Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 117 of 230
Found at i:33992601 original size:18 final size:18
Alignment explanation
Indices: 33992563--33992607 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
33992553 TGAATATTAC
33992563 TTGTAATTATGGAATTGAA
1 TTGT-ATTATGGAATTGAA
*
33992582 TTG-ATTATTGAATGTGAA
1 TTGTATTATGGAAT-TGAA
33992600 TTGTATTA
1 TTGTATTA
33992608 ACTGTTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (18 bp):
TTGTATTATGGAATTGAA
Found at i:33996322 original size:19 final size:19
Alignment explanation
Indices: 33996300--33996337 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33996290 TCAATCATCC
33996300 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
33996319 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
33996338 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:33998992 original size:46 final size:46
Alignment explanation
Indices: 33998918--33999056 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
33998908 CATGGCAAAG
*
33998918 TGTGGAACA-TAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAA-AGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * *
33998964 TGTGGAATGTAGGTATGGTATTTTAGTAACGAAAACCATACTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * *
33999010 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
33999056 T
1 T
33999057 ATAGCATTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (46 bp):
TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:34002450 original size:8 final size:9
Alignment explanation
Indices: 34002436--34002676 Score: 86
Period size: 10 Copynumber: 25.2 Consensus size: 9
34002426 ATGAAAATCA
34002436 ATAAAAATT
1 ATAAAAATT
34002445 ATAAAAATT
1 ATAAAAATT
**
34002454 ATTAAATTTT
1 A-TAAAAATT
34002464 AATAAAAA--
1 -ATAAAAATT
34002472 AT-AAAATT
1 ATAAAAATT
34002480 ATTAAAAATT
1 A-TAAAAATT
*
34002490 ATTAAAAAAT
1 A-TAAAAATT
34002500 ATAATAAATT
1 ATAA-AAATT
*
34002510 GTAAAAAATT
1 AT-AAAAATT
*
34002520 GTAAAAAATT
1 AT-AAAAATT
34002530 ATAATAAATT
1 ATAA-AAATT
* **
34002540 GTAAATTTTT
1 ATAAA-AATT
* *
34002550 ATTAAAATC
1 ATAAAAATT
34002559 ATAAAAGATT
1 ATAAAA-ATT
34002569 AT--AAATT
1 ATAAAAATT
34002576 ATATAGAAATAT
1 ATA-A-AAAT-T
*
34002588 AGAAAAATAT
1 ATAAAAAT-T
34002598 ATATAAAATT
1 ATA-AAAATT
* * *
34002608 TTATGAAGTCGT
1 ATA-AAAAT--T
34002620 A-AGAAAATT
1 ATA-AAAATT
34002629 ATAAAAATGT
1 ATAAAAAT-T
34002639 A-AAGAAA-T
1 ATAA-AAATT
34002647 AT-AAAATT
1 ATAAAAATT
34002655 AGTAACAAATT
1 A-TAA-AAATT
34002666 ATAAAAATT
1 ATAAAAATT
34002675 AT
1 AT
34002677 CGTACCAAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 54
0.69 0.10 0.21
Matches are distributed among these distances:
6 4 0.02
7 10 0.06
8 8 0.04
9 40 0.22
10 89 0.50
11 23 0.13
12 4 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:34002467 original size:29 final size:29
Alignment explanation
Indices: 34002435--34002610 Score: 89
Period size: 29 Copynumber: 6.0 Consensus size: 29
34002425 AATGAAAATC
34002435 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATTATTAAATTTT
**
34002464 AATAAAAA--AT-AAAATTATTAAAAATT
1 AATAAAAATTATAAAAATTATTAAATTTT
* * ** *
34002490 ATTAAAAAATATAATAAATTGTAAAAAATTGT
1 AATAAAAATTATAA-AAA-T-TATTAAATTTT
*
34002522 -A-AAAAATTATAATAAATT-GTAAATTTT
1 AATAAAAATTATAA-AAATTATTAAATTTT
* * * *
34002549 TATTAAAATCATAAAAGATTA-TAAATTAT
1 AATAAAAATTATAAAA-ATTATTAAATTTT
* *
34002578 -ATAGAAATATAGAAAAATATATATAAAATTTT
1 AATAAAAAT-TATAAAAAT-TAT-T-AAATTTT
34002610 A
1 A
34002611 TGAAGTCGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
26 21 0.19
27 8 0.07
28 14 0.13
29 36 0.33
30 17 0.15
31 2 0.02
32 12 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAATTTT
Found at i:34002483 original size:26 final size:26
Alignment explanation
Indices: 34002429--34002500 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
34002419 ATAAAAAATG
*
34002429 AAAATCAATAAAAATTATAAAAATTATTA
1 AAAATTAATAAAAA--AT-AAAATTATTA
**
34002458 AATTTTAATAAAAAATAAAATTATTA
1 AAAATTAATAAAAAATAAAATTATTA
*
34002484 AAAATTATTAAAAAATA
1 AAAATTAATAAAAAATA
34002501 TAATAAATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 24 0.65
27 2 0.05
29 11 0.30
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTAATAAAAAATAAAATTATTA
Found at i:34002517 original size:30 final size:30
Alignment explanation
Indices: 34002483--34002544 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34002473 TAAAATTATT
*
34002483 AAAAATTATTAAAAAA-TATAATAAATTGTA
1 AAAAATT-GTAAAAAATTATAATAAATTGTA
34002513 AAAAATTGTAAAAAATTATAATAAATTGTA
1 AAAAATTGTAAAAAATTATAATAAATTGTA
34002543 AA
1 AA
34002545 TTTTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (30 bp):
AAAAATTGTAAAAAATTATAATAAATTGTA
Found at i:34002640 original size:19 final size:19
Alignment explanation
Indices: 34002618--34002673 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
34002608 TTATGAAGTC
34002618 GTAAGAAAATTATAAAAAT-
1 GTAA-AAAATTATAAAAATA
*
34002637 GTAAAGAAA-TATAAAATTA
1 GTAAA-AAATTATAAAAATA
*
34002656 GTAACAAATTATAAAAAT
1 GTAAAAAATTATAAAAAT
34002674 TATCGTACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (19 bp):
GTAAAAAATTATAAAAATA
Found at i:34002666 original size:11 final size:9
Alignment explanation
Indices: 34002623--34002676 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34002613 AAGTCGTAAG
34002623 AAAATTATA
1 AAAATTATA
34002632 AAAATGTA-A
1 AAAAT-TATA
34002641 AGAAA-TAT-
1 A-AAATTATA
34002649 AAAATTAGTA
1 AAAATTA-TA
34002659 ACAAATTATA
1 A-AAATTATA
34002669 AAAATTAT
1 AAAATTAT
34002677 CGTACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
7 3 0.08
8 5 0.13
9 15 0.39
10 9 0.24
11 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:34002733 original size:16 final size:15
Alignment explanation
Indices: 34002712--34002741 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34002702 TTTTCTATAT
34002712 TTTTTATTGATTTTTA
1 TTTTTATT-ATTTTTA
34002728 TTTTTATTATTTTT
1 TTTTTATTATTTTT
34002742 CACCACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:34002873 original size:10 final size:9
Alignment explanation
Indices: 34002860--34002968 Score: 62
Period size: 9 Copynumber: 11.8 Consensus size: 9
34002850 TTTTTATGCA
34002860 TTTTATAATT
1 TTTTATAA-T
*
34002870 TTTTATGAT
1 TTTTATAAT
*
34002879 TTTTATAAAA
1 TTTTAT-AAT
34002889 TTTTAT-AT
1 TTTTATAAT
*
34002897 TTTTACAAT
1 TTTTATAAT
*
34002906 TTTTATAAA
1 TTTTATAAT
***
34002915 AAAT-TAAT
1 TTTTATAAT
34002923 TTTTAATAAT
1 TTTT-ATAAT
34002933 TTTT-TAATT
1 TTTTATAA-T
*
34002942 TTTTATTAAAA
1 TTTTA-T-AAT
*
34002953 TTTAATAAT
1 TTTTATAAT
34002962 TTTTATA
1 TTTTATA
34002969 TCTTTTATTG
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
8 13 0.18
9 30 0.41
10 23 0.32
11 5 0.07
12 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:34002873 original size:19 final size:19
Alignment explanation
Indices: 34002849--34002909 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
34002839 TTAAAGGGTC
34002849 TTTTTTATGCA-TTTTATAA
1 TTTTTTATG-ATTTTTATAA
34002868 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
** *
34002887 AATTTTAT-ATTTTTACAA
1 TTTTTTATGATTTTTATAA
34002905 TTTTT
1 TTTTT
34002910 ATAAAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.36
19 23 0.64
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:34002919 original size:29 final size:29
Alignment explanation
Indices: 34002859--34002915 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
34002849 TTTTTTATGC
**
34002859 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTACAATTTTTATAAA
34002888 ATTTTAT-A-TTTTTACAATTTTTATAAA
1 ATTTTATAATTTTTTACAATTTTTATAAA
34002915 A
1 A
34002916 AATTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 18 0.69
28 1 0.04
29 7 0.27
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTATAATTTTTTACAATTTTTATAAA
Found at i:34002926 original size:27 final size:26
Alignment explanation
Indices: 34002865--34002936 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
34002855 ATGCATTTTA
* *
34002865 TAATTTTTTATGATTTTTATAAAATT
1 TAATTTTTTATAATTTTTATAAAAAT
* *
34002891 TTATATTTTTACAATTTTTATAAAAAAT
1 TAAT-TTTTTATAATTTTTAT-AAAAAT
*
34002919 TAATTTTTAATAATTTTT
1 TAATTTTTTATAATTTTT
34002937 TAATTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.08
27 26 0.70
28 8 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTTTTTATAATTTTTATAAAAAT
Found at i:34003273 original size:89 final size:87
Alignment explanation
Indices: 34003123--34003347 Score: 328
Period size: 89 Copynumber: 2.5 Consensus size: 87
34003113 ATGCATTTTG
* * * *
34003123 AAGTACCCAATTAAGTGAAAAAAAAGCATGGCCTTAATTGTTTTTTCTGAAAAAGTTTGAGGGTC
1 AAGTACCCAATTAAGTGAAAAAAAAGCAGGGGCTTAATTGTTTTTT-TGAAAAAATTTGAGGGCC
34003188 TTTTTGATGCATTTTGAAAGTTC
65 TTTTTGATGCATTTTGAAAGTTC
34003211 AAGTACCCAATTAAGTGAAAAAAAAAGCAGGGGCTTAA-TGACTTTTTTTGAAAAAATTTGAGGG
1 AAGTACCCAATTAAGTG-AAAAAAAAGCAGGGGCTTAATTG--TTTTTTTGAAAAAATTTGAGGG
*
34003275 CCTTTTTGATGCATTTTGAAAGTTT
63 CCTTTTTGATGCATTTTGAAAGTTC
*
34003300 AAGTACCCAATTAAGTGTAACAAAAAGC-GGGGACTTAATTGTTTTTTT
1 AAGTACCCAATTAAGTG-AAAAAAAAGCAGGGG-CTTAATTGTTTTTTT
34003348 TTTCAAAAAA
Statistics
Matches: 125, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
88 30 0.24
89 87 0.70
90 8 0.06
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (87 bp):
AAGTACCCAATTAAGTGAAAAAAAAGCAGGGGCTTAATTGTTTTTTTGAAAAAATTTGAGGGCCT
TTTTGATGCATTTTGAAAGTTC
Found at i:34004609 original size:31 final size:31
Alignment explanation
Indices: 34004534--34004597 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34004524 TCATTCAATT
34004534 TTTAAAATTTACATAATGATTATTAATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
*
34004565 TTTAAAATTTACATAATGATTATTTATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
34004596 TT
1 TT
34004598 GAATTCTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTAAAATTTACATAATGATTATTAATATTA
Found at i:34008461 original size:93 final size:93
Alignment explanation
Indices: 34008303--34008577 Score: 354
Period size: 93 Copynumber: 3.0 Consensus size: 93
34008293 GTATATGTTT
* * * * * *
34008303 TATACATTGTC-AAATTGATTTGTCTAGAGATATACATTTTCGAATTTGATTTGTTTATAGATAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
* * *
34008367 ACATTGCCGAAATTAATTTGTTTATAGA
66 ACATTGCCGAATTTGATTTGTATATAGA
* * *
34008395 TATACATTGTCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGATTTGTTTATGGTTAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
* *
34008460 ACATTGCCGAATTTGATTTGTATATGGT
66 ACATTGCCGAATTTGATTTGTATATAGA
** * * * *
34008488 TATACATTACCGATTTTGATTTGTATATAGATATACATTGTTGAATTTGATTTATATATGGTTAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
*
34008553 ACATTACCGAATTTGATTTGTATAT
66 ACATTGCCGAATTTGATTTGTATAT
34008578 GGTACCGAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
92 11 0.07
93 148 0.93
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (93 bp):
TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
ACATTGCCGAATTTGATTTGTATATAGA
Found at i:34008576 original size:23 final size:23
Alignment explanation
Indices: 34008550--34008599 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
34008540 TATATATGGT
* *
34008550 TATACATTACCGAATTTGATTTG
1 TATACAGTACCGAATTTGATTCG
**
34008573 TATATGGTACCGAATTTGATTCG
1 TATACAGTACCGAATTTGATTCG
34008596 TATA
1 TATA
34008600 TGGATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (23 bp):
TATACAGTACCGAATTTGATTCG
Found at i:34008580 original size:31 final size:31
Alignment explanation
Indices: 34008303--34008577 Score: 309
Period size: 31 Copynumber: 8.9 Consensus size: 31
34008293 GTATATGTTT
* * * *
34008303 TATACATTGTC-AAATTGATTTGTCTAGAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** *
34008333 TATACATTTTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
34008364 TATACATTGCCGAAATTAATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
34008395 TATACATTGTCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
34008426 TATACATTGCCGAATTTGATTTGTTTATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
34008457 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
34008488 TATACATTACCGATTTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** * * *
34008519 TATACATTGTTGAATTTGATTTATATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
34008550 TATACATTACCGAATTTGATTTGTATAT
1 TATACATTGCCGAATTTGATTTGTATAT
34008578 GGTACCGAAT
Statistics
Matches: 212, Mismatches: 32, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
30 10 0.05
31 202 0.95
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:34008600 original size:23 final size:23
Alignment explanation
Indices: 34008557--34008602 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34008547 GGTTATACAT
*
34008557 TACCGAATTTGATTTGTATATGG
1 TACCGAATTTGATTCGTATATGG
34008580 TACCGAATTTGATTCGTATATGG
1 TACCGAATTTGATTCGTATATGG
34008603 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
TACCGAATTTGATTCGTATATGG
Found at i:34012673 original size:20 final size:20
Alignment explanation
Indices: 34012648--34012685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34012638 TTGTACGGGA
34012648 TTGCACTTACGTGCCTCTGT
1 TTGCACTTACGTGCCTCTGT
**
34012668 TTGCACTTTGGTGCCTCT
1 TTGCACTTACGTGCCTCT
34012686 ATATTTGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.29, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCACTTACGTGCCTCTGT
Found at i:34014914 original size:20 final size:20
Alignment explanation
Indices: 34014877--34014938 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
34014867 TTATTTAGAA
*
34014877 TTTTTATTATATTT-TTAATAC
1 TTTTTA-TA-ATTTATTAAAAC
*
34014898 TTTTTATAATTTATTAAAAT
1 TTTTTATAATTTATTAAAAC
*
34014918 TTTTTAGAATTATTATTAAAA
1 TTTTTATAA-T-TTATTAAAA
34014939 ATAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.11
20 15 0.43
21 7 0.20
22 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTATAATTTATTAAAAC
Found at i:34015554 original size:22 final size:22
Alignment explanation
Indices: 34015513--34015554 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34015503 TTTTTTAAAA
*
34015513 GTTAGGGTTATTGGTTTTTAGG
1 GTTAGGGTTATTGGTATTTAGG
34015535 GTTAGGGTT-TTGGGTATTTA
1 GTTAGGGTTATT-GGTATTTA
34015555 AAATAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GTTAGGGTTATTGGTATTTAGG
Found at i:34024888 original size:33 final size:33
Alignment explanation
Indices: 34024851--34025162 Score: 170
Period size: 33 Copynumber: 8.8 Consensus size: 33
34024841 TCCTCCAAGG
34024851 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
34024884 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
34024926 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
34024953 GGTTGCTATGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
34024986 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
34025028 GGTTGCTAAGTACTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
34025061 GGTTGCTAAGTGCTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
* * * *
34025098 GAAAGGGGTTGCTAAGTGTTGATTCCCTGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
34025137 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
34025163 AACGGATAAC
Statistics
Matches: 215, Mismatches: 27, Indels: 73
0.68 0.09 0.23
Matches are distributed among these distances:
27 21 0.10
28 2 0.01
31 2 0.01
32 2 0.01
33 78 0.36
34 16 0.07
35 2 0.01
36 2 0.01
37 8 0.04
38 6 0.03
39 5 0.02
40 1 0.00
41 3 0.01
42 48 0.22
43 19 0.09
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:34024995 original size:102 final size:102
Alignment explanation
Indices: 34024819--34025048 Score: 388
Period size: 102 Copynumber: 2.3 Consensus size: 102
34024809 ATTGAATATA
* *
34024819 AAGGGGGTTGCTAAGTGTTGATTCCTCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
34024884 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
34024921 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
34024986 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* *
34025023 AAAGGGGTTGCTAAGTACTGATTCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCC
34025049 TGATTCATTG
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 120 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:34025137 original size:76 final size:75
Alignment explanation
Indices: 34024949--34025160 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
34024939 TGATTCCCCC
* * *
34024949 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
34025014 TTAAATGTGA
66 TTAAATGTGA
*
34025024 AAGGGGTTGCTAAGTACTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
34025089 ATTGAATGTGA
66 -TTAAATGTGA
* * * *
34025100 AAGGGGTTGCTAAGTGTTGATTCCCTGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
34025161 ATAACGGATA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 61 0.48
76 65 0.52
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:34028596 original size:20 final size:22
Alignment explanation
Indices: 34028567--34028616 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
34028557 AAAGAAAGAA
*
34028567 AAAAAAAGAAATCAAAAA-AG-
1 AAAAAGAGAAATCAAAAAGAGC
*
34028587 AAAAAGAG-AATGAAAAAGAGC
1 AAAAAGAGAAATCAAAAAGAGC
34028608 AAAAAGAGA
1 AAAAAGAGA
34028617 TTGAGAGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAAAGAGAAATCAAAAAGAGC
Found at i:34028602 original size:19 final size:19
Alignment explanation
Indices: 34028565--34028616 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
34028555 TGAAAGAAAG
34028565 AAAA-AAAAAGA-AATCAA
1 AAAAGAAAAAGAGAATCAA
*
34028582 AAAAGAAAAAGAGAATGAA
1 AAAAGAAAAAGAGAATCAA
34028601 AAAGAGCAAAAAGAGA
1 AAA-AG-AAAAAGAGA
34028617 TTGAGAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 8 0.27
20 2 0.07
21 9 0.30
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (19 bp):
AAAAGAAAAAGAGAATCAA
Found at i:34041098 original size:4 final size:4
Alignment explanation
Indices: 34041087--34041121 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
34041077 AAAAAAAAAA
34041087 AAAG -AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
34041122 TTGTTTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:34046698 original size:34 final size:35
Alignment explanation
Indices: 34046654--34046720 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
34046644 CAGTAAAATA
*
34046654 TTTTCCGTAAAATGA-TTTCTGGAAAATATTTTAT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAT
*
34046688 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
34046721 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.47
35 16 0.53
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAT
Found at i:34050683 original size:22 final size:22
Alignment explanation
Indices: 34050658--34050704 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
34050648 GAGCCGTGGA
34050658 GGACCGAAGATGGATCGGTGCC
1 GGACCGAAGATGGATCGGTGCC
* * *
34050680 GGACCGGAGGTGGATTGGTGCC
1 GGACCGAAGATGGATCGGTGCC
34050702 GGA
1 GGA
34050705 GGTGAAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.47, T:0.15
Consensus pattern (22 bp):
GGACCGAAGATGGATCGGTGCC
Found at i:34050833 original size:22 final size:22
Alignment explanation
Indices: 34050808--34050854 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
34050798 GAGCCGTGGA
*
34050808 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
*
34050830 GGACTGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
34050852 GGA
1 GGA
34050855 GGTGAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.51, T:0.17
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:34050924 original size:8 final size:8
Alignment explanation
Indices: 34050913--34050943 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
34050903 TTCTGGAAGA
34050913 GGGGAAAT
1 GGGGAAAT
34050921 GGGGAAAT
1 GGGGAAAT
34050929 GGGGGAAAT
1 -GGGGAAAT
34050938 GGGGAA
1 GGGGAA
34050944 GAAATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.55, T:0.10
Consensus pattern (8 bp):
GGGGAAAT
Found at i:34050935 original size:9 final size:9
Alignment explanation
Indices: 34050913--34050941 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34050903 TTCTGGAAGA
34050913 GGGGAAAT-
1 GGGGAAATG
34050921 GGGGAAATG
1 GGGGAAATG
34050930 GGGGAAATG
1 GGGGAAATG
34050939 GGG
1 GGG
34050942 AAGAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.59, T:0.10
Consensus pattern (9 bp):
GGGGAAATG
Found at i:34051517 original size:18 final size:18
Alignment explanation
Indices: 34051494--34051533 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34051484 TATTATTTTG
34051494 AAAAATATATAAAAT-TAT
1 AAAAATAT-TAAAATATAT
*
34051512 AAAAATATTTAAATATAT
1 AAAAATATTAAAATATAT
34051530 AAAA
1 AAAA
34051534 GCCTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATTAAAATATAT
Found at i:34051964 original size:16 final size:16
Alignment explanation
Indices: 34051931--34051960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34051921 CGTATAAACT
34051931 TATAAAAAATATATAG
1 TATAAAAAATATATAG
34051947 TATAAAAAAT-TATA
1 TATAAAAAATATATA
34051961 AGTAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATAAAAAATATATAG
Found at i:34054700 original size:35 final size:35
Alignment explanation
Indices: 34054654--34054779 Score: 180
Period size: 35 Copynumber: 3.6 Consensus size: 35
34054644 GTTGATATTC
34054654 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
*
34054689 TGATTTACATGTTAAGCATGCTATTATTCTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
* ** *
34054724 TGATTCGCATGTTAAGCATGCTGCTATACTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
* * *
34054759 TGATTCGCATGTAAAGTATGC
1 TGATTTGCATGTTAAGCATGC
34054780 CTACTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (35 bp):
TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
Found at i:34054965 original size:49 final size:49
Alignment explanation
Indices: 34054877--34054976 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
34054867 AATATACCCG
* *
34054877 CAATATTCTGTATTTGGCAGCTTGACGACAATATATGGTGGCTTGACCA
1 CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
* * * *
34054926 CAATATTCTGTATCTGGCAGCTTTACTG-CATTATCTGGTGACTTGTCCA
1 CAATATTCTGTATCTGGCAGCTTGAC-GACAATATATGGTGACTTGACCA
34054975 CA
1 CA
34054977 TAATTGGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
49 43 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
Found at i:34058254 original size:10 final size:10
Alignment explanation
Indices: 34058239--34058263 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34058229 TCATCTCTCT
34058239 CTTTCACTCA
1 CTTTCACTCA
34058249 CTTTCACTCA
1 CTTTCACTCA
34058259 CTTTC
1 CTTTC
34058264 TCTCTTCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTTCACTCA
Found at i:34060571 original size:3 final size:3
Alignment explanation
Indices: 34060563--34060591 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34060553 CAATACAATT
34060563 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
34060592 TATAGATAGA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:34060602 original size:4 final size:4
Alignment explanation
Indices: 34060593--34060704 Score: 197
Period size: 4 Copynumber: 28.0 Consensus size: 4
34060583 AATAATAATT
*
34060593 ATAG ATAG ATAG ATAG ATAG ATAG ATGG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* *
34060641 ATAG ATAT ATAG ATAG ATAG ATAG ATAG ATAG ATGG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
34060689 ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG
34060705 TTTTTTAAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 102 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:34060795 original size:43 final size:43
Alignment explanation
Indices: 34060734--34060819 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
34060724 AGCCATTTTC
34060734 TTTTATTTTAACATGCAAACAAATTGAAAGGAAAAAAGAAAAG
1 TTTTATTTTAACATGCAAACAAATTGAAAGGAAAAAAGAAAAG
34060777 TTTTATTTTAACATGCAAACAAATTGAAAGGAAAAAAGAAAAG
1 TTTTATTTTAACATGCAAACAAATTGAAAGGAAAAAAGAAAAG
34060820 AATAGAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (43 bp):
TTTTATTTTAACATGCAAACAAATTGAAAGGAAAAAAGAAAAG
Found at i:34065853 original size:25 final size:25
Alignment explanation
Indices: 34065789--34065854 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
34065779 GTGCTTGGAT
34065789 TGTAATTAAGTAATAAGTTAGTAGA
1 TGTAATTAAGTAATAAGTTAGTAGA
* * *
34065814 TTTACATATCA--AATAAGTTAGTAGG
1 TGTA-AT-TAAGTAATAAGTTAGTAGA
34065839 TGTAATTAAGTAATAA
1 TGTAATTAAGTAATAA
34065855 TTAATTTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 24 0.75
26 2 0.06
27 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (25 bp):
TGTAATTAAGTAATAAGTTAGTAGA
Found at i:34071949 original size:18 final size:18
Alignment explanation
Indices: 34071926--34071961 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34071916 CACAACATAA
34071926 TATAACAATTAAGTTTAG
1 TATAACAATTAAGTTTAG
34071944 TATAACAATTAAGTTTAG
1 TATAACAATTAAGTTTAG
34071962 CCCATGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
TATAACAATTAAGTTTAG
Found at i:34074491 original size:18 final size:18
Alignment explanation
Indices: 34074468--34074504 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34074458 CTTTGAATGG
*
34074468 AAAACTAATGAGCTAGCA
1 AAAACTAATGAACTAGCA
34074486 AAAACTAATGAACTAGCA
1 AAAACTAATGAACTAGCA
34074504 A
1 A
34074505 GCAAAGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (18 bp):
AAAACTAATGAACTAGCA
Found at i:34074712 original size:18 final size:16
Alignment explanation
Indices: 34074679--34074729 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
34074669 CTAAAAGAGA
34074679 TTTAGGGGTTTT-AAAG
1 TTTA-GGGTTTTAAAAG
34074695 ATTCTAGGGTTTTAAAAG
1 -TT-TAGGGTTTTAAAAG
34074713 TTTAGAGGATTTTAAAA
1 TTTAG-GG-TTTTAAAA
34074730 TAATTAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 14 0.47
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTAGGGTTTTAAAAG
Found at i:34075910 original size:43 final size:43
Alignment explanation
Indices: 34075837--34076125 Score: 257
Period size: 43 Copynumber: 6.7 Consensus size: 43
34075827 GCCGCTAACA
*
34075837 TAGCGGCGCTTTT-TTCACAAACGCCGCTAAAGACCAAGACCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
* * * * *
34075880 TAGCGGCGCTTTTCCTACAAGCACCACTAAAGACTATGACCTT
1 TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
* * * *
34075923 TAGCGGCGC-TTTCCCACAATCGCCGCTAAAGACTAGGACCTT
1 TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
* * * *
34075965 TAGCGGCGCTTTTTCCCACAAAAGTCGCTAAA-AACAATGACCTT
1 TAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGACCAA-GACCTT
* * *
34076009 TAGCGACACTTTT-CTCACAAACGCCGCTAAAGACCATGACCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
** * * * *
34076052 TAGCGGCGCTTTTTATCACAAATGCCGCTATAGATCAA-ATCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
* *
34076095 TAGCGGCGCTTCTTGC-AAAAACGCCGCTAAA
1 TAGCGGCGCTT-TTCCTACAAACGCCGCTAAA
34076126 AACATAACCT
Statistics
Matches: 201, Mismatches: 37, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
42 50 0.25
43 95 0.47
44 56 0.28
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
Found at i:34076081 original size:87 final size:87
Alignment explanation
Indices: 34075845--34076081 Score: 291
Period size: 87 Copynumber: 2.7 Consensus size: 87
34075835 CATAGCGGCG
* * * *
34075845 CTTTTTTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT-ACAAGCA-CCACT
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAA-AAGCCGCT
* * * *
34075908 AAAGACTATGACCTTTAGCGGCG
65 AAAAACAATGACCTTTAGCGACA
* * * * * *
34075931 C-TTTCCCACAATCGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTCCCACAAAAGTCGCTA
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
34075995 AAAACAATGACCTTTAGCGACA
66 AAAACAATGACCTTTAGCGACA
* * *
34076017 CTTTTCTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTATCACAAATGCCGCTA
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
34076082 TAGATCAAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
85 43 0.34
86 28 0.22
87 55 0.44
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (87 bp):
CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
AAAACAATGACCTTTAGCGACA
Found at i:34076123 original size:129 final size:128
Alignment explanation
Indices: 34075837--34076137 Score: 319
Period size: 129 Copynumber: 2.3 Consensus size: 128
34075827 GCCGCTAACA
* * * * * *
34075837 TAGCGGCGCTTTTTTCACAAACGCCGCTAAAGACCAA-GACCTTTAGCGGCGCTTTTCCTACAAG
1 TAGCGGCGCTTTTTCCAAAAACGCCGCTAAA-AACAATGACCTTTAGCGACACTTTTCCTACAAA
* * *
34075901 CACCACTAAAGACTATGACCTTTAGCGGCGCTTTCCCACAATCGCCGCTAAAGACTAGGACCTT
65 CACCACTAAAGACCATGACCTTTAGCGGCGCTTTACCACAATCGCCGCTAAAGACTAGAACCTT
*
34075965 TAGCGGCGCTTTTTCCCACAAAA-GTCGCTAAAAACAATGACCTTTAGCGACACTTTT-CTCACA
1 TAGCGGCGCTTTTT-CCA-AAAACGCCGCTAAAAACAATGACCTTTAGCGACACTTTTCCT-ACA
* * * *
34076028 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTATCACAAAT-GCCGCTATAGA-TCA-A
63 AACACCACTAAAGACCATGACCTTTAGCGGCGC--TTTACCAC-AATCGCCGCTAAAGACT-AGA
*
34076090 ATCTT
124 ACCTT
* * *
34076095 TAGCGGCGCTTCTTGCAAAAACGCCGCTAAAAAC-ATAACCTTT
1 TAGCGGCGCTTTTTCCAAAAACGCCGCTAAAAACAATGACCTTT
34076138 TAAAAAAATT
Statistics
Matches: 145, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
128 32 0.22
129 72 0.50
130 21 0.14
131 17 0.12
132 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (128 bp):
TAGCGGCGCTTTTTCCAAAAACGCCGCTAAAAACAATGACCTTTAGCGACACTTTTCCTACAAAC
ACCACTAAAGACCATGACCTTTAGCGGCGCTTTACCACAATCGCCGCTAAAGACTAGAACCTT
Found at i:34078698 original size:14 final size:15
Alignment explanation
Indices: 34078670--34078699 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34078660 AAAACAAATG
34078670 CAATTTATATATTCA
1 CAATTTATATATTCA
34078685 CAATTTAT-TATTCA
1 CAATTTATATATTCA
34078699 C
1 C
34078700 CTCATAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (15 bp):
CAATTTATATATTCA
Found at i:34080194 original size:37 final size:38
Alignment explanation
Indices: 34080099--34080225 Score: 123
Period size: 37 Copynumber: 3.3 Consensus size: 38
34080089 TAGGTTTTTT
* * *
34080099 GCGGCGCTTTTTGAAAATCGCCGCTAATGCT-AATTTTTA
1 GCGGCG-TTTTT-AAAAGCGCCGCTAATACTCAATCTTTA
* *
34080138 GCGGCGTTTTCCAAAAAGCGTCGCTAATACTCAATCTTTA
1 GCGGCGTTTT--TAAAAGCGCCGCTAATACTCAATCTTTA
* * * *
34080178 GTGGC-TTTTTAAAAGCGCCGCTAATGCTTAATTTTTA
1 GCGGCGTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
34080215 GCGGCGTTTTT
1 GCGGCGTTTTT
34080226 TTATCCAAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
37 27 0.38
38 9 0.12
39 25 0.35
40 11 0.15
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (38 bp):
GCGGCGTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
Found at i:34082766 original size:14 final size:14
Alignment explanation
Indices: 34082744--34082774 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34082734 CAAAAAAAAG
34082744 AAAGGAAATAAATA
1 AAAGGAAATAAATA
*
34082758 AAAGTAAATAAATA
1 AAAGGAAATAAATA
34082772 AAA
1 AAA
34082775 CTCCAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (14 bp):
AAAGGAAATAAATA
Found at i:34093968 original size:27 final size:28
Alignment explanation
Indices: 34093937--34093990 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
34093927 TTAGGACTTA
34093937 TCTTTTAATT-T-CTTGCTGTCAATTTTT
1 TCTTTTAATTCTGCTTG-TGTCAATTTTT
*
34093964 TCTTTTAATTCTGCTTGTGTCGATTTT
1 TCTTTTAATTCTGCTTGTGTCAATTTT
34093991 ATTTAATCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 10 0.42
28 10 0.42
29 4 0.17
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (28 bp):
TCTTTTAATTCTGCTTGTGTCAATTTTT
Found at i:34128539 original size:20 final size:20
Alignment explanation
Indices: 34128491--34128539 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
34128481 TTTAACTTAG
34128491 TTCAGCTCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* * *
34128511 GTCAACTCATTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
34128531 TTCAGCTCA
1 TTCAGCTCA
34128540 ACCTTAACCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCTCAA
Found at i:34138571 original size:125 final size:125
Alignment explanation
Indices: 34138377--34138642 Score: 426
Period size: 125 Copynumber: 2.1 Consensus size: 125
34138367 CGCTTTCACT
34138377 ACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
* * * * * *
34138441 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
66 TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACACGCTTTTGCA
* *
34138501 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
* *
34138566 TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCT
66 TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACACGCTTTTGCA
*
34138626 ATAGTAGGTCCTGGAAA
1 ACAGTAGGTCCTGGAAA
34138643 TTGAGAGGAA
Statistics
Matches: 129, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
124 11 0.09
125 118 0.91
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
ACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACACGCTTTTGCA
Found at i:34138942 original size:16 final size:16
Alignment explanation
Indices: 34138923--34138961 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34138913 TCCCACGTTA
34138923 GGTTTTTGAATTTTAG
1 GGTTTTTGAATTTTAG
** *
34138939 GGTTTAGGATTTTTAG
1 GGTTTTTGAATTTTAG
34138955 GGTTTTT
1 GGTTTTT
34138962 AGGGTTTTGT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (16 bp):
GGTTTTTGAATTTTAG
Found at i:34138955 original size:9 final size:9
Alignment explanation
Indices: 34138933--34138969 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
34138923 GGTTTTTGAA
34138933 TTTTAGGG-
1 TTTTAGGGT
*
34138941 -TTTAGGAT
1 TTTTAGGGT
34138949 TTTTAGGGT
1 TTTTAGGGT
34138958 TTTTAGGGT
1 TTTTAGGGT
34138967 TTT
1 TTT
34138970 GTAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.24
9 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:34139423 original size:642 final size:639
Alignment explanation
Indices: 34138188--34139423 Score: 2147
Period size: 644 Copynumber: 1.9 Consensus size: 639
34138178 CGAGGGGGCA
* * **
34138188 ATTTGTTGCCACGTCAGCAAAGCGCTCTGACGTGGCCGCGATTTCCTGACGTAGCGTGTTACGGG
1 ATTTGTTGCCACGTCAGCAAAGCGCACTGACGTGGCCGCAATTTCCTGACGTAGCGCATTACGGG
* *
34138253 GGACGCGATTTGCCGTTTTCCCACGTTAGGTTTTTGGATTTTAGGGTTTAGTATTTTTAGGGTTT
66 GGACGCGATTTGCCGTTTTCCCACGTTAGGTTTTTGAATTTTAGGGTTTAGGATTTTTAGGGTTT
34138318 TTAGGGTTTTGTAGAAAAAGTAAACAAATAAGTCGCGCCCACGTTTACGCGCTTTCACTACAGTA
131 TTAGGGTTTTGTAGAAAAAGTAAACAAATAAGTCGCGCCCACGTTTACGCGCTTTCACTACAGTA
34138383 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
196 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
*
34138448 ATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCAACAGTAGGTCTT
261 ATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCAACAGTAGGTCCT
34138513 GGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGCT
326 GGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGCT
*
34138578 ATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTATAGTAGGTCCTGGAAA
391 ATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCCTGGAAA
34138643 TTGAGAGGAAATTTGAGAGAGGATTAGTTTGTGAAAAAAAAAAGGGTGGGGGTATTTATAGTTCT
456 TTGAGAGGAAATTTGAGAGAGGATTAGTTTGTG-AAAAAAAAAGGGTGGGGGTATTTATAGTTCT
** *
34138708 TTTTTTACCGTGGGGGGCAACGGTCAAATTTTTTATCGTTGCACTGTTCACGCGCGGGGCGAGTC
520 TTTTTTACCGTGGGGGGCAACGGTCAAAAATTTGATCGTTGCACTGTTCACGCGCGGGGCGAGT-
34138773 GCGGCCACGTCAGCGCGCTTTACTGACGTGGCAAAATATCACCCCCTCATGGACGTG
584 -CGGCCACGTCAGCGCGCTTTACTGACGTGGCAAAATATCACCCCCTCATGGACGTG
* *
34138830 ATTTGTTGCCACGTCAGTAAAGCGCACTGACGTGGCCGCAATTTCCTGACGTAGTGCATTACGGG
1 ATTTGTTGCCACGTCAGCAAAGCGCACTGACGTGGCCGCAATTTCCTGACGTAGCGCATTACGGG
*
34138895 GGACGCGATTTGCCTTTTTCCCACGTTAGGTTTTTGAATTTTAGGGTTTAGGATTTTTAGGGTTT
66 GGACGCGATTTGCCGTTTTCCCACGTTAGGTTTTTGAATTTTAGGGTTTAGGATTTTTAGGGTTT
* *
34138960 TTAGGGTTTTGTAGAAAAAAGTAAACAAATAAGTCGCGCCCACGTTTACGCGCTTTCGCTATAGT
131 TTAGGGTTTTGTAG-AAAAAGTAAACAAATAAGTCGCGCCCACGTTTACGCGCTTTCACTACAGT
*
34139025 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
195 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
* * *
34139090 GATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGATGCGCTTTTGCTACAGTAGGTC
260 GATGTTGTTTGATAAGAATTTGTGAAATCG-CGGCCTCATGGACGCGCTTTTGCAACAGTAGGTC
34139155 CTGGAAGAAA-TAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAAT
324 CTGGAA-AAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAAT
** *
34139219 GCTATTTGAGAAGAATTTGTGAAATTTCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGG
388 GCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCCTGG
34139284 AAATTGAGAGGAAATTTGAGAGAGGATTAGTTTGTG-AAAAAAAAGGGTGGGGGTATTTATAGTT
453 AAATTGAGAGGAAATTTGAGAGAGGATTAGTTTGTGAAAAAAAAAGGGTGGGGGTATTTATAGTT
34139348 CTTTTTTTGACCGTGGAGGGGGCAACGGTCAAAAATTTGA-CTGTTGCACTGTTCACGCGCGGGG
518 CTTTTTTT-ACCGT-G-GGGGGCAACGGTCAAAAATTTGATC-GTTGCACTGTTCACGCGCGGGG
34139412 CGAGT-GGCCACG
579 CGAGTCGGCCACG
34139424 ATTTCCTGGC
Statistics
Matches: 564, Mismatches: 23, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
642 178 0.32
643 147 0.26
644 189 0.34
645 50 0.09
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (639 bp):
ATTTGTTGCCACGTCAGCAAAGCGCACTGACGTGGCCGCAATTTCCTGACGTAGCGCATTACGGG
GGACGCGATTTGCCGTTTTCCCACGTTAGGTTTTTGAATTTTAGGGTTTAGGATTTTTAGGGTTT
TTAGGGTTTTGTAGAAAAAGTAAACAAATAAGTCGCGCCCACGTTTACGCGCTTTCACTACAGTA
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCAACAGTAGGTCCT
GGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGCT
ATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCCTGGAAA
TTGAGAGGAAATTTGAGAGAGGATTAGTTTGTGAAAAAAAAAGGGTGGGGGTATTTATAGTTCTT
TTTTTACCGTGGGGGGCAACGGTCAAAAATTTGATCGTTGCACTGTTCACGCGCGGGGCGAGTCG
GCCACGTCAGCGCGCTTTACTGACGTGGCAAAATATCACCCCCTCATGGACGTG
Found at i:34140544 original size:25 final size:26
Alignment explanation
Indices: 34140515--34140575 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
34140505 AAAATATCTT
**
34140515 TTAAAATTAAATATTTTAATTAATAA
1 TTAAAATTAAATATAATAATTAATAA
*
34140541 -TAAAATTGAATATAATAATTAATAA
1 TTAAAATTAAATATAATAATTAATAA
34140566 TTTAAAATTA
1 -TTAAAATTA
34140576 TTATTAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 22 0.76
27 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAAAATTAAATATAATAATTAATAA
Found at i:34149675 original size:17 final size:17
Alignment explanation
Indices: 34149653--34149686 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34149643 ATTCTTATAA
34149653 AAATATCTTTTAAATAT
1 AAATATCTTTTAAATAT
* *
34149670 AAATATTTTTTATATAT
1 AAATATCTTTTAAATAT
34149687 TTAAACCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATCTTTTAAATAT
Found at i:34152112 original size:19 final size:19
Alignment explanation
Indices: 34152088--34152125 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34152078 GTAAAAAAAA
*
34152088 AATTTAATATTATTTAAAT
1 AATTTAATACTATTTAAAT
34152107 AATTTAATACTATTTAAAT
1 AATTTAATACTATTTAAAT
34152126 TTTAGCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTAATACTATTTAAAT
Found at i:34155481 original size:22 final size:21
Alignment explanation
Indices: 34155449--34155491 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
34155439 TGTTGATAAA
*
34155449 TTGATGAATTAGGCTT-GAAT
1 TTGATGAATTAAGCTTAGAAT
34155469 TTGATAGATATTAAGCTTAGAAT
1 TTGAT-GA-ATTAAGCTTAGAAT
34155492 ATGAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
TTGATGAATTAAGCTTAGAAT
Found at i:34156758 original size:11 final size:11
Alignment explanation
Indices: 34156733--34156775 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
34156723 TTATGAAAAT
34156733 GAAACGGGTAA-
1 GAAAC-GGTAAC
*
34156744 GAAAAGGTAAC
1 GAAACGGTAAC
34156755 GAAACGGTAAC
1 GAAACGGTAAC
34156766 GAAACGGTAA
1 GAAACGGTAA
34156776 GTTTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 5 0.17
11 24 0.83
ACGTcount: A:0.49, C:0.12, G:0.30, T:0.09
Consensus pattern (11 bp):
GAAACGGTAAC
Found at i:34156956 original size:20 final size:20
Alignment explanation
Indices: 34156931--34156979 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34156921 AAGCTTATGC
34156931 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
34156951 TAAGTAAATGGAGTGGTAAG
1 TAAGTAAATGAAATGGAAAG
*
34156971 AAAGTAAAT
1 TAAGTAAAT
34156980 AGAATGGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:34156987 original size:20 final size:19
Alignment explanation
Indices: 34156932--34156987 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
34156922 AGCTTATGCT
* *
34156932 AAGTAAATGAAATGGAAAGT
1 AAGTAAATG-AATGGTAAGA
*
34156952 AAGTAAATGGAGTGGTAAGA
1 AAGTAAAT-GAATGGTAAGA
34156972 AAGTAAATAGAATGGT
1 AAGTAAAT-GAATGGT
34156988 TCATAGTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (19 bp):
AAGTAAATGAATGGTAAGA
Found at i:34170575 original size:39 final size:39
Alignment explanation
Indices: 34170522--34170648 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
34170512 TAGATAATTG
* *
34170522 TTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
*
34170561 TTGTACTTTGGTACCCCTGATTACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
*
34170600 TTGTACTTCGATACCCCT-AGTTACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGA-TTACACTTACGTGCCCCTA
34170639 TTGTACTTCG
1 TTGTACTTCG
34170649 ATACACACGA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 81 0.99
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.36
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
Found at i:34172242 original size:21 final size:21
Alignment explanation
Indices: 34172213--34172254 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34172203 CATGGCTAGT
* * *
34172213 AAATGAAATGGAATTGGATTG
1 AAATAAAATGAAATGGGATTG
34172234 AAATAAAATGAAATGGGATTG
1 AAATAAAATGAAATGGGATTG
34172255 GTGATTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
AAATAAAATGAAATGGGATTG
Found at i:34180384 original size:27 final size:28
Alignment explanation
Indices: 34180324--34180391 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
34180314 ATTAAGTACA
* *
34180324 CACCACAAAGGCTTTCCTTTCAGAGTCT
1 CACCACAAAGGCTATCCTTTAAGAGTCT
*
34180352 CGCCACAAAGGC-ATCCTTTAAGAGGT-T
1 CACCACAAAGGCTATCCTTTAAGA-GTCT
*
34180379 CACCACGAAGGCT
1 CACCACAAAGGCT
34180392 TACCCTTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
CACCACAAAGGCTATCCTTTAAGAGTCT
Found at i:34180454 original size:28 final size:27
Alignment explanation
Indices: 34180324--34180455 Score: 72
Period size: 28 Copynumber: 4.7 Consensus size: 27
34180314 ATTAAGTACA
*
34180324 CACCACAAAGGCTTTCCTTT-CAGAGTCT
1 CACCACAAAGGCTTACCTTTACAG-GT-T
* * *
34180352 CGCCACAAAGGCAT-CCTTTAAGAGGTT
1 CACCACAAAGGCTTACCTTT-ACAGGTT
* * *
34180379 CACCACGAAGGCTTACCCTTCTAGAGTTT
1 CACCACAAAGGCTTA-CCTT-TACAGGTT
* * * *
34180408 TACCATAAATG-TTGTCCTTTAACAGGTT
1 CACCACAAAGGCTT-ACCTTT-ACAGGTT
*
34180436 CACCATAAAGGCTTACCTTT
1 CACCACAAAGGCTTACCTTT
34180456 TTGGAGTTTG
Statistics
Matches: 79, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
27 18 0.23
28 39 0.49
29 21 0.27
30 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (27 bp):
CACCACAAAGGCTTACCTTTACAGGTT
Found at i:34180480 original size:57 final size:57
Alignment explanation
Indices: 34180365--34180485 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
34180355 CACAAAGGCA
* * * *
34180365 TCCTTTAAGAGGTTCACCACGAAGGCTTACCCTTCTAGAGTTTTACCATAAATGTTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATGTTG
* * * * *
34180422 TCCTTTAACAGGTTCACCATAAAGGCTTACCTTTTTGGAGTTTGGCCACAAA-GCTTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATG-TTG
34180479 TCCTTTA
1 TCCTTTA
34180486 CTTGTTGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.02
57 53 0.98
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (57 bp):
TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATGTTG
Found at i:34181916 original size:39 final size:38
Alignment explanation
Indices: 34181863--34181953 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 38
34181853 GGCTTTTGGA
*
34181863 TAAAAACACCGCTATAGAT-AGAGCATTAGCGGCGCTTTT
1 TAAAAA-ACCGCTATAGATCA-AACATTAGCGGCGCTTTT
34181902 TAAAAAAGCCGCTATAGATCAAACATTAGCGGCGCTTTT
1 TAAAAAA-CCGCTATAGATCAAACATTAGCGGCGCTTTT
34181941 TGAAAAACACCGC
1 T-AAAAA-ACCGC
34181954 AAAAAATAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
38 1 0.02
39 35 0.74
40 10 0.21
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (38 bp):
TAAAAAACCGCTATAGATCAAACATTAGCGGCGCTTTT
Found at i:34182520 original size:7 final size:7
Alignment explanation
Indices: 34182499--34182658 Score: 63
Period size: 7 Copynumber: 22.4 Consensus size: 7
34182489 TTAATTATCA
*
34182499 TTATAGT
1 TTATGGT
*
34182506 TTAGGGT
1 TTATGGT
34182513 TTATGGT
1 TTATGGT
* *
34182520 TGACGGT
1 TTATGGT
*
34182527 TTAAGGT
1 TTATGGT
*
34182534 TTAGGAGT
1 TTATG-GT
34182542 TACTAT--T
1 T--TATGGT
*
34182549 TTAAGGT
1 TTATGGT
*
34182556 TTATGGA
1 TTATGGT
34182563 TTATGGGT
1 TTAT-GGT
* *
34182571 TTAGGGA
1 TTATGGT
*
34182578 TTATGAT
1 TTATGGT
*
34182585 TTAAGGT
1 TTATGGT
34182592 TTATGGT
1 TTATGGT
* *
34182599 TTAAGGG
1 TTATGGT
34182606 TTATGGT
1 TTATGGT
*
34182613 TTAGGGGT
1 TTA-TGGT
*
34182621 TTAGGGT
1 TTATGGT
* * *
34182628 TCAGGGG
1 TTATGGT
*
34182635 TTATGTT
1 TTATGGT
*
34182642 TTATGAT
1 TTATGGT
*
34182649 TTAGGGT
1 TTATGGT
34182656 TTA
1 TTA
34182659 GGGAATAGAA
Statistics
Matches: 111, Mismatches: 35, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
5 2 0.02
7 93 0.84
8 14 0.13
10 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:34182597 original size:29 final size:28
Alignment explanation
Indices: 34182567--34182688 Score: 104
Period size: 29 Copynumber: 4.3 Consensus size: 28
34182557 TATGGATTAT
34182567 GGGTTTAGGGATTATGATTTAAGGTTTA
1 GGGTTTAGGGATTATGATTTAAGGTTTA
* * *
34182595 TGGTTTAAGGG-TTATGGTTTAGGGGTTTA
1 GGGTTT-AGGGATTATGATTTA-AGGTTTA
* * * * *
34182624 GGGTTCAGGGGTTATGTTTTATGATTTA
1 GGGTTTAGGGATTATGATTTAAGGTTTA
* *
34182652 GGGTTTAGGGAATA-GAAATTAAAGGTTTA
1 GGGTTTAGGGATTATG--ATTTAAGGTTTA
34182681 GGGTTTAG
1 GGGTTTAG
34182689 ATTAATTAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 34 0.46
29 39 0.53
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.41
Consensus pattern (28 bp):
GGGTTTAGGGATTATGATTTAAGGTTTA
Found at i:34186401 original size:23 final size:22
Alignment explanation
Indices: 34186358--34186401 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
34186348 TTCTAAGTCG
34186358 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
34186381 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
34186402 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:34186603 original size:51 final size:50
Alignment explanation
Indices: 34186536--34186731 Score: 232
Period size: 51 Copynumber: 3.9 Consensus size: 50
34186526 CAATGATGTT
* * *
34186536 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
34186587 CGATACACGTAGTAGCCTGCACATAGTACCACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * *
34186638 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* *
34186688 CGGTACACGTAGTAGCCCGCATATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
34186732 CACTTTCACT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 76 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:34186751 original size:101 final size:99
Alignment explanation
Indices: 34186542--34186727 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 99
34186532 TGTTCGGTTC
*
34186542 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACGTAGTAGCCCGC
*
34186607 ACATAGTACCACACACGTGATCGAAACTATCCGGT
65 ACATAGTACCACACACGTGATCCAAACTATCCGGT
* *
34186642 ACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACGTAGTAGCCC
1 A--CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACGTAGTAGCCC
* *
34186706 GCATATAGTACTACACACGTGA
63 GCACATAGTACCACACACGTGA
34186728 CCATCACTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 5 0.06
101 38 0.49
102 35 0.45
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACGTAGTAGCCCGCA
CATAGTACCACACACGTGATCCAAACTATCCGGT
Found at i:34190435 original size:43 final size:43
Alignment explanation
Indices: 34190363--34190490 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
34190353 CGCTAGTGGT
* * *
34190363 GTTTGTGATAAAAACGCCGTTAAATGTCATGTTCTTTAGCGGA
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * *
34190406 GTTTGTGATAAAAGCGTCGCTACAGGTCATGTTCTTTAGCGGC
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * *
34190449 GTTTATCGGT-AAAGCGCCGCTAAAGGTCATGTTCTTTGGCGG
1 GTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
34190491 CATTTTCTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 71 0.97
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
Found at i:34191112 original size:39 final size:39
Alignment explanation
Indices: 34191069--34191213 Score: 254
Period size: 39 Copynumber: 3.7 Consensus size: 39
34191059 GAGTATTATA
*
34191069 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATGGTG
*
34191108 ATATATGCTTGAATGTTATGTGATTATATGATTATGGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATGGTG
34191147 ATATATGCTTGAATGTTATGTGATTATATGAGTATGGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATGGTG
* *
34191186 ATATATGCTTAAATGTTATATGATTATA
1 ATATATGCTTGAATGTTATGTGATTATA
34191214 ATTGTAATGT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (39 bp):
ATATATGCTTGAATGTTATGTGATTATATGAGTATGGTG
Found at i:34191139 original size:8 final size:8
Alignment explanation
Indices: 34191084--34191213 Score: 51
Period size: 8 Copynumber: 16.6 Consensus size: 8
34191074 TGCTTGAATG
*
34191084 TTATGTGA
1 TTATATGA
34191092 TTATATGA
1 TTATATGA
* *
34191100 GTATTGTGA
1 TTA-TATGA
*
34191109 -TATATGC
1 TTATATGA
34191116 TTGA-ATG-
1 TT-ATATGA
*
34191123 TTATGTGA
1 TTATATGA
34191131 TTATATGA
1 TTATATGA
*
34191139 TTATGGTGA
1 TTAT-ATGA
*
34191148 -TATATGC
1 TTATATGA
34191155 TTGA-ATG-
1 TT-ATATGA
*
34191162 TTATGTGA
1 TTATATGA
34191170 TTATATGA
1 TTATATGA
* *
34191178 GTATGGTGA
1 TTAT-ATGA
*
34191187 -TATATGC
1 TTATATGA
*
34191194 TTAAATG-
1 TTATATGA
34191201 TTATATGA
1 TTATATGA
34191209 TTATA
1 TTATA
34191214 ATTGTAATGT
Statistics
Matches: 91, Mismatches: 18, Indels: 26
0.67 0.13 0.19
Matches are distributed among these distances:
6 2 0.02
7 21 0.23
8 56 0.62
9 12 0.13
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (8 bp):
TTATATGA
Found at i:34191237 original size:39 final size:40
Alignment explanation
Indices: 34191069--34191234 Score: 234
Period size: 39 Copynumber: 4.2 Consensus size: 40
34191059 GAGTATTATA
*
34191069 ATATATGCTTGAATGTTATGTGATTATATGAGT-ATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTAATGGTG
*
34191108 ATATATGCTTGAATGTTATGTGATTATATGA-TTATGGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTAATGGTG
34191147 ATATATGCTTGAATGTTATGTGATTATATGAGT-ATGGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTAATGGTG
* * *
34191186 ATATATGCTTAAATGTTATATGATTATAAT-TGTAAT-GTG
1 ATATATGCTTGAATGTTATGTGATTAT-ATGAGTAATGGTG
*
34191225 ATATGTGCTT
1 ATATATGCTT
34191235 AAAAGTGAAT
Statistics
Matches: 118, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 112 0.95
40 5 0.04
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (40 bp):
ATATATGCTTGAATGTTATGTGATTATATGAGTAATGGTG
Found at i:34191259 original size:39 final size:38
Alignment explanation
Indices: 34191183--34191263 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
34191173 TATGAGTATG
* * *
34191183 GTGATATATGCTTAAATGTTATATGATTATAATTGTAA
1 GTGATATATGCTTAAAAGTAATATGATTACAATTGTAA
* *
34191221 TGTGATATGTGCTTAAAAGTGAATATGATTACCA-TGTAA
1 -GTGATATATGCTTAAAAGT-AATATGATTACAATTGTAA
34191260 GTGA
1 GTGA
34191264 ACTAGTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.11
39 22 0.61
40 10 0.28
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (38 bp):
GTGATATATGCTTAAAAGTAATATGATTACAATTGTAA
Found at i:34194852 original size:40 final size:40
Alignment explanation
Indices: 34194754--34195016 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
34194744 TCCTCGTTCA
* * * * *
34194754 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34194793 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
34194833 AATGCCTTCGGGACTTAACCCGAATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34194873 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34194913 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34194953 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34194993 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34195017 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34196688 original size:53 final size:53
Alignment explanation
Indices: 34196596--34196724 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
34196586 TCCTTAAAAT
* * *
34196596 TTCCTATATGATGCCATAACCCACTAGTTACAGTTTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
* * *
34196649 TTCCCATATGATGTCATAACCCAATAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
* *
34196702 TTTCAATATGAGGCCATAACCCA
1 TTCCAATATGATGCCATAACCCA
34196725 CCAATTATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
Found at i:34196742 original size:53 final size:53
Alignment explanation
Indices: 34196596--34196750 Score: 150
Period size: 53 Copynumber: 2.9 Consensus size: 53
34196586 TCCTTAAAAT
* * * * **
34196596 TTCCTATATGATGCCATAACCC-ACTAGTTACAGTTTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCAAC-AATTACGGTCATACACAATATGGTCTTC
* * * * * *
34196649 TTCCCATATGATGTCATAACCCAATAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGTCTTC
* * * *
34196702 TTTCAATATGAGGCCATAACCCACCAATTATGGTCATACACGATATGGT
1 TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGT
34196751 TTTTCAGCGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 85 0.99
54 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (53 bp):
TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGTCTTC
Found at i:34197820 original size:30 final size:30
Alignment explanation
Indices: 34197784--34197845 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
34197774 CCAATCGTTG
*
34197784 TCTATGCGCCCTATGAGTGCATTAGAAACA
1 TCTATGCGCCCTACGAGTGCATTAGAAACA
34197814 TCTATGCGCCCTACGAGTGCATTAGAAACA
1 TCTATGCGCCCTACGAGTGCATTAGAAACA
34197844 TC
1 TC
34197846 ATTCGGGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (30 bp):
TCTATGCGCCCTACGAGTGCATTAGAAACA
Found at i:34202964 original size:19 final size:20
Alignment explanation
Indices: 34202925--34202971 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
34202915 AGGAGCAGTT
*
34202925 TTTCAATCGATTTATAAAAG
1 TTTCAATCGAGTTATAAAAG
34202945 TTTCAATCGAGTTA-AAAAG
1 TTTCAATCGAGTTATAAAAG
34202964 TTTCAATC
1 TTTCAATC
34202972 ATTTTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTCAATCGAGTTATAAAAG
Found at i:34212461 original size:17 final size:18
Alignment explanation
Indices: 34212441--34212525 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 18
34212431 ATGATACATA
*
34212441 AAATATTTTAAA-AATTT
1 AAATATTATAAATAATTT
*
34212458 AAATATAATAAATAATTT
1 AAATATTATAAATAATTT
* *
34212476 -AATATTACTATAT-A-TG
1 AAATATTA-TAAATAATTT
34212492 AAATATT-TAAATAATTT
1 AAATATTATAAATAATTT
*
34212509 AATATAATGATAAATAA
1 AA-AT-ATTATAAATAA
34212526 ATTTTAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
15 4 0.08
16 2 0.04
17 26 0.50
18 11 0.21
19 2 0.04
20 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATATTATAAATAATTT
Found at i:34212470 original size:26 final size:26
Alignment explanation
Indices: 34212411--34212477 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
34212401 AGTAATTAAT
*
34212411 ATAAATTATTTGAAAAATTAATGATAC
1 ATAAA-TATTTTAAAAATTAATGATAC
34212438 ATAAAATATTTTAAAAATTTAAAT-ATA-
1 AT-AAATATTTTAAAAA-TT-AATGATAC
*
34212465 ATAAATAATTTAA
1 ATAAATATTTTAA
34212478 TATTACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 10 0.29
27 14 0.40
28 8 0.23
29 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (26 bp):
ATAAATATTTTAAAAATTAATGATAC
Found at i:34214369 original size:4 final size:4
Alignment explanation
Indices: 34214350--34214447 Score: 178
Period size: 4 Copynumber: 24.5 Consensus size: 4
34214340 TACTTGTTGG
* *
34214350 TACA TACG TACG TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
34214398 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
34214446 TA
1 TA
34214448 TTTAAATCTG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 92 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:34221362 original size:15 final size:15
Alignment explanation
Indices: 34221342--34221371 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34221332 TATTAGTATC
*
34221342 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
34221357 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
34221372 AAATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:34229963 original size:34 final size:34
Alignment explanation
Indices: 34229920--34229987 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
34229910 CGATGGCATT
*
34229920 CATAACTCATCGACGATTGCTATTCGCCAACTTA
1 CATAACTCATCGACGATTACTATTCGCCAACTTA
* *
34229954 CATAACTCATTGACGATTACTATTCGCTAACTTA
1 CATAACTCATCGACGATTACTATTCGCCAACTTA
34229988 ACACGACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (34 bp):
CATAACTCATCGACGATTACTATTCGCCAACTTA
Found at i:34233840 original size:14 final size:15
Alignment explanation
Indices: 34233784--34233840 Score: 84
Period size: 14 Copynumber: 4.0 Consensus size: 15
34233774 GTTTGGCAGT
34233784 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
34233798 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
34233812 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
34233827 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
34233841 TGTTTGGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:34233901 original size:32 final size:32
Alignment explanation
Indices: 34233815--34233901 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
34233805 TTTTTGGAAA
*
34233815 ATGATTTACTGGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCT-GAAAATATTTTCTGGTGTTTGG
* * *
34233848 ATGA-ATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGGTGTTTGG
34233881 CA-GATTTCCTGAAAATATTTT
1 -ATGATTTCCTGAAAATATTTT
34233902 TCTGAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
32 12 0.27
33 29 0.66
34 3 0.07
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
Found at i:34234050 original size:38 final size:38
Alignment explanation
Indices: 34233934--34234052 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 38
34233924 TATTAATATT
*
34233934 ATATATTAATAATTTTTTATATTTTTAATTGTTTTTAC
1 ATATATTAATAATTTTTTATATTTTAAATTGTTTTTAC
* * * ** *
34233972 ATATATTGCAATGATTTTGTTGT-TTTTACA----TCATAT
1 ATATATT--AATAATTTT-TTATATTTTAAATTGTTTTTAC
*
34234008 ATATATTAATAAATTTTTATATTTTAAATTGTTTTTAC
1 ATATATTAATAATTTTTTATATTTTAAATTGTTTTTAC
34234046 ATATATT
1 ATATATT
34234053 GTAATGATTT
Statistics
Matches: 59, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
33 3 0.05
34 13 0.22
36 10 0.17
38 17 0.29
40 13 0.22
41 3 0.05
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (38 bp):
ATATATTAATAATTTTTTATATTTTAAATTGTTTTTAC
Found at i:34235338 original size:35 final size:36
Alignment explanation
Indices: 34235292--34235360 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
34235282 TGTCAGTCGT
34235292 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
34235327 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
34235361 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:34237173 original size:33 final size:33
Alignment explanation
Indices: 34237136--34237202 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
34237126 TGCAATCGTT
34237136 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
* * *
34237169 AGGGTGAAGAGAGTGAAGAGATGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
34237202 A
1 A
34237203 ATGTCTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.43, T:0.13
Consensus pattern (33 bp):
AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
Found at i:34244551 original size:13 final size:13
Alignment explanation
Indices: 34244533--34244563 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34244523 AGAGAATGCG
*
34244533 TAAAACATATCTT
1 TAAAACATAACTT
34244546 TAAAACATAACTT
1 TAAAACATAACTT
34244559 TAAAA
1 TAAAA
34244564 ACGTATACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATAACTT
Found at i:34245717 original size:27 final size:27
Alignment explanation
Indices: 34245651--34245751 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
34245641 AACATGTTAG
* * *
34245651 GAAA-GAAAATCCTTTATGGTGTAAAAT
1 GAAAGGAAAA-CCTTTGTGGCGTAATAT
*
34245678 GAAAGAAAAACCTTTGTGGCGTAATAT
1 GAAAGGAAAACCTTTGTGGCGTAATAT
* * *
34245705 GAAAGGAACACCTCTGTAGG-ATAATAT
1 GAAAGGAAAACCTTTGT-GGCGTAATAT
*
34245732 GAAA-GAATAGCCTTTGTGGC
1 GAAAGGAA-AACCTTTGTGGC
34245752 AAACTCTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 5 0.08
27 48 0.81
28 6 0.10
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAAGGAAAACCTTTGTGGCGTAATAT
Found at i:34248951 original size:50 final size:50
Alignment explanation
Indices: 34248661--34248951 Score: 295
Period size: 50 Copynumber: 5.9 Consensus size: 50
34248651 GATAATAACA
* ** *
34248661 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATCT-CGG
* * * ** ** * *
34248710 TG-CAATGCTATATCCCAGATGTGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * ** *
34248759 TGCCCACGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
34248809 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACATCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * **
34248859 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
34248909 TGCCAACGCCATGTCCCAGACAAGGTCTTACA-GGAGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTT
34248952 TACCCAAATG
Statistics
Matches: 203, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
47 1 0.00
48 33 0.16
49 7 0.03
50 162 0.80
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:34253133 original size:24 final size:24
Alignment explanation
Indices: 34253105--34253154 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
34253095 ACATGCTGAA
34253105 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
34253129 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
34253153 CA
1 CA
34253155 AATTCTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40
Consensus pattern (24 bp):
CATTTTTCCCTTCTATGACAACAT
Found at i:34256061 original size:29 final size:29
Alignment explanation
Indices: 34256019--34256089 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
34256009 AAAGAGGGGA
** * * *
34256019 AAGTATCCATCAAGCGAAGTTCGCAAATC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
* *
34256048 AAGTATCCGCCAAGTGAAATCCACAAGTC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
*
34256077 ACGTATCCGCCAA
1 AAGTATCCGCCAA
34256090 ATGCGCCTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (29 bp):
AAGTATCCGCCAAGCGAAATCCACAAATC
Found at i:34260430 original size:91 final size:91
Alignment explanation
Indices: 34260272--34260453 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
34260262 TCTTTTCATT
* * *
34260272 AATTTCCATATCAAATATTAACTTTTCCTTCATAAGAATCATTTATCTAACTCATTTTTCAATTT
1 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
34260337 TCTAGTCAATTCACTATATCCGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
*
34260363 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTTAAATT
1 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
*
34260428 TCTAGTCAATTCACTATATCTGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
34260454 TTGAATAATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (91 bp):
AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
TCTAGTCAATTCACTATATCCGCTTC
Found at i:34273129 original size:27 final size:26
Alignment explanation
Indices: 34273062--34273159 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
34273052 TAATGAGATT
34273062 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATT-AA
*
34273089 ATGCACTAAGTGTGCGAGTATAATGTAA
1 A-GCACTAAGTGTGCGAGTTTAAT-TAA
*
34273117 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTA--A
34273145 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34273160 TACTTATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTAATTAA
Found at i:34274212 original size:47 final size:47
Alignment explanation
Indices: 34274146--34274433 Score: 348
Period size: 47 Copynumber: 6.1 Consensus size: 47
34274136 CCAAATTTGA
34274146 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* *
34274192 TGTCCAATTTTGAATGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
34274239 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
34274286 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * *
34274333 TGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * ** *
34274380 TGTCC-ATTTTGAGCAGATT-ATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGC
34274427 TGTCCAA
1 TGTCCAA
34274434 AACAGGGTTG
Statistics
Matches: 219, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 35 0.16
47 182 0.83
48 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:34275266 original size:15 final size:14
Alignment explanation
Indices: 34275245--34275284 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
34275235 GAAATAGGCA
34275245 AGAAGAAGGAAAAG
1 AGAAGAAGGAAAAG
34275259 AGGAAGAAGGAAAAG
1 A-GAAGAAGGAAAAG
34275274 AGAACGAAGGA
1 AGAA-GAAGGA
34275285 GGTGAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.60, C:0.03, G:0.38, T:0.00
Consensus pattern (14 bp):
AGAAGAAGGAAAAG
Found at i:34286018 original size:50 final size:50
Alignment explanation
Indices: 34285945--34286132 Score: 205
Period size: 50 Copynumber: 3.6 Consensus size: 50
34285935 TCTTATACTA
* * * **
34285945 CCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
34285995 CCCATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
** ** *
34286045 CCAACACCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAATCTCAAAGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
34286101 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
34286133 AGATCTCTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 81 0.71
53 2 0.02
56 31 0.27
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:34289232 original size:25 final size:25
Alignment explanation
Indices: 34289194--34289250 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
34289184 TCATGTACAT
* *
34289194 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTATAAATCG
*
34289219 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ACGAGCTATAAATCG
34289244 GTATGCT
1 GTATGCT
34289251 TACATGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCG
Found at i:34298126 original size:21 final size:21
Alignment explanation
Indices: 34298100--34298139 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34298090 TTTAGAAACT
* *
34298100 TCTTCTTCAGCAACAACTTTC
1 TCTTCTGCAACAACAACTTTC
34298121 TCTTCTGCAACAACAACTT
1 TCTTCTGCAACAACAACTT
34298140 CTTTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (21 bp):
TCTTCTGCAACAACAACTTTC
Found at i:34305984 original size:62 final size:62
Alignment explanation
Indices: 34305887--34306011 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
34305877 ATTCAATGTA
34305887 TATCTTACCTAGCGTTACTCCTCTATTTAATCTGAGACTTAAACATGCATATTAACCTCACC
1 TATCTTACCTAGCGTTACTCCTCTATTTAATCTGAGACTTAAACATGCATATTAACCTCACC
34305949 TATCTTACCTAGCGTTACTCCTCTATTTAATCTGAGACTTAAACATGCATATTAACCTCACC
1 TATCTTACCTAGCGTTACTCCTCTATTTAATCTGAGACTTAAACATGCATATTAACCTCACC
34306011 T
1 T
34306012 TCCGATGATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (62 bp):
TATCTTACCTAGCGTTACTCCTCTATTTAATCTGAGACTTAAACATGCATATTAACCTCACC
Found at i:34308201 original size:25 final size:25
Alignment explanation
Indices: 34308149--34308243 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
34308139 TCATGTACAT
* * *
34308149 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCACACGAGCTATAAATCA
* * *
34308174 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTATAAATCA
* * *
34308199 GTATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATCA
*
34308224 GTATGCTCACACAAGCTATA
1 GTATGCTCACACGAGCTATA
34308244 GGTCAAAGTG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCA
Found at i:34312756 original size:45 final size:45
Alignment explanation
Indices: 34312686--34312771 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
34312676 AGATACTCCA
* * *
34312686 TGGATTCAGCACATAACAACTACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCTGG
*
34312731 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
34312772 TCAGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCTGG
Found at i:34312840 original size:51 final size:50
Alignment explanation
Indices: 34312773--34312968 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
34312763 CAATGATGTT
* * *
34312773 CAGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
34312824 CAATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * * *
34312875 CGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
*
34312925 CAGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
34312969 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 75 0.64
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:34312958 original size:101 final size:101
Alignment explanation
Indices: 34312780--34312964 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
34312770 GTTCAGTTCA
* *
34312780 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAATACACGTAGTAGCCTGCA
34312845 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
34312882 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCAGTGCACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAATACACGTAGTAGCCTGCA
34312946 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
34312965 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:34317005 original size:6 final size:6
Alignment explanation
Indices: 34316996--34317034 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
34316986 CACCTGCAGA
34316996 CACTAC CACTAC CACTAC CACTAC CACTAC CACTAC CAC
1 CACTAC CACTAC CACTAC CACTAC CACTAC CACTAC CAC
34317035 CACACTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (6 bp):
CACTAC
Found at i:34322565 original size:27 final size:27
Alignment explanation
Indices: 34322526--34322882 Score: 371
Period size: 27 Copynumber: 13.3 Consensus size: 27
34322516 ATTCATGGGC
* * * *
34322526 AAATAACCGAAATACCCGCAAAGGATA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
34322553 AAATGACCAAAATGCCCTCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * **
34322580 AAAT-ATTCGAAATACCCTTGAAGGGTA
1 AAATGA-CCAAAATACCCTCAAAGGGTA
** * **
34322607 AAATGACTGAAATACCTTTGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
34322634 AAATGACTAAAATACTCTCGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
34322661 AAATGACCGAAATGCCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
34322688 AAATGACCAAAATA-CCTCTAAAGGGTA
1 AAATGACCAAAATACCCTC-AAAGGGTA
* **
34322715 AAATGACTAAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
34322742 AAATGACTAAAATACCCTTAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
34322769 AAATGACTAAAATACCC-CAAAAGGGTA
1 AAATGACCAAAATACCCTC-AAAGGGTA
** *
34322796 AAATGACTGAAATACCCTCAAAGAGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
34322823 AAATGACCAAAATACCCTCGAGGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
34322850 AAATGACCAAAATACCC-CATAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
34322876 AAATGAC
1 AAATGAC
34322883 TGTTATACCC
Statistics
Matches: 285, Mismatches: 39, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.06
27 262 0.92
28 5 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:34322672 original size:81 final size:81
Alignment explanation
Indices: 34322545--34322883 Score: 412
Period size: 81 Copynumber: 4.2 Consensus size: 81
34322535 AAATACCCGC
* * * * * *
34322545 AAAGGATAAAATGACCAAAATGCCCTCAAAGGGTAAAAT-ATTCGAAATACCCTTGAAGGGTAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGA-CCAAAATACCCTCGAAGGGTAAA
** *
34322609 ATGACTGAAATACCTTT
65 ATGACCAAAATACCTCT
* * * * *
34322626 GAAGGGTAAAATGACTAAAATACTCTCGAAGGGTAAAATGACCGAAATGCCCTCGAAGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
34322691 TGACCAAAATACCTCT
66 TGACCAAAATACCTCT
** * **
34322707 AAAGGGTAAAATGACTAAAATACCCTTGAAGGGTAAAATGACTAAAATACCCTTAAAGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
* * *
34322772 TGACTAAAATACCCCA
66 TGACCAAAATACCTCT
* * *
34322788 AAAGGGTAAAATGACTGAAATACCCTCAAAGAGTAAAATGACCAAAATACCCTCGAGGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
*
34322853 TGACCAAAATACC-CC
66 TGACCAAAATACCTCT
*
34322868 ATAGGGTAAAATGACT
1 AAAGGGTAAAATGACT
34322884 GTTATACCCT
Statistics
Matches: 223, Mismatches: 34, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 16 0.07
81 206 0.92
82 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.19
Consensus pattern (81 bp):
AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
TGACCAAAATACCTCT
Found at i:34323093 original size:26 final size:26
Alignment explanation
Indices: 34323057--34323133 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 26
34323047 TTGCCACATA
34323057 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
34323083 TACTGTCACTGGGCAGCTTTGTTACGT
1 TACTGTTACT-GGCAGCTTTGCTGCGT
* * *
34323110 CACTATTACTGGCAGCTTTACTGC
1 TACTGTTACTGGCAGCTTTGCTGC
34323134 AATATTGGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:34323283 original size:28 final size:30
Alignment explanation
Indices: 34323251--34323320 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
34323241 CTGATTATTG
*
34323251 TATTGGGCTAAGGCTC-C-CACTGTTACTA
1 TATTGGGCTAAGGCACACACACTGTTACTA
*
34323279 TATTGGGCTAAGGCACACACACTGTTACTG
1 TATTGGGCTAAGGCACACACACTGTTACTA
*
34323309 TAATGGGCTAAG
1 TATTGGGCTAAG
34323321 TTCCACACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 15 0.41
29 1 0.03
30 21 0.57
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (30 bp):
TATTGGGCTAAGGCACACACACTGTTACTA
Found at i:34327337 original size:119 final size:120
Alignment explanation
Indices: 34327212--34327500 Score: 483
Period size: 119 Copynumber: 2.4 Consensus size: 120
34327202 AATTATTTTA
*
34327212 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * * *
34327277 ATAGTATCGTATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
34327331 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
34327395 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
34327451 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
34327501 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 108 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:34327358 original size:18 final size:18
Alignment explanation
Indices: 34327332--34327387 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
34327322 GATTATTAGA
34327332 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
34327349 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
34327365 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
34327379 ATTTTAATT
1 ATTTTAATT
34327388 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Done.