignment explanation
Indices: 19635863--19635929 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
19635853 TGATCTATGG
* * *
19635863 ATTTGCATGTTGAGCATGCCCTATTCTGAAAATCTA
1 ATTTGCATGATAAGCATG-CCTATTATGAAAATCTA
19635899 ATTTGCATGATAAGCATG-CTATTATGAAAAT
1 ATTTGCATGATAAGCATGCCTATTATGAAAAT
19635930 ATATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 12 0.43
36 16 0.57
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (35 bp):
ATTTGCATGATAAGCATGCCTATTATGAAAATCTA
Found at i:19635938 original size:12 final size:12
Alignment explanation
Indices: 19635921--19635946 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19635911 AGCATGCTAT
19635921 TATGAAAATATA
1 TATGAAAATATA
19635933 TATGAAAATATA
1 TATGAAAATATA
19635945 TA
1 TA
19635947 AGATTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TATGAAAATATA
Found at i:19646633 original size:18 final size:18
Alignment explanation
Indices: 19646602--19646651 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19646592 TTTTTCAATT
*
19646602 TTCTTTTTC-TTCTCACA
1 TTCTTTTTCATTCTCAAA
*
19646619 TTCTTTTTCACTCTCAAA
1 TTCTTTTTCATTCTCAAA
*
19646637 CTCTTTTTCATTCTC
1 TTCTTTTTCATTCTC
19646652 TTTTTCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCTTTTTCATTCTCAAA
Found at i:19646654 original size:30 final size:30
Alignment explanation
Indices: 19646620--19646686 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
19646610 CTTCTCACAT
*
19646620 TCTTTTTCACTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
19646650 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
19646680 TCTTTTT
1 TCTTTTT
19646687 GTTTTTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:19646686 original size:18 final size:18
Alignment explanation
Indices: 19646644--19646695 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19646634 AAACTCTTTT
*
19646644 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
19646662 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
19646680 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
19646696 AGGCTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:19646693 original size:12 final size:12
Alignment explanation
Indices: 19646662--19646686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19646652 TTTTTCAATC
19646662 TCATTTTCTTTT
1 TCATTTTCTTTT
19646674 TCATTTTCTTTT
1 TCATTTTCTTTT
19646686 T
1 T
19646687 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:19646794 original size:17 final size:15
Alignment explanation
Indices: 19646755--19646814 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
19646745 CTTTTGCGTC
*
19646755 TCTTTTCTTTTTATT
1 TCTTTTCTTTTTTTT
* *
19646770 TC-ATT-TTTTTTGT
1 TCTTTTCTTTTTTTT
19646783 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTT-TTT
19646800 TCTTTTCTTTGTTTT
1 TCTTTTCTTT-TTTT
19646815 CTCGTTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
13 8 0.23
14 4 0.11
15 2 0.06
16 11 0.31
17 10 0.29
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.78
Consensus pattern (15 bp):
TCTTTTCTTTTTTTT
Found at i:19646805 original size:29 final size:28
Alignment explanation
Indices: 19646755--19646812 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
19646745 CTTTTGCGTC
*
19646755 TCTTTTCTTTTTATTTCATTTTTTTTGT
1 TCTTTTCTTTTTATTTCATTTTCTTTGT
*
19646783 TCTTTTGCTTTTTCTTTTC-TTTTCTTTGT
1 TCTTTT-CTTTTT-ATTTCATTTTCTTTGT
19646812 T
1 T
19646813 TTCTCGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (28 bp):
TCTTTTCTTTTTATTTCATTTTCTTTGT
Found at i:19650007 original size:40 final size:40
Alignment explanation
Indices: 19649958--19650146 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
19649948 GCAACTCGCG
* *
19649958 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
* *
19649998 CAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
19650038 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
*
19650078 CAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
* *
19650118 TAAATGCCTTCGGGACTTAACCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
19650147 CATTCGAATA
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
Found at i:19652900 original size:21 final size:20
Alignment explanation
Indices: 19652874--19652916 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
19652864 GAATGAGCTG
19652874 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* *
19652895 AAACGAGCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
19652915 AA
1 AA
19652917 GTGAACTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Done.