Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 5 of 373
Found at i:1391729 original size:24 final size:24
Alignment explanation
Indices: 1391675--1391729 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
1391665 AAATGTTTAC
1391675 ATTATTA-TTATTTATTTATTTTG
1 ATTATTATTTATTTATTTATTTTG
1391698 AATT-TTATTTATTTATTTGATTTTG
1 -ATTATTATTTATTTATTT-ATTTTG
1391723 -TTATTAT
1 ATTATTAT
1391730 AAATTATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (24 bp):
ATTATTATTTATTTATTTATTTTG
Found at i:1391751 original size:77 final size:79
Alignment explanation
Indices: 1391620--1391782 Score: 285
Period size: 77 Copynumber: 2.1 Consensus size: 79
1391610 ATAAAAAGGT
* *
1391620 AATTTATATTTATTTATTTGATTTTGTTATTATAATTTATACAACAAATGTTTACATTATTATTA
1 AATTT-TATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATTA
1391685 TTTATTTA-TTTT-G
65 TTTATTTATTTTTAG
1391698 AATTTTATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATTAT
1 AATTTTATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATTAT
1391763 TTATTTATTTTTAG
66 TTATTTATTTTTAG
1391777 AATTTT
1 AATTTT
1391783 CTAAAAAAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
77 65 0.80
78 9 0.11
79 7 0.09
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (79 bp):
AATTTTATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATTAT
TTATTTATTTTTAG
Found at i:1395841 original size:22 final size:22
Alignment explanation
Indices: 1395817--1395858 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1395807 ATAAATAAAA
* *
1395817 AAAATTAAATTAT-TAAATATT
1 AAAATAAAATAATATAAATATT
1395838 AAAATAAAATAATATAAATAT
1 AAAATAAAATAATATAAATAT
1395859 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAAAATAATATAAATATT
Found at i:1401473 original size:3 final size:3
Alignment explanation
Indices: 1401347--1401454 Score: 53
Period size: 3 Copynumber: 37.0 Consensus size: 3
1401337 TGCTATTACC
* * * * *
1401347 ATT ACT ATT ATT ATT ATT ATT ATT ATC ATA ATC ATT ATT ATA ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * * * * *
1401396 ATC GTT ATT ATA AAT A-T ATT GTT -TT -TT ATT CTT ATT AAT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
1401440 CTT CTT ATT ATT ATT
1 ATT ATT ATT ATT ATT
1401455 TTCCACCTTA
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
2 8 0.10
3 69 0.86
4 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:1401569 original size:12 final size:12
Alignment explanation
Indices: 1401552--1401652 Score: 68
Period size: 12 Copynumber: 8.3 Consensus size: 12
1401542 CTCTCTGTAT
1401552 TTACTTATATTA
1 TTACTTATATTA
1401564 TTACTTATATTA
1 TTACTTATATTA
* *
1401576 TCA-TCACTATTA
1 TTACTTA-TATTA
*
1401588 TCA-TTATGATTTA
1 TTACTTAT-A-TTA
1401601 TTACTT-TATTA
1 TTACTTATATTA
*
1401612 TTA-TCATTATTA
1 TTACTTA-TATTA
1401624 TTACTATTATATTA
1 TTAC--TTATATTA
*
1401638 TTA-TTATATTT
1 TTACTTATATTA
1401649 TTAC
1 TTAC
1401653 CCATTATTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
10 1 0.01
11 19 0.26
12 34 0.47
13 6 0.08
14 10 0.14
15 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (12 bp):
TTACTTATATTA
Found at i:1401614 original size:3 final size:3
Alignment explanation
Indices: 1401559--1401644 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
1401549 TATTTACTTA
* * * * * *
1401559 TAT TAT TACT TA- TAT TAT CAT CAC TAT TAT CAT TAT GATT TAT TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
1401605 T-T TAT TAT TAT CAT TAT TAT TAC TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1401645 ATTTTTACCC
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 5 0.08
3 54 0.84
4 5 0.08
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:1401628 original size:23 final size:23
Alignment explanation
Indices: 1401559--1401644 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 23
1401549 TATTTACTTA
* *
1401559 TATTATTACTTAT-ATTATCATCAC
1 TATTA-TA-TTATCATTATTATTAC
*
1401583 TATTATCATTATGA-T-TTATTAC
1 TATTAT-ATTATCATTATTATTAC
*
1401605 TTTAT-TATTATCATTATTATTAC
1 TAT-TATATTATCATTATTATTAC
*
1401628 TATTATATTATTATTAT
1 TATTATATTATCATTAT
1401645 ATTTTTACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
21 6 0.12
22 10 0.20
23 27 0.54
24 7 0.14
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (23 bp):
TATTATATTATCATTATTATTAC
Found at i:1401658 original size:26 final size:26
Alignment explanation
Indices: 1401607--1401659 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1401597 TTTATTACTT
*
1401607 TATTATTATCATTATTATTACTATTA
1 TATTATTATCATTATTATTACCATTA
* *
1401633 TATTATTATTA-TATTTTTACCCATTA
1 TATTATTATCATTATTATTA-CCATTA
1401659 T
1 T
1401660 TCTTTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTATTATCATTATTATTACCATTA
Found at i:1404026 original size:30 final size:28
Alignment explanation
Indices: 1403990--1404056 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
1403980 TAAAAATAAC
1403990 AATAATATTCACAATAAAAAAATAATAAAA
1 AATAATATTC-CAATAAAAAAATAA-AAAA
* * *
1404020 AATAATATTCTAATAAAATAATAAAAGA
1 AATAATATTCCAATAAAAAAATAAAAAA
*
1404048 AATAGTATT
1 AATAATATT
1404057 TATAGTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 11 0.33
29 12 0.36
30 10 0.30
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (28 bp):
AATAATATTCCAATAAAAAAATAAAAAA
Found at i:1404380 original size:3 final size:3
Alignment explanation
Indices: 1404372--1404428 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
1404362 AAGAAAAGCT
* *
1404372 ATA ATA ATA ATA GTA ATT ATA ATA A-A AGTA ATA ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA
*
1404417 ATA ATA GTA ATA
1 ATA ATA ATA ATA
1404429 TTAGTGATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1404395 original size:15 final size:15
Alignment explanation
Indices: 1404372--1404422 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
1404362 AAGAAAAGCT
*
1404372 ATAATAATAATAGTA
1 ATAATAATAAAAGTA
*
1404387 ATTATAATAAAAGTA
1 ATAATAATAAAAGTA
1404402 ATAATAATAAATA-TA
1 ATAATAATAAA-AGTA
1404417 ATAATA
1 ATAATA
1404423 GTAATATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 31 0.97
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAAAAGTA
Found at i:1404403 original size:24 final size:24
Alignment explanation
Indices: 1404376--1404433 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1404366 AAAGCTATAA
*
1404376 TAATAATAGTAATTATAATAAAAG
1 TAATAATAGTAAATATAATAAAAG
* *
1404400 TAATAATAATAAATATAATAATAG
1 TAATAATAGTAAATATAATAAAAG
*
1404424 TAATATTAGT
1 TAATAATAGT
1404434 GATAAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (24 bp):
TAATAATAGTAAATATAATAAAAG
Found at i:1404427 original size:9 final size:9
Alignment explanation
Indices: 1404376--1404448 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
1404366 AAAGCTATAA
1404376 TAATAATAG
1 TAATAATAG
1404385 TAAT--TA-
1 TAATAATAG
*
1404391 TAATAAAAG
1 TAATAATAG
*
1404400 TAATAATAA
1 TAATAATAG
1404409 T-A-AATA-
1 TAATAATAG
1404415 TAATAATAG
1 TAATAATAG
*
1404424 TAATATTAG
1 TAATAATAG
*
1404433 TGATAA-AG
1 TAATAATAG
1404441 -AATAATAG
1 TAATAATAG
1404449 ATATAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
6 5 0.10
7 11 0.22
8 10 0.20
9 24 0.48
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:1404700 original size:16 final size:16
Alignment explanation
Indices: 1404679--1404717 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1404669 AAAATACTAC
*
1404679 TATATAAATTCATATA
1 TATATAAATGCATATA
*
1404695 TATATATATGCATATA
1 TATATAAATGCATATA
1404711 TA-ATAAA
1 TATATAAA
1404718 AATATATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
TATATAAATGCATATA
Found at i:1404839 original size:12 final size:12
Alignment explanation
Indices: 1404817--1404854 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1404807 ATTAAAAAAC
1404817 AATACTATATATA
1 AATA-TATATATA
1404830 AATATATATATA
1 AATATATATATA
*
1404842 CATATATA-ATA
1 AATATATATATA
1404853 AA
1 AA
1404855 ACCTACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 15 0.65
13 4 0.17
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:1404908 original size:139 final size:140
Alignment explanation
Indices: 1404644--1405020 Score: 484
Period size: 141 Copynumber: 2.7 Consensus size: 140
1404634 AGTGTATAAT
** * *
1404644 ATAATAATATTAAAATAAGGTAATTAAAATAC--TACTATATAAATTCATATATATATATATGCA
1 ATAATAATATTAAAATAAAATAATTAAAAAACAATACTATAT--A-T-A-A-ATATATATATACA
* * * * *
1404707 TATATAATAAAAATATATACTAATA--ATAATAATAGTAATAGTAATAATATTAAAATAC-AAAA
60 TATATAATAAAAACATACACTAATATTATAATAATAATAATAGAAATAATATCAAAATACAAAAA
*
1404769 AAGTAAATATAACATG
125 AAGTAAATATAACATA
1404785 ATAATAATATTAAAATAAAATAATTAAAAAACAATACTATATATAAATATATATATACATATATA
1 ATAATAATATTAAAATAAAATAATTAAAAAACAATACTATATATAAATATATATATACATATATA
* *
1404850 AT-AAAACCTACACTAATATTATTAATAATAATACTAGAAATAATATCAAAATACAAAAAAAAGT
66 ATAAAAACATACACTAATATTA-TAATAATAATAATAGAAATAATATCAAAATAC-AAAAAAAGT
1404914 AAATATAACATA
129 AAATATAACATA
*
1404926 ATAATAATATTAAAATAAAATAATT-AAAAATAATAC--TATATAAATATATATATACATATATA
1 ATAATAATATTAAAATAAAATAATTAAAAAACAATACTATATATAAATATATATATACATATATA
*
1404988 ATAAAAACATTCACTAATATTAATAATAATAAT
66 ATAAAAACATACACTAATATT-ATAATAATAAT
1405021 GATAATAGGA
Statistics
Matches: 212, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
136 13 0.06
137 20 0.09
138 30 0.14
139 55 0.26
140 12 0.06
141 74 0.35
143 8 0.04
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.32
Consensus pattern (140 bp):
ATAATAATATTAAAATAAAATAATTAAAAAACAATACTATATATAAATATATATATACATATATA
ATAAAAACATACACTAATATTATAATAATAATAATAGAAATAATATCAAAATACAAAAAAAGTAA
ATATAACATA
Found at i:1404929 original size:3 final size:3
Alignment explanation
Indices: 1404923--1405129 Score: 59
Period size: 3 Copynumber: 66.0 Consensus size: 3
1404913 TAAATATAAC
* * *
1404923 ATA ATA ATA ATA TTA A-A ATA A-A ATA ATTA AAA ATA ATA CTA TATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -AT-A
* * * * *
1404969 ATA TATA TATA CATA TATA ATA AAA ACA TTCA CTA ATA TTA ATA ATA
1 ATA -ATA -ATA -ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * *
1405016 ATA ATG ATA ATA GGA-A ATA ATA ATA ACA ATA TATA CTA ATA ACA GTA
1 ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * *
1405063 ATA AT- ATGA AAA ATA AGAA ATA ACA ATA GT- ATA A-A ATA ATA ATA
1 ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
1405107 TATA CATGA A-A AAA ATA ATA ATA
1 -ATA -AT-A ATA ATA ATA ATA ATA
1405130 TAAATAATTG
Statistics
Matches: 149, Mismatches: 36, Indels: 38
0.67 0.16 0.17
Matches are distributed among these distances:
2 12 0.08
3 100 0.67
4 34 0.23
5 3 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1405106 original size:22 final size:21
Alignment explanation
Indices: 1405030--1405106 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
1405020 TGATAATAGG
1405030 AAATAATAATAACAATATATA
1 AAATAATAATAACAATATATA
* * * *
1405051 CTAATAACAGTAATAATATGA-A
1 -AAATAATAATAACAATAT-ATA
*
1405073 AAATAAGAAATAACAATAGTATA
1 AAATAA-TAATAACAATA-TATA
1405096 AAATAATAATA
1 AAATAATAATA
1405107 TATACATGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
21 5 0.12
22 28 0.67
23 9 0.21
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
AAATAATAATAACAATATATA
Found at i:1405172 original size:24 final size:24
Alignment explanation
Indices: 1405116--1405163 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1405106 ATATACATGA
*
1405116 AAAAAATAATAATATAAATAATTG
1 AAAAAATAATAAAATAAATAATTG
1405140 AAAAAATAATAAAATTAAATAATT
1 AAAAAATAATAAAA-TAAATAATT
1405164 TAACAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAATAATAAAATAAATAATTG
Found at i:1405757 original size:12 final size:11
Alignment explanation
Indices: 1405723--1405758 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1405713 ACCTAAAGGT
*
1405723 TTTTTTTTGTA
1 TTTTTTTTATA
1405734 TTTTTTTTATA
1 TTTTTTTTATA
1405745 TTTTTTTTAATA
1 TTTTTTTT-ATA
1405757 TT
1 TT
1405759 CGTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:1418797 original size:49 final size:49
Alignment explanation
Indices: 1418740--1418838 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
1418730 TAATGCAAGC
1418740 AATGCAAATAGAAAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1 AATGCAAATAGAAAAGATCATATACAACAATAATTTTAACAGGTTAGTG
* *
1418789 AATGCAAATAGAGAAGATTATATACAACAATAATTTTAACAGGTTAGTG
1 AATGCAAATAGAAAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1418838 A
1 A
1418839 CTTGAATGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.27
Consensus pattern (49 bp):
AATGCAAATAGAAAAGATCATATACAACAATAATTTTAACAGGTTAGTG
Found at i:1421740 original size:109 final size:109
Alignment explanation
Indices: 1421549--1421791 Score: 450
Period size: 109 Copynumber: 2.2 Consensus size: 109
1421539 CTAGTATATA
* *
1421549 TATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTAAGAACT
1 TATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTAAGAACT
*
1421614 AGGATCAAAATGATAAAATGTGTAATTGTCGATGACTAAATGTG
66 AGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTG
1421658 TATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTAAGAACT
1 TATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTAAGAACT
*
1421723 AGGATCAAAATGATAAAATGTGTAACTGTTGATGACTAAATGTG
66 AGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTG
1421767 TATGTGGACCAAATTTATATAATTT
1 TATGTGGACCAAATTTATATAATTT
1421792 GTGACTAAAT
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 130 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (109 bp):
TATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTAAGAACT
AGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTG
Found at i:1421806 original size:38 final size:38
Alignment explanation
Indices: 1421755--1421829 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
1421745 TAACTGTTGA
1421755 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTG
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTG
1421793 TGACTAAATGTGTATGTGGACCAAATTTATATAATTT
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTT
1421830 CTAAATAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (38 bp):
TGACTAAATGTGTATGTGGACCAAATTTATATAATTTG
Found at i:1421913 original size:147 final size:147
Alignment explanation
Indices: 1421646--1421940 Score: 572
Period size: 147 Copynumber: 2.0 Consensus size: 147
1421636 TAATTGTCGA
1421646 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
*
1421711 TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTTGATGACTAAATGTGTATGTGGAC
66 TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGAC
*
1421776 CAAATTTATATAATTTG
131 CAAATTTAAATAATTTG
1421793 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
1421858 TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGAC
66 TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGAC
1421923 CAAATTTAAATAATTTG
131 CAAATTTAAATAATTTG
1421940 T
1 T
1421941 AAATGAGGAG
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.36
Consensus pattern (147 bp):
TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGAC
CAAATTTAAATAATTTG
Found at i:1422022 original size:112 final size:109
Alignment explanation
Indices: 1421793--1422135 Score: 544
Period size: 109 Copynumber: 3.1 Consensus size: 109
1421783 ATATAATTTG
* *
1421793 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAA
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAA
*
1421858 TTGTTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGA
66 TTGTTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGA
*
1421902 TGACTAAATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAATTTTATTATT
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAA--TT-TTATT
1421967 AAATTGTTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGA
63 AAATTGTTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGA
* *
1422014 TGACTAAATGTGTATGTGGACCAAATTTATATAATTAGTAAATGTGGAGGGTTAATTTTATTAAA
1 TGACTAAATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAA
* * * * *
1422079 TTATTAAGAATTTA-GACTAAAATGATAAAATGTGTAAGTGTTGA
66 TTGTTAAGAA-CTAGGACCAAAATGATAAAATGTGTAACTGTCGA
1422123 TGACTAAATGTGT
1 TGACTAAATGTGT
1422136 TAATATATCA
Statistics
Matches: 218, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
109 109 0.50
110 4 0.02
111 2 0.01
112 103 0.47
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (109 bp):
TGACTAAATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAA
TTGTTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGA
Found at i:1427575 original size:59 final size:59
Alignment explanation
Indices: 1427502--1427621 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
1427492 GGATTACTAG
*
1427502 TCGAACTAATCATGTCATCAATTCCAATTAATGGAAGAATCGATTTGGTTTGATTTGAA
1 TCGAACCAATCATGTCATCAATTCCAATTAATGGAAGAATCGATTTGGTTTGATTTGAA
*
1427561 TCGAACCAATCATGTCATCAATTCCAATTAATGGAAGAATTGATTTGGTTTGATTTGAA
1 TCGAACCAATCATGTCATCAATTCCAATTAATGGAAGAATCGATTTGGTTTGATTTGAA
1427620 TC
1 TC
1427622 AAAGTTTATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (59 bp):
TCGAACCAATCATGTCATCAATTCCAATTAATGGAAGAATCGATTTGGTTTGATTTGAA
Found at i:1436626 original size:46 final size:45
Alignment explanation
Indices: 1436573--1436829 Score: 241
Period size: 46 Copynumber: 5.6 Consensus size: 45
1436563 TTTGTGTGCC
* *
1436573 AGTGTAAGACATGTCTAGGATATGCATCGGCCACATTATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCT
* * * **
1436619 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGATAGCT
* * *
1436667 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCT
* * * ** *
1436713 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATTTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCT
* * * *
1436759 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCT
1436803 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
1436830 TGGCACGGTT
Statistics
Matches: 175, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
44 27 0.15
45 2 0.01
46 92 0.53
47 31 0.18
48 22 0.13
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCT
Found at i:1436700 original size:94 final size:91
Alignment explanation
Indices: 1436570--1436834 Score: 300
Period size: 94 Copynumber: 2.9 Consensus size: 91
1436560 ATTTTTGTGT
* *
1436570 GCCAGTGTAAGACATGTCTAGGATATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAGTGTAAGA-CATGTC
* *
1436635 TGGGACATGGCATCGGCATTGAGACGAGG
64 TGGGACAT-GCATCGGCATCGAGACGAGA
* * * *
1436664 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAGTGTAAGACATGTCT
* * ****
1436729 AGGACATGCATCGGCCTCGAGATTTTA
65 GGGACATGCATCGGCATCGAGACGAGA
* * * *
1436756 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCTAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCTAGTGTAAGACATGTCT
*
1436819 GGGACATGCATTGGCA
65 GGGACATGCATCGGCA
1436835 CGGTTACATG
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
90 31 0.22
92 48 0.33
93 14 0.10
94 51 0.35
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCTAGTGTAAGACATGTCTG
GGACATGCATCGGCATCGAGACGAGA
Found at i:1436856 original size:136 final size:140
Alignment explanation
Indices: 1436567--1436870 Score: 347
Period size: 136 Copynumber: 2.2 Consensus size: 140
1436557 ATGATTTTTG
* * *
1436567 TGTGCCAGTGTAAGACATGTCTAGGATATGCATCGGCCACATTATGATAGCTAGTGTAAGACCAT
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCAT
1436632 GTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAG
66 GTCTGGGACATGGCATCGGCA-TGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAG
*
1436697 CCACAGTATGA
130 CCACAGTATCA
* * ** *
1436708 -GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATTTTAGCCAGTGTCAGA-CA
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGATAGCCAGTGTAAGACCA
* *
1436770 TGTCTGGGACAT-GCGTCGGC-T-ACGA-GATGTGCTAGTGTAAGACATGTCTGGGACATGCAT-
65 TGTCTGGGACATGGCATCGGCATGA-GACGA-GGGCTAGTGTAAGACATGTCTGGGACATGCATC
* * *
1436830 TGGCACGGT-TACA
128 AGCCACAGTAT-CA
* * *
1436843 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 TGTGCCAGTGTAAGACATGTCTAGGACA
1436871 CGGCATCGAA
Statistics
Matches: 140, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
134 1 0.01
135 10 0.07
136 57 0.41
138 7 0.05
139 14 0.10
140 50 0.36
141 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (140 bp):
TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCATGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
CACAGTATCA
Found at i:1438007 original size:256 final size:256
Alignment explanation
Indices: 1437552--1438035 Score: 880
Period size: 256 Copynumber: 1.9 Consensus size: 256
1437542 AAGGGGGAAG
* *
1437552 AAATGTAACAGTCCGATTTTGGGCCTAGTCGGAATAGTGGTTTTGGAACCACTATTTCGAGGCCA
1 AAATGTAACAGCCCGATTTTGGGCCTAGTCGGAACAGTGGTTTTGGAACCACTATTTCGAGGCCA
*
1437617 GAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTG
66 GAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTACATGTAAATTTTG
*
1437682 GTAAGTTAATTTTAGCGATTTCTAGTCCAATTTCAAAAAAGGACTAAATTGCGTAAAAGATAAAA
131 GTAAGTTAATTTTAGCGATTTCTAGTCCAATTTCAAAAAAGGACTAAATCGCGTAAAAGATAAAA
*
1437747 GTTGTGTGTTAATGCCTAAATGTGTTAATAGACTAGAGAAATAAAATTGGAGGCATTTAGA
196 GTTGTGTGTTAATGCCTAAATATGTTAATAGACTAGAGAAATAAAATTGGAGGCATTTAGA
1437808 AAATGTAACAGCCCGATTTTGGGCCTAGTCGGAACAGTGGTTTTGGAACCACTA-TTCTGAGGCC
1 AAATGTAACAGCCCGATTTTGGGCCTAGTCGGAACAGTGGTTTTGGAACCACTATTTC-GAGGCC
1437872 AGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTACATGTAAATTTT
65 AGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTACATGTAAATTTT
** *
1437937 GGTAAGTTAATTTTAGCGATTTCTAGTCCAATTTTGAAAAAGGACTAAATCGCGTAAAAGGTAAA
130 GGTAAGTTAATTTTAGCGATTTCTAGTCCAATTTCAAAAAAGGACTAAATCGCGTAAAAGATAAA
1438002 AGTTGTGTGTTAATGCCTAAATATGTTAATAGAC
195 AGTTGTGTGTTAATGCCTAAATATGTTAATAGAC
1438036 ACGGCCACGT
Statistics
Matches: 219, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
255 3 0.01
256 216 0.99
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (256 bp):
AAATGTAACAGCCCGATTTTGGGCCTAGTCGGAACAGTGGTTTTGGAACCACTATTTCGAGGCCA
GAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTACATGTAAATTTTG
GTAAGTTAATTTTAGCGATTTCTAGTCCAATTTCAAAAAAGGACTAAATCGCGTAAAAGATAAAA
GTTGTGTGTTAATGCCTAAATATGTTAATAGACTAGAGAAATAAAATTGGAGGCATTTAGA
Found at i:1450976 original size:21 final size:20
Alignment explanation
Indices: 1450952--1450992 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1450942 AATTCTTCTC
*
1450952 TTTTGCTTCTCTTTCCATCTA
1 TTTTGCTTCAC-TTCCATCTA
*
1450973 TTTTTCTTCACTTCCATCTA
1 TTTTGCTTCACTTCCATCTA
1450993 CTAGTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.29, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTGCTTCACTTCCATCTA
Found at i:1451052 original size:29 final size:29
Alignment explanation
Indices: 1451010--1451068 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1451000 CTTGCTTCTA
1451010 AATTGATGAACATACTCTCTAAAATCTTT
1 AATTGATGAACATACTCTCTAAAATCTTT
*
1451039 AATTGATGAACATACTCTCTAAGATCTTT
1 AATTGATGAACATACTCTCTAAAATCTTT
1451068 A
1 A
1451069 CTTTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (29 bp):
AATTGATGAACATACTCTCTAAAATCTTT
Found at i:1452482 original size:34 final size:34
Alignment explanation
Indices: 1452444--1452526 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
1452434 AGAAAGAATC
1452444 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
1 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
* * * *
1452478 TTACCTTTAAAAGCATTGTTTTTCACGCTATGCT
1 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
*
1452512 TT-TC-TAAAAAACATT
1 TTACCTTAAAAAACATT
1452527 TTCTTCTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 9 0.21
33 1 0.02
34 32 0.76
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (34 bp):
TTACCTTAAAAAACATTATTTTTCACGCCATGCT
Found at i:1455555 original size:114 final size:114
Alignment explanation
Indices: 1455408--1455674 Score: 426
Period size: 114 Copynumber: 2.3 Consensus size: 114
1455398 GGTTGTAATG
* **
1455408 AATTCCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTGGTTTTAATGTTAT
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTAATGTTAT
* * **
1455473 TAGGTAATGTTTTTAGAACCGGATCAATAGTCGAACCAGTCATGTCATC
66 TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
* * *
1455522 AATTTCAATTAATGGAGGAATTGGTTTGGTTTGATTTGATAATATTTTATTACTTTTTATGTTAT
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTAATGTTAT
* *
1455587 TAGGTAATGTCTTCAGAACCAAATTAATAGTTGAACCAGTCATGTCATC
66 TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
1455636 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGA
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGA
1455675 ATCAAAGTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 140 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (114 bp):
AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTAATGTTAT
TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
Found at i:1455862 original size:24 final size:24
Alignment explanation
Indices: 1455835--1455882 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1455825 TTATCTTTTT
*
1455835 ATATGTAGTATGTACATA-TTTTCA
1 ATAT-TAGTATGTAAATACTTTTCA
*
1455859 ATATTATTATGTAAATACTTTTCA
1 ATATTAGTATGTAAATACTTTTCA
1455883 TTCCTGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (24 bp):
ATATTAGTATGTAAATACTTTTCA
Found at i:1465054 original size:14 final size:14
Alignment explanation
Indices: 1465030--1465070 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
1465020 ATATTAAGTA
1465030 ATTAATAATATTTAT
1 ATTAAT-ATATTTAT
*
1465045 ATTATTATATTTAT
1 ATTAATATATTTAT
1465059 ATTAATATATTT
1 ATTAATATATTT
1465071 CGATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATATATTTAT
Found at i:1465400 original size:21 final size:21
Alignment explanation
Indices: 1465376--1465419 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1465366 GAATCTTTAG
*
1465376 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
1465397 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
1465418 TA
1 TA
1465420 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:1474559 original size:76 final size:74
Alignment explanation
Indices: 1474456--1474689 Score: 357
Period size: 73 Copynumber: 3.2 Consensus size: 74
1474446 TGATGTTTTT
* * *
1474456 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTAAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1474521 TAATTTTCA
66 TAATTTTCA
*
1474530 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1474595 GGTAA-TTTCA
64 GGTAATTTTCA
* *
1474605 ATTTCTGTTTGTC-AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1474669 GT-ATTTTCA
65 GTAATTTTCA
*
1474678 ATTTCTGCTTTC
1 ATTTCTGTTTTC
1474690 CAATTTCTGC
Statistics
Matches: 148, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
72 3 0.02
73 64 0.43
74 10 0.07
75 19 0.13
76 52 0.35
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTTCA
Found at i:1474695 original size:14 final size:14
Alignment explanation
Indices: 1474676--1474702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1474666 GAGGTATTTT
1474676 CAATTTCTGCTTTC
1 CAATTTCTGCTTTC
1474690 CAATTTCTGCTTT
1 CAATTTCTGCTTT
1474703 TCAAAAAAAT
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:0.15, C:0.26, G:0.07, T:0.52
Consensus pattern (14 bp):
CAATTTCTGCTTTC
Found at i:1474753 original size:89 final size:87
Alignment explanation
Indices: 1474603--1474858 Score: 336
Period size: 89 Copynumber: 2.9 Consensus size: 87
1474593 GAGGTAATTT
* *
1474603 CAATTTCTG-TTTGTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
1 CAATTTCTGCTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1474667 AGGTATTTTCAATTTCTGCTTTC
65 AGGTATTTTCAATTTCTGCTTTC
*
1474690 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGACACGCT
1 CAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
1474755 GAGGTATTTTCAATTTTTGTTTTT
64 GAGGTATTTTCAATTTCTGCTTTC
* * * * * * *
1474779 CAA-TTATGCTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCCCATGCC
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT
1474843 GAGGTATTTTCAATTT
64 GAGGTATTTTCAATTT
1474859 ATGTTTCAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
86 37 0.25
87 11 0.07
88 33 0.22
89 69 0.46
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (87 bp):
CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTCAATTTCTGCTTTC
Found at i:1474895 original size:73 final size:74
Alignment explanation
Indices: 1474775--1474991 Score: 240
Period size: 73 Copynumber: 2.8 Consensus size: 74
1474765 CAATTTTTGT
* * * *
1474775 TTTTCAA-TTATGCTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCCCA
1 TTTTCAATTTATGC-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
1474839 TGCCGAGGTA
65 TGCCAAGGTA
1474849 TTTTCAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAT
1 TTTTCAATTTATGCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAT
*
1474913 GCTAAGGTA
66 GCCAAGGTA
** * * *
1474922 TTTTCAATTCCTATTTTTTAAAAAAAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCA
1 TTTTCAATT--TATGCTTT-----CAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1474987 GGTCA
58 GGTCA
1474992 ACTCATGTTG
Statistics
Matches: 123, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
73 63 0.51
74 7 0.06
75 8 0.07
76 3 0.02
81 5 0.04
82 37 0.30
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTATGCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAT
GCCAAGGTA
Found at i:1477216 original size:9 final size:9
Alignment explanation
Indices: 1477202--1477227 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1477192 GCTACAATTA
1477202 TTATTATTG
1 TTATTATTG
1477211 TTATTATTG
1 TTATTATTG
1477220 TTATTATT
1 TTATTATT
1477228 CTAACTCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
TTATTATTG
Found at i:1477821 original size:16 final size:16
Alignment explanation
Indices: 1477800--1477835 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1477790 GTCGCTATAC
1477800 TTTCAATTTGAAGAAT
1 TTTCAATTTGAAGAAT
1477816 TTTCAATTTGAAGAAT
1 TTTCAATTTGAAGAAT
1477832 TTTC
1 TTTC
1477836 GCTATGTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (16 bp):
TTTCAATTTGAAGAAT
Found at i:1478179 original size:32 final size:32
Alignment explanation
Indices: 1478143--1478206 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1478133 GTATTAGGTC
*
1478143 GGTTCAATATTGCATTTTAAATAATGGTGAAG
1 GGTTCAATATTCCATTTTAAATAATGGTGAAG
1478175 GGTTCAATATTCCATTTTAAATAATGGTGAAG
1 GGTTCAATATTCCATTTTAAATAATGGTGAAG
1478207 AAGGCTCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (32 bp):
GGTTCAATATTCCATTTTAAATAATGGTGAAG
Found at i:1479294 original size:82 final size:82
Alignment explanation
Indices: 1479157--1479324 Score: 336
Period size: 82 Copynumber: 2.0 Consensus size: 82
1479147 GGTACCTGGC
1479157 AGTGTAGATTTTAGAGTTCAAAGTATGAATGTAAACACAGGGCTTTCTTTAGCAGCAGACTTGAT
1 AGTGTAGATTTTAGAGTTCAAAGTATGAATGTAAACACAGGGCTTTCTTTAGCAGCAGACTTGAT
1479222 TGATGTTAATTCAAGAA
66 TGATGTTAATTCAAGAA
1479239 AGTGTAGATTTTAGAGTTCAAAGTATGAATGTAAACACAGGGCTTTCTTTAGCAGCAGACTTGAT
1 AGTGTAGATTTTAGAGTTCAAAGTATGAATGTAAACACAGGGCTTTCTTTAGCAGCAGACTTGAT
1479304 TGATGTTAATTCAAGAA
66 TGATGTTAATTCAAGAA
1479321 AGTG
1 AGTG
1479325 GAAAGTGGAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (82 bp):
AGTGTAGATTTTAGAGTTCAAAGTATGAATGTAAACACAGGGCTTTCTTTAGCAGCAGACTTGAT
TGATGTTAATTCAAGAA
Found at i:1484018 original size:11 final size:11
Alignment explanation
Indices: 1484002--1484030 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1483992 TTTGAAAACC
1484002 CTTAGCCTACT
1 CTTAGCCTACT
1484013 CTTAGCCTACT
1 CTTAGCCTACT
1484024 CTTAGCC
1 CTTAGCC
1484031 ATCTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.38, G:0.10, T:0.34
Consensus pattern (11 bp):
CTTAGCCTACT
Found at i:1486887 original size:23 final size:23
Alignment explanation
Indices: 1486861--1486908 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1486851 TATATCCATT
1486861 ATTAAATAAATTAAAAAT-ATTTA
1 ATTAAATAAA-TAAAAATCATTTA
**
1486884 ATTATTTAAATAAAAATCATTTA
1 ATTAAATAAATAAAAATCATTTA
1486907 AT
1 AT
1486909 AATTTAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTAAATAAATAAAAATCATTTA
Found at i:1486900 original size:22 final size:24
Alignment explanation
Indices: 1486867--1486915 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
1486857 CATTATTAAA
*
1486867 TAAATTAAAAAT-ATTTAATTATT
1 TAAATTAAAAATCATTTAATAATT
1486890 TAAA-TAAAAATCATTTAATAATT
1 TAAATTAAAAATCATTTAATAATT
1486913 TAA
1 TAA
1486916 TGACTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAATTAAAAATCATTTAATAATT
Found at i:1497908 original size:27 final size:27
Alignment explanation
Indices: 1497878--1497961 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
1497868 ATTGGTTCTT
1497878 TGAAACTGCACAAGTCCATCTATGACC
1 TGAAACTGCACAAGTCCATCTATGACC
* * * * *
1497905 TGAAACAAGCACCA--CAAGCT-TG-GC
1 TGAAAC-TGCACAAGTCCATCTATGACC
1497929 TGAAACTGCACAAGTCCATCTATGACC
1 TGAAACTGCACAAGTCCATCTATGACC
1497956 TGAAAC
1 TGAAAC
1497962 AAGCACCACA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 6 0.14
26 6 0.14
27 13 0.31
28 5 0.12
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (27 bp):
TGAAACTGCACAAGTCCATCTATGACC
Found at i:1497933 original size:51 final size:51
Alignment explanation
Indices: 1497878--1497981 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
1497868 ATTGGTTCTT
1497878 TGAAACTGCACAAGTCCATCTATGACCTGAAACAAGCACCACAAGCTTGGC
1 TGAAACTGCACAAGTCCATCTATGACCTGAAACAAGCACCACAAGCTTGGC
*
1497929 TGAAACTGCACAAGTCCATCTATGACCTGAAACAAGCACCACAGGCTTGGC
1 TGAAACTGCACAAGTCCATCTATGACCTGAAACAAGCACCACAAGCTTGGC
1497980 TG
1 TG
1497982 GAGCTAAGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (51 bp):
TGAAACTGCACAAGTCCATCTATGACCTGAAACAAGCACCACAAGCTTGGC
Found at i:1501629 original size:26 final size:26
Alignment explanation
Indices: 1501593--1501672 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
1501583 TCTACACAGT
*
1501593 TCACATATTGAGCTTGTATATCGAGC
1 TCACACATTGAGCTTGTATATCGAGC
1501619 TCACACATTGAGCTTGTATATCGAGC
1 TCACACATTGAGCTTGTATATCGAGC
* *
1501645 TCACACATTGAGCTTGTGTATCGGGC
1 TCACACATTGAGCTTGTATATCGAGC
1501671 TC
1 TC
1501673 GCATGATACT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (26 bp):
TCACACATTGAGCTTGTATATCGAGC
Found at i:1507774 original size:406 final size:401
Alignment explanation
Indices: 1507002--1507760 Score: 894
Period size: 405 Copynumber: 1.9 Consensus size: 401
1506992 AATTTCAATG
* * * ** *
1507002 TTTCCGATATGAGCAGGTTCGCGAGGGCTTAATTTAAGCGTTCTTGAATATGATCATATCAGTTT
1 TTTCCGATACGACCAGGTTCGCAAGGGCTTAATTTAAGCACTCGTGAATATGATCATATCAGTTT
* * * *
1507067 CATGCTTAGAAAACTAGAGGAATCATGACAAATTGTTGAGTGAACAGAGTTTGAACAAGCTAGGA
66 CATGCTTAGAAAACTAGAGGAATCATGAAAAATAGTTGAGTGAACAGAGTTTGAACAAGCAAGAA
* * * *
1507132 CTAGTGAACTGAGACTGATTTCCCATTTGGCCTTGTGTGGCCAATCTTTTGAAAATCATATAGAA
131 CTAATGAACCGAGACTGATATCCCATTTGGCCTTGTGTGACCAATCTTTTGAAAATCATATAGAA
* * *
1507197 TCATTGAATGAGGATCAATTTTGATGTTTCCTGTATGATCATATGCACGAGGGCTTAATTTAAGC
196 TCATTGAATGAGGATCAA-TTTGATGCTTCCTGTATGATCATATGCACGAAGGCTTAAATTAAGC
* *** * *
1507262 GATCTTGAATATGATCGTATCAGTTTCATGGTTACTAGAGAAATCATTATAATCAGTCGATTGAA
260 GATCATGAATATGATCGTATCA---T-ATGAACACTAGAGAAATCATTATAATCAGTCAACTGAA
** * *
1507327 TTTAGTTTGAATAAGCTAGAACTAGTGAACTGAGACTGATTTCCAATTCTACCTTGTGTCATGTG
321 TAGAGTTTGAACAACCTAGAACTAGTGAACTGAGACTGATTTCCAATTCTACCTTGTGTCATGTG
1507392 TGACCAGAGGATGAAT
386 TGACCAGAGGATGAAT
* * **
1507408 TTTCCGATACGACCATGTTTGCAAGGGCTTAA-TTAAGCACTCGTGAATATGATTGTATCAGTTT
1 TTTCCGATACGACCAGGTTCGCAAGGGCTTAATTTAAGCACTCGTGAATATGATCATATCAGTTT
* * * *
1507472 CATGCTTAGGAAACTAGAGGAATCCT-AAAAACTAGTTGATTGAATAGAGTTTGAACAAAGCAAG
66 CATGCTTAGAAAACTAGAGGAATCATGAAAAA-TAGTTGAGTGAACAGAGTTTGAAC-AAGCAAG
* ** *
1507536 AACTAATGACCCGAGACTGATATCTGATTCT-GCCTTGTGTGACCAATCTTTTGAAAA-CTGTAT
129 AACTAATGAACCGAGACTGATATCCCATT-TGGCCTTGTGTGACCAATCTTTTGAAAATC-ATAT
* * *
1507599 AGAATCATTGAATGAGGAT-GA-TTGATGCTT-CTGATATGATCATGTTCTCACGAAGGCTTAAA
192 AGAATCATTGAATGAGGATCAATTTGATGCTTCCTG-TATGATCAT-AT-GCACGAAGGCTTAAA
* * *
1507661 TTAAGCGCTCATGAATATGATCGTAT-A-A-GAACACTAGAGGAATCATTGACT-ATTAGT-AAC
254 TTAAGCGATCATGAATATGATCGTATCATATGAACACTAGAGAAATCATT-A-TAATCAGTCAAC
1507721 TGAATAGAGTTTGAACAACCTAGAACTAGTGGAACTGAGA
317 TGAATAGAGTTTGAACAACCTAGAACTAGT-GAACTGAGA
1507761 GCAATTTCTG
Statistics
Matches: 298, Mismatches: 45, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
398 42 0.14
399 16 0.05
400 1 0.00
402 3 0.01
403 17 0.06
404 6 0.02
405 110 0.37
406 102 0.34
407 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (401 bp):
TTTCCGATACGACCAGGTTCGCAAGGGCTTAATTTAAGCACTCGTGAATATGATCATATCAGTTT
CATGCTTAGAAAACTAGAGGAATCATGAAAAATAGTTGAGTGAACAGAGTTTGAACAAGCAAGAA
CTAATGAACCGAGACTGATATCCCATTTGGCCTTGTGTGACCAATCTTTTGAAAATCATATAGAA
TCATTGAATGAGGATCAATTTGATGCTTCCTGTATGATCATATGCACGAAGGCTTAAATTAAGCG
ATCATGAATATGATCGTATCATATGAACACTAGAGAAATCATTATAATCAGTCAACTGAATAGAG
TTTGAACAACCTAGAACTAGTGAACTGAGACTGATTTCCAATTCTACCTTGTGTCATGTGTGACC
AGAGGATGAAT
Found at i:1512858 original size:10 final size:11
Alignment explanation
Indices: 1512833--1512864 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1512823 TTCATTTTGT
1512833 TTTTTAATTTC
1 TTTTTAATTTC
1512844 TTTTTAATTTC
1 TTTTTAATTTC
*
1512855 TTTTTTATTT
1 TTTTTAATTT
1512865 TTGTTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTAATTTC
Found at i:1514004 original size:3 final size:3
Alignment explanation
Indices: 1513996--1514023 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1513986 TCGATTTTAC
1513996 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1514024 TAGTCCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1521962 original size:29 final size:29
Alignment explanation
Indices: 1521920--1521975 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1521910 TTTTAAAATT
1521920 TAAAAAGTAAAAAGACTAAATTCCTAAAAA
1 TAAAAAGTAAAAAGACTAAATT-CTAAAAA
*
1521950 TAAAAA-TATAAAGACTAAATTCTAAA
1 TAAAAAGTAAAAAGACTAAATTCTAAA
1521976 TTTGTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.62, C:0.09, G:0.05, T:0.23
Consensus pattern (29 bp):
TAAAAAGTAAAAAGACTAAATTCTAAAAA
Found at i:1523956 original size:31 final size:32
Alignment explanation
Indices: 1523897--1523957 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
1523887 AATAATAAAT
**
1523897 AATATGATATACGAAAATAATACTATATATAA
1 AATATGATATACGAAAATAATAAAATATATAA
1523929 AATATG-TATAC-AAGAATAATAAAATATAT
1 AATATGATATACGAA-AATAATAAAATATAT
1523958 GTACTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 18 0.69
32 6 0.23
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (32 bp):
AATATGATATACGAAAATAATAAAATATATAA
Found at i:1524009 original size:20 final size:20
Alignment explanation
Indices: 1523943--1524009 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
1523933 TGTATACAAG
* *
1523943 AATAATAAAATATATGTACT
1 AATAATAAAATAAATGTAAT
* * *
1523963 AATATTAAAATAAATATAGT
1 AATAATAAAATAAATGTAAT
**
1523983 AGGAATAAAATAAATGTAAT
1 AATAATAAAATAAATGTAAT
1524003 AATAATA
1 AATAATA
1524010 TATACACAAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (20 bp):
AATAATAAAATAAATGTAAT
Found at i:1524080 original size:28 final size:27
Alignment explanation
Indices: 1524044--1524183 Score: 104
Period size: 28 Copynumber: 5.4 Consensus size: 27
1524034 ATACATATAC
*
1524044 ATATACATATAATAGTATTTAAGAATAT
1 ATATACATATAATAGTATATAA-AATAT
**
1524072 ATATACATA-AGAT-G-ATATGGAA-AT
1 ATATACATATA-ATAGTATATAAAATAT
* *
1524096 ATGTACATAGAATAGTATATAAAA-AT
1 ATATACATATAATAGTATATAAAATAT
1524122 ATA-AC-TAATAATA-T-TA-AAAATAT
1 ATATACAT-ATAATAGTATATAAAATAT
*
1524145 ATATACATAATATATA-TATATAACATAT
1 ATATACAT-ATA-ATAGTATATAAAATAT
1524173 ATATACATATA
1 ATATACATATA
1524184 CATTAGCAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
22 4 0.04
23 7 0.08
24 16 0.17
25 16 0.17
26 17 0.18
27 7 0.08
28 25 0.27
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (27 bp):
ATATACATATAATAGTATATAAAATAT
Found at i:1524156 original size:13 final size:13
Alignment explanation
Indices: 1524140--1524181 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
1524130 TAATATTAAA
1524140 AATATATATACAT
1 AATATATATACAT
*
1524153 AATATATATATAT
1 AATATATATACAT
1524166 AACATATATATACAT
1 -A-ATATATATACAT
1524181 A
1 A
1524182 TACATTAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 2 0.08
15 11 0.44
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATATACAT
Found at i:1524161 original size:15 final size:15
Alignment explanation
Indices: 1524141--1524186 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
1524131 AATATTAAAA
1524141 ATATATATACAT-A-
1 ATATATATACATAAC
*
1524154 ATATATATATATAAC
1 ATATATATACATAAC
1524169 ATATATATACATATAC
1 ATATATATACATA-AC
1524185 AT
1 AT
1524187 TAGCAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 12 0.43
16 4 0.14
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATATATACATAAC
Found at i:1524163 original size:17 final size:16
Alignment explanation
Indices: 1524141--1524186 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
1524131 AATATTAAAA
1524141 ATATATATACATAATAT
1 ATATATATACAT-ATAT
1524158 ATATATATAACATATAT
1 ATATATAT-ACATATAT
*
1524175 ATACATATACAT
1 ATATATATACAT
1524187 TAGCAATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATATACATATAT
Found at i:1524324 original size:17 final size:19
Alignment explanation
Indices: 1524280--1524325 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
1524270 GAAATCCTTA
1524280 ATATATAATATTTGAAATAT
1 ATATATAATA-TTGAAATAT
**
1524300 ATGCATAATA-T-AAATAT
1 ATATATAATATTGAAATAT
1524317 ATATATAAT
1 ATATATAAT
1524326 GTAGTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 13 0.59
18 1 0.05
20 8 0.36
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
ATATATAATATTGAAATAT
Found at i:1524479 original size:35 final size:36
Alignment explanation
Indices: 1524400--1524500 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 36
1524390 AATGCTCCAC
1524400 AAATATATAT-ATACTAAAAATATACATAATAGTAT
1 AAATATATATAATACTAAAAATATACATAATAGTAT
* * * * *
1524435 ATA-AGATATAATATTTAAAGTATACATAAT-GTAT
1 AAATATATATAATACTAAAAATATACATAATAGTAT
*
1524469 AAATATATAT-ATAC-ATAATATAATACATAATA
1 AAATATATATAATACTA-AAAAT-ATACATAATA
1524501 TAGACACATT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
34 17 0.34
35 33 0.66
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (36 bp):
AAATATATATAATACTAAAAATATACATAATAGTAT
Found at i:1524494 original size:12 final size:12
Alignment explanation
Indices: 1524456--1524502 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
1524446 TATTTAAAGT
*
1524456 ATACATAATGT-
1 ATACATAATATA
*
1524467 ATAAAT-ATATA
1 ATACATAATATA
1524478 TATACATAATATA
1 -ATACATAATATA
1524491 ATACATAATATA
1 ATACATAATATA
1524503 GACACATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 17 0.57
13 5 0.17
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (12 bp):
ATACATAATATA
Found at i:1526382 original size:88 final size:88
Alignment explanation
Indices: 1526229--1526923 Score: 668
Period size: 88 Copynumber: 7.6 Consensus size: 88
1526219 GTGATCCTAA
** * * * ** *
1526229 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAGACGTT-AAAAACAAAAACTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC-AGAAATTGAAAAACAAAAATTG
* * *
1526292 AAAATAGCTCAGCACGTGAGCCAAG
65 AAAATACCTCAGCATGTG-GCCGAG
* * * * **
1526317 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAATTTGCAAAACAGATGTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAACAAAAATTGA
** *
1526381 AAATACCTTGGCATGTGACCCGAG
66 AAATACCTCAGCATGTG-GCCGAG
* *
1526405 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAAAAACATAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTG---AAAAACAAAAA
*
1526469 TTGAAAATACCTCAGCATGCGAGCCGAG
62 TTGAAAATACCTCAGCATGTG-GCCGAG
* *
1526497 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAATAATTAGAAATTGAAAAACGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GAA-AA-CAGAAATTGAAAAAC-AAAA
* *
1526562 TTTGAAAATACCTCGGCATGTGGCTCGAG
61 ATTGAAAATACCTCAGCATGTGGC-CGAG
* * *
1526591 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAAACATAAATTGAAAAAACAGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG-AAAACAGAAATTG-AAAAACAAAAA
*
1526656 TTGAAAATACCTCAGC--GTGTCCTGAG
62 TTGAAAATACCTCAGCATGTGGCC-GAG
* * * *
1526682 GCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAGAAATAGAAATTGAAAAACAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--A-AAACAGAAATTGAAAAACAAAA-A
* *
1526747 TTGAAAATACATCGGCATGTGGCCCGAG
62 TTGAAAATACCTCAGCATGTGG-CCGAG
* * *
1526775 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CAGAAATTG-AAAAACAAAAAT
*
1526840 TGAAAATACCTCAGC--GTGTCCTGAG
63 TGAAAATACCTCAGCATGTGGCC-GAG
1526865 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAGCAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAA-CAGAAATTGAAAA
1526924 TACCTTAACG
Statistics
Matches: 513, Mismatches: 65, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
87 9 0.02
88 100 0.19
89 15 0.03
90 47 0.09
91 62 0.12
92 87 0.17
93 96 0.19
94 76 0.15
95 12 0.02
96 9 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAACAAAAATTGA
AAATACCTCAGCATGTGGCCGAG
Found at i:1526475 original size:16 final size:17
Alignment explanation
Indices: 1526441--1526475 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1526431 TTGATTTTTG
*
1526441 AAAAGCATAAATTGAAA
1 AAAAACATAAATTGAAA
1526458 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
1526475 A
1 A
1526476 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:1526650 original size:15 final size:15
Alignment explanation
Indices: 1526630--1526662 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1526620 ATTTTTTTTG
*
1526630 AAAAACATAAATTGA
1 AAAAACAGAAATTGA
1526645 AAAAACAGAAATTGA
1 AAAAACAGAAATTGA
1526660 AAA
1 AAA
1526663 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (15 bp):
AAAAACAGAAATTGA
Found at i:1526847 original size:183 final size:180
Alignment explanation
Indices: 1526315--1526899 Score: 865
Period size: 183 Copynumber: 3.2 Consensus size: 180
1526305 ACGTGAGCCA
* * * * * *
1526315 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-G-AAAACAGAATTTGCAAAACAGATGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTGAAAAACAAATTT
* * *
1526378 TGAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
66 TGAAAATACCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTG
* * *
1526441 AAAAGCATAAATTGAAAAAAAACATAAATTGAAAATACCTCAGCATG-CGAGCCG
131 AAAAGCATAAATTG--AAAAAACAGAAATTGAAAATACCTCAGCGTGTC---CTG
*
1526495 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAATAATTAGAAATTGAAAAACGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGGAA-AAATAGAAATTGAAAAAC-AA
*
1526560 ATTTTGAAAATACCTCGGCATGTGGCTCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
62 ATTTTGAAAATACCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTT
*
1526625 TTTTGAAAAACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
126 TTTTGAAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
*
1526680 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAGAAATAGAAATTGAAAAACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGG-AA-AAATAGAAATTGAAAAAC-AAA
*
1526745 TTTTGAAAATACATCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
63 TTTTGAAAATACCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1526810 TTGAAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
128 TTGAAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
1526863 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1526900 TTTTTGAAAA
Statistics
Matches: 371, Mismatches: 23, Indels: 19
0.90 0.06 0.05
Matches are distributed among these distances:
180 31 0.08
182 5 0.01
183 101 0.27
184 81 0.22
185 47 0.13
186 57 0.15
187 29 0.08
188 1 0.00
189 19 0.05
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (180 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTGAAAAACAAATTT
TGAAAATACCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTG
AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:1526962 original size:78 final size:78
Alignment explanation
Indices: 1526828--1526977 Score: 237
Period size: 78 Copynumber: 1.9 Consensus size: 78
1526818 CATAAATTGA
*
1526828 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1526893 GATTTTTTTTTTG
66 GAATTTTTTTTTG
* * * **
1526906 AAAAGCAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1526971 GAATTTT
66 GAATTTT
1526978 GAAAACAGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (78 bp):
AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTTTTTG
Found at i:1527864 original size:40 final size:43
Alignment explanation
Indices: 1527764--1527868 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 43
1527754 CTTCATTAGA
1527764 ACGCCC-TTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTT-ATCAAG
1527807 ACGCCCTTTTCGGGTTTTCA-CCTTAATCATTTT-T-TT-T-AAG
1 ACGCCCTTTTCGGGTTTTCATCC-TAATC-TTTTGTGTTATCAAG
*
1527847 ATGCCCTTTTCGGGTTTTCATC
1 ACGCCCTTTTCGGGTTTTCATC
1527869 TTGATTTGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
40 22 0.39
41 2 0.04
43 10 0.18
44 19 0.33
45 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (43 bp):
ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTATCAAG
Found at i:1529959 original size:32 final size:32
Alignment explanation
Indices: 1529923--1529987 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1529913 TGTATGCATT
1529923 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1529955 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1529987 T
1 T
1529988 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:1542508 original size:15 final size:14
Alignment explanation
Indices: 1542462--1542509 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
1542452 AATATTGAAA
*
1542462 ATATATATACATA-
1 ATATATATATATAC
*
1542475 ATATATATATAAAAC
1 ATATATATAT-ATAC
1542490 ATATATGATATATAC
1 ATATAT-ATATATAC
1542505 ATATA
1 ATATA
1542510 CATTAGCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 14 0.48
16 4 0.14
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:1542794 original size:23 final size:21
Alignment explanation
Indices: 1542753--1542819 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 21
1542743 AAAAATATAC
1542753 ATAATAGTATATA-AGATATAAT
1 ATAA-AGTATATATA-ATATAAT
1542775 ATTTAAAGTATATATAATAT-AT
1 A--TAAAGTATATATAATATAAT
*
1542797 A-AAAATATATATAA-ATAAT
1 ATAAAGTATATATAATATAAT
1542816 ATAA
1 ATAA
1542820 TACATAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 2 0.05
19 15 0.38
20 2 0.05
22 4 0.10
23 12 0.31
24 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAAAGTATATATAATATAAT
Found at i:1542808 original size:12 final size:12
Alignment explanation
Indices: 1542791--1542832 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1542781 AGTATATATA
1542791 ATATATAAAAAT
1 ATATATAAAAAT
1542803 ATATATAAATAAT
1 ATATATAAA-AAT
*
1542816 ATA-ATACATAAT
1 ATATATA-AAAAT
1542828 ATATA
1 ATATA
1542833 CACATTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATATAAAAAT
Found at i:1542829 original size:23 final size:21
Alignment explanation
Indices: 1542783--1542832 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1542773 ATATTTAAAG
1542783 TATATATAATATATAAAAATA
1 TATATATAATATATAAAAATA
*
1542804 TATATA-AATAATATAATACATA
1 TATATATAAT-ATATAA-AAATA
1542826 -ATATATA
1 TATATATA
1542833 CACATTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 17 0.68
22 5 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TATATATAATATATAAAAATA
Found at i:1542922 original size:3 final size:3
Alignment explanation
Indices: 1542916--1542944 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1542906 AACAACACAC
1542916 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1542945 AATTAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1544759 original size:19 final size:19
Alignment explanation
Indices: 1544723--1544762 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1544713 CAGTAACAAT
* **
1544723 AAAATAATGAAATGACAGC
1 AAAATAATAAAAAAACAGC
1544742 AAAATAATAAAAAAACAGC
1 AAAATAATAAAAAAACAGC
1544761 AA
1 AA
1544763 TATTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAATAATAAAAAAACAGC
Found at i:1548981 original size:28 final size:28
Alignment explanation
Indices: 1548950--1549004 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1548940 CTATCAATTC
*
1548950 AATAATAATTAAAT-AAATAATTATAAAA
1 AATAATAA-AAAATAAAATAATTATAAAA
*
1548978 AATAATAAAAAATAAAATATTTATAAA
1 AATAATAAAAAATAAAATAATTATAAA
1549005 TTTATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AATAATAAAAAATAAAATAATTATAAAA
Found at i:1549009 original size:8 final size:8
Alignment explanation
Indices: 1548996--1549022 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1548986 AAAATAAAAT
1548996 ATTTATAA
1 ATTTATAA
1549004 ATTTATAA
1 ATTTATAA
1549012 ATTTATAA
1 ATTTATAA
1549020 ATT
1 ATT
1549023 GGTTTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTTATAA
Found at i:1552483 original size:2 final size:2
Alignment explanation
Indices: 1552478--1552502 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1552468 TTGTTAGAAT
1552478 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1552503 GAATTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1554461 original size:16 final size:16
Alignment explanation
Indices: 1554440--1554474 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1554430 TATATGCGGA
1554440 AAATAATAAAATAAAT
1 AAATAATAAAATAAAT
* *
1554456 AAATAATATATTAAAT
1 AAATAATAAAATAAAT
1554472 AAA
1 AAA
1554475 AAAACTCTTA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAAAATAAAT
Found at i:1554645 original size:31 final size:31
Alignment explanation
Indices: 1554593--1554655 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1554583 CCTTAAATTT
* * *
1554593 ATTCATTGCATCTGTTAGAAAAATCAGATTG
1 ATTCATTACATCCGTTAGAAAAAGCAGATTG
*
1554624 ATTCATTACATCCGTTGGAAAAAGCAGATTG
1 ATTCATTACATCCGTTAGAAAAAGCAGATTG
1554655 A
1 A
1554656 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (31 bp):
ATTCATTACATCCGTTAGAAAAAGCAGATTG
Found at i:1558161 original size:21 final size:20
Alignment explanation
Indices: 1558137--1558175 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1558127 TATTGAAACT
*
1558137 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
1558158 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
1558176 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:1558246 original size:24 final size:26
Alignment explanation
Indices: 1558219--1558266 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
1558209 TATGAATACG
1558219 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
1558243 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
1558267 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Found at i:1558712 original size:3 final size:3
Alignment explanation
Indices: 1558704--1558733 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1558694 ACATTAGAAG
1558704 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1558734 ATTAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1559192 original size:21 final size:21
Alignment explanation
Indices: 1559168--1559213 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1559158 AATTTGATGA
1559168 AGAGAAAAGAAAAAAGAA-GGG
1 AGAG-AAAGAAAAAAGAATGGG
* *
1559189 AGAGAAAGAAGAGAGAATGGG
1 AGAGAAAGAAAAAAGAATGGG
1559210 AGAG
1 AGAG
1559214 GGAGAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (21 bp):
AGAGAAAGAAAAAAGAATGGG
Found at i:1559343 original size:12 final size:12
Alignment explanation
Indices: 1559307--1559345 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1559297 AAAAGGTAAT
*
1559307 TTTTTTTAAATA
1 TTTTTTTATATA
*
1559319 TTTGTTT-TATA
1 TTTTTTTATATA
1559330 TTTTTTTATATA
1 TTTTTTTATATA
1559342 TTTT
1 TTTT
1559346 AGTTGTGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTTTATATA
Found at i:1560768 original size:54 final size:54
Alignment explanation
Indices: 1560686--1561208 Score: 895
Period size: 54 Copynumber: 9.7 Consensus size: 54
1560676 ATGTGACCTG
** * *
1560686 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
1560740 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
*
1560794 AGGCTCAACTCACCTCTCACAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
* * * * *
1560848 AAGCTCAACTCACCTCTTGCAATATTAGTTGATTTTTGAAAAACAGAAATCAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
*
1560902 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
*
1560956 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATCAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
*
1561010 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
* *
1561064 AGGCTCAACTCACCTCTCGCAATATGAGGTGATCTTTGAAAAACAGAAATCAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
*
1561118 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
1561172 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTG
1561209 GAAACATGAA
Statistics
Matches: 444, Mismatches: 25, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
53 4 0.01
54 440 0.99
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAACAGAAATTAAA
Found at i:1561349 original size:87 final size:86
Alignment explanation
Indices: 1561172--1561388 Score: 330
Period size: 87 Copynumber: 2.5 Consensus size: 86
1561162 AGAAATTAAA
* * *
1561172 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGGAAACATGAATTGAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTGAAACATAAATTGAAAAACAGAAATTG
1561236 AAAATACCTCAGCATGTGAGCCG
66 AAAATACCTCAGCATGT--GCCG
*
1561259 AGGCTCAACTCACCTCTCGCAATATGAGTTGCTTTTTTTGAAACATAAATTGAAAAACGGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTGAAACATAAATTGAAAAACAGAAATT
1561324 GAAAATACCTCAGCATGT-CCTG
65 GAAAATACCTCAGCATGTGCC-G
*
1561346 AGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTGAAA
1561389 AGCAGAATTT
Statistics
Matches: 121, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
86 2 0.02
87 73 0.60
89 46 0.38
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTGAAACATAAATTGAAAAACAGAAATTG
AAAATACCTCAGCATGTGCCG
Found at i:1561431 original size:75 final size:75
Alignment explanation
Indices: 1561308--1561627 Score: 277
Period size: 75 Copynumber: 4.1 Consensus size: 75
1561298 GAAACATAAA
* *
1561308 TTGAAAAACGGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCGATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1561373 GTTGATTTTT
66 GTTGATTTTT
* * ** *
1561383 TTGAAAAGCAGAATTTGAAAATACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1561448 GTTGATTTTT
66 GTTGATTTTT
* * * * ** * * * * *
1561458 TTG-AAAA-ATAAATT-AAAAAACGAAAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATAC-----CTCAGCAT-GTCCTGAG-G-CTC-A-ACT-----CA
*
1561520 CCTCTTGCAATATGAGTTGATTTTT
51 CCTCTCGCAATATGAGTTGATTTTT
* * *
1561545 TTGAAAAACAAAAATTGAAAATACCCCTGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1561610 GTTGATTTTT
66 GTTGATTTTT
*
1561620 TTTAAAAA
1 TTGAAAAA
1561628 AATATAAATT
Statistics
Matches: 189, Mismatches: 38, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
72 6 0.03
73 5 0.03
74 3 0.02
75 104 0.55
77 3 0.02
78 3 0.02
79 1 0.01
80 5 0.03
81 2 0.01
82 5 0.03
83 1 0.01
84 4 0.02
85 2 0.01
87 29 0.15
88 4 0.02
89 6 0.03
90 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:1561441 original size:162 final size:160
Alignment explanation
Indices: 1561219--1561729 Score: 684
Period size: 162 Copynumber: 3.1 Consensus size: 160
1561209 GAAACATGAA
* *
1561219 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG--TGTG-TCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
1561284 GAGTTGCTTTTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCATGTCCTGAGG
63 GAGTTGATTTTTTTGAAAAATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTG-CCTGAGG
* *
1561349 CTCAACTCACCTCTCGCGATATGAGTTGATTTTT
127 CTCAACTCACCTCTTGCAATATGAGTTGATTTTT
* *
1561383 TTGAAAAGCAGAATTTGAAAATACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA
* * *
1561448 GTTGATTTTTTTGAAAAATAAATTAAAAAACGAAAATTGAAAATACTTCAGCGTGCCTCGAGGCT
65 GTTGATTTTTTTGAAAAATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCT-GAGGCT
1561513 CAACTCACCTCTTGCAATATGAGTTGATTTTT
129 CAACTCACCTCTTGCAATATGAGTTGATTTTT
* * * **
1561545 TTGAAAAACAAAAATTGAAAATACCCCTGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
1561610 GTTGATTTTTTTTAAAAAAATATAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGA
65 GTTGA-TTTTTTT--GAAAA-ATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTG-CCTGA
*
1561675 GGTTCAACTCACCTCTTGCAATATGAGTTGA-TTTT
125 GGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
* *
1561710 TT-AAAAGCATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
1561730 AACATAAATT
Statistics
Matches: 310, Mismatches: 29, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
161 4 0.01
162 178 0.57
163 8 0.03
164 43 0.14
165 10 0.03
166 65 0.21
167 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (160 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAAATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCA
ACTCACCTCTTGCAATATGAGTTGATTTTT
Found at i:1561543 original size:87 final size:88
Alignment explanation
Indices: 1561386--1561814 Score: 299
Period size: 87 Copynumber: 5.0 Consensus size: 88
1561376 GATTTTTTTG
* * * * * * *
1561386 AAAAGCAGAATTTGAAAATACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGTT
1561451 GATTTTTTTGAAAA-ATAAATTA
66 GATTTTTTTGAAAACATAAATTA
1561473 AAAAAC-GAAAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGT
*
1561537 TGATTTTTTTGAAAAACAAAAATTGA
65 TGATTTTTTTG-AAAACATAAATT-A
* *** * * * * * * * * ** *
1561563 AAATAC---CCCTG--CAT-GTCCTGAG-G-CTC-A-ACTCACCTCTCGCAATATG-AGT-TGA-
1 AAAAACAGAAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCAC-CTCT-TGCAATATGAG
* *** * *
1561615 TT-TTTTTTAAAAAAATATAAATTG
64 TTGATTTTTTTGAAAACATAAATTA
* * *
1561639 AAAAGCAGAAATTGAAAATACCTCAGCGTGACC-CGAGGTTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAGAAATTGAAAATACTTCAGCGTG-CCTCGAGGCTCAACTCACCTCTTGCAATATGAGT
1561703 TGA-TTTTTT-AAAAGCATAAATTGA
65 TGATTTTTTTGAAAA-CATAAATT-A
* * *
1561727 AAAAACATAAATTGAAAATACCTT-AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATA-CTTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGT
*
1561791 TGA--TTTTTGAAAACATGAATTA
65 TGATTTTTTTGAAAACATAAATTA
1561813 AA
1 AA
1561815 GATACCTCAG
Statistics
Matches: 257, Mismatches: 59, Indels: 53
0.70 0.16 0.14
Matches are distributed among these distances:
76 4 0.02
77 10 0.04
78 5 0.02
79 4 0.02
80 11 0.04
81 7 0.03
82 8 0.03
83 2 0.01
84 7 0.03
85 8 0.03
86 18 0.07
87 95 0.37
88 64 0.25
89 8 0.03
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACTTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTTTGAAAACATAAATTA
Found at i:1561700 original size:91 final size:89
Alignment explanation
Indices: 1561545--1561798 Score: 341
Period size: 88 Copynumber: 2.8 Consensus size: 89
1561535 GTTGATTTTT
* * * * *
1561545 TTGAAAAACAAAAATTGAAAATACCCCTGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
1561610 GTTGATTTTTTTTAAAAAAATATAAA
66 GTTGATTTTTTTT--AAAAACATAAA
* * * *
1561636 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
1561701 GTTGA--TTTTTTAAAAGCATAAA
66 GTTGATTTTTTTTAAAAACATAAA
* * *
1561723 TTGAAAAAACATAAATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1561788 AGTTGATTTTT
65 AGTTGATTTTT
1561799 GAAAACATGA
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
87 12 0.08
88 61 0.43
89 6 0.04
90 3 0.02
91 61 0.43
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (89 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTAAAAACATAAA
Found at i:1561744 original size:14 final size:15
Alignment explanation
Indices: 1561712--1561744 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1561702 TTGATTTTTT
*
1561712 AAAAGCATAAATTGA
1 AAAAACATAAATTGA
1561727 AAAAACATAAATTGA
1 AAAAACATAAATTGA
1561742 AAA
1 AAA
1561745 TACCTTAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:1578457 original size:31 final size:32
Alignment explanation
Indices: 1578398--1578459 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
1578388 AATAGCCTAA
*
1578398 TGACTTAAATAAAAATATTTTAAATAGTTCAG
1 TGACTTAAATAAAAATATTTCAAATAGTTCAG
* *
1578430 TGACTTAAATGAAAA-CTTTCAAATAGTTCA
1 TGACTTAAATAAAAATATTTCAAATAGTTCA
1578460 ATAATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (32 bp):
TGACTTAAATAAAAATATTTCAAATAGTTCAG
Found at i:1582945 original size:30 final size:29
Alignment explanation
Indices: 1582911--1582970 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
1582901 TGACCTACTA
1582911 ATCAACTTGTAACTTTTAAAAAATTCAATG
1 ATCAACTTGTAACTTTT-AAAAATTCAATG
* * *
1582941 ATCAATTTGTAACTTTTTAAAATTGAATG
1 ATCAACTTGTAACTTTTAAAAATTCAATG
1582970 A
1 A
1582971 CAAAATTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (29 bp):
ATCAACTTGTAACTTTTAAAAATTCAATG
Found at i:1582979 original size:29 final size:29
Alignment explanation
Indices: 1582911--1582990 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
1582901 TGACCTACTA
* *
1582911 ATCAACTTGTAACTTTTAAAAAATTCAATG
1 ATCAAATTGTAACTTTT-TAAAATTCAATG
* *
1582941 ATCAATTTGTAACTTTTTAAAATTGAATG
1 ATCAAATTGTAACTTTTTAAAATTCAATG
*
1582970 A-CAAAATTGTAAATTTATTAA
1 ATC-AAATTGTAACTTT-TTAA
1582991 TACTTGAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 1 0.02
29 22 0.51
30 20 0.47
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (29 bp):
ATCAAATTGTAACTTTTTAAAATTCAATG
Found at i:1585856 original size:3 final size:3
Alignment explanation
Indices: 1585848--1585872 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1585838 GAATTAATGT
1585848 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
1585873 AATGATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:1586201 original size:13 final size:14
Alignment explanation
Indices: 1586183--1586211 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1586173 AAGAATTGTT
1586183 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
1586196 TTTTTATTTATTTA
1 TTTTTATTTATTTA
1586210 TT
1 TT
1586212 AAAACTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:1605001 original size:46 final size:46
Alignment explanation
Indices: 1604934--1605023 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
1604924 ACTGTTGTAC
*
1604934 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
1604980 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
1605024 TAACCCCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.40, G:0.11, T:0.06
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:1606193 original size:26 final size:23
Alignment explanation
Indices: 1606129--1606193 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
1606119 ATATTTCTTT
*
1606129 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
1606151 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
1606179 TATATATACATATAC
1 TATATATACATATAC
1606194 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:1606617 original size:5 final size:5
Alignment explanation
Indices: 1606603--1606631 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1606593 ACATAAGTGC
1606603 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1606632 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:1619109 original size:26 final size:23
Alignment explanation
Indices: 1619045--1619109 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
1619035 ATATTTCTTT
*
1619045 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
1619067 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
1619095 TATATATACATATAC
1 TATATATACATATAC
1619110 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:1622435 original size:43 final size:42
Alignment explanation
Indices: 1622375--1622457 Score: 148
Period size: 43 Copynumber: 2.0 Consensus size: 42
1622365 TCCTAATTCA
1622375 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGG
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGG
*
1622417 GAAAATAGTTTCCCTTATTTTAATAAACTACTAAAACATAA
1 GAAAATAG-TTCCCTTATTCTAATAAACTACTAAAACATAA
1622458 ATAAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 8 0.21
43 31 0.79
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGG
Found at i:1626044 original size:18 final size:18
Alignment explanation
Indices: 1626021--1626063 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1626011 AATATGAATA
1626021 AAATTTATC-ACCTAAAT
1 AAATTTATCTACCTAAAT
1626038 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
1626057 AAATTTA
1 AAATTTA
1626064 AAATATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.08
18 12 0.50
19 10 0.42
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:1629044 original size:11 final size:11
Alignment explanation
Indices: 1629028--1629058 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1629018 ATACCCATAC
1629028 CCCATACCTTG
1 CCCATACCTTG
*
1629039 CCCATACCTTT
1 CCCATACCTTG
1629050 CCCATACCT
1 CCCATACCT
1629059 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:1629631 original size:18 final size:18
Alignment explanation
Indices: 1629604--1629696 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
1629594 TACGACCGTT
1629604 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1629622 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
1629640 TACAGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
1629658 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1629676 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
1629694 TAC
1 TAC
1629697 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:1633765 original size:11 final size:11
Alignment explanation
Indices: 1633749--1633779 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1633739 ATACCCATAC
1633749 CCCATACCTTG
1 CCCATACCTTG
*
1633760 CCCATACCTTT
1 CCCATACCTTG
1633771 CCCATACCT
1 CCCATACCT
1633780 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:1637139 original size:26 final size:26
Alignment explanation
Indices: 1637109--1637192 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 26
1637099 AACCTTCTGT
1637109 AGCCAAATAAGCTCACAAACACCTTG
1 AGCCAAATAAGCTCACAAACACCTTG
* *** *
1637135 AGCC--ATAACCTTGTATACACCTTCTG
1 AGCCAAATAAGCTCACAAACACC-T-TG
1637161 TAGCCAAATAAGCTCACAAACACCTTG
1 -AGCCAAATAAGCTCACAAACACCTTG
1637188 AGCCA
1 AGCCA
1637193 TAACCTTGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 12 0.28
25 1 0.02
26 11 0.26
27 6 0.14
28 1 0.02
29 12 0.28
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.20
Consensus pattern (26 bp):
AGCCAAATAAGCTCACAAACACCTTG
Found at i:1637163 original size:53 final size:53
Alignment explanation
Indices: 1637100--1637203 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
1637090 AACTCCTCCA
1637100 ACCTTCTGTAGCCAAATAAGCTCACAAACACCTTGAGCCATAACCTTGTATAC
1 ACCTTCTGTAGCCAAATAAGCTCACAAACACCTTGAGCCATAACCTTGTATAC
1637153 ACCTTCTGTAGCCAAATAAGCTCACAAACACCTTGAGCCATAACCTTGTAT
1 ACCTTCTGTAGCCAAATAAGCTCACAAACACCTTGAGCCATAACCTTGTAT
1637204 TTTGCCTCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.25
Consensus pattern (53 bp):
ACCTTCTGTAGCCAAATAAGCTCACAAACACCTTGAGCCATAACCTTGTATAC
Found at i:1637183 original size:29 final size:29
Alignment explanation
Indices: 1637100--1637186 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 29
1637090 AACTCCTCCA
1637100 ACCTTCTGTAGCCAAATAAGCTCACAAAC
1 ACCTTCTGTAGCCAAATAAGCTCACAAAC
* *** *
1637129 ACC-T-TG-AGCC--ATAACCTTGTATAC
1 ACCTTCTGTAGCCAAATAAGCTCACAAAC
1637153 ACCTTCTGTAGCCAAATAAGCTCACAAAC
1 ACCTTCTGTAGCCAAATAAGCTCACAAAC
1637182 ACCTT
1 ACCTT
1637187 GAGCCATAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 12 0.28
25 1 0.02
26 6 0.14
27 6 0.14
28 1 0.02
29 17 0.40
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (29 bp):
ACCTTCTGTAGCCAAATAAGCTCACAAAC
Found at i:1637701 original size:19 final size:18
Alignment explanation
Indices: 1637679--1637718 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1637669 TGAATAAAAC
1637679 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
1637698 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
1637716 TTA
1 TTA
1637719 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:1641404 original size:43 final size:44
Alignment explanation
Indices: 1641343--1641435 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 44
1641333 TCCTAATTAG
*
1641343 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1641386 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1641430 -AAAATA
1 GAAAATA
1641436 TTTCTAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
Found at i:1641479 original size:19 final size:18
Alignment explanation
Indices: 1641457--1641496 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1641447 TGAATAAAAC
1641457 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
* *
1641476 TTATTTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
1641494 TTA
1 TTA
1641497 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:1647703 original size:96 final size:95
Alignment explanation
Indices: 1647534--1647897 Score: 345
Period size: 96 Copynumber: 3.8 Consensus size: 95
1647524 GCTGCAGTAC
* * ** * * ** * *
1647534 CAGGCACTCCAATAGGAGCACCAACTCCAAGTGCACCAGCTGCAACACAAGGCACACCAGTAGAA
1 CAGGCACACCAATAGGAGCACCATCTCCTGGTACACCAGCTGCAACACCAGGCATGCCAATAGGA
* *
1647599 GCAGCACCTCCTGGGGA-AGCAGCTGCAAAA
66 GCACCACCTCCT-GGCACAGCAGCTGCAAAA
* * * *
1647629 CAAGGCACACCAATAGGAGCACCATCT-CTGGGTGCAACAGCTGCAACATCGGGCATGCCAATAG
1 C-AGGCACACCAATAGGAGCACCATCTCCT-GGTACACCAGCTGCAACACCAGGCATGCCAATAG
* *
1647693 GAGCACCACCTCCTGACACAGCAGCTGCAACAC
64 GAGCACCACCTCCTGGCACAGCAGCTGCAA-AA
* * * * ** * *
1647726 CGGGCACACCAGTAGGAGCGCCACCTCCTGACACACCAACTGCAACACCAGGCATGACAATAGGA
1 CAGGCACACCAATAGGAGCACCATCTCCTGGTACACCAGCTGCAACACCAGGCATGCCAATAGGA
* *
1647791 GCACCACCTCCTGGCACACCAGCTGCAACAG
66 GCACCACCTCCTGGCACAGCAGCTGCAA-AA
*** * * * * *
1647822 CAGGCATGGCAATAGGCGTACCATCTCCTGGTACATCAGCTGGAACACCAGGCATGGCAATAGGA
1 CAGGCACACCAATAGGAGCACCATCTCCTGGTACACCAGCTGCAACACCAGGCATGCCAATAGGA
1647887 GCACCACCTCC
66 GCACCACCTCC
1647898 CAGTACATCA
Statistics
Matches: 218, Mismatches: 46, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
95 4 0.02
96 210 0.96
97 4 0.02
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.12
Consensus pattern (95 bp):
CAGGCACACCAATAGGAGCACCATCTCCTGGTACACCAGCTGCAACACCAGGCATGCCAATAGGA
GCACCACCTCCTGGCACAGCAGCTGCAAAA
Found at i:1647769 original size:144 final size:142
Alignment explanation
Indices: 1647492--1647875 Score: 339
Period size: 144 Copynumber: 2.7 Consensus size: 142
1647482 CCAATTGGAG
* ** * **
1647492 CACCAATAGGTGCACCATCTCCCAGTGCATCAGCTGCAGTACCAGGCACT-CCAATAGGAGCACC
1 CACCAATAGGAGCACCATCT-CTGGTGCAACAGCTGCAACACCAGGCA-TGCCAATAGGAGCACC
* ** *
1647556 AACTCCAAGTGCAC-CAGCTGCAACACAAGGCACACCAGTAGAAGCAGCACCTCCTGGGGAAGCA
64 AACTCC---TGCACACAGCTGCAACACCAGGCACACCAGTAGAAGCAGCACCTCCTGGACAACCA
*
1647620 GCTGCAAAACAAGGCA-
126 ACTGCAAAACAAGGCAT
* *
1647636 CACCAATAGGAGCACCATCTCTGGGTGCAACAGCTGCAACATCGGGCATGCCAATAGGAGCACCA
1 CACCAATAGGAGCACCATCTCT-GGTGCAACAGCTGCAACACCAGGCATGCCAATAGGAGCACCA
* * *
1647701 CCTCCTGACACAGCAGCTGCAACACCGGGCACACCAGTAGGAGC-GCCACCTCCT-GACACACCA
65 ACTCCTG-CACA-CAGCTGCAACACCAGGCACACCAGTAGAAGCAG-CACCTCCTGGACA-ACCA
* *
1647764 ACTGCAACACCAGGCAT
126 ACTGCAAAACAAGGCAT
* * ** * * * * *
1647781 GA-CAATAGGAGCACCACCTCCTGGCACACCAGCTGCAACAGCAGGCATGGCAATAGGCGTACCA
1 CACCAATAGGAGCACCATCT-CTGGTGCAACAGCTGCAACACCAGGCATGCCAATAGGAGCACCA
* * *
1647845 TCTCCTGGTACATCAGCTGGAACACCAGGCA
65 ACTCCT-GCACA-CAGCTGCAACACCAGGCA
1647876 TGGCAATAGG
Statistics
Matches: 197, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
141 2 0.01
142 3 0.02
143 5 0.03
144 183 0.93
145 4 0.02
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.12
Consensus pattern (142 bp):
CACCAATAGGAGCACCATCTCTGGTGCAACAGCTGCAACACCAGGCATGCCAATAGGAGCACCAA
CTCCTGCACACAGCTGCAACACCAGGCACACCAGTAGAAGCAGCACCTCCTGGACAACCAACTGC
AAAACAAGGCAT
Found at i:1647918 original size:48 final size:48
Alignment explanation
Indices: 1647495--1647937 Score: 298
Period size: 48 Copynumber: 9.2 Consensus size: 48
1647485 ATTGGAGCAC
* * ** * ** *
1647495 CAATAGGTGCACCATCTCCCAGTGCATCAGCTGCAGTACCAGGCACT-C
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCA-TGG
* ** * * * ***
1647543 CAATAGGAGCACCAACTCCAAGTGCACCAGCTGCAACACAAGGCACAC
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
* * * * * * * ***
1647591 CAGTAGAAGCAGCACCTCCTGGGGA-AGCAGCTGCAAAACAAGGCACAC
1 CAATAGGAGCACCACCTCCT-GGTACATCAGCTGCAACACCAGGCATGG
* * * * * *
1647639 CAATAGGAGCACCATCT-CTGGGTGCAACAGCTGCAACATCGGGCATGC
1 CAATAGGAGCACCACCTCCT-GGTACATCAGCTGCAACACCAGGCATGG
** * * ***
1647687 CAATAGGAGCACCACCTCCTGACACAGCAGCTGCAACACCGGGCACAC
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
* * ** * * *
1647735 CAGTAGGAGCGCCACCTCCTGACACACCAACTGCAACACCAGGCATGA
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
* * *
1647783 CAATAGGAGCACCACCTCCTGGCACACCAGCTGCAACAGCAGGCATGG
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
* * * *
1647831 CAATAGGCGTACCATCTCCTGGTACATCAGCTGGAACACCAGGCATGG
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
** * * *
1647879 CAATAGGAGCACCACCTCCCAGTACATCAGTTGCAACACCAGACATGC
1 CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
*
1647927 CAATTGGAGCA
1 CAATAGGAGCA
1647938 ACTCCTACCA
Statistics
Matches: 321, Mismatches: 70, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
47 5 0.02
48 313 0.98
49 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.13
Consensus pattern (48 bp):
CAATAGGAGCACCACCTCCTGGTACATCAGCTGCAACACCAGGCATGG
Found at i:1648145 original size:39 final size:39
Alignment explanation
Indices: 1648073--1648167 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
1648063 AGGCATGGCG
*
1648073 ACAGGAGCACCACCTCCAGCAGCAAAGAAAGGCACAACA
1 ACAGGAGCACCACCTCCAGCAGCAAACAAAGGCACAACA
* * **
1648112 ACAGGAGCATCACCTCCAGCAG-AAACATCAGGCATGACA
1 ACAGGAGCACCACCTCCAGCAGCAAACA-AAGGCACAACA
* *
1648151 ACAAGAGCACCAACTCC
1 ACAGGAGCACCACCTCC
1648168 TGATGCACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 4 0.09
39 43 0.91
ACGTcount: A:0.41, C:0.34, G:0.19, T:0.06
Consensus pattern (39 bp):
ACAGGAGCACCACCTCCAGCAGCAAACAAAGGCACAACA
Found at i:1648247 original size:48 final size:48
Alignment explanation
Indices: 1648156--1648309 Score: 137
Period size: 48 Copynumber: 3.2 Consensus size: 48
1648146 TGACAACAAG
* *
1648156 AGCACCAACTCCTGATGCACCAGATGCAACACCTGGCAAGCCAATAGA
1 AGCACCACCTCCTGATGCACCAGATGCAACACCAGGCAAGCCAATAGA
* * * * * * *
1648204 AGCACCACCTCCTGGTGCACCAGCTTCAAGACCAGGTACGCCAATAGG
1 AGCACCACCTCCTGATGCACCAGATGCAACACCAGGCAAGCCAATAGA
** * * * * * * * *
1648252 TTCACCACCTCCTGCTGCGCTAGCTGCAACAACAGGCATGCCAGTAGG
1 AGCACCACCTCCTGATGCACCAGATGCAACACCAGGCAAGCCAATAGA
1648300 AGCACCACCT
1 AGCACCACCT
1648310 ACCAGTGCAC
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.29, C:0.36, G:0.21, T:0.15
Consensus pattern (48 bp):
AGCACCACCTCCTGATGCACCAGATGCAACACCAGGCAAGCCAATAGA
Found at i:1648529 original size:48 final size:48
Alignment explanation
Indices: 1648477--1648569 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
1648467 TCAACTCCTG
* *
1648477 GTGCACCAG-CAGCAACACCAAGCACATCAATAGGAACGCCACCTCTTT
1 GTGCACCAGCCA-CAACACCAAGCACACCAATAGGAACACCACCTCTTT
* * *
1648525 GTGCACCGGCCACAACACCAAGCACGCCAATAGGAGCACCACCTC
1 GTGCACCAGCCACAACACCAAGCACACCAATAGGAACACCACCTC
1648570 CCAATGCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.32, C:0.39, G:0.18, T:0.11
Consensus pattern (48 bp):
GTGCACCAGCCACAACACCAAGCACACCAATAGGAACACCACCTCTTT
Done.