Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 138 of 320
Found at i:45231969 original size:80 final size:80
Alignment explanation
Indices: 45231726--45231978 Score: 262
Period size: 80 Copynumber: 3.2 Consensus size: 80
45231716 TCGTTCAAAT
* * * * * * * *
45231726 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* **
45231790 ACAACTCGCACGATT
66 ACAACTAGCACGAAA
* * *
45231805 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
45231870 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * **
45231885 GCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
45231949 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
45231965 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
45231979 GCCAGGACAG
Statistics
Matches: 153, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 34 0.22
80 113 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:45231969 original size:120 final size:118
Alignment explanation
Indices: 45231721--45231978 Score: 266
Period size: 120 Copynumber: 2.2 Consensus size: 118
45231711 GCTCCTCGTT
* * * **
45231721 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGA
1 CAAA-GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGA
* ** * * *
45231786 TTTAACAACTCGCACGATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * *
45231840 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC-AATGCCTTCGGGACGTAACCCGG
* ** * ** * *
45231905 CTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
45231961 CAAAGCCTTCGGGACTTA
1 CAAAGCCTTCGGGACTTA
45231979 GCCAGGACAG
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
119 34 0.30
120 73 0.65
121 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:45239798 original size:40 final size:40
Alignment explanation
Indices: 45239707--45239916 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
45239697 TCCTCGTTCA
* * * ** *
45239707 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
45239746 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
45239786 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
45239826 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* ** * *
45239866 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
45239906 AAGGCCTTCGG
1 AATGCCTTCGG
45239917 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.22
40 118 0.78
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:45239930 original size:80 final size:79
Alignment explanation
Indices: 45239707--45239916 Score: 321
Period size: 80 Copynumber: 2.6 Consensus size: 79
45239697 TCCTCGTTCA
* * * * *
45239707 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
45239772 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
45239786 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
45239851 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* *
45239866 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGG
45239917 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 33 0.28
80 85 0.72
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:45239953 original size:80 final size:80
Alignment explanation
Indices: 45239710--45239962 Score: 262
Period size: 80 Copynumber: 3.2 Consensus size: 80
45239700 TCGTTCAAAT
* * * * * * * *
45239710 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* **
45239774 ACAACTCGCACGATT
66 ACAACTAGCACGAAA
* * *
45239789 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
45239854 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * **
45239869 GCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
45239933 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
45239949 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
45239963 GCCAGGACAG
Statistics
Matches: 153, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 34 0.22
80 113 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:45239953 original size:120 final size:118
Alignment explanation
Indices: 45239705--45239962 Score: 266
Period size: 120 Copynumber: 2.2 Consensus size: 118
45239695 GCTCCTCGTT
* * * **
45239705 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGA
1 CAAA-GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGA
* ** * * *
45239770 TTTAACAACTCGCACGATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * *
45239824 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC-AATGCCTTCGGGACGTAACCCGG
* ** * ** * *
45239889 CTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
45239945 CAAAGCCTTCGGGACTTA
1 CAAAGCCTTCGGGACTTA
45239963 GCCAGGACAG
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
119 34 0.30
120 73 0.65
121 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:45244995 original size:5 final size:5
Alignment explanation
Indices: 45244985--45245080 Score: 72
Period size: 5 Copynumber: 18.2 Consensus size: 5
45244975 TGAATCCTCC
*
45244985 TATTT TATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT T-TTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT TA-TTT
* *
45245035 TCTTT TGATTTT TATTT TCATTT AAATTT TATTAT TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT T
45245081 GAAAGACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
4 11 0.15
5 33 0.45
6 24 0.32
7 6 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:45245014 original size:12 final size:11
Alignment explanation
Indices: 45244987--45245080 Score: 75
Period size: 12 Copynumber: 8.3 Consensus size: 11
45244977 AATCCTCCTA
45244987 TTTTATTTTA-
1 TTTTATTTTAT
45244997 -TTTATTCTTAT
1 TTTTATT-TTAT
*
45245008 TTTTATTTTCTT
1 TTTTATTTT-AT
*
45245020 TATTTTTTTTAT
1 T-TTTATTTTAT
*
45245032 TTTTCTTTTGAT
1 TTTTATTTT-AT
45245044 TTTTATTTTCAT
1 TTTTATTTT-AT
**
45245056 TTAAATTTTAT
1 TTTTATTTTAT
*
45245067 TATTATTTTAT
1 TTTTATTTTAT
45245078 TTT
1 TTT
45245081 GAAAGACATA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
9 6 0.09
10 3 0.05
11 21 0.32
12 29 0.44
13 7 0.11
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:45245022 original size:30 final size:30
Alignment explanation
Indices: 45244988--45245046 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
45244978 ATCCTCCTAT
*
45244988 TTTATTTTATTTATTCTTATTTTTATTTTC
1 TTTATTTTATTTATTCTTATTTTGATTTTC
* * *
45245018 TTTATTTTTTTTATTTTTCTTTTGATTTT
1 TTTATTTTATTTATTCTTATTTTGATTTT
45245047 TATTTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (30 bp):
TTTATTTTATTTATTCTTATTTTGATTTTC
Found at i:45245030 original size:18 final size:18
Alignment explanation
Indices: 45244987--45245080 Score: 66
Period size: 18 Copynumber: 5.0 Consensus size: 18
45244977 AATCCTCCTA
*
45244987 TTTTATTTTATTTATTCTTAT
1 TTTTATTTTCTTTA-T-TT-T
45245008 TTTTATTTTCTTTATTTT
1 TTTTATTTTCTTTATTTT
**
45245026 TTTTATTTTTCTTT-TGAT
1 TTTTA-TTTTCTTTATTTT
*
45245044 TTTTATTTTCATTTAAATTT
1 TTTTATTTTC-TTT-ATTTT
* *
45245064 TATTATTAT-TTTATTTT
1 TTTTATTTTCTTTATTTT
45245081 GAAAGACATA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
17 9 0.15
18 19 0.32
19 10 0.17
20 9 0.15
21 13 0.22
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTTATTTTCTTTATTTT
Found at i:45245035 original size:9 final size:9
Alignment explanation
Indices: 45244987--45245035 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
45244977 AATCCTCCTA
45244987 TTTTATTTT
1 TTTTATTTT
*
45244996 ATTTATTCTTAT
1 TTTTA-T-TT-T
45245008 TTTTATTTT
1 TTTTATTTT
*
45245017 CTTTATTTT
1 TTTTATTTT
45245026 TTTTATTTT
1 TTTTATTTT
45245035 T
1 T
45245036 CTTTTGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 22 0.67
10 3 0.09
11 3 0.09
12 5 0.15
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Found at i:45245047 original size:7 final size:6
Alignment explanation
Indices: 45244997--45245080 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
45244987 TTTTATTTTA
* * *
45244997 TTTATT CTTATT TTTATT TTCT-TT ATTT-TT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TATT -TTTATT TTTATT TTTATT TTTATT
* * * *
45245045 TTTATT TTCA-T TTAAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
45245081 GAAAGACATA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
5 11 0.18
6 47 0.77
7 3 0.05
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:45245053 original size:17 final size:16
Alignment explanation
Indices: 45244987--45245080 Score: 66
Period size: 17 Copynumber: 5.6 Consensus size: 16
45244977 AATCCTCCTA
45244987 TTTTA-TTTTATTTAT-
1 TTTTATTTTTATTT-TC
*
45245002 TCTTATTTTTATTTTC
1 TTTTATTTTTATTTTC
*
45245018 TTTATTTTTTTTATTTTTC
1 -TT-TTATTTTTA-TTTTC
45245037 TTTTGATTTTTATTTTC
1 TTTT-ATTTTTATTTTC
* * *
45245054 ATTTAAATTTTATTATTA
1 -TTTTATTTTTATT-TTC
45245072 TTTTATTTT
1 TTTTATTTT
45245081 GAAAGACATA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 23 0.37
18 21 0.34
19 5 0.08
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTTC
Found at i:45249504 original size:21 final size:21
Alignment explanation
Indices: 45249466--45249505 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45249456 TGCTTCTTTG
* *
45249466 AAAATTTTTAAGTTTTTGGAA
1 AAAATTTGTAAGTGTTTGGAA
*
45249487 AAAATTTGTATGTGTTTGG
1 AAAATTTGTAAGTGTTTGG
45249506 TTTAGTCCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
AAAATTTGTAAGTGTTTGGAA
Found at i:45252553 original size:49 final size:49
Alignment explanation
Indices: 45252493--45252620 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 49
45252483 ACATCAAAGT
*
45252493 CGATGCCATGTCCTAGACAGGTCTTACACTAACT-TTCATATATCGAG-GC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTT-ATACATC-AGTGC
* * *
45252542 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTTATCCATCAGTGT
1 CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTTATACATCAGTGC
*
45252591 CGATGCCATCTCCTAGACAGGTCTTACACT
1 CGATGCCATGTCCTAGACAGGTCTTACACT
45252621 GACACACAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
48 2 0.03
49 68 0.94
50 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTTATACATCAGTGC
Found at i:45262964 original size:42 final size:42
Alignment explanation
Indices: 45262925--45263017 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
45262915 GTGGCCTAGA
45262925 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
1 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
*
45262967 CACACGGGCGTGTCTAATGCCGTGTATGGCACACGGCCTATT
1 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
45263009 CACACGGGC
1 CACACGGGC
45263018 ATGTGACCTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
Found at i:45270416 original size:27 final size:27
Alignment explanation
Indices: 45270385--45270562 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
45270375 TAAATTGTAC
*
45270385 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45270412 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45270438 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45270466 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45270494 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45270521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45270548 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45270563 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45270499 original size:82 final size:81
Alignment explanation
Indices: 45270386--45270541 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
45270376 AAATTGTACA
* * *
45270386 GCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45270450 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45270467 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45270532 TGCGAGTTGA
65 TGCGAATTGA
45270542 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45270553 original size:82 final size:81
Alignment explanation
Indices: 45270382--45270562 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
45270372 GATTAAATTG
* * *
45270382 TACAGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45270447 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45270463 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45270527 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45270545 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45270563 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45281943 original size:30 final size:30
Alignment explanation
Indices: 45281898--45281956 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
45281888 GATATTCTTA
45281898 TATTAATTATATTAT-GAGAAAGTATGTTTT
1 TATTAATTATATTATGGA-AAAGTATGTTTT
* *
45281928 TATTCATTATCTTATGGAAAAGTATGTTT
1 TATTAATTATATTATGGAAAAGTATGTTT
45281957 ACATTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (30 bp):
TATTAATTATATTATGGAAAAGTATGTTTT
Found at i:45287692 original size:18 final size:18
Alignment explanation
Indices: 45287646--45287692 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
45287636 TCTAATATAT
**
45287646 ATTTAAATCCAAACTCAA
1 ATTTAAATTTAAACTCAA
45287664 ATTTAAATTTAAACTC-A
1 ATTTAAATTTAAACTCAA
45287681 ATTTAAACTTTA
1 ATTTAAA-TTTA
45287693 TTCAAAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTAAATTTAAACTCAA
Found at i:45288063 original size:11 final size:11
Alignment explanation
Indices: 45288044--45288084 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
45288034 TTTTAGGATT
45288044 TATTAATTATA
1 TATTAATTATA
*
45288055 TATTTATTATA
1 TATTAATTATA
45288066 TATATAATTATA
1 TAT-TAATTATA
45288078 GTATTAA
1 -TATTAA
45288085 AAATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 13 0.50
12 10 0.38
13 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
TATTAATTATA
Found at i:45294082 original size:47 final size:47
Alignment explanation
Indices: 45294019--45294124 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
45294009 GCATTGCCAC
* * *
45294019 TAAGACAAAGATACCATGTTAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACAATGTTTGGAACATGGCATTTGG
*
45294066 TAAGACAAGGATACCATGTAAGATAATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACAATGTTTGGAACATGGCATTTGG
*
45294113 TAAGATAAGGAT
1 TAAGACAAGGAT
45294125 GGCATTGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACAATGTTTGGAACATGGCATTTGG
Found at i:45294215 original size:55 final size:53
Alignment explanation
Indices: 45294142--45294287 Score: 141
Period size: 55 Copynumber: 2.7 Consensus size: 53
45294132 ATAAGTTTTA
* * *
45294142 TAAGGCAAAGAAATCATGTAAGACCATGCCAAGACATGACATTGATGAGCCACT
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATGAG-CACT
* * * * * **
45294196 ATAAGGCAAAGG-TCCCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTCT
1 -TAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATGAGCACT
* * *
45294250 TAAGGCAAGGATACCACGCAAGACCATGTCAAGACATG
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATG
45294288 GCAATAGTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
52 4 0.05
53 27 0.37
54 2 0.03
55 37 0.51
56 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATGAGCACT
Found at i:45294731 original size:28 final size:28
Alignment explanation
Indices: 45294699--45294755 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
45294689 ATTATTTTAC
*
45294699 ATGTGAAGTTACTAATCTTTATAAGCTT
1 ATGTGAAGTTACTAAGCTTTATAAGCTT
45294727 ATGTGAAGTTACTAAGCTTTATAAGCTT
1 ATGTGAAGTTACTAAGCTTTATAAGCTT
45294755 A
1 A
45294756 CTTCTTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (28 bp):
ATGTGAAGTTACTAAGCTTTATAAGCTT
Found at i:45299627 original size:47 final size:47
Alignment explanation
Indices: 45299569--45299910 Score: 531
Period size: 47 Copynumber: 7.3 Consensus size: 47
45299559 ACAAGATATG
45299569 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
45299616 TATATGAGATAAGACCTAATGGCCAATGTGATGAATATGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
45299663 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
45299710 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
45299757 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * ** * *
45299804 TATATGAGATAAGACCTAATGGCTGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
45299851 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
45299898 TAAATGTGATAAG
1 TATATGTGATAAG
45299911 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 267 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:45306652 original size:45 final size:46
Alignment explanation
Indices: 45306602--45306765 Score: 145
Period size: 45 Copynumber: 3.5 Consensus size: 46
45306592 ATTGACAGTT
*
45306602 AAGGATACCATGTAAGACCATGTTAAGACATGGCATTGG-TAAGGC
1 AAGGATACCATGTAAGACCATGTTAAGACATGGCATTGGCTAAGAC
* * * * * **
45306647 AAGGAT-CCTACGTAAGGCCAAGTCAAGACATGGCATCGGCATTAA-TT
1 AAGGATACC-ATGTAAGACCATGTTAAGACATGGCATTGGC--TAAGAC
** * **
45306694 AAGGATACCATGTAAGACCACATGAAGATGTGGCATTGGCACTAAGAC
1 AAGGATACCATGTAAGACCATGTTAAGACATGGCATTGG--CTAAGAC
45306742 AAGGATACCATGTAAGACCATGTT
1 AAGGATACCATGTAAGACCATGTT
45306766 TGGAATATGG
Statistics
Matches: 91, Mismatches: 20, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
44 2 0.02
45 31 0.34
47 31 0.34
48 26 0.29
49 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (46 bp):
AAGGATACCATGTAAGACCATGTTAAGACATGGCATTGGCTAAGAC
Found at i:45306946 original size:53 final size:54
Alignment explanation
Indices: 45306793--45306971 Score: 209
Period size: 55 Copynumber: 3.3 Consensus size: 54
45306783 TAAGGTAAAG
* * * *
45306793 ATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGAC
1 ATGGCATTGGTGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGAC
* * * *
45306847 ATGGCATTAGTGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGC
1 ATGGCATTGGTGAGTT-CTATAAGGC-AAGGATACCATGTAAGACCATGTCAAGAC
* * *
45306902 ATGGCATTGGTGAGGTC-ATAAGGCAAGGATACCACGTAAGACCATGTTAAGAC
1 ATGGCATTGGTGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGAC
* *
45306955 ATGGCAATGGTAAGTTC
1 ATGGCATTGGTGAGTTC
45306972 AAAAAGGAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 40 0.38
54 14 0.13
55 42 0.40
56 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
ATGGCATTGGTGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGAC
Found at i:45312809 original size:5 final size:5
Alignment explanation
Indices: 45312799--45312832 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
45312789 TTGTGTGTTC
45312799 TTTAT TTTAT TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
45312833 CACAAGTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45316263 original size:7 final size:7
Alignment explanation
Indices: 45316251--45316275 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45316241 CTTTCATATT
45316251 TTCTTTA
1 TTCTTTA
45316258 TTCTTTA
1 TTCTTTA
45316265 TTCTTTA
1 TTCTTTA
45316272 TTCT
1 TTCT
45316276 CTTCATCTCT
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:45316641 original size:15 final size:15
Alignment explanation
Indices: 45316621--45316652 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45316611 TTGATTAATT
*
45316621 AATTAAAATTAAAAA
1 AATTAAAAATAAAAA
45316636 AATTAAAAATAAAAA
1 AATTAAAAATAAAAA
45316651 AA
1 AA
45316653 ATATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AATTAAAAATAAAAA
Found at i:45320167 original size:35 final size:35
Alignment explanation
Indices: 45320116--45320198 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
45320106 ATACTATCTA
* * * *
45320116 ATTGACATGTTTCGGTTTGACTAGCTCTTAT-GAGC
1 ATTGGCATGTTTCGGTTGGACCAGATCTT-TGGAGC
45320151 ATTGGCATGTTTCGGTTGGACCAGATCTTTGGAGC
1 ATTGGCATGTTTCGGTTGGACCAGATCTTTGGAGC
*
45320186 ATATGGCGTGTTT
1 AT-TGGCATGTTT
45320199 TGGAGGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 1 0.02
35 31 0.76
36 9 0.22
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.39
Consensus pattern (35 bp):
ATTGGCATGTTTCGGTTGGACCAGATCTTTGGAGC
Found at i:45326824 original size:40 final size:40
Alignment explanation
Indices: 45326741--45327003 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
45326731 TTGAATGCTG
* * * * * *
45326741 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
45326781 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
45326821 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
45326861 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
45326901 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45326941 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45326980 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45327004 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:45327023 original size:79 final size:80
Alignment explanation
Indices: 45326780--45327038 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
45326770 AAGTGAATAT
* * * * * *
45326780 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
45326844 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
45326860 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
45326925 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
45326940 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
45327004 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
45327019 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
45327039 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:45333425 original size:1 final size:1
Alignment explanation
Indices: 45333414--45333456 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
45333404 ATGTTTAAGT
* * * *
45333414 AAAAGAAAAAAAGATAAAAAAAAAGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45333457 GAGAGGTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:45333436 original size:12 final size:11
Alignment explanation
Indices: 45333419--45333456 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
45333409 TAAGTAAAAG
45333419 AAAAAAAGATAA
1 AAAAAAAGA-AA
45333431 AAAAAAAGAAA
1 AAAAAAAGAAA
45333442 AAAAAAA-AAA
1 AAAAAAAGAAA
45333452 AAAAA
1 AAAAA
45333457 GAGAGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.92, C:0.00, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:45333439 original size:20 final size:19
Alignment explanation
Indices: 45333414--45333458 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
45333404 ATGTTTAAGT
*
45333414 AAAAGAAAAAAAGATAAAAA
1 AAAAGAAAAAAA-AAAAAAA
45333434 AAAAGAAAAAAAAAAAAAA
1 AAAAGAAAAAAAAAAAAAA
45333453 AAAAGA
1 AAAAGA
45333459 GAGGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAAAA
Found at i:45335174 original size:40 final size:40
Alignment explanation
Indices: 45335090--45335310 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
45335080 GCAAGATTGA
*
45335090 ATATATCCGGG-T-AGACCCGAAGGC--TTATGCG-G-AG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
45335124 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
45335164 ATATATCCGGGCTACGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
45335204 ATATATCCGGGCTAAGA-CCGAAGGC-ATTATGCGAG-TG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
45335241 ATA-ATCCGGGCTAGGACCCGAAGGCAATTATG-GA-TGTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGT-TG
45335279 ATATATCCGGGCT-AGACCCGAAGGCAATTATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
45335311 GAAACGAGGA
Statistics
Matches: 171, Mismatches: 5, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
34 11 0.06
35 1 0.01
36 24 0.14
37 15 0.09
38 46 0.27
39 18 0.11
40 56 0.33
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:45335252 original size:76 final size:79
Alignment explanation
Indices: 45335090--45335310 Score: 322
Period size: 76 Copynumber: 2.9 Consensus size: 79
45335080 GCAAGATTGA
*
45335090 ATATATCCGGG-TAGACCCGAAGGC--TTATGCG-G-AGATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
45335150 AATTATGCGAGTTG
66 AATTATGCGAGTTG
45335164 ATATATCCGGGCTACGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA-CCGAAGG
1 ATATATCCGGGCTA-GACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
45335228 C-ATTATGCGAG-TG
65 CAATTATGCGAGTTG
45335241 ATA-ATCCGGGCTAGGACCCGAAGGCAATTATG-GA-TGTGATATATCCGGGCT-AGACCCGAAG
1 ATATATCCGGGCTA-GACCCGAAGGCAATTATGCGAGT-TGATATATCCGGGCTAAGACCCGAAG
45335302 GCAATTATG
64 GCAATTATG
45335311 GAAACGAGGA
Statistics
Matches: 136, Mismatches: 2, Indels: 16
0.88 0.01 0.10
Matches are distributed among these distances:
74 15 0.11
75 27 0.20
76 45 0.33
77 5 0.04
78 17 0.12
79 9 0.07
80 18 0.13
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (79 bp):
ATATATCCGGGCTAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
AATTATGCGAGTTG
Found at i:45335449 original size:36 final size:36
Alignment explanation
Indices: 45335357--45335456 Score: 107
Period size: 36 Copynumber: 2.7 Consensus size: 36
45335347 GGGAATTGGA
45335357 ATGA-ATATCCGGGCTAAGACCCGAAGG-CAATATGCGAG
1 ATGATATATCC-GG-TAAGA-CCGAAGGCCAATATGC-AG
*
45335395 ATGATATATCCGGGAAGACCGAAGGCCAATATGC-G
1 ATGATATATCCGGTAAGACCGAAGGCCAATATGCAG
* *
45335430 TTGATATGTCCGGTTAAGACCGAAGGC
1 ATGATATATCCGG-TAAGACCGAAGGC
45335457 AAATGTGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 12 0.22
36 19 0.35
37 12 0.22
38 6 0.11
39 6 0.11
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (36 bp):
ATGATATATCCGGTAAGACCGAAGGCCAATATGCAG
Found at i:45343883 original size:33 final size:35
Alignment explanation
Indices: 45343842--45344057 Score: 150
Period size: 35 Copynumber: 6.5 Consensus size: 35
45343832 CGGCAGCCAG
45343842 ATTATGCGAGTTGATATCCGGCTACA-CCGAAGGCA
1 ATTATGCGAGTTGATATCCGGC-ACACCCGAAGGCA
45343877 A-T-TGCGA-TT-ATATCCGGCACGACCCGAACGGCA
1 ATTATGCGAGTTGATATCCGGCAC-ACCCGAA-GGCA
*
45343910 ATTATGCGAGTTGATATTCCGGCTA-AGACC-AA-GCA
1 ATTATGCGAGTTGATA-TCCGGC-ACA-CCCGAAGGCA
* * *
45343945 ATTATGCCAGATGA-ATCCGGGCAGGACCCGAAGGCA
1 ATTATGCGAGTTGATATCC-GGCA-CACCCGAAGGCA
*
45343981 ATTA-GCGAGTT-AT-TCCGGCAAGACCCGAAGG-A
1 ATTATGCGAGTTGATATCCGGC-ACACCCGAAGGCA
45344013 A-T-TGCGAGTT-AT-T-C--CACGA-CCGAAGGCA
1 ATTATGCGAGTTGATATCCGGCAC-ACCCGAAGGCA
45344041 ATTATGCGAGTTGATAT
1 ATTATGCGAGTTGATAT
45344058 ATCCGGGCTA
Statistics
Matches: 150, Mismatches: 7, Indels: 51
0.72 0.03 0.25
Matches are distributed among these distances:
27 8 0.05
28 4 0.03
29 1 0.01
30 11 0.07
31 23 0.15
32 10 0.07
33 27 0.18
34 13 0.09
35 29 0.19
36 9 0.06
37 6 0.04
38 8 0.05
39 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (35 bp):
ATTATGCGAGTTGATATCCGGCACACCCGAAGGCA
Found at i:45343920 original size:68 final size:67
Alignment explanation
Indices: 45343842--45344145 Score: 223
Period size: 68 Copynumber: 4.6 Consensus size: 67
45343832 CGGCAGCCAG
*
45343842 ATTATGCGAGTTGATATCCGGCTACACCGAAGGCAATTGCGATTATATCCGGCACGACCCGAACG
1 ATTATGCGAGTTGATATCCGGCTAGACCGAAGGCAATTGCGATTATATCCGGCACGACCCGAA-G
45343907 GCA
65 GCA
* *
45343910 ATTATGCGAGTTGATATTCCGGCTAAGACC-AA-GCAATTATGCCAGATGA-ATCCGGGCAGGAC
1 ATTATGCGAGTTGATA-TCCGGCT-AGACCGAAGGCAA-T-TG-C-GATTATATCC-GGCACGAC
45343972 CCGAAGGCA
59 CCGAAGGCA
*
45343981 ATTA-GCGAGTT-AT-TCCGGCAAGACCCGAAGG-AATTGCGAGTTAT-T-C--CACGA-CCGAA
1 ATTATGCGAGTTGATATCCGGCTAGA-CCGAAGGCAATTGCGA-TTATATCCGGCACGACCCGAA
45344037 GGCA
64 GGCA
* * *
45344041 ATTATGCGAGTTGATATATCCGGGCTAAGACCCAA-GC-ATT-CGAGTGATAATCCGGCAAGACC
1 ATTATGCGAGTTG--ATATCC-GGCT-AGACCGAAGGCAATTGCGA-TTAT-ATCCGGCACGACC
45344103 CG-A-GCA
60 CGAAGGCA
* * *
45344109 ATTA-GCGAGATGAAATCCGGGCAAGACCCG-AGGCAAT
1 ATTATGCGAGTTGATATCC-GGCTAGA-CCGAAGGCAAT
45344146 CAATTGATAT
Statistics
Matches: 193, Mismatches: 14, Indels: 60
0.72 0.05 0.22
Matches are distributed among these distances:
60 13 0.07
61 11 0.06
64 16 0.08
65 24 0.12
66 15 0.08
67 20 0.10
68 31 0.16
69 18 0.09
70 16 0.08
71 13 0.07
72 16 0.08
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (67 bp):
ATTATGCGAGTTGATATCCGGCTAGACCGAAGGCAATTGCGATTATATCCGGCACGACCCGAAGG
CA
Found at i:45343946 original size:35 final size:36
Alignment explanation
Indices: 45343842--45344072 Score: 166
Period size: 33 Copynumber: 6.8 Consensus size: 36
45343832 CGGCAGCCAG
*
45343842 ATTATGCGAGTTGATATCCGGCT-ACACCGAAGGCA
1 ATTATGCGAGTTGATATCCGGCTAAGACCGAAGGCA
*
45343877 A-T-TGCGA-TT-ATATCCGGC-ACGACCCGAACGGCA
1 ATTATGCGAGTTGATATCCGGCTAAGA-CCGAA-GGCA
45343910 ATTATGCGAGTTGATATTCCGGCTAAGACC-AA-GCA
1 ATTATGCGAGTTGATA-TCCGGCTAAGACCGAAGGCA
* * *
45343945 ATTATGCCAGATGA-ATCCGGGC-AGGACCCGAAGGCA
1 ATTATGCGAGTTGATATCC-GGCTAAGA-CCGAAGGCA
45343981 ATTA-GCGAGTT-AT-TCCGGC-AAGACCCGAAGG-A
1 ATTATGCGAGTTGATATCCGGCTAAGA-CCGAAGGCA
*
45344013 A-T-TGCGAGTT-AT-T-C--C-ACGACCGAAGGCA
1 ATTATGCGAGTTGATATCCGGCTAAGACCGAAGGCA
45344041 ATTATGCGAGTTGATATATCCGGGCTAAGACC
1 ATTATGCGAGTTG--ATATCC-GGCTAAGACC
45344073 CAAGCATTCG
Statistics
Matches: 158, Mismatches: 11, Indels: 50
0.72 0.05 0.23
Matches are distributed among these distances:
27 7 0.04
28 6 0.04
29 1 0.01
30 9 0.06
31 21 0.13
32 9 0.06
33 32 0.20
34 13 0.08
35 29 0.18
36 9 0.06
37 5 0.03
38 9 0.06
39 8 0.05
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (36 bp):
ATTATGCGAGTTGATATCCGGCTAAGACCGAAGGCA
Found at i:45344043 original size:28 final size:31
Alignment explanation
Indices: 45343969--45344052 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
45343959 ATCCGGGCAG
45343969 GACCCGAAGGCAATTAGCGAGTTATTCCGGCAA
1 GACCCGAAGGCAATT-GCGAGTTATTCC-GCAA
*
45344002 GACCCGAAGG-AATTGCGAGTTATT-C-CAC
1 GACCCGAAGGCAATTGCGAGTTATTCCGCAA
45344030 GA-CCGAAGGCAATTATGCGAGTT
1 GACCCGAAGGCAA-T-TGCGAGTT
45344053 GATATATCCG
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
27 7 0.15
28 6 0.13
29 1 0.02
30 9 0.19
31 10 0.21
32 4 0.09
33 10 0.21
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (31 bp):
GACCCGAAGGCAATTGCGAGTTATTCCGCAA
Found at i:45344132 original size:131 final size:136
Alignment explanation
Indices: 45343868--45344145 Score: 330
Period size: 131 Copynumber: 2.1 Consensus size: 136
45343858 TCCGGCTACA
45343868 CCGAAGGCAATTGCGATTATATCCGGCACGACCCGAACGGCAATTATGCGAGTTGATATTCCGGC
1 CCGAAGGCAATTGCGATTATATCC-GCACGACCCGAACGGCAATTATGCGAGTTGATATTCCGGC
* * * * *
45343933 TAAGACCAAGCAATTATGCCAGATGAATCCGGGCAGGACCCGAAGGCAATTAGCGAGTTATTCCG
65 TAAGACCAAGCAATTACGACAGATGAATCCGGGCAAGACCCGAAGGCAATTAGCGAGTAAATCCG
45343998 GCAAGAC
130 GCAAGAC
45344005 CCGAAGG-AATTGCGAGTTAT-T-C-CACGA-CCGAA-GGCAATTATGCGAGTTGATATATCCGG
1 CCGAAGGCAATTGCGA-TTATATCCGCACGACCCGAACGGCAATTATGCGAGTTGATAT-TCC-G
**
45344064 GCTAAGACCCAAGC-ATT-CGAGTGAT-AATCC-GGCAAGACCCG-A-GCAATTAGCGAGATGAA
63 GCTAAGA-CCAAGCAATTACGACAGATGAATCCGGGCAAGACCCGAAGGCAATTAGCGAG-T-AA
45344123 ATCCGGGCAAGAC
125 ATCC-GGCAAGAC
45344136 CCG-AGGCAAT
1 CCGAAGGCAAT
45344146 CAATTGATAT
Statistics
Matches: 126, Mismatches: 7, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
128 12 0.10
129 2 0.02
130 17 0.13
131 40 0.32
132 12 0.10
133 16 0.13
134 6 0.05
135 1 0.01
136 9 0.07
137 11 0.09
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (136 bp):
CCGAAGGCAATTGCGATTATATCCGCACGACCCGAACGGCAATTATGCGAGTTGATATTCCGGCT
AAGACCAAGCAATTACGACAGATGAATCCGGGCAAGACCCGAAGGCAATTAGCGAGTAAATCCGG
CAAGAC
Found at i:45344134 original size:34 final size:34
Alignment explanation
Indices: 45344038--45344145 Score: 118
Period size: 34 Copynumber: 3.1 Consensus size: 34
45344028 ACGACCGAAG
*
45344038 GCAATTATGCGAGTTGATATATCCGGGCTAAGACCCAA
1 GCAATTA-GCGAG-TGATA-ATCCGGGC-AAGACCCGA
45344076 GC-ATT--CGAGTGATAATCC-GGCAAGACCCGA
1 GCAATTAGCGAGTGATAATCCGGGCAAGACCCGA
45344106 GCAATTAGCGAGATGA-AATCCGGGCAAGACCCGA
1 GCAATTAGCGAG-TGATAATCCGGGCAAGACCCGA
45344140 GGCAAT
1 -GCAAT
45344146 CAATTGATAT
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
30 10 0.16
31 6 0.10
32 4 0.06
33 14 0.22
34 19 0.30
35 5 0.08
37 3 0.05
38 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (34 bp):
GCAATTAGCGAGTGATAATCCGGGCAAGACCCGA
Found at i:45356885 original size:40 final size:40
Alignment explanation
Indices: 45356752--45356972 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
45356742 TCTTCGGATG
* *
45356752 ATATCCGGGCTAAGT--CGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
45356790 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
45356832 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
45356872 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
45356912 ATATCTGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
45356952 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45356973 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 15 0.09
39 29 0.18
40 78 0.49
41 2 0.01
42 18 0.11
43 17 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45359264 original size:42 final size:41
Alignment explanation
Indices: 45359218--45359301 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
45359208 TTTTATATAT
* * * *
45359218 TATATATTTTAAGCTAT-TTATATTTTATTTTAAATTGTTTTA
1 TATATATATTAAACTATATT-TA-TTTATTTTAAAATATTTTA
*
45359260 TATATATATTAAACTCTATTTATTTATTTTAAAATATTTTA
1 TATATATATTAAACTATATTTATTTATTTTAAAATATTTTA
45359301 T
1 T
45359302 TTATTATCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 18 0.50
42 16 0.44
43 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (41 bp):
TATATATATTAAACTATATTTATTTATTTTAAAATATTTTA
Found at i:45368427 original size:13 final size:13
Alignment explanation
Indices: 45368409--45368433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45368399 ATGGCCTGGC
45368409 ACACGGGCATGTA
1 ACACGGGCATGTA
45368422 ACACGGGCATGT
1 ACACGGGCATGT
45368434 GTGTTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (13 bp):
ACACGGGCATGTA
Found at i:45379182 original size:8 final size:9
Alignment explanation
Indices: 45379157--45379186 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
45379147 TGCCAGTTTG
45379157 AAAATTTTT
1 AAAATTTTT
45379166 AAAATTTTT
1 AAAATTTTT
45379175 AAAATTTTT
1 AAAATTTTT
45379184 AAA
1 AAA
45379187 GGTACAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAAATTTTT
Found at i:45386604 original size:30 final size:31
Alignment explanation
Indices: 45386570--45386628 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
45386560 TTTGATTTAT
*
45386570 TTAATTTTAGTTTTTATATTTTT-AAATTCA
1 TTAATTTTAATTTTTATATTTTTCAAATTCA
*
45386600 TTAATTTTAATTTTTATGTTTTTCAAATT
1 TTAATTTTAATTTTTATATTTTTCAAATT
45386629 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTAATTTTAATTTTTATATTTTTCAAATTCA
Found at i:45389197 original size:68 final size:68
Alignment explanation
Indices: 45389056--45389313 Score: 284
Period size: 68 Copynumber: 3.8 Consensus size: 68
45389046 ATGGTTACCG
* * * * * * *
45389056 ACAACCTATGAAGTCCGCCAAGACAGTAAACATGATATCATATTGTGCAATATCATAGT-TGGGT
1 ACAACATATGAAGTCCGTCAGGACAGTAAACATGACATCATATTGTGTAAGACCATA-TCTGGGT
*
45389120 TATG
65 TATA
* * *
45389124 CCAACATATGAAGTCCGTCAGGACAGTAAACATGGCATCATATTGTGTAAGACCATATCTGGGCT
1 ACAACATATGAAGTCCGTCAGGACAGTAAACATGACATCATATTGTGTAAGACCATATCTGGGTT
45389189 ATA
66 ATA
* * * ** * * *
45389192 ACAACATATGAAGTCCATCAGAACAATAAACATGGTATCATATTATGTAAGACCACAGCTGGGTT
1 ACAACATATGAAGTCCGTCAGGACAGTAAACATGACATCATATTGTGTAAGACCATATCTGGGTT
*
45389257 ATT
66 ATA
** *
45389260 GTAACATATGAAGTTCGTCAGGACAGTAAAACATGACATCATATTGTGTAAGAC
1 ACAACATATGAAGTCCGTCAGGACAGT-AAACATGACATCATATTGTGTAAGAC
45389314 TATAGTTGAG
Statistics
Matches: 158, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
67 1 0.01
68 134 0.85
69 23 0.15
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (68 bp):
ACAACATATGAAGTCCGTCAGGACAGTAAACATGACATCATATTGTGTAAGACCATATCTGGGTT
ATA
Found at i:45389843 original size:25 final size:25
Alignment explanation
Indices: 45389815--45389905 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
45389805 AATATTTATC
45389815 TAATAGATAAAC-ATTAAATTAAATT
1 TAATA-ATAAACAATTAAATTAAATT
*
45389840 TAATATTAAACAATTAAA--AAA-T
1 TAATAATAAACAATTAAATTAAATT
* * **
45389862 TATTAAGATAAGTATTAAATTAAATT
1 TAATAATA-AACAATTAAATTAAATT
* *
45389888 TAATATTAAACTATTAAA
1 TAATAATAAACAATTAAA
45389906 ATAATATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
22 6 0.12
23 11 0.22
24 5 0.10
25 23 0.45
26 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (25 bp):
TAATAATAAACAATTAAATTAAATT
Found at i:45391515 original size:16 final size:16
Alignment explanation
Indices: 45391494--45391524 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45391484 CTATGCATGC
45391494 AAAATATAAAAGACAG
1 AAAATATAAAAGACAG
45391510 AAAATATAAAAGACA
1 AAAATATAAAAGACA
45391525 TAATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAG
Found at i:45393833 original size:23 final size:23
Alignment explanation
Indices: 45393807--45393904 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
45393797 ATAAGTGCCA
45393807 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45393830 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45393853 CACTGA-ATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45393875 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45393898 CACTGAT
1 CACTGAT
45393905 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45393872 original size:45 final size:46
Alignment explanation
Indices: 45393807--45393904 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
45393797 ATAAGTGCCA
* *
45393807 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
45393853 CACTGA-ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
45393898 CACTGAT
1 CACTGAT
45393905 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:45401146 original size:23 final size:23
Alignment explanation
Indices: 45401120--45401217 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
45401110 ATAAGTGCCA
45401120 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45401143 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45401166 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45401188 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45401211 CACTGAT
1 CACTGAT
45401218 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45401185 original size:45 final size:45
Alignment explanation
Indices: 45401127--45401215 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
45401117 CCACACTGAT
* *
45401127 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
45401172 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
45401216 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:45404643 original size:38 final size:38
Alignment explanation
Indices: 45404585--45404739 Score: 186
Period size: 38 Copynumber: 4.1 Consensus size: 38
45404575 AACGTAACGT
* *
45404585 TATTCGGGCTTTGTGTCTAGCAGGCTTTATGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGA
* * *
45404623 TATTTGGGCTCTCTGCCTAGCAGGCTTCATGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGA
* * * **
45404661 TATTCGGGCTTTGTACCTAGCAGGCTTTGTGTTGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGA
* * *
45404699 TACTCGGGCTCTGTGCCTAGCAAGCTTTGTGCCGGTG-
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGA
45404736 TATT
1 TATT
45404740 ATATCAAACT
Statistics
Matches: 97, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
37 3 0.03
38 94 0.97
ACGTcount: A:0.13, C:0.21, G:0.30, T:0.35
Consensus pattern (38 bp):
TATTCGGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGA
Found at i:45404793 original size:41 final size:41
Alignment explanation
Indices: 45404730--45404839 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
45404720 AAGCTTTGTG
** ** *
45404730 CCGGTGTATTATATCAAACTTTGTGTTTAGTAGGCTTCATT
1 CCGGTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATA
* *
45404771 CCGGTGTATTATATTAGGCTTTGTGCCTAGTAGGCTTCGTA
1 CCGGTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATA
** *
45404812 CCACTGTATTATATCAGGCTTTGAGCCT
1 CCGGTGTATTATATCAGGCTTTGTGCCT
45404840 GGCAATCTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (41 bp):
CCGGTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATA
Found at i:45404850 original size:41 final size:41
Alignment explanation
Indices: 45404775--45404862 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
45404765 TTCATTCCGG
* * * * *
45404775 TGTATTATATTAGGCTTTGTGCCTAGTAGGCTTCGTACCAC
1 TGTATTATATCAGGCTTTGAGCCTAGCAAGCTTCGTACCAA
* * *
45404816 TGTATTATATCAGGCTTTGAGCCTGGCAATCTTCGTGCCAA
1 TGTATTATATCAGGCTTTGAGCCTAGCAAGCTTCGTACCAA
45404857 TGTATT
1 TGTATT
45404863 GTACCAGGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (41 bp):
TGTATTATATCAGGCTTTGAGCCTAGCAAGCTTCGTACCAA
Found at i:45415120 original size:23 final size:22
Alignment explanation
Indices: 45415094--45415147 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
45415084 AGTTATGTCT
*
45415094 TTATTTTTATTTTGGTTACTTAA
1 TTATTTTTA-TTTAGTTACTTAA
*
45415117 TTATTATTTATTTAGTTATTTAA
1 TTATT-TTTATTTAGTTACTTAA
45415140 TT-TTTTTA
1 TTATTTTTA
45415148 AACTAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 18 0.64
24 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATTTTTATTTAGTTACTTAA
Found at i:45420235 original size:42 final size:41
Alignment explanation
Indices: 45420095--45420235 Score: 194
Period size: 41 Copynumber: 3.4 Consensus size: 41
45420085 GCGCTTCCTC
* *
45420095 AAAAACGCCGCTATAGA-TTGAGTATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTATAGATTTGAGTTTTAGTGGCGCTTTTTA
** * *
45420135 AAAAACATCGCTATGGATTTGAGTTTTAGTGGCGCTTTTCA
1 AAAAACGCCGCTATAGATTTGAGTTTTAGTGGCGCTTTTTA
* *
45420176 AAAAACGCCGCAATAGATTTGAGTTTTAGTGGCGCTTTTTGG
1 AAAAACGCCGCTATAGATTTGAGTTTTAGTGGCGCTTTTT-A
45420218 AAAAACGCCGCTATAGAT
1 AAAAACGCCGCTATAGAT
45420236 CTAAACTATT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 14 0.16
41 55 0.64
42 17 0.20
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCTATAGATTTGAGTTTTAGTGGCGCTTTTTA
Found at i:45421054 original size:16 final size:14
Alignment explanation
Indices: 45421033--45421070 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
45421023 AGGTTTATGC
45421033 ATGGTTTAGGGTATAT
1 ATGGTTTAGGGT-T-T
45421049 ATGGTTTAGGGTTT
1 ATGGTTTAGGGTTT
45421063 ATGGTTTA
1 ATGGTTTA
45421071 TGGATTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
ATGGTTTAGGGTTT
Found at i:45421078 original size:14 final size:14
Alignment explanation
Indices: 45421033--45421079 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
45421023 AGGTTTATGC
45421033 ATGGTTTAGGGTATAT
1 ATGGTTTAGGG-AT-T
*
45421049 ATGGTTTAGGGTTT
1 ATGGTTTAGGGATT
*
45421063 ATGGTTTATGGATT
1 ATGGTTTAGGGATT
45421077 ATG
1 ATG
45421080 ACGAGTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.57
15 1 0.04
16 11 0.39
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
ATGGTTTAGGGATT
Found at i:45421175 original size:74 final size:75
Alignment explanation
Indices: 45421089--45421229 Score: 191
Period size: 74 Copynumber: 1.9 Consensus size: 75
45421079 GACGAGTTAA
*
45421089 TATTTTAAGGTTTATGGATTA-TGCA-TG-GG-TCTAGGGATTATGGGTTTAGGGGCTTATGGTT
1 TATTTTAAGGTTTATGGATAATTG-ATTGTGGATCTAGGGATTAT-GGTTTA-GGGCTTATGGTT
45421150 TATGGGTTAATAT
63 TATGGGTTAATAT
* * *
45421163 TATTTTAAGGTTTATGGATAATTGATTGTGGATTTAGGGATTATGGTTTATGGTTTATGGTTTAT
1 TATTTTAAGGTTTATGGATAATTGATTGTGGATCTAGGGATTATGGTTTAGGGCTTATGGTTTAT
45421228 GG
66 GG
45421230 TTCAAGGGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
74 21 0.36
75 19 0.32
76 8 0.14
77 11 0.19
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (75 bp):
TATTTTAAGGTTTATGGATAATTGATTGTGGATCTAGGGATTATGGTTTAGGGCTTATGGTTTAT
GGGTTAATAT
Found at i:45421213 original size:7 final size:7
Alignment explanation
Indices: 45421203--45421231 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45421193 GATTTAGGGA
45421203 TTATGGT
1 TTATGGT
45421210 TTATGGT
1 TTATGGT
45421217 TTATGGT
1 TTATGGT
45421224 TTATGGT
1 TTATGGT
45421231 T
1 T
45421232 CAAGGGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TTATGGT
Found at i:45421351 original size:7 final size:7
Alignment explanation
Indices: 45421339--45421437 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
45421329 AAGGGATATA
45421339 GTTTAGG
1 GTTTAGG
*
45421346 GTTTAGT
1 GTTTAGG
**
45421353 GTTTAAA
1 GTTTAGG
45421360 GTTTAGG
1 GTTTAGG
*
45421367 GATTAAGG
1 G-TTTAGG
*
45421375 GTTTATG
1 GTTTAGG
*
45421382 GTTTAAG
1 GTTTAGG
*
45421389 GTTGAGGG
1 GTTTA-GG
45421397 GTTTAAGG
1 GTTT-AGG
*
45421405 GTTAAGG
1 GTTTAGG
*** *
45421412 GGACATG
1 GTTTAGG
45421419 GTTTAGG
1 GTTTAGG
*
45421426 GTTTAGT
1 GTTTAGG
45421433 GTTTA
1 GTTTA
45421438 AATTTTAAAG
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
7 51 0.76
8 15 0.22
9 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:45421375 original size:29 final size:30
Alignment explanation
Indices: 45421343--45421407 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
45421333 GATATAGTTT
*
45421343 AGGGTTTA-GTGTTTAAAGTTTA-GGGATTA
1 AGGGTTTATG-GTTTAAAGTTGAGGGGATTA
* *
45421372 AGGGTTTATGGTTTAAGGTTGAGGGGTTTA
1 AGGGTTTATGGTTTAAAGTTGAGGGGATTA
45421402 AGGGTT
1 AGGGTT
45421408 AAGGGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (30 bp):
AGGGTTTATGGTTTAAAGTTGAGGGGATTA
Found at i:45421407 original size:80 final size:80
Alignment explanation
Indices: 45421318--45421512 Score: 257
Period size: 80 Copynumber: 2.4 Consensus size: 80
45421308 TTGTTAAGAG
* ** *
45421318 TTAAGGGGTTAAAGGGATATAGTTTAGGGTTTAGTGTTTAAAGTTTAGGGATTAAGGGTTTATGG
1 TTAA-GGGTTAAAGGGACATAGTTTAGGGTTTAGTGTTTAAAGTTTAAAGATTAAGGGTTAATGG
45421383 TTTAAGGTTGAGGGGT
65 TTTAAGGTTGAGGGGT
* * *
45421399 TTAAGGGTTAAGGGGACATGGTTTAGGGTTTAGTGTTTAAATTTTAAAGATTAAGGGTTAATGGT
1 TTAAGGGTTAAAGGGACATAGTTTAGGGTTTAGTGTTTAAAGTTTAAAGATTAAGGGTTAATGGT
*
45421464 TTAGGGTTGAGGGGT
66 TTAAGGTTGAGGGGT
* * *
45421479 TTAGGGGTT-AAGAGGACATGGGTTAAGGGTTTAG
1 TTAAGGGTTAAAG-GGACAT-AGTTTAGGGTTTAG
45421513 GATAATTAGT
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
79 2 0.02
80 82 0.81
81 17 0.17
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (80 bp):
TTAAGGGTTAAAGGGACATAGTTTAGGGTTTAGTGTTTAAAGTTTAAAGATTAAGGGTTAATGGT
TTAAGGTTGAGGGGT
Found at i:45421825 original size:18 final size:17
Alignment explanation
Indices: 45421786--45421821 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
45421776 CTATATAACT
*
45421786 TATTGTTTTTTAATTTA
1 TATTATTTTTTAATTTA
45421803 TATTATTTTTT-ATTTA
1 TATTATTTTTTAATTTA
45421819 TAT
1 TAT
45421822 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTATTTTTTAATTTA
Found at i:45424726 original size:92 final size:92
Alignment explanation
Indices: 45424569--45424737 Score: 284
Period size: 92 Copynumber: 1.8 Consensus size: 92
45424559 GCCCCTAAGT
* *
45424569 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
45424634 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * * *
45424661 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGCTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
45424726 GAGTTCGGATGC
66 GAGTTCGGATGC
45424738 TAACCATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45424734 original size:45 final size:46
Alignment explanation
Indices: 45424564--45424734 Score: 190
Period size: 45 Copynumber: 3.7 Consensus size: 46
45424554 AACCCGCCCC
* * * *
45424564 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
45424610 TAAATGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
45424657 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
45424702 TAAGTGAACTCGG-CTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45424735 TGCTAACCAT
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 42 0.40
46 24 0.23
47 24 0.23
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:45432218 original size:93 final size:93
Alignment explanation
Indices: 45432108--45432278 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
45432098 GCCCCTAAGT
* * *
45432108 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45432173 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
45432201 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45432266 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45432279 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45432275 original size:46 final size:46
Alignment explanation
Indices: 45432103--45432275 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
45432093 AACCCGCCCC
* * * *
45432103 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* ** * *
45432149 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
45432197 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
45432242 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
45432276 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:45433799 original size:48 final size:48
Alignment explanation
Indices: 45433731--45433875 Score: 222
Period size: 48 Copynumber: 3.0 Consensus size: 48
45433721 TAGGGTTATG
45433731 TGTGA-CCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
45433778 TGTGATTCC-ATGTAAGACCATGTCCGGGACATGGCATTGGCATCGATA
1 TGTGA-TCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
45433826 TTTGATCCTATGTAAGACCTTATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
45433874 TG
1 TG
45433876 CGACATCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 8 0.09
48 78 0.89
49 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:45433887 original size:48 final size:48
Alignment explanation
Indices: 45433731--45433894 Score: 199
Period size: 48 Copynumber: 3.4 Consensus size: 48
45433721 TAGGGTTATG
*
45433731 TGTGACCT-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGACATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
45433778 TGTGA-TTCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCGATA
1 TGTGACAT-CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
45433826 TTTGATCCT-ATGTAAGACCTTATCTGGGATATGGCATTGGCATCGATA
1 TGTGA-CATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
45433874 TGCGACATCATGTACGACCAT
1 TGTGACATCATGTAAGACCAT
45433895 ACTTGGGCTA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 1 0.01
47 7 0.07
48 90 0.91
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGACATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:45444339 original size:29 final size:29
Alignment explanation
Indices: 45444307--45444380 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
45444297 AACGACATGT
*
45444307 ATATTATTTAATTAAAATAAAATTTT-TCA
1 ATATTATTTAATTAAAAT-AAATTTTATAA
*
45444336 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAAATTTTATAA
45444365 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
45444381 TATTATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 6 0.14
29 36 0.86
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAAATTTTATAA
Found at i:45444351 original size:24 final size:26
Alignment explanation
Indices: 45444307--45444389 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 26
45444297 AACGACATGT
*
45444307 ATATTATTTAATTAAAATAAAATTTT-TCA
1 ATATTATTTAATTAAAAT----TTTTATAA
45444336 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATT--AA-AATTTTTATAA
45444365 ATATTATTTAATTAAATATTATTTA
1 ATATTATTTAATTAAA-ATT-TTTA
45444390 ATCCCGCAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
26 1 0.02
27 5 0.11
28 8 0.17
29 28 0.60
31 2 0.04
32 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTATTTAATTAAAATTTTTATAA
Found at i:45444380 original size:15 final size:15
Alignment explanation
Indices: 45444307--45444391 Score: 81
Period size: 15 Copynumber: 5.8 Consensus size: 15
45444297 AACGACATGT
45444307 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
** *
45444323 ATAAAATTT--TTCA
1 ATATTATTTAATTAA
45444336 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
45444352 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
45444365 ATATTATTTAATTAA
1 ATATTATTTAATTAA
45444380 ATATTATTTAAT
1 ATATTATTTAAT
45444392 CCCGCAACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
12 3 0.05
13 15 0.27
14 4 0.07
15 18 0.32
16 13 0.23
17 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:45444557 original size:44 final size:45
Alignment explanation
Indices: 45444496--45444791 Score: 248
Period size: 44 Copynumber: 6.5 Consensus size: 45
45444486 TATTTGATAT
* * * *
45444496 CATAATTTACATAACTTACAAAACTTACATAACTTATGTAACTTA
1 CATAATATATATAACTTACATAACTTACATAACTTATATAACTTA
* * *
45444541 GATAA-ATATATAACTTATATAACTTACATAACTTATATAACATA
1 CATAATATATATAACTTACATAACTTACATAACTTATATAACTTA
* * * *
45444585 CATAACT-TATATAACTTATATAACTTAGATAA-ATATGTAACTTA
1 CATAA-TATATATAACTTACATAACTTACATAACTTATATAACTTA
* *
45444629 CATAACT-TACATAACTTATATAACTTACAT-A-TATATATAACTTA
1 CATAA-TATATATAACTTACATAACTTACATAACT-TATATAACTTA
* * *
45444673 CATAA-ATATATATCATATCATAACTTACATAACTTACATAATACTTA
1 CATAATATATATAACTTA-CATAACTTACATAACTTATAT-A-ACTTA
* * *
45444720 AATATATTTTATATCATAATTTACATAACTTACATAACTTACATAACTTA
1 CATA-A---TATAT-ATAACTTACATAACTTACATAACTTATATAACTTA
* *
45444770 GATAA-ATATATAATTTACATAA
1 CATAATATATATAACTTACATAA
45444792 ATATATATCA
Statistics
Matches: 210, Mismatches: 26, Indels: 31
0.79 0.10 0.12
Matches are distributed among these distances:
43 9 0.04
44 113 0.54
45 37 0.18
46 2 0.01
47 8 0.04
48 1 0.00
49 1 0.00
50 8 0.04
51 1 0.00
52 25 0.12
53 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (45 bp):
CATAATATATATAACTTACATAACTTACATAACTTATATAACTTA
Found at i:45444571 original size:62 final size:63
Alignment explanation
Indices: 45444497--45444769 Score: 220
Period size: 71 Copynumber: 4.3 Consensus size: 63
45444487 ATTTGATATC
* *
45444497 ATAATTTACATAACTTACA-AAACTTACATAACTTATGTAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTACACAAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
* *
45444559 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATGTA
1 ATAACTTACATAAC---T-T-AC--ACA-AACTTACATAACTTATATAACTTAGATAAATATATA
*
45444624 ACTTAC
58 ACTTAT
* * * * *
45444630 ATAACTTACATAACTTATA-TAACTTACAT-A-TATATATAACTTACATAAATATATATCATAT
1 ATAACTTACATAACTTACACAAACTTACATAACT-TATATAACTTAGATAAATATATAACTTAT
* * * * * * *
45444691 CATAACTTACATAACTTACATAATACTTAAATATA-TTTTATATCATA-AT--TTACATAACTTA
1 -ATAACTTACATAACTTACACAA-ACTTACATA-ACTTATATAACTTAGATAAATATATAACTTA
*
45444752 C
63 T
45444753 ATAACTTACATAACTTA
1 ATAACTTACATAACTTA
45444770 GATAAATATA
Statistics
Matches: 172, Mismatches: 24, Indels: 31
0.76 0.11 0.14
Matches are distributed among these distances:
60 1 0.01
61 42 0.24
62 47 0.27
63 1 0.01
64 10 0.06
65 9 0.05
66 4 0.02
67 3 0.02
68 1 0.01
69 1 0.01
70 1 0.01
71 52 0.30
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.38
Consensus pattern (63 bp):
ATAACTTACATAACTTACACAAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
Found at i:45444581 original size:71 final size:71
Alignment explanation
Indices: 45444496--45444713 Score: 262
Period size: 71 Copynumber: 3.1 Consensus size: 71
45444486 TATTTGATAT
* * * *
45444496 CATAATTTACATAACTTACAAAACTTACATAACTTATGTAACTTAGATAAATATATAACTTATAT
1 CATAACTTATATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
45444561 AACTTA
66 AACTTA
* * * *
45444567 CATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATGTAACTTACAT
1 CATAACTTATATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
45444632 AACTTA
66 AACTTA
* * * * * *
45444638 CATAACTTATATAACTTAC-ATA-TATATATAACTTACATAA-ATATATATCATATCATAACTTA
1 CATAACTTATATAACTTACAAAACT-TACATAACTTATATAACTTAGATA-AATAT-ATAACTTA
45444700 CATAACTTA
63 CATAACTTA
45444709 CATAA
1 CATAA
45444714 TACTTAAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
69 6 0.05
70 20 0.16
71 102 0.80
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (71 bp):
CATAACTTATATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
AACTTA
Found at i:45444734 original size:43 final size:43
Alignment explanation
Indices: 45444675--45444756 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
45444665 ATAACTTACA
45444675 TAAATATATATCATATCATAACTTACATAACTTACATAATACT
1 TAAATATATATCATATCATAACTTACATAACTTACATAATACT
* * *
45444718 TAAATATATTTTATATCATAATTTACATAACTTACATAA
1 TAAATATATATCATATCATAACTTACATAACTTACATAA
45444757 CTTACATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (43 bp):
TAAATATATATCATATCATAACTTACATAACTTACATAATACT
Found at i:45444791 original size:9 final size:9
Alignment explanation
Indices: 45444496--45444774 Score: 208
Period size: 9 Copynumber: 30.6 Consensus size: 9
45444486 TATTTGATAT
*
45444496 CATAATTTA
1 CATAACTTA
45444505 CATAACTTA
1 CATAACTTA
*
45444514 CAAAACTTA
1 CATAACTTA
45444523 CATAACTTA
1 CATAACTTA
**
45444532 TGTAACTTA
1 CATAACTTA
* *
45444541 GATAA-ATA
1 CATAACTTA
*
45444549 TATAACTTA
1 CATAACTTA
*
45444558 TATAACTTA
1 CATAACTTA
45444567 CATAACTTA
1 CATAACTTA
* *
45444576 TATAACATA
1 CATAACTTA
45444585 CATAACTTA
1 CATAACTTA
*
45444594 TATAACTTA
1 CATAACTTA
*
45444603 TATAACTTA
1 CATAACTTA
* *
45444612 GATAA-ATA
1 CATAACTTA
**
45444620 TGTAACTTA
1 CATAACTTA
45444629 CATAACTTA
1 CATAACTTA
45444638 CATAACTTA
1 CATAACTTA
*
45444647 TATAACTTA
1 CATAACTTA
45444656 CAT-A-TATA
1 CATAACT-TA
*
45444664 TATAACTTA
1 CATAACTTA
*
45444673 CATAA-ATA
1 CATAACTTA
* * *
45444681 TATATCATA
1 CATAACTTA
45444690 TCATAACTTA
1 -CATAACTTA
45444700 CATAACTTA
1 CATAACTTA
45444709 CATAATACTTA
1 CAT-A-ACTTA
* *
45444720 AATATATTTTATA
1 CATA-A--CT-TA
*
45444733 TCATAATTTA
1 -CATAACTTA
45444743 CATAACTTA
1 CATAACTTA
45444752 CATAACTTA
1 CATAACTTA
45444761 CATAACTTA
1 CATAACTTA
*
45444770 GATAA
1 CATAA
45444775 ATATATAATT
Statistics
Matches: 219, Mismatches: 38, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
7 1 0.00
8 21 0.10
9 168 0.77
10 13 0.06
11 9 0.04
12 1 0.00
13 3 0.01
14 3 0.01
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:45450434 original size:21 final size:21
Alignment explanation
Indices: 45450410--45450465 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
45450400 GCAACAACTT
*
45450410 AGGCAGCGGCAGCAGCGAGGG
1 AGGCAGCGGCAGCAGCAAGGG
*
45450431 AGGCAGCGGCAGCAGTAAGGG
1 AGGCAGCGGCAGCAGCAAGGG
*
45450452 AGGCAGAGGCAGCA
1 AGGCAGCGGCAGCA
45450466 ACGATGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.48, T:0.02
Consensus pattern (21 bp):
AGGCAGCGGCAGCAGCAAGGG
Found at i:45451007 original size:42 final size:42
Alignment explanation
Indices: 45450854--45451031 Score: 160
Period size: 43 Copynumber: 4.2 Consensus size: 42
45450844 TTTGTGGGAA
* * * **
45450854 AAACGCTGCTAAAAGCCATGTCTTTTAGCGACGCTTTCCCAAC
1 AAACGCCGCTAAAAG-CATGACTTTTAGCGGCGCTTTTTCAAC
45450897 AAACGCCGCTAAAAGCTATGACTTTTAGCGGCGCTTTTTCAAC
1 AAACGCCGCTAAAAGC-ATGACTTTTAGCGGCGCTTTTTCAAC
* * * * **
45450940 AAACGCCACTAAAAACCATAACTTTTTGCGGCGCTTTTT-TTC
1 AAACGCCGCT-AAAAGCATGACTTTTAGCGGCGCTTTTTCAAC
* * ** * *
45450982 AAACGCCGCTAAATGTCATGGCTTTTAGCGGCATTTTTTAAAT
1 AAACGCCGCTAAAAG-CATGACTTTTAGCGGCGCTTTTTCAAC
45451025 AAACGCC
1 AAACGCC
45451032 ACCAAGTTTT
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.03
42 29 0.27
43 72 0.66
44 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAAGCATGACTTTTAGCGGCGCTTTTTCAAC
Found at i:45459272 original size:13 final size:13
Alignment explanation
Indices: 45459254--45459290 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
45459244 TTTTTAAGTT
*
45459254 AAAAGTGCTTTTG
1 AAAAGTGCTTTTA
45459267 AAAAGTGCTTTTA
1 AAAAGTGCTTTTA
45459280 AAAAGTGCTTT
1 AAAAGTGCTTT
45459291 ACAATCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (13 bp):
AAAAGTGCTTTTA
Found at i:45460013 original size:3 final size:3
Alignment explanation
Indices: 45460005--45460031 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45459995 AAACAAAATT
45460005 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
45460032 AGGTCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45463088 original size:33 final size:33
Alignment explanation
Indices: 45463051--45463116 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
45463041 AATAGAAAAG
45463051 ATAGAACGTGGCGTGTAGAAGTCCTAAGAAGCC
1 ATAGAACGTGGCGTGTAGAAGTCCTAAGAAGCC
45463084 ATAGAACGTGGCGTGTAGAAGTCCTAAGAAGCC
1 ATAGAACGTGGCGTGTAGAAGTCCTAAGAAGCC
45463117 TTGGAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (33 bp):
ATAGAACGTGGCGTGTAGAAGTCCTAAGAAGCC
Found at i:45464597 original size:27 final size:27
Alignment explanation
Indices: 45464549--45464707 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
45464539 GCGAAGCTGC
* *
45464549 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
45464576 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
45464602 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
45464629 CAGATAATCGTGGTATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
45464656 CAGATATATGTTGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
45464683 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
45464708 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:45464649 original size:54 final size:54
Alignment explanation
Indices: 45464567--45464707 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
45464557 GTGACGAAGT
*
45464567 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
45464621 CACCAGATCAGATAATCGTGGTATAGCCACCAGAACAGATATATGTTGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
45464675 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
45464708 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:45464840 original size:26 final size:27
Alignment explanation
Indices: 45464811--45464886 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
45464801 TAAAATTAAC
*
45464811 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
45464837 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
45464865 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
45464887 AGCTGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:45466345 original size:26 final size:26
Alignment explanation
Indices: 45466314--45466395 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
45466304 TAAAATTTCC
*
45466314 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45466340 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45466366 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45466392 ATCA
1 ATCA
45466396 ATTTTTTATC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45473051 original size:47 final size:48
Alignment explanation
Indices: 45472978--45473280 Score: 144
Period size: 47 Copynumber: 6.6 Consensus size: 48
45472968 GTGTAATGCT
* * * * *
45472978 GATGCCATGTCTCAGACATGGCCTTACACTGGCTCATC-CATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAAGCC
* * *
45473025 GATGCCATGTCCCAAACATGGTCTTACGCTGACTATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAAGCC
* * **
45473074 GACGCCATGTCCCAGACATGGTCTTATACTGAC-A-CATCTC-ATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGA-AGCC
* ** * *
45473120 GATG-CATGTCCTAGACAT-G--TT-GGCTTAC-ATC---TCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAAGCC
* ** **
45473159 GATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCATCTC-AATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAATCGAA-GCC
* * * **
45473205 GATGCCATGTCCCAGACATGGTCTTCCACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AATCGAAGCC
* *
45473253 AAT-ACATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
45473281 AGAGCACAAA
Statistics
Matches: 197, Mismatches: 39, Indels: 41
0.71 0.14 0.15
Matches are distributed among these distances:
39 23 0.12
40 1 0.01
41 8 0.04
42 6 0.03
43 2 0.01
44 1 0.01
45 15 0.08
46 28 0.14
47 58 0.29
48 22 0.11
49 33 0.17
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAAGCC
Found at i:45473209 original size:85 final size:86
Alignment explanation
Indices: 45473066--45473224 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 86
45473056 ACTATCGAAA
*
45473066 TCGAGGCCGACGCCATGTCCCAGACATGGTCTTATACTGACACATCTCATAGCCGATG-CATGTC
1 TCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGCCATGTC
*
45473130 CTAGACATGTTGGCTTACATC
66 CCAGACATGTTGGCTTACATC
* * * **
45473151 TCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCA-ATGTTGATGCCAT
1 TCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATA-GCCGATGCCAT
45473213 GTCCCAGACATG
63 GTCCCAGACATG
45473225 GTCTTCCACT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
83 9 0.14
84 16 0.25
85 24 0.38
86 14 0.22
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (86 bp):
TCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGCCATGTC
CCAGACATGTTGGCTTACATC
Found at i:45474470 original size:20 final size:20
Alignment explanation
Indices: 45474445--45474497 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
45474435 GAGGCGAAGC
45474445 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
45474465 ACACGCCCGTGTACTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
45474485 ACATGCCCGTGTG
1 ACACGCCCGTGTG
45474498 TCCCACCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:45474590 original size:13 final size:13
Alignment explanation
Indices: 45474572--45474596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45474562 CCAAACACAT
45474572 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
45474585 GCCCGTGTCCCT
1 GCCCGTGTCCCT
45474597 CACAGGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:45475659 original size:42 final size:42
Alignment explanation
Indices: 45475613--45475697 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
45475603 CAAATACACT
*
45475613 TAGTCAGCAAGTTAGTCTTACAACAATACATCATGTCATTAG
1 TAGTCAGCAAGTTAGTCTCACAACAATACATCATGTCATTAG
*
45475655 TAGTCATCAAGTTAGTCTCACAACAATACATCATGTCATTAG
1 TAGTCAGCAAGTTAGTCTCACAACAATACATCATGTCATTAG
45475697 T
1 T
45475698 CTTAGATGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
TAGTCAGCAAGTTAGTCTCACAACAATACATCATGTCATTAG
Found at i:45485712 original size:20 final size:20
Alignment explanation
Indices: 45485689--45485728 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45485679 AAAATGAATA
*
45485689 GTAATTGTCATGAATTATCC
1 GTAAATGTCATGAATTATCC
*
45485709 GTAAATGTTATGAATTATCC
1 GTAAATGTCATGAATTATCC
45485729 AATAATGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (20 bp):
GTAAATGTCATGAATTATCC
Found at i:45488048 original size:25 final size:26
Alignment explanation
Indices: 45488011--45488061 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
45488001 GTTGTAAATC
*
45488011 AGAAAAATGTCTTTAGA-AATTTTCT
1 AGAAAAATCTCTTTAGAGAATTTTCT
*
45488036 AGAATAATCTCTTTAGAGAATTTTCT
1 AGAAAAATCTCTTTAGAGAATTTTCT
45488062 CTCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (26 bp):
AGAAAAATCTCTTTAGAGAATTTTCT
Found at i:45489385 original size:57 final size:56
Alignment explanation
Indices: 45489255--45489400 Score: 161
Period size: 57 Copynumber: 2.6 Consensus size: 56
45489245 CTCGTTATAG
* * * *
45489255 AAAGGATTTAGCCCGGACTGGTAATCCTGATATTATTCCTCTCGAGCATATGATACA
1 AAAGGATTTAACCTGGACTGGTAATCCT-ATATTACTCCTCTCGAGCATACGATACA
* * *
45489312 ATTAGGATTTAACCTGGACTGGTAATCCTA-ATTAAGCTCTTCT-GAGCATACGTTACA
1 A-AAGGATTTAACCTGGACTGGTAATCCTATATT-A-CTCCTCTCGAGCATACGATACA
*
45489369 TAAAGGATTTATCCTGGACTGGTAATCCTATA
1 -AAAGGATTTAACCTGGACTGGTAATCCTATA
45489401 ATACGATATG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
56 3 0.04
57 41 0.55
58 31 0.41
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (56 bp):
AAAGGATTTAACCTGGACTGGTAATCCTATATTACTCCTCTCGAGCATACGATACA
Found at i:45497618 original size:46 final size:46
Alignment explanation
Indices: 45497568--45497741 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
45497558 GTTGAGCATT
45497568 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
45497614 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * **
45497661 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGGA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
45497707 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45497742 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:45497727 original size:93 final size:93
Alignment explanation
Indices: 45497563--45497733 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
45497553 GGATGGTTGA
* * **
45497563 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGACGAACTCGTTGAGT
45497628 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
45497656 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGGACGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGACGAACTCGTTGAGT
45497721 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45497734 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGACGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45505587 original size:40 final size:40
Alignment explanation
Indices: 45505531--45505995 Score: 779
Period size: 40 Copynumber: 11.6 Consensus size: 40
45505521 CATTTGAATG
45505531 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45505571 ATATCCGGGTTTAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505611 ATATCCGGGCTAAGACCAGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45505651 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505691 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505731 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505771 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505811 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45505851 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45505891 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
45505931 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45505971 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
45505996 ATTGAGCTTG
Statistics
Matches: 402, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 399 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:45509083 original size:46 final size:46
Alignment explanation
Indices: 45509033--45509208 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
45509023 TGGTTGAGCA
*
45509033 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * ** *
45509079 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACCAGGCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGC--GAATG
*
45509127 T-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45509172 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45509209 GCGGGTTATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 67 0.63
47 32 0.30
48 2 0.02
49 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45509194 original size:93 final size:93
Alignment explanation
Indices: 45509030--45509200 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45509020 GGATGGTTGA
* * *
45509030 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
45509095 TGAGTCCGAGTTCGTGAAATGTAACCAG
66 TGAGTCCGAGTTCGTGAAATGTAACCAG
* *
45509123 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
45509188 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45509201 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACCAG
Found at i:45515118 original size:28 final size:27
Alignment explanation
Indices: 45515063--45515179 Score: 146
Period size: 28 Copynumber: 4.3 Consensus size: 27
45515053 AGCATGGCTG
* *
45515063 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
45515089 CCAGATACAGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
* *
45515117 CCAGAATCAAATATTTGTGGTAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
*
45515145 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
45515173 CCAGAAC
1 CCAGAAC
45515180 GCTTCTTCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.06
27 11 0.14
28 60 0.77
29 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:45517283 original size:12 final size:12
Alignment explanation
Indices: 45517266--45517290 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45517256 CTAGACATAC
45517266 AAAATAATAATA
1 AAAATAATAATA
45517278 AAAATAATAATA
1 AAAATAATAATA
45517290 A
1 A
45517291 CATCCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:45523352 original size:15 final size:15
Alignment explanation
Indices: 45523328--45523359 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45523318 TATGCATACA
*
45523328 AAATATAAAAGACAT
1 AAATACAAAAGACAT
45523343 AAATACAAAAGACAT
1 AAATACAAAAGACAT
45523358 AA
1 AA
45523360 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:45523888 original size:45 final size:46
Alignment explanation
Indices: 45523837--45523925 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
45523827 TTCCATTTTT
*
45523837 AGAAAACCACATTCATTTCTAAATG-ATTCCATTTCTCCATTTCGG
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCTCCATTTCGG
* * * * *
45523882 AGAAAACCATAATCATTTTTTATTGTTTTCCATTTCTCCATTTC
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCTCCATTTC
45523926 TATTCATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 20 0.54
46 17 0.46
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (46 bp):
AGAAAACCACAATCATTTCTAAATGTATTCCATTTCTCCATTTCGG
Found at i:45533296 original size:15 final size:15
Alignment explanation
Indices: 45533276--45533306 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45533266 TATGTCTAAC
45533276 ATGTAGACTAAACTA
1 ATGTAGACTAAACTA
45533291 ATGTAGACTAAACTA
1 ATGTAGACTAAACTA
45533306 A
1 A
45533307 GGTAAGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (15 bp):
ATGTAGACTAAACTA
Found at i:45534570 original size:17 final size:17
Alignment explanation
Indices: 45534548--45534581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45534538 CACTAACATG
*
45534548 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
45534565 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
45534582 TATACTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:45535959 original size:22 final size:22
Alignment explanation
Indices: 45535931--45535989 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
45535921 TAAATATGTT
45535931 TGGCACAAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* ** * * *
45535953 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
45535975 TGGCACAAAGCCATA
1 TGGCACAAAGCCATA
45535990 ATCAGATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:45536401 original size:27 final size:27
Alignment explanation
Indices: 45536363--45536414 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
45536353 ACGATCATTT
*
45536363 TACCCTTTAAGGGTATTTCAGTAATCC
1 TACCCTATAAGGGTATTTCAGTAATCC
*
45536390 TACCCTATAAGGGTATTTCGGTAAT
1 TACCCTATAAGGGTATTTCAGTAAT
45536415 TTCACAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
TACCCTATAAGGGTATTTCAGTAATCC
Found at i:45536429 original size:27 final size:27
Alignment explanation
Indices: 45536399--45536531 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
45536389 CTACCCTATA
* *
45536399 AGGGTATTTCGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
45536426 AGGGTATTTCAATAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
**
45536453 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
45536480 AGGGTATCTT-AGTAATTTTACAAGTAG
1 AGGGTAT-TTCAGTAATTTTACAAATCG
*
45536507 GGGGTATTTCAGTAATTTTACAAAT
1 AGGGTATTTCAGTAATTTTACAAAT
45536532 TAGGGGTCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 87 0.96
28 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:45536436 original size:54 final size:54
Alignment explanation
Indices: 45536372--45536531 Score: 155
Period size: 54 Copynumber: 3.0 Consensus size: 54
45536362 TTACCCTTTA
**
45536372 AGGGTATTTCAGTAATCCTACCCTAT-AAGGGTATTTCGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATCCTA-CAAATCAAGGGTATTTCGGTAATTTCACAAATCG
* ** * *
45536426 AGGGTATTTCAATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATCCTACAAATCAAGGGTATTTCGGTAATTTCACAAATCG
** * * * *
45536480 AGGGTATCTT-AGTAATTTTACAAGT-AGGGGGTATTTCAGTAATTTTACAAAT
1 AGGGTAT-TTCAGTAATCCTACAAATCA-AGGGTATTTCGGTAATTTCACAAAT
45536532 TAGGGGTCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.04
54 85 0.93
55 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCAGTAATCCTACAAATCAAGGGTATTTCGGTAATTTCACAAATCG
Found at i:45536537 original size:27 final size:26
Alignment explanation
Indices: 45536373--45536538 Score: 136
Period size: 27 Copynumber: 6.2 Consensus size: 26
45536363 TACCCTTTAA
** ** *
45536373 GGGTATTTCAGTAATCCTACCCTATAA
1 GGGTATTTCAGTAATTTTA-CAAATAG
* * *
45536400 GGGTATTTCGGTAATTTCACAAATCG
1 GGGTATTTCAGTAATTTTACAAATAG
* *
45536426 AGGGTATTTCAATAATTTTACAAATCAA
1 -GGGTATTTCAGTAATTTTACAAAT-AG
** *
45536454 GGGTATTTTGGTAATTTTACAAATCG
1 GGGTATTTCAGTAATTTTACAAATAG
*
45536480 AGGGTATCTT-AGTAATTTTACAAGTAGG
1 -GGGTAT-TTCAGTAATTTTACAAATA-G
45536508 GGGTATTTCAGTAATTTTACAAATTAG
1 GGGTATTTCAGTAATTTTACAAA-TAG
45536535 GGGT
1 GGGT
45536539 CTTAACGACC
Statistics
Matches: 110, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 5 0.05
27 100 0.91
28 5 0.05
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTACAAATAG
Found at i:45543846 original size:9 final size:9
Alignment explanation
Indices: 45543834--45543858 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45543824 TATTTCATAT
45543834 ATTTATAAA
1 ATTTATAAA
45543843 ATTTATAAA
1 ATTTATAAA
45543852 ATTTATA
1 ATTTATA
45543859 TAATCACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTTATAAA
Found at i:45545736 original size:6 final size:6
Alignment explanation
Indices: 45545725--45546130 Score: 295
Period size: 6 Copynumber: 66.8 Consensus size: 6
45545715 AACCAAAATG
* *
45545725 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
45545773 AGTAA-C AGAATC AGAATT AGGTGAT- AGAATC AAAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AG-AATC
* *
45545822 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
45545870 AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * * * *
45545919 AGAATC AGTATT A-ATAAC AGAATC AGAATC AGGATT AG-GTGAC AGAATC
1 AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * *
45545968 AGAATC AGAACC AGTAA-C AGAATC AGAATC AGAATT A-AGTGAC AGAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
45546017 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * * *
45546065 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
45546114 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
45546131 GTGAATGCAA
Statistics
Matches: 318, Mismatches: 45, Indels: 74
0.73 0.10 0.17
Matches are distributed among these distances:
5 26 0.08
6 260 0.82
7 24 0.08
8 8 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Done.