Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 135 of 313
Found at i:43685473 original size:17 final size:18
Alignment explanation
Indices: 43685441--43685474 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43685431 TTACGAAGAC
*
43685441 GAAGATTTAGGAGATGGA
1 GAAGATGTAGGAGATGGA
43685459 GAAGATGTA-GAGATGG
1 GAAGATGTAGGAGATGG
43685475 TTGACGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (18 bp):
GAAGATGTAGGAGATGGA
Found at i:43689929 original size:255 final size:255
Alignment explanation
Indices: 43689471--43689975 Score: 1001
Period size: 255 Copynumber: 2.0 Consensus size: 255
43689461 GACCCACGAC
43689471 GGGCCCAGTTCAAGAGGTCATCGACCTTGGAGATCACGTACTCAGCAGGCTTAGACAGACTGGAG
1 GGGCCCAGTTCAAGAGGTCATCGACCTTGGAGATCACGTACTCAGCAGGCTTAGACAGACTGGAG
43689536 GGAGTGCCGGAGGTGGACGGCGGAGAAGGGCGAGCGTATGTGGTTGGGGTGGCAGAAGAGGAGAG
66 GGAGTGCCGGAGGTGGACGGCGGAGAAGGGCGAGCGTATGTGGTTGGGGTGGCAGAAGAGGAGAG
43689601 AGAAGGGACGGTGGTGTGAATAGCGAGGGCACGCTGTAGGGAGAGGAGGTGAGGGAGGCGATTGG
131 AGAAGGGACGGTGGTGTGAATAGCGAGGGCACGCTGTAGGGAGAGGAGGTGAGGGAGGCGATTGG
*
43689666 CGGTGGTTCGGGTGATTAGAGCCATGGCTCGACGGTGGTTTCTAGAGAAGAGAGGGTTCG
196 CAGTGGTTCGGGTGATTAGAGCCATGGCTCGACGGTGGTTTCTAGAGAAGAGAGGGTTCG
43689726 GGGCCCAGTTCAAGAGGTCATCGACCTTGGAGATCACGTACTCAGCAGGCTTAGACAGACTGGAG
1 GGGCCCAGTTCAAGAGGTCATCGACCTTGGAGATCACGTACTCAGCAGGCTTAGACAGACTGGAG
43689791 GGAGTGCCGGAGGTGGACGGCGGAGAAGGGCGAGCGTATGTGGTTGGGGTGGCAGAAGAGGAGAG
66 GGAGTGCCGGAGGTGGACGGCGGAGAAGGGCGAGCGTATGTGGTTGGGGTGGCAGAAGAGGAGAG
43689856 AGAAGGGACGGTGGTGTGAATAGCGAGGGCACGCTGTAGGGAGAGGAGGTGAGGGAGGCGATTGG
131 AGAAGGGACGGTGGTGTGAATAGCGAGGGCACGCTGTAGGGAGAGGAGGTGAGGGAGGCGATTGG
43689921 CAGTGGTTCGGGTGATTAGAGCCATGGCTCGACGGTGGTTTCTAGAGAAGAGAGG
196 CAGTGGTTCGGGTGATTAGAGCCATGGCTCGACGGTGGTTTCTAGAGAAGAGAGG
43689976 ATTCCCTTTG
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 249 1.00
ACGTcount: A:0.23, C:0.15, G:0.45, T:0.17
Consensus pattern (255 bp):
GGGCCCAGTTCAAGAGGTCATCGACCTTGGAGATCACGTACTCAGCAGGCTTAGACAGACTGGAG
GGAGTGCCGGAGGTGGACGGCGGAGAAGGGCGAGCGTATGTGGTTGGGGTGGCAGAAGAGGAGAG
AGAAGGGACGGTGGTGTGAATAGCGAGGGCACGCTGTAGGGAGAGGAGGTGAGGGAGGCGATTGG
CAGTGGTTCGGGTGATTAGAGCCATGGCTCGACGGTGGTTTCTAGAGAAGAGAGGGTTCG
Found at i:43693533 original size:24 final size:23
Alignment explanation
Indices: 43693497--43693551 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
43693487 GAGAGCCATC
*
43693497 TATCAGAAAGCTCAAGAGAGCTTA
1 TATCAGGAAGCTCAAGAGAGC-TA
* * *
43693521 TATCAGGATGCTCATGTGAGCTA
1 TATCAGGAAGCTCAAGAGAGCTA
*
43693544 TAACAGGA
1 TATCAGGA
43693552 CGATCTTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (23 bp):
TATCAGGAAGCTCAAGAGAGCTA
Found at i:43693550 original size:23 final size:23
Alignment explanation
Indices: 43693514--43693567 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
43693504 AAGCTCAAGA
* * *
43693514 GAGCTTATATCAGGATGCTCATGT
1 GAGC-TATAACAGGACGATCATGT
*
43693538 GAGCTATAACAGGACGATCTTGT
1 GAGCTATAACAGGACGATCATGT
43693561 GAGCTAT
1 GAGCTAT
43693568 GGTGTGTTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (23 bp):
GAGCTATAACAGGACGATCATGT
Found at i:43693883 original size:16 final size:17
Alignment explanation
Indices: 43693862--43693894 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
43693852 ATTTAGCTTA
43693862 ATTTAATACAAT-TAAT
1 ATTTAATACAATCTAAT
*
43693878 ATTTAATTCAATCTAAT
1 ATTTAATACAATCTAAT
43693895 TCACATCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAATACAATCTAAT
Found at i:43694813 original size:31 final size:31
Alignment explanation
Indices: 43694743--43694831 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
43694733 ATATTTTATG
* * *
43694743 TATCATTATATCAAATTATTTAAATATAATT
1 TATCATTATATTAAATTATTTAAATACAAAT
*
43694774 TATCATTATATTAGATTATTTAAATACAAAT
1 TATCATTATATTAAATTATTTAAATACAAAT
* * *
43694805 TATTATTATATTTAAGTTTTTTAAATA
1 TATCATTATA-TTAAATTATTTAAATA
43694832 ATTTATGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 36 0.73
32 13 0.27
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (31 bp):
TATCATTATATTAAATTATTTAAATACAAAT
Found at i:43703780 original size:30 final size:30
Alignment explanation
Indices: 43703719--43703780 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
43703709 CTTTTCCCTT
* *
43703719 AAAACTTTTACTCCTTCCCACTTTCCCCCC
1 AAAACTTTTACTCCCTCCCACTTCCCCCCC
43703749 AAAACTTTTACTCCCCTCCC-C-TCCCCTCCC
1 AAAACTTTTACT-CCCTCCCACTTCCCC-CCC
43703779 AA
1 AA
43703781 CCCCCCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.14
30 18 0.64
31 6 0.21
ACGTcount: A:0.21, C:0.50, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAACTTTTACTCCCTCCCACTTCCCCCCC
Found at i:43706787 original size:11 final size:11
Alignment explanation
Indices: 43706771--43706795 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43706761 AAATAAATAA
43706771 ATATTTATTAT
1 ATATTTATTAT
43706782 ATATTTATTAT
1 ATATTTATTAT
43706793 ATA
1 ATA
43706796 AATACTAAAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTTATTAT
Found at i:43712687 original size:10 final size:10
Alignment explanation
Indices: 43712672--43712754 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
43712662 CCAAGCGTGG
43712672 TTTTTAATAA
1 TTTTTAATAA
43712682 TTTTTAA-ATA
1 TTTTTAATA-A
*
43712692 TTTTTCAT--
1 TTTTTAATAA
**
43712700 TTTAAAAATAA
1 TTT-TTAATAA
43712711 -TTTTAATAA
1 TTTTTAATAA
43712720 TTTTTTAA-AA
1 -TTTTTAATAA
*
43712730 TTTAATAATAA
1 TTT-TTAATAA
43712741 TTTTTAAATAA
1 TTTTT-AATAA
43712752 TTT
1 TTT
43712755 CTACCAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
8 3 0.05
9 11 0.20
10 22 0.40
11 19 0.35
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:43712691 original size:11 final size:11
Alignment explanation
Indices: 43712672--43712798 Score: 56
Period size: 11 Copynumber: 11.7 Consensus size: 11
43712662 CCAAGCGTGG
43712672 TTTTT-AATAA
1 TTTTTAAATAA
43712682 TTTTTAAAT-A
1 TTTTTAAATAA
*
43712692 TTTTT-CAT--
1 TTTTTAAATAA
**
43712700 TTTAAAAATAA
1 TTTTTAAATAA
43712711 -TTTT-AATAA
1 TTTTTAAATAA
*
43712720 TTTTTTAA-AA
1 TTTTTAAATAA
*
43712730 -TTTAATAATAA
1 TTTTTA-AATAA
43712741 TTTTTAAATAA
1 TTTTTAAATAA
*
43712752 TTTCTACCAAAAATAA
1 TTT-T----TAAATAA
*
43712768 ATTTTAAATAA
1 TTTTTAAATAA
*
43712779 TTTTTTAATAA
1 TTTTTAAATAA
43712790 TTATTTAAA
1 TT-TTTAAA
43712799 AATCACTTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 28
0.67 0.12 0.22
Matches are distributed among these distances:
8 3 0.03
9 12 0.14
10 21 0.24
11 32 0.37
12 10 0.11
15 1 0.01
16 8 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:43712733 original size:18 final size:19
Alignment explanation
Indices: 43712712--43712748 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
43712702 TAAAAATAAT
43712712 TTTAATAAT-TTTTTAAAA
1 TTTAATAATATTTTTAAAA
43712730 TTTAATAATAATTTTTAAA
1 TTTAATAAT-ATTTTTAAA
43712749 TAATTTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAATAATATTTTTAAAA
Found at i:43712738 original size:21 final size:22
Alignment explanation
Indices: 43712705--43712754 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
43712695 TTCATTTTAA
43712705 AAATAATTT--TAATAATTTTT
1 AAATAATTTAATAATAATTTTT
*
43712725 TAA-AATTTAATAATAATTTTT
1 AAATAATTTAATAATAATTTTT
43712746 AAATAATTT
1 AAATAATTT
43712755 CTACCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 13 0.52
22 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATAATTTAATAATAATTTTT
Found at i:43719808 original size:15 final size:14
Alignment explanation
Indices: 43719788--43719838 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
43719778 CTAAAGTTTC
43719788 ATTTTTTTATATCAA
1 ATTTTTTTATAT-AA
*
43719803 A-TTTTTTATAAAA
1 ATTTTTTTATATAA
* *
43719816 ATATTTGTTACATAA
1 AT-TTTTTTATATAA
43719831 ATTTTTTT
1 ATTTTTTT
43719839 TAATGTGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 3 0.10
14 14 0.48
15 12 0.41
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (14 bp):
ATTTTTTTATATAA
Found at i:43722469 original size:20 final size:20
Alignment explanation
Indices: 43722441--43722479 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43722431 GCCCCGATCG
43722441 TCTCCGATGACTTTAGTCCA
1 TCTCCGATGACTTTAGTCCA
*
43722461 TCTCTGATGACTTTAGTCC
1 TCTCCGATGACTTTAGTCC
43722480 TTCCGTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (20 bp):
TCTCCGATGACTTTAGTCCA
Found at i:43722492 original size:21 final size:19
Alignment explanation
Indices: 43722445--43722494 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
43722435 CGATCGTCTC
43722445 CGATGACTTTAGTCCATCT
1 CGATGACTTTAGTCCATCT
*
43722464 CTGATGACTTTAGTCCTTCCGT
1 C-GATGACTTTAGTCCAT-C-T
43722486 CGATGACTT
1 CGATGACTT
43722495 GGCAGATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 9 0.33
22 2 0.07
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (19 bp):
CGATGACTTTAGTCCATCT
Found at i:43734063 original size:13 final size:13
Alignment explanation
Indices: 43734045--43734076 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43734035 TTTCCAGCAA
43734045 TTATGAATTTATT
1 TTATGAATTTATT
43734058 TTATGAATTTATT
1 TTATGAATTTATT
*
43734071 TGATGA
1 TTATGA
43734077 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:43734237 original size:16 final size:16
Alignment explanation
Indices: 43734216--43734246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43734206 ATTGGCATCC
43734216 TTGAGATAATGAGAGT
1 TTGAGATAATGAGAGT
*
43734232 TTGAGATCATGAGAG
1 TTGAGATAATGAGAG
43734247 GTCCCATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.29
Consensus pattern (16 bp):
TTGAGATAATGAGAGT
Found at i:43741441 original size:60 final size:60
Alignment explanation
Indices: 43741353--43741467 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
43741343 CTATTGTGGT
* * * * *
43741353 TTAAAAAAAGTTTTGGGATTAAATTAAGAAAAGTTGTTAAGTTCAGAAACTAAATGTGAA
1 TTAAAAAAAGTTTAGGGACTAAATTAAGAAAAATTGTCAAGTTCAAAAACTAAATGTGAA
* *
43741413 TTAAAAAAGGTTTAGGGACTAAGTTAAGAAAAATTGTCAAGTTCAAAAACTAAAT
1 TTAAAAAAAGTTTAGGGACTAAATTAAGAAAAATTGTCAAGTTCAAAAACTAAAT
43741468 TATATTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (60 bp):
TTAAAAAAAGTTTAGGGACTAAATTAAGAAAAATTGTCAAGTTCAAAAACTAAATGTGAA
Found at i:43744764 original size:29 final size:30
Alignment explanation
Indices: 43744728--43744785 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
43744718 GAAGGCACAA
43744728 AAGATAGGGTCATTGTATAGGCGA-AAAAC
1 AAGATAGGGTCATTGTATAGGCGAGAAAAC
43744757 AAGATAGGGTCATTGTATAGGCGAGAAAA
1 AAGATAGGGTCATTGTATAGGCGAGAAAA
43744786 AAGTTGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (30 bp):
AAGATAGGGTCATTGTATAGGCGAGAAAAC
Found at i:43745536 original size:17 final size:19
Alignment explanation
Indices: 43745501--43745538 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
43745491 TATAATCTAG
*
43745501 AAAAATATATAAATTATAA
1 AAAAATATATAAATAATAA
43745520 AAAAAT-TATAAA-AATAA
1 AAAAATATATAAATAATAA
43745537 AA
1 AA
43745539 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATATATAAATAATAA
Found at i:43745559 original size:43 final size:44
Alignment explanation
Indices: 43745458--43745571 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 44
43745448 TATGCACATT
* *
43745458 AAAAAAATA-AAA-AATAAAAAAATTCAGAAAATATATAATCTAG
1 AAAAAAATATAAATTATAAAAAAATT-AGAAAATATAAAATCTAG
* * * *
43745501 AAAAATATATAAATTATAAAAAAATTATAAAA-ATAAAATTTAT
1 AAAAAAATATAAATTATAAAAAAATTAGAAAATATAAAATCTAG
43745544 AAAAAAATGAT-AATTA-AAAAGAAATTAG
1 AAAAAAAT-ATAAATTATAAAA-AAATTAG
43745572 TTGAAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 4 0.07
43 34 0.58
44 10 0.17
45 11 0.19
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.25
Consensus pattern (44 bp):
AAAAAAATATAAATTATAAAAAAATTAGAAAATATAAAATCTAG
Found at i:43756238 original size:29 final size:29
Alignment explanation
Indices: 43756179--43756238 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
43756169 GCATTTGGAG
*
43756179 TTTAATGCCTCTACTTTCATTTTCAAGAA
1 TTTAATGCCTCTACTTTCAATTTCAAGAA
43756208 TTTAAT-CCTCTACTTTTCAGATTTCAA-AA
1 TTTAATGCCTCTAC-TTTCA-ATTTCAAGAA
43756237 TT
1 TT
43756239 CAGGTCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.25
29 15 0.54
30 6 0.21
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTAATGCCTCTACTTTCAATTTCAAGAA
Found at i:43758744 original size:15 final size:16
Alignment explanation
Indices: 43758724--43758756 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43758714 CAAGACACAG
*
43758724 CTCA-TTGATTGGCAA
1 CTCATTTGAATGGCAA
43758739 CTCATTTGAATGGCAA
1 CTCATTTGAATGGCAA
43758755 CT
1 CT
43758757 AACAGCAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (16 bp):
CTCATTTGAATGGCAA
Found at i:43763435 original size:30 final size:30
Alignment explanation
Indices: 43763399--43763476 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
43763389 TCTTTCTACT
* *
43763399 CAAATCAGGAGTAAATTAATCCACATTCGC
1 CAAATCAAGAGTAAATTAATCCACATACGC
* ** * *
43763429 CAAATCATGAACAAATTAATTCATATACGC
1 CAAATCAAGAGTAAATTAATCCACATACGC
*
43763459 TAAATCAAAGAGTAAATT
1 CAAATC-AAGAGTAAATT
43763477 GGTCTTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
30 29 0.78
31 8 0.22
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (30 bp):
CAAATCAAGAGTAAATTAATCCACATACGC
Found at i:43764824 original size:19 final size:19
Alignment explanation
Indices: 43764800--43764865 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
43764790 TTTATCGAGT
43764800 TTTTTAATTTTAATATATA
1 TTTTTAATTTTAATATATA
43764819 TTTTTATATTATTAA-AT-TA
1 TTTTTA-ATT-TTAATATATA
43764838 TGTTATT-ATCTTTAATATATA
1 T-TT-TTAAT-TTTAATATATA
*
43764859 TTATTAA
1 TTTTTAA
43764866 CTCTAAGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
19 17 0.45
20 12 0.32
21 9 0.24
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTAATTTTAATATATA
Found at i:43789520 original size:24 final size:25
Alignment explanation
Indices: 43789473--43789518 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43789463 TTCAAATTTC
43789473 TTTTAAAAAATTATAGTATTTTTAT
1 TTTTAAAAAATTATAGTATTTTTAT
43789498 TTTTAAAAAATTAT--TATTTTT
1 TTTTAAAAAATTATAGTATTTTT
43789519 TAAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAAAAAATTATAGTATTTTTAT
Found at i:43795145 original size:42 final size:42
Alignment explanation
Indices: 43795112--43795246 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
43795102 GTTTAACTCA
* * *
43795112 TATGAGTTTCCATTCAACCCATATGGGTTTTTGTTCAGCTCT
1 TATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTCAGCTCT
* ** ** *
43795154 TTTGAGCTTCTGTTTGACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTCAGCTCT
* * *
43795196 TATAAGCTTCCATTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTCAGCTCT
*
43795238 TATGTGCTT
1 TATGAGCTT
43795247 TTGTTTAGCC
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTCAGCTCT
Found at i:43798427 original size:20 final size:19
Alignment explanation
Indices: 43798398--43798438 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
43798388 CAAATTTATG
43798398 AATTGAACTTT-AATTATTA
1 AATTGAACTTTGAA-TATTA
43798417 AATTAGAACTTTGAATATTA
1 AATT-GAACTTTGAATATTA
43798437 AA
1 AA
43798439 AAAAAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTGAACTTTGAATATTA
Found at i:43807017 original size:21 final size:22
Alignment explanation
Indices: 43806991--43807037 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
43806981 CTCTGCTCAA
*
43806991 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
43807012 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
43807034 ACTC
1 ACTC
43807038 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:43812660 original size:20 final size:22
Alignment explanation
Indices: 43812631--43812685 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
43812621 ATTTATAATC
*
43812631 TATATTTTAATTATT-ATTAAA
1 TATATATTAATTATTAATTAAA
43812652 -ATATATTAATTATTAAATTAAA
1 TATATATTAATTATT-AATTAAA
*
43812674 TATATATAAATT
1 TATATATTAATT
43812686 TAAAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.45
22 6 0.21
23 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATATTAATTATTAATTAAA
Found at i:43812688 original size:21 final size:21
Alignment explanation
Indices: 43812650--43812689 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43812640 ATTATTATTA
*
43812650 AAATATATTAATTATTAAATT
1 AAATATATTAAATATTAAATT
43812671 AAATATATATAAAT-TTAAA
1 AAATATAT-TAAATATTAAA
43812690 AATTGAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATATTAAATATTAAATT
Found at i:43816486 original size:16 final size:16
Alignment explanation
Indices: 43816440--43816495 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
43816430 GTTTAAATTT
43816440 TATAAAAA-TTAAAAA
1 TATAAAAATTTAAAAA
*
43816455 TATATAAA-TTACAAAA
1 TATAAAAATTTA-AAAA
*
43816471 AATAAAAATTGTAAAAA
1 TATAAAAATT-TAAAAA
43816488 TTATAAAA
1 -TATAAAA
43816496 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 10 0.30
16 10 0.30
17 5 0.15
18 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TATAAAAATTTAAAAA
Found at i:43816487 original size:9 final size:9
Alignment explanation
Indices: 43816331--43816495 Score: 66
Period size: 9 Copynumber: 18.4 Consensus size: 9
43816321 TATAGATGAC
43816331 AAAAAGTTAT
1 AAAAA-TTAT
*
43816341 ATAAATTATT
1 AAAAATTA-T
43816351 AAAAATTCA-
1 AAAAATT-AT
43816360 AAAAGCATT-T
1 AAAA--ATTAT
43816370 AAAAATTAT
1 AAAAATTAT
* *
43816379 TAAAA-GA-
1 AAAAATTAT
43816386 ACAAAA-TAT
1 A-AAAATTAT
43816395 AAAAATTAT
1 AAAAATTAT
43816404 GAAAAATATTAT
1 --AAAA-ATTAT
43816416 AAAAA-TAT
1 AAAAATTAT
*
43816424 CGAAAAGTT-T
1 --AAAAATTAT
**
43816434 AAATTTTAT
1 AAAAATTAT
43816443 AAAAA-T-T
1 AAAAATTAT
43816450 AAAAA-TAT
1 AAAAATTAT
* *
43816458 ATAAATTAC
1 AAAAATTAT
43816467 AAAAA--AT
1 AAAAATTAT
*
43816474 AAAAATTGT
1 AAAAATTAT
43816483 AAAAATTAT
1 AAAAATTAT
43816492 AAAA
1 AAAA
43816496 TAAAATAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 41
0.67 0.10 0.23
Matches are distributed among these distances:
7 13 0.11
8 27 0.23
9 40 0.34
10 24 0.20
11 9 0.08
12 5 0.04
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:43816495 original size:24 final size:23
Alignment explanation
Indices: 43816439--43816500 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
43816429 AGTTTAAATT
*
43816439 TTATAAAAATTAAAAATATATAAA
1 TTATAAAAA-TAAAAATATAAAAA
* *
43816463 TTACAAAAAATAAAAATTGTAAAAA
1 TTA-TAAAAATAAAAA-TATAAAAA
43816488 TTAT-AAAATAAAA
1 TTATAAAAATAAAA
43816501 TAAAATTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.28
24 9 0.28
25 14 0.44
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
TTATAAAAATAAAAATATAAAAA
Found at i:43816514 original size:27 final size:28
Alignment explanation
Indices: 43816469--43816524 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
43816459 TAAATTACAA
43816469 AAAATAAAAATTGTAAAAAT-TATAAAAT
1 AAAATAAAAATTGTAAAAATGT-TAAAAT
* *
43816497 AAAATAAAATTTG-CAAAATGTTAAAAT
1 AAAATAAAAATTGTAAAAATGTTAAAAT
43816524 A
1 A
43816525 GGGTTCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAATAAAAATTGTAAAAATGTTAAAAT
Found at i:43819387 original size:19 final size:20
Alignment explanation
Indices: 43819361--43819414 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
43819351 TATTTTTAAA
43819361 ATTTAAAAATCATTAAAATT
1 ATTTAAAAATCATTAAAATT
* *
43819381 A-TTAAAAAACATAAAAATT
1 ATTTAAAAATCATTAAAATT
43819400 ATTTAAAAAATCATT
1 ATTT-AAAAATCATT
43819415 TATTTTTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 17 0.61
20 3 0.11
21 8 0.29
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTAAAAATCATTAAAATT
Found at i:43819611 original size:9 final size:9
Alignment explanation
Indices: 43819591--43819645 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
43819581 AAAATTGTTT
43819591 TTAAAAAT-
1 TTAAAAATA
43819599 TTAAAAATA
1 TTAAAAATA
*
43819608 TTAAAACTA
1 TTAAAAATA
43819617 TTAAAAAGT-
1 TTAAAAA-TA
* *
43819626 GTAAAATTA
1 TTAAAAATA
*
43819635 TAAAAAATA
1 TTAAAAATA
43819644 TT
1 TT
43819646 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 9 0.25
9 26 0.72
10 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:43819631 original size:27 final size:26
Alignment explanation
Indices: 43819591--43819645 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
43819581 AAAATTGTTT
* * *
43819591 TTAAAAATTTAAAAATATTAAAACTA
1 TTAAAAATGTAAAAATATAAAAAATA
*
43819617 TTAAAAAGTGTAAAATTATAAAAAATA
1 TTAAAAA-TGTAAAAATATAAAAAATA
43819644 TT
1 TT
43819646 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (26 bp):
TTAAAAATGTAAAAATATAAAAAATA
Found at i:43822756 original size:22 final size:22
Alignment explanation
Indices: 43822710--43822754 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
43822700 ATATCCAAAC
*
43822710 AATAACAATAAAATAATGAGAA
1 AATAACAAGAAAATAATGAGAA
*
43822732 AATAACAGGAAAATAAT-AGAA
1 AATAACAAGAAAATAATGAGAA
43822753 AA
1 AA
43822755 ATTCGAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (22 bp):
AATAACAAGAAAATAATGAGAA
Found at i:43826799 original size:14 final size:15
Alignment explanation
Indices: 43826780--43826808 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43826770 TAAAAATTGG
43826780 ATCT-AAAATTTGAA
1 ATCTAAAAATTTGAA
43826794 ATCTAAAAATTTGAA
1 ATCTAAAAATTTGAA
43826809 GGATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (15 bp):
ATCTAAAAATTTGAA
Found at i:43827488 original size:23 final size:22
Alignment explanation
Indices: 43827454--43827515 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
43827444 GCCCGGCCCG
*
43827454 TTTTTAATTAAAATTAAAATTATT
1 TTTTTAA-TAAAATTAAAATTA-A
43827478 TTTTTAATAAAATTAAAATTAA
1 TTTTTAATAAAATTAAAATTAA
* *
43827500 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
43827516 TTGTTAGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 14 0.40
23 14 0.40
24 7 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAATTAA
Found at i:43827510 original size:16 final size:16
Alignment explanation
Indices: 43827489--43827530 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
43827479 TTTTAATAAA
43827489 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
43827505 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
43827521 AGTAAAATTA
1 ATTAAAATTA
43827531 TCAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:43827513 original size:22 final size:23
Alignment explanation
Indices: 43827460--43827515 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
43827450 CCCGTTTTTA
* *
43827460 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAATTATATTGTT
*
43827483 AATAAAATTAAAATTA-ATTGTT
1 ATTAAAATTAAAATTATATTGTT
43827505 ATTAAAATTAA
1 ATTAAAATTAA
43827516 TTGTTAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAAATTAAAATTATATTGTT
Found at i:43827692 original size:22 final size:24
Alignment explanation
Indices: 43827652--43827695 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43827642 AAATAAACTT
43827652 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
43827676 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
43827696 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:43837842 original size:22 final size:22
Alignment explanation
Indices: 43837817--43837861 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43837807 TACAGTGTTC
43837817 ACTTAGATTTATCTAAGTTTTT
1 ACTTAGATTTATCTAAGTTTTT
* *
43837839 ACTTAGATTTATGTGAGTTTTT
1 ACTTAGATTTATCTAAGTTTTT
43837861 A
1 A
43837862 AGTAAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (22 bp):
ACTTAGATTTATCTAAGTTTTT
Found at i:43838952 original size:20 final size:21
Alignment explanation
Indices: 43838912--43838952 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43838902 ATGCCAAAAG
*
43838912 AAGCCACAAAAGAATAACACA
1 AAGCCACAAAAGAAAAACACA
43838933 AAGCCACAAAA-AAAAACACA
1 AAGCCACAAAAGAAAAACACA
43838953 TGAGAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.66, C:0.24, G:0.07, T:0.02
Consensus pattern (21 bp):
AAGCCACAAAAGAAAAACACA
Found at i:43840532 original size:25 final size:25
Alignment explanation
Indices: 43840504--43840574 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
43840494 GAGAGCATTG
* *
43840504 ACGTGCTAGTAATCAGATAGCACCA
1 ACGTGCTAATAATCAGAGAGCACCA
43840529 ACGTGCTAATAATCAGAGAGCACCA
1 ACGTGCTAATAATCAGAGAGCACCA
*
43840554 ATGTGCTAATAATCAGAGAGC
1 ACGTGCTAATAATCAGAGAGC
43840575 GCGCTAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (25 bp):
ACGTGCTAATAATCAGAGAGCACCA
Found at i:43841537 original size:5 final size:5
Alignment explanation
Indices: 43841527--43841619 Score: 159
Period size: 5 Copynumber: 18.6 Consensus size: 5
43841517 TTATTTCTTT
* * *
43841527 TATAA TATAA TATAA TATAT TATAA TATAA TATAA CATAA CATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
43841577 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
43841620 TTATATTTAA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 84 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:43841658 original size:33 final size:34
Alignment explanation
Indices: 43841533--43841667 Score: 98
Period size: 35 Copynumber: 3.9 Consensus size: 34
43841523 CTTTTATAAT
* * * * *
43841533 ATAATATAATATATTATAATATAATATAAC-ATAA
1 ATAATATAATATAATAT-ATATATTTTAACTTTTA
* * * *
43841567 CATAATATAATATAATATAATATAATATAA-TATAA
1 -ATAATATAATATAATAT-ATATATTTTAACTTTTA
*
43841602 TATAATATAATATAATATTTATA-TTTAACTTTTA
1 -ATAATATAATATAATATATATATTTTAACTTTTA
*
43841636 ATAATATTATTATAATA-ATATATTTTAACTTT
1 ATAATA-TAATATAATATATATATTTTAACTTT
43841668 CGATTTTTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
33 14 0.16
34 25 0.28
35 49 0.56
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
ATAATATAATATAATATATATATTTTAACTTTTA
Found at i:43845381 original size:65 final size:65
Alignment explanation
Indices: 43845274--43845397 Score: 212
Period size: 65 Copynumber: 1.9 Consensus size: 65
43845264 GCTAGGGCAT
* *
43845274 TATTAGAGTCGACTTGAAGGGATTAGATGAGGAATCTATCAAATGTAATGGATTGATGAATGCAC
1 TATTAGAATCAACTTGAAGGGATTAGATGAGGAATCTATCAAATGTAATGGATTGATGAATGCAC
* *
43845339 TATTAGAATCAACTTGAAGGGATTAGATGAGGAATCTGTCAAATGTGATGGATTGATGA
1 TATTAGAATCAACTTGAAGGGATTAGATGAGGAATCTATCAAATGTAATGGATTGATGA
43845398 GTATTGTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (65 bp):
TATTAGAATCAACTTGAAGGGATTAGATGAGGAATCTATCAAATGTAATGGATTGATGAATGCAC
Found at i:43846152 original size:13 final size:12
Alignment explanation
Indices: 43846136--43846165 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
43846126 ATCAAAACGA
43846136 AAAAAGAAAAAGG
1 AAAAAGAAAAA-G
43846149 AAAAAGAAAAAG
1 AAAAAGAAAAAG
43846161 AAAAA
1 AAAAA
43846166 CACTTTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:43846158 original size:5 final size:6
Alignment explanation
Indices: 43846136--43846165 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
43846126 ATCAAAACGA
43846136 AAAAAG AAAAAGG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAA-G AAAAAG AAAAAG AAAAA
43846166 CACTTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:43849544 original size:24 final size:25
Alignment explanation
Indices: 43849492--43849546 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
43849482 ACGAGAAATG
* *
43849492 GGAGAGTCAAAGAGATGAGATTTGT
1 GGAGAGACAAAGAGATGAGATTTGA
43849517 GGAGAGACAGAAGAG-TGA-ATTTGA
1 GGAGAGACA-AAGAGATGAGATTTGA
43849541 GGAGAG
1 GGAGAG
43849547 GAATGGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 11 0.41
26 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.40, T:0.18
Consensus pattern (25 bp):
GGAGAGACAAAGAGATGAGATTTGA
Found at i:43852088 original size:15 final size:15
Alignment explanation
Indices: 43852060--43852093 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43852050 TTTGATTTAA
43852060 TAAATTATTAAAAAT
1 TAAATTATTAAAAAT
43852075 TAAATATATT-AAAAT
1 TAAAT-TATTAAAAAT
43852090 TAAA
1 TAAA
43852094 GAAAACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATTATTAAAAAT
Found at i:43859642 original size:5 final size:6
Alignment explanation
Indices: 43859608--43859640 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
43859598 TTTTACACAA
43859608 TTTAGTT TTTATT TTTATT TTTATT TTTATT TT
1 TTTA-TT TTTATT TTTATT TTTATT TTTATT TT
43859641 ATAAAGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:43866088 original size:16 final size:15
Alignment explanation
Indices: 43866063--43866096 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
43866053 AGATTAATAA
*
43866063 AAAAATATAAATATT
1 AAAAATATAAAAATT
43866078 AAAAATCATAAAAATT
1 AAAAAT-ATAAAAATT
43866094 AAA
1 AAA
43866097 GTAAGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATATAAAAATT
Found at i:43868628 original size:18 final size:17
Alignment explanation
Indices: 43868592--43868635 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
43868582 TTCTTCAACT
43868592 AAAAATAA-TTAAATAA
1 AAAAATAATTTAAATAA
*
43868608 AAAAATAATTTAAAATTA
1 AAAAATAATTT-AAATAA
*
43868626 AAATATAATT
1 AAAAATAATT
43868636 ATACAACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAATTTAAATAA
Found at i:43868689 original size:16 final size:16
Alignment explanation
Indices: 43868670--43868707 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43868660 ATAATAATAG
43868670 AAATA-AATAATAAATT
1 AAATATAATAA-AAATT
*
43868686 AAATATAATTAAAATT
1 AAATATAATAAAAATT
43868702 AAATAT
1 AAATAT
43868708 TACTAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATAATAAAAATT
Found at i:43868714 original size:16 final size:16
Alignment explanation
Indices: 43868681--43868715 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43868671 AATAAATAAT
*
43868681 AAATTAAATATAATTA
1 AAATTAAATATAACTA
*
43868697 AAATTAAATATTACTA
1 AAATTAAATATAACTA
43868713 AAA
1 AAA
43868716 GAATTTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATATAACTA
Found at i:43876413 original size:42 final size:42
Alignment explanation
Indices: 43876364--43876477 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
43876354 ACATATTATT
*
43876364 AATCTTACTT-GCAATCCGAAAATTAAACTGAAACATACTAAG
1 AATCTTACTTCG-AATCCAAAAATTAAACTGAAACATACTAAG
* * **
43876406 AATCTTACTTCGAATCAAAAAAAGTAAACTGAAACATACTATT
1 AATCTTACTTCGAATC-CAAAAATTAAACTGAAACATACTAAG
* *
43876449 AACCTTACTTCGAATTCAAAAATTAAACT
1 AATCTTACTTCGAATCCAAAAATTAAACT
43876478 AAGTAAAGCG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.41
43 36 0.59
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (42 bp):
AATCTTACTTCGAATCCAAAAATTAAACTGAAACATACTAAG
Found at i:43882099 original size:22 final size:23
Alignment explanation
Indices: 43882074--43882129 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
43882064 GTTCTTAATG
43882074 TTTATATTTTAATT-AATTTGAT
1 TTTATATTTTAATTAAATTTGAT
* **
43882096 TTTATTTTTTTGTTAAATTTGAT
1 TTTATATTTTAATTAAATTTGAT
43882119 TATTAATATTT
1 T-TT-ATATTT
43882130 CAAAAAGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 2 0.07
25 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTATATTTTAATTAAATTTGAT
Found at i:43889088 original size:13 final size:14
Alignment explanation
Indices: 43889065--43889103 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
43889055 CTAAAATTTT
43889065 TAAATTTTAACAAA
1 TAAATTTTAACAAA
*
43889079 TAAA-TTTAACAAT
1 TAAATTTTAACAAA
*
43889092 TAGATTTTAACA
1 TAAATTTTAACA
43889104 GTTAGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAATTTTAACAAA
Found at i:43889108 original size:14 final size:14
Alignment explanation
Indices: 43889068--43889112 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
43889058 AAATTTTTAA
*
43889068 ATTTTAACAAATA-
1 ATTTTAACAATTAG
*
43889081 AATTTAACAATTAG
1 ATTTTAACAATTAG
*
43889095 ATTTTAACAGTTAG
1 ATTTTAACAATTAG
43889109 ATTT
1 ATTT
43889113 AAGCATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (14 bp):
ATTTTAACAATTAG
Found at i:43889113 original size:13 final size:13
Alignment explanation
Indices: 43889070--43889114 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
43889060 ATTTTTAAAT
* *
43889070 TTTAACAAATAAA
1 TTTAACAATTAGA
43889083 TTTAACAATTAGA
1 TTTAACAATTAGA
*
43889096 TTTTAACAGTTAGA
1 -TTTAACAATTAGA
43889110 TTTAA
1 TTTAA
43889115 GCATGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
TTTAACAATTAGA
Found at i:43898389 original size:11 final size:11
Alignment explanation
Indices: 43898358--43898405 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
43898348 CAATAAAAAT
*
43898358 AAAATAATAGC
1 AAAATTATAGC
* *
43898369 AATATAATAGC
1 AAAATTATAGC
* *
43898380 GAAATTATAGT
1 AAAATTATAGC
43898391 AAAATTATAGC
1 AAAATTATAGC
43898402 AAAA
1 AAAA
43898406 CAATAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (11 bp):
AAAATTATAGC
Found at i:43900181 original size:17 final size:18
Alignment explanation
Indices: 43900159--43900196 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43900149 TGAGGATCAA
43900159 TTAAAA-CATTCTAAAAT
1 TTAAAACCATTCTAAAAT
* *
43900176 TTAAAACCTTTTTAAAAT
1 TTAAAACCATTCTAAAAT
43900194 TTA
1 TTA
43900197 GACAATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAACCATTCTAAAAT
Found at i:43907736 original size:71 final size:70
Alignment explanation
Indices: 43907614--43907789 Score: 194
Period size: 71 Copynumber: 2.5 Consensus size: 70
43907604 CTTTCCAAGG
* * ** *
43907614 AAAATCAACTCATAATGCGAG-AGATGAGTTGAGCCTCAAGATACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCAGAGGTATTTTTAATTTA
*
43907678 TTTTTT
65 TGTTTT
** * *
43907684 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCAGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCAGAGGTATTTTTAATTTA
43907749 TGTTTT
65 TGTTTT
** * *
43907755 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
43907790 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 31 0.34
71 57 0.63
72 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCAGAGGTATTTTTAATTTAT
GTTTT
Found at i:43907892 original size:75 final size:74
Alignment explanation
Indices: 43907807--43908136 Score: 430
Period size: 75 Copynumber: 4.4 Consensus size: 74
43907797 TTTGTTTTTC
*
43907807 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCT
43907872 GTTGTTAAAA
66 GTT-TTAAAA
* ** * *
43907882 AAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCT
*
43907947 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
43907954 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTAAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCT
43908019 GTTTTCAAAA
66 GTTTT-AAAA
* * * * *
43908029 AAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ATGACACGCTGAGGTAATTTCAATTT
*
43908094 CTGTTTTTAAA
64 CTGTTTTAAAA
43908105 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
43908137 TCTTCAGATT
Statistics
Matches: 224, Mismatches: 26, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
72 63 0.28
74 2 0.01
75 97 0.43
76 34 0.15
77 28 0.12
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:43908060 original size:147 final size:147
Alignment explanation
Indices: 43907793--43908136 Score: 478
Period size: 147 Copynumber: 2.3 Consensus size: 147
43907783 TAAGCCTTTT
* * *
43907793 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCATGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTAAGG
*
43907858 TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGG-
66 TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTAATATTGCAAGAAATGAGTTGAGCCTC-GGT
43907922 ACATGCTGAGGTAATTTC
130 ACATGCTGAGGTAATTTC
* ** *
43907940 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTAAG
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTAAG
* * **
43908004 GTATTTTCAATTTCTGTT-TTCAAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGG
65 GTAATTTCAATTTCTGTTGTT-AAAAAAAATCAACTAATATTGCAAGAAATGAGTTGAGCCTCGG
*
43908068 TTCACATGCTGAGGTATTTTC
129 -T-ACATGCTGAGGTAATTTC
*
43908089 AATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AATTTCTGTTTTT--CAAAATCAACTCATATTGCGAGAGGTGAGTTGA
43908137 TCTTCAGATT
Statistics
Matches: 172, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
146 13 0.08
147 101 0.59
149 25 0.15
150 4 0.02
151 25 0.15
152 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (147 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTAAGG
TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTAATATTGCAAGAAATGAGTTGAGCCTCGGTA
CATGCTGAGGTAATTTC
Found at i:43908339 original size:127 final size:128
Alignment explanation
Indices: 43908029--43908392 Score: 371
Period size: 127 Copynumber: 2.8 Consensus size: 128
43908019 GTTTTCAAAA
* * *
43908029 AAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
43908094 CTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-ATCTTCAGATTACACACTGTGG
64 CTG-TTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGT-G
43908158 TATT
125 TATT
**** * * * *
43908162 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * * * *
43908227 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-ATTTC-TACT-T-T-T
66 GTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACACACTGTGTAT
43908287 T
128 T
* * * *
43908288 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
* **
43908353 TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 TGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
43908393 GCCTCAGGAC
Statistics
Matches: 191, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
126 30 0.16
127 57 0.30
128 2 0.01
129 1 0.01
130 36 0.19
131 30 0.16
132 3 0.02
133 32 0.17
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (128 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGTATT
Found at i:43909367 original size:46 final size:44
Alignment explanation
Indices: 43909307--43909421 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
43909297 ACAGGACAGA
* **
43909307 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGTTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
43909353 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
43909397 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
43909422 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:43909402 original size:44 final size:45
Alignment explanation
Indices: 43909307--43909440 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
43909297 ACAGGACAGA
* **
43909307 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGTTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
43909353 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
43909397 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
43909441 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:43910929 original size:73 final size:72
Alignment explanation
Indices: 43910745--43910997 Score: 400
Period size: 73 Copynumber: 3.5 Consensus size: 72
43910735 TTTGAAAGAA
* *
43910745 TCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
43910810 TCAAAAT
66 TCAAAAT
*
43910817 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
43910882 TTCAAAAT
65 TTCAAAAT
* * *
43910890 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
43910955 TCAAAAAAA
66 TC--AAAAT
43910964 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
43910998 GTTCACATGT
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
72 63 0.37
73 72 0.43
74 34 0.20
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:43911969 original size:3 final size:3
Alignment explanation
Indices: 43911961--43911988 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43911951 TGTATTTCAA
43911961 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
43911989 GTACATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:43912203 original size:126 final size:126
Alignment explanation
Indices: 43911948--43912194 Score: 308
Period size: 126 Copynumber: 2.0 Consensus size: 126
43911938 ATATTACATT
* * * *
43911948 TTTTGTATTTCAATATTATTATTATTATTATTATTATTATTGTACATTAGTGTATATCTTCATGT
1 TTTTGTATTTCAATATTATTATTATTATTATTATTATCATTGAACATTACTATATATCTTCATGT
* * **
43912013 ATGTATATATATGTAGTAATGTTTTTATTACTTTATTTTAATATTTTTTTATTATAATAGC
66 ATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAATATCATTTTATTATAATAGC
43912074 TTTTGTATTTCAATATTATTA-T-TT-TTATTATTATCATT-AACATTACTATATATTCTT-AT-
1 TTTTGTATTTCAATATTATTATTATTATTATTATTATCATTGAACATTACTATATA-TCTTCATG
* *
43912133 TAGATGTATATATACATATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
65 T--ATGTATATAT--ATATAGTAATGTTTTT-ATGACTTTATTTTAATATCATTTTATTATA
43912195 TTTACTTTTT
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
121 1 0.01
122 13 0.12
123 27 0.26
124 2 0.02
125 14 0.13
126 48 0.46
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (126 bp):
TTTTGTATTTCAATATTATTATTATTATTATTATTATCATTGAACATTACTATATATCTTCATGT
ATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAATATCATTTTATTATAATAGC
Found at i:43917859 original size:21 final size:20
Alignment explanation
Indices: 43917835--43917879 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
43917825 AAAATGTTAT
43917835 AATATAATTATTTAATTAATA
1 AATATAATTATTTAA-TAATA
**
43917856 AATATCTTTATTTAATAATA
1 AATATAATTATTTAATAATA
43917876 AATA
1 AATA
43917880 ATAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATAATTATTTAATAATA
Found at i:43917881 original size:7 final size:7
Alignment explanation
Indices: 43917869--43917893 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43917859 ATCTTTATTT
43917869 AATAATA
1 AATAATA
43917876 AATAATA
1 AATAATA
43917883 AATAATA
1 AATAATA
43917890 AATA
1 AATA
43917894 TCTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:43919629 original size:262 final size:262
Alignment explanation
Indices: 43919164--43919691 Score: 1011
Period size: 262 Copynumber: 2.0 Consensus size: 262
43919154 GAATTACTCG
43919164 CTCAAACTATCTGTCGGTTTGCAGATGAAATGCAGTGCTAAAATTAAGTCACGTACCCAATGACT
1 CTCAAACTATCTGTCGGTTTGCAGATGAAATGCAGTGCTAAAATTAAGTCACGTACCCAATGACT
43919229 CATGTAACTGCTTCCAAAATCTTGATGTAAATCAAGGATCCCGATCTGAAATTATCGATACTGAA
66 CATGTAACTGCTTCCAAAATCTTGATGTAAATCAAGGATCCCGATCTGAAATTATCGATACTGAA
* * *
43919294 ATACCGTGTAATCTAACAATTTTTCGGATATAAACCTCGGCAAGCTTCTGTATTGACCAGTCGGT
131 ATACCGTGTAATCTAACAATTTTCCGGATATAAACCTCGGCAAGCTTCTGTAGTGACCAATCGGT
* *
43919359 TCTAACTGCTATAAAATGAGCTGACTTTGTGAGTCGATCGACAATTACCCAGATGACATTCTTTT
196 TCTAACTGCTATAAAATGAACTGACTTTGTGAGTCGATCGACAATGACCCAGATGACATTCTTTT
43919424 TA
261 TA
43919426 CTCAAACTATCTGTCGGTTTGCAGATGAAATGCAGTGCTAAAATTAAGTCACGTACCCAATGACT
1 CTCAAACTATCTGTCGGTTTGCAGATGAAATGCAGTGCTAAAATTAAGTCACGTACCCAATGACT
43919491 CATGTAACTGCTTCCAAAATCTTGATGTAAATCAAGGATCCCGATCTGAAATTATCGATACTGAA
66 CATGTAACTGCTTCCAAAATCTTGATGTAAATCAAGGATCCCGATCTGAAATTATCGATACTGAA
43919556 ATACCGTGTAATCTAACAATTTTCCGGATATAAACCTCGGCAAGCTTCTGTAGTGACCAATCGGT
131 ATACCGTGTAATCTAACAATTTTCCGGATATAAACCTCGGCAAGCTTCTGTAGTGACCAATCGGT
43919621 TCTAACTGCTATAAAATGAACTGACTTTGTGAGTCGATCGACAATGACCCAGATGACATTCTTTT
196 TCTAACTGCTATAAAATGAACTGACTTTGTGAGTCGATCGACAATGACCCAGATGACATTCTTTT
43919686 TA
261 TA
43919688 CTCA
1 CTCA
43919692 CTGACAATGA
Statistics
Matches: 261, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 261 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (262 bp):
CTCAAACTATCTGTCGGTTTGCAGATGAAATGCAGTGCTAAAATTAAGTCACGTACCCAATGACT
CATGTAACTGCTTCCAAAATCTTGATGTAAATCAAGGATCCCGATCTGAAATTATCGATACTGAA
ATACCGTGTAATCTAACAATTTTCCGGATATAAACCTCGGCAAGCTTCTGTAGTGACCAATCGGT
TCTAACTGCTATAAAATGAACTGACTTTGTGAGTCGATCGACAATGACCCAGATGACATTCTTTT
TA
Found at i:43936215 original size:37 final size:38
Alignment explanation
Indices: 43936158--43936236 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 38
43936148 AAGGCCACTT
*
43936158 TGTGAAGAAAGATAGCTTTGG-TCACAAGTGTGGTACTA
1 TGTGAAGAAAGATAGCTTTGGCT-ACAAGGGTGGTACTA
*
43936196 TGTGAAG-AAGGTAGCTTTGGCTACAAGGGTGGTACTA
1 TGTGAAGAAAGATAGCTTTGGCTACAAGGGTGGTACTA
43936233 TGTG
1 TGTG
43936237 CAGGCCACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 30 0.79
38 8 0.21
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.29
Consensus pattern (38 bp):
TGTGAAGAAAGATAGCTTTGGCTACAAGGGTGGTACTA
Found at i:43936256 original size:51 final size:51
Alignment explanation
Indices: 43936196--43936296 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
43936186 TGTGGTACTA
*
43936196 TGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACTATGTGCAGGCCACTT
1 TGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACCATGTGCAGGCCACTT
*
43936247 TGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACCATGTGTAGGCCACT
1 TGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACCATGTGCAGGCCACT
43936297 GGGTATCCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.27
Consensus pattern (51 bp):
TGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACCATGTGCAGGCCACTT
Found at i:43939477 original size:23 final size:23
Alignment explanation
Indices: 43939417--43939477 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
43939407 CCAAATTGAA
* *
43939417 ATAGAATTAACACTTACTATTTT
1 ATAGAATTAATATTTACTATTTT
*
43939440 -TAGAA-AATATCATTTACTATTTT
1 ATAGAATTA-AT-ATTTACTATTTT
43939463 ATAGAATTAATATTT
1 ATAGAATTAATATTT
43939478 TTAAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 1 0.03
22 6 0.20
23 15 0.50
24 7 0.23
25 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (23 bp):
ATAGAATTAATATTTACTATTTT
Found at i:43944372 original size:30 final size:30
Alignment explanation
Indices: 43944338--43944398 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
43944328 TCTCTTTTAC
43944338 ATAACAAACAAACTTACTTTTATGACTCAT
1 ATAACAAACAAACTTACTTTTATGACTCAT
*
43944368 ATAACAAACAAATTTACTTTTATGACTCAT
1 ATAACAAACAAACTTACTTTTATGACTCAT
43944398 A
1 A
43944399 CAAAATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.34
Consensus pattern (30 bp):
ATAACAAACAAACTTACTTTTATGACTCAT
Found at i:43951844 original size:24 final size:24
Alignment explanation
Indices: 43951816--43951861 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
43951806 CATTGGAAAT
*
43951816 GATGATAAGAAGAATGTACAGGAA
1 GATGATAAGAAGAATATACAGGAA
43951840 GATGATAAGAAGAATATACAGG
1 GATGATAAGAAGAATATACAGG
43951862 TATGTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.17
Consensus pattern (24 bp):
GATGATAAGAAGAATATACAGGAA
Found at i:43954692 original size:57 final size:57
Alignment explanation
Indices: 43954604--43954718 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
43954594 AGCTAAAATA
*
43954604 TCAGTAGTCCAGTTCACCTCTCTTAGTACTTATTTAAAGAGTACTTTCCAATCACAC
1 TCAGTAGTCCAGTTCACCTCTCTTAGTACTTATTTAAAAAGTACTTTCCAATCACAC
* *
43954661 TCAGTAGTCGAGTTCACCTCTCTTGGTACTTATTTAAAAAGTACTTTCCAATCACAC
1 TCAGTAGTCCAGTTCACCTCTCTTAGTACTTATTTAAAAAGTACTTTCCAATCACAC
43954718 T
1 T
43954719 GGCATAGTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (57 bp):
TCAGTAGTCCAGTTCACCTCTCTTAGTACTTATTTAAAAAGTACTTTCCAATCACAC
Found at i:43954925 original size:23 final size:23
Alignment explanation
Indices: 43954895--43954955 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
43954885 TAAAACACTA
** *
43954895 CATCTTCTAATACTTCTATTCTG
1 CATCTTCTAATACTTCTACACCG
43954918 CATCTTCTAATACTTCTACACCG
1 CATCTTCTAATACTTCTACACCG
*
43954941 CATCTTCTAGTACTT
1 CATCTTCTAATACTT
43954956 GTTCCTATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.43
Consensus pattern (23 bp):
CATCTTCTAATACTTCTACACCG
Found at i:43960618 original size:39 final size:39
Alignment explanation
Indices: 43960573--43960651 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
43960563 TCTTTTATGG
*
43960573 TGAGCTAGTTTCTAGCTTTAAGATGATGAAATTTGAAGA
1 TGAGCTAGTTTCTAGCTATAAGATGATGAAATTTGAAGA
43960612 TGAGCTAGTTTCTAGCTATAAGATGATGAAATTTGAAGA
1 TGAGCTAGTTTCTAGCTATAAGATGATGAAATTTGAAGA
43960651 T
1 T
43960652 ATTCACATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (39 bp):
TGAGCTAGTTTCTAGCTATAAGATGATGAAATTTGAAGA
Found at i:43968073 original size:31 final size:31
Alignment explanation
Indices: 43968008--43968076 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
43967998 GTTACTAAAT
* * *
43968008 AGTCATCAAATTATTCGATAATTTTGATTCA
1 AGTCATTAAACTATTCGATAATTTTCATTCA
*
43968039 AGTCATTAAACTATTCGA-AATTTTTCATTTA
1 AGTCATTAAACTATTCGATAA-TTTTCATTCA
43968070 AGTCATT
1 AGTCATT
43968077 GGTACCACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (31 bp):
AGTCATTAAACTATTCGATAATTTTCATTCA
Found at i:43979196 original size:188 final size:189
Alignment explanation
Indices: 43978820--43979225 Score: 493
Period size: 188 Copynumber: 2.1 Consensus size: 189
43978810 ATTTTTTTTC
* *
43978820 TATCGAAATAGCGACTGTTTTTAATCCTTCTTCTATGTATATATATATCGATATAGTATCACTTG
1 TATCGAAATAGCGACTGTTTTTAATCCTGCTTCTATG-ATATATATATCGATATAGTATCACTTC
* * *
43978885 TTACTGAGTTTTTTTGCTTTTGAATTTTTTGTTGTGGCTACGGAATTTATTTGCGTTTTGAACTC
65 TTACCGAG------TGCTTTTGAATTTTGTGTTGTGGCTACGGAATTTATCTGCGTTTTGAACTC
* * **
43978950 TTTAGATCGGTATTTGGTTGATTTTATTTTCTATTTACTTGCTGGATTCGAGAAAGTGGAAAGAA
124 TTTAGATCGGTATTTGGATGATTTTATTTTC-ATCTACTCACTGGATTCGAGAAAGTGGAAAGAA
43979015 AA
188 AA
43979017 TATCGAAATAGCGACTGTTTTTAATCCTGCTT-TCATG-TATATATATCGATATAGTATCACTTC
1 TATCGAAATAGCGACTGTTTTTAATCCTGCTTCT-ATGATATATATATCGATATAGTATCACTTC
* * ** *
43979080 TTACCGAG-GTTTTTGAATTTTGTGTTGTGGCTATGGGTTTTTATCT-CTGTTTTGAACTTTTTA
65 TTACCGAGTGCTTTTGAATTTTGTGTTGTGGCTA-CGGAATTTATCTGC-GTTTTGAACTCTTTA
43979143 GATCGGTATTTAGTTGATGATTTTATTTTC-TCT-C-CACTGGATTCGAGAAAGTGGAAAGAAAA
128 GATCGGTATTT-G--GATGATTTTATTTTCATCTACTCACTGGATTCGAGAAAGTGGAAAGAAAA
* *
43979205 GATCGAAATAGTGACTGTTTT
1 TATCGAAATAGCGACTGTTTT
43979226 CATCGTTTCT
Statistics
Matches: 187, Mismatches: 16, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
188 69 0.37
189 34 0.18
190 3 0.02
192 14 0.07
195 32 0.17
196 1 0.01
197 34 0.18
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (189 bp):
TATCGAAATAGCGACTGTTTTTAATCCTGCTTCTATGATATATATATCGATATAGTATCACTTCT
TACCGAGTGCTTTTGAATTTTGTGTTGTGGCTACGGAATTTATCTGCGTTTTGAACTCTTTAGAT
CGGTATTTGGATGATTTTATTTTCATCTACTCACTGGATTCGAGAAAGTGGAAAGAAAA
Found at i:43992772 original size:44 final size:44
Alignment explanation
Indices: 43992724--43993812 Score: 571
Period size: 44 Copynumber: 24.1 Consensus size: 44
43992714 ATGGAAAATT
*
43992724 TTAAAG-TCACAAAT-TTCATCTCCCTGAAGTTG-ATGTAGAGTATA
1 TTAAAGAT-ACAAATCTT-ATCTCCCTGAAGTTGCA-GTAGAGTAGA
* * *
43992768 TTAAAGATGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
** * * ** *
43992812 TTAAAGATAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACAAA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * *
43992857 TTAAAGCTACAAGTTACAAATATTATCTCCCTGAAGTGGCACTGGGGTAGA
1 TTAAAG-----A--TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * ** * *
43992908 TTGAAGATATAAATCTTATCTCCCTGAAGCTATAGTGGAGCAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * *
43992952 TTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * ** * *
43992997 TTAAAGTTATAAATCTTATCTCCCTGAAACTGCAGTGGAGCAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * *
43993041 TTGAGGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * ** * *
43993086 TTAAAGTTATAAATCTTATCTCCCTGAAACTGCAGTGGAGCAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * *
43993130 TTGAGGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * ** *
43993175 TTAAAGTTATAAATCTTATCTCTCTGAAGTTGCAGTGGAAAATA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * *
43993219 TTGAAGATAGCAAATCTTATCTCCTTGAAATTGCAATGGA-AAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* **
43993263 TTGAAGATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGTAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * *
43993308 TTAAAGCTATAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGG
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * * * * *
43993352 TTGAAGATGCGAATCTTATTTCCCTAAAGTTACAATGGAATAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * * ** *
43993396 TTAAAGTTACAAGTCACAAATTCTATGCCTCTGAAGTGGCAGTGGAAAAGG
1 TTAAAGATACAAAT--C---TTATCT-CC-CTGAAGTTGCAGTAGAGTAGA
* * * *
43993447 TTAAAG-TCACAAAT-TTCATCTTCCTGAAGTTGCATTGGAGCA-A
1 TTAAAGAT-ACAAATCTT-ATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * *
43993490 GTTAAAGCTACAAATCTCATTTCCCTGAAGTTGAAGTGGAGCAGA
1 -TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * * * **
43993535 TTGAAGATAGCTAATCTCATTTCCCTAAAGTTGCAGTGGAACAGA
1 TTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * *
43993580 TTAAAGCTACGAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
1 TT-AA---A-GA--TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * * *
43993631 TTGAAGTTACAAATCTTATCTCCCTGAAGTGGCAGTGGAGCAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * * ** * *
43993675 TTGAAGGTA-ATGAAGCTTATCTATCTGAAGTTGCAGTGGAGCAGA
1 TTAAAGATACA--AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
* * ***
43993720 TTGAAGTTACAGGCCTTATCTCCCTGAAGTTGCAGT-GAAGTAGA
1 TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAG-AGTAGA
* ** ** *
43993764 TTGAAGCGACAAATCTTATAC-CTTTGAAGTTGCAGT-GGGTCAGA
1 TTAAAGATACAAATCTTAT-CTCCCTGAAGTTGCAGTAGAGT-AGA
43993808 TTAAA
1 TTAAA
43993813 TCTACTATAG
Statistics
Matches: 823, Mismatches: 179, Indels: 86
0.76 0.16 0.08
Matches are distributed among these distances:
43 4 0.00
44 451 0.55
45 258 0.31
46 7 0.01
47 1 0.00
49 5 0.01
50 7 0.01
51 86 0.10
52 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
TTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA
Found at i:43992870 original size:89 final size:88
Alignment explanation
Indices: 43992691--43993812 Score: 770
Period size: 89 Copynumber: 12.4 Consensus size: 88
43992681 TACCGTGGCG
* * * ** **
43992691 AATCTTATCTGCCTGAAGTTCCAATGGAAAATTTTAAAG-TCACAAAT-TTCATCTCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACAAATCTT-ATCTCCCTGAAGT
* * * *
43992754 TG-ATGTAGAGTATATTAAAGATGCA
64 TGCA-GTGGAGCAGATTAAAGATACA
* * ** *
43992779 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATAGCGGATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGTT
* *
43992844 GCAGTGGAACAAATTAAAGCTACAAGTTACA
65 GCAGTGGAGCAGATTAAAG-----A--TACA
* * * * * * * * *
43992875 AATATTATCTCCCTGAAGTGGCACTGGGGTAGATTGAAGATATAAATCTTATCTCCCTGAAGCTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
* *
43992940 TAGTGGAGCAGATTGAAGATAGCA
66 CAGTGGAGCAGATTAAAGATA-CA
* * * * **
43992964 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAACTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
* *
43993029 CAGTGGAGCAGATTGAGGATAGCA
66 CAGTGGAGCAGATTAAAGATA-CA
* * * * **
43993053 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAACTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
* *
43993118 CAGTGGAGCAGATTGAGGATAGCA
66 CAGTGGAGCAGATTAAAGATA-CA
* * * * *
43993142 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
** * *
43993207 CAGTGGAAAATATTGAAGATAGCA
66 CAGTGGAGCAGATTAAAGATA-CA
* * * * * **
43993231 AATCTTATCTCCTTGAAATTGCAATGGA-AAGATTGAAGATAGCAAATCTTATCTTTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * *
43993295 GCAGTAGAGTAGATTAAAGCTATA
65 GCAGTGGAGCAGATTAAAGATACA
* * * * * * * *
43993319 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGATGCGAATCTTATTTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
* ** *
43993384 CAATGGAATAGATTAAAGTTACA
66 CAGTGGAGCAGATTAAAGATACA
* * * * ** * *
43993407 AGTCACAAATTCTATGCCTCTGAAGTGGCAGTGGAAAAGGTTAAAG-TCACAAAT-TTCATCTTC
1 AAT--C---TTATCT-CC-CTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACAAATCTT-ATCTCC
* *
43993470 CTGAAGTTGCATTGGAGCA-AGTTAAAGCTACA
57 CTGAAGTTGCAGTGGAGCAGA-TTAAAGATACA
* * * * * * * *
43993502 AATCTCATTTCCCTGAAGTTGAAGTGGAGCAGATTGAAGATAGCTAATCTCATTTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGTT
* *
43993567 GCAGTGGAACAGATTAAAGCTACGAGTTATA
65 GCAGTGGAGCAGATT-AA---A-GA--TACA
* * * *
43993598 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTGG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
* *
43993663 CAGTGGAGCAGATTGAAGGTA-A
66 CAGTGGAGCAGATTAAAGATACA
* ** * * ***
43993685 TGAAGCTTATCTATCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGGCCTTATCTCCCTGAAGT
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGT
* * * **
43993750 TGCAGTGAAGTAGATTGAAGCGACA
64 TGCAGTGGAGCAGATTAAAGATACA
**
43993775 AATCTTATAC-CTTTGAAGTTGCAGTGG-GTCAGATTAAA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTAAA
43993813 TCTACTATAG
Statistics
Matches: 843, Mismatches: 151, Indels: 80
0.78 0.14 0.07
Matches are distributed among these distances:
87 2 0.00
88 162 0.19
89 452 0.54
90 14 0.02
91 1 0.00
93 6 0.01
94 9 0.01
95 118 0.14
96 79 0.09
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGATACA
Found at i:43993284 original size:133 final size:133
Alignment explanation
Indices: 43992781--43993782 Score: 751
Period size: 133 Copynumber: 7.4 Consensus size: 133
43992771 AAGATGCAAG
* * ** * *
43992781 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATAGCGGATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAATTGC
* * * * * * * * * * * *
43992846 AGTGGAACAAATTAAAGCTACAAGTTACAAATATTATCTCCCTGAAGTGGCACTGGGGTAGATTG
65 AATGGAGCAGATTGAAG--A-TAG---CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
*
43992911 AAGATATAAA
124 AAGTTATAAA
* ** * *
43992921 TCTTATCTCCCTGAAGCTATAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAATTGC
* * * * * * ** * * *
43992986 AGTAGAGCAGATTAAAGTTA-TAAATCTTATCTCCCTGAAACTGCAGTGGAGCAGATTGAGGATA
65 AATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
*
43993050 GCAAA
130 -TAAA
* * * * * *
43993055 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAAATCTTATCTCCCTGAAACTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAATTGCA
* * *
43993120 GTGGAGCAGATTGAGGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTAT
66 ATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTTAT
43993185 AAA
131 AAA
* ** * *
43993188 TCTTATCTCTCTGAAGTTGCAGTGGAAAATATTGAAGATAGCAAATCTTATCTCCTTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAATTGC
* * * * *
43993253 AATGGA-AAGATTGAAGATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGTAGATTAAAGCTA
65 AATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
43993317 TAAA
130 TAAA
* * * * * *
43993321 TCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGATGCGAATCTTATTTCCCT-AAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAA-TTGC
** * * * ** *
43993385 AATGGAATAGATTAAAGTTACAAGTCACAAAT-TCTATGC-CTCTGAAGTGGCAGTGGAAAAGGT
65 AATGGAGCAGATTGAAG--A-TAG---CAAATCT-TAT-CTCTCTGAAGTTGCAGTGGAGCAGAT
* *
43993448 TAAAGTCACAAA
122 TAAAGTTATAAA
* * * * * * *
43993460 T-TTCATCTTCCTGAAGTTGCATTGGAGCA-AGTTAAAGCTACAAATCTCATTTCCCTGAAGTTG
1 TCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATACAAATCTTATCTCCCTGAAATTG
* * * * * *
43993523 -AAGTGGAGCAGATTGAAGATAGCTAATCTCATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
64 CAA-TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--A--
43993587 TACGAGTTATAAA
124 -A--AGTTATAAA
* * * *
43993600 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTGGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAATTGCA
* * *** * * * *
43993665 GTGGAGCAGATTGAAGGTAATGAAGCTTATCTATCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
66 ATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTTAT
**
43993730 AGG
131 AAA
* * * **
43993733 CCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGCGACAAATCTTAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
43993783 ACCTTTGAAG
Statistics
Matches: 693, Mismatches: 140, Indels: 65
0.77 0.16 0.07
Matches are distributed among these distances:
131 3 0.00
132 22 0.03
133 282 0.41
134 99 0.14
135 3 0.00
136 4 0.01
137 2 0.00
138 6 0.01
139 93 0.13
140 175 0.25
141 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAATTGCA
ATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTTAT
AAA
Found at i:43995496 original size:19 final size:18
Alignment explanation
Indices: 43995440--43995483 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
43995430 TAATATATAT
*
43995440 ATTTATATATTTGGATTATTC
1 ATTTATCTATTT--ATTA-TC
43995461 ATTTATCTATTTATTATC
1 ATTTATCTATTTATTATC
43995479 ATTTA
1 ATTTA
43995484 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
21 11 0.50
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTATCTATTTATTATC
Found at i:43996393 original size:2 final size:2
Alignment explanation
Indices: 43996386--43996507 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
43996376 AATCAATGCA
43996386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43996428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43996470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43996508 GGGCTCTCAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43996831 original size:14 final size:14
Alignment explanation
Indices: 43996793--43996832 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
43996783 TTAAATGCTG
*
43996793 AAAAAATAAATATT
1 AAAAAATAAGTATT
43996807 AGAAAAATAAGTATT
1 A-AAAAATAAGTATT
*
43996822 AAAAATTAAGT
1 AAAAAATAAGT
43996833 GTAGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAAAATAAGTATT
Found at i:43999354 original size:48 final size:48
Alignment explanation
Indices: 43999298--43999455 Score: 316
Period size: 48 Copynumber: 3.3 Consensus size: 48
43999288 ATCTTTCAAA
43999298 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
1 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
43999346 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
1 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
43999394 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
1 AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
43999442 AATAGTTCAATTGT
1 AATAGTTCAATTGT
43999456 AAATTTTAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (48 bp):
AATAGTTCAATTGTGATTTATTTAAACATGGCAATCCATGTCTACTTT
Found at i:43999835 original size:35 final size:35
Alignment explanation
Indices: 43999796--43999867 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
43999786 AAAATGCCAC
*
43999796 ATCATTATCTCTTAATGGAGTTAGCAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTTAGCAAAAAATTAA
* *
43999831 ATCATTCTCTCTTAACGGATTTAGCAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTTAGCAAAAAATTAA
43999866 AT
1 AT
43999868 TATTTAATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (35 bp):
ATCATTATCTCTTAACGGAGTTAGCAAAAAATTAA
Found at i:44003193 original size:27 final size:26
Alignment explanation
Indices: 44003152--44003207 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
44003142 GTAATTTACC
44003152 CAACAATCAAATAAAAGCCTACTAAA
1 CAACAATCAAATAAAAGCCTACTAAA
* *
44003178 CAANCAATCAAATAAAAGCCTGCTGAA
1 CAA-CAATCAAATAAAAGCCTACTAAA
44003205 CAA
1 CAA
44003208 GAGTAAGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.54, C:0.23, G:0.07, T:0.14
Consensus pattern (26 bp):
CAACAATCAAATAAAAGCCTACTAAA
Found at i:44004840 original size:15 final size:16
Alignment explanation
Indices: 44004820--44004852 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44004810 TTAAATATGT
44004820 AAAAAAATAA-AAATA
1 AAAAAAATAATAAATA
*
44004835 AAAAAAGTAATAAATA
1 AAAAAAATAATAAATA
44004851 AA
1 AA
44004853 TGAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAAATAATAAATA
Found at i:44004849 original size:16 final size:14
Alignment explanation
Indices: 44004819--44004852 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
44004809 TTTAAATATG
44004819 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
44004833 TAAAAAAAGTAATAAA
1 TAAAAAAA-TAA-AAA
44004849 TAAA
1 TAAA
44004853 TGAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:44006607 original size:44 final size:44
Alignment explanation
Indices: 44006530--44007221 Score: 532
Period size: 44 Copynumber: 15.6 Consensus size: 44
44006520 ATTCTAACCC
* * *
44006530 ACTGCAACTTCAGAGG-TATAGGATTTGTTGCTTCAATCTGCTCT
1 ACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * *
44006574 ACTGTAACTTCAGGGAGATTAGACTTGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * * *
44006618 ACTGCAACTTCGGGGAGATGAGACTCGTATCTTCAATCTACT-T
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * *
44006661 CACTACAACTTCAGGGAGATGAGATTTGTAACTTCAATCTACTCT
1 -ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * *
44006706 ACTGCAACTTCAGGGAGCTAAGGTTTGTAACTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * * * * *
44006750 ACTGCAACTTTAAGAAGATGAGACTCGTATCTTCAATCTACT-T
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * *
44006793 CACTACAACTTCAGGGAGATGAGATTTGTAACTTCAATCAGCTCT
1 -ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * *
44006838 ACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * ** *
44006882 ACTGCAACTTCAAGGAGATGAGACTCGTATATTCAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * * *
44006926 ACTGTAACTTTATGGAGATAAGATTTAAATTTGTAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAG------ATTTGTAGCTTCAATCTGCTCT
* * * * *
44006976 ACTGCAGCTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
** * * * *
44007020 ACTGCAACCCCAGGGAGATAAGAATTGCCA-TTTCAATCTG-TTT
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCT
* * * * *
44007063 CACTGCAATTTCAGAGAGATAAGGTTTGTATCTTTAATCTGCTCT
1 -ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * *
44007108 A-TGGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCC
1 ACT-GCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCT
* * * * * * *
44007153 ATTGTAACTTTAGGGAGATAAGATTTGTGGCTTTAATTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
44007197 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
44007222 CTCCATGATA
Statistics
Matches: 513, Mismatches: 117, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
43 5 0.01
44 434 0.85
45 42 0.08
46 1 0.00
50 31 0.06
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
Found at i:44006771 original size:132 final size:132
Alignment explanation
Indices: 44006551--44007221 Score: 621
Period size: 132 Copynumber: 5.0 Consensus size: 132
44006541 AGAGGTATAG
** * * * ** * *
44006551 GATTTGTTGCTTCAATCTGCTCTACTGTAACTTCAGGGAGATTAGACTTGTAGCTTCAATCTGCT
1 GATTTGTAACTTCAATCTACTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGCT
**
44006616 CCACTGCAACTTCGGGGAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAGAT
66 CCACTGCAACTTCAAGGAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAGAT
44006681 GA
131 GA
*
44006683 GATTTGTAACTTCAATCTACTCTACTGCAACTTCAGGGAGCTAAGGTTTGTAACTTTAATCTGCT
1 GATTTGTAACTTCAATCTACTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGCT
* *
44006748 CCACTGCAACTTTAAGAAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAGAT
66 CCACTGCAACTTCAAGGAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAGAT
44006813 GA
131 GA
44006815 GATTTGTAACTTCAATC-AGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGC
1 GATTTGTAACTTCAATCTA-CTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGC
* ** *
44006879 TCCACTGCAACTTCAAGGAGATGAGACTCGTATATTCAATCTAC-TCTACTGTAACTTTATGGAG
65 TCCACTGCAACTTCAAGGAGATGAGACTCGTATCTTCAATCTACTTC-ACTACAACTTCA-GG-G
*
44006943 ATAAGATTTA
127 ---AGA-TGA
* * * ** * * * * * *
44006953 AATTTGTAGCTTTAATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTTGTAGCTTTAATCTACT
1 GATTTGTAACTTCAATCTACTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGCT
** * * * * * ** * * *
44007018 CCACTGCAACCCCAGGGAGATAAGAATTGCCAT-TTCAATCTGTTTCACTGCAATTTCAGAGAGA
66 CCACTGCAACTTCAAGGAGATGAGACTCG-TATCTTCAATCTACTTCACTACAACTTCAGGGAGA
*
44007082 TAA
130 TGA
* * * * * * * *
44007085 GGTTTGTATCTTTAATCTGCTCTA-TGGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTG
1 GATTTGTAACTTCAATCTACTCTACT-GCAACTTCAGGGAGATAAGGTTTG-TAACTTTAATCTG
* * * * * * * ** * * * * *
44007149 CTCCATTGTAACTTTAGGGAGATAAGATTTGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAG
64 CTCCACTGCAACTTCAAGGAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAG
*
44007214 ATAA
129 ATGA
44007218 GATT
1 GATT
44007222 CTCCATGATA
Statistics
Matches: 451, Mismatches: 74, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
131 4 0.01
132 271 0.60
133 71 0.16
134 1 0.00
136 1 0.00
137 4 0.01
138 95 0.21
139 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
GATTTGTAACTTCAATCTACTCTACTGCAACTTCAGGGAGATAAGGTTTGTAACTTTAATCTGCT
CCACTGCAACTTCAAGGAGATGAGACTCGTATCTTCAATCTACTTCACTACAACTTCAGGGAGAT
GA
Found at i:44007037 original size:94 final size:94
Alignment explanation
Indices: 44006861--44007042 Score: 211
Period size: 94 Copynumber: 1.9 Consensus size: 94
44006851 GGAGATAAGG
* * * *
44006861 TTTGTAACTTTAATCTGCTCCACTGCAACTTCAAGGAGATGAGACTCGTATATTCAATCTACTCT
1 TTTGTAACTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGACTCGTAGATTCAATCTACTCC
* *** *
44006926 ACTGTAACTTTATGGAGATAAGATTTAAA
66 ACTGCAACCCCAGGGAGATAAGATTTAAA
* * * * * * * *
44006955 TTTGTAGCTTTAATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCC
1 TTTGTAACTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGACTCGTAGATTCAATCTACTCC
44007020 ACTGCAACCCCAGGGAGATAAGA
66 ACTGCAACCCCAGGGAGATAAGA
44007043 ATTGCCATTT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (94 bp):
TTTGTAACTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGACTCGTAGATTCAATCTACTCC
ACTGCAACCCCAGGGAGATAAGATTTAAA
Found at i:44009332 original size:3 final size:3
Alignment explanation
Indices: 44009319--44009381 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
44009309 TATACATAAA
* * * **
44009319 TAT TA- TAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
44009362 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
44009382 AATAAAGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
2 6 0.13
3 40 0.85
4 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:44009843 original size:15 final size:14
Alignment explanation
Indices: 44009818--44009854 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
44009808 ATTATAACAT
44009818 AAAGTAAATAAAATA
1 AAAG-AAATAAAATA
44009833 AAATGAAATAAAATA
1 AAA-GAAATAAAATA
44009848 AAAGAAA
1 AAAGAAA
44009855 GCAAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 16 0.76
16 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AAAGAAATAAAATA
Found at i:44010183 original size:16 final size:18
Alignment explanation
Indices: 44010150--44010183 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
44010140 TAGAAATTTT
44010150 GATTAGAATTGATAAAAG
1 GATTAGAATTGATAAAAG
44010168 GATTA-AATTG-TAAAAG
1 GATTAGAATTGATAAAAG
44010184 AAACTATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
GATTAGAATTGATAAAAG
Found at i:44010598 original size:3 final size:3
Alignment explanation
Indices: 44010590--44010621 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44010580 GTGAGGTAAG
44010590 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44010622 AGATGAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44011041 original size:37 final size:37
Alignment explanation
Indices: 44010940--44011041 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 37
44010930 CGACCTCGAG
*
44010940 TCGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATA-AT
** ** * *
44010981 TCGATGAGGTACTGGGTACCAACTTTCTTCGGCT-TT
1 TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAAT
44011017 TCCGATGAGACACTGGGTGTCAACT
1 T-CGATGAGACACTGGGTGTCAACT
44011042 ATTTCTTCAA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
36 2 0.04
37 19 0.39
38 10 0.20
39 1 0.02
41 17 0.35
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (37 bp):
TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAAT
Found at i:44011605 original size:19 final size:19
Alignment explanation
Indices: 44011581--44011618 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44011571 TTAAAAATGT
44011581 TAGTATTAAAAGTTTATGA
1 TAGTATTAAAAGTTTATGA
44011600 TAGTATTAAAAGTTTATGA
1 TAGTATTAAAAGTTTATGA
44011619 ATTATGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TAGTATTAAAAGTTTATGA
Found at i:44018252 original size:19 final size:19
Alignment explanation
Indices: 44018228--44018266 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
44018218 ACTTTAATAG
* *
44018228 AAAACAAATCTCTTTACAT
1 AAAACAAATATATTTACAT
44018247 AAAACAAATATATTTACAT
1 AAAACAAATATATTTACAT
44018266 A
1 A
44018267 TACGACCTTA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAACAAATATATTTACAT
Found at i:44022115 original size:21 final size:22
Alignment explanation
Indices: 44022074--44022116 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
44022064 GGGGATCACC
44022074 TTTGAATTTTTTTATTCTGTAT
1 TTTGAATTTTTTTATTCTGTAT
*
44022096 TTTG-ATTGTTTTT-TTGTGTAT
1 TTTGAATT-TTTTTATTCTGTAT
44022117 ATTTCGCCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
TTTGAATTTTTTTATTCTGTAT
Found at i:44028675 original size:6 final size:6
Alignment explanation
Indices: 44028664--44028701 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
44028654 AAAGTTGTAG
44028664 TAATTA TAATTA TAATTA TAATTA TAATTTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAA-TTA TAATTA T
44028702 TAGTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TAATTA
Found at i:44029315 original size:13 final size:12
Alignment explanation
Indices: 44029290--44029325 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
44029280 TGTAGTCTAC
44029290 TTTTA-TTTTTA
1 TTTTATTTTTTA
44029301 TTTTATTTATTTA
1 TTTTATTT-TTTA
44029314 TTTTATTTTTTA
1 TTTTATTTTTTA
44029326 CATACGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 12 0.52
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:44036608 original size:59 final size:58
Alignment explanation
Indices: 44036515--44036626 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 58
44036505 GTTTTCATTC
44036515 TTTTTTTCAAAATCCAAGTCGACCCCGTTTTCATCCAAAAAAAATGGTGTCAACATTTCG
1 TTTTTTTCAAAATCCAAGTCGACCCCGTTTTCATCC--AAAAAATGGTGTCAACATTTCG
*
44036575 TTTTTTT-TAAATCCAAGTCGACCCCGTTTTCATCCAAAAAATGGTGTCAACA
1 TTTTTTTCAAAATCCAAGTCGACCCCGTTTTCATCCAAAAAATGGTGTCAACA
44036627 GCTTGGCGAC
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
57 17 0.33
59 27 0.53
60 7 0.14
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (58 bp):
TTTTTTTCAAAATCCAAGTCGACCCCGTTTTCATCCAAAAAATGGTGTCAACATTTCG
Found at i:44048372 original size:132 final size:132
Alignment explanation
Indices: 44047437--44048352 Score: 1517
Period size: 132 Copynumber: 6.9 Consensus size: 132
44047427 CGTAAATAGG
* * * * *
44047437 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAAATTTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
44047502 CGAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
44047567 GA
131 GA
44047569 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * *
44047634 CGAAGCAGATCGCAGAAAGTAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAACA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
*
44047699 GG
131 GA
** * *
44047701 TCCGGTCTTCCTGTATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
44047766 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTAAAGAAGATCGAAGGTAGCA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
44047831 GA
131 GA
44047833 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
44047898 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTAAAGAAGATCGAAGGTAGCA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
44047963 GA
131 GA
44047965 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
44048030 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTAAAGAAGATCGAAGGTAGCA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
44048095 GA
131 GA
44048097 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * *
44048162 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
*
44048227 GG
131 GA
* * * *
44048229 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * * *
44048294 CGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAG
66 CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAG
44048353 ATTGCAAATC
Statistics
Matches: 743, Mismatches: 41, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 743 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGCAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
GA
Found at i:44048475 original size:45 final size:45
Alignment explanation
Indices: 44048423--44048572 Score: 124
Period size: 45 Copynumber: 3.2 Consensus size: 45
44048413 CTCCCTGACT
*
44048423 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
* * * * * * *
44048468 GCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGA-CT-
1 ACAGTGGAGTACATTGAAG--C--AGAT---A-ACTCTATCTCCCTGT-ATTTG
*
44048520 ACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
44048565 ACAGTGGA
1 ACAGTGGA
44048573 ATAGATCGGA
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
43 1 0.01
44 13 0.17
45 25 0.32
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.22
53 13 0.17
54 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
Found at i:44048554 original size:97 final size:95
Alignment explanation
Indices: 44048390--44048578 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 95
44048380 GCAGCGAAGC
*
44048390 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
44048455 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGACAGTGGAATAGATTGA
*
44048485 AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
44048550 ATCTCCCTGTATTTGACAGTGGAATAGAT
64 ATCTCCCTGTATTTGACAGTGGAATAGAT
44048579 CGGAGATTAC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 27 0.30
97 62 0.70
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGACAGTGGAATAGATTGA
Found at i:44050126 original size:3 final size:3
Alignment explanation
Indices: 44050108--44050158 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
44050098 TTAAATATCC
* * * * *
44050108 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44050155 TTA T
1 TTA T
44050159 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:44064760 original size:2 final size:2
Alignment explanation
Indices: 44064753--44064785 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44064743 CCCAAGACCT
44064753 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
44064786 CTAGAACACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:44070602 original size:382 final size:382
Alignment explanation
Indices: 44069896--44070660 Score: 1196
Period size: 382 Copynumber: 2.0 Consensus size: 382
44069886 GTTATTTCAG
*
44069896 TAAAACTTATAAAGTTGTTCGATAAACCATCCAATTTTTGAAACCCATAATTATGTATATCAATT
1 TAAAACTTATAAAGTTGTTCGATAAACCATCCAAATTTTGAAACCCATAATTATGTATATCAATT
* * * *
44069961 TTTTCGGAAGTGTTATTTCATTATTTGATTTGCCAAAACGTAGTTTACAGTGGAAGTCATAGAAA
66 TTATCGGAAGTGTTATTTCATTATTTGATTTGCCAAAACGTAATTTACAGCGAAAGTCATAGAAA
* * *
44070026 ATGTTATTTTTGGAAATCGTATTCATATTTTTAAAAAACCTTTGTTTTATAAAAACTACGTTTTT
131 ATGTTATTTTTGGAAATCGCATTCATATTTTTAAAAAACCTTTGTTTTATAAAAACCACGTTTTG
* * *
44070091 AATACCCGTCGCAGATAAAATGTTAAAACATAAATCCTAAAATCCAAACAGTCCGGAGAGTCCAA
196 AATACCCGTAGCAGATAAAATGTTAAAACATAAATCCCAAAATCCAAACAGTCCGGAAAGTCCAA
*
44070156 TTATTCCAAAAATCCCAAAAATAAACCTTAACAAAAATAAAATCTACGATATTTAATAGTTTATG
261 TTATTCCAAAAATCCCAAAAATAAACCTTAACAAAAATAAAATCCACGATATTTAATAGTTTATG
** *
44070221 AACTCGTGGTCACCGTGAGGCTTCGTTACACCGATCCGCCTAAGTCTGTGGATTACA
326 AACTCGTGGTCACCGCAAGGCTTCGTCACACCGATCCGCCTAAGTCTGTGGATTACA
* * * *
44070278 TAAAACTTGTAAAGTTGTTCGGTAAACCATCCAAATTTTGTAACCCATAATTATTTATATCAA-T
1 TAAAACTTATAAAGTTGTTCGATAAACCATCCAAATTTTGAAACCCATAATTATGTATATCAATT
* *
44070342 TTATCGGAAGTGTTATTTCATTATTTGATTTGCCAAAATGTAATTTATAGCGAAAGTCATAGAAA
66 TTATCGGAAGTGTTATTTCATTATTTGATTTGCCAAAACGTAATTTACAGCGAAAGTCATAGAAA
* *
44070407 ATGTTATTTTTGGAAATCGCATTCATATTTTTGGAAAAA-CTTTGTTTTAGTAAAAGCCACGTTT
131 ATGTTATTTTTGGAAATCGCATTCATATTTTT-AAAAAACCTTTGTTTTA-TAAAAACCACGTTT
* *
44070471 TGAATACCCGTAGCAGATAAAATGTTAAAACATAAATCCCAAAATCCGAACTA-TCTGGAAAGTC
194 TGAATACCCGTAGCAGATAAAATGTTAAAACATAAATCCCAAAATCCAAAC-AGTCCGGAAAGTC
* * *
44070535 TAATTATTCCAAAAAT-CCAAGAAATAAACCTTAACAAAAATGAAATCCACGATTTTTAATAGTT
258 CAATTATTCCAAAAATCCCAA-AAATAAACCTTAACAAAAATAAAATCCACGATATTTAATAGTT
* *
44070599 TATGAACTCGTGGTTACCGCAAGGCTTCGTCACACTGATCCGCCTAAGTCTGTGGATTACA
322 TATGAACTCGTGGTCACCGCAAGGCTTCGTCACACCGATCCGCCTAAGTCTGTGGATTACA
44070660 T
1 T
44070661 GAACAGAACA
Statistics
Matches: 349, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
381 105 0.30
382 243 0.70
383 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (382 bp):
TAAAACTTATAAAGTTGTTCGATAAACCATCCAAATTTTGAAACCCATAATTATGTATATCAATT
TTATCGGAAGTGTTATTTCATTATTTGATTTGCCAAAACGTAATTTACAGCGAAAGTCATAGAAA
ATGTTATTTTTGGAAATCGCATTCATATTTTTAAAAAACCTTTGTTTTATAAAAACCACGTTTTG
AATACCCGTAGCAGATAAAATGTTAAAACATAAATCCCAAAATCCAAACAGTCCGGAAAGTCCAA
TTATTCCAAAAATCCCAAAAATAAACCTTAACAAAAATAAAATCCACGATATTTAATAGTTTATG
AACTCGTGGTCACCGCAAGGCTTCGTCACACCGATCCGCCTAAGTCTGTGGATTACA
Found at i:44071279 original size:31 final size:32
Alignment explanation
Indices: 44071237--44071309 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
44071227 TGGCCTAAAA
*
44071237 CCCACACGCCT-ATGTGGCAT-GCTCGTGTGGG
1 CCCACACGCCTAATGTGGCATAGCTCGTAT-GG
* * *
44071268 CCCACATGCCTAATTTGGCCTAGCTCGTATGG
1 CCCACACGCCTAATGTGGCATAGCTCGTATGG
44071300 CCCACACGCC
1 CCCACACGCC
44071310 ACACCCACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 10 0.29
32 18 0.51
33 7 0.20
ACGTcount: A:0.16, C:0.37, G:0.25, T:0.22
Consensus pattern (32 bp):
CCCACACGCCTAATGTGGCATAGCTCGTATGG
Done.