Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 42 of 138
Found at i:9249830 original size:19 final size:20
Alignment explanation
Indices: 9249803--9249843 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
9249793 TTGACCAAGT
*
9249803 TTTGTCTAATTTTG-CTTTG
1 TTTGACTAATTTTGACTTTG
9249822 TTTGACTAATTTTGACTTTG
1 TTTGACTAATTTTGACTTTG
9249842 TT
1 TT
9249844 GACAAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.61
Consensus pattern (20 bp):
TTTGACTAATTTTGACTTTG
Found at i:9249854 original size:19 final size:20
Alignment explanation
Indices: 9249813--9249855 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9249803 TTTGTCTAAT
* *
9249813 TTTG-CTTTGTTTGACTAAT
1 TTTGACTTTGTTTGACAAAG
9249832 TTTGACTTTG-TTGACAAAG
1 TTTGACTTTGTTTGACAAAG
9249851 TTTGA
1 TTTGA
9249856 TCAGATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTGACTTTGTTTGACAAAG
Found at i:9252634 original size:18 final size:20
Alignment explanation
Indices: 9252613--9252654 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
9252603 TTATTTTTTT
*
9252613 TATAA-AATTTATTAAT-TA
1 TATAACAATTGATTAATATA
*
9252631 TATAACAATTGATTTATATA
1 TATAACAATTGATTAATATA
9252651 TATA
1 TATA
9252655 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TATAACAATTGATTAATATA
Found at i:9254856 original size:31 final size:32
Alignment explanation
Indices: 9254821--9254902 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 32
9254811 TACTCATACG
9254821 AAATTTGAAATTTAGTCTCTGTAT-TCACACA
1 AAATTTGAAATTTAGTCTCTGTATATCACACA
* *
9254852 AAATTTGAAATTTAGT-TC-GTATACTCATACG
1 AAATTTGAAATTTAGTCTCTGTATA-TCACACA
* *
9254883 AAATTTAAAATTTAATCTCT
1 AAATTTGAAATTTAGTCTCT
9254903 CAAATATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 4 0.09
30 2 0.05
31 35 0.81
32 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (32 bp):
AAATTTGAAATTTAGTCTCTGTATATCACACA
Found at i:9255400 original size:11 final size:10
Alignment explanation
Indices: 9255386--9255441 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
9255376 AAAAAAAACT
9255386 TAAAAATATTC
1 TAAAAA-ATTC
9255397 TAAAAACATT-
1 TAAAAA-ATTC
*
9255407 TTAAAAATTC
1 TAAAAAATTC
9255417 TAAAAAATTTC
1 TAAAAAA-TTC
9255428 T-AAAAATTC
1 TAAAAAATTC
9255437 TAAAA
1 TAAAA
9255442 TGATTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.18
10 19 0.49
11 13 0.33
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:9255401 original size:20 final size:19
Alignment explanation
Indices: 9255378--9255441 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 19
9255368 AAATTAAAAA
* *
9255378 AAAAAACTTAAAAATATTCT
1 AAAAAATTTTAAAA-ATTCT
9255398 AAAAACATTTTAAAAATTCT
1 AAAAA-ATTTTAAAAATTCT
9255418 AAAAAATTTCTAAAAATTCT
1 AAAAAATTT-TAAAAATTCT
9255438 AAAA
1 AAAA
9255442 TGATTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.10
20 29 0.73
21 7 0.17
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATTTTAAAAATTCT
Found at i:9255509 original size:20 final size:20
Alignment explanation
Indices: 9255464--9255509 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9255454 ACTTTTTATG
*
9255464 AATTTTTAATTTTTTTTCAA
1 AATTTTTAATTTTTATTCAA
*
9255484 ACTTTTTAGATTTTTATT-AA
1 AATTTTTA-ATTTTTATTCAA
9255504 AATTTT
1 AATTTT
9255510 AAGTTTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
AATTTTTAATTTTTATTCAA
Found at i:9255624 original size:25 final size:25
Alignment explanation
Indices: 9255587--9255634 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
9255577 TTTTCAAAAA
* * *
9255587 TTTTTAGATTTTTTCTTATTTTTAG
1 TTTTTAAAGTTTTTCTGATTTTTAG
*
9255612 TTTTTAAAGTTTTTGTGATTTTT
1 TTTTTAAAGTTTTTCTGATTTTT
9255635 TTAAACATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (25 bp):
TTTTTAAAGTTTTTCTGATTTTTAG
Found at i:9255667 original size:10 final size:10
Alignment explanation
Indices: 9255654--9255861 Score: 66
Period size: 9 Copynumber: 22.6 Consensus size: 10
9255644 AAGAAATTTT
9255654 AATTTTTATA
1 AATTTTTATA
9255664 AA--TTT-T-
1 AATTTTTATA
*
9255670 AATTTTT-TT
1 AATTTTTATA
* *
9255679 ATTTTTTAAA
1 AATTTTTATA
9255689 AATTTTTA-A
1 AATTTTTATA
9255698 AATTTTTA-A
1 AATTTTTATA
*
9255707 AATTTTCCAT-
1 AATTTT-TATA
* *
9255717 -ATTATGAT-
1 AATTTTTATA
9255725 AA-TTTTAT-
1 AATTTTTATA
* *
9255733 AATTTATAAA
1 AATTTTTATA
*
9255743 AATATTTCAT-
1 AAT-TTTTATA
9255753 -ATTTTTA--
1 AATTTTTATA
9255760 AATTTTTATA
1 AATTTTTATA
9255770 AA-TTTTA-A
1 AATTTTTATA
9255778 AATATTTTATA
1 AAT-TTTTATA
*
9255789 ATTTTTTA-A
1 AATTTTTATA
*
9255798 AATTTTTGA-G
1 AATTTTT-ATA
* *
9255808 AA-TTTCAAA
1 AATTTTTATA
9255817 AATTTTTA-A
1 AATTTTTATA
9255826 AATTTTT-TA
1 AATTTTTATA
*
9255835 GAATTTTTAGA
1 -AATTTTTATA
* *
9255846 AATTTTGAAA
1 AATTTTTATA
9255856 AATTTT
1 AATTTT
9255862 AGAAAAGTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 44
0.69 0.11 0.20
Matches are distributed among these distances:
6 2 0.01
7 1 0.01
8 30 0.20
9 59 0.39
10 53 0.35
11 7 0.05
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (10 bp):
AATTTTTATA
Found at i:9255712 original size:28 final size:28
Alignment explanation
Indices: 9255681--9255938 Score: 134
Period size: 29 Copynumber: 9.2 Consensus size: 28
9255671 ATTTTTTTAT
9255681 TTTTTAAAAATTTTTAAAATTTTTAAAA
1 TTTTTAAAAATTTTTAAAATTTTTAAAA
** * * * * *
9255709 -TTTTCCATATTATGATAA-TTTTATAA
1 TTTTTAAAAATTTTTAAAATTTTTAAAA
* * * *
9255735 TTTATAAAAATATTTCATATTTTT-AAA
1 TTTTTAAAAATTTTTAAAATTTTTAAAA
* *
9255762 TTTTTATAAA-TTTTAAAATATTTTATAA
1 TTTTTAAAAATTTTTAAAAT-TTTTAAAA
* * **
9255790 TTTTTTAAAATTTTTGAGAATTTCAAAAA
1 TTTTTAAAAATTTTT-AAAATTTTTAAAA
* *
9255819 TTTTTAAAATTTTTTAGAATTTTTAGAAA
1 TTTTTAAAAATTTTTAAAATTTTTA-AAA
* *
9255848 TTTTGAAAAATTTTAGAAAAGTTTTT--AA
1 TTTTTAAAAATTTT-TAAAA-TTTTTAAAA
* * ****
9255876 -TTTTAATATATTTTGAAAAATTTTTGTGT
1 TTTTTAA-AAATTTT-TAAAATTTTTAAAA
* *
9255905 TTTTTAGAATTTTTTAAAATTTTTAAAA
1 TTTTTAAAAATTTTTAAAATTTTTAAAA
9255933 CTTTTT
1 -TTTTT
9255939 TAAGTTTTTT
Statistics
Matches: 164, Mismatches: 52, Indels: 27
0.67 0.21 0.11
Matches are distributed among these distances:
26 13 0.08
27 44 0.27
28 43 0.26
29 47 0.29
30 12 0.07
31 5 0.03
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (28 bp):
TTTTTAAAAATTTTTAAAATTTTTAAAA
Found at i:9255745 original size:36 final size:34
Alignment explanation
Indices: 9255688--9255785 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 34
9255678 TATTTTTTAA
* *
9255688 AAATTTTTAAAATTTTTAAAATTTTCCATATTATG
1 AAATTTTTATAATTTTAAAAATTTT-CATATTATG
* *
9255723 ATAA-TTTTATAATTTATAAAAATATTTCATATTTTT
1 A-AATTTTTATAATTT-TAAAAAT-TTTCATATTATG
9255759 AAATTTTTATAAATTTTAAAATATTTT
1 AAATTTTTAT-AATTTTAAAA-ATTTT
9255786 ATAATTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
35 13 0.25
36 30 0.57
37 10 0.19
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (34 bp):
AAATTTTTATAATTTTAAAAATTTTCATATTATG
Found at i:9255812 original size:38 final size:36
Alignment explanation
Indices: 9255670--9255862 Score: 128
Period size: 38 Copynumber: 5.2 Consensus size: 36
9255660 TATAAATTTT
* * * *
9255670 AATTTTTTTATTTTTTAAAAATTTTTAAAATTTTTAA
1 AATTTTATAATTTTTT-AAAATTTTTAGAATTTTAAA
* * * *
9255707 AATTTTCCAT-A-TTATGATAA-TTTTATAATTTATAAA
1 AATTTT--ATAATTTTTTAAAATTTTTAGAATTT-TAAA
*
9255743 AATATTTCAT-A-TTTTT-AAATTTTTATAAATTTTAAA
1 AAT-TTT-ATAATTTTTTAAAATTTTTA-GAATTTTAAA
*
9255779 ATATTTTATAATTTTTTAAAATTTTTGAGAATTTCAAA
1 A-ATTTTATAATTTTTTAAAATTTTT-AGAATTTTAAA
* *
9255817 AATTTTTAAAATTTTTTAGAATTTTTAGAAATTTTGAAA
1 AA-TTTTATAATTTTTTAAAATTTTTAG-AATTTT-AAA
9255856 AATTTTA
1 AATTTTA
9255863 GAAAAGTTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
35 14 0.11
36 30 0.24
37 27 0.21
38 49 0.39
39 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (36 bp):
AATTTTATAATTTTTTAAAATTTTTAGAATTTTAAA
Found at i:9255867 original size:10 final size:9
Alignment explanation
Indices: 9255763--9255866 Score: 50
Period size: 10 Copynumber: 11.0 Consensus size: 9
9255753 ATTTTTAAAT
*
9255763 TTTTATAAA
1 TTTTAGAAA
*
9255772 TTTTAAAATA
1 TTTTAGAA-A
* *
9255782 TTTTATAATT
1 TTTTAGAA-A
9255792 TTTTA-AAA
1 TTTTAGAAA
*
9255800 TTTTTGAGAA
1 TTTTAGA-AA
* *
9255810 TTTCAAAAA
1 TTTTAGAAA
9255819 TTTTTA-AAA
1 -TTTTAGAAA
*
9255828 TTTTTTAGAAT
1 --TTTTAGAAA
9255839 TTTTAGAAA
1 TTTTAGAAA
*
9255848 TTTTGAAAAA
1 TTTT-AGAAA
9255858 TTTTAGAAA
1 TTTTAGAAA
9255867 AGTTTTTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
8 4 0.05
9 31 0.41
10 38 0.51
11 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (9 bp):
TTTTAGAAA
Found at i:9255878 original size:38 final size:37
Alignment explanation
Indices: 9255754--9255899 Score: 138
Period size: 38 Copynumber: 3.9 Consensus size: 37
9255744 ATATTTCATA
* *
9255754 TTTTTAAATTTTTATAAATTTT-AAAATATTTTATAAT
1 TTTTTAAATTTTTAGAAATTTTGAAAA-ATTTTAAAAT
*
9255791 TTTTTAAAATTTTT-GAGAA-TTTCAAAAATTTTTAAAAT
1 TTTTT-AAATTTTTAGA-AATTTTGAAAAA-TTTTAAAAT
*
9255829 TTTTTAGAATTTTTAGAAATTTTGAAAAATTTTAGAAAAG
1 TTTTTA-AATTTTTAGAAATTTTGAAAAATTTT--AAAAT
* * *
9255869 TTTTT-AATTTTAATATATTTTGAAAAATTTT
1 TTTTTAAATTTTTAGAAATTTTGAAAAATTTT
9255900 TGTGTTTTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
37 11 0.12
38 63 0.68
39 10 0.11
40 9 0.10
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (37 bp):
TTTTTAAATTTTTAGAAATTTTGAAAAATTTTAAAAT
Found at i:9255917 original size:9 final size:10
Alignment explanation
Indices: 9255904--9255959 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
9255894 AATTTTTGTG
*
9255904 TTTTTTAGAA
1 TTTTTTAAAA
9255914 TTTTTTAAAA
1 TTTTTTAAAA
9255924 -TTTTTAAAA
1 TTTTTTAAAA
*
9255933 CTTTTTT-AAG
1 -TTTTTTAAAA
**
9255943 TTTTTTTGAA
1 TTTTTTAAAA
9255953 TTTTTTA
1 TTTTTTA
9255960 TAGTTTCGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 15 0.39
10 18 0.47
11 5 0.13
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:9255964 original size:20 final size:19
Alignment explanation
Indices: 9255903--9255965 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
9255893 AAATTTTTGT
9255903 GTTTTTTAGAATTTTTTAA
1 GTTTTTTAGAATTTTTTAA
** *
9255922 AATTTTTAAAACTTTTTTAA
1 GTTTTTTAGAA-TTTTTTAA
*
9255942 GTTTTTTTGAATTTTTTATA
1 GTTTTTTAGAATTTTTTA-A
9255962 GTTT
1 GTTT
9255966 CGAAAATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (19 bp):
GTTTTTTAGAATTTTTTAA
Found at i:9255978 original size:39 final size:38
Alignment explanation
Indices: 9255754--9255979 Score: 115
Period size: 38 Copynumber: 5.9 Consensus size: 38
9255744 ATATTTCATA
* *
9255754 TTTTTAAATTTTTATAAATTTT-AAAATATTTTATAA-TT
1 TTTTTGAATTTTT-TATATTTTGAAAATATTTT-TAAGTT
** * * * * *
9255792 TTTTAAAATTTTTGAGAATTTCAAAA-ATTTTTAAAATT
1 TTTTTGAATTTTTTATATTTTGAAAATATTTTT-AAGTT
* * * * ***
9255830 TTTTAGAATTTTTAGAAATTTTGAAAA-ATTTTAGAAAAG
1 TTTTTGAATTTTT-TATATTTTGAAAATATTTT-TAAGTT
* **
9255869 TTTTT-AATTTTAATATATTTTGAAAA-ATTTTTGTGTT
1 TTTTTGAATTTT-TTATATTTTGAAAATATTTTTAAGTT
* * *
9255906 TTTTAGAATTTTTTAAAATTTTTAAAACT-TTTTTAAGTT
1 TTTTTGAATTTTTT-ATATTTTGAAAA-TATTTTTAAGTT
*
9255945 TTTTTGAATTTTTTATAGTTTCGAAAATATTTTTA
1 TTTTTGAATTTTTTATA-TTTTGAAAATATTTTTA
9255980 GATTTGGTAA
Statistics
Matches: 145, Mismatches: 31, Indels: 23
0.73 0.16 0.12
Matches are distributed among these distances:
36 1 0.01
37 17 0.12
38 71 0.49
39 56 0.39
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (38 bp):
TTTTTGAATTTTTTATATTTTGAAAATATTTTTAAGTT
Found at i:9257147 original size:31 final size:31
Alignment explanation
Indices: 9257073--9257148 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
9257063 AGAGGGTCTC
* *
9257073 AATTTTAAATTTCATGCAAGTATAGGGATTA
1 AATTTTAAATTTTATGCAAGTATAAGGATTA
9257104 AATTTTAAATTTTATGCAAGTATAAGGATTA
1 AATTTTAAATTTTATGCAAGTATAAGGATTA
9257135 AATTTTAAATTTTA
1 AATTTTAAATTTTA
9257149 ATGAGTATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (31 bp):
AATTTTAAATTTTATGCAAGTATAAGGATTA
Found at i:9268957 original size:60 final size:60
Alignment explanation
Indices: 9268810--9269021 Score: 158
Period size: 60 Copynumber: 3.5 Consensus size: 60
9268800 CTGGTTGTTC
* *** ** * * *
9268810 GTTCTGATCTC-GACTTGATCCAGATCATTTTTCAAACTTACGATTTAATCCCGATCA-TT
1 GTTCTGATCTCAG-CTTGGTCCAGATCATTTTTTTGACCAACAATTCAACCCCGATCACTT
* *** * * * **
9268869 CGTTCTGATCTCAACTCAATCCAAATCATTTTTTTTACCAACAATTCAATCTTGATCACTT
1 -GTTCTGATCTCAGCTTGGTCCAGATCATTTTTTTGACCAACAATTCAACCCCGATCACTT
* ** * * * *
9268930 GTTCTGATCTCATCTTGGTTTAGATCATTTTTTTGATCAACGATTCAACCCCGATTATTT
1 GTTCTGATCTCAGCTTGGTCCAGATCATTTTTTTGACCAACAATTCAACCCCGATCACTT
*
9268990 GTTCTTATCTCAGCTTGGTCCAGATCATTTTT
1 GTTCTGATCTCAGCTTGGTCCAGATCATTTTT
9269022 CTAACTTGTG
Statistics
Matches: 118, Mismatches: 32, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
60 116 0.98
61 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (60 bp):
GTTCTGATCTCAGCTTGGTCCAGATCATTTTTTTGACCAACAATTCAACCCCGATCACTT
Found at i:9269197 original size:3 final size:3
Alignment explanation
Indices: 9269189--9269225 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
9269179 TTATATGTAT
9269189 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9269226 TTATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9269230 original size:3 final size:3
Alignment explanation
Indices: 9269224--9269248 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9269214 AATAATATAA
9269224 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
9269249 GTTTCCTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9269593 original size:15 final size:15
Alignment explanation
Indices: 9269569--9269623 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
9269559 GGTTAAAGGA
*
9269569 TTCTGAGTTTAAAGT
1 TTCTGGGTTTAAAGT
*
9269584 TTCTGGGTTTAAAAT
1 TTCTGGGTTTAAAGT
*
9269599 TTTTGGGTTTAAAGT
1 TTCTGGGTTTAAAGT
*
9269614 TTCTAGGTTT
1 TTCTGGGTTT
9269624 GACATTTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (15 bp):
TTCTGGGTTTAAAGT
Found at i:9270031 original size:14 final size:13
Alignment explanation
Indices: 9270020--9270097 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 13
9270010 TTTTTTTTTT
9270020 TTTTCATTTTTTGA
1 TTTT-ATTTTTTGA
9270034 TTTTATTTTTTGTCA
1 TTTTATTTTTTG--A
* *
9270049 TTTTTATTTTTCAAGT
1 -TTTTATTTTT--TGA
*
9270065 TTTTATTTTTTAA
1 TTTTATTTTTTGA
*
9270078 TTTTAATTTTT-A
1 TTTTATTTTTTGA
9270090 TTTTATTT
1 TTTTATTT
9270098 CACTGATTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
12 8 0.15
13 18 0.35
14 4 0.08
15 11 0.21
16 10 0.19
18 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTATTTTTTGA
Found at i:9270037 original size:15 final size:14
Alignment explanation
Indices: 9270019--9270088 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
9270009 GTTTTTTTTT
*
9270019 TTTTTCATTTTTTGA
1 TTTTT-ATTTTTTAA
*
9270034 -TTTTATTTTTTGTCA
1 TTTTTA-TTTTT-TAA
*
9270049 TTTTTATTTTTCAA
1 TTTTTATTTTTTAA
9270063 GTTTTTATTTTTTAA
1 -TTTTTATTTTTTAA
*
9270078 TTTTAATTTTT
1 TTTTTATTTTT
9270089 ATTTTATTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.02
14 20 0.43
15 20 0.43
16 5 0.11
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTTTAA
Found at i:9270150 original size:21 final size:21
Alignment explanation
Indices: 9270126--9270169 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9270116 GCAATTTATT
*
9270126 ATTT-TTTTAATATTTTGTAAA
1 ATTTCTTTTAAT-TTTTGGAAA
*
9270147 ATTTCTTTTTATTTTTGGAAA
1 ATTTCTTTTAATTTTTGGAAA
9270168 AT
1 AT
9270170 AGCTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
ATTTCTTTTAATTTTTGGAAA
Found at i:9273811 original size:20 final size:19
Alignment explanation
Indices: 9273774--9273814 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
9273764 TCAATTTAGC
9273774 ATTTAATTAAATTAAAATA
1 ATTTAATTAAATTAAAATA
9273793 ATTTAAATTATAATT-AAATA
1 ATTT-AATTA-AATTAAAATA
9273813 AT
1 AT
9273815 GGCATCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAATTAAATTAAAATA
Found at i:9283158 original size:35 final size:35
Alignment explanation
Indices: 9283109--9283179 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
9283099 AATCTTATAA
*
9283109 ATTTTGATGTTATGAAAAAATGCTACATTTAAAAC
1 ATTTTGATGCTATGAAAAAATGCTACATTTAAAAC
9283144 ATTTTGATGCTATGAAAAAATGCTACATTTAAAAC
1 ATTTTGATGCTATGAAAAAATGCTACATTTAAAAC
9283179 A
1 A
9283180 AGAAGACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (35 bp):
ATTTTGATGCTATGAAAAAATGCTACATTTAAAAC
Found at i:9290828 original size:32 final size:33
Alignment explanation
Indices: 9290785--9290856 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
9290775 GTCAGGTTCA
*
9290785 AAAGTCCAAAAAGGAAATGACTTGGTCTT-CCC
1 AAAGTCAAAAAAGGAAATGACTTGGTCTTACCC
* *
9290817 AAAGTCAAAAAATGAAATGACTTGGTCTTAGCC
1 AAAGTCAAAAAAGGAAATGACTTGGTCTTACCC
9290850 AAAGTCA
1 AAAGTCA
9290857 GTGTTAGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 27 0.75
33 9 0.25
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (33 bp):
AAAGTCAAAAAAGGAAATGACTTGGTCTTACCC
Found at i:9300758 original size:34 final size:33
Alignment explanation
Indices: 9300710--9300891 Score: 90
Period size: 32 Copynumber: 5.6 Consensus size: 33
9300700 AAAAACATGA
* * *
9300710 AAATCACCGGGACTAAACCATAAGTTAAAAAATT
1 AAATGACCTGGACTAAACCACAAGTTAAAAAA-T
* * * *
9300744 AAATGACCTGGACTAAA--TCGAGGTATAAAA-
1 AAATGACCTGGACTAAACCACAAGTTAAAAAAT
* * *
9300774 AAATGACCAGAACTAAACCGCAAGTTAGAAAAAT
1 AAATGACCTGGACTAAACCACAAGTTA-AAAAAT
* * * * * * *
9300808 AAAT-AACTTGAGCT-GAGC-TAAGGTCAAAAAT
1 AAATGACCTGGA-CTAAACCACAAGTTAAAAAAT
* * **
9300839 AAGTGATCAAGACTAAA-CACAAGTTAAAAAATT
1 AAATGACCTGGACTAAACCACAAGTTAAAAAA-T
9300872 AAATGACCTGGACTAAACCA
1 AAATGACCTGGACTAAACCA
9300892 AGGTCGAAAA
Statistics
Matches: 104, Mismatches: 34, Indels: 20
0.66 0.22 0.13
Matches are distributed among these distances:
30 15 0.14
31 12 0.12
32 31 0.30
33 23 0.22
34 23 0.22
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.19
Consensus pattern (33 bp):
AAATGACCTGGACTAAACCACAAGTTAAAAAAT
Found at i:9300789 original size:64 final size:66
Alignment explanation
Indices: 9300720--9300919 Score: 193
Period size: 64 Copynumber: 3.1 Consensus size: 66
9300710 AAATCACCGG
* * *
9300720 GACTAAACCATAAGTTAAAAAATTAAATGACCTGGACTAAATC-GAGGT-ATAAAA-AAATGACC
1 GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAAGCTAAGGTCA-AAAATAAATGACC
9300782 -A
65 AA
* * * * *
9300783 GAACTAAACCGCAAGTTAGAAAAA-TAAAT-AACTTGAGCT-GAGCTAAGGTCAAAAATAAGTGA
1 G-ACTAAACCACAAGTTA-AAAAATTAAATGACCTGGA-CTAAAGCTAAGGTCAAAAATAAATGA
*
9300845 TCAA
63 CCAA
* * *
9300849 GACTAAA-CACAAGTTAAAAAATTAAATGACCTGGACTAAA-CCAAGGTCGAAAATAAATGATCA
1 GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAAGCTAAGGTCAAAAATAAATGACCA
9300912 A
66 A
9300913 GACTAAA
1 GACTAAA
9300920 TTGTAAGATA
Statistics
Matches: 111, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
63 13 0.12
64 72 0.65
65 24 0.22
66 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (66 bp):
GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAAGCTAAGGTCAAAAATAAATGACCA
A
Found at i:9300868 original size:31 final size:32
Alignment explanation
Indices: 9300827--9300919 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 32
9300817 GAGCTGAGCT
*
9300827 AAGGTC-AAAAATAAGTGATCAAGACTAAACAC
1 AAGGTCAAAAAATAAATGATCAAGACTAAAC-C
* * **
9300859 AA-GTTAAAAAATTAAATGACCTGGACTAAACC
1 AAGGTCAAAAAA-TAAATGATCAAGACTAAACC
*
9300891 AAGGTC-GAAAATAAATGATCAAGACTAAA
1 AAGGTCAAAAAATAAATGATCAAGACTAAA
9300920 TTGTAAGATA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
31 17 0.35
32 14 0.29
33 17 0.35
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.18
Consensus pattern (32 bp):
AAGGTCAAAAAATAAATGATCAAGACTAAACC
Found at i:9300967 original size:65 final size:64
Alignment explanation
Indices: 9300720--9300969 Score: 157
Period size: 64 Copynumber: 3.9 Consensus size: 64
9300710 AAATCACCGG
* * * * * * * *
9300720 GACTAAACCATAAGTTAAAAAATTAAATGACCTGGACTAAATCGAGGTATAAAA-AAATGA-CCA
1 GACTAAA-CACAAGATAAAAAATTAAATAACCTGGACTAAACCAAAGTAAAAAATAAATGATCAA
* * * * * * * * *
9300783 GAACTAAACCGCAAGTTAGAAAAA-TAAATAA-CTTGAGCTGAGCTAAGGTCAAAAATAAGTGAT
1 G-ACTAAA-CACAAGATA-AAAAATTAAATAACCTGGA-CTAAACCAAAGTAAAAAATAAATGAT
9300846 CAA
62 CAA
* * * **
9300849 GACTAAACACAAGTTAAAAAATTAAATGACCTGGACTAAACCAAGGTCGAAAATAAATGATCAA
1 GACTAAACACAAGATAAAAAATTAAATAACCTGGACTAAACCAAAGTAAAAAATAAATGATCAA
*** * * * *
9300913 GACTAAATTGTAAGATAAAAAATTAAATAATCTGGATTGAACTAAAGTAAAAAATAA
1 GACTAAA-CACAAGATAAAAAATTAAATAACCTGGACTAAACCAAAGTAAAAAATAA
9300970 GTTAAAAAAA
Statistics
Matches: 146, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
63 10 0.07
64 76 0.52
65 57 0.39
66 3 0.02
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (64 bp):
GACTAAACACAAGATAAAAAATTAAATAACCTGGACTAAACCAAAGTAAAAAATAAATGATCAA
Found at i:9300970 original size:129 final size:129
Alignment explanation
Indices: 9300720--9300971 Score: 305
Period size: 129 Copynumber: 2.0 Consensus size: 129
9300710 AAATCACCGG
* * * * *
9300720 GACTAAACCATAAGTTAAAAAATTAAATGACCTGGACTAAATCGAGGTATAAAAAAATGACCAGA
1 GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAACCAAGGTAGAAAAAAATGACAAGA
* * * * *
9300785 ACTAAACCGCAAGTTAGAAAAATAAATAACTTGAGCTGAGCTAAGGTCAAAAATAAGTGATCAA
66 ACTAAACCGCAAGATAGAAAAATAAATAACTGGAGCTGAACTAAAGTAAAAAATAAGTGATCAA
*
9300849 GACTAAA-CACAAGTTAAAAAATTAAATGACCTGGACTAAACCAAGGTCGAAAATAAATGATCAA
1 GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAACCAAGGTAGAAAA-AAATGA-CAA
** * *
9300913 G-ACTAAATTGTAAGATA-AAAAATTAAATAATCTGGA-TTGAACTAAAGTAAAAAATAAGT
64 GAACTAAACCGCAAGATAGAAAAA-TAAATAA-CTGGAGCTGAACTAAAGTAAAAAATAAGT
9300972 TAAAAAAATA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
128 46 0.44
129 51 0.49
130 7 0.07
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.21
Consensus pattern (129 bp):
GACTAAACCACAAGTTAAAAAATTAAATGACCTGGACTAAACCAAGGTAGAAAAAAATGACAAGA
ACTAAACCGCAAGATAGAAAAATAAATAACTGGAGCTGAACTAAAGTAAAAAATAAGTGATCAA
Found at i:9320055 original size:23 final size:23
Alignment explanation
Indices: 9320023--9320066 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9320013 TCAACGGTGT
*
9320023 GGATTGTGTTTATTTTAAAAATA
1 GGATTATGTTTATTTTAAAAATA
9320046 GGATTATGTTTATTTTAAAAA
1 GGATTATGTTTATTTTAAAAA
9320067 ATTGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (23 bp):
GGATTATGTTTATTTTAAAAATA
Found at i:9320785 original size:27 final size:25
Alignment explanation
Indices: 9320724--9320786 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
9320714 TGATAAAATA
*
9320724 AATAAATAATTATTAAATTATTTTT
1 AATAAATAATTATTAAATGATTTTT
9320749 ACA-AAA-AATTATTAAATGATTTTGTT
1 A-ATAAATAATTATTAAATGA-TTT-TT
9320775 AATAAATAATTA
1 AATAAATAATTA
9320787 AAAATTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 12 0.38
25 8 0.25
26 7 0.22
27 5 0.16
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (25 bp):
AATAAATAATTATTAAATGATTTTT
Found at i:9321351 original size:34 final size:34
Alignment explanation
Indices: 9321279--9321353 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 34
9321269 TTTATTGATT
** *
9321279 TAATATAATAAATAAATTTTATTATATAAAAAAC
1 TAATATAATAAATAAAAATTATTATATAAAAAAA
9321313 TAATA-AATAAA-AAAAATTATTATATAATAAATAA
1 TAATATAATAAATAAAAATTATTATATAA-AAA-AA
9321347 TAATATA
1 TAATATA
9321354 TATTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 14 0.40
33 9 0.26
34 11 0.31
35 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (34 bp):
TAATATAATAAATAAAAATTATTATATAAAAAAA
Found at i:9321352 original size:15 final size:15
Alignment explanation
Indices: 9321302--9321353 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9321292 AAATTTTATT
9321302 ATATAAAAAACTAATAA
1 ATATAAAAAA-TAAT-A
* * *
9321319 ATAAAAAAAATTATT
1 ATATAAAAAATAATA
*
9321334 ATATAATAAATAATA
1 ATATAAAAAATAATA
9321349 ATATA
1 ATATA
9321354 TATTAATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 16 0.57
16 3 0.11
17 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAAATAATA
Found at i:9321900 original size:29 final size:29
Alignment explanation
Indices: 9321863--9321922 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
9321853 GGTCAATAAA
* *
9321863 TTTATAATTCAAATA-CTATATTAGATATT
1 TTTAAAATTCAAATACCT-TATTAAATATT
9321892 TTTAAAATTCAAATACCTTATTAAATATT
1 TTTAAAATTCAAATACCTTATTAAATATT
9321921 TT
1 TT
9321923 ATTATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAAAATTCAAATACCTTATTAAATATT
Found at i:9323217 original size:24 final size:25
Alignment explanation
Indices: 9323149--9323218 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
9323139 AATTAAGGGA
*
9323149 ATTAATTAATTAATTTTTATTATGGTT
1 ATTATTTAATT-ATTTTTATTAT-GTT
*
9323176 A-T-TTTAA-AATTTTGTATTAT-TT
1 ATTATTTAATTATTTT-TATTATGTT
9323198 ATTATTTAATTATTTTTATTA
1 ATTATTTAATTATTTTTATTA
9323219 AAAAATTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
22 3 0.08
23 6 0.17
24 16 0.44
25 9 0.25
26 1 0.03
27 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
ATTATTTAATTATTTTTATTATGTT
Found at i:9323518 original size:14 final size:13
Alignment explanation
Indices: 9323499--9323532 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9323489 AACTTTCTCT
9323499 AAAAATTACATTTA
1 AAAAATT-CATTTA
9323513 AAAAATTCATTTA
1 AAAAATTCATTTA
*
9323526 AACAATT
1 AAAAATT
9323533 TATCAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAATTCATTTA
Found at i:9323842 original size:5 final size:5
Alignment explanation
Indices: 9323812--9323867 Score: 85
Period size: 5 Copynumber: 10.8 Consensus size: 5
9323802 AAAAATCATA
*
9323812 AAAAT AAACAC AAAAT AAAAT CAAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAA-AT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
9323864 AAAA
1 AAAA
9323868 AGAAAAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
5 38 0.81
6 9 0.19
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:9324060 original size:21 final size:22
Alignment explanation
Indices: 9324020--9324060 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9324010 TTTCTTTCCC
* *
9324020 TTCTCTCTTTCTACCCCAAAGT
1 TTCTCTCTTTCAAACCCAAAGT
9324042 TTCTCTCTTT-AAACCCAAA
1 TTCTCTCTTTCAAACCCAAA
9324061 CCCTTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.39
Consensus pattern (22 bp):
TTCTCTCTTTCAAACCCAAAGT
Found at i:9324720 original size:3 final size:3
Alignment explanation
Indices: 9324714--9324739 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9324704 TTTTTTAGAT
9324714 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9324740 TAAACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9324978 original size:20 final size:20
Alignment explanation
Indices: 9324953--9324994 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9324943 CAAAAGGCTC
*
9324953 CTCTCACCAGAGGCAACGAA
1 CTCTCACCAGAAGCAACGAA
*
9324973 CTCTCACCAGAAGCAATGAA
1 CTCTCACCAGAAGCAACGAA
9324993 CT
1 CT
9324995 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (20 bp):
CTCTCACCAGAAGCAACGAA
Found at i:9325038 original size:39 final size:40
Alignment explanation
Indices: 9324995--9325120 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
9324985 GCAATGAACT
9324995 TTAAAT-TTAAAAAGCTCATTTAACCAAAAGCAACAAACA
1 TTAAATGTTAAAAAGCTCATTTAACCAAAAGCAACAAACA
** * * * *
9325034 TTAAATGTTAAAAAGCTCAGCTAACTAAAGGTAACAAACT
1 TTAAATGTTAAAAAGCTCATTTAACCAAAAGCAACAAACA
* * * *
9325074 TTAAATGTTAAAAGGCT-TTTCTGACCAGAAGCAACAAAC-
1 TTAAATGTTAAAAAGCTCATT-TAACCAAAAGCAACAAACA
9325113 TCTAAATG
1 T-TAAATG
9325121 GCTCATTTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
39 7 0.10
40 62 0.90
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (40 bp):
TTAAATGTTAAAAAGCTCATTTAACCAAAAGCAACAAACA
Found at i:9325471 original size:22 final size:22
Alignment explanation
Indices: 9325446--9325497 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
9325436 TTATGTCGGA
*
9325446 AGGTCTTAAAGATTACGTCTAG
1 AGGTCTTAAAGATTACATCTAG
*
9325468 AGGTTTTAAAGATTACATCTAG
1 AGGTCTTAAAGATTACATCTAG
9325490 AGGTCTTA
1 AGGTCTTA
9325498 CAAATCTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (22 bp):
AGGTCTTAAAGATTACATCTAG
Found at i:9326068 original size:26 final size:26
Alignment explanation
Indices: 9326015--9326069 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
9326005 AAATGCCATA
* * *
9326015 ATGCAAATGCAAATGTCTTTCTTGTG
1 ATGCAAATGCAAATGCCTTGCTTATG
* *
9326041 ATGCGAATGCAAATGCCTTGGTTATG
1 ATGCAAATGCAAATGCCTTGCTTATG
9326067 ATG
1 ATG
9326070 TAGATAATGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (26 bp):
ATGCAAATGCAAATGCCTTGCTTATG
Found at i:9327542 original size:24 final size:24
Alignment explanation
Indices: 9327515--9327561 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9327505 TAAAATGCGT
9327515 CTTTTGATT-TTTTTAATTTTTTTG
1 CTTTT-ATTGTTTTTAATTTTTTTG
* *
9327539 CTTTTTTTGTTTTTATTTTTTTT
1 CTTTTATTGTTTTTAATTTTTTT
9327562 TGTGATGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (24 bp):
CTTTTATTGTTTTTAATTTTTTTG
Found at i:9331638 original size:15 final size:15
Alignment explanation
Indices: 9331618--9331655 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
9331608 TTGTTCCAGA
*
9331618 AAGTCAATTACTGAT
1 AAGTCAATTACTAAT
9331633 AAGTCAATTACTAAT
1 AAGTCAATTACTAAT
9331648 AAGTCAAT
1 AAGTCAAT
9331656 GTGCCCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (15 bp):
AAGTCAATTACTAAT
Found at i:9333615 original size:49 final size:51
Alignment explanation
Indices: 9333525--9333631 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 51
9333515 TTAAATAAGT
* * ** *
9333525 TCTTAAAATTTATTAAACAAATTTTAAGATTATCCTGACTTTTTAACAAAA
1 TCTTAAAAATTATTAAACAAATTTTAAGATCATCCCAACTTTCTAACAAAA
* * *
9333576 TCTTAAAAATT-TT-AACAAGTTTTAGGATCATCCCAACTTTCTAACAAGA
1 TCTTAAAAATTATTAAACAAATTTTAAGATCATCCCAACTTTCTAACAAAA
*
9333625 TCCTAAA
1 TCTTAAA
9333632 TAAAATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 35 0.74
50 2 0.04
51 10 0.21
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (51 bp):
TCTTAAAAATTATTAAACAAATTTTAAGATCATCCCAACTTTCTAACAAAA
Found at i:9334069 original size:19 final size:21
Alignment explanation
Indices: 9334047--9334089 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9334037 CGTTTAAACA
9334047 ATTTATCA-TTTT-TTATTTT
1 ATTTATCATTTTTCTTATTTT
9334066 ATTTATCATTTTTCTTATTTT
1 ATTTATCATTTTTCTTATTTT
9334087 ATT
1 ATT
9334090 ATTTTTTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTATCATTTTTCTTATTTT
Found at i:9334085 original size:16 final size:17
Alignment explanation
Indices: 9334048--9334095 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
9334038 GTTTAAACAA
* *
9334048 TTTATCATTTTTTATTTT
1 TTTATCA-TTTTTCTTAT
9334066 ATTTATCATTTTTCTTAT
1 -TTTATCATTTTTCTTAT
*
9334084 TTTATTATTTTT
1 TTTATCATTTTT
9334096 TAGCAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 8 0.31
19 7 0.27
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATCATTTTTCTTAT
Found at i:9334247 original size:15 final size:17
Alignment explanation
Indices: 9334213--9334250 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9334203 TTTTTGCATA
*
9334213 TTATATTTTTTAGGTCT
1 TTATTTTTTTTAGGTCT
9334230 TTATTTTTTTTA-GT-T
1 TTATTTTTTTTAGGTCT
9334245 TTATTT
1 TTATTT
9334251 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 2 0.10
17 11 0.55
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTTAGGTCT
Found at i:9334309 original size:15 final size:14
Alignment explanation
Indices: 9334285--9334316 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
9334275 TAGTAATAAC
9334285 ATAAAATAACAATA
1 ATAAAATAACAATA
9334299 ATAACAATAACAATA
1 ATAA-AATAACAATA
9334314 ATA
1 ATA
9334317 TCATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAATAACAATA
Found at i:9335205 original size:3 final size:3
Alignment explanation
Indices: 9335199--9335244 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9335189 TTTTTTTTAG
9335199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9335245 TAAACAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9337561 original size:76 final size:76
Alignment explanation
Indices: 9337469--9337618 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
9337459 CCTCTACAAT
* *
9337469 TTTGTCCCAATTATCTGTTTTGTTCATAGGTGCTTATGTTGTGTTGGAGTAGACT-TTGTTTTTA
1 TTTGTCCCAATTATCTGTTTTGTCCATAGGTGCTTATGTTGTGTTGGAGTAGACTATT-TTGTTA
9337533 ATTGGTTTTAAA
65 ATTGGTTTTAAA
9337545 TTTGTCCCAATTATCTGTTTTGTCCATAGGTGCTTATGTTGTGTTGGAGTAGACTATTTTGTTAA
1 TTTGTCCCAATTATCTGTTTTGTCCATAGGTGCTTATGTTGTGTTGGAGTAGACTATTTTGTTAA
9337610 TTGGTTTTA
66 TTGGTTTTA
9337619 TTTACTTGGA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 69 0.97
77 2 0.03
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.51
Consensus pattern (76 bp):
TTTGTCCCAATTATCTGTTTTGTCCATAGGTGCTTATGTTGTGTTGGAGTAGACTATTTTGTTAA
TTGGTTTTAAA
Found at i:9339955 original size:80 final size:80
Alignment explanation
Indices: 9339822--9339983 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
9339812 GAAATACATG
** *
9339822 TTGTGATTGCCAACAAACACAATATTTACGGAGTTTCATATATTGCATGATATGGAAAGTCTTTC
1 TTGTGATCCCCAACAAACACAATATTTACGCAGTTTCATATATTGCATGATATGGAAAGTCTTTC
9339887 TTTCTGCTAGAAAAC
66 TTTCTGCTAGAAAAC
**
9339902 TTGTGATCCCCAACAAACACAATATTTGTGCAGTTTCATATATTGCATGATATGGAAAGTCTTTC
1 TTGTGATCCCCAACAAACACAATATTTACGCAGTTTCATATATTGCATGATATGGAAAGTCTTTC
9339967 TTTCTGCTAGAAAAC
66 TTTCTGCTAGAAAAC
9339982 TT
1 TT
9339984 AGTCTTCCCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (80 bp):
TTGTGATCCCCAACAAACACAATATTTACGCAGTTTCATATATTGCATGATATGGAAAGTCTTTC
TTTCTGCTAGAAAAC
Found at i:9342109 original size:18 final size:18
Alignment explanation
Indices: 9342086--9342130 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9342076 TGAAACTTAA
*
9342086 TTGAAAAAAGAGATGGTT
1 TTGAAAAAAGAGATGGCT
*
9342104 TTGAAAATAGAGATGGCT
1 TTGAAAAAAGAGATGGCT
9342122 TTGAAAAAA
1 TTGAAAAAA
9342131 TTATAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (18 bp):
TTGAAAAAAGAGATGGCT
Found at i:9352648 original size:2 final size:2
Alignment explanation
Indices: 9352641--9352688 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
9352631 CAAAATTTTG
* *
9352641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9352683 AT AT AT
1 AT AT AT
9352689 GCTTCTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9358083 original size:24 final size:24
Alignment explanation
Indices: 9358031--9358089 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
9358021 AATAAAAATT
* *
9358031 ATAATTCAATTAATATGATTTTAC
1 ATAATTCAATTAATATGATTTAAA
*
9358055 ATAATTC-ATTAATTTGATTTAAA
1 ATAATTCAATTAATATGATTTAAA
*
9358078 ATTAATTGAATT
1 A-TAATTCAATT
9358090 GATCAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 14 0.48
24 12 0.41
25 3 0.10
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (24 bp):
ATAATTCAATTAATATGATTTAAA
Found at i:9359292 original size:69 final size:69
Alignment explanation
Indices: 9359200--9359346 Score: 222
Period size: 69 Copynumber: 2.1 Consensus size: 69
9359190 TTACCCTTTT
* * * *
9359200 TATTCATACTTCATCGTGAGAGTGTTCAAATCTAAATTAGGCCCAAATTAACTTATCATTTGTTA
1 TATTCATACTTCACCATGAGAGTGTTCAAATCTAAATCAGGCCCAAATCAACTTATCATTTGTTA
9359265 TAAG
66 TAAG
* * *
9359269 TATTCGTACTTCACCATGGGAGTGTTCAAATCTAAATCAGGCCCAAATCAACTTATTATTTGTTA
1 TATTCATACTTCACCATGAGAGTGTTCAAATCTAAATCAGGCCCAAATCAACTTATCATTTGTTA
9359334 TAAG
66 TAAG
9359338 TATTACATA
1 TATT-CATA
9359347 TCCCATCATC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
69 66 0.96
70 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (69 bp):
TATTCATACTTCACCATGAGAGTGTTCAAATCTAAATCAGGCCCAAATCAACTTATCATTTGTTA
TAAG
Found at i:9360674 original size:26 final size:26
Alignment explanation
Indices: 9360621--9360674 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
9360611 TAATGAATGC
** *
9360621 ATGAATTTGGTATATTAAACTTGGTT
1 ATGAATTCCGTATATTAAACTTGATT
* *
9360647 ATGAATTCCGTATATTGAAGTTGATT
1 ATGAATTCCGTATATTAAACTTGATT
9360673 AT
1 AT
9360675 TAACTTGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (26 bp):
ATGAATTCCGTATATTAAACTTGATT
Found at i:9364398 original size:40 final size:40
Alignment explanation
Indices: 9364317--9364398 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
9364307 TTTGGAAGTG
***
9364317 CAATAATGCGTGAGAAAGGTTATAACACCCCTATCGTGCC
1 CAATAATGCGTGAGAAAGGTTATAACACCCCTATAACGCC
* *
9364357 CAATTATGCGTGAGAAAGGTTATAGC-CCCCTCATAACGCC
1 CAATAATGCGTGAGAAAGGTTATAACACCCCT-ATAACGCC
9364397 CA
1 CA
9364399 TCTAAAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 5 0.14
40 31 0.86
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (40 bp):
CAATAATGCGTGAGAAAGGTTATAACACCCCTATAACGCC
Found at i:9364964 original size:4 final size:4
Alignment explanation
Indices: 9364955--9364982 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9364945 TTATTATTTT
9364955 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
9364983 ATGAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:9365084 original size:13 final size:13
Alignment explanation
Indices: 9365065--9365121 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
9365055 ATCAAAGATG
*
9365065 AAAATAATAATAA
1 AAAATAAAAATAA
*
9365078 TAAATAAAAATAA
1 AAAATAAAAATAA
9365091 AAAATCTAAAAATAA
1 AAAA--TAAAAATAA
*
9365106 AATAAAATAAAATAA
1 AA-AATA-AAAATAA
9365121 A
1 A
9365122 TCAAAACAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 14 0.39
14 1 0.03
15 19 0.53
16 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:9365087 original size:19 final size:19
Alignment explanation
Indices: 9365046--9365107 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
9365036 AATAATGAGT
* *
9365046 AAAATAATAATCAAAGATG
1 AAAATAATAATCAAAAATA
9365065 AAAATAATAAT-AATAAATA
1 AAAATAATAATCAA-AAATA
*
9365084 AAAATAAAAAATCTAAAAATA
1 AAAAT-AATAATC-AAAAATA
9365105 AAA
1 AAA
9365108 TAAAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 5 0.14
21 8 0.22
22 2 0.06
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAATAATAATCAAAAATA
Found at i:9365091 original size:6 final size:6
Alignment explanation
Indices: 9365046--9365121 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
9365036 AATAATGAGT
* * * *
9365046 AAAATA ATAATCA AAGATG AAAATA ATAATA ATAAATA AAAATAA AAAATCTA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA A-AAATA AAAAT-A AAAA--TA
9365099 AAAAT- AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
9365122 TCAAAACAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 15 0.27
6 21 0.38
7 14 0.25
8 5 0.09
9 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:9365740 original size:18 final size:20
Alignment explanation
Indices: 9365714--9365752 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9365704 TTCTTATTTA
*
9365714 TTTA-TTTTTACTT-TTTTT
1 TTTACTTTTGACTTATTTTT
9365732 TTTACTTTTGACTTATTTTT
1 TTTACTTTTGACTTATTTTT
9365752 T
1 T
9365753 AAAACAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTGACTTATTTTT
Found at i:9365753 original size:18 final size:17
Alignment explanation
Indices: 9365706--9365753 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
9365696 TTTCTTATTT
*
9365706 CTTATTTATTTATTTTTA
1 CTTATTT-TTTATTTTGA
*
9365724 CTTTTTTTTTTACTTTTGA
1 C-TTATTTTTTA-TTTTGA
9365743 CTTATTTTTTA
1 CTTATTTTTTA
9365754 AAACAAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (17 bp):
CTTATTTTTTATTTTGA
Found at i:9372842 original size:12 final size:11
Alignment explanation
Indices: 9372827--9372857 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9372817 AAAATGAATT
9372827 AAAAAAAAAGG
1 AAAAAAAAAGG
9372838 AAAAAAAAAGG
1 AAAAAAAAAGG
9372849 AAAAAAAAA
1 AAAAAAAAA
9372858 CCAAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:9375118 original size:59 final size:59
Alignment explanation
Indices: 9374989--9375557 Score: 444
Period size: 59 Copynumber: 9.5 Consensus size: 59
9374979 TTTAAAGCCC
* * * * * * **
9374989 AAGCCCAATCTAGCTAGTATAAAAGTTAAAG-TTCAATTAAGCTGACATAAGATAAATGTT
1 AAGCCCAATCTAGCTAGCACAAAAGTT-AAGCCT-AGTTAAGTTGGCACGAGATAAATGTT
* * * *
9375049 AAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCATGAGATAAATATC
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATGTT
* * * * *
9375108 AAGCCCAATCTAGCTGGCACAAAAGTTAAGCCCATTTAGGTTGGCACGAGATGAATGTTTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATG--TT
* ** * * * *
9375169 AAGTCCAATCTAATTGGCACAAAAGTTAAGCCTAATTAAGTTGGAACAAGATAAATGTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATGTT
* * * * * * * * * *
9375228 AAGCCTAATCTAGTTGGTACAAAAGTTAAGCCCAGTTAAGATGGCATGAGATAGATATC
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATGTT
** * * * * * * * * *
9375287 AAGCTTAATTTAGCTAGCATAAAAATTAAG-ATCGGTAAGTTGACACAAGATGAATGTTTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATG--TT
* * *
9375347 AAGCTCAATTTAGCTAGCACAAAAGTTAAG-CTAAGTTAAGTTGGCACGAGATGAATGTTTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCT-AGTTAAGTTGGCACGAGATAAATG--TT
* * * * * * * *
9375408 AAGCTCAATCTAACTAGTATAAAAGTTAAGTCC-AATTAAGTTGACGCGAGATGAATGTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAG-CCTAGTTAAGTTGGCACGAGATAAATGTT
* ** * * *
9375467 AAGTCCAATCTAATTAGCCCAAAAGTTAAGCCCAGTTAAGTTGGCAAGAGATAAATGTT
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATGTT
* *
9375526 ATGCCCAATCTAGCTAGCATAAAAGTTAAGCC
1 AAGCCCAATCTAGCTAGCACAAAAGTTAAGCC
9375558 CAAATAAGTT
Statistics
Matches: 408, Mismatches: 92, Indels: 19
0.79 0.18 0.04
Matches are distributed among these distances:
58 17 0.04
59 216 0.53
60 54 0.13
61 120 0.29
63 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (59 bp):
AAGCCCAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCACGAGATAAATGTT
Found at i:9375212 original size:27 final size:27
Alignment explanation
Indices: 9375182--9375273 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
9375172 TCCAATCTAA
9375182 TTGGCACAAAAGTTAAGCCTAATTAAG
1 TTGGCACAAAAGTTAAGCCTAATTAAG
*
9375209 TTGGAACAAGATAAATGTTAAGCCTAATCT-AG
1 TTGG--C-ACA-AAA-GTTAAGCCTAAT-TAAG
* * *
9375241 TTGGTACAAAAGTTAAGCCCAGTTAAG
1 TTGGCACAAAAGTTAAGCCTAATTAAG
*
9375268 ATGGCA
1 TTGGCA
9375274 TGAGATAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.02
27 20 0.39
28 3 0.06
29 3 0.06
30 2 0.04
31 3 0.06
32 18 0.35
33 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (27 bp):
TTGGCACAAAAGTTAAGCCTAATTAAG
Found at i:9375361 original size:60 final size:61
Alignment explanation
Indices: 9375287--9375437 Score: 196
Period size: 61 Copynumber: 2.5 Consensus size: 61
9375277 GATAGATATC
* * *
9375287 AAGCTTAATTTAGCTAGCATAAAAATTAAGAT-CGGTAAGTTGACACAAGATGAATGTTTT
1 AAGCTCAATTTAGCTAGCATAAAAGTTAAGATAAGGTAAGTTGACACAAGATGAATGTTTT
* * * * *
9375347 AAGCTCAATTTAGCTAGCACAAAAGTTAAGCTAAGTTAAGTTGGCACGAGATGAATGTTTT
1 AAGCTCAATTTAGCTAGCATAAAAGTTAAGATAAGGTAAGTTGACACAAGATGAATGTTTT
* * *
9375408 AAGCTCAATCTAACTAGTATAAAAGTTAAG
1 AAGCTCAATTTAGCTAGCATAAAAGTTAAG
9375438 TCCAATTAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 28 0.36
61 50 0.64
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (61 bp):
AAGCTCAATTTAGCTAGCATAAAAGTTAAGATAAGGTAAGTTGACACAAGATGAATGTTTT
Found at i:9375596 original size:118 final size:119
Alignment explanation
Indices: 9375038--9375627 Score: 338
Period size: 120 Copynumber: 4.9 Consensus size: 119
9375028 AGCTGACATA
* * * * ** * ** *
9375038 AGATAAATG-TTAAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCATGAGATA
1 AGATAAATGTTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTTGACGCGAGATG
* * * ** * * * *
9375102 AATATCAAGCCCAATCTAGCTGGCACAAAAGTTAAGCCCATTTAGGTTGGCACG
66 AACATTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGTTGGCAAG
* * * * * * * * *
9375156 AGATGAATGTTTTAAGTCCAATCTAATTGGCACAAAAGTTAAGCCTAATTAAGTTGGA-ACAAGA
1 AGATAAATG-TTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTT-GACGCGAGA
* ** * * * * *
9375220 TAAATGTTAAG-CCTAATCTAGTTGGTACAAAAGTTAAGCCCAGTTAAGATGGCATG
64 TGAACATTAAGTCC-AATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGTTGGCAAG
* * * ** * * * ** ** * *
9375276 AGATAGAT-ATCAAGCTTAATTTAGCTAGCATAAAAATTAAGATC-GGTAAGTTGACACAAGATG
1 AGATAAATGTTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTTGACGCGAGATG
** * ** ** *
9375339 AATGTTTTAAG-CTCAATTTAGCTAGCACAAAAGTTAAGCTAAGTTAAGTTGGCACG
66 AA--CATTAAGTC-CAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGTTGGCAAG
* * * * *
9375395 AGATGAATGTTTTAAGCTCAATCTAACTAGTATAAAAGTTAAGTCCAATTAAGTTGACGCGAGAT
1 AGATAAATG-TTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTTGACGCGAGAT
** *
9375460 GAATGTTAAGTCCAATCTAATTAGCCCAAAAGTTAAGCCCAGTTAAGTTGGCAAG
65 GAACATTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGTTGGCAAG
* *
9375515 AGATAAATG-TTATGCCCAATCTAGCTAGCATAAAAGTTAAGCCCAAATAAGTT-A-GC-ATGAA
1 AGATAAATGTTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTTGACGCGA-G-A
* * ** *
9375576 GTGAGCATTAAG-CCTAATCTAGTCGGCACAAAGATTTAAGCCCAGTTAAGTT
64 -TGAACATTAAGTCC-AATCTAATTAGCACAAA-AGTTAAGCCCAGTTAAGTT
9375628 CGTATAGATA
Statistics
Matches: 371, Mismatches: 84, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
115 1 0.00
116 5 0.01
117 19 0.05
118 89 0.24
119 67 0.18
120 144 0.39
121 29 0.08
122 17 0.05
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (119 bp):
AGATAAATGTTTAAGCCCAATCTAACTAGCATAAAAGTTAAGCCCAAATAAGTTGACGCGAGATG
AACATTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGTTGGCAAG
Found at i:9375625 original size:239 final size:238
Alignment explanation
Indices: 9375038--9375627 Score: 624
Period size: 239 Copynumber: 2.5 Consensus size: 238
9375028 AGCTGACATA
* * * *
9375038 AGATAAATGTTAAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAGTTGGCATG-AGATA
1 AGATAAATGTTAAGCCTAATCTAGCTAGCATAAAAGTTAAGCCCAGATAAGTT-GCATGAAGATG
* * * * *
9375102 AATATCAAGCCCAATCTAGCTGGCACAAAAGTTAAGCCCATTTAGGTTGGCACGAGATGAATGTT
65 AGTATTAAGCCTAATCTAGCTGGCACAAAAGTTAAGCCCAGTTAAGTTGGCACGAGATGAATGTT
* *
9375167 TTAAGTCCAATCTAATTGGCACAAAAGTTAAGCCTAATTAAGTTGGAACAAGATAAATGTTAAGC
130 TTAAGTCCAATCTAACTAGCACAAAAGTTAAGCCTAATTAAGTTGGAACAAGATAAATGTTAAGC
* * * *
9375232 CTAATCTAGTTGGTACAAAAGTTAAGCCCAGTTAAGATGGCATG
195 CTAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGATGGCAAG
* * * * * * ** * *
9375276 AGATAGATATCAAGCTTAATTTAGCTAGCATAAAAATTAAGATC-GGTAAGTTGACA-CAAGATG
1 AGATAAATGTTAAGCCTAATCTAGCTAGCATAAAAGTTAAGCCCAGATAAGTTG-CATGAAGATG
* * * **
9375339 AATGTTTTAAG-CTCAATTTAGCTAGCACAAAAGTTAAGCTAAGTTAAGTTGGCACGAGATGAAT
65 -A-GTATTAAGCCT-AATCTAGCTGGCACAAAAGTTAAGCCCAGTTAAGTTGGCACGAGATGAAT
* * * * *
9375403 GTTTTAAG-CTCAATCTAACTAGTATAAAAGTTAAGTCC-AATTAAGTT-GACGCGAGATGAATG
127 GTTTTAAGTC-CAATCTAACTAGCACAAAAGTTAAG-CCTAATTAAGTTGGA-ACAAGATAAATG
* *
9375465 TTAAGTCC-AATCTAATTAGCCCAAAAGTTAAGCCCAGTTAAGTTGGCAAG
189 TTAAG-CCTAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGATGGCAAG
* * *
9375515 AGATAAATGTTATGCCCAATCTAGCTAGCATAAAAGTTAAGCCCAAATAAGTTAGCATGAAG-TG
1 AGATAAATGTTAAGCCTAATCTAGCTAGCATAAAAGTTAAGCCCAGATAAGTT-GCATGAAGATG
* *
9375579 AGCATTAAGCCTAATCTAG-TCGGCACAAAGATTTAAGCCCAGTTAAGTT
65 AGTATTAAGCCTAATCTAGCT-GGCACAAA-AGTTAAGCCCAGTTAAGTT
9375628 CGTATAGATA
Statistics
Matches: 281, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
236 1 0.00
237 14 0.05
238 58 0.21
239 190 0.68
240 14 0.05
241 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (238 bp):
AGATAAATGTTAAGCCTAATCTAGCTAGCATAAAAGTTAAGCCCAGATAAGTTGCATGAAGATGA
GTATTAAGCCTAATCTAGCTGGCACAAAAGTTAAGCCCAGTTAAGTTGGCACGAGATGAATGTTT
TAAGTCCAATCTAACTAGCACAAAAGTTAAGCCTAATTAAGTTGGAACAAGATAAATGTTAAGCC
TAATCTAATTAGCACAAAAGTTAAGCCCAGTTAAGATGGCAAG
Found at i:9375667 original size:298 final size:297
Alignment explanation
Indices: 9375026--9375574 Score: 660
Period size: 298 Copynumber: 1.8 Consensus size: 297
9375016 AAAGTTCAAT
* * *
9375026 TAAGCTGACATAAGATAAATG-TT-AAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAG
1 TAAGTTGACACAAGATGAATGTTTCAAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAG
* * * * * *
9375089 TTGGCATGAGATAAATATCAAGCCCAATCTAGCTGGCACAAAAGTTAAGCCCATTTAGGTTGGCA
66 TTGGCACGAGATAAATATCAAGCCCAATCTAACTAGCACAAAAGTTAAGCCCAATTAAGTTGACA
* *
9375154 CGAGATGAATGTTTTAAGTCCAATCTAATTGGCACAAAAGTTAAGCCTAATTAAGTTGGAACAAG
131 CGAGATGAATG-TTTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAATTAAGTTGGAACAAG
* * * * ** *
9375219 ATAAATGTTAAGCCTAATCTAGTTGGTACAAAAGTTAAGCCCAGTTAAGATGGCATGAGATAGAT
195 ATAAATGTTAAGCCCAATCTAGCTAGCACAAAAGTTAAGCCCAAATAAGATAGCATGAGATAGAT
* * * *
9375284 ATCAAGCTTAATTTAGCTAGCATAAAAATTAAGATCGG
260 ATCAAGCCTAATCTAGCTAGCACAAAAATTAAGACCGG
* *
9375322 TAAGTTGACACAAGATGAATGTTTTAAG-CTCAATTTAGCTAGCACAAAAGTTAAG-CTAAGTTA
1 TAAGTTGACACAAGATGAATGTTTCAAGCCT-AATCTAGCTAGCACAAAAGTTAAGCCT-AGTTA
* * * * * * *
9375385 AGTTGGCACGAGATGAATGTTTTAAGCTCAATCTAACTAGTATAAAAGTTAAGTCCAATTAAGTT
64 AGTTGGCACGAGAT-AA-ATATCAAGCCCAATCTAACTAGCACAAAAGTTAAGCCCAATTAAGTT
* * *
9375450 GACGCGAGATGAATG-TTAAGTCCAATCTAATTAGCCCAAAAGTTAAGCCCAGTTAAGTTGGCAA
127 GACACGAGATGAATGTTTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAATTAAGTTGG-AA
* * * *
9375514 -GAGATAAATGTTATGCCCAATCTAGCTAGCATAAAAGTTAAGCCCAAATAAGTTAGCATGA
191 CAAGATAAATGTTAAGCCCAATCTAGCTAGCACAAAAGTTAAGCCCAAATAAGATAGCATGA
9375575 AGTGAGCATT
Statistics
Matches: 213, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
296 18 0.08
297 6 0.03
298 136 0.64
299 4 0.02
300 49 0.23
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (297 bp):
TAAGTTGACACAAGATGAATGTTTCAAGCCTAATCTAGCTAGCACAAAAGTTAAGCCTAGTTAAG
TTGGCACGAGATAAATATCAAGCCCAATCTAACTAGCACAAAAGTTAAGCCCAATTAAGTTGACA
CGAGATGAATGTTTAAGTCCAATCTAATTAGCACAAAAGTTAAGCCCAATTAAGTTGGAACAAGA
TAAATGTTAAGCCCAATCTAGCTAGCACAAAAGTTAAGCCCAAATAAGATAGCATGAGATAGATA
TCAAGCCTAATCTAGCTAGCACAAAAATTAAGACCGG
Found at i:9375964 original size:8 final size:8
Alignment explanation
Indices: 9375946--9375986 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9375936 AAAATAAAAT
9375946 AAAAATC-
1 AAAAATCA
9375953 AAAAATCA
1 AAAAATCA
9375961 AAAAATCA
1 AAAAATCA
*
9375969 AAAAA-AA
1 AAAAATCA
*
9375976 AAAAAACA
1 AAAAATCA
9375984 AAA
1 AAA
9375987 CAAAAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 13 0.43
8 17 0.57
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAATCA
Found at i:9375966 original size:15 final size:15
Alignment explanation
Indices: 9375936--9376024 Score: 65
Period size: 15 Copynumber: 5.9 Consensus size: 15
9375926 ATAGGAGTTT
9375936 AAAATAAAATAAAAATC
1 AAAA-AAAA-AAAAATC
**
9375953 AAAAATCAAAAAATC
1 AAAAAAAAAAAAATC
*
9375968 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAATC
* *
9375983 AAAACAAAAACAA--
1 AAAAAAAAAAAAATC
** *
9375996 AAAAAAATTAAAATT
1 AAAAAAAAAAAAATC
9376011 AAAAAAAATAAAAA
1 AAAAAAAA-AAAAA
9376025 AAAATGTATT
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
13 9 0.16
15 37 0.66
16 6 0.11
17 4 0.07
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAAAAAAAATC
Found at i:9375972 original size:1 final size:1
Alignment explanation
Indices: 9375968--9376028 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
9375958 TCAAAAAATC
* * * ** ** *
9375968 AAAAAAAAAAAAAACAAAACAAAAACAAAAAAAAATTAAAATTAAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9376029 TGTATTTTGA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:9375975 original size:26 final size:24
Alignment explanation
Indices: 9375936--9376024 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 24
9375926 ATAGGAGTTT
9375936 AAAATAAAATAAAAATCAAAAATCAA
1 AAAATAAAA-AAAAAT-AAAAATCAA
9375962 AAAATCAAAAAAAAA-AAAAA-CAA
1 AAAAT-AAAAAAAAATAAAAATCAA
* * *
9375985 AACA-AAAACAAAA-AAAAAT--T
1 AAAATAAAAAAAAATAAAAATCAA
*
9376005 AAAATTAAAAAAAATAAAAA
1 AAAATAAAAAAAAATAAAAA
9376025 AAAATGTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.06
21 20 0.38
22 5 0.09
23 6 0.11
24 5 0.09
26 10 0.19
27 4 0.08
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (24 bp):
AAAATAAAAAAAAATAAAAATCAA
Found at i:9376008 original size:9 final size:9
Alignment explanation
Indices: 9375960--9376027 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
9375950 ATCAAAAATC
9375960 AAAAAATCAA
1 AAAAAAT-AA
9375970 AAAAAA-AA
1 AAAAAATAA
9375978 AAAACAA-AA
1 AAAA-AATAA
* *
9375987 CAAAAACAA
1 AAAAAATAA
*
9375996 AAAAAA-AT
1 AAAAAATAA
* *
9376004 TAAAATTAA
1 AAAAAATAA
9376013 AAAAAATAA
1 AAAAAATAA
9376022 AAAAAA
1 AAAAAA
9376028 ATGTATTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 13 0.28
9 28 0.60
10 6 0.13
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:9376025 original size:26 final size:26
Alignment explanation
Indices: 9375936--9376029 Score: 86
Period size: 26 Copynumber: 3.6 Consensus size: 26
9375926 ATAGGAGTTT
* *
9375936 AAAATAAAATAAAAATCAAAAAT-CAA
1 AAAATAAAA-AAAAATAAAAAATAAAA
9375962 AAAATCAAAAAAAAA-AAAAACA-AAACA
1 AAAAT-AAAAAAAAATAAAAA-ATAAA-A
* * *
9375989 AAAACAAAAAAAAATTAAAATTAAAA
1 AAAATAAAAAAAAATAAAAAATAAAA
9376015 AAAATAAAAAAAAAT
1 AAAATAAAAAAAAAT
9376030 GTATTTTGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
25 4 0.07
26 36 0.64
27 16 0.29
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (26 bp):
AAAATAAAAAAAAATAAAAAATAAAA
Found at i:9377652 original size:39 final size:38
Alignment explanation
Indices: 9377582--9377657 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
9377572 GTTTAGGTAT
* *
9377582 TTTTTATTTTATTTTTATTTAATTTCATTTTTGTACTA
1 TTTTCATTTTATTTTTATTTAATTACATTTTTGTACTA
* *
9377620 TTTTCATTTTATTTTTTTTATAACTTAC-TTTTTTTACT
1 TTTTCATTTTATTTTTATT-TAA-TTACATTTTTGTACT
9377658 TATACATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 17 0.53
39 12 0.38
40 3 0.09
ACGTcount: A:0.20, C:0.08, G:0.01, T:0.71
Consensus pattern (38 bp):
TTTTCATTTTATTTTTATTTAATTACATTTTTGTACTA
Found at i:9380936 original size:22 final size:23
Alignment explanation
Indices: 9380901--9380949 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
9380891 TTTTATAAAT
*
9380901 AAATCTATTTAAAT-ATAT-TAA
1 AAATCTATTAAAATAATATATAA
9380922 AAATCTTATTAAAATAATATATAA
1 AAATC-TATTAAAATAATATATAA
9380946 AAAT
1 AAAT
9380950 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 4 0.17
24 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATCTATTAAAATAATATATAA
Found at i:9383904 original size:28 final size:28
Alignment explanation
Indices: 9383873--9383928 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9383863 TATTTTATTA
9383873 ATAAATAAATAT-AA-TTTTTAAAATAAAT
1 ATAAA-AAATATAAATTTTTTAAAA-AAAT
*
9383901 ATAAAAAATTTAAATTTTTTAAAAAAAT
1 ATAAAAAATATAAATTTTTTAAAAAAAT
9383929 TTACTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 11 0.44
29 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
ATAAAAAATATAAATTTTTTAAAAAAAT
Found at i:9390244 original size:385 final size:386
Alignment explanation
Indices: 9389518--9390277 Score: 1094
Period size: 385 Copynumber: 2.0 Consensus size: 386
9389508 GTTTGGATAG
* * * *
9389518 AGTTAAGGATAAAATATTGCATTTCCTGCGTTGTTTGGTTTCTTTCACACAAATAACAATGTCAT
1 AGTTAAGGAT-AAACATTGCATTTCCTGCGTGGCTTGGTTGCTTTCACACAAATAACAATGTCAT
* *
9389583 ACGAGTAGTTAGGAAAAACATATGCTAAGCGATGCATATATTTTAAGAGAAATTATTAAATACAT
65 ACGAGTAGCTAGGAAAAACATATGCTAAGCGATGCA-ATATTTTAAGAGAAATGATTAAATACAT
* * * * *
9389648 TAATATTAGAGTCCTTTAATTTCACAAATAGAATAAAAATGATAACATATATCTTTTATATGTTT
129 TAATAGTAGAGTCCTTTAATTTCACAAATAAAATAAAAATGATAACACATATCTTTTAGATATTT
* * * *
9389713 AAAAAAATAATTTAAAAAAGAAGTAAGATTATATTATTATTTTAACATCATTTGTGAAATTAAAA
194 AAAAAAATAATTTAAAAAAGAAGTAAGAATATATTATCATCTTAACATCACTTGTGAAATTAAAA
* * * * * *
9389778 AATTTTACTATCAATGTATCAAATAATTTTTTATATTTTAATAATAAAATTATTTTTGACTGTTG
259 AACTTTACTATCAATATATCAAATAATTTCTCATATTTTAATAATAAAAATATTTTTGACTGTTA
9389843 CTATATATTTAATAATAAGTAACTTTTAATATAATAAATTTTCTTTAACTTTTAATATAATAA
324 CTATATATTTAATAATAAGTAACTTTTAATATAATAAATTTTCTTTAACTTTTAATATAATAA
9389906 AGTTAAGGAT-AACATTGCATTTCCTGCGTGGCTTGGTTGCTTTCACACAAATAACAATGTCATA
1 AGTTAAGGATAAACATTGCATTTCCTGCGTGGCTTGGTTGCTTTCACACAAATAACAATGTCATA
* * * *
9389970 CGAGTAGCTAGGAAAAATATATGCTAAGTGATGC-ATATTTTAAGAGAAATGATTAAATATATTG
66 CGAGTAGCTAGGAAAAACATATGCTAAGCGATGCAATATTTTAAGAGAAATGATTAAATACATTA
** * * *
9390034 ATAGTAGAGTTTTTTAATTTCACAAATAAAATTAGAATGATTACACATATCTTTTAGATATTTAA
131 ATAGTAGAGTCCTTTAATTTCACAAATAAAATAAAAATGATAACACATATCTTTTAGATATTTAA
* * *
9390099 AAAAATAATTTTAAAAAGAAGTGAGACATATATTATCATCTTAACA-CTACTTGTGAAGTTAAAA
196 AAAAATAATTTAAAAAAGAAGTAAGA-ATATATTATCATCTTAACATC-ACTTGTGAAATTAAAA
* * * * * *
9390163 AACTTTATTATTAGTATATTAAATAATTTCTCATATTTTAATAATAAAAATGTTTTTGATTGTTA
259 AACTTTACTATCAATATATCAAATAATTTCTCATATTTTAATAATAAAAATATTTTTGACTGTTA
* *
9390228 CTGTATATTTAATAATAAGTAACTTTTAATTTAATAAATTTTCTTTAACT
324 CTATATATTTAATAATAAGTAACTTTTAATATAATAAATTTTCTTTAACT
9390278 CCTAATAATA
Statistics
Matches: 329, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
384 107 0.33
385 131 0.40
386 81 0.25
388 10 0.03
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (386 bp):
AGTTAAGGATAAACATTGCATTTCCTGCGTGGCTTGGTTGCTTTCACACAAATAACAATGTCATA
CGAGTAGCTAGGAAAAACATATGCTAAGCGATGCAATATTTTAAGAGAAATGATTAAATACATTA
ATAGTAGAGTCCTTTAATTTCACAAATAAAATAAAAATGATAACACATATCTTTTAGATATTTAA
AAAAATAATTTAAAAAAGAAGTAAGAATATATTATCATCTTAACATCACTTGTGAAATTAAAAAA
CTTTACTATCAATATATCAAATAATTTCTCATATTTTAATAATAAAAATATTTTTGACTGTTACT
ATATATTTAATAATAAGTAACTTTTAATATAATAAATTTTCTTTAACTTTTAATATAATAA
Found at i:9392401 original size:19 final size:18
Alignment explanation
Indices: 9392373--9392411 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
9392363 TAGTTTTTAG
*
9392373 TTGAATATTTTGATGATCT
1 TTGAAGATTTTGATGA-CT
9392392 TTGAAGATTTTGATGACT
1 TTGAAGATTTTGATGACT
9392410 TT
1 TT
9392412 TCAATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (18 bp):
TTGAAGATTTTGATGACT
Found at i:9392437 original size:19 final size:19
Alignment explanation
Indices: 9392413--9392449 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9392403 GATGACTTTT
9392413 CAATGAGATTTCTAGTTTC
1 CAATGAGATTTCTAGTTTC
*
9392432 CAATGAGTTTTCTAGTTT
1 CAATGAGATTTCTAGTTT
9392450 TTGACATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (19 bp):
CAATGAGATTTCTAGTTTC
Found at i:9393475 original size:47 final size:47
Alignment explanation
Indices: 9393420--9393523 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
9393410 AAATAAAAAA
* *
9393420 AAATAAAAAAG-AATTTCTAAATAGACCTAAATGGTAAAAACTTTAG
1 AAATAAAAAAGAAAATTCTAAATAGACCCAAATGGTAAAAACTTTAG
* * * *
9393466 AAATCAAAAAGAAAATTCTAAATTGACCCAAATGGTGAAAATTTTAG
1 AAATAAAAAAGAAAATTCTAAATAGACCCAAATGGTAAAAACTTTAG
9393513 AAATGAAAAAA
1 AAAT-AAAAAA
9393524 TTAAAAAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 10 0.20
47 34 0.69
48 5 0.10
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (47 bp):
AAATAAAAAAGAAAATTCTAAATAGACCCAAATGGTAAAAACTTTAG
Found at i:9393674 original size:12 final size:13
Alignment explanation
Indices: 9393644--9393668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9393634 ATATATTTTC
9393644 AATAAAAAAATAG
1 AATAAAAAAATAG
9393657 AATAAAAAAATA
1 AATAAAAAAATA
9393669 ATTAAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAAAAAATAG
Found at i:9399402 original size:31 final size:30
Alignment explanation
Indices: 9399340--9399404 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
9399330 AATAAAGAGT
* ** *
9399340 CAAAAAAAAAAAAAAGAAAAATCTTTTTCA
1 CAAAAAAAAAAAAAAAAAAAATCAATGTCA
*
9399370 CAAAAAAAAAAAACAAAAAAAATGAATGTCA
1 CAAAAAAAAAAAA-AAAAAAAATCAATGTCA
9399401 CAAA
1 CAAA
9399405 TGAGTTGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.71, C:0.11, G:0.05, T:0.14
Consensus pattern (30 bp):
CAAAAAAAAAAAAAAAAAAAATCAATGTCA
Found at i:9399761 original size:8 final size:8
Alignment explanation
Indices: 9399745--9399861 Score: 98
Period size: 8 Copynumber: 14.2 Consensus size: 8
9399735 TCAATAATGG
9399745 ATGAAAAA
1 ATGAAAAA
*
9399753 ATGAGAAA
1 ATGAAAAA
**
9399761 ATG-AGGA
1 ATGAAAAA
9399768 ATGAAAAA
1 ATGAAAAA
9399776 ATGAAAAAAAA
1 ATG---AAAAA
9399787 ATGAAAAA
1 ATGAAAAA
9399795 ATG-AAAA
1 ATGAAAAA
9399802 ATGAAAAAA
1 ATG-AAAAA
9399811 ATG-AAAA
1 ATGAAAAA
9399818 ATG-AAAA
1 ATGAAAAA
9399825 ATGAAAAA
1 ATGAAAAA
9399833 ATGGAAAATA
1 AT-GAAAA-A
*
9399843 ATATAAAAA
1 AT-GAAAAA
*
9399852 ATGTAAAA
1 ATGAAAAA
9399860 AT
1 AT
9399862 AGAGAAAAGA
Statistics
Matches: 90, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
7 25 0.28
8 35 0.39
9 15 0.17
10 7 0.08
11 8 0.09
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (8 bp):
ATGAAAAA
Found at i:9399787 original size:11 final size:11
Alignment explanation
Indices: 9399771--9399795 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9399761 ATGAGGAATG
9399771 AAAAAATGAAA
1 AAAAAATGAAA
9399782 AAAAAATGAAA
1 AAAAAATGAAA
9399793 AAA
1 AAA
9399796 TGAAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:9399790 original size:34 final size:35
Alignment explanation
Indices: 9399748--9399841 Score: 118
Period size: 34 Copynumber: 2.6 Consensus size: 35
9399738 ATAATGGATG
* **
9399748 AAAAAATGAGAAAATGAGGAATG-AAAAAATGAAA
1 AAAAAATGAAAAAATGAAAAATGAAAAAAATGAAA
9399782 AAAAAATGAAAAAATGAAAAATGAAAAAAATGAAAA
1 AAAAAATGAAAAAATGAAAAATGAAAAAAATG-AAA
*
9399818 ATGAAAAATGAAAAAATGGAAAAT
1 A--AAAAATGAAAAAATGAAAAAT
9399842 AATATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
34 20 0.38
35 8 0.15
36 4 0.08
38 20 0.38
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (35 bp):
AAAAAATGAAAAAATGAAAAATGAAAAAAATGAAA
Found at i:9399817 original size:23 final size:22
Alignment explanation
Indices: 9399749--9399861 Score: 97
Period size: 23 Copynumber: 5.0 Consensus size: 22
9399739 TAATGGATGA
* **
9399749 AAAAATGAGAAAATGAGGAATG
1 AAAAATGAAAAAATGAAAAATG
9399771 AAAAAATGAAAAAAAAATGAAAAAATG
1 -AAAAATG---AAAAAATG-AAAAATG
9399798 AAAAATGAAAAAAATGAAAAATG
1 AAAAATG-AAAAAATGAAAAATG
*
9399821 AAAAATGAAAAAATGGAAAAT-
1 AAAAATGAAAAAATGAAAAATG
*
9399842 -AATAT-AAAAAATGTAAAAAT
1 AAAAATGAAAAAATG-AAAAAT
9399862 AGAGAAAAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.10
20 9 0.11
22 13 0.16
23 21 0.27
24 9 0.11
26 14 0.18
27 5 0.06
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (22 bp):
AAAAATGAAAAAATGAAAAATG
Found at i:9399833 original size:57 final size:59
Alignment explanation
Indices: 9399748--9399861 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 59
9399738 ATAATGGATG
**
9399748 AAAAAATGAGAAAATGAGGAATGAAAAAAT-GAAAAAAAAATGAAAAAATG-AAAAATGA
1 AAAAAATGAGAAAATGAAAAATGAAAAAATGGAAAAAAAAAT-AAAAAATGTAAAAATGA
* *
9399806 AAAAAATGA-AAAATGAAAAATGAAAAAATGGAAAATAATATAAAAAATGTAAAAAT
1 AAAAAATGAGAAAATGAAAAATGAAAAAATGGAAAAAAAAATAAAAAATGTAAAAAT
9399862 AGAGAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 26 0.52
58 24 0.48
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (59 bp):
AAAAAATGAGAAAATGAAAAATGAAAAAATGGAAAAAAAAATAAAAAATGTAAAAATGA
Found at i:9399859 original size:7 final size:7
Alignment explanation
Indices: 9399749--9399832 Score: 84
Period size: 7 Copynumber: 11.7 Consensus size: 7
9399739 TAATGGATGA
9399749 AAAAATG
1 AAAAATG
9399756 AGAAAATG
1 A-AAAATG
**
9399764 AGGAATG
1 AAAAATG
9399771 AAAAAATG
1 -AAAAATG
9399779 -AAAA--
1 AAAAATG
9399783 AAAAATG
1 AAAAATG
9399790 AAAAAATG
1 -AAAAATG
9399798 AAAAATG
1 AAAAATG
9399805 AAAAAAATG
1 --AAAAATG
9399814 AAAAATG
1 AAAAATG
9399821 AAAAATG
1 AAAAATG
9399828 AAAAA
1 AAAAA
9399833 ATGGAAAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 4 0.06
6 4 0.06
7 31 0.48
8 19 0.29
9 7 0.11
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:9405708 original size:19 final size:19
Alignment explanation
Indices: 9405684--9405722 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9405674 ACGGGATAGG
9405684 GGCAAAAAAATGAAAAGAT
1 GGCAAAAAAATGAAAAGAT
**
9405703 GGCAAAAATCTGAAAAGAT
1 GGCAAAAAAATGAAAAGAT
9405722 G
1 G
9405723 ATTTGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.13
Consensus pattern (19 bp):
GGCAAAAAAATGAAAAGAT
Found at i:9406276 original size:33 final size:33
Alignment explanation
Indices: 9406206--9406276 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
9406196 GCTTGACATT
*** * *
9406206 TGCATAGCATACATTGCATTTTTTAATATTTAG
1 TGCATAGCATACATTGCATTTAAGAATATCTAA
* *
9406239 TGCATAGCATGCATTGCATTTAAGAATGTCTAA
1 TGCATAGCATACATTGCATTTAAGAATATCTAA
9406272 TGCAT
1 TGCAT
9406277 GAAGTGGGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (33 bp):
TGCATAGCATACATTGCATTTAAGAATATCTAA
Found at i:9406587 original size:45 final size:45
Alignment explanation
Indices: 9406487--9406576 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
9406477 TGTAAGATCC
*
9406487 CTAGGCACAATCTCCTATGATTTCTTCTAATAATCCATAAAACCT
1 CTAGGCATAATCTCCTATGATTTCTTCTAATAATCCATAAAACCT
* * * *
9406532 CTAGGCATAATCTCTTATTATTTCTTCTGATGATCCATAAAACCT
1 CTAGGCATAATCTCCTATGATTTCTTCTAATAATCCATAAAACCT
9406577 TTGGATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (45 bp):
CTAGGCATAATCTCCTATGATTTCTTCTAATAATCCATAAAACCT
Found at i:9406732 original size:44 final size:44
Alignment explanation
Indices: 9406593--9407074 Score: 403
Period size: 44 Copynumber: 11.1 Consensus size: 44
9406583 ATAATTATAA
* *
9406593 AGGAGCCTTATTTATTTTTC-AAAGTC-GTAAGCCTCTGTTTAG
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
** * * *
9406635 AGGAG-CTTATTTACTTTTT--AAAGTTGTTGAGACTTTGTTTAA
1 AGGAGCCTTATTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTAG
** **
9406677 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCAACTAATTAG
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * * * **
9406721 AGAAGCTTTATTTATTTTTCAAAAGTTATTAAGCCTTTACTTAG
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * * **
9406765 AAGAACTTTATTTACTTTTT--AAGGTTGTTGAGCCTCTGTTTA-
1 AGGAGCCTTATTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* *
9406807 AGGGAGCCTTATTTATTTGTC-AAAGTCATTGAGCTTCTGTTTAG
1 A-GGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
** * * * *
9406851 AGGAGCCTTATTTATTTTTCAAAAGTTGTTGAACCTTTGCTTAT
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * * * *
9406895 AAGAGCTTTATATACTTTTCAAAAGTCATTGAGCCTCTATTTAA
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * * * *
9406939 AGGAGCTTTATTTACTTTTCAAAAGTCGTTAAGCCTCTATTT-G
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* * *
9406982 AAGGAGCCTTACTTATTTTTCAAAGGTCATTGAACCTCTGTTTAG
1 -AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
* *
9407027 GGGAGCCTTATTTATTTTTC-AAAGTCA-TGAAGCCTTTGTTTAG
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTG-AGCCTCTGTTTAG
9407070 AGGAG
1 AGGAG
9407075 TTTTTATGTT
Statistics
Matches: 349, Mismatches: 78, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
41 13 0.04
42 38 0.11
43 91 0.26
44 201 0.58
45 6 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (44 bp):
AGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAG
Found at i:9407061 original size:131 final size:130
Alignment explanation
Indices: 9406593--9407074 Score: 435
Period size: 131 Copynumber: 3.7 Consensus size: 130
9406583 ATAATTATAA
* * *
9406593 AGGAGCCTTATTTATTTTTC-AAAGTC-GTAAGCCTCTGTTTAGAGGAG-CTTATTTACTTTTTA
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTAAGCCTCTGCTTAGAAGAGCCTTATTTACTTTTTA
** * * * *
9406655 AAGTTGTTGAGACTTTGTTTAAAGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCAACTAATTA
66 AAGTTCATGAGCCTCTGTTTAAAGGAGCCTTATTTA-TTTTCAAAAGTCATTGAGCATCTATTTA
9406720 G
130 G
* * * * * * *
9406721 AGAAGCTTTATTTATTTTTCAAAAGTTATTAAGCCTTTACTTAGAAGAACTTTATTTACTTTTTA
1 AGGAGCCTTATTTATTTTTCAAAAGTCATTAAGCCTCTGCTTAGAAGAGCCTTATTTACTTTTTA
* ** * * *
9406786 AGGTTGTTGAGCCTCTGTTTAAGGGAGCCTTATTTATTTGTC-AAAGTCATTGAGCTTCTGTTTA
66 AAGTTCATGAGCCTCTGTTTAAAGGAGCCTTATTTATTT-TCAAAAGTCATTGAGCATCTATTTA
9406850 G
130 G
** * * * *
9406851 AGGAGCCTTATTTATTTTTCAAAAGTTGTTGAA-CCTTTGCTTATAAGAGCTTTATATACTTTTC
1 AGGAGCCTTATTTATTTTTCAAAAGTCATT-AAGCCTCTGCTTAGAAGAGCCTTATTTACTTTT-
* * * * * *
9406915 AAAAG-TCATTGAGCCTCTATTTAAAGGAGCTTTATTTACTTTTCAAAAGTCGTTAAGCCTCTAT
64 TAAAGTTCA-TGAGCCTCTGTTTAAAGGAGCCTTATTTA-TTTTCAAAAGTCATTGAGCATCTAT
9406979 TT-G
127 TTAG
* * * **
9406982 AAGGAGCCTTACTTATTTTTCAAAGGTCATTGAA-CCTCTGTTTAGGGGAGCCTTATTTA-TTTT
1 -AGGAGCCTTATTTATTTTTCAAAAGTCATT-AAGCCTCTGCTTAGAAGAGCCTTATTTACTTTT
* *
9407045 TCAAAG-TCATGAAGCCTTTGTTTAGAGGAG
64 T-AAAGTTCATG-AGCCTCTGTTTAAAGGAG
9407075 TTTTTATGTT
Statistics
Matches: 291, Mismatches: 51, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
128 18 0.06
129 5 0.02
130 93 0.32
131 108 0.37
132 67 0.23
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (130 bp):
AGGAGCCTTATTTATTTTTCAAAAGTCATTAAGCCTCTGCTTAGAAGAGCCTTATTTACTTTTTA
AAGTTCATGAGCCTCTGTTTAAAGGAGCCTTATTTATTTTCAAAAGTCATTGAGCATCTATTTAG
Found at i:9407123 original size:8 final size:8
Alignment explanation
Indices: 9407110--9407139 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9407100 GTATGCTTAA
9407110 AAAAAAAG
1 AAAAAAAG
*
9407118 AAAAAAGG
1 AAAAAAAG
9407126 AAAAAAAG
1 AAAAAAAG
9407134 AAAAAA
1 AAAAAA
9407140 TATGTCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9407535 original size:213 final size:214
Alignment explanation
Indices: 9407168--9407598 Score: 837
Period size: 213 Copynumber: 2.0 Consensus size: 214
9407158 GATAGGGTTT
*
9407168 TTTACATCTTTGTTCAATTTTTATTTCGCATAAAATATGCAAAGAGGGATAGTTGTAGACACCAC
1 TTTACATCTTTGTTCAATTTTTATTTCGCATAAAATACGCAAAGAGGGATAGTTGTAGACACCAC
9407233 AATCTGTCTGGGGTTCTATTTGTTAATTAAATAATGAAAAAATGAAAAACAAATCAAGTGCTTTA
66 AATCTGTCTGGGGTTCTATTTGTTAATTAAATAATGAAAAAATGAAAAACAAATCAAGTGCTTTA
9407298 GTTCAAATGAAATTGTTTGTCTGGGTTTATGTTAGACC-AAAATCTAAAGGTTGAATTTAAAAGG
131 GTTCAAATGAAATTGTTTGTCTGGGTTTATGTTAGACCTAAAATCTAAAGGTTGAATTTAAAAGG
9407362 AATCGAAACTCCTTTCGAA
196 AATCGAAACTCCTTTCGAA
*
9407381 TTTACATCTTTGTTCAATTTTTATTTCGCATAAAATACGCAAAGAGGGGTAGTTGTAGACACCAC
1 TTTACATCTTTGTTCAATTTTTATTTCGCATAAAATACGCAAAGAGGGATAGTTGTAGACACCAC
9407446 AATCTGTCTGGGGTTCTATTTGTTAATTAAATAATGAAAAAATGAAAAACAAATCAAGTGCTTTA
66 AATCTGTCTGGGGTTCTATTTGTTAATTAAATAATGAAAAAATGAAAAACAAATCAAGTGCTTTA
9407511 GTTCAAATGAAATTGTTTGTCTGGGTTTATGTTAGACCTAAAATCTAAAGGTTGAATTTAAAAGG
131 GTTCAAATGAAATTGTTTGTCTGGGTTTATGTTAGACCTAAAATCTAAAGGTTGAATTTAAAAGG
9407576 AATCGAAACTCCTTTCGAA
196 AATCGAAACTCCTTTCGAA
9407595 TTTA
1 TTTA
9407599 AGGTGCTCAA
Statistics
Matches: 215, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
213 166 0.77
214 49 0.23
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (214 bp):
TTTACATCTTTGTTCAATTTTTATTTCGCATAAAATACGCAAAGAGGGATAGTTGTAGACACCAC
AATCTGTCTGGGGTTCTATTTGTTAATTAAATAATGAAAAAATGAAAAACAAATCAAGTGCTTTA
GTTCAAATGAAATTGTTTGTCTGGGTTTATGTTAGACCTAAAATCTAAAGGTTGAATTTAAAAGG
AATCGAAACTCCTTTCGAA
Found at i:9410392 original size:161 final size:161
Alignment explanation
Indices: 9409686--9410395 Score: 687
Period size: 161 Copynumber: 4.4 Consensus size: 161
9409676 ACCCTAAATG
* * * *
9409686 ATAACTTGTTCATACATATCAACTATGAAAACTAAATTCAATCATTCGGACAAGTTTAGTATCAT
1 ATAACTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCAT
* * * * * *
9409751 GTATTTAAGCTATCGAAACTGTTAAAACAAAATAATAA-TAGCAATTTTGCATTTTTGTTTTTTA
66 GTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAAG-AAATTTACATTTTTGCTTTTTA
* * * *
9409815 ACGGCACAAAATGCCCTAAACAAATATAAACA
130 ACAGCACAAAAAGCACTAAACAAACATAAACA
* * * * * * * *
9409847 TTAACTTTTTC-TCACATATCAACCGT-AGAAATCAAGTTCAATTATTCAGATAAATTTAATATC
1 ATAACTTTTTCAT-ACATATCAACTGTGA-AAACCAAGTTCAATCATTCGGACAAGTTTAGTATC
* * * * * * * *
9409910 ATGTATTGAAACTATCCAAATTGTTAAAATAGAACAATAACAACG-AATTTGCATTTTGGCTTTT
64 ATGTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAA-GAAATTTACATTTTTGCTTTT
* * * **
9409974 CAACAGCATAAAAAGTCA-TAAACAAACATTAATG
128 TAACAGCACAAAAAG-CACTAAACAAACATAAACA
* * * * * * * *
9410008 ATAAATTTTTCACATATATCAACTGTG-AAACTCAAGTTCAAACATTCGAATATGTTTAATATCA
1 ATAACTTTTTCATACATATCAACTGTGAAAAC-CAAGTTCAATCATTCGGACAAGTTTAGTATCA
* * * *
9410072 TGTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAATAATTTTACATTTTTACCTTTTA
65 TGTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAAGAAATTTACATTTTTGCTTTTTA
9410137 AC-GACACAAAAAGCACTAAACAAACATAAACA
130 ACAG-CACAAAAAGCACTAAACAAACATAAACA
* * * * * * * *
9410169 GTAACTTTTTCATATATATGAATTATGGAAACCAAATTCAATCATTCGAACAAGTTTAGTATCAT
1 ATAACTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCAT
* * * *
9410234 GTATTTAAGTTATCAAAACTGTTAAAACATAACAATTACAAGAAATTTATATTTTTGCTTTTTAA
66 GTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAAGAAATTTACATTTTTGCTTTTTAA
* *
9410299 CAGCATAAAAAGCACTAAACAAACGTAAACA
131 CAGCACAAAAAGCACTAAACAAACATAAACA
* ** * * * * *
9410330 ACAGTTTTTTCATACATATGAACCGTGAAAACCAAGTTCAATCATTTGGACAAATCTAGTATCAT
1 ATAACTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCAT
9410395 G
66 G
9410396 AAATACCAAT
Statistics
Matches: 440, Mismatches: 96, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
160 8 0.02
161 424 0.96
162 7 0.02
163 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (161 bp):
ATAACTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCAT
GTATTTAAGCTATCGAAACTGTTAAAACATAACAATAACAAGAAATTTACATTTTTGCTTTTTAA
CAGCACAAAAAGCACTAAACAAACATAAACA
Found at i:9410395 original size:322 final size:322
Alignment explanation
Indices: 9409694--9410395 Score: 786
Period size: 322 Copynumber: 2.2 Consensus size: 322
9409684 TGATAACTTG
* * *
9409694 TTCATACATATCAACTATGAAAACTAAATTCAATCATTCGGACAAGTTTAGTATCATGTATTTAA
1 TTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCATGTATTTAA
* * * * *** *
9409759 GCTATCGAAACTGTTAAAACAAAATAATAATAGCAATTTTGCATTTTTGTTTTTTAACGGCACAA
66 GCTATCGAAACTGTTAAAACAAAACAATAACAACAATTTTACATTTTTACCTTTTAACGACACAA
* * * * * * *
9409824 AATGCCCTAAACAAATATAAACATTAACTTTTTCTCACATATCAACCGTAGAAATCAAGTTCAAT
131 AAAGCACTAAACAAACATAAACAGTAACTTTTTCTCACATATCAACCATAGAAACCAAATTCAAT
* * * *
9409889 TATTCAGATAAATTTAATATCATGTATTGAAACTATCCAAATTGTTAAAATAGAACAATAACAAC
196 CATTCAGATAAATTTAATATCATGTATTGAAACTATCAAAACTGTTAAAACAGAACAATAACAAC
* * ** *
9409954 GAATTTGCATTTTGGCTTTTCAACAGCATAAAAAGTCATAAACAAACATTAATGATAAATTT
261 GAATTTACATTTTGGCTTTTCAACAGCATAAAAAGTCATAAACAAACATAAACAACAAATTT
* * * * * * *
9410016 TTCACATATATCAACTGTG-AAACTCAAGTTCAAACATTCGAATATGTTTAATATCATGTATTTA
1 TTCATACATATCAACTGTGAAAAC-CAAGTTCAATCATTCGGACAAGTTTAGTATCATGTATTTA
* *
9410080 AGCTATCGAAACTGTTAAAACATAACAATAACAATAATTTTACATTTTTACCTTTTAACGACACA
65 AGCTATCGAAACTGTTAAAACAAAACAATAACAACAATTTTACATTTTTACCTTTTAACGACACA
* * ** *
9410145 AAAAGCACTAAACAAACATAAACAGTAACTTTTTCAT-ATATATGAATTATGGAAACCAAATTCA
130 AAAAGCACTAAACAAACATAAACAGTAACTTTTTC-TCACATATCAACCATAGAAACCAAATTCA
* * ** * *
9410209 ATCATTC-GA-ACAAGTTTAGTATCATGTATTTAAGTTATCAAAACTGTTAAAACATAACAATTA
194 ATCATTCAGATA-AA-TTTAATATCATGTATTGAAACTATCAAAACTGTTAAAACAGAACAATAA
* * * * **
9410272 CAA-GAAATTTATATTTTTGCTTTTTAACAGCATAAAAAG-CACTAAACAAACGTAAACAACAGT
257 CAACG-AATTTACATTTTGGCTTTTCAACAGCATAAAAAGTCA-TAAACAAACATAAACAACAAA
9410335 TTT
320 TTT
* * * * *
9410338 TTCATACATATGAACCGTGAAAACCAAGTTCAATCATTTGGACAAATCTAGTATCATG
1 TTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCATG
9410396 AAATACCAAT
Statistics
Matches: 308, Mismatches: 65, Indels: 14
0.80 0.17 0.04
Matches are distributed among these distances:
320 1 0.00
321 11 0.04
322 291 0.94
323 5 0.02
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (322 bp):
TTCATACATATCAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTATCATGTATTTAA
GCTATCGAAACTGTTAAAACAAAACAATAACAACAATTTTACATTTTTACCTTTTAACGACACAA
AAAGCACTAAACAAACATAAACAGTAACTTTTTCTCACATATCAACCATAGAAACCAAATTCAAT
CATTCAGATAAATTTAATATCATGTATTGAAACTATCAAAACTGTTAAAACAGAACAATAACAAC
GAATTTACATTTTGGCTTTTCAACAGCATAAAAAGTCATAAACAAACATAAACAACAAATTT
Found at i:9410878 original size:7 final size:7
Alignment explanation
Indices: 9410868--9410893 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9410858 ATAACAATAA
9410868 TGGAATT
1 TGGAATT
9410875 TGGAATT
1 TGGAATT
9410882 TGGAATT
1 TGGAATT
9410889 TGGAA
1 TGGAA
9410894 GACTAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (7 bp):
TGGAATT
Found at i:9411648 original size:23 final size:23
Alignment explanation
Indices: 9411602--9411645 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9411592 GATATATTAA
*
9411602 TATGACATCACTAAAAAGTTTTC
1 TATGACACCACTAAAAAGTTTTC
9411625 TATGACACCACT-AAAAGTTTT
1 TATGACACCACTAAAAAGTTTT
9411646 TCTGGCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (23 bp):
TATGACACCACTAAAAAGTTTTC
Found at i:9412264 original size:2 final size:2
Alignment explanation
Indices: 9412259--9412287 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9412249 AACTAAACTA
9412259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9412288 CTATTAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9414853 original size:93 final size:93
Alignment explanation
Indices: 9414678--9414860 Score: 253
Period size: 93 Copynumber: 2.0 Consensus size: 93
9414668 TTTATTTTTT
* * * *
9414678 AAATTATTAAATCTTTTAACAGTTTGATAAGATTTAATTTGAAATTTAAATCCTTTAATAGTTTG
1 AAATCATTAAATCTTTCAACAGGTTGATAAGATTTAATTTGAAATTTAAATCCTATAATAGTTTG
*
9414743 ATAAGATTGAACAAAAATTTTTTTATAA
66 ATAAGATTGAACAAAAATATTTTTATAA
*
9414771 AAATCATTAAATCTTTCAATAGGTTGATAAGATTTAATTT-AAGATTTAAATCCTATAATAGTTT
1 AAATCATTAAATCTTTCAACAGGTTGATAAGATTTAATTTGAA-ATTTAAATCCTATAATAGTTT
* **
9414835 GGTAAGATT-AATTTAAAATATTTTTA
65 GATAAGATTGAA-CAAAAATATTTTTA
9414861 ATTAAATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 4 0.05
93 75 0.95
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (93 bp):
AAATCATTAAATCTTTCAACAGGTTGATAAGATTTAATTTGAAATTTAAATCCTATAATAGTTTG
ATAAGATTGAACAAAAATATTTTTATAA
Found at i:9415357 original size:29 final size:28
Alignment explanation
Indices: 9415295--9415359 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
9415285 ATAAAATGAG
*
9415295 TAAATAAAAAAAAAAGAAAACTAATTTAA
1 TAAA-AAAAAAAAAAGAAAACTAATATAA
* *
9415324 AAAAAAAAAAAACAAGAAAGCTAA-ATAA
1 TAAAAAAAAAAA-AAGAAAACTAATATAA
*
9415352 TTAAAAAA
1 TAAAAAAA
9415360 GGAAACTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (28 bp):
TAAAAAAAAAAAAAGAAAACTAATATAA
Found at i:9417646 original size:16 final size:19
Alignment explanation
Indices: 9417625--9417673 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9417615 TTTTATGTAT
9417625 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9417642 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9417660 TGTATATATTTATT
1 TGTAT-TATTTATT
9417674 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9418261 original size:31 final size:31
Alignment explanation
Indices: 9418192--9418262 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
9418182 AATTTTCAGA
* ** * *
9418192 TTCCGACGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGACGAAAATTCCGGCCAACCTTAAAGT
*
9418223 TTTCGACGAAAATTCCGGCCAACCTTAAAGT
1 TTCCGACGAAAATTCCGGCCAACCTTAAAGT
9418254 TTCCGACGA
1 TTCCGACGA
9418263 CCTGCCCAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (31 bp):
TTCCGACGAAAATTCCGGCCAACCTTAAAGT
Found at i:9418729 original size:12 final size:11
Alignment explanation
Indices: 9418707--9418753 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
9418697 TTTCTTTGAA
9418707 TTTTT-TTTAT
1 TTTTTATTTAT
*
9418717 TTCTTTGTTTAT
1 TT-TTTATTTAT
9418729 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
9418742 TTTTTATTTAT
1 TTTTTATTTAT
9418753 T
1 T
9418754 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:9419038 original size:57 final size:57
Alignment explanation
Indices: 9418832--9419400 Score: 818
Period size: 57 Copynumber: 9.7 Consensus size: 57
9418822 AAAAATTCTA
*
9418832 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
9418890 AAAAAAATATTTTGGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAA
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--C
* *
9418950 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
9419007 AAAAAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
9419064 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
* *
9419121 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGCAAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
9419183 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
9419242 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * * *
9419299 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATCGAAATTTTC
1 AAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
9419360 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9419401 CTAACAAAAA
Statistics
Matches: 467, Mismatches: 27, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
56 1 0.00
57 211 0.45
58 49 0.10
59 135 0.29
60 1 0.00
61 17 0.04
62 11 0.02
63 1 0.00
64 41 0.09
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:9419159 original size:27 final size:27
Alignment explanation
Indices: 9419071--9419159 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
9419061 TCCAAAAAAT
*
9419071 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
* * * **
9419098 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGAA-AAAGTT-GAAAGTATCA
9419128 ATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
9419155 ATTTT
1 ATTTT
9419160 CCTTAAAAGC
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 5 0.11
27 12 0.27
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.11
32 5 0.11
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGAAAAAGTTGAAAGTATCA
Found at i:9420657 original size:20 final size:21
Alignment explanation
Indices: 9420617--9420657 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9420607 CTCAAACCAT
*
9420617 ACCCTAAAACGCAACCCCTAA
1 ACCCTAAAACGCAAACCCTAA
9420638 ACCCTAAAAC-CAAACCCTAA
1 ACCCTAAAACGCAAACCCTAA
9420658 GATTCAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.10
Consensus pattern (21 bp):
ACCCTAAAACGCAAACCCTAA
Found at i:9420777 original size:19 final size:19
Alignment explanation
Indices: 9420753--9420866 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
9420743 CCTAAACCCA
9420753 AAACCCTAAACCAATCCCC
1 AAACCCTAAACCAATCCCC
* **
9420772 AAACCCTAAACTAATCCAT
1 AAACCCTAAACCAATCCCC
* * *
9420791 AAGCCATAAACCAACCCCTAAAC
1 AAACCCTAAACCAATCCC----C
* * *
9420814 AAAATCCCAAAACCAA-ACCT
1 -AAA-CCCTAAACCAATCCCC
*
9420834 AAACCCTAAACTAATCCCC
1 AAACCCTAAACCAATCCCC
*
9420853 AAACCTTAAACCAA
1 AAACCCTAAACCAA
9420867 ACCCTAAATC
Statistics
Matches: 68, Mismatches: 20, Indels: 14
0.67 0.20 0.14
Matches are distributed among these distances:
18 9 0.13
19 46 0.68
24 4 0.06
25 9 0.13
ACGTcount: A:0.48, C:0.38, G:0.01, T:0.13
Consensus pattern (19 bp):
AAACCCTAAACCAATCCCC
Found at i:9420812 original size:31 final size:29
Alignment explanation
Indices: 9420770--9420968 Score: 107
Period size: 31 Copynumber: 6.4 Consensus size: 29
9420760 AAACCAATCC
*
9420770 CCAAACCCTAAACTAATCCATAAGCCATAAA
1 CCAAACCCTAAACTAATCCA-AAACC-TAAA
* *
9420801 CCAACCCCTAAACAAAATCCCAAAACC-AAA
1 CCAAACCCTAAAC-TAAT-CCAAAACCTAAA
*
9420831 CCTAAACCCTAAACTAATCCCCAAACCTTAAA
1 CC-AAACCCTAAACTAAT-CCAAAACC-TAAA
* *
9420863 CCAAACCCTAAA-TCAAACC-AAGCTCTAAA
1 CCAAACCCTAAACT-AATCCAAAAC-CTAAA
* * ** *
9420892 CCAAACCCTTAAACCCAAACCAACCCCCAAA
1 CCAAACCC-TAAA-CTAATCCAAAACCTAAA
* * * *
9420923 CCCAAACCTTAAACCTAAACCTAAACCCAAA
1 -CCAAACCCTAAA-CTAATCCAAAACCTAAA
9420954 CCCAAACCCTCAAAC
1 -CCAAACCCT-AAAC
9420969 CTAAACAGAA
Statistics
Matches: 137, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
29 15 0.11
30 24 0.18
31 71 0.52
32 24 0.18
33 3 0.02
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (29 bp):
CCAAACCCTAAACTAATCCAAAACCTAAA
Found at i:9420837 original size:6 final size:6
Alignment explanation
Indices: 9420823--9420974 Score: 66
Period size: 6 Copynumber: 24.7 Consensus size: 6
9420813 CAAAATCCCA
* *
9420823 AAACC- AAACCT AAACCCT AAA-CT AATCCCC AAACCTT AAACC- AAACCCT
1 AAACCT AAACCT AAA-CCT AAACCT AA-ACCT AAACC-T AAACCT AAA-CCT
* * * * *
9420872 AAATC- AAACC- AAGCTCT AAACC- AAACCCTT AAACCC AAACC- AACCCCC
1 AAACCT AAACCT AAAC-CT AAACCT AAA-CC-T AAACCT AAACCT AA-ACCT
* * *
9420920 AAACCC AAACCTT AAACCT AAACCT AAACCC AAACCC AAACCCT CAAACCT
1 AAACCT AAACC-T AAACCT AAACCT AAACCT AAACCT AAA-CCT -AAACCT
9420971 AAAC
1 AAAC
9420975 AGAATGGAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
5 24 0.21
6 52 0.45
7 34 0.29
8 6 0.05
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (6 bp):
AAACCT
Done.