Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 34 of 126
Found at i:9900116 original size:16 final size:15
Alignment explanation
Indices: 9900089--9900143 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
9900079 ATTTTCATAA
9900089 ATATATATTATT-TT
1 ATATATATTATTATT
9900103 ATATATATCCTATTATT
1 ATATATAT--TATTATT
*
9900120 -TATATACTTATTATAC
1 ATATATA-TTATTAT-T
9900136 ATATATAT
1 ATATATAT
9900144 AAGTGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 11 0.32
17 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:9900740 original size:110 final size:110
Alignment explanation
Indices: 9900547--9900781 Score: 452
Period size: 110 Copynumber: 2.1 Consensus size: 110
9900537 GAAATTGAGC
*
9900547 CCTAACATATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
1 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
9900612 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
*
9900657 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAATTGAGGATATTCTTTATTCAAA
1 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
9900722 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
9900767 CCTAACGTATTGGGT
1 CCTAACGTATTGGGT
9900782 GTAGCAAGTT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 123 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (110 bp):
CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
Found at i:9901951 original size:20 final size:19
Alignment explanation
Indices: 9901913--9902039 Score: 67
Period size: 20 Copynumber: 6.4 Consensus size: 19
9901903 AATACCAACC
9901913 AATTTTTGGTAGAC-CCTCAT
1 AATTTTTGGT--ACTCCTCAT
9901933 AATTTTTGGTACTCACTCAT
1 AATTTTTGGTACTC-CTCAT
** * *
9901953 GTTTTTTGATACTTCCTTAT
1 AATTTTTGGTAC-TCCTCAT
* * * *
9901973 AAGTTTTGGTATTTCTTCAA
1 AATTTTTGGTA-CTCCTCAT
** *
9901993 AATTTTTGGTACCTTTTAAT
1 AATTTTTGGTA-CTCCTCAT
* *
9902013 ATTTTTTGGTATTCTCTCAT
1 AATTTTTGGTACTC-CTCAT
9902033 AATTTTT
1 AATTTTT
9902040 TGGCACACTA
Statistics
Matches: 78, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 72 0.92
21 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (19 bp):
AATTTTTGGTACTCCTCAT
Found at i:9902037 original size:21 final size:21
Alignment explanation
Indices: 9902013--9902098 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
9902003 ACCTTTTAAT
9902013 ATTTTTTGGTATTCTCTCATA
1 ATTTTTTGGTATTCTCTCATA
* ** * *
9902034 ATTTTTTGGCACACTATTATA
1 ATTTTTTGGTATTCTCTCATA
*
9902055 ATGTTTT-GTATT-TCTCATA
1 ATTTTTTGGTATTCTCTCATA
*
9902074 A--TTTTGGTA-TCCCTTCATA
1 ATTTTTTGGTATTCTC-TCATA
9902093 ATTTTT
1 ATTTTT
9902099 AGTATGGTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
17 5 0.10
18 4 0.08
19 12 0.25
20 2 0.04
21 25 0.52
ACGTcount: A:0.22, C:0.14, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTTTTTGGTATTCTCTCATA
Found at i:9902071 original size:40 final size:40
Alignment explanation
Indices: 9901969--9902078 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
9901959 TGATACTTCC
* * *
9901969 TTATAA-GTTTTGGTATTTCTTCA-AAATTTTTGGTACCTT
1 TTATAATGTTTTGGTATTTC-TCATAATTTTTTGGCACCTA
*
9902008 TTA-ATATTTTTTGGTATTCTCTCATAATTTTTTGGCACACTA
1 TTATA-ATGTTTTGGTATT-TCTCATAATTTTTTGGCAC-CTA
9902050 TTATAATGTTTT-GTATTTCTCATAATTTT
1 TTATAATGTTTTGGTATTTCTCATAATTTT
9902079 GGTATCCCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 25 0.42
41 18 0.30
42 11 0.18
43 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (40 bp):
TTATAATGTTTTGGTATTTCTCATAATTTTTTGGCACCTA
Found at i:9902694 original size:23 final size:25
Alignment explanation
Indices: 9902659--9902709 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
9902649 ATATAAAAAT
9902659 TTAAATAAAAAA-TAAAAAAAT-TA
1 TTAAATAAAAAATTAAAAAAATATA
** *
9902682 TTAAATACTAAATTAAAATAATATA
1 TTAAATAAAAAATTAAAAAAATATA
9902707 TTA
1 TTA
9902710 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 8 0.35
25 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAAATAAAAAATTAAAAAAATATA
Found at i:9903167 original size:20 final size:19
Alignment explanation
Indices: 9903105--9903174 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
9903095 TTGGTACAAG
9903105 CCTCATAATTTTTTATACTTC
1 CCTCAT-ATTTTTTATAC-TC
* * *
9903126 CC-CATTTTTTTTATATTT
1 CCTCATATTTTTTATACTC
*
9903144 CCTCATAATTTTTTACACTC
1 CCTCAT-ATTTTTTATACTC
9903164 CCTCATATTTT
1 CCTCATATTTT
9903175 ATGGTATGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 3 0.08
19 17 0.43
20 18 0.45
21 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.54
Consensus pattern (19 bp):
CCTCATATTTTTTATACTC
Found at i:9903212 original size:20 final size:21
Alignment explanation
Indices: 9903165--9903214 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9903155 TTTACACTCC
9903165 CTCAT-ATTTTATGGTATGCT
1 CTCATAATTTTATGGTATGCT
* *
9903185 CTCCTAATTTT-TGGTATTCT
1 CTCATAATTTTATGGTATGCT
*
9903205 TTCATAATTT
1 CTCATAATTT
9903215 GTTTTGCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (21 bp):
CTCATAATTTTATGGTATGCT
Found at i:9903652 original size:20 final size:20
Alignment explanation
Indices: 9903629--9903703 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 20
9903619 TTTAAAATAT
9903629 GAGGGATTACCAAAAATAAC
1 GAGGGATTACCAAAAATAAC
** * * *
9903649 GAGGGCGTGCAAAAAATTAC
1 GAGGGATTACCAAAAATAAC
* * * *
9903669 GTGAGATTACCAAAAAAATAT
1 GAGGGATTACCAAAAATA-AC
*
9903690 GAGGGACTACCAAA
1 GAGGGATTACCAAA
9903704 TATTGGCTCG
Statistics
Matches: 37, Mismatches: 17, Indels: 1
0.67 0.31 0.02
Matches are distributed among these distances:
20 25 0.68
21 12 0.32
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.16
Consensus pattern (20 bp):
GAGGGATTACCAAAAATAAC
Found at i:9904698 original size:48 final size:49
Alignment explanation
Indices: 9904629--9904721 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
9904619 GCATGATTTT
* * *
9904629 TTTTATCTTGAGGCGTGAATCATTTTCCTTATCGCTTTATCTTTTTTCG
1 TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTTTTCG
9904678 TTTTAT-TTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTT
1 TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTT
9904722 GACCGATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 35 0.85
49 6 0.15
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.52
Consensus pattern (49 bp):
TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTTTTCG
Found at i:9910603 original size:29 final size:29
Alignment explanation
Indices: 9910522--9910591 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
9910512 TTTAAAATTT
* * *
9910522 TTATTTAAGTCACTAAATTATCT-AAAAAA
1 TTATTTAAGTTACGAAACTAT-TAAAAAAA
9910551 TTATTTAAGTTACGAAACTATTAAAAAAA
1 TTATTTAAGTTACGAAACTATTAAAAAAA
9910580 TTATTTAAGTTA
1 TTATTTAAGTTA
9910592 TTGGATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (29 bp):
TTATTTAAGTTACGAAACTATTAAAAAAA
Found at i:9911147 original size:2 final size:2
Alignment explanation
Indices: 9911140--9911216 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
9911130 AAAGCAAAAT
9911140 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9911182 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9911217 CAAAAAAATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9912737 original size:22 final size:23
Alignment explanation
Indices: 9912710--9912754 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9912700 AGGTATCTAC
9912710 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
9912732 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
9912755 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:9912758 original size:17 final size:17
Alignment explanation
Indices: 9912736--9912788 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
9912726 ATTACAAAAT
9912736 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
9912753 CATATCATATCTATGATTG
1 CATATC-T-TCTAAGATTA
* *
9912772 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
9912789 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:9912759 original size:22 final size:22
Alignment explanation
Indices: 9912707--9912764 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
9912697 GAAAGGTATC
*
9912707 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9912728 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
9912751 TACATATCATATCT
1 TACAAATCATATCT
9912765 ATGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9918802 original size:22 final size:23
Alignment explanation
Indices: 9918775--9918819 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9918765 AGGTATCTAC
9918775 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
9918797 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
9918820 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:9918824 original size:22 final size:22
Alignment explanation
Indices: 9918772--9918829 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
9918762 GAAAGGTATC
*
9918772 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9918793 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
9918816 TACATATCATATCT
1 TACAAATCATATCT
9918830 ACGATTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9935687 original size:8 final size:8
Alignment explanation
Indices: 9935674--9935735 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
9935664 GTATAAGAAT
9935674 AAAAAATAA
1 AAAAAAT-A
9935683 AAAAAATA
1 AAAAAATA
**
9935691 GTAAAATA
1 AAAAAATA
9935699 AAAAAATA
1 AAAAAATA
* *
9935707 ATATAATA
1 AAAAAATA
*
9935715 ATAAAATAA
1 AAAAAAT-A
9935724 AATAAAATA
1 AA-AAAATA
9935733 AAA
1 AAA
9935736 GGGGTGACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
8 26 0.60
9 12 0.28
10 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAATA
Found at i:9935700 original size:5 final size:5
Alignment explanation
Indices: 9935676--9935735 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
9935666 ATAAGAATAA
* *
9935676 AAAAT AAAAA AAATAGT AAAAT -AAA- AAAAT AATAT AATAAT AAAAT
1 AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT
9935722 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
9935736 GGGGTGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 31 0.67
6 6 0.13
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:9935701 original size:16 final size:16
Alignment explanation
Indices: 9935671--9935735 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
9935661 TAAGTATAAG
9935671 AATAA-AAAATAAAAAA
1 AATAATAAAAT-AAAAA
*
9935687 AATAGTAAAATAAAAA
1 AATAATAAAATAAAAA
*
9935703 AATAATATAATAATAAA
1 AATAATAAAATAA-AAA
*
9935720 ATAAAATAAAATAAAA
1 A-ATAATAAAATAAAA
9935736 GGGGTGACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 20 0.49
17 11 0.27
18 10 0.24
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAATAAAATAAAAA
Found at i:9935702 original size:24 final size:24
Alignment explanation
Indices: 9935666--9935735 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
9935656 AAATTTAAGT
9935666 ATAAGAAT-AAAAAATAAAAAAAATA
1 ATAA-AATAAAAAAAT-AAAAAAATA
* * *
9935691 GTAAAATAAAAAAATAATATAATA
1 ATAAAATAAAAAAATAAAAAAATA
9935715 ATAAAATAAAATAAAATAAAA
1 ATAAAAT-AAA-AAAATAAAA
9935736 GGGGTGACTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 16 0.43
25 13 0.35
26 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (24 bp):
ATAAAATAAAAAAATAAAAAAATA
Found at i:9940188 original size:13 final size:13
Alignment explanation
Indices: 9940170--9940220 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
9940160 AGTTCTTCAT
9940170 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
9940183 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
9940196 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
9940209 TTCTTTTGAAAA
1 TGCTTTTGAAAA
9940221 ATTTAAGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:9942070 original size:449 final size:449
Alignment explanation
Indices: 9941232--9942127 Score: 1729
Period size: 449 Copynumber: 2.0 Consensus size: 449
9941222 CAACAGCAGC
9941232 AGGGGAAATTTCTTTCATGCATTCACTCACATAACTATAAACCAACTAGTATTTTCTAGCACAGA
1 AGGGGAAATTTCTTTCATGCATTCACTCACATAACTATAAACCAACTAGTATTTTCTAGCACAGA
9941297 TATATAAGTTTCTGATTTTTATAAATTAACAAGTACCTTTCTTGATTCTAGATAATTTAATATTC
66 TATATAAGTTTCTGATTTTTATAAATTAACAAGTACCTTTCTTGATTCTAGATAATTTAATATTC
9941362 CACACCAAAAACATCACAAGAGCAAGTTATAGTTGCTTGATTCTCATAGCAGTCTTCATGCAAAA
131 CACACCAAAAACATCACAAGAGCAAGTTATAGTTGCTTGATTCTCATAGCAGTCTTCATGCAAAA
*
9941427 CTTAACAGGGAATTTTGTAGAGGAAAAACTATGATAGATTTCATATAGGCATTTTCATCAGAGAG
196 CTTAACACGGAATTTTGTAGAGGAAAAACTATGATAGATTTCATATAGGCATTTTCATCAGAGAG
9941492 AATTACAGACCATTGCCAATAATGTGAGTTAAATCAATATGATGCATTATCTCCACCTAAGTTGG
261 AATTACAGACCATTGCCAATAATGTGAGTTAAATCAATATGATGCATTATCTCCACCTAAGTTGG
*
9941557 AGCAGAAAACTTTACAGTGATGGAGGTGGAATCTACATTACTTACAACACCGTCGATGGAGCACC
326 AGCAGAAAACTTTACAGTGATGGAGGTGGAATCTACATTACTTACAACACCCTCGATGGAGCACC
*
9941622 ATTAATCATTTATTAATCATTCACCAAACCAATAACAAGCCACTAATCCATAAAAATGG
391 ATCAATCATTTATTAATCATTCACCAAACCAATAACAAGCCACTAATCCATAAAAATGG
*
9941681 AGGGGAAATTTCTTTCATGCATTCACTCACATAACTATAAACCAACTAGTATTTTTTAGCACAGA
1 AGGGGAAATTTCTTTCATGCATTCACTCACATAACTATAAACCAACTAGTATTTTCTAGCACAGA
9941746 TATATAAGTTTCTGATTTTTATAAATTAACAAGTACCTTTCTTGATTCTAGATAATTTAATATTC
66 TATATAAGTTTCTGATTTTTATAAATTAACAAGTACCTTTCTTGATTCTAGATAATTTAATATTC
9941811 CACACCAAAAACATCACAAGAGCAAGTTATAGTTGCTTGATTCTCATAGCAGTCTTCATGCAAAA
131 CACACCAAAAACATCACAAGAGCAAGTTATAGTTGCTTGATTCTCATAGCAGTCTTCATGCAAAA
*
9941876 TTTAACACGGAATTTTGTAGAGGAAAAACTATGATAGATTTCATATAGGCATTTTCATCAGAGAG
196 CTTAACACGGAATTTTGTAGAGGAAAAACTATGATAGATTTCATATAGGCATTTTCATCAGAGAG
*
9941941 AATTACAGATCATTGCCAATAATGTGAGTTAAATCAATATGATGCATTATCTCCACCTAAGTTGG
261 AATTACAGACCATTGCCAATAATGTGAGTTAAATCAATATGATGCATTATCTCCACCTAAGTTGG
*
9942006 AGCAGAAAACTTTACAGTGATGGAGGTGGAATCTACATTACTTACAGCACCCTCGATGGAGCACC
326 AGCAGAAAACTTTACAGTGATGGAGGTGGAATCTACATTACTTACAACACCCTCGATGGAGCACC
9942071 ATCAATCATTTATTAATCATTCACCAAACCAATAACAAGCCACTAATCCATAAAAAT
391 ATCAATCATTTATTAATCATTCACCAAACCAATAACAAGCCACTAATCCATAAAAAT
9942128 TTATCTAAAA
Statistics
Matches: 440, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
449 440 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (449 bp):
AGGGGAAATTTCTTTCATGCATTCACTCACATAACTATAAACCAACTAGTATTTTCTAGCACAGA
TATATAAGTTTCTGATTTTTATAAATTAACAAGTACCTTTCTTGATTCTAGATAATTTAATATTC
CACACCAAAAACATCACAAGAGCAAGTTATAGTTGCTTGATTCTCATAGCAGTCTTCATGCAAAA
CTTAACACGGAATTTTGTAGAGGAAAAACTATGATAGATTTCATATAGGCATTTTCATCAGAGAG
AATTACAGACCATTGCCAATAATGTGAGTTAAATCAATATGATGCATTATCTCCACCTAAGTTGG
AGCAGAAAACTTTACAGTGATGGAGGTGGAATCTACATTACTTACAACACCCTCGATGGAGCACC
ATCAATCATTTATTAATCATTCACCAAACCAATAACAAGCCACTAATCCATAAAAATGG
Found at i:9942818 original size:372 final size:372
Alignment explanation
Indices: 9942133--9942875 Score: 1468
Period size: 372 Copynumber: 2.0 Consensus size: 372
9942123 AAAATTTATC
9942133 TAAAAGACCAGAACAAGAGATGACCACAAAAGTACCAATACTACCCAGTCAACTTGGAAGTCATA
1 TAAAAGACCAGAACAAGAGATGACCACAAAAGTACCAATACTACCCAGTCAACTTGGAAGTCATA
*
9942198 GAAATGTTAACCTATTATTGATGTGAAATCTACAAATGTTCATGGACTAGCAAGCATGGTATCGG
66 GAAATGTTAACCTATTATTGATGTGAAATCTAAAAATGTTCATGGACTAGCAAGCATGGTATCGG
9942263 ATATTACAAACAAAAAATGTAAAATTCAGTAGCATATTGAATCTGAGGTAATATGGAATAAGAAG
131 ATATTACAAACAAAAAATGTAAAATTCAGTAGCATATTGAATCTGAGGTAATATGGAATAAGAAG
9942328 GTCCTCCATACATTGGTGCATTAATCAAATTATTTTACATTGATATATATTAGTTGAAAAAAATG
196 GTCCTCCATACATTGGTGCATTAATCAAATTATTTTACATTGATATATATTAGTTGAAAAAAATG
9942393 AAACTCTAACCAAGAAATGCAATGCCAAAAATCAGTTTCTTTGAACTACACTACATGGCAACAAA
261 AAACTCTAACCAAGAAATGCAATGCCAAAAATCAGTTTCTTTGAACTACACTACATGGCAACAAA
9942458 ACAAATTTAACAAAACAGTGAAAAAAAATTAGCATTATCACCACTAG
326 ACAAATTTAACAAAACAGTGAAAAAAAATTAGCATTATCACCACTAG
*
9942505 TAAAAGACCAGAACAAGAGATGACCTCAAAAGTACCAATACTACCCAGTCAACTTGGAAGTCATA
1 TAAAAGACCAGAACAAGAGATGACCACAAAAGTACCAATACTACCCAGTCAACTTGGAAGTCATA
9942570 GAAATGTTAACCTATTATTGATGTGAAATCTAAAAATGTTCATGGACTAGCAAGCATGGTATCGG
66 GAAATGTTAACCTATTATTGATGTGAAATCTAAAAATGTTCATGGACTAGCAAGCATGGTATCGG
9942635 ATATTACAAACAAAAAATGTAAAATTCAGTAGCATATTGAATCTGAGGTAATATGGAATAAGAAG
131 ATATTACAAACAAAAAATGTAAAATTCAGTAGCATATTGAATCTGAGGTAATATGGAATAAGAAG
9942700 GTCCTCCATACATTGGTGCATTAATCAAATTATTTTACATTGATATATATTAGTTGAAAAAAATG
196 GTCCTCCATACATTGGTGCATTAATCAAATTATTTTACATTGATATATATTAGTTGAAAAAAATG
9942765 AAACTCTAACCAAGAAATGCAATGCCAAAAATCAGTTTCTTTGAACTACACTACATGGCAACAAA
261 AAACTCTAACCAAGAAATGCAATGCCAAAAATCAGTTTCTTTGAACTACACTACATGGCAACAAA
9942830 ACAAATTTAACAAAACAGTGAAAAAAAATTAGCATTATCACCACTA
326 ACAAATTTAACAAAACAGTGAAAAAAAATTAGCATTATCACCACTA
9942876 ATTGTAACTC
Statistics
Matches: 369, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 369 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (372 bp):
TAAAAGACCAGAACAAGAGATGACCACAAAAGTACCAATACTACCCAGTCAACTTGGAAGTCATA
GAAATGTTAACCTATTATTGATGTGAAATCTAAAAATGTTCATGGACTAGCAAGCATGGTATCGG
ATATTACAAACAAAAAATGTAAAATTCAGTAGCATATTGAATCTGAGGTAATATGGAATAAGAAG
GTCCTCCATACATTGGTGCATTAATCAAATTATTTTACATTGATATATATTAGTTGAAAAAAATG
AAACTCTAACCAAGAAATGCAATGCCAAAAATCAGTTTCTTTGAACTACACTACATGGCAACAAA
ACAAATTTAACAAAACAGTGAAAAAAAATTAGCATTATCACCACTAG
Found at i:9943135 original size:39 final size:39
Alignment explanation
Indices: 9943081--9943159 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
9943071 GCAATTTCCT
9943081 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
1 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
9943120 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
1 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
9943159 T
1 T
9943160 GCAATTGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (39 bp):
TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
Found at i:9944464 original size:23 final size:23
Alignment explanation
Indices: 9944434--9944481 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9944424 GAGGGCAGAG
9944434 GAACAAAGAACCGGCAGAGGGCA
1 GAACAAAGAACCGGCAGAGGGCA
*
9944457 GAACAAAGAACTGGCAGAGGGCA
1 GAACAAAGAACCGGCAGAGGGCA
9944480 GA
1 GA
9944482 GATGAGGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.35, T:0.02
Consensus pattern (23 bp):
GAACAAAGAACCGGCAGAGGGCA
Found at i:9944482 original size:30 final size:30
Alignment explanation
Indices: 9944446--9944528 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
9944436 ACAAAGAACC
* *
9944446 GGCAGAGGGCAGAACAAAGAACTGGCAGAG
1 GGCAGAGAGCAGAACAAAGAACTAGCAGAG
**
9944476 GGCAGAGATG-AGGGCAAAGAACTAGCAGAG
1 GGCAGAGA-GCAGAACAAAGAACTAGCAGAG
9944506 GGCAGAGAGCAGAGAGCAAAGAA
1 GGCAGAGAGCAGA-A-CAAAGAA
9944529 GGGCATTCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 34 0.79
31 1 0.02
32 7 0.16
ACGTcount: A:0.42, C:0.14, G:0.40, T:0.04
Consensus pattern (30 bp):
GGCAGAGAGCAGAACAAAGAACTAGCAGAG
Found at i:9947212 original size:40 final size:40
Alignment explanation
Indices: 9947147--9947227 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
9947137 ATTTACTAAA
*
9947147 GTTTTCTTATCATTCCTGTGAGGTAATAGGGACGTGTTAG
1 GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
* *
9947187 GTTTTCTTAGCATTCGTGTGTGGTAATAGGGACGTGTTAG
1 GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
9947227 G
1 G
9947228 CTTGAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.40
Consensus pattern (40 bp):
GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
Found at i:9956157 original size:27 final size:26
Alignment explanation
Indices: 9956127--9956294 Score: 237
Period size: 27 Copynumber: 6.3 Consensus size: 26
9956117 GGGTATAACA
9956127 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
9956154 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
9956181 GTCATTTTACCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* *
9956207 GTCATTCTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
9956234 GTCATTTTACCCTATTGAGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
9956261 GTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
9956288 GTTATTT
1 GTCATTT
9956295 ATCGACCTCT
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.20
27 97 0.76
28 5 0.04
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:9956237 original size:80 final size:81
Alignment explanation
Indices: 9956127--9956289 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 81
9956117 GGGTATAACA
* *
9956127 GTCATTTTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTCTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTACC
*
9956192 CTA-TGGGGTATTTCG
66 CTACGGGGGTATTTCG
* * *
9956207 GTCATTCTACCCTATAGGGG-TATTTTGGTCATTTTACCCTATTGAGGTATTTCGGTCATTTTAC
1 GTCATTCTACCCTAT-GGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTAC
9956271 CCTACGGGGGTATTTCG
65 CCTACGGGGGTATTTCG
9956288 GT
1 GT
9956290 TATTTATCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 58 0.77
81 17 0.23
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (81 bp):
GTCATTCTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTACC
CTACGGGGGTATTTCG
Found at i:9958207 original size:3 final size:3
Alignment explanation
Indices: 9958201--9958248 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
9958191 TAATTTTTGA
* * * *
9958201 TAT TAT TAT TAT TAT TAT TAG TAT TAG TAT TAA TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9958249 ATATCAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9958334 original size:13 final size:13
Alignment explanation
Indices: 9958316--9958349 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
9958306 AAAGTTTTTT
9958316 TTATATATTATGA
1 TTATATATTATGA
*
9958329 TTATATATTATTA
1 TTATATATTATGA
9958342 TTATATAT
1 TTATATAT
9958350 CAGAACGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTATATATTATGA
Found at i:9958710 original size:15 final size:15
Alignment explanation
Indices: 9958682--9958711 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9958672 TCTTTCATGC
9958682 ATTTTTTTATTTTTA
1 ATTTTTTTATTTTTA
9958697 ATTTATTTTATTTTT
1 ATTT-TTTTATTTTT
9958712 TGTTTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTTTATTTTTA
Found at i:9968576 original size:50 final size:50
Alignment explanation
Indices: 9968361--9968634 Score: 178
Period size: 50 Copynumber: 5.4 Consensus size: 50
9968351 GGTAAAGAGA
* * * * * *
9968361 TCCCATGTAAGGCCATGTATGGGACATGCCATAGGCATCCTTGAGATCATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGAT-AAG-AA-C
* * **
9968417 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-ACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* * ** * * * * * * **
9968466 TCTCATGTAAGACCATGTATCAGAAATTGCGTTGCCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* *
9968516 TCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* * ** * *
9968566 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-ATACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
9968614 ATCCCATGTAAGACCATGTCT
1 -TCCCATGTAAGACCATGTCT
9968635 CGGAAATAGC
Statistics
Matches: 176, Mismatches: 38, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
48 3 0.02
49 53 0.30
50 80 0.45
51 2 0.01
52 5 0.03
54 2 0.01
55 1 0.01
56 30 0.17
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
Found at i:9969412 original size:109 final size:109
Alignment explanation
Indices: 9969221--9969438 Score: 375
Period size: 109 Copynumber: 2.0 Consensus size: 109
9969211 TGAAGGTGTT
*
9969221 TGTTGTTATACATGTCTATGTGATAAATTATGCATAGAAATCATGAAAGAGTAATAATTTGCAAA
1 TGTTGTTATACATGTCTATGTGATAAATTATGCATAGAAATCATGAAAGAGTAATAATTTGAAAA
* *
9969286 GAAATAGATTTCAAACAGCAGCAGTGACT-TGATTTTGAAAAATC
66 GAAACAGATTTCAAACAGCAGCAGT-AATGTGATTTTGAAAAATC
9969330 TGTTGTTATACATGTCTATGTGATAAATTATGCATAGAAATCATGAAAGAGTAATAATTTGAAAA
1 TGTTGTTATACATGTCTATGTGATAAATTATGCATAGAAATCATGAAAGAGTAATAATTTGAAAA
* *
9969395 GAAACAGCTTTCAAACAGCAGTAGTAATGTGATTTTGAAAAATC
66 GAAACAGATTTCAAACAGCAGCAGTAATGTGATTTTGAAAAATC
9969439 ACTTAGGATA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 2 0.02
109 101 0.98
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (109 bp):
TGTTGTTATACATGTCTATGTGATAAATTATGCATAGAAATCATGAAAGAGTAATAATTTGAAAA
GAAACAGATTTCAAACAGCAGCAGTAATGTGATTTTGAAAAATC
Found at i:9972049 original size:45 final size:47
Alignment explanation
Indices: 9971997--9972116 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 47
9971987 GAGGAGGGAT
9971997 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCT-AAAAA-GAGA-C
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAAT-CTAAAAAAGGAGAGC
* * *
9972042 TAAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCTAAAAAAAAGGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCT--AAAAAA-GGAGA-GC
9972093 CAAGGTGAAAACCCGCAAAGGGCG
1 CAAGGTGAAAACCCGCAAAGGGCG
9972117 TTCTGAGACC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 2 0.03
45 29 0.46
47 5 0.08
49 4 0.06
51 23 0.37
ACGTcount: A:0.39, C:0.19, G:0.29, T:0.12
Consensus pattern (47 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCTAAAAAAGGAGAGC
Found at i:9973431 original size:44 final size:44
Alignment explanation
Indices: 9973378--9973577 Score: 201
Period size: 44 Copynumber: 4.6 Consensus size: 44
9973368 TAGCAGGTCT
* *
9973378 TATCTCCCTGATGTTGCAGCGGAGTAGACAGAAGAAGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* * * * *
9973422 TATCTCCCTGAAGTTGCAGTGAAGCAGAAAAAAGAGGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* * * *
9973466 TATCT-CCTGAAGTTGTAGCGGAGC-GA-ATTAA-AATCATAGATCT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACA-GAAGAAGC-TA-ATCC
* * *
9973509 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAAAAGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* *
9973553 TATCTCCTTGAAGTTGTAGCGGAGC
1 TATCTCCCTGAAGTTGCAGCGGAGC
9973578 GGATTAAAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
41 3 0.02
42 6 0.05
43 24 0.19
44 82 0.66
45 6 0.05
46 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
Found at i:9973520 original size:87 final size:88
Alignment explanation
Indices: 9973422--9973614 Score: 302
Period size: 88 Copynumber: 2.2 Consensus size: 88
9973412 AAGCTAATCC
*
9973422 TATCTCCCTGAAGTTGCAGTGAAGCAGA-A-AAAAGAGGCTAATCCTATCTCC-TGAAGTTGTAG
1 TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAA-A-GCTAATCCTATCTCCTTGAAGTTGTAG
*
9973484 CGGAGCGAATTAAAATCATAGATCT
64 CGGAGCGAATTAAAATCACAGATCT
*
9973509 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
1 TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
*
9973574 GAGCGGATTAAAATCACAGATCT
66 GAGCGAATTAAAATCACAGATCT
*
9973597 TATCTCTCTAAAGTTGCA
1 TATCTCTCTGAAGTTGCA
9973615 AAGAGCAGAT
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
87 41 0.42
88 53 0.54
89 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (88 bp):
TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
GAGCGAATTAAAATCACAGATCT
Found at i:9973611 original size:44 final size:43
Alignment explanation
Indices: 9973466--9973612 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 43
9973456 AGGCTAATCC
* *
9973466 TATCTCCTGAAGTTGTAGCGGAGCGAATTAAAATCATAGATCT
1 TATCTCCTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
* * * * * *
9973509 TATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAAA-AAGCTA-ATCC
1 TATCTC-CTGAAGTTGTAGCGGAGCGGATTA-AAATCA-C-AGATCT
9973553 TATCTCCTTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
1 TATCTCC-TGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
*
9973597 TATCTCTCTAAAGTTG
1 TATCTC-CTGAAGTTG
9973613 CAAAGAGCAG
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
43 10 0.12
44 66 0.82
45 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
TATCTCCTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
Found at i:9973740 original size:45 final size:44
Alignment explanation
Indices: 9973675--9973841 Score: 130
Period size: 44 Copynumber: 3.8 Consensus size: 44
9973665 CTGAATAAAT
* *
9973675 GAATCTTATC-CTCCTGAAGTTGCAGTGGGGCAGATTGAAGATGAC
1 GAATCTTATCTC-CCTAAAGTTGCAGTAGGGCAGATT-AAGATGAC
*
9973720 GAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAA-A-G-C
1 GAATCTTATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
* * * * * *
9973761 CAATAATTCTATCTCCCTAAAGTTGTAGCAGGACAGATTAAAATGAC
1 GAAT--CT-TATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
* * *
9973808 -AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 GA-ATCTTATCTCCCTAAAGTTGCAGTAGGGCAGAT
9973842 CATATCTAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 9 0.09
44 46 0.46
45 33 0.33
46 3 0.03
47 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
GAATCTTATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
Found at i:9975644 original size:16 final size:15
Alignment explanation
Indices: 9975618--9975648 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
9975608 TCTTTCATGC
9975618 ATTTTTTTTATTTTT
1 ATTTTTTTTATTTTT
9975633 ATTTTATTTTATTTTT
1 ATTTT-TTTTATTTTT
9975649 TGTTTGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
ATTTTTTTTATTTTT
Found at i:9981027 original size:17 final size:17
Alignment explanation
Indices: 9981005--9981057 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
9980995 ATAGAAAGTC
*
9981005 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAA
* *
9981022 AAAGATATAGGTATAAA
1 AAAGATATGGGTATCAA
9981039 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
9981056 AA
1 AA
9981058 TCTAAGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:9984719 original size:17 final size:17
Alignment explanation
Indices: 9984697--9984749 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
9984687 ATAGAAAGTC
*
9984697 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAA
* *
9984714 AAAGATATAGGTATAAA
1 AAAGATATGGGTATCAA
9984731 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
9984748 AA
1 AA
9984750 TCTAAGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:9988469 original size:94 final size:94
Alignment explanation
Indices: 9988303--9988487 Score: 289
Period size: 94 Copynumber: 2.0 Consensus size: 94
9988293 CTCGAGTTTG
* *
9988303 AGATGAAAGATCTAGGAGAAGCTAAAAAGATTCTCGGCATGGAAATATGTAGAGATAGAGCTCAT
1 AGATGAAAGACCTAGGAGAAGCTAAAAAGATTCTCGGCAGGGAAATATGTAGAGATAGAGCTCAT
*
9988368 GGCAGAGTTAGCTTGTCTCAGAAGCAGTT
66 GGAAGAGTTAGCTTGTCTCAGAAGCAGTT
* * * * *
9988397 AGATGAAAGACCTAGGTGAAGCTAAGAAGATTCTTGGCAGGGAAATATGTAGGGATAGAGCTCGT
1 AGATGAAAGACCTAGGAGAAGCTAAAAAGATTCTCGGCAGGGAAATATGTAGAGATAGAGCTCAT
*
9988462 GGAAGAGTTAGTTTGTCTCAGAAGCA
66 GGAAGAGTTAGCTTGTCTCAGAAGCA
9988488 ATATTTGAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (94 bp):
AGATGAAAGACCTAGGAGAAGCTAAAAAGATTCTCGGCAGGGAAATATGTAGAGATAGAGCTCAT
GGAAGAGTTAGCTTGTCTCAGAAGCAGTT
Found at i:9990344 original size:23 final size:23
Alignment explanation
Indices: 9990309--9990353 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9990299 TGGAGTATAA
* *
9990309 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
9990332 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
9990354 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:9990977 original size:41 final size:41
Alignment explanation
Indices: 9990932--9991050 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
9990922 TCAGGTTTAT
9990932 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
*
9990973 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
* ***
9991014 CGGTGGTGAAACATTTCAGAC-TTTATGTC-AGCAGGCT
1 TGCCAGTGAAACATTTCAGACTTTTA-GTCTAGCAGGCT
9991051 AAGTGCCAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
40 11 0.15
41 60 0.85
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
Found at i:9992509 original size:17 final size:17
Alignment explanation
Indices: 9992487--9992536 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
9992477 ATAGAAAGTC
9992487 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
9992504 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
9992521 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
9992537 AAATCTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:9998099 original size:20 final size:20
Alignment explanation
Indices: 9998074--9998112 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9998064 AACATTCAAA
9998074 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
9998094 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
9998113 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:9999227 original size:25 final size:25
Alignment explanation
Indices: 9999199--9999323 Score: 142
Period size: 25 Copynumber: 5.0 Consensus size: 25
9999189 TATACTCAGT
9999199 TGAGCTATAGATTGGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
* * * *
9999224 TGAGCTGTAAATCGGTATGCTCACA
1 TGAGCTATAGATTGGTATGCTCTCA
* *
9999249 CGAGCTATAGATTAGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
* * * * *
9999274 TGAGTTGTAAATTGGTATGATCACA
1 TGAGCTATAGATTGGTATGCTCTCA
*
9999299 TGAGCTATAGATCGGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
9999324 CGAGTTGTAA
Statistics
Matches: 77, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
TGAGCTATAGATTGGTATGCTCTCA
Found at i:9999254 original size:50 final size:50
Alignment explanation
Indices: 9999200--9999352 Score: 243
Period size: 50 Copynumber: 3.1 Consensus size: 50
9999190 ATACTCAGTT
*
9999200 GAGCTATAGATTGGTATGCTCTCATGAGCTGTAAATCGGTATGCTCACAC
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
* * * *
9999250 GAGCTATAGATTAGTATGCTCTCATGAGTTGTAAATTGGTATGATCACAT
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
* *
9999300 GAGCTATAGATCGGTATGCTCTCACGAGTTGTAAATCGGTATGCTCACAC
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
9999350 GAG
1 GAG
9999353 GTGTGGGTCG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 92 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
Found at i:9999337 original size:25 final size:25
Alignment explanation
Indices: 9999212--9999352 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
9999202 GCTATAGATT
* *
9999212 GGTATGCTCTCATGAGCTGTAAATC
1 GGTATGCTCACACGAGCTGTAAATC
* * *
9999237 GGTATGCTCACACGAGCTATAGATT
1 GGTATGCTCACACGAGCTGTAAATC
* * * * *
9999262 AGTATGCTCTCATGAGTTGTAAATT
1 GGTATGCTCACACGAGCTGTAAATC
* * * *
9999287 GGTATGATCACATGAGCTATAGATC
1 GGTATGCTCACACGAGCTGTAAATC
* *
9999312 GGTATGCTCTCACGAGTTGTAAATC
1 GGTATGCTCACACGAGCTGTAAATC
9999337 GGTATGCTCACACGAG
1 GGTATGCTCACACGAG
9999353 GTGTGGGTCG
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (25 bp):
GGTATGCTCACACGAGCTGTAAATC
Found at i:9999874 original size:20 final size:20
Alignment explanation
Indices: 9999846--9999883 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9999836 AACTATCATG
*
9999846 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
9999866 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
9999884 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:10015773 original size:16 final size:16
Alignment explanation
Indices: 10015750--10015785 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10015740 TATTATTATC
10015750 TATATTTTT-TATAGA
1 TATATTTTTATATAGA
*
10015765 TATATTTTTATCTAGA
1 TATATTTTTATATAGA
10015781 TATAT
1 TATAT
10015786 AAGATCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATTTTTATATAGA
Found at i:10018493 original size:17 final size:17
Alignment explanation
Indices: 10018471--10018504 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10018461 ATAGATTCGC
*
10018471 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
10018488 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
10018505 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:10020456 original size:120 final size:119
Alignment explanation
Indices: 10020238--10020483 Score: 429
Period size: 120 Copynumber: 2.1 Consensus size: 119
10020228 TTTTCGACAT
* * * *
10020238 ATTTGATTGCGATCTTGATATAGACAGGGCGCTCCTTCGTCTCAAAATCTGAATAGAACAATCTT
1 ATTTGATTGCGATCTTAATATAGACAGGGCCCTCATTCGTCTCAAAATCTGAATAGAACAAGCTT
10020303 TATTATTTGAAGCGGTTCTTTCGGGCAGTTATCAAAAGAGGGCAATTGCTTCGA
66 TATTATTTGAAGCGGTTCTTTCGGGCAGTTATCAAAAGAGGGCAATTGCTTCGA
* *
10020357 ATTTGTATTGCGATCTTAATATAGACAGGGCCCTCATTTGTCTCAAAATTTGAATAGAACAAGCT
1 ATTTG-ATTGCGATCTTAATATAGACAGGGCCCTCATTCGTCTCAAAATCTGAATAGAACAAGCT
10020422 TTATTATTTGAAGCGGTTCTTTCGGGCAGTTATCAAAAGAGGGCAATTGCTTCGA
65 TTATTATTTGAAGCGGTTCTTTCGGGCAGTTATCAAAAGAGGGCAATTGCTTCGA
10020477 ATTTGAT
1 ATTTGAT
10020484 CAATTGAGAT
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
119 7 0.06
120 113 0.94
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (119 bp):
ATTTGATTGCGATCTTAATATAGACAGGGCCCTCATTCGTCTCAAAATCTGAATAGAACAAGCTT
TATTATTTGAAGCGGTTCTTTCGGGCAGTTATCAAAAGAGGGCAATTGCTTCGA
Found at i:10031403 original size:15 final size:15
Alignment explanation
Indices: 10031383--10031414 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10031373 ATCTGTAGAT
*
10031383 TTAACAGACAGAGGA
1 TTAACAGACAAAGGA
10031398 TTAACAGACAAAGGA
1 TTAACAGACAAAGGA
10031413 TT
1 TT
10031415 TCTTCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (15 bp):
TTAACAGACAAAGGA
Found at i:10034561 original size:24 final size:24
Alignment explanation
Indices: 10034509--10034562 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10034499 AATAATACGT
* *
10034509 AAAGAAGTGCATGTCGTGTCAGTC
1 AAAGATGTGCATGTCGCGTCAGTC
*
10034533 AAAGATGTGCATGTCGCGTCGGTC
1 AAAGATGTGCATGTCGCGTCAGTC
*
10034557 GAAGAT
1 AAAGAT
10034563 AAGGCAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (24 bp):
AAAGATGTGCATGTCGCGTCAGTC
Found at i:10034762 original size:15 final size:14
Alignment explanation
Indices: 10034729--10034762 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
10034719 TTTTGTTATT
*
10034729 TTTTATTTTATTCA
1 TTTTATTTTATTAA
10034743 TTTTATTATTATTAA
1 TTTTATT-TTATTAA
10034758 TTTTA
1 TTTTA
10034763 GTTGTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATTAA
Found at i:10043310 original size:19 final size:20
Alignment explanation
Indices: 10043275--10043319 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
10043265 TTACCCTAAA
* *
10043275 CTCCCAAATATTTTTACTTT
1 CTCCCAAATACTTTTACTCT
10043295 CTCCCAAA-ACTTTTACTCT
1 CTCCCAAATACTTTTACTCT
10043314 CTCCCA
1 CTCCCA
10043320 CTTTCCCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (20 bp):
CTCCCAAATACTTTTACTCT
Found at i:10046814 original size:23 final size:22
Alignment explanation
Indices: 10046762--10046814 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10046752 TCCACGTCTT
*
10046762 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
10046784 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
10046807 TTTCTTTT
1 TTTCTTTT
10046815 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:10049171 original size:12 final size:12
Alignment explanation
Indices: 10049149--10049180 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
10049139 CATAAAAATT
10049149 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
10049162 TAAATAAGTAAA
1 TAAATAAGTAAA
10049174 TAAATAA
1 TAAATAA
10049181 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:10052443 original size:9 final size:9
Alignment explanation
Indices: 10052429--10052483 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
10052419 TATAGTTTGA
10052429 TATTCGAAT
1 TATTCGAAT
10052438 TATTCGAAT
1 TATTCGAAT
*
10052447 TATTCGAGT
1 TATTCGAAT
10052456 TATTCGAAT
1 TATTCGAAT
*
10052465 TATTCGAGT
1 TATTCGAAT
10052474 TATTCGAAT
1 TATTCGAAT
10052483 T
1 T
10052484 CGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10052578 original size:9 final size:9
Alignment explanation
Indices: 10052535--10052565 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10052525 TCGAGTTGAT
*
10052535 TCGAATAAC
1 TCGATTAAC
10052544 TCGATTAAC
1 TCGATTAAC
10052553 TCGATTAAC
1 TCGATTAAC
10052562 TCGA
1 TCGA
10052566 CTCGTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (9 bp):
TCGATTAAC
Found at i:10058392 original size:33 final size:33
Alignment explanation
Indices: 10058355--10058419 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
10058345 TAATACTGTC
10058355 TTAGTTGACACATTATTCAAAATATAACAAATT
1 TTAGTTGACACATTATTCAAAATATAACAAATT
*
10058388 TTAGTTGGCACATTATTCAAAATATAACAAAT
1 TTAGTTGACACATTATTCAAAATATAACAAAT
10058420 AGTTTGTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (33 bp):
TTAGTTGACACATTATTCAAAATATAACAAATT
Found at i:10061975 original size:20 final size:19
Alignment explanation
Indices: 10061936--10061972 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10061926 AAAAAAAAAG
*
10061936 AAAATATAAAATTTATATA
1 AAAAAATAAAATTTATATA
10061955 AAAAAAT-AAATTTATATA
1 AAAAAATAAAATTTATATA
10061973 TAATACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAATAAAATTTATATA
Found at i:10062063 original size:56 final size:54
Alignment explanation
Indices: 10062003--10062177 Score: 148
Period size: 62 Copynumber: 3.1 Consensus size: 54
10061993 AGAAAAATAC
10062003 ATATATAGAAATTATAAAATATGTATGGAAAGTATAATATGTATATACGTACATAT
1 ATATATAGAAATTATAAAATATGTAT-GAAAGTATAATAT-TATATACGTACATAT
* *
10062059 ATATATAAGTTAATAAATATATATATATAGATCAT-AAAG-ATAATGATTATATA--T--ATAT
1 ATATAT-AG---A-AATTATA-AAATAT-G-T-ATGAAAGTATAAT-ATTATATACGTACATAT
* *
10062117 ATATAGAAAAATTATAAAATATGTATAGAAAGTATAATA-TATATACGTACATAT
1 ATATATAGAAATTATAAAATATGTAT-GAAAGTATAATATTATATACGTACATAT
10062171 ATATATA
1 ATATATA
10062178 AATTAATAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 36
0.69 0.05 0.26
Matches are distributed among these distances:
49 2 0.02
50 7 0.07
51 6 0.06
52 11 0.12
53 6 0.06
54 11 0.12
56 6 0.06
57 3 0.03
58 9 0.09
60 2 0.02
61 6 0.06
62 16 0.17
63 7 0.07
64 1 0.01
65 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (54 bp):
ATATATAGAAATTATAAAATATGTATGAAAGTATAATATTATATACGTACATAT
Found at i:10062143 original size:22 final size:23
Alignment explanation
Indices: 10062104--10062147 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10062094 AAAGATAATG
*
10062104 ATTATATATATATATATAGAAAA
1 ATTATATAAATATATATAGAAAA
*
10062127 ATTATA-AAATATGTATAGAAA
1 ATTATATAAATATATATAGAAA
10062148 GTATAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAATATATATAGAAAA
Found at i:10062160 original size:22 final size:23
Alignment explanation
Indices: 10062109--10062161 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
10062099 TAATGATTAT
*
10062109 ATATATATATATAGAAAAATTATA
1 ATATATATATATAG-AAAAGTATA
*
10062133 A-A-ATATGTATAG-AAAGTATA
1 ATATATATATATAGAAAAGTATA
10062153 ATATATATA
1 ATATATATA
10062162 CGTACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 13 0.54
23 1 0.04
24 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATATATATATAGAAAAGTATA
Found at i:10062212 original size:106 final size:109
Alignment explanation
Indices: 10062003--10062221 Score: 322
Period size: 106 Copynumber: 2.0 Consensus size: 109
10061993 AGAAAAATAC
*
10062003 ATATATAGAAATTATAAAATATGTATGGAAAGTATAATATGTATATACGTACATATATATATAAG
1 ATATATAGAAATTATAAAATATGTATAGAAAGTATAATA-GTATATACGTACATATATATATAA-
* *
10062068 TTAATAAATATATATATATAGATCATAAAGATAATGATTATATATAT
64 -TAATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
10062115 ATATATAGAAAAATTATAAAATATGTATAGAAAGTATAATA-TATATACGTACATATATATAT-A
1 ATATATAG--AAATTATAAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAA
*
10062178 -AATTAATA-A-ATATATAGATCAGAAAGATAATGATTACATATAT
64 TAATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
10062221 A
1 A
10062222 AACTTAAAAA
Statistics
Matches: 101, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
106 33 0.33
107 1 0.01
108 7 0.07
111 1 0.01
112 29 0.29
114 30 0.30
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (109 bp):
ATATATAGAAATTATAAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATA
ATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
Found at i:10062242 original size:106 final size:111
Alignment explanation
Indices: 10062018--10062244 Score: 288
Period size: 106 Copynumber: 2.1 Consensus size: 111
10062008 TAGAAATTAT
*
10062018 AAAATATGTATGGAAAGTATAATATGTATATACGTACATATATATATAAGTTAATAAATATATAT
1 AAAATATGTATAGAAAGTATAATA-GTATATACGTACATATATATATAA--TAATAAATATATAT
* * * ** *
10062083 ATATAGATCATAAAGATAATGATTATATATATATATATAGAAAAATTAT
63 ATATAGATCAGAAAGATAATGATTACATATATAAATATAGAAAAAGGAA
*
10062132 AAAATATGTATAGAAAGTATAATA-TATATACGTACATATATATAT-A-AATTAATA-A-ATATA
1 AAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATAATAAATATATATATA
10062192 TAGATCAGAAAGATAATGATTACATATATAAACT-TA-AAAAAGGGAA
66 TAGATCAGAAAGATAATGATTACATATATAAA-TATAGAAAAA-GGAA
10062238 AAAATAT
1 AAAATAT
10062245 TTTGAAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
105 5 0.05
106 44 0.43
107 2 0.02
108 7 0.07
111 1 0.01
112 21 0.20
114 23 0.22
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (111 bp):
AAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATAATAAATATATATATA
TAGATCAGAAAGATAATGATTACATATATAAATATAGAAAAAGGAA
Found at i:10062989 original size:14 final size:14
Alignment explanation
Indices: 10062970--10062996 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10062960 CAATAACACA
10062970 AAATAAAAAAAAAG
1 AAATAAAAAAAAAG
10062984 AAATAAAAAAAAA
1 AAATAAAAAAAAA
10062997 ACAACCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (14 bp):
AAATAAAAAAAAAG
Found at i:10063289 original size:15 final size:15
Alignment explanation
Indices: 10063269--10063299 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10063259 AGGGTTTCTG
10063269 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
10063284 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
10063299 A
1 A
10063300 TTGTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:10070898 original size:3 final size:3
Alignment explanation
Indices: 10070890--10070937 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
10070880 CTTATAGGCT
10070890 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
10070938 TTGAACGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:10074165 original size:23 final size:23
Alignment explanation
Indices: 10074139--10074190 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
10074129 AGGGTATTTT
10074139 ATAAAAATAATACAAAAATAAAA
1 ATAAAAATAATACAAAAATAAAA
* *
10074162 ATAAAAATAATACCAAAATAATA
1 ATAAAAATAATACAAAAATAAAA
10074185 A-AAAAA
1 ATAAAAA
10074191 CAGTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (23 bp):
ATAAAAATAATACAAAAATAAAA
Found at i:10074190 original size:11 final size:11
Alignment explanation
Indices: 10074141--10074190 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
10074131 GGTATTTTAT
*
10074141 AAAAATAATAC
1 AAAAATAATAA
*
10074152 AAAAATAAAAA
1 AAAAATAATAA
*
10074163 TAAAAATAATAC
1 -AAAAATAATAA
*
10074175 CAAAATAATAA
1 AAAAATAATAA
10074186 AAAAA
1 AAAAA
10074191 CAGTTAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:10074824 original size:156 final size:154
Alignment explanation
Indices: 10074401--10075060 Score: 897
Period size: 156 Copynumber: 4.3 Consensus size: 154
10074391 TTAGTGTGTG
*
10074401 TTTTATTGAAAGTAATAAAATTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTT
1 TTTTATTGAAAGTAATAAAATT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * * *
10074465 T-AATTTATTTAAAACACACACTAAATGAATACATTTCAAATATAATGTACTGAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
10074529 ATAATAAAATTAGAAAATAGTATAT
130 ATAATAAAATTAGAAAATAATATAT
* * *
10074554 TTTT-TT-AAAGTAATAAAATTTGGGGAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTT
1 TTTTATTGAAAGTAATAAAA-TTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * *
10074617 TAAAAATTATTTAAAAAACACAGTAAATTAATACATTTTAAACATAATGTACTAAAATAATGTAA
65 T-AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
10074682 AATAATAAAA-TACGAAACTAATATAT
129 AATAATAAAATTA-GAAAATAATATAT
*
10074708 TTTTATTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
1 TTTTATTGAAAGTAATAAAAT-TGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * *
10074773 TAATTTTATTTAAAAAATACAGTAAATTAATACATTTCAAACATAATTGTACTAAAATAATGTAA
65 TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAA-TGTACTAAAATAATGTAA
10074838 AATAATAAAA-TATGAAAATAATATAT
129 AATAATAAAATTA-GAAAATAATATAT
* ** * * *
10074864 ATTTATTGAAAGTAATAAAATTCGGGATTAGAATACGAACAAATGGCTGAAATAATG-GTTTTTT
1 TTTTATTGAAAGTAATAAAATT-GGGAAAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTTT
*
10074928 TTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAGTGTAA
64 TTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
* *
10074993 AATAAAAAAAATTAGAAAATAGTATA-
129 AAT-AATAAAATTAGAAAATAATATAT
* **
10075019 TTTT-TTAAAAGTAATAAAATCTGAAAAAAAAATACGAACAAA
1 TTTTATTGAAAGTAATAAAAT-TGGGAAAAAAATACGAACAAA
10075061 AGGTCAAAAT
Statistics
Matches: 450, Mismatches: 43, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
151 43 0.10
152 11 0.02
153 6 0.01
154 110 0.24
155 69 0.15
156 208 0.46
157 3 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (154 bp):
TTTTATTGAAAGTAATAAAATTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATAT
Found at i:10075217 original size:19 final size:19
Alignment explanation
Indices: 10075184--10075228 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10075174 AAATAAAAAA
*
10075184 TATTTATATTGTTTTGATAT
1 TATTTTTATTGTTTTG-TAT
*
10075204 T-TTTTTATTTTTTTGTAT
1 TATTTTTATTGTTTTGTAT
10075222 TATTTTT
1 TATTTTT
10075229 GTAAAGGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 17 0.77
20 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.76
Consensus pattern (19 bp):
TATTTTTATTGTTTTGTAT
Found at i:10076715 original size:123 final size:123
Alignment explanation
Indices: 10076496--10076774 Score: 488
Period size: 123 Copynumber: 2.3 Consensus size: 123
10076486 TTATTTCTAG
*
10076496 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
10076561 AAATTGTGTCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTT
65 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
10076619 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCT-AGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
10076684 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
10076743 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCT-AGCAAATAGTATAAAATCGC
10076775 GCCCTCGTGG
Statistics
Matches: 149, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
123 112 0.75
124 37 0.25
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (123 bp):
TTGACGTTTCTAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGA
AATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:10079962 original size:30 final size:30
Alignment explanation
Indices: 10079920--10080539 Score: 814
Period size: 30 Copynumber: 20.8 Consensus size: 30
10079910 TTGTTAATGG
*
10079920 TTAGGTTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10079950 TTATGGTTTTTAATTAAATTAGATTAGGTTAGGGT
1 TTAGGGTTTTTAATT--A--A-ATTAGGTTAGGGT
*
10079985 TTAAGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080015 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTA--G----GGT
*
10080051 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080080 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080110 TTAGGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080139 TTAGGGTTTTTAATTAAATTAAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080169 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080198 TTA-GGTTTTTAATTAAATTAGGTTA--G-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080224 -T---GTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080250 TTAGGGTTTTTAATTAAATTAAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080280 TTAGGATTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080309 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGT
1 TTAGGGTTTTTAATT-AA--A--TTA-GG-TTAGGGT
10080346 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080376 TTAGAGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080405 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080434 TTAGGGTTTTTAATTAAATTAGGTTA--G-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080461 --A--GTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
** *
10080487 TTATAGTTTTTAATTAAATTAGGTTAGTGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080517 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
10080540 ATTTTTATTA
Statistics
Matches: 536, Mismatches: 19, Indels: 70
0.86 0.03 0.11
Matches are distributed among these distances:
23 42 0.08
25 4 0.01
26 1 0.00
27 2 0.00
28 22 0.04
29 125 0.23
30 244 0.46
31 3 0.01
32 6 0.01
33 1 0.00
34 6 0.01
35 29 0.05
36 36 0.07
37 15 0.03
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (30 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:10080105 original size:59 final size:60
Alignment explanation
Indices: 10079912--10080539 Score: 762
Period size: 59 Copynumber: 10.5 Consensus size: 60
10079902 AAAAACTTTT
* *
10079912 GTTAATGG-TTAGGTTTTTTAATTAAATTAGGTTAGGGTTTATGGTTTTTAATTAAATTAGATTA
1 GTTAA-GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT--A--A-ATTA
10079976 G
60 G
* *
10079977 GTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT-AA--A--TTA-
10080042 G
60 G
*
10080043 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
10080102 GTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAA
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
10080161 GTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTA-GGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
*
10080219 GTT-A-G--T---GTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAA
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
10080272 GTTAGGGTTTAGGATTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
*
10080331 GTTAGGGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGAGTTTTTAATTAAATT
1 GTTA------A-GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATT
10080396 AG
59 AG
* *
10080398 GTT-AGGGTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
**
10080456 GTT-A-G---A--GTTTTTAATTAAATTAGGTTAGGGTTTATAGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
10080509 GTT-AGTGTTTAGGGTTTTTAATTAAATTAGG
1 GTTAAG-GTTTAGGGTTTTTAATTAAATTAGG
10080540 ATTTTTATTA
Statistics
Matches: 505, Mismatches: 28, Indels: 65
0.84 0.05 0.11
Matches are distributed among these distances:
51 23 0.05
52 26 0.05
53 44 0.09
54 2 0.00
55 2 0.00
56 1 0.00
57 2 0.00
58 46 0.09
59 151 0.30
60 45 0.09
62 2 0.00
63 1 0.00
64 6 0.01
65 64 0.13
66 66 0.13
67 24 0.05
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (60 bp):
GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAG
Found at i:10080352 original size:37 final size:36
Alignment explanation
Indices: 10080303--10080465 Score: 168
Period size: 29 Copynumber: 5.1 Consensus size: 36
10080293 TTAAATTAGG
10080303 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080339 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080376 TTA--G--A--GTTTTTAATT-AA--A--TTA-GG-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080399 TTAGGGTTAGGGTTTTTAATTAAATTA----A--G-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10080428 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
10080464 TT
1 TT
10080466 TTAATTAAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 34
0.76 0.00 0.24
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 4 0.04
27 2 0.02
29 40 0.36
30 13 0.12
32 2 0.02
33 1 0.01
35 2 0.02
36 8 0.07
37 33 0.30
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (36 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:10080518 original size:23 final size:23
Alignment explanation
Indices: 10080421--10080518 Score: 97
Period size: 23 Copynumber: 3.9 Consensus size: 23
10080411 TTTTTAATTA
* *
10080421 AATTAAGTTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGTGTTTTT
*
10080445 AATTAAATTAGGTTAGAGTTTTT
1 AATTAAATTAGGTTAGTGTTTTT
10080468 AATTAAATTAGGTTAGGGTTTATAGTTTTT
1 AATTAAATTAGGTTA--G----T-GTTTTT
10080498 AATTAAATTAGGTTAGTGTTT
1 AATTAAATTAGGTTAGTGTTT
10080519 AGGGTTTTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
23 31 0.48
24 10 0.16
25 1 0.02
28 1 0.02
30 21 0.33
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (23 bp):
AATTAAATTAGGTTAGTGTTTTT
Found at i:10082963 original size:30 final size:30
Alignment explanation
Indices: 10082927--10082985 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10082917 TTAATATGGA
*
10082927 TTTGAGAGATTTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTGGAAGGAAATTGAGAG
10082957 TTTGAGAGAATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTGGAAGGAAATTGAGA
10082986 TAGGATTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (30 bp):
TTTGAGAGAATTTTGGAAGGAAATTGAGAG
Found at i:10084379 original size:7 final size:7
Alignment explanation
Indices: 10084367--10084407 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
10084357 AGATGATTGA
10084367 CTAAACC
1 CTAAACC
10084374 CTAAACC
1 CTAAACC
10084381 CTAAACC
1 CTAAACC
10084388 CTAAACC
1 CTAAACC
*
10084395 TTAAACC
1 CTAAACC
10084402 CTAAAC
1 CTAAAC
10084408 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:10098806 original size:40 final size:39
Alignment explanation
Indices: 10098731--10098830 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 39
10098721 ATAATGAAAT
*
10098731 ATTTTTAGGTATTTTTAGAATTTGTTTTCAAATTTTTTGG
1 ATTTTTAGGTATTTTTAGAATTTCTTTT-AAATTTTTTGG
* *
10098771 ATTTTTTGGTATTTTTAGAAATTTCTCTTT-GATTTTTT--
1 ATTTTTAGGTATTTTTAG-AATTTCT-TTTAAATTTTTTGG
* *
10098809 ATTTTTA-TTAATTTTAGAATTT
1 ATTTTTAGGTATTTTTAGAATTT
10098831 TTAAAATACG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.10
37 8 0.15
38 6 0.12
40 24 0.46
41 6 0.12
42 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (39 bp):
ATTTTTAGGTATTTTTAGAATTTCTTTTAAATTTTTTGG
Found at i:10101619 original size:34 final size:34
Alignment explanation
Indices: 10101567--10101675 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 34
10101557 GTCTCGGTGG
* * * *
10101567 ACTTA-CTTTGCTCTGTGTTTACTGTCTCGACAA
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
* *
10101600 ACTTATCTTTGTTCCGTGTTTATTGTCCCAACAG
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
* * *
10101634 ACTTATCCTTCTTCCGTGTTTACTGTCCCAACAG
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
*
10101668 GCTTATCT
1 ACTTATCT
10101676 ATGTGGATGC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
33 5 0.08
34 59 0.92
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (34 bp):
ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
Found at i:10101881 original size:51 final size:49
Alignment explanation
Indices: 10101800--10101896 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 49
10101790 TATCATAATA
* * *
10101800 TCTTTCATTTATGGTCTTACACTGATTACCTTATACCTTGCTACCATGGCG
1 TCTTTCATTCATGGTCTTACACTCATTACCTT-TACCGTG-TACCATGGCG
*
10101851 TCTTTCATTCATGGTCTTATAC-CATATACCTTTACCGTGTACCATG
1 TCTTTCATTCATGGTCTTACACTCAT-TACCTTTACCGTGTACCATG
10101897 TTGCCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 7 0.17
50 8 0.20
51 26 0.63
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (49 bp):
TCTTTCATTCATGGTCTTACACTCATTACCTTTACCGTGTACCATGGCG
Found at i:10110589 original size:25 final size:25
Alignment explanation
Indices: 10110561--10110612 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10110551 ACTATTGATC
10110561 AAACATTGTATATTATTTGAATATT
1 AAACATTGTATATTATTTGAATATT
10110586 AAACATTGTATATTATTTGAATATT
1 AAACATTGTATATTATTTGAATATT
10110611 AA
1 AA
10110613 TATAAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (25 bp):
AAACATTGTATATTATTTGAATATT
Found at i:10125454 original size:50 final size:49
Alignment explanation
Indices: 10125388--10125576 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
10125378 AACGAAACAG
* * * * *
10125388 AATAATATATAGAACAATTTGAAGTAAATAATATAAAACAATCTAAAGTA
1 AATAATATATAAAACAATTTAAAATAAATAATATAAAACGAT-TAAAATA
* *
10125438 AATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCGATTTAAAATA
1 AATAATATATAAAACAATTTAAAATAAATAATATA-AAA-CGA-TTAAAATA
* * * *
10125490 AATAACATATAAGACAATTTAAAAT-AAT-ATATAAAAGGCTTAAAATA
1 AATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTAAAATA
* *
10125537 AATAATATGTAAAAAGAAGTTTAAAATAAATAATATAAAA
1 AATAATATAT-AAAACAA-TTTAAAATAAATAATATAAAA
10125577 ATCAGTTTAA
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
47 16 0.14
48 6 0.05
49 11 0.10
50 38 0.33
51 14 0.12
52 29 0.25
53 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (49 bp):
AATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTAAAATA
Found at i:10125513 original size:26 final size:26
Alignment explanation
Indices: 10125388--10125877 Score: 196
Period size: 26 Copynumber: 18.8 Consensus size: 26
10125378 AACGAAACAG
* * *
10125388 AATAATATATAGAACAATTTGAAGTA
1 AATAATATATAAAACAATTTAAAATA
* *
10125414 AAT-A-ATATAAAACAATCTAAAGTA
1 AATAATATATAAAACAATTTAAAATA
* *
10125438 AATAATATGTAAAACAAATTAAAATA
1 AATAATATATAAAACAATTTAAAATA
* * *
10125464 AATAATATACAAAGCGATTTAAAATA
1 AATAATATATAAAACAATTTAAAATA
* *
10125490 AATAACATATAAGACAATTTAAAAT-
1 AATAATATATAAAACAATTTAAAATA
*
10125515 AAT-ATATA-AAAGGC---TTAAAATA
1 AATAATATATAAA-ACAATTTAAAATA
* *
10125537 AATAATATGTAAAAAGAAGTTTAAAATA
1 AATAATATAT-AAAACAA-TTTAAAATA
*
10125565 AATAATATA-AAAATCAGTTTAAAAAAATA
1 AATAATATATAAAA-CAATTT---AAAATA
* * *
10125594 AATGATATATATAAAAAGACAATAAAAATA
1 AAT-A-ATATAT-AAAACA-ATTTAAAATA
** *
10125624 AATAAATAATATATGTGACAGTTTAAAAATA
1 AAT-AAT-ATATA--AAACAATTT-AAAATA
*
10125655 AATAATATATAAAA-AA-TTAAAATG
1 AATAATATATAAAACAATTTAAAATA
* * * ** *
10125679 GATAATAGTTTGAAGTAGTTTAAAATA
1 AATAATA-TATAAAACAATTTAAAATA
* ** *
10125706 CAT-ATATATATGACAGTTTAAAAATA
1 AATAATATATAAAACAATTT-AAAATA
*
10125732 AATAATATATAAAA-AATTTAAAATG
1 AATAATATATAAAACAATTTAAAATA
* * * ** *
10125757 GATAATAGTTTGAAGTAGTTTAAAAT-
1 AATAATA-TATAAAACAATTTAAAATA
* * **
10125783 -A-CATGT-GGAAA-AA-TTAAAATA
1 AATAATATATAAAACAATTTAAAATA
*
10125804 AATAATA-ATAAAACAATATAAAATA
1 AATAATATATAAAACAATTTAAAATA
*
10125829 AATAATATATGAGAAAAAAGGTTTAAAATA
1 AATAATATAT-A-AAACAA--TTTAAAATA
10125859 AATAA-ATA-AATAACAATTT
1 AATAATATATAA-AACAATTT
10125878 TGCGAAAATA
Statistics
Matches: 344, Mismatches: 77, Indels: 87
0.68 0.15 0.17
Matches are distributed among these distances:
20 7 0.02
21 8 0.02
22 7 0.02
23 12 0.03
24 40 0.12
25 50 0.15
26 91 0.26
27 34 0.10
28 21 0.06
29 20 0.06
30 32 0.09
31 16 0.05
32 1 0.00
33 5 0.01
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.29
Consensus pattern (26 bp):
AATAATATATAAAACAATTTAAAATA
Found at i:10125701 original size:27 final size:26
Alignment explanation
Indices: 10125671--10125783 Score: 79
Period size: 27 Copynumber: 4.3 Consensus size: 26
10125661 ATATAAAAAA
* *
10125671 TTAAAATGGATAATAGTTTGAAGTAGT
1 TTAAAATAGATAATA-TATGAAGTAGT
*
10125698 TTAAAATACATATATATATGACAGT--T
1 TTAAAATAGATA-ATATATGA-AGTAGT
* * ** *
10125724 TAAAAATAAATAATATAT-AAAAAAT
1 TTAAAATAGATAATATATGAAGTAGT
* *
10125749 TTAAAATGGATAATAGTTTGAAGTAGT
1 TTAAAATAGATAATA-TATGAAGTAGT
10125776 TTAAAATA
1 TTAAAATA
10125784 CATGTGGAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 19 0.29
26 13 0.20
27 25 0.38
28 6 0.09
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.35
Consensus pattern (26 bp):
TTAAAATAGATAATATATGAAGTAGT
Found at i:10125724 original size:77 final size:79
Alignment explanation
Indices: 10125623--10125786 Score: 296
Period size: 78 Copynumber: 2.1 Consensus size: 79
10125613 CAATAAAAAT
* *
10125623 AAATAAATAATATATGTGACAGTTTAAAAATAAATAATATATAAAAAA-TTAAAATGGATAATAG
1 AAATACATAATATATATGACAGTTTAAAAATAAATAATATATAAAAAATTTAAAATGGATAATAG
10125687 TTTGAAGTAGTTTA
66 TTTGAAGTAGTTTA
10125701 AAATACAT-ATATATATGACAGTTTAAAAATAAATAATATATAAAAAATTTAAAATGGATAATAG
1 AAATACATAATATATATGACAGTTTAAAAATAAATAATATATAAAAAATTTAAAATGGATAATAG
10125765 TTTGAAGTAGTTTA
66 TTTGAAGTAGTTTA
10125779 AAATACAT
1 AAATACAT
10125787 GTGGAAAAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
77 38 0.46
78 45 0.54
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (79 bp):
AAATACATAATATATATGACAGTTTAAAAATAAATAATATATAAAAAATTTAAAATGGATAATAG
TTTGAAGTAGTTTA
Found at i:10125761 original size:25 final size:25
Alignment explanation
Indices: 10125649--10125763 Score: 72
Period size: 25 Copynumber: 4.5 Consensus size: 25
10125639 TGACAGTTTA
*
10125649 AAAATAAATAATATATAAAAAA-TT
1 AAAATAGATAATATATAAAAAATTT
* * ** *
10125673 AAAATGGATAATAGTTTGAAGTAGTTT
1 AAAATAGATAATA-TAT-AAAAAATTT
* * * *
10125700 AAAATACAT-ATATATATGACAGTTT
1 AAAATAGATAATATATA-AAAAATTT
*
10125725 AAAAATAAATAATATATAAAAAATTT
1 -AAAATAGATAATATATAAAAAATTT
*
10125751 AAAATGGATAATA
1 AAAATAGATAATA
10125764 GTTTGAAGTA
Statistics
Matches: 67, Mismatches: 18, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
24 12 0.18
25 20 0.30
26 19 0.28
27 16 0.24
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (25 bp):
AAAATAGATAATATATAAAAAATTT
Found at i:10125835 original size:14 final size:16
Alignment explanation
Indices: 10125797--10125837 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
10125787 GTGGAAAAAT
10125797 TAAAATAA-ATAATAA
1 TAAAATAATATAATAA
*
10125812 TAAAACAATATAA-AA
1 TAAAATAATATAATAA
10125827 T-AAATAATATA
1 TAAAATAATATA
10125838 TGAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 10 0.43
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATAATATAATAA
Found at i:10126647 original size:20 final size:21
Alignment explanation
Indices: 10126624--10126662 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10126614 AACAAATGCC
10126624 AACAAAG-AGAAAAAAATAGT
1 AACAAAGAAGAAAAAAATAGT
10126644 AACAAAGAAGAAAAAAATA
1 AACAAAGAAGAAAAAAATA
10126663 TAAACTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (21 bp):
AACAAAGAAGAAAAAAATAGT
Found at i:10126696 original size:19 final size:21
Alignment explanation
Indices: 10126672--10126717 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
10126662 ATAAACTACC
10126672 TTTGAAATCT-CT-ATTTTTG
1 TTTGAAATCTACTGATTTTTG
*
10126691 TTTGAAATTTACTGATTTTTG
1 TTTGAAATCTACTGATTTTTG
10126712 TATTGA
1 T-TTGA
10126718 TTCTCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 8 0.35
22 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.57
Consensus pattern (21 bp):
TTTGAAATCTACTGATTTTTG
Found at i:10135432 original size:17 final size:17
Alignment explanation
Indices: 10135410--10135443 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10135400 TTCGTATATT
*
10135410 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
10135427 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
10135444 GCGAGTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:10138150 original size:16 final size:15
Alignment explanation
Indices: 10138129--10138164 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
10138119 TTAAGATCTT
10138129 ATATATCTAGATAAAA
1 ATATATCTAGA-AAAA
*
10138145 ATATATCTATAAAAA
1 ATATATCTAGAAAAA
10138160 ATATA
1 ATATA
10138165 GATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATCTAGAAAAA
Found at i:10154344 original size:19 final size:19
Alignment explanation
Indices: 10154302--10154344 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10154292 AAAATTACAA
10154302 AAAAATTCTAAATAAATTTT
1 AAAAATTCTAAAT-AATTTT
10154322 -AAAATTCTAAAT-ATTTAT
1 AAAAATTCTAAATAATTT-T
10154340 AAAAA
1 AAAAA
10154345 ATTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 1 0.05
19 16 0.76
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCTAAATAATTTT
Found at i:10155374 original size:22 final size:23
Alignment explanation
Indices: 10155349--10155407 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
10155339 CAACCAAATT
10155349 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
10155371 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
10155393 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
10155408 CTAAAACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:10167504 original size:32 final size:32
Alignment explanation
Indices: 10167468--10167565 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
10167458 TTTTAAACTT
10167468 TATGTTATCATATAATATACATCAACTTAACA
1 TATGTTATCATATAATATACATCAACTTAACA
* ****
10167500 TATG-T-CCATA-AATAT--ATTTTTTTAA-A
1 TATGTTATCATATAATATACATCAACTTAACA
10167526 TTTTATGTTATCATATAATATACATCAACTTAACA
1 ---TATGTTATCATATAATATACATCAACTTAACA
10167561 TATGT
1 TATGT
10167566 CCATATAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
26 1 0.02
27 6 0.13
29 9 0.19
30 5 0.11
31 5 0.11
32 14 0.30
34 6 0.13
35 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (32 bp):
TATGTTATCATATAATATACATCAACTTAACA
Found at i:10167516 original size:61 final size:61
Alignment explanation
Indices: 10167449--10167570 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
10167439 AAAAAAGTTT
10167449 AATATATTTTTTTAAACTTTATGTTATCATATAATATACATCAACTTAACATATGTCCATA
1 AATATATTTTTTTAAACTTTATGTTATCATATAATATACATCAACTTAACATATGTCCATA
*
10167510 AATATATTTTTTTAAATTTTATGTTATCATATAATATACATCAACTTAACATATGTCCATA
1 AATATATTTTTTTAAACTTTATGTTATCATATAATATACATCAACTTAACATATGTCCATA
10167571 TAATTTCACA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (61 bp):
AATATATTTTTTTAAACTTTATGTTATCATATAATATACATCAACTTAACATATGTCCATA
Found at i:10170467 original size:6 final size:7
Alignment explanation
Indices: 10170448--10170474 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10170438 TTTAACTTAA
10170448 TATTTTT
1 TATTTTT
10170455 TATTTTT
1 TATTTTT
10170462 TATTTTT
1 TATTTTT
10170469 TATTTT
1 TATTTT
10170475 AGAAAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:10172526 original size:13 final size:14
Alignment explanation
Indices: 10172510--10172542 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10172500 AACATCCAAC
10172510 CAAAAT-AGACATT
1 CAAAATAAGACATT
10172523 CAAAATAAGACATT
1 CAAAATAAGACATT
10172537 CAAAAT
1 CAAAAT
10172543 TGAAGGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
CAAAATAAGACATT
Found at i:10180713 original size:29 final size:29
Alignment explanation
Indices: 10180687--10180743 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
10180677 TAAACACCTC
10180687 ACTAAACCGA-CCACTAACTCCATCACCCT
1 ACTAAACC-ATCCACTAACTCCATCACCCT
*
10180716 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCATCCACTAACTCCATCACCC
10180744 CCACACCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCCT
Found at i:10180757 original size:37 final size:37
Alignment explanation
Indices: 10180706--10180794 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
10180696 ACCACTAACT
*
10180706 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCCACTAAACCATCCACTACCTCCATCA-CC
*
10180744 CCA-CACCCCACTAAACCGTCCACTACCTCCATCACC
1 CCATCACCCCACTAAACCATCCACTACCTCCATCACC
10180780 CCATCACCCCCACTA
1 CCATCA-CCCCACTA
10180795 CCTCCATCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
36 5 0.11
37 31 0.66
38 11 0.23
ACGTcount: A:0.28, C:0.55, G:0.01, T:0.16
Consensus pattern (37 bp):
CCATCACCCCACTAAACCATCCACTACCTCCATCACC
Found at i:10180906 original size:12 final size:11
Alignment explanation
Indices: 10180875--10180919 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
10180865 GGGAATTTAG
10180875 AGAGGATTTTT
1 AGAGGATTTTT
*
10180886 AGAAGATTTTT
1 AGAGGATTTTT
*
10180897 AGAGGAATTTT
1 AGAGGATTTTT
*
10180908 GGAGGAATTTTT
1 AGAGG-ATTTTT
10180920 TTTAGAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (11 bp):
AGAGGATTTTT
Found at i:10180918 original size:22 final size:22
Alignment explanation
Indices: 10180866--10180918 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
10180856 TTGTATGGGG
* *
10180866 GGAATTTAGAGAGGATTTTTAGA
1 GGAATTT-TAGAGGAATTTTAGA
* * *
10180889 AGATTTTTAGAGGAATTTTGGA
1 GGAATTTTAGAGGAATTTTAGA
10180911 GGAATTTT
1 GGAATTTT
10180919 TTTTAGAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (22 bp):
GGAATTTTAGAGGAATTTTAGA
Found at i:10181257 original size:19 final size:18
Alignment explanation
Indices: 10181233--10181269 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
10181223 TTATGTTTCA
10181233 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
10181252 TATTATTATATATTTATT
1 TATTATTATATATTTATT
10181270 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:10181267 original size:56 final size:56
Alignment explanation
Indices: 10181128--10181244 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
10181118 AACCCCTTTT
* * * * * * *
10181128 TTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGTTTTATTCTCATTATTT
1 TTATATTTGTTTTTTTTCTATTAATTTAATTAATTTGAGTTATATTCTCATTATTA
*
10181184 TTATATTTGTTTTTTTTCTATTAATTTAATTAATTTGAGTTATGTT-TCA-TATTA
1 TTATATTTGTTTTTTTTCTATTAATTTAATTAATTTGAGTTATATTCTCATTATTA
10181238 TTATATT
1 TTATATT
10181245 ATTTATTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 11 0.21
55 3 0.06
56 39 0.74
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (56 bp):
TTATATTTGTTTTTTTTCTATTAATTTAATTAATTTGAGTTATATTCTCATTATTA
Found at i:10181281 original size:17 final size:14
Alignment explanation
Indices: 10181241--10181271 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10181231 CATATTATTA
*
10181241 TATTATTTATTTAT
1 TATTATATATTTAT
10181255 TATTATATATTTAT
1 TATTATATATTTAT
10181269 TAT
1 TAT
10181272 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:10184389 original size:21 final size:20
Alignment explanation
Indices: 10184351--10184394 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10184341 CAAAATCCCG
10184351 AACATCAAACTTTAAACCCA
1 AACATCAAACTTTAAACCCA
* *
10184371 AACATTAAATTTTGAAACCCA
1 AACATCAAACTTT-AAACCCA
10184392 AAC
1 AAC
10184395 TCACCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (20 bp):
AACATCAAACTTTAAACCCA
Found at i:10188373 original size:21 final size:21
Alignment explanation
Indices: 10188349--10188392 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10188339 GAATCTTTAG
*
10188349 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
10188370 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
10188391 TA
1 TA
10188393 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:10190650 original size:22 final size:22
Alignment explanation
Indices: 10190623--10190666 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10190613 CTCTCGATTT
10190623 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
10190645 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
10190667 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:10194573 original size:71 final size:71
Alignment explanation
Indices: 10194457--10194599 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
10194447 GAAACAATTC
* * * *
10194457 AGTAATTGTTTTGCTTGTGTTAATCTTCACTATCTCAATTTTAGATTCGTTTCCTATAGTCGATC
1 AGTAATTGTTTTGCTCGTGTTAATCTTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATC
10194522 TGCATG
66 TGCATG
*
10194528 AGTAATTGTTTTGCTCGTGTTAATCTTCACTATGTCAATTTTAGATTAGTTTCCTATAATCAATC
1 AGTAATTGTTTTGCTCGTGTTAATCTTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATC
10194593 TGCATG
66 TGCATG
10194599 A
1 A
10194600 AGTGAATGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (71 bp):
AGTAATTGTTTTGCTCGTGTTAATCTTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATC
TGCATG
Found at i:10205533 original size:13 final size:13
Alignment explanation
Indices: 10205515--10205571 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
10205505 TATTATTTTA
10205515 TTATTTAATTATT
1 TTATTTAATTATT
*
10205528 TTATTTAAATATT
1 TTATTTAATTATT
*
10205541 TTATTTCATTA--
1 TTATTTAATTATT
10205552 -TA-TTAATTTATT
1 TTATTTAA-TTATT
10205564 TTATTTAA
1 TTATTTAA
10205572 GATTATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.09
10 5 0.14
13 23 0.66
14 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTAATTATT
Found at i:10206698 original size:138 final size:138
Alignment explanation
Indices: 10206542--10206824 Score: 539
Period size: 138 Copynumber: 2.1 Consensus size: 138
10206532 ATTCAATAAA
*
10206542 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGGTGGCAAATATCAATTAAAGT
1 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
*
10206607 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAGATTTGTATATTAACTCATA
66 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
10206672 AAAATGTT
131 AAAATGTT
*
10206680 AAAATAAAATATAGTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
1 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
10206745 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
66 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
10206810 AAAATGTT
131 AAAATGTT
10206818 AAAATAA
1 AAAATAA
10206825 TGTTAGCTTG
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 142 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (138 bp):
AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
AAAATGTT
Found at i:10210289 original size:17 final size:17
Alignment explanation
Indices: 10210267--10210300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10210257 TTCTCATAAA
*
10210267 TTTATTTAAGTATATTG
1 TTTATTTAAATATATTG
10210284 TTTATTTAAATATATTG
1 TTTATTTAAATATATTG
10210301 AGGAGGGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTATTTAAATATATTG
Found at i:10212324 original size:61 final size:61
Alignment explanation
Indices: 10212226--10212340 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
10212216 TATAAGCATA
* *
10212226 AAATAATTTAGTTCATTTGCTGTCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
1 AAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
* *
10212287 AAATAATTTAGTTCCTGTGCTATCAGCTTT-TGGTTACTAAAAATTTTGTCACTT
1 AAATAATTTAGTTCATGTGCTATCAACTTTGT-GTTACTAAAAATTTTGTCACTT
10212341 AACTGAGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 1 0.02
61 48 0.98
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (61 bp):
AAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
Found at i:10214037 original size:51 final size:51
Alignment explanation
Indices: 10213976--10214076 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
10213966 TATTTATATA
*
10213976 TTCCTTCTGGTAATAGCAGTCTTTTTTTATATATATAATTAAATGATGGTT
1 TTCCTGCTGGTAATAGCAGTCTTTTTTTATATATATAATTAAATGATGGTT
10214027 TTCCTGCTGGTAATAGCAGTCTTTTTTTATATATATAATTAAATGATGGT
1 TTCCTGCTGGTAATAGCAGTCTTTTTTTATATATATAATTAAATGATGGT
10214077 ATGTGATGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (51 bp):
TTCCTGCTGGTAATAGCAGTCTTTTTTTATATATATAATTAAATGATGGTT
Done.