Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 241 of 295
Found at i:77318706 original size:54 final size:54
Alignment explanation
Indices: 77318623--77318753 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
77318613 GGATAAGTTG
* * * *
77318623 TAGAATTACCAAAATACCCCTGTAAGGTAGAATTATCGAAATAACCCTATAGGA
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTATAGGA
* * * *
77318677 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGC
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTATAGGA
* *
77318731 TAGAATTATCGAGATACCCTTGT
1 TAGAATTACCGAAATACCCTTGT
77318754 GGGCTAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTATAGGA
Found at i:77319524 original size:31 final size:31
Alignment explanation
Indices: 77319486--77319547 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
77319476 CTCGCTGCAA
* *
77319486 TCTGGTGGCTTCGCCACATATA-TATATCTGT
1 TCTGGTGGCCTAGCCACA-ATACTATATCTGT
77319517 TCTGGTGGCCTAGCCACAATACCTATATCTG
1 TCTGGTGGCCTAGCCACAATA-CTATATCTG
77319548 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 3 0.11
31 16 0.59
32 8 0.30
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCACAATACTATATCTGT
Found at i:77326226 original size:27 final size:27
Alignment explanation
Indices: 77326192--77326337 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
77326182 TGGATAAGTT
*
77326192 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
77326219 GTAGAATTA-TGAAAATACCCCTGTAGG
1 GTAGAATTACCG-AAATACCCCTGTAGG
* * * *
77326246 ATAGAATTACCAAAATACCCTTGTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
77326273 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
77326300 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
77326327 GTAAAATTACC
1 GTAGAATTACC
77326338 ATTTTGCCCC
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 99 0.99
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:77336203 original size:49 final size:49
Alignment explanation
Indices: 77336095--77336482 Score: 630
Period size: 49 Copynumber: 8.1 Consensus size: 49
77336085 GAAATGATAG
*
77336095 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
77336142 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
77336191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
77336240 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
77336289 TAAGGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
77336338 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
77336385 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
77336432 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
77336479 TAAG
1 TAAG
77336483 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
45 1 0.00
47 123 0.38
48 1 0.00
49 196 0.61
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:77336658 original size:37 final size:37
Alignment explanation
Indices: 77336601--77336679 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
77336591 CCGAGCTCTA
* * *
77336601 AAGACCCGATGACTATGTGTGGGGATTTTGTCAGGGT
1 AAGACCCGATAACTATGTGTGGAGATTATGTCAGGGT
*
77336638 AAGACCCGATAACT-TCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTAT-GTGTGGAGATTATGTCAGGGT
77336675 AAGAC
1 AAGAC
77336680 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTATGTGTGGAGATTATGTCAGGGT
Found at i:77339687 original size:28 final size:29
Alignment explanation
Indices: 77339626--77339693 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
77339616 TATATATTTG
*
77339626 GTAATATAAATGAAAAAAATACAAACTTT
1 GTAATATAAATGAAAAAAATACAAACATT
* * *
77339655 ATAATATAAATG-CAAAATTACAAACATT
1 GTAATATAAATGAAAAAAATACAAACATT
77339683 GTAATATAAAT
1 GTAATATAAAT
77339694 TAGATGCAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (29 bp):
GTAATATAAATGAAAAAAATACAAACATT
Found at i:77345254 original size:13 final size:13
Alignment explanation
Indices: 77345238--77345262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77345228 AAGAAAAAAC
77345238 TAAAAATTCCAAA
1 TAAAAATTCCAAA
77345251 TAAAAATTCCAA
1 TAAAAATTCCAA
77345263 TTGATTAAAG
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATTCCAAA
Found at i:77346341 original size:18 final size:18
Alignment explanation
Indices: 77346318--77346354 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
77346308 AAAATAGCGG
77346318 AATAAATTGAGAAATTGA
1 AATAAATTGAGAAATTGA
77346336 AATAAATTGAGAAATTGA
1 AATAAATTGAGAAATTGA
77346354 A
1 A
77346355 CACACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (18 bp):
AATAAATTGAGAAATTGA
Found at i:77348962 original size:14 final size:14
Alignment explanation
Indices: 77348943--77348975 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
77348933 TAAAATAAAT
77348943 ATTTT-ATTAAATTA
1 ATTTTAATT-AATTA
77348957 ATTTTAATTAATTA
1 ATTTTAATTAATTA
77348971 ATTTT
1 ATTTT
77348976 CCAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTAATTAATTA
Found at i:77349133 original size:25 final size:25
Alignment explanation
Indices: 77349105--77349153 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
77349095 TGGGTTAATG
*
77349105 TACCCGTCGTGTAAGTAATTAAAGA
1 TACCCATCGTGTAAGTAATTAAAGA
*
77349130 TACCCATCGTTTAAGTAATTAAAG
1 TACCCATCGTGTAAGTAATTAAAG
77349154 CTTCTATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (25 bp):
TACCCATCGTGTAAGTAATTAAAGA
Found at i:77351671 original size:28 final size:27
Alignment explanation
Indices: 77351595--77351683 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
77351585 GATATGACAT
* * *
77351595 TGTGCTATGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGAA
* *
77351622 --T-CTAGGTGAAATAAGTCAATGGTAA
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
77351647 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
77351675 TGTGCTAAG
1 TGTGCTAAG
77351684 CGAGAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 18 0.36
25 2 0.04
27 1 0.02
28 29 0.58
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGAA
Found at i:77351786 original size:51 final size:51
Alignment explanation
Indices: 77351710--77351909 Score: 330
Period size: 51 Copynumber: 3.9 Consensus size: 51
77351700 TGAACCTGAG
*
77351710 GAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
77351761 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCATTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
77351812 GAATAAAATAGCTTTGGACACAAATGTAGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
77351863 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
77351910 GTGTATCCAT
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 137 0.99
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:77356214 original size:42 final size:42
Alignment explanation
Indices: 77356097--77356214 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
77356087 CGGAAAGCTC
** *
77356097 GTACGATGCCAACGTCCCAGATGTGGTCTTACAAGTAATCAA
1 GTACGATGCCAACGTCCCAGACATGGTCTTACAAGAAATCAA
* * * * *
77356139 ATATCGATGCC-ACTATCCCAGACAGGGTTTTACACGAAATCAA
1 GTA-CGATGCCAAC-GTCCCAGACATGGTCTTACAAGAAATCAA
*
77356182 GTACGATGCCAACGTCCCAGGCATGGTCTTACA
1 GTACGATGCCAACGTCCCAGACATGGTCTTACA
77356215 TGATAACACA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
GTACGATGCCAACGTCCCAGACATGGTCTTACAAGAAATCAA
Found at i:77357309 original size:183 final size:183
Alignment explanation
Indices: 77357001--77357354 Score: 645
Period size: 183 Copynumber: 1.9 Consensus size: 183
77356991 CAATAGCCGA
* * *
77357001 TGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCGCTAAACTGAGTCACCGAA
1 TGTGACAGCCCAAAATTGACCCTAGCCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAA
* * *
77357066 ATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTC
66 AGGTTTGAATGTGATATTTATTGTCTAGAATATGTAATCATGAATGTGTAAAAATTTCAAGCTTC
77357131 GATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATGTGCGACATTTT
131 GATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATGTGCGACATTTT
77357184 TGTGACAGCCCAAAATTGACCCTAGCCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAA
1 TGTGACAGCCCAAAATTGACCCTAGCCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAA
*
77357249 AGGTTTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAATGTGTAAAAATTTCAAGCTTC
66 AGGTTTGAATGTGATATTTATTGTCTAGAATATGTAATCATGAATGTGTAAAAATTTCAAGCTTC
77357314 GATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTAT
131 GATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTAT
77357355 ATGAGAAAAT
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 164 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (183 bp):
TGTGACAGCCCAAAATTGACCCTAGCCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAA
AGGTTTGAATGTGATATTTATTGTCTAGAATATGTAATCATGAATGTGTAAAAATTTCAAGCTTC
GATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATGTGCGACATTTT
Found at i:77358971 original size:55 final size:54
Alignment explanation
Indices: 77358876--77359025 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
77358866 CTACTTTGTT
* ** * *
77358876 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
77358930 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
77358985 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
77359026 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:77358988 original size:27 final size:27
Alignment explanation
Indices: 77358848--77359025 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
77358838 TAAATTGTAC
77358848 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
77358875 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
77358901 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
77358929 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
77358957 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
77358984 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
77359011 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77359026 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:77358989 original size:82 final size:81
Alignment explanation
Indices: 77358849--77359004 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
77358839 AAATTGTACA
* * * *
77358849 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
77358914 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
77358930 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
77358993 TGTGCGAGTTGA
63 TGTGCGAATTGA
77359005 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:77386732 original size:28 final size:26
Alignment explanation
Indices: 77386669--77386741 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
77386659 ACTTTATTAG
77386669 TAATAA-ATTTTTAATTAAATATTTAA
1 TAATAATA-TTTTAATTAAATATTTAA
*
77386695 TAATAATATTTTAATTGATAATTTTTAA
1 TAATAATATTTTAATT-A-AATATTTAA
*
77386723 -AATTATTATTTTAATTAAA
1 TAA-TAATATTTTAATTAAA
77386742 AATAAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 16 0.39
27 5 0.12
28 20 0.49
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TAATAATATTTTAATTAAATATTTAA
Found at i:77390601 original size:46 final size:44
Alignment explanation
Indices: 77390542--77390656 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
77390532 ACAGGACAGA
* *
77390542 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
77390588 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
77390632 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
77390657 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:77390637 original size:44 final size:45
Alignment explanation
Indices: 77390542--77390675 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
77390532 ACAGGACAGA
* *
77390542 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
77390588 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
77390632 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
77390676 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:77397849 original size:23 final size:23
Alignment explanation
Indices: 77397821--77397867 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
77397811 TATTTATATC
77397821 ATATATTGATTAAATGAAATAAAAA
1 ATATA-TGATTAAAT-AAATAAAAA
*
77397846 ATATATTATTAAATAAATAAAA
1 ATATATGATTAAATAAATAAAA
77397868 TAATTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 8 0.38
25 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATATGATTAAATAAATAAAAA
Found at i:77408121 original size:94 final size:93
Alignment explanation
Indices: 77407971--77408189 Score: 269
Period size: 94 Copynumber: 2.3 Consensus size: 93
77407961 TGATTTGTGC
* * * *
77407971 GCCAGTGTAAGACATGTCTGGGACATGCTTCGCCATATTATGAGAGCCAAAGTAAGACTATGTAT
1 GCCAATGTAAGACATGTCTGGGACATGCATCGCCATACTATGAGAGCCAAAGTAAGACCATGTAT
77408036 GGGACATGGCATCGGCATC-CAGACGAGG
66 GGGACATGGCATCGGCA-CACAGACGAGG
* * * * * ** *
77408064 GCTAATGTAAGACATGTTTGGGATATGCATCAGCCATACTATGATAGTCAGTGTAAGACCATGTC
1 GCCAATGTAAGACATGTCTGGGACATGCATC-GCCATACTATGAGAGCCAAAGTAAGACCATGTA
* * *
77408129 TGGGACATGGCATCGGCACAGAGATGAGT
65 TGGGACATGGCATCGGCACACAGACGAGG
*
77408158 GCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GCCAATGTAAGACATGTCTGGGACATGCATCG
77408190 GCCTCGACAG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 28 0.27
94 77 0.73
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGCCATACTATGAGAGCCAAAGTAAGACCATGTAT
GGGACATGGCATCGGCACACAGACGAGG
Found at i:77408177 original size:47 final size:46
Alignment explanation
Indices: 77407971--77408192 Score: 191
Period size: 47 Copynumber: 4.8 Consensus size: 46
77407961 TGATTTGTGC
* ** *
77407971 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGT
** * * * *
77408016 GCCAAAGTAAGACTATGTATGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCATAC-GATGAGT
* * * * * *
77408064 GCTAATGTAAGACATGTTTGGGATATGCATCAGCCATACTATGA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGT
* *
77408109 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-GATGAGT
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CATACGATGAGT
77408158 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
77408193 TCGACAGAGA
Statistics
Matches: 140, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
45 12 0.09
46 38 0.27
47 48 0.34
48 38 0.27
49 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGT
Found at i:77408205 original size:33 final size:33
Alignment explanation
Indices: 77408167--77408235 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
77408157 TGCCAGTGTA
77408167 AGACATGTCTGGGACATGCATCGGCCTCGACAG
1 AGACATGTCTGGGACATGCATCGGCCTCGACAG
77408200 AGACATGTCTGGGACATGCATCGGCCTCGACAG
1 AGACATGTCTGGGACATGCATCGGCCTCGACAG
77408233 AGA
1 AGA
77408236 TAGCCAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.17
Consensus pattern (33 bp):
AGACATGTCTGGGACATGCATCGGCCTCGACAG
Found at i:77408256 original size:80 final size:79
Alignment explanation
Indices: 77408123--77408271 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 79
77408113 AGTGTAAGAC
* *
77408123 CATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATGCAT
1 CATGTCTGGGACATGGCATCGGCACAGAGATGAG-GCCAGTGTAAAACATGTCTGGGACACGCAT
77408188 CGGCCTCGACAGAGA
65 CGGCCTCGACAGAGA
*
77408203 CATGTCTGGGACAT-GCATCGGCCTCGACAGAGAT-A-GCCAGTGTAAAACGTGTCTGGGACACG
1 CATGTCTGGGACATGGCATCGG---C-ACAGAGATGAGGCCAGTGTAAAACATGTCTGGGACACG
*
77408265 TATCGGC
62 CATCGGC
77408272 TAAGAGTTGT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
79 7 0.11
80 44 0.72
82 2 0.03
83 8 0.13
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (79 bp):
CATGTCTGGGACATGGCATCGGCACAGAGATGAGGCCAGTGTAAAACATGTCTGGGACACGCATC
GGCCTCGACAGAGA
Found at i:77411449 original size:14 final size:15
Alignment explanation
Indices: 77411432--77411462 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
77411422 TAACTGTTGA
77411432 AAAAT-TAAGTATTG
1 AAAATGTAAGTATTG
77411446 AAAATGTAAGTATTG
1 AAAATGTAAGTATTG
77411461 AA
1 AA
77411463 TTTAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
AAAATGTAAGTATTG
Found at i:77413866 original size:24 final size:24
Alignment explanation
Indices: 77413834--77413882 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
77413824 CTTTACAAAC
77413834 CCTAGGTATTTAACTCACTTCTTT
1 CCTAGGTATTTAACTCACTTCTTT
77413858 CCTAGGTATTTAACTCACTTCTTT
1 CCTAGGTATTTAACTCACTTCTTT
77413882 C
1 C
77413883 TAATTAGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.08, T:0.45
Consensus pattern (24 bp):
CCTAGGTATTTAACTCACTTCTTT
Found at i:77415644 original size:40 final size:40
Alignment explanation
Indices: 77415585--77415660 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
77415575 ATGCATACTG
**
77415585 TATCTGAGATGGACTAAGGCCTTAATTTATATCTGAAACTA
1 TATCTGAGATGGACTAAGGCC-TAAACTATATCTGAAACTA
*
77415626 TATCTGA-ATGGGCTAAGGCCTAAACTATATCTGAA
1 TATCTGAGATGGACTAAGGCCTAAACTATATCTGAA
77415661 TCTGTAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 13 0.41
40 12 0.38
41 7 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (40 bp):
TATCTGAGATGGACTAAGGCCTAAACTATATCTGAAACTA
Found at i:77416546 original size:20 final size:20
Alignment explanation
Indices: 77416517--77416555 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
77416507 CTTTTACTCT
77416517 TCTTGCC-AAATCTTTGATAA
1 TCTTGCCAAAATC-TTGATAA
*
77416537 TCTTGTCAAAATCTTGATA
1 TCTTGCCAAAATCTTGATA
77416556 TAAATCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTTGCCAAAATCTTGATAA
Found at i:77420856 original size:20 final size:22
Alignment explanation
Indices: 77420817--77420859 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
77420807 GTTTATAATT
77420817 TTTTTTACAAATTATGTATTAA
1 TTTTTTACAAATTATGTATTAA
*
77420839 TTTTTTA-AACTTAT-TATTAA
1 TTTTTTACAAATTATGTATTAA
77420859 T
1 T
77420860 AAAATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTTACAAATTATGTATTAA
Found at i:77427164 original size:12 final size:12
Alignment explanation
Indices: 77427147--77427180 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
77427137 CGGCCTGCCC
77427147 ATATTAATTTTT
1 ATATTAATTTTT
*
77427159 ATATTATTTTTT
1 ATATTAATTTTT
77427171 ATA-TAATTTT
1 ATATTAATTTT
77427181 AAAATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:77427337 original size:30 final size:30
Alignment explanation
Indices: 77427301--77427361 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
77427291 CAATTTAGCA
*
77427301 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
77427331 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
77427361 A
1 A
77427362 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:77432201 original size:47 final size:47
Alignment explanation
Indices: 77432120--77432370 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
77432110 TAATTGAATA
* * *
77432120 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
77432168 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
77432215 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
77432262 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
77432309 AATGTGAGCATGTGTATGTGAGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
77432356 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
77432371 AATTGTGATA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:77432557 original size:37 final size:37
Alignment explanation
Indices: 77432501--77432580 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
77432491 CCGGACTCTA
* * *
77432501 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
77432538 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
77432575 AAGACT
1 AAGACT
77432581 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:77439351 original size:48 final size:48
Alignment explanation
Indices: 77439197--77439344 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
77439187 ATATATACAC
* **
77439197 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
77439245 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
77439293 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
77439341 ATCT
1 ATCT
77439345 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:77441697 original size:23 final size:23
Alignment explanation
Indices: 77441665--77441708 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
77441655 AAAATTTCAC
* *
77441665 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
77441688 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
77441709 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:77447484 original size:44 final size:42
Alignment explanation
Indices: 77447436--77447586 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 42
77447426 TATGTGTTTT
*
77447436 CGTGTAAGACCATGTCTGGGACATCGGTATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACAT-GGCATCGA-TTATGATTTA
*
77447480 CGTGTAAGACCATGTCTGGGACATTAGCATCGTATT-TGATTT-
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCG-ATTATGATTTA
* * *
77447522 CGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATATG-GTTA
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCGAT-TATGATTTA
* *
77447565 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
77447587 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 26 0.29
44 30 0.33
45 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATGGCATCGATTATGATTTA
Found at i:77447593 original size:43 final size:43
Alignment explanation
Indices: 77447436--77447594 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
77447426 TATGTGTTTT
* *
77447436 CGTGTAAGACCATGTCTGGGACATCGGTATCGACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TATATGA-TTA
* * *
77447480 CGTGTAAGACCATGTCTGGGACATTAGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * *
77447522 CGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATATGGTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * *
77447565 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
77447595 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 31 0.33
43 35 0.37
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
Found at i:77461066 original size:16 final size:16
Alignment explanation
Indices: 77461038--77461077 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
77461028 AATACTTCAG
77461038 TTTAAAA-TTTTAAAA
1 TTTAAAATTTTTAAAA
77461053 TTTAAAATTTTTAAAA
1 TTTAAAATTTTTAAAA
*
77461069 ATTAAAATT
1 TTTAAAATT
77461078 GCTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAATTTTTAAAA
Found at i:77462425 original size:25 final size:26
Alignment explanation
Indices: 77462387--77462436 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
77462377 AACACAATAT
77462387 AAACAATACATGTTGCT-TACTTTAAA
1 AAACAATACATGTTGCTATA-TTTAAA
*
77462413 AAAC-ATACCTGTTGCTATATTTAA
1 AAACAATACATGTTGCTATATTTAA
77462437 TTTATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (26 bp):
AAACAATACATGTTGCTATATTTAAA
Found at i:77464062 original size:5 final size:5
Alignment explanation
Indices: 77464052--77464081 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
77464042 ATTTACCTCT
77464052 TACCA TACCA TACCA TACCA TACCA TACCA
1 TACCA TACCA TACCA TACCA TACCA TACCA
77464082 CGACCACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
TACCA
Found at i:77464475 original size:21 final size:21
Alignment explanation
Indices: 77464430--77464476 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
77464420 TTAGTAAATA
*
77464430 TAAAATTACATTTTGACCCTT
1 TAAAATTACATTTTCACCCTT
*
77464451 TAAAATTTCATTTTCA-CCTT
1 TAAAATTACATTTTCACCCTT
77464471 CTAAAA
1 -TAAAA
77464477 AATATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTACATTTTCACCCTT
Found at i:77464809 original size:18 final size:19
Alignment explanation
Indices: 77464786--77464822 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
77464776 ATGTACATAC
77464786 CAAAATTTCGTATT-ATAT
1 CAAAATTTCGTATTGATAT
77464804 CAAAATTTCGTATTGATAT
1 CAAAATTTCGTATTGATAT
77464823 AATACGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
CAAAATTTCGTATTGATAT
Found at i:77468253 original size:27 final size:27
Alignment explanation
Indices: 77468223--77468274 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
77468213 ATACAATATA
* *
77468223 AATATTCAAAATTTTCATTTATACCAT
1 AATATCCAAAATTTTAATTTATACCAT
*
77468250 AATATCCACAATTTTAATTTATACC
1 AATATCCAAAATTTTAATTTATACC
77468275 TAAGTAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATCCAAAATTTTAATTTATACCAT
Found at i:77471347 original size:12 final size:12
Alignment explanation
Indices: 77471330--77471356 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
77471320 TAAGATGGTT
77471330 TAATAAAAAAAC
1 TAATAAAAAAAC
77471342 TAATAAAAAAAC
1 TAATAAAAAAAC
77471354 TAA
1 TAA
77471357 CCAAACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (12 bp):
TAATAAAAAAAC
Found at i:77477758 original size:16 final size:18
Alignment explanation
Indices: 77477732--77477764 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77477722 TAGAATTGGG
77477732 TTGAGAAAATT-ATTAAA
1 TTGAGAAAATTAATTAAA
77477749 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
77477765 TTAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TTGAGAAAATTAATTAAA
Found at i:77478586 original size:30 final size:30
Alignment explanation
Indices: 77478513--77478588 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
77478503 TAGTGAGTAA
* *
77478513 GTTGCTCACACAAGCTGACATTATATAAGG
1 GTTGCTCACACAAGCTGAAATCATATAAGG
* * *
77478543 GTTACTCATACAAGCTGAAATCGTATCAA-G
1 GTTGCTCACACAAGCTGAAATCATAT-AAGG
*
77478573 GTTGCTCAGACAAGCT
1 GTTGCTCACACAAGCT
77478589 AACTTATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGAAATCATATAAGG
Found at i:77484839 original size:13 final size:13
Alignment explanation
Indices: 77484819--77484851 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
77484809 TCATTTGATG
77484819 AAAT-AATTTTAT
1 AAATAAATTTTAT
77484831 AAATAAATTTTAT
1 AAATAAATTTTAT
77484844 AATATAAA
1 AA-ATAAA
77484852 ATATTTTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAT
Found at i:77488088 original size:36 final size:36
Alignment explanation
Indices: 77488041--77488139 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
77488031 TGCTGCAGGT
* *
77488041 GCTGGAGGAGGCTGCAATGGGTCTGGAACTAGTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
77488077 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
* *
77488113 GCTGGTGGCGGCTGAAATGGGTTTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGA
77488140 GGGAGCGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.19, C:0.12, G:0.45, T:0.23
Consensus pattern (36 bp):
GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
Found at i:77488194 original size:15 final size:15
Alignment explanation
Indices: 77488173--77488227 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
77488163 CGGGTTTGGA
77488173 GGAAGAATGGGCGGC
1 GGAAGAATGGGCGGC
* * *
77488188 GGTAGAAGTGGGTTTGGA
1 GGAAGAA-TGGG--CGGC
77488206 GGAAGAATGGGCGGC
1 GGAAGAATGGGCGGC
77488221 GGAAGAA
1 GGAAGAA
77488228 GCTGGTTGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.29, C:0.07, G:0.51, T:0.13
Consensus pattern (15 bp):
GGAAGAATGGGCGGC
Found at i:77488195 original size:33 final size:33
Alignment explanation
Indices: 77488158--77488234 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
77488148 TGGGGGTGGC
*
77488158 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGT
1 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
*
77488191 AGAAGTGGGTTTGGAGGAAGAATGGGCGGCGGA
1 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
*
77488224 AGAAGCTGGTT
1 AGAAGCGGGTT
77488235 GGGATGAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.26, C:0.08, G:0.49, T:0.17
Consensus pattern (33 bp):
AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
Found at i:77488212 original size:18 final size:17
Alignment explanation
Indices: 77488164--77488216 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
77488154 TGGCAGAAGC
77488164 GGGTTTGGAGGAAGAAT
1 GGGTTTGGAGGAAGAAT
* * *
77488181 GGG--CGGCGGTAGAAGT
1 GGGTTTGGAGGAAGAA-T
77488197 GGGTTTGGAGGAAGAAT
1 GGGTTTGGAGGAAGAAT
77488214 GGG
1 GGG
77488217 CGGCGGAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 7 0.26
18 8 0.30
ACGTcount: A:0.25, C:0.04, G:0.53, T:0.19
Consensus pattern (17 bp):
GGGTTTGGAGGAAGAAT
Found at i:77492032 original size:27 final size:26
Alignment explanation
Indices: 77491988--77492042 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
77491978 TTCAATATAT
* *
77491988 ATATTAAAATTCTTTATTTATTTAAAA
1 ATATTAAAATTCTATATTT-TTGAAAA
77492015 ATATTAAAA-TCTAATATTTTTGAAAA
1 ATATTAAAATTCT-ATATTTTTGAAAA
77492041 AT
1 AT
77492043 GGATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATTAAAATTCTATATTTTTGAAAA
Found at i:77492069 original size:21 final size:21
Alignment explanation
Indices: 77492027--77492083 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
77492017 ATTAAAATCT
**
77492027 AATATTTTTGAAAAATGGATTTA
1 AATATTTTT--AAAATCAATTTA
77492050 AATATTTTTAAAATCAATTTA
1 AATATTTTTAAAATCAATTTA
* *
77492071 AATACTATTAAAA
1 AATATTTTTAAAA
77492084 ATGAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 21 0.70
23 9 0.30
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (21 bp):
AATATTTTTAAAATCAATTTA
Found at i:77493460 original size:249 final size:249
Alignment explanation
Indices: 77492759--77493470 Score: 1033
Period size: 247 Copynumber: 2.9 Consensus size: 249
77492749 GCGTTAGAGC
* * * * **
77492759 CCTTCCCACAAGACCCAAGTTTTAGCCCTTCTTTTTTTTTTTAATTTTGTAAATTTTTGGCAAAA
1 CCTTCCCACAAGACCCAAGTTTGATCCC-TCATTTTCTTTTTAA-TTCATAAATTTTTGGCAAAA
* * ** ** * * * *
77492824 ATGTCCCAATATATATATACGATTAAGTGCCAAAAATAAATAATAAATGAGCTATAGGCTCAATG
64 ACGCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGTTATACGCTCAATG
* * * ** * *
77492889 GTTAAATGTTAGTGCCTTCTTCTTAAAGGTAC-ATGGTTCAAATCTC-TCTCTTTTCATTATTTC
129 GTTAAATGTTAGTGCCTT-TTCCTAGAGGT-CTAAGGTTTGAATCCCTTC-CCTTTCATTATTTC
*
77492952 TAATTTTTTGGAA-AA-CCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAAATTTAA
191 TAA-TTTTT-CAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAAATTTAA
*
77493011 CCTTTCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
1 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
77493076 GCCCC-A-ATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGTTATACGCTCAATGGT
66 GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGTTATACGCTCAATGGT
* *
77493139 TAAACGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTCCCCTTTCATTATTTCTAATT
131 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTTCCCTTTCATTATTTCTAATT
77493204 TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGT-AAATTGTAA
196 TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAAATT-TAA
77493258 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
1 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
* * *
77493323 GCCCCAATATATATATACGATTAAGTGCTTGAAACAAGCAAGAAATAAGTTATATGCTCAATGGT
66 GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGTTATACGCTCAATGGT
77493388 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTTCCCTTTCATTATTTCTAATT
131 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTTCCCTTTCATTATTTCTAATT
77493453 TTTCAACAAGCCCTTAAT
196 TTTCAACAAGCCCTTAAT
77493471 CCTAGCCTTA
Statistics
Matches: 420, Mismatches: 33, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
245 2 0.00
246 13 0.03
247 142 0.34
248 66 0.16
249 136 0.32
250 23 0.05
251 13 0.03
252 25 0.06
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (249 bp):
CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGTTATACGCTCAATGGT
TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTTCCCTTTCATTATTTCTAATT
TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAAATTTAA
Found at i:77503059 original size:16 final size:16
Alignment explanation
Indices: 77503032--77503071 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
77503022 TCTGTCCATC
77503032 TTTCTATTTC-TTCTCTT
1 TTTCT-TTTCTTTC-CTT
77503049 TTTCTTTTCTTTCCTT
1 TTTCTTTTCTTTCCTT
77503065 TTTCTTT
1 TTTCTTT
77503072 ACACAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTCCTT
Found at i:77504049 original size:34 final size:35
Alignment explanation
Indices: 77503972--77504055 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 35
77503962 CGAATACATG
* * *
77503972 ATAAACATGAC-TTTTGCTACTGCATTGATCTGTC
1 ATAAACATGTCATATTGCTACTACATTGATCTGTC
* *
77504006 ATAAACATGTC-TATTGCTACTATATTGATCTGTT
1 ATAAACATGTCATATTGCTACTACATTGATCTGTC
*
77504040 ATAATCATGTCATATT
1 ATAAACATGTCATATT
77504056 ACACTGCATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (35 bp):
ATAAACATGTCATATTGCTACTACATTGATCTGTC
Found at i:77505135 original size:11 final size:11
Alignment explanation
Indices: 77505106--77505148 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
77505096 AATTATAAAC
77505106 ATATTTAAATA
1 ATATTTAAATA
*
77505117 ATAATTAAATA
1 ATATTTAAATA
* *
77505128 ATGTTTAAAAA
1 ATATTTAAATA
77505139 CATATTTAAA
1 -ATATTTAAA
77505149 ATACCTTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATTTAAATA
Found at i:77506180 original size:17 final size:18
Alignment explanation
Indices: 77506158--77506193 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
77506148 ATACTATATT
77506158 TAATAAAATT-ATTTTTA
1 TAATAAAATTAATTTTTA
77506175 TAATAAAATTAATTTTTA
1 TAATAAAATTAATTTTTA
77506193 T
1 T
77506194 GATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAAAATTAATTTTTA
Found at i:77506451 original size:15 final size:15
Alignment explanation
Indices: 77506428--77506483 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
77506418 AAAACATAAC
*
77506428 TAATTTTAATTAAAA
1 TAATATTAATTAAAA
*
77506443 TAATATTAAATAAAA
1 TAATATTAATTAAAA
*
77506458 TAATAATAATTAATAA
1 TAATATTAATTAA-AA
77506474 TAAT-TTAATT
1 TAATATTAATT
77506484 TTATATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 29 0.83
16 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATATTAATTAAAA
Found at i:77515932 original size:23 final size:23
Alignment explanation
Indices: 77515901--77515957 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
77515891 TATAAAATCT
*
77515901 AATAGAAATAAG-CTTAAAGAAAA
1 AATAAAAATAAGTCTTAAA-AAAA
* * *
77515924 AATAAAAATTAGTCTTAAAATAG
1 AATAAAAATAAGTCTTAAAAAAA
77515947 AATAAAAATAA
1 AATAAAAATAA
77515958 AAACATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.23
Consensus pattern (23 bp):
AATAAAAATAAGTCTTAAAAAAA
Found at i:77522889 original size:41 final size:41
Alignment explanation
Indices: 77522812--77522942 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
77522802 AAACACATCT
* * *
77522812 TTTTCATTCGTTAT-CTTTTCCGG-TAAACATCATTTTCAACC
1 TTTTCATTTGTTATCCTTTT-CGGAT-AACTTCCTTTTCAACC
**
77522853 TTTTCATTTGTTATCCTTTTCGGATAACTTCCTTTTCAAAA
1 TTTTCATTTGTTATCCTTTTCGGATAACTTCCTTTTCAACC
* * * * * *
77522894 TTTTCATATATTATCCTTTTTGAATAAATTTCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCGGATAACTTCCTTTTCAACC
77522935 TTTTCATT
1 TTTTCATT
77522943 GATTTGGAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
41 68 0.92
42 6 0.08
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTCATTTGTTATCCTTTTCGGATAACTTCCTTTTCAACC
Found at i:77533869 original size:26 final size:26
Alignment explanation
Indices: 77533816--77533889 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
77533806 ATGAAAATAA
*
77533816 AAATCAAAAGAAAAATAAGAATAAAAT
1 AAAT-AAAAGAAAAATAAAAATAAAAT
*
77533843 ACATAAAAG-AAAATAAAAATAAGAAT
1 AAATAAAAGAAAAATAAAAATAA-AAT
*
77533869 AAATAAAAATAAAAATAAAAA
1 AAAT-AAAAGAAAAATAAAAA
77533890 AAATTGGAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 12 0.30
26 11 0.28
27 7 0.17
28 10 0.25
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (26 bp):
AAATAAAAGAAAAATAAAAATAAAAT
Found at i:77533878 original size:6 final size:6
Alignment explanation
Indices: 77533804--77533889 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
77533794 GAGAAAATTG
* * * *
77533804 AAATGA AAATAA AAATCA AAAGAA AAATAA GAAT-A AAATACA TAAA-AGA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A -AAATA-A
*
77533853 AAATAA AAATAA GAAT-- AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
77533890 AAATTGGAGG
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.05
5 4 0.06
6 50 0.78
7 4 0.06
8 3 0.05
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:77533892 original size:31 final size:32
Alignment explanation
Indices: 77533804--77533893 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 32
77533794 GAGAAAATTG
*
77533804 AAATGAAAATAAAAATCAAAAGAAAAATAAGAAT
1 AAATAAAAATAAAAAT--AAAGAAAAATAAGAAT
* * *
77533838 AAA-ATACATAAAAGA-AAATAAAAATAAGAAT
1 AAATAAAAATAAAA-ATAAAGAAAAATAAGAAT
77533869 AAATAAAAATAAAAATAAA-AAAAAT
1 AAATAAAAATAAAAATAAAGAAAAAT
77533894 TGGAGGATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
31 25 0.53
32 11 0.23
33 7 0.15
34 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.16
Consensus pattern (32 bp):
AAATAAAAATAAAAATAAAGAAAAATAAGAAT
Found at i:77538767 original size:13 final size:13
Alignment explanation
Indices: 77538745--77538777 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77538735 AAGGGTTTGT
77538745 TTAT-TAAACTAA
1 TTATCTAAACTAA
77538757 TTATCTAAACTAA
1 TTATCTAAACTAA
*
77538770 TTAACTAA
1 TTATCTAA
77538778 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:77541407 original size:10 final size:10
Alignment explanation
Indices: 77541392--77541423 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
77541382 TAAATACATT
77541392 TAATTAAAGA
1 TAATTAAAGA
77541402 TAATTAAAGA
1 TAATTAAAGA
77541412 TAATTAAA-A
1 TAATTAAAGA
77541421 TAA
1 TAA
77541424 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:77541435 original size:19 final size:18
Alignment explanation
Indices: 77541411--77541454 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
77541401 ATAATTAAAG
77541411 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
77541431 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
77541448 ATAATTA
1 ATAATTA
77541455 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:77541469 original size:15 final size:15
Alignment explanation
Indices: 77541449--77541478 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77541439 ATAATCCTAA
*
77541449 TAATTATCTTAATAT
1 TAATTATCCTAATAT
77541464 TAATTATCCTAATAT
1 TAATTATCCTAATAT
77541479 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:77559648 original size:36 final size:36
Alignment explanation
Indices: 77559583--77559703 Score: 161
Period size: 36 Copynumber: 3.4 Consensus size: 36
77559573 TCCCAGTTTT
* * * * *
77559583 TGGTGTGTTTTAGTTGTATTAACTCTTATGAGCATC
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
* *
77559619 TGGTGTGTTTCAGATGGATTAGCTTTTATGATCATT
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
* *
77559655 TGGTGTGTTTCAGATAGATTAGCTTTTATGTGCATC
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
77559691 TGGTGTGTTTCAG
1 TGGTGTGTTTCAG
77559704 GTGTACCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (36 bp):
TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
Found at i:77559720 original size:72 final size:72
Alignment explanation
Indices: 77559581--77559721 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 72
77559571 ACTCCCAGTT
* * ** *
77559581 TTTGGTGTGTTTTAGTTGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGATTAGCTTTT
1 TTTGGTGTGTTTCAGTAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCTT
77559646 ATGATCA
66 ATGATCA
* * * * *
77559653 TTTGGTGTGTTTCAGATAG-ATTAGCTTTTATGTGCATCTGGTGTGTTTCAGGTGTACCAGCTCT
1 TTTGGTGTGTTTCAG-TAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCT
77559717 TATGA
65 TATGA
77559722 CCACTAGTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 56 0.97
73 2 0.03
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.45
Consensus pattern (72 bp):
TTTGGTGTGTTTCAGTAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCTT
ATGATCA
Found at i:77561568 original size:19 final size:20
Alignment explanation
Indices: 77561546--77561587 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
77561536 TTGTAATTAT
77561546 TTGAAATAAATG-TATATAA
1 TTGAAATAAATGATATATAA
* *
77561565 TTG-AGTAATTGATATATAA
1 TTGAAATAAATGATATATAA
77561584 TTGA
1 TTGA
77561588 GTAATTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (20 bp):
TTGAAATAAATGATATATAA
Found at i:77561588 original size:19 final size:19
Alignment explanation
Indices: 77561558--77561596 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
77561548 GAAATAAATG
77561558 TATATAATTGAGTAATTGA
1 TATATAATTGAGTAATTGA
77561577 TATATAATTGAGTAATTGA
1 TATATAATTGAGTAATTGA
77561596 T
1 T
77561597 CTACCTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TATATAATTGAGTAATTGA
Found at i:77561778 original size:26 final size:24
Alignment explanation
Indices: 77561739--77561834 Score: 75
Period size: 24 Copynumber: 3.9 Consensus size: 24
77561729 GGACTCACCA
* *
77561739 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACCG-T-TAC
* *
77561765 CAGCTCGTAAGAGCTTTCTGTTAC
1 CAGCTCGTAAGAGCTTACCGTTAC
* * **
77561789 CAGCTTGTAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACCGTTAC
* * *
77561813 CAGCTTGTTAGAGCTAACCGTT
1 CAGCTCGTAAGAGCTTACCGTT
77561835 TTAGCTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 41 0.69
25 1 0.02
26 17 0.29
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCGTTAC
Found at i:77561798 original size:24 final size:24
Alignment explanation
Indices: 77561765--77561827 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
77561755 ACCGATATAT
* *
77561765 CAGCTCGTAAGAGCTTTCTGTTAC
1 CAGCTTGTAAGAGCTTACTGTTAC
**
77561789 CAGCTTGTAAGAGCTTACTGTTTT
1 CAGCTTGTAAGAGCTTACTGTTAC
*
77561813 CAGCTTGTTAGAGCT
1 CAGCTTGTAAGAGCT
77561828 AACCGTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (24 bp):
CAGCTTGTAAGAGCTTACTGTTAC
Found at i:77561835 original size:24 final size:24
Alignment explanation
Indices: 77561789--77561840 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
77561779 TTTCTGTTAC
* *
77561789 CAGCTTGTAAGAGCTTACTGTTTT
1 CAGCTTGTAAGAGCTAACCGTTTT
*
77561813 CAGCTTGTTAGAGCTAACCGTTTT
1 CAGCTTGTAAGAGCTAACCGTTTT
77561837 -AGCT
1 CAGCT
77561841 CAATAGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
CAGCTTGTAAGAGCTAACCGTTTT
Found at i:77563415 original size:171 final size:176
Alignment explanation
Indices: 77563130--77563634 Score: 634
Period size: 171 Copynumber: 2.9 Consensus size: 176
77563120 ACACATGAGT
*
77563130 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGGGTGTGTGTATTGGTTGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACAC-GGTGTGTGTATTGGTCGTGTGACCCA
* * *
77563195 AGTCAAAGAGTTACACGGGGTAGGACATGGGCTAGGACACGACCATGTGCTCTTATTTCGAATGT
65 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
* *
77563260 CCACACGGCCTATGACACGGGCGTGT-TC-C-TGG-C-ACACGC-GC
130 CCACACGGCCTATGACACGGGCGTGTGACACATGGCCGACACACAGC
* * * *
77563301 GTTTATGGACATTTTTAGGGCACACGGGCCAGCCAAACAGGTGTGTGTGTTGGTCGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACAC-GGTGTGTGTATTGGTCGTGTGACCCA
77563366 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
65 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
* *
77563431 CCACACGAG-C-GTGTCTA-GTGGCCGTGTGAGACACATGGCCTGACACACTAGC
130 CCACACG-GCCTATGAC-ACG-GG-CGTGT--GACACATGGCC-GACACAC-AGC
* *
77563483 ATTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGAGTGTGTGTATTGCTCGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACG-GTGTGTGTATTGGTCGTGTGACCCA
* * * * * * *
77563548 AGTCAGAGAGTTACATGGGGTA-GACCATAGGATGGGACATGACCATGTACTCCCATTTCAAATG
65 AGTCAGAGAGTTACACGGGGTAGGA-CATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATG
*
77563612 TCCACATGGCCTATGACACGGGC
129 TCCACACGGCCTATGACACGGGC
77563635 ATGTCTAGTG
Statistics
Matches: 286, Mismatches: 29, Indels: 28
0.83 0.08 0.08
Matches are distributed among these distances:
170 4 0.01
171 132 0.46
172 6 0.02
175 1 0.00
176 1 0.00
177 3 0.01
178 1 0.00
180 5 0.02
181 5 0.02
182 124 0.43
183 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (176 bp):
GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGGTGTGTGTATTGGTCGTGTGACCCAA
GTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGTC
CACACGGCCTATGACACGGGCGTGTGACACATGGCCGACACACAGC
Found at i:77565045 original size:24 final size:24
Alignment explanation
Indices: 77565018--77565074 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
77565008 GAAAATAAAA
77565018 ATAAATAAAGAAAAT-AAAAAATAT
1 ATAAATAAAGAAAATCAAAAAAT-T
* * *
77565042 ATAAATATATAAATTCAAAAAATT
1 ATAAATAAAGAAAATCAAAAAATT
*
77565066 AAAAATAAA
1 ATAAATAAA
77565075 TAGGGCTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
ATAAATAAAGAAAATCAAAAAATT
Found at i:77565073 original size:28 final size:26
Alignment explanation
Indices: 77564988--77565076 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 26
77564978 AAATAAAATG
*
77564988 AAATGAAATATATAAATCTAGAAAATAA
1 AAAT-AAATATATAAATC-AAAAAATAA
* *
77565016 AAATAAATAAAGAAAAT-AAAAAAT--
1 AAATAAATATA-TAAATCAAAAAATAA
*
77565040 ATATAAATATATAAATTCAAAAAATTAA
1 AAATAAATATATAAA-TCAAAAAA-TAA
77565068 AAATAAATA
1 AAATAAATA
77565077 GGGCTTGGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.06
24 10 0.21
25 6 0.12
26 7 0.15
27 6 0.12
28 16 0.33
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATAAATATATAAATCAAAAAATAA
Found at i:77565506 original size:12 final size:11
Alignment explanation
Indices: 77565477--77565505 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
77565467 TGTGGACCCC
77565477 TTTTTTTGAAT
1 TTTTTTTGAAT
77565488 TTTTTTTGAAT
1 TTTTTTTGAAT
77565499 TTTTTTT
1 TTTTTTT
77565506 TCAAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:77571008 original size:25 final size:25
Alignment explanation
Indices: 77570944--77571058 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
77570934 TCATGTACAT
* *
77570944 GTATGCTCATACGAGCTGT-GAATCA
1 GTATGCTCTTACGAGCTATAG-ATCA
* *
77570969 GTATGCTCACT-CGAGCTATAGATTA
1 GTATGCTC-TTACGAGCTATAGATCA
*
77570994 GTATGCTCTTACGAGCTATA-ATTCG
1 GTATGCTCTTACGAGCTATAGA-TCA
* * *
77571019 GTATACTCTCACGAGCTATAAATCA
1 GTATGCTCTTACGAGCTATAGATCA
* *
77571044 ATATGCTCTCACGAG
1 GTATGCTCTTACGAG
77571059 ATGTGGAGCA
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
24 2 0.03
25 69 0.93
26 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAGATCA
Found at i:77571034 original size:50 final size:50
Alignment explanation
Indices: 77570944--77571058 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 50
77570934 TCATGTACAT
* * * * * *
77570944 GTATGCTCATACGAGCTGTGAATCAGTATGCTCACTCGAGCTATAGATTA
1 GTATGCTCTTACGAGCTATGAATCAGTATACTCACACGAGCTATAAATCA
* *
77570994 GTATGCTCTTACGAGCTAT-AATTCGGTATACTCTCACGAGCTATAAATCA
1 GTATGCTCTTACGAGCTATGAA-TCAGTATACTCACACGAGCTATAAATCA
* *
77571044 ATATGCTCTCACGAG
1 GTATGCTCTTACGAG
77571059 ATGTGGAGCA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.04
50 52 0.96
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (50 bp):
GTATGCTCTTACGAGCTATGAATCAGTATACTCACACGAGCTATAAATCA
Found at i:77576280 original size:18 final size:18
Alignment explanation
Indices: 77576257--77576291 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
77576247 GCCTAAATAC
77576257 GGTCTGAAGATTTTGTTA
1 GGTCTGAAGATTTTGTTA
77576275 GGTCTGAAGATTTTGTT
1 GGTCTGAAGATTTTGTT
77576292 CACCAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.46
Consensus pattern (18 bp):
GGTCTGAAGATTTTGTTA
Found at i:77578848 original size:19 final size:19
Alignment explanation
Indices: 77578824--77578867 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
77578814 ATATCATAGC
77578824 AATAAACATATTAAAACTA
1 AATAAACATATTAAAACTA
77578843 AATAAACATATTAAAACTA
1 AATAAACATATTAAAACTA
*
77578862 AGTAAA
1 AATAAA
77578868 AACATACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAAACATATTAAAACTA
Found at i:77580394 original size:31 final size:31
Alignment explanation
Indices: 77580359--77580417 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
77580349 CAGTGAATGC
77580359 TTTGTAATATGTTATCTTATTAAATCTTATT
1 TTTGTAATATGTTATCTTATTAAATCTTATT
**
77580390 TTTGTTGTATGTTATCTTATTAAATCTT
1 TTTGTAATATGTTATCTTATTAAATCTT
77580418 GGGGGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.59
Consensus pattern (31 bp):
TTTGTAATATGTTATCTTATTAAATCTTATT
Found at i:77588987 original size:17 final size:17
Alignment explanation
Indices: 77588965--77589012 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
77588955 GATAAGTATA
77588965 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
* *
77588982 CATTGTCATTACATATT
1 CATTGTCATTGCATTTT
*
77588999 C-TTGTCAATGCATT
1 CATTGTCATTGCATT
77589013 GGGGAATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:77590102 original size:66 final size:66
Alignment explanation
Indices: 77589984--77590108 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 66
77589974 TTTTCTGTAC
* * * * *
77589984 TAATGTCACTACATGAGTTAATTCCAAATTGCGTCCGGAATTATCGCTGCAGTTGACAGATATCT
1 TAATGTCACTACATGAGTTAATTCCAAATGGCATCCAGAATTATCACCGCAGTTGACAGATATCT
77590049 G
66 G
* * * * *
77590050 TAATGTCACTGCATGAGTTAATTCCAGATGGCATTCAGAATTGTTACCGCAGTTGACAG
1 TAATGTCACTACATGAGTTAATTCCAAATGGCATCCAGAATTATCACCGCAGTTGACAG
77590109 TTGTCTGATA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (66 bp):
TAATGTCACTACATGAGTTAATTCCAAATGGCATCCAGAATTATCACCGCAGTTGACAGATATCT
G
Found at i:77605007 original size:20 final size:20
Alignment explanation
Indices: 77604978--77605026 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
77604968 CACGCCCGTT
* *
77604978 TGTGCACAGGGACATGCCCG
1 TGTGCCCAGGGACAAGCCCG
77604998 TGTGCCCA-GGACAAGCCCG
1 TGTGCCCAGGGACAAGCCCG
*
77605017 TGTCCCCAGG
1 TGTGCCCAGG
77605027 CCGTGTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.14
Consensus pattern (20 bp):
TGTGCCCAGGGACAAGCCCG
Found at i:77606970 original size:49 final size:49
Alignment explanation
Indices: 77606910--77607039 Score: 172
Period size: 49 Copynumber: 2.7 Consensus size: 49
77606900 CATCAAAGTT
* *
77606910 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCAATATC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAATATC
* * * ** *
77606959 GATGCCGTGTCCCA-ACCAGGTCTTACACTGGCTCTCATCTATCGGTGTC
1 GATGCCATGTCCCAGA-CAGGTCTTACACTGACTCTCATATATCAATATC
77607008 GATGCCATGTCCCAGACAGGTCTTACACTGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTGAC
77607040 ACACAACAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 67 0.97
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAATATC
Found at i:77612543 original size:49 final size:49
Alignment explanation
Indices: 77612473--77612708 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
77612463 TAAGGTCATG
*
77612473 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * *
77612522 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT--TCGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCG-CA
* * ** * * *
77612570 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGTTCACG
1 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCGCA
* *
77612621 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* *
77612670 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
77612709 GCTTTGGCTA
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.02
48 1 0.01
49 112 0.72
50 38 0.24
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:77612660 original size:99 final size:96
Alignment explanation
Indices: 77612472--77612708 Score: 294
Period size: 99 Copynumber: 2.4 Consensus size: 96
77612462 GTAAGGTCAT
* *
77612472 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
*
77612537 GCAGGCTACTATGCGTACCCGATAACTTCGATA
66 GCAGGCTACTACGCGTACCCGATAA-TT-GATA
* * ** * *
77612570 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGTTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
* * * *
77612635 TGCAGGCTACTACGTGTACCGGATAATTGGTC
65 TGCAGGCTACTACGCGTACCCGATAATTGATA
* *
77612667 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 G--TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATA
77612709 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
97 3 0.03
98 40 0.34
99 75 0.64
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (96 bp):
GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAATTGATA
Found at i:77612752 original size:148 final size:147
Alignment explanation
Indices: 77612472--77612754 Score: 383
Period size: 148 Copynumber: 1.9 Consensus size: 147
77612462 GTAAGGTCAT
* *
77612472 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
* * * * * *
77612537 GCAGGCTACTATGCGTACCCGATAACTTCGATAGTGTGTAGTACTAAGTGCAGGCTACTACGTGT
66 GCAGGCTACTATGCGTACCAGATAACTTCGAAAGTGTGTAGAAATAAGTGCAGGCAACTA-GAGT
77612602 ATCAGATGGTTAGTTCAC
130 ATCAGATGGTTAGTTCAC
*
77612620 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
* * * *
77612685 GTAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAGGCAACT-G
66 GCAGGCTACTATGCGTACCAGATAAC-TT--CGA-AAGTGTGTAGAAATAAGTGCAGGCAACTAG
77612747 AGTATCAG
127 AGTATCAG
77612755 TTATTATTCC
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
148 93 0.79
149 2 0.02
150 14 0.12
151 3 0.03
152 6 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (147 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCAGATAACTTCGAAAGTGTGTAGAAATAAGTGCAGGCAACTAGAGTA
TCAGATGGTTAGTTCAC
Found at i:77616762 original size:243 final size:242
Alignment explanation
Indices: 77616328--77616805 Score: 796
Period size: 243 Copynumber: 2.0 Consensus size: 242
77616318 AGGCCTAAGG
*
77616328 TTGAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCGATAATGGTT
1 TTGAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCAATAATGGTT
*
77616393 GCTAGATTGCAACACGGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGAC
66 GCTAGATTGCAACACAGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGAC
*
77616458 TACCTTCAATATCATGACACAGCCTAAGGATGTCATGAAATACCCCTGAAGACAACAAGAAACTT
131 TACCTTCAATATCATGACACAGCCTAAAGATGTCATGAAATACCCCTGAAGACAACAAGAAACTT
* *
77616523 AGCATATTGCCCTCAATGTCACGACACAGGACTTGGTGTGTCACGACA
196 AACATATTGCCCTCAATGTCA-GACACAAGACTTGGTGTGTCACGACA
77616571 TTGAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCAATAATGGTT
1 TTGAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCAATAATGGTT
* * * * **
77616636 GCTAGGTTGCAACACAGAGCATGGGATTTCGCAACTTAAGG-AGAAGAATTTGAAAAATCCAAGA
66 GCTAGATTGCAACACAGAGCATGGGATGTCACAACAT-AGGAAGAAGAATCAGAAAAATCCAAGA
* * * *
77616700 CTACCTTTAATGTCATGACACAGCCTAAAGATGTCGTGAAATACCCCTGAAGACATCAAGAAACT
130 CTACCTTCAATATCATGACACAGCCTAAAGATGTCATGAAATACCCCTGAAGACAACAAGAAACT
77616765 TAACATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGT
195 TAACATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGT
77616806 TGTGACATTG
Statistics
Matches: 219, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
242 18 0.08
243 198 0.90
244 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (242 bp):
TTGAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCAATAATGGTT
GCTAGATTGCAACACAGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGAC
TACCTTCAATATCATGACACAGCCTAAAGATGTCATGAAATACCCCTGAAGACAACAAGAAACTT
AACATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGTCACGACA
Found at i:77624123 original size:41 final size:41
Alignment explanation
Indices: 77624078--77624193 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
77624068 TCATTTGTTG
* * *
77624078 TCCTTTTTGGATAACATCCTTTCCAACCTTTTCATTTAATA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
77624119 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
* *
77624160 TCCTTTCTGGATAACGTCCTTTTCACCCTTTTCA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCA
77624194 CTGATTCGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.45
Consensus pattern (41 bp):
TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
Found at i:77643452 original size:42 final size:42
Alignment explanation
Indices: 77643348--77643500 Score: 100
Period size: 43 Copynumber: 3.6 Consensus size: 42
77643338 TGAGATATCG
* * * *
77643348 TGTAAGACCATGTCTGGGACA-CAAGCCTCGAT-TGAGATTTACA
1 TGTAAGACCCTGTCTGGGACATC-GGCATCGATAT-TGATTT-CA
* * *
77643391 TATAAGGCCGTGTCT-GGACATCGGCATCG-TATCTGATTTCA
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATAT-TGATTTCA
** * *
77643432 TGTAAGACCCTGTCTGGGACAAAGGTATCGATATTGAATTACA
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATATTG-ATTTCA
* *
77643475 TGTAAGACCAC-GTCCGAGACATCGGC
1 TGTAAGACC-CTGTCTGGGACATCGGC
77643501 GTTGTACTTG
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
41 15 0.18
42 29 0.34
43 40 0.47
44 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATCGGCATCGATATTGATTTCA
Found at i:77649226 original size:11 final size:11
Alignment explanation
Indices: 77649210--77649235 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
77649200 AAAATTGAAG
77649210 TTAAAAAACTT
1 TTAAAAAACTT
77649221 TTAAAAAACTT
1 TTAAAAAACTT
77649232 TTAA
1 TTAA
77649236 TTAATGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAAAACTT
Found at i:77650777 original size:26 final size:26
Alignment explanation
Indices: 77650741--77650876 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
77650731 CATGAAATTC
* *
77650741 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* * *
77650767 TTATCATGAAACATTTACCAAACCCA
1 TTATCATGGAACATTTACCTAACCTA
77650793 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
77650819 TTATCATGGAACATTTACCCAACTTA
1 TTATCATGGAACATTTACCTAACCTA
77650845 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
77650871 TTATCA
1 TTATCA
77650877 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:77652283 original size:22 final size:22
Alignment explanation
Indices: 77652255--77652304 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
77652245 TCACGTTTTT
*
77652255 GCAACATTGTTGAAATGCTTTC
1 GCAACATTGTTGAAATGCTTCC
77652277 GCAACATTGTTGAAATGCTTCC
1 GCAACATTGTTGAAATGCTTCC
77652299 GCAACA
1 GCAACA
77652305 AACATGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (22 bp):
GCAACATTGTTGAAATGCTTCC
Found at i:77653373 original size:24 final size:24
Alignment explanation
Indices: 77653346--77653391 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
77653336 TCAAGGAATG
*
77653346 GATTATGGAGAAAATCAAGGAGCA
1 GATTAGGGAGAAAATCAAGGAGCA
* * *
77653370 GATTGGGGAGGAAATCATGGAG
1 GATTAGGGAGAAAATCAAGGAG
77653392 GGATTTTAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.37, T:0.17
Consensus pattern (24 bp):
GATTAGGGAGAAAATCAAGGAGCA
Found at i:77672068 original size:25 final size:25
Alignment explanation
Indices: 77672033--77672084 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
77672023 TTTATAGGCT
*
77672033 TTGGAATGCCTAAGAACCCTCAAAA
1 TTGGAACGCCTAAGAACCCTCAAAA
*
77672058 TTGGAACGCCTAAGAACCCTTAAAA
1 TTGGAACGCCTAAGAACCCTCAAAA
77672083 TT
1 TT
77672085 AGCCTTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (25 bp):
TTGGAACGCCTAAGAACCCTCAAAA
Found at i:77674362 original size:16 final size:16
Alignment explanation
Indices: 77674341--77674373 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77674331 TCACGTTTTC
77674341 AAATCAATTTAACATA
1 AAATCAATTTAACATA
*
77674357 AAATCAATTTAATATA
1 AAATCAATTTAACATA
77674373 A
1 A
77674374 CATTGATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATCAATTTAACATA
Found at i:77677644 original size:13 final size:13
Alignment explanation
Indices: 77677626--77677650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77677616 GAATGACCAA
77677626 ATGTTTGGCTATG
1 ATGTTTGGCTATG
77677639 ATGTTTGGCTAT
1 ATGTTTGGCTAT
77677651 CTATGTTCGG
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:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:77681427 original size:14 final size:14
Alignment explanation
Indices: 77681408--77681436 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77681398 GGCTGAAGAG
77681408 TTTGGGTACCAAGC
1 TTTGGGTACCAAGC
77681422 TTTGGGTACCAAGC
1 TTTGGGTACCAAGC
77681436 T
1 T
77681437 GCATTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (14 bp):
TTTGGGTACCAAGC
Found at i:77683980 original size:28 final size:28
Alignment explanation
Indices: 77683912--77684093 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
77683902 CATGAGATTG
* * * * *
77683912 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
77683941 GCACTAAGTGTGCGAGTTTTATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77683969 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77683997 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
77684025 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77684053 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77684080 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77684094 GACTTAATAT
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 23 0.16
28 102 0.72
29 17 0.12
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77689412 original size:22 final size:23
Alignment explanation
Indices: 77689386--77689431 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
77689376 CAACCAAACC
77689386 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
77689408 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
77689431 A
1 A
77689432 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:77689437 original size:23 final size:23
Alignment explanation
Indices: 77689393--77689437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77689383 ACCAATTCAA
*
77689393 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
77689416 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
77689438 CACACACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:77691471 original size:40 final size:40
Alignment explanation
Indices: 77691434--77691526 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
77691424 GCTACTCGTT
* * *
77691434 CAAATGCCTTCGGGACATAGCC-CGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCTAGATT-TAGTAACTCGCA
* *
77691474 CAATTGCCTTCGGGACTTAACCTAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCTAGATTTAGTAACTCGCA
77691514 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77691527 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCTAGATTTAGTAACTCGCA
Found at i:77699111 original size:40 final size:40
Alignment explanation
Indices: 77699074--77699166 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
77699064 GCTACTCGTT
*
77699074 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * * *
77699114 CAATTGCCTTCGAGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
77699154 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77699167 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77707690 original size:22 final size:23
Alignment explanation
Indices: 77707664--77707709 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
77707654 CAACCAAACC
77707664 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
77707686 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
77707709 A
1 A
77707710 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:77707715 original size:23 final size:23
Alignment explanation
Indices: 77707671--77707715 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77707661 ACCAATTCAA
*
77707671 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
77707694 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
77707716 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:77717743 original size:40 final size:40
Alignment explanation
Indices: 77717699--77717961 Score: 301
Period size: 39 Copynumber: 6.7 Consensus size: 40
77717689 GCTCCTCGTT
* *
77717699 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * **
77717739 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
77717779 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
77717818 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
77717857 CAAACGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * *
77717896 CAAATGCCTTC-AGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
77717937 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77717962 CAACATTCAA
Statistics
Matches: 198, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 110 0.56
40 74 0.37
41 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:77724097 original size:16 final size:16
Alignment explanation
Indices: 77724076--77724107 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77724066 GGGCTTTTAC
*
77724076 GAAGAACTTCGTAAAT
1 GAAGAAATTCGTAAAT
77724092 GAAGAAATTCGTAAAT
1 GAAGAAATTCGTAAAT
77724108 TACGACACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (16 bp):
GAAGAAATTCGTAAAT
Found at i:77734941 original size:36 final size:36
Alignment explanation
Indices: 77734876--77734994 Score: 157
Period size: 36 Copynumber: 3.3 Consensus size: 36
77734866 TCCCAGTTTT
* * * * *
77734876 TGGTGTGTTTTAGTTGTATTAACTCTTATGAGCATC
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
* *
77734912 TGGTGTGTTTCAGATGGATTAGCTTTTATGATCATT
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
* *
77734948 TGGTGTGTTTCAGATAGATTAGCTTTTATGTGCATC
1 TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
77734984 TGGTGTGTTTC
1 TGGTGTGTTTC
77734995 GGGTGTACCA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.18, C:0.10, G:0.25, T:0.47
Consensus pattern (36 bp):
TGGTGTGTTTCAGATGGATTAGCTTTTATGAGCATC
Found at i:77735013 original size:36 final size:35
Alignment explanation
Indices: 77734876--77735029 Score: 139
Period size: 36 Copynumber: 4.3 Consensus size: 35
77734866 TCCCAGTTTT
* * *
77734876 TGGTGTGTTTTAGTTGTATTAACTCTTATGAGCATC
1 TGGTGTGTTTCAGATG-ATTAGCTCTTATGAGCATC
* * *
77734912 TGGTGTGTTTCAGATGGATTAGCTTTTATGATCATT
1 TGGTGTGTTTCAGAT-GATTAGCTCTTATGAGCATC
* *
77734948 TGGTGTGTTTCAGATAGATTAGCTTTTATGTGCATC
1 TGGTGTGTTTCAGAT-GATTAGCTCTTATGAGCATC
* * ** *
77734984 TGGTGTGTTTCGGGTGTACCAGCTCTTATGACCA-C
1 TGGTGTGTTTCAGATG-ATTAGCTCTTATGAGCATC
*
77735019 TAGTGTGTTTC
1 TGGTGTGTTTC
77735030 GGGTGGAATA
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
35 12 0.12
36 85 0.87
37 1 0.01
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (35 bp):
TGGTGTGTTTCAGATGATTAGCTCTTATGAGCATC
Found at i:77735013 original size:72 final size:72
Alignment explanation
Indices: 77734874--77735014 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
77734864 ACTCCCAGTT
* * ** *
77734874 TTTGGTGTGTTTTAGTTGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGATTAGCTTTT
1 TTTGGTGTGTTTCAGTAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCTT
77734939 ATGATCA
66 ATGATCA
* * * * * *
77734946 TTTGGTGTGTTTCAGATAG-ATTAGCTTTTATGTGCATCTGGTGTGTTTCGGGTGTACCAGCTCT
1 TTTGGTGTGTTTCAG-TAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCT
77735010 TATGA
65 TATGA
77735015 CCACTAGTGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 55 0.96
73 2 0.04
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (72 bp):
TTTGGTGTGTTTCAGTAGTATTAACTCTTATGAGCATCTGGTGTGTTTCAGATGGACCAGCTCTT
ATGATCA
Found at i:77737051 original size:26 final size:24
Alignment explanation
Indices: 77737012--77737079 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
77737002 GGACTCACCA
* *
77737012 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACCG-T-TAC
* *
77737038 CAGCTCGTAAGAGCTTTCTGTTAC
1 CAGCTCGTAAGAGCTTACCGTTAC
*
77737062 CAGCTTGTAAGAGCTTAC
1 CAGCTCGTAAGAGCTTAC
77737080 TGTTTTCAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 18 0.50
25 1 0.03
26 17 0.47
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCGTTAC
Found at i:77737071 original size:24 final size:24
Alignment explanation
Indices: 77737038--77737100 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
77737028 ACCGATATAT
* *
77737038 CAGCTCGTAAGAGCTTTCTGTTAC
1 CAGCTTGTAAGAGCTTACTGTTAC
**
77737062 CAGCTTGTAAGAGCTTACTGTTTT
1 CAGCTTGTAAGAGCTTACTGTTAC
*
77737086 CAGCTTGTTAGAGCT
1 CAGCTTGTAAGAGCT
77737101 AATCGTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (24 bp):
CAGCTTGTAAGAGCTTACTGTTAC
Found at i:77738688 original size:171 final size:176
Alignment explanation
Indices: 77738403--77738907 Score: 634
Period size: 171 Copynumber: 2.9 Consensus size: 176
77738393 ACACATGAGT
*
77738403 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGGGTGTGTGTATTGGTTGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACAC-GGTGTGTGTATTGGTCGTGTGACCCA
* * * *
77738468 AGTCAAAGAGTTACACGGGGTAGAACATGGGCTAGGACACGACCATGTGCTCTTATTTCGAATGT
65 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
* *
77738533 CCACACGGCCTATGACACGGGCGTGT-TC-C-TGG-C-ACACGC-GC
130 CCACACGGCCTATGACACGGGCGTGTGACACATGGCCGACACACAGC
* * * *
77738574 GTTTATGGACATTTTTAGGGCACACGGGCCAGCCAAACAGGTGTGTGTGTTGGTCGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACAC-GGTGTGTGTATTGGTCGTGTGACCCA
77738639 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
65 AGTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGT
* *
77738704 CCACACGAG-C-GTGTCTA-GTGGCCGTGTGAGACACATGGCCTGACACACTAGC
130 CCACACG-GCCTATGAC-ACG-GG-CGTGT--GACACATGGCC-GACACAC-AGC
* *
77738756 ATTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGAGTGTGTGTATTGCTCGTGTGACCCA
1 GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACG-GTGTGTGTATTGGTCGTGTGACCCA
* * * * * *
77738821 AGTCAGAGAGTTACATGGGGTA-GACCATAGGATGGGACACGACCATGTACTCCCATTTCAAATG
65 AGTCAGAGAGTTACACGGGGTAGGA-CATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATG
*
77738885 TCCACATGGCCTATGACACGGGC
129 TCCACACGGCCTATGACACGGGC
77738908 ATGTCTAGTG
Statistics
Matches: 286, Mismatches: 29, Indels: 28
0.83 0.08 0.08
Matches are distributed among these distances:
170 4 0.01
171 131 0.46
172 6 0.02
175 1 0.00
176 1 0.00
177 3 0.01
178 1 0.00
180 5 0.02
181 5 0.02
182 125 0.44
183 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (176 bp):
GTTTATGGCCATTTTTAGGGCACACGGGCTAGCCACACGGTGTGTGTATTGGTCGTGTGACCCAA
GTCAGAGAGTTACACGGGGTAGGACATGGGCTGGGACACGACCATGTGCTCCTATTTCGAATGTC
CACACGGCCTATGACACGGGCGTGTGACACATGGCCGACACACAGC
Found at i:77740318 original size:24 final size:24
Alignment explanation
Indices: 77740291--77740347 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
77740281 GAAAATAAAA
77740291 ATAAATAAAGAAAAT-AAAAAATAT
1 ATAAATAAAGAAAATCAAAAAAT-T
* * *
77740315 ATAAATATATAAATTCAAAAAATT
1 ATAAATAAAGAAAATCAAAAAATT
*
77740339 AAAAATAAA
1 ATAAATAAA
77740348 TAGGGCTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
ATAAATAAAGAAAATCAAAAAATT
Found at i:77740346 original size:28 final size:26
Alignment explanation
Indices: 77740261--77740349 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 26
77740251 AAATAAAATG
*
77740261 AAATGAAATATATAAATCTAGAAAATAA
1 AAAT-AAATATATAAATC-AAAAAATAA
* *
77740289 AAATAAATAAAGAAAAT-AAAAAAT--
1 AAATAAATATA-TAAATCAAAAAATAA
*
77740313 ATATAAATATATAAATTCAAAAAATTAA
1 AAATAAATATATAAA-TCAAAAAA-TAA
77740341 AAATAAATA
1 AAATAAATA
77740350 GGGCTTGGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.06
24 10 0.21
25 6 0.12
26 7 0.15
27 6 0.12
28 16 0.33
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATAAATATATAAATCAAAAAATAA
Done.