Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 109 of 204
Found at i:33881626 original size:150 final size:149
Alignment explanation
Indices: 33881180--33881752 Score: 555
Period size: 150 Copynumber: 3.8 Consensus size: 149
33881170 AAGAGTTTGT
*
33881180 TGATTTACGATCACGATCTTCGACTTTT-TAACTATTCGA-TGATTTACGATCACGA-TCATCAT
1 TGATTTACGATCACGACCTTCGA-TTTTCTAA-TATTC-ATTGATTTACGATCACGACT-ATCAT
** * * * *
33881242 TTTTACGG-CCTGTTGATTTACTATCACGACCTACAATTTTCTAACAGTTTGCTAATTTACGATC
62 TTTTACGGTCC-ACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCTAATTTACGATC
* * *
33881306 ACGAATGTCATTTTTACGGTCTGT
126 ACGACTGTCATTTTTACGGTCCGC
* * * * * * * *
33881330 TGATTTATGATCACAACCTTAGACTTCCTAATAGTTCGTTGATTTACGATCACGACTGTTA-TTT
1 TGATTTACGATCACGACCTTCGATTTTCTAATA-TTCATTGATTTACGATCACGACTATCATTTT
* * * * * * * * *
33881394 TACGGTCCGCTGATTTATGATTACAACCTTCGATTTTCTAACAATTCGTTGATTCACGATCACAA
65 TACGGTCCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCTAATTTACGATCACGA
33881459 CTGTCATTTTTACGGTCCGC
130 CTGTCATTTTTACGGTCCGC
* * *
33881479 TGATTTATGATAACGACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGACTATCATTTT
1 TGATTTACGATCACGACCTTCGATTTTCTAATA-TTCATTGATTTACGATCACGACTATCATTTT
* * * * * * * *
33881544 TACGGTTCACTGATTTACGATCATGACCTTTGATTTTCTAACAGTTCACTGATTTACAATTATGA
65 TACGGTCCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCTAATTTACGATCACGA
33881609 CTGTCATTTTTACGGTCCGC
130 CTGTCATTTTTACGGTCCGC
* * * * * * * *
33881629 TAAATTT-CGATTACGACCTTTGATTTTCTAACAATTCGTTGATTTATGATCATGACTGTCATTT
1 T-GATTTACGATCACGACCTTCGATTTTCTAA-TATTCATTGATTTACGATCACGACTATCATTT
* * * * **
33881693 TTATGGTTCACTGATTTACGATCATGACCTTTGGCTTTCTAACAGTTCGCTAATTTACGA
64 TTACGGTCCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCTAATTTACGA
33881753 GTACAACCTT
Statistics
Matches: 349, Mismatches: 66, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
149 124 0.36
150 219 0.63
151 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (149 bp):
TGATTTACGATCACGACCTTCGATTTTCTAATATTCATTGATTTACGATCACGACTATCATTTTT
ACGGTCCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCTAATTTACGATCACGAC
TGTCATTTTTACGGTCCGC
Found at i:33881717 original size:36 final size:36
Alignment explanation
Indices: 33881513--33881720 Score: 166
Period size: 36 Copynumber: 5.6 Consensus size: 36
33881503 TTTCTAATAC
* *
33881513 TTCACTGATTTACGATCACGACTATCATTTTTACGG
1 TTCACTGATTTACGATCATGACTGTCATTTTTACGG
* * *
33881549 TTCACTGATTTACGATCATGACCTTTGATTTTCTAACAG
1 TTCACTGATTTACGATCATGA-CTGTCATTTT-T-ACGG
* *
33881588 TTCACTGATTTACAATTATGACTGTCATTTTTACGG
1 TTCACTGATTTACGATCATGACTGTCATTTTTACGG
* * * * * * * **
33881624 TCCGCTAAATTT-CGATTACGACCTTTGATTTTCTAACAA
1 TTCACT-GATTTACGATCATGA-CTGTCATTTT-T-ACGG
** * *
33881663 TTCGTTGATTTATGATCATGACTGTCATTTTTATGG
1 TTCACTGATTTACGATCATGACTGTCATTTTTACGG
33881699 TTCACTGATTTACGATCATGAC
1 TTCACTGATTTACGATCATGAC
33881721 CTTTGGCTTT
Statistics
Matches: 132, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
36 54 0.41
37 22 0.17
38 22 0.17
39 34 0.26
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTCACTGATTTACGATCATGACTGTCATTTTTACGG
Found at i:33881734 original size:225 final size:224
Alignment explanation
Indices: 33881182--33881752 Score: 549
Period size: 224 Copynumber: 2.5 Consensus size: 224
33881172 GAGTTTGTTG
* * * * * * * *
33881182 ATTTACGATCACGATCTTCGACTTTT-TAACTATTCGATGATTTACGATCACGA-TCATCATTTT
1 ATTTACGATTACAACCTTCGA-TTTTCTAACAATTCGTTGATTCACGATCACAACT-GTCATTTT
** * * * * * * **
33881245 TACGG-CCTGTTGATTTACTATCACGACCTACAATTTTCTAACAGTTTGCTAATTTACGATCACG
64 TACGGTCC-ACTGATTTACGATAACGACCTTCGACTTTCTAACACTTCACTAATTTACGATCACG
* ** * * **
33881309 AATGTCATTTTTACGGTCTGTTGATTTATGATCACAACCTTAGACTTCCTAATAGTTCGTTGATT
128 AATATCATTTTTACGGTCTACTGATTTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATT
* * *
33881374 TACGATCACGACTGTTATTTTACGGTCCGCTG
193 TACAATCACGACTGTCATTTTACGGTCCGCTA
*
33881406 ATTTATGATTACAACCTTCGATTTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTA
1 ATTTACGATTACAACCTTCGATTTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTA
* * * * * *
33881471 CGGTCCGCTGATTTATGATAACGACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGACT
66 CGGTCCACTGATTTACGATAACGACCTTCGACTTTCTAACACTTCACTAATTTACGATCACGAAT
** * * *
33881536 ATCATTTTTACGGT-TCACTGATTTACGATCATGACCTTTGATTTTCTAACAGTTCACTGATTTA
131 ATCATTTTTACGGTCT-ACTGATTTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATTTA
* *
33881600 CAATTATGACTGTCATTTTTACGGTCCGCTAA
195 CAATCACGACTGTCA-TTTTACGGTCCGCT-A
* * * * **
33881632 ATTT-CGATTACGACCTTTGATTTTCTAACAATTCGTTGATTTATGATCATGACTGTCATTTTTA
1 ATTTACGATTACAACCTTCGATTTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTA
* * * * * * * *
33881696 TGGTTCACTGATTTACGATCATGACCTTTGGCTTTCTAACAGTTCGCTAATTTACGA
66 CGGTCCACTGATTTACGATAACGACCTTCGACTTTCTAACACTTCACTAATTTACGA
33881753 GTACAACCTT
Statistics
Matches: 283, Mismatches: 58, Indels: 11
0.80 0.16 0.03
Matches are distributed among these distances:
223 5 0.02
224 160 0.57
225 114 0.40
226 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (224 bp):
ATTTACGATTACAACCTTCGATTTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTA
CGGTCCACTGATTTACGATAACGACCTTCGACTTTCTAACACTTCACTAATTTACGATCACGAAT
ATCATTTTTACGGTCTACTGATTTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATTTAC
AATCACGACTGTCATTTTACGGTCCGCTA
Found at i:33881889 original size:23 final size:23
Alignment explanation
Indices: 33881816--33881899 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
33881806 ATTCGCAATA
* *
33881816 TTCTACAATGCATTTCGTAGCAT
1 TTCTACAATACAGTTCGTAGCAT
* * * *
33881839 TTCTGTA-AATATAGTTCGCAGTAG
1 TTC--TACAATACAGTTCGTAGCAT
33881863 TTCTACAATACAGTTCGTAGCAT
1 TTCTACAATACAGTTCGTAGCAT
*
33881886 TTCTTCAAATACAG
1 TTCTAC-AATACAG
33881900 CTTGCATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 2 0.04
23 21 0.46
24 21 0.46
25 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (23 bp):
TTCTACAATACAGTTCGTAGCAT
Found at i:33882443 original size:15 final size:15
Alignment explanation
Indices: 33882399--33882443 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
33882389 CAGATTGTAC
*
33882399 TATATACAATATAAT
1 TATACACAATATAAT
* *
33882414 TATACATAATGTAAT
1 TATACACAATATAAT
*
33882429 TATACACATTATAAT
1 TATACACAATATAAT
33882444 ATAAATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (15 bp):
TATACACAATATAAT
Found at i:33882443 original size:30 final size:31
Alignment explanation
Indices: 33882399--33882462 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
33882389 CAGATTGTAC
* *
33882399 TATATACAATATAATTATACATAA-TGTA-AT
1 TATACACAATATAA-TATAAATAATTGTATAT
*
33882429 TATACACATTATAATATAAATAATTGTATAT
1 TATACACAATATAATATAAATAATTGTATAT
33882460 TAT
1 TAT
33882463 CTTTTAGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 8 0.28
30 16 0.55
31 5 0.17
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (31 bp):
TATACACAATATAATATAAATAATTGTATAT
Found at i:33884925 original size:18 final size:18
Alignment explanation
Indices: 33884879--33884939 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
33884869 AGCTCTCAGG
33884879 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
33884897 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* *
33884915 CATTCTTCTCCCTTCCTT
1 CATTCTTCTCCCTTCATC
33884933 CATTCTT
1 CATTCTT
33884940 TCAAATTTCC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.13, C:0.41, G:0.03, T:0.43
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:33888134 original size:35 final size:35
Alignment explanation
Indices: 33888080--33888147 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
33888070 CAAACACCAG
*
33888080 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
*
33888115 AAAACATTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTT-CAGTAAATCATTTTACAGAAAA
33888148 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:33888605 original size:31 final size:31
Alignment explanation
Indices: 33888542--33888605 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
33888532 TTTAAGCCCC
* * *
33888542 AATGTGGAAAAAATTGTCAAGTCCAGGTCCT
1 AATGTGGAAAAAACTGCCAAGTCCAGGACCT
* **
33888573 AATGTGGAAACAACTGCCAAGTTTAGGACCT
1 AATGTGGAAAAAACTGCCAAGTCCAGGACCT
33888604 AA
1 AA
33888606 CTTGTACAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (31 bp):
AATGTGGAAAAAACTGCCAAGTCCAGGACCT
Found at i:33890183 original size:20 final size:20
Alignment explanation
Indices: 33890158--33890209 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
33890148 TAAAAATTCT
33890158 AAAAAATATTAAAATTTAT-A
1 AAAAAATATTAAAATTT-TCA
*
33890178 AAAAAA-ATCAAAATTTTCA
1 AAAAAATATTAAAATTTTCA
*
33890197 AAAAAATTTTAAA
1 AAAAAATATTAAA
33890210 GTTATTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATATTAAAATTTTCA
Found at i:33890868 original size:31 final size:32
Alignment explanation
Indices: 33890830--33890895 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
33890820 CTCAAATCTA
33890830 TTTTTTAAAATAATTAT-AATTTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTTATAT
*
33890861 TTTTTTAAAATAATTTTAAATTTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTTATAT
33890893 TTT
1 TTT
33890896 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTTTTAAAATAATTATAAATTTTTTTTATAT
Found at i:33891008 original size:15 final size:16
Alignment explanation
Indices: 33890988--33891018 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
33890978 TTTGTAATCA
33890988 TTATTTAAG-ATTTTT
1 TTATTTAAGTATTTTT
33891003 TTATTTAAGTATTTTT
1 TTATTTAAGTATTTTT
33891019 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTTAAGTATTTTT
Found at i:33891988 original size:7 final size:7
Alignment explanation
Indices: 33891976--33892000 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33891966 AGTCGATTGA
33891976 TATTTAG
1 TATTTAG
33891983 TATTTAG
1 TATTTAG
33891990 TATTTAG
1 TATTTAG
33891997 TATT
1 TATT
33892001 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33894424 original size:125 final size:126
Alignment explanation
Indices: 33894131--33894477 Score: 529
Period size: 125 Copynumber: 2.8 Consensus size: 126
33894121 CCCAAACTTG
* * *
33894131 CTACTGTAGCAAAATCGA-GTCCACGAAGGCGTGATTTCACAACTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAATC-ACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTG
** *
33894195 GTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGAC
65 GTAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
* * * * *
33894257 CTACTATAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATTCTCG
1 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * *
33894322 TAGAAACGATTTTATACTATTTGCTCAGAAAAAT-TAGAAAAAAATTATTTCTTACATAAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
33894382 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
33894447 TAGAAGCGATTTTATACTATTTGAC-CAGAAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAA
33894478 CGTCAACTCG
Statistics
Matches: 199, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 111 0.56
126 88 0.44
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
Found at i:33896960 original size:156 final size:155
Alignment explanation
Indices: 33896676--33896987 Score: 572
Period size: 156 Copynumber: 2.0 Consensus size: 155
33896666 CCATTTTTTG
33896676 AAGCTAGCCACTAAAACTACTATTTAAGGGTGGAAGACATTCAACCAACCTTAATTATTCATGCA
1 AAGCTAGCCACTAAAACTACTATTTAAGGGTGGAAGACATTCAACCAACCTTAATTATTCATGCA
33896741 TGGTGAGGTATTTTTGTCTCATTTTTAGTAATTTTTATATTTTTGAGCTCGTATTAGCTTAATCT
66 TGGTGAGGTATTTTTGTCTCATTTTTAGTAATTTTTATATTTTTGAGCTCGTATTAGCTTAATCT
33896806 AGCTAATCTGGGGGTCAATCTGTAAA
131 AGCTAATCT-GGGGTCAATCTGTAAA
*
33896832 AAGCTAGCCACTAAAACCT-CTATTTAAGGGTGGAAGACATTCAGCCAACCTTAATTATTCATGC
1 AAGCTAGCCACTAAAA-CTACTATTTAAGGGTGGAAGACATTCAACCAACCTTAATTATTCATGC
*
33896896 ATGGTGAGGTATTTTTGTCTCGTTTTTAGTAATTTTTATATTTTTGAGCTCGTATTAGCTTAATC
65 ATGGTGAGGTATTTTTGTCTCATTTTTAGTAATTTTTATATTTTTGAGCTCGTATTAGCTTAATC
*
33896961 TAGCTAATCTGGGGTCAATTTGTAAA
130 TAGCTAATCTGGGGTCAATCTGTAAA
33896987 A
1 A
33896988 CTGTTAAATG
Statistics
Matches: 152, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
155 16 0.11
156 134 0.88
157 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (155 bp):
AAGCTAGCCACTAAAACTACTATTTAAGGGTGGAAGACATTCAACCAACCTTAATTATTCATGCA
TGGTGAGGTATTTTTGTCTCATTTTTAGTAATTTTTATATTTTTGAGCTCGTATTAGCTTAATCT
AGCTAATCTGGGGTCAATCTGTAAA
Found at i:33897755 original size:69 final size:69
Alignment explanation
Indices: 33897636--33897765 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 69
33897626 ATTGCATTCG
* * * * * *
33897636 TACATAAGACCATAGCAAGGCTATGGCAATTGTTCGGATATAAGATCATGGTTGGACCATGGCAA
1 TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATGGCAA
33897701 TATA
66 TATA
* * * *
33897705 TACATAAGACCATAGCGAGACTATGACATTTGTTTAGACGTAAAACCATGGTTGGACCATG
1 TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATG
33897766 ACAGTGTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (69 bp):
TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATGGCAA
TATA
Found at i:33900289 original size:43 final size:43
Alignment explanation
Indices: 33900154--33900388 Score: 186
Period size: 43 Copynumber: 5.5 Consensus size: 43
33900144 TCTGGTACCT
* * * * * *
33900154 CAGTGCATCATCGGATAAATTGAAA-AAATATATTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCATACA
** ** * * * * *
33900196 TGGTGCATCATCAGACAAAC-CAAAGCATTTATACTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAA-CAATTATACTAGCATACA
* * * *
33900239 TAATGCATCATTGGATAAATTGAAACAATTACACTAGCATACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCATACA
* **
33900282 CAGTGCATCATTGGATATACTGAAGTAATTATACTAGCATACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCATACA
* * * * * *
33900325 TAGTGCATCAATGGATATACCGAAACAATTATACTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCATACA
*
33900368 CTGTGCATCATTGGATAAACT
1 CAGTGCATCATTGGATAAACT
33900389 AAAGTATAAC
Statistics
Matches: 151, Mismatches: 39, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
41 3 0.02
42 15 0.10
43 130 0.86
44 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (43 bp):
CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCATACA
Found at i:33900326 original size:86 final size:86
Alignment explanation
Indices: 33900224--33900394 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
33900214 ACCAAAGCAT
* * ** *
33900224 TTATACTGGCACACATAATGCATCATTGGATAAATTGAAACAATTACACTAGCATACACAGTGCA
1 TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
* *
33900289 TCATTGGATATACTGAAGTAA
66 TCATTGGATAAACTAAAGTAA
* * * * * *
33900310 TTATACTAGCATACATAGTGCATCAATGGATATACCGAAACAATTATACTGGCACACACTGTGCA
1 TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
33900375 TCATTGGATAAACTAAAGTA
66 TCATTGGATAAACTAAAGTA
33900395 TAACCTGTAC
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (86 bp):
TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
TCATTGGATAAACTAAAGTAA
Found at i:33902487 original size:25 final size:25
Alignment explanation
Indices: 33902429--33902490 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
33902419 GAAGCTAAAT
*
33902429 AGGACAAGAAACAACCAACAAGCAG
1 AGGACAAGCAACAACCAACAAGCAG
*
33902454 AGGACAAGCAACAGCCAACAAGCAG
1 AGGACAAGCAACAACCAACAAGCAG
33902479 AGGACAAGCAAC
1 AGGACAAGCAAC
33902491 TTTTTTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.52, C:0.26, G:0.23, T:0.00
Consensus pattern (25 bp):
AGGACAAGCAACAACCAACAAGCAG
Found at i:33917474 original size:24 final size:25
Alignment explanation
Indices: 33917421--33917474 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
33917411 AGAGGTAGGA
*
33917421 TATGATTATGCATCTAAATATGTAT
1 TATGATTATGCATCTAAACATGTAT
* * *
33917446 T-TGATTCTGCATCTATACCTG-AT
1 TATGATTATGCATCTAAACATGTAT
33917469 TATGAT
1 TATGAT
33917475 AATACATCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (25 bp):
TATGATTATGCATCTAAACATGTAT
Found at i:33921204 original size:30 final size:30
Alignment explanation
Indices: 33921158--33921251 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
33921148 TTTTATTATG
*
33921158 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
33921189 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
33921219 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
33921249 CCA
1 CCA
33921252 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:33921213 original size:15 final size:15
Alignment explanation
Indices: 33921168--33921245 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
33921158 CCAATATCTC
33921168 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
33921183 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
33921198 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
33921213 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
33921228 GATACCCATATCTTT
1 GATACCCATATCTTT
33921243 GAT
1 GAT
33921246 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:33925833 original size:31 final size:31
Alignment explanation
Indices: 33925788--33925882 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
33925778 TTTTATTATG
* * * *
33925788 CCAATATCTCGATACTCATATCTTTGACTTT
1 CCAATATTTTGATACCCATATCTTTGATTTT
33925819 CCAATATTTTGATACCCATATCTTTGATTTT
1 CCAATATTTTGATACCCATATCTTTGATTTT
33925850 CCAATA-TTTGATACCCATATCTTTGATTTT
1 CCAATATTTTGATACCCATATCTTTGATTTT
33925880 CCA
1 CCA
33925883 TAAATATGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 27 0.45
31 33 0.55
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (31 bp):
CCAATATTTTGATACCCATATCTTTGATTTT
Found at i:33925846 original size:15 final size:15
Alignment explanation
Indices: 33925798--33925876 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
33925788 CCAATATCTC
*
33925798 GATACTCATATCTTT
1 GATACCCATATCTTT
* *
33925813 GACTTTCCAATAT-TTT
1 GA--TACCCATATCTTT
33925829 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
33925844 GATTTTCCA-ATATTT
1 GA-TACCCATATCTTT
33925859 GATACCCATATCTTT
1 GATACCCATATCTTT
33925874 GAT
1 GAT
33925877 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
14 11 0.23
15 22 0.46
16 9 0.19
17 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.46
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:33927836 original size:7 final size:7
Alignment explanation
Indices: 33927824--33927855 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
33927814 TTGATTCTTA
33927824 AAAATTC
1 AAAATTC
33927831 AAAATTC
1 AAAATTC
33927838 AAAATTC
1 AAAATTC
33927845 AAAATTC
1 AAAATTC
33927852 AAAA
1 AAAA
33927856 AATAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTC
Found at i:33928787 original size:18 final size:18
Alignment explanation
Indices: 33928764--33928798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33928754 TCAAATCCAA
*
33928764 CTCTCTCTATTCTCTCAG
1 CTCTCTCAATTCTCTCAG
33928782 CTCTCTCAATTCTCTCA
1 CTCTCTCAATTCTCTCA
33928799 ATTTCTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.40, G:0.03, T:0.43
Consensus pattern (18 bp):
CTCTCTCAATTCTCTCAG
Found at i:33928807 original size:8 final size:9
Alignment explanation
Indices: 33928765--33928807 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
33928755 CAAATCCAAC
*
33928765 TCTCTCTAT
1 TCTCTCAAT
**
33928774 TCTCTCAGC
1 TCTCTCAAT
33928783 TCTCTCAAT
1 TCTCTCAAT
33928792 TCTCTCAAT
1 TCTCTCAAT
33928801 T-TCTCAA
1 TCTCTCAA
33928808 GTTTTGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:33932127 original size:12 final size:12
Alignment explanation
Indices: 33932110--33932139 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33932100 CTCAGTTGCT
33932110 TCTTCATTGTCA
1 TCTTCATTGTCA
33932122 TCTTCATTGTCA
1 TCTTCATTGTCA
33932134 TCTTCA
1 TCTTCA
33932140 ACCAAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.50
Consensus pattern (12 bp):
TCTTCATTGTCA
Found at i:33933811 original size:51 final size:50
Alignment explanation
Indices: 33933752--33933978 Score: 226
Period size: 51 Copynumber: 4.5 Consensus size: 50
33933742 TATAGATGAA
* * *
33933752 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAATGTTGGT
* * * * * * *
33933803 CACATGTGTAGTACAAAGTGAAGGCTACAATGTGTACCGAGAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAATG--TTGGT
* * *
33933854 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGAAAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAATG--TTGGT
* * *
33933905 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGAACCGTAAAA-CTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAATGTTGGT
*
33933955 CAGGTGTGTAGTACTATGTGAAGG
1 CACGTGTGTAGTACTATGTGAAGG
33933979 ATTCTACATG
Statistics
Matches: 149, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 28 0.19
51 116 0.78
52 4 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAATGTTGGT
Found at i:33933929 original size:102 final size:101
Alignment explanation
Indices: 33933752--33933978 Score: 262
Period size: 102 Copynumber: 2.2 Consensus size: 101
33933742 TATAGATGAA
*
33933752 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* * * * *
33933817 AAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
66 AAAGTAAAGGCTACAACGTGAACCGTA-AAAC-TTGAT
* * * *
33933854 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACATGTGTAGT
* * *
33933917 ACTATGTAAAGGCTACTACGTGAACCGTAAAACTTGAT
64 ACAAAGTAAAGGCTACAACGTGAACCGTAAAACTTGAT
* *
33933955 CAGGTGTGTAGTACTATGTGAAGG
1 CACGTGTGTAGTACTGTGTGAAGG
33933979 ATTCTACATG
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 1 0.01
101 29 0.27
102 76 0.71
103 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
AAAGTAAAGGCTACAACGTGAACCGTAAAACTTGAT
Found at i:33934206 original size:12 final size:12
Alignment explanation
Indices: 33934185--33934244 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
33934175 TATGTGTGGA
33934185 ATTGAATTGAAT
1 ATTGAATTGAAT
* *
33934197 ATTGACTTGAAA
1 ATTGAATTGAAT
* *
33934209 ATGGCAAAGTGAAT
1 ATTG--AATTGAAT
33934223 ATTGAATTGAAT
1 ATTGAATTGAAT
*
33934235 AGTG-ATTGAA
1 ATTGAATTGAA
33934245 AGTGAAAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 6 0.16
12 23 0.62
14 8 0.22
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (12 bp):
ATTGAATTGAAT
Found at i:33938807 original size:26 final size:25
Alignment explanation
Indices: 33938777--33938854 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
33938767 ACAAATTTTC
33938777 TCAAAATTTTATCAGGGGTAAAATTG
1 TCAAAATTTTA-CAGGGGTAAAATTG
* * **
33938803 TCAAAACTTTACCGGATGGTAAAATCA
1 TCAAAATTTTACAGG--GGTAAAATTG
* *
33938830 TCAAAATTTTACTGCGGTAAAATTG
1 TCAAAATTTTACAGGGGTAAAATTG
33938855 GGATGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 11 0.27
26 10 0.24
27 20 0.49
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAGGGGTAAAATTG
Found at i:33940999 original size:42 final size:42
Alignment explanation
Indices: 33940943--33941105 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
33940933 GAGGAGCACA
* * * *
33940943 ATCACTTAAACTCACATGGGGAGCTTCACTGATACACAACTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
*
33940985 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAATTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
* * * * ** * *
33941027 AACATTTAAGCTTACGTAAAGAGCTTTGCTAATA-ACAGCTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
* *
33941068 ATCACTTAAGCTCACGTAGGGAGCTTCGCTGATACACA
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACA
33941106 TCTTGTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 32 0.32
42 67 0.68
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
Found at i:33956940 original size:11 final size:12
Alignment explanation
Indices: 33956892--33956940 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
33956882 TTCCTCTATT
33956892 AAATTTCCTCTC
1 AAATTTCCTCTC
*
33956904 -AATTTGCTCTC
1 AAATTTCCTCTC
33956915 AAA-TTCCT-TC
1 AAATTTCCTCTC
33956925 AAAATTT-CTCTC
1 -AAATTTCCTCTC
33956937 AAAT
1 AAAT
33956941 CCATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 2 0.06
11 23 0.74
12 6 0.19
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.41
Consensus pattern (12 bp):
AAATTTCCTCTC
Found at i:33956981 original size:51 final size:51
Alignment explanation
Indices: 33956902--33956999 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
33956892 AAATTTCCTC
33956902 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
* * * *
33956953 TCAATTTGCTCTCAAGTT-CTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTT
33957000 TTAAATAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
Found at i:33959076 original size:21 final size:21
Alignment explanation
Indices: 33959029--33959077 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
33959019 CAGATGCCGT
* *
33959029 ACCGGAAGAACCAGAATCCCC
1 ACCGGAAGAACAACAATCCCC
*
33959050 ATCGGAAGAACAACAA-CCGCC
1 ACCGGAAGAACAACAATCC-CC
33959071 ACCGGAA
1 ACCGGAA
33959078 TCTAGACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.41, C:0.35, G:0.20, T:0.04
Consensus pattern (21 bp):
ACCGGAAGAACAACAATCCCC
Found at i:33959301 original size:9 final size:9
Alignment explanation
Indices: 33959287--33959318 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
33959277 AATTTGTACA
33959287 AATATTTTG
1 AATATTTTG
33959296 AATATTTTG
1 AATATTTTG
33959305 AATATTTTG
1 AATATTTTG
33959314 -ATATT
1 AATATT
33959319 ATTTGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (9 bp):
AATATTTTG
Found at i:33962859 original size:125 final size:124
Alignment explanation
Indices: 33962454--33962870 Score: 545
Period size: 125 Copynumber: 3.3 Consensus size: 124
33962444 AACATGCTAT
* * *
33962454 TGTAGCAAAATCACGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GTAGA
* * *
33962519 AGCAATTTTATACTATTTGCTCAA-AAATGTCAACTCAAAATTACTTCTTCCAGGACCAAC
65 AGCGATTTTATACTATTTGCT-AAGAAACGTCAACTCAAAATTAATTCTTCCAGGACCAAC
* * * * *
33962579 TATAGCAAAAGCGCGTCCATGATGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG-TAG
* * * * *
33962643 AAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAA-TAATT-TTACAGGACCTAC
64 AAGCG-ATTTTATACTATTTGCTAAGAAACGTCAACTCAAAATTAATTCTTCCAGGACCAAC
* * * *
33962703 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCTTAGAGCATCCTAGTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GTAGA
*
33962768 AGCGATTTTATACTATTTGCTAAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAAC
65 AGCGATTTTATACTATTTGCTAAGAAACGTCAACTCAAAATTAATTCTTCCAGGACCAAC
* *
33962828 TGTAGCAAAAGCGCGTCCAGGAGGGCACGATTTCACAAATTCT
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCT
33962871 CCGCGTCCAT
Statistics
Matches: 249, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
123 33 0.13
124 74 0.30
125 112 0.45
126 30 0.12
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (124 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGTAGAA
GCGATTTTATACTATTTGCTAAGAAACGTCAACTCAAAATTAATTCTTCCAGGACCAAC
Found at i:33967715 original size:14 final size:14
Alignment explanation
Indices: 33967677--33967723 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
33967667 TGATTACTAT
33967677 TTTTTTAGGGTTT-
1 TTTTTTAGGGTTTC
*
33967690 TTGTTTT--TGTTTC
1 TT-TTTTAGGGTTTC
33967703 TTTTTTAGGGTTTC
1 TTTTTTAGGGTTTC
33967717 TTTTTTA
1 TTTTTTA
33967724 ATCCACAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 16 0.57
ACGTcount: A:0.06, C:0.04, G:0.17, T:0.72
Consensus pattern (14 bp):
TTTTTTAGGGTTTC
Found at i:33971655 original size:29 final size:30
Alignment explanation
Indices: 33971609--33971674 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
33971599 GTGGCCAAGA
** * * *
33971609 GTAAATATTCAAATTTGAGGGGCTAA-AGT
1 GTAAATATAAAAACTTGAAGGGCCAATAGT
*
33971638 GTAAATATAAAAACTTGAAGTGCCAATAGT
1 GTAAATATAAAAACTTGAAGGGCCAATAGT
33971668 GTAAATA
1 GTAAATA
33971675 ATTTAAGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (30 bp):
GTAAATATAAAAACTTGAAGGGCCAATAGT
Found at i:33974380 original size:9 final size:9
Alignment explanation
Indices: 33974366--33974395 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
33974356 GGTTTTTTGA
33974366 TTTTAGGGT
1 TTTTAGGGT
*
33974375 TTTTAGGAT
1 TTTTAGGGT
33974384 TTTTAGGGT
1 TTTTAGGGT
33974393 TTT
1 TTT
33974396 GGAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:33975633 original size:18 final size:16
Alignment explanation
Indices: 33975610--33975645 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
33975600 TTATTAGTTC
33975610 ATTATTATATGTTATATT
1 ATTATTATAT-TTAT-TT
33975628 ATTATTATATTTATTT
1 ATTATTATATTTATTT
33975644 AT
1 AT
33975646 ATAGGAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTATTATATTTATTT
Found at i:33977004 original size:127 final size:127
Alignment explanation
Indices: 33976739--33977111 Score: 581
Period size: 127 Copynumber: 3.0 Consensus size: 127
33976729 GGTTTCGACA
* * * * * *
33976739 AGAAGGATTTCTGAAGTCGCGCCCACGCGTACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
* * * *
33976803 ATTTCGAGTTGACGTTTCTAAGAAAATAGTAT-AAAAAACGCTTCAAGCAGAATGCTTTATG
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATG
* *
33976864 AGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
*
33976929 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACACTTCAAGCAGGATGCTATT-TG
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATGCT-TTATG
33976991 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
* *
33977056 ATTTCGAGTTGACATTTCTGAGCAAATAGTTTAAAAGAACGCTTCAAGCAGGATGC
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATGC
33977112 AAATAGTTTA
Statistics
Matches: 227, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 51 0.22
126 34 0.15
127 140 0.62
128 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (127 bp):
AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
ATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATG
Found at i:33977165 original size:21 final size:21
Alignment explanation
Indices: 33977123--33977665 Score: 564
Period size: 21 Copynumber: 25.2 Consensus size: 21
33977113 AATAGTTTAT
33977123 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
33977145 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
33977166 GGTTTTTAAGTTAAGGGTTTTA-
1 GGTTTTTAAGTTAAGGG--TTAG
33977188 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* *
33977210 GATTTTAAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
33977231 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
33977252 TGTTTTT-ATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
33977272 GG--TTTAAGTTTTAGGGTTAG
1 GGTTTTTAAG-TTAAGGGTTAG
* *
33977292 GGTTTTTAAATTAAAGGTTTAG
1 GGTTTTTAAGTT-AAGGGTTAG
* *
33977314 GGTTTTTAAGTTAAGAGTTAA
1 GGTTTTTAAGTTAAGGGTTAG
* *
33977335 GATTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAAGTTAAG-GGTTAG
*
33977357 GGTTTTAAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
33977378 GGTTTTAAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
33977399 TGTTTTTTATTTAAGGG-TCG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
33977419 GG-GTTTAGGGTTTAGGGTTAT
1 GGTTTTTA-AGTTAAGGGTTAG
*
33977440 GGTTTTTAGGTTAAGGGTTAAAG
1 GGTTTTTAAGTTAAGGGTT--AG
33977463 GG-TTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
33977484 GG-TTTTAAGTTTAAGGGTTAG
1 GGTTTTTAAG-TTAAGGGTTAG
*
33977505 GGTTTTTAAATTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
33977526 GGTTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAAGTTAAG-GGTTAG
33977548 GG-TTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* * *
33977569 GATTTTTTAGGTTAAGGGTTTAT
1 G-GTTTTTAAGTTAAGGG-TTAG
*
33977592 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
33977613 AGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
33977634 GGTTAGGGTTTTAAGTTAAGGGTTTAG
1 GG-T----TTTTAAGTTAAGGG-TTAG
33977661 GGTTT
1 GGTTT
33977666 GTCAATTAAA
Statistics
Matches: 440, Mismatches: 54, Indels: 54
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.01
19 4 0.01
20 35 0.08
21 210 0.48
22 141 0.32
23 26 0.06
26 15 0.03
27 6 0.01
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:33977171 original size:43 final size:43
Alignment explanation
Indices: 33977123--33977665 Score: 585
Period size: 43 Copynumber: 12.6 Consensus size: 43
33977113 AATAGTTTAT
33977123 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
33977166 GGTTTTTAAGTTAAGGGTTTTA-GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTTAGGGTTTTTAAGTTAAGGG-TTAG
* *
33977210 GATTTTAAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
33977252 TGTTTTT-ATTTAAGGG-TTAGGG--TTTAAGTTTTAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG-TTAAGGGTTAG
* * * *
33977292 GGTTTTTAAATTAAAGGTTTAGGGTTTTTAAGTTAAGAGTTAA
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
33977335 GATTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
* * * * *
33977378 GGTTTTAAAGTTAAGGG-TTAGTGTTTTTTATTTAAGGG-TCG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
* * * * *
33977419 GG-GTTTAGGGTTTAGGG-TTATGGTTTTTAGGTTAAGGGTTAAAG
1 GGTTTTTA-AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT--AG
33977463 GG-TTTTAAGTTAAGGGTTTAGGG-TTTTAAGTTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG-TTAAGGGTTAG
* *
33977505 GGTTTTTAAATTAAGGG-TTAGGGTTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAG
* * *
33977548 GG-TTTTAAGTTAAGGGTTTAGGATTTTTTAGGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGGTTTAGG-GTTTTTAAGTTAAGGG-TTAG
* *
33977592 GGTTTTTAATTTAAGGG-TTAGAGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
33977634 GGTTAGGGTTTTAAGTTAAGGGTTTAGGGTTT
1 GG-T----TTTTAAGTTAAGGGTTTAGGGTTT
33977666 GTCAATTAAA
Statistics
Matches: 416, Mismatches: 57, Indels: 49
0.80 0.11 0.09
Matches are distributed among these distances:
39 6 0.01
40 19 0.05
41 48 0.12
42 68 0.16
43 170 0.41
44 71 0.17
45 13 0.03
47 13 0.03
48 8 0.02
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (43 bp):
GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAG
Found at i:33977645 original size:26 final size:28
Alignment explanation
Indices: 33977605--33977664 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
33977595 TTTTAATTTA
*
33977605 AGGGTTAGAGTTTTTAAGTTAAGGG-TT
1 AGGGTTAGAGGTTTTAAGTTAAGGGTTT
33977632 AGGGTTAG-GGTTTTAAGTTAAGGGTTT
1 AGGGTTAGAGGTTTTAAGTTAAGGGTTT
33977659 AGGGTT
1 AGGGTT
33977665 TGTCAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (28 bp):
AGGGTTAGAGGTTTTAAGTTAAGGGTTT
Found at i:33979096 original size:20 final size:20
Alignment explanation
Indices: 33979059--33979096 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33979049 TTTATTTTTA
*
33979059 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
33979079 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
33979097 TATCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:33980064 original size:11 final size:11
Alignment explanation
Indices: 33980042--33980097 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
33980032 AAATAGGGAT
33980042 TTAAGA-GAAA
1 TTAAGAGGAAA
33980052 TTAAGAGGAAA
1 TTAAGAGGAAA
* *
33980063 TTGAGAGCAAA
1 TTAAGAGGAAA
*
33980074 TTGAGAGGAAA
1 TTAAGAGGAAA
33980085 TTGAA-AGGAAA
1 TT-AAGAGGAAA
33980096 TT
1 TT
33980098 TGAGAGAGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
10 6 0.15
11 33 0.82
12 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.27, T:0.21
Consensus pattern (11 bp):
TTAAGAGGAAA
Found at i:33980074 original size:22 final size:21
Alignment explanation
Indices: 33980045--33980097 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
33980035 TAGGGATTTA
33980045 AGAGAAATTAAGAGGAAATTG
1 AGAGAAATTAAGAGGAAATTG
*
33980066 AGAGCAAATTGAGAGGAAATTG
1 AGAG-AAATTAAGAGGAAATTG
*
33980088 AAAGGAAATT
1 AGA-GAAATT
33980098 TGAGAGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 23 0.82
23 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.28, T:0.19
Consensus pattern (21 bp):
AGAGAAATTAAGAGGAAATTG
Found at i:33988329 original size:46 final size:46
Alignment explanation
Indices: 33988262--33988438 Score: 264
Period size: 46 Copynumber: 3.8 Consensus size: 46
33988252 AGTGTGGAAC
33988262 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
33988308 GTATGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * * * *
33988354 GTAGGTATGGCATTTTAGTAACGAAAGCCATAGTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
33988400 GTAGGTATGGTATTTCAATGAAGAAAACCATATTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
33988439 ATAGCGTTGT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:33990989 original size:17 final size:16
Alignment explanation
Indices: 33990967--33990998 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33990957 ATTTTTTTCC
33990967 TTATTCTATTACAACAT
1 TTATTCTATT-CAACAT
33990984 TTATTCTATTCAACA
1 TTATTCTATTCAACA
33990999 AAACAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATTCTATTCAACAT
Found at i:33998448 original size:23 final size:23
Alignment explanation
Indices: 33998422--33998483 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 23
33998412 AGTTTGGTTA
33998422 GGGTTAGGGTTTTTAATTAAATT
1 GGGTTAGGGTTTTTAATTAAATT
33998445 GGGTTAGGGTTAGGGTTTTAATTAAATT
1 GGGTTAGGG-T----TTTTAATTAAATT
33998473 GGGTTAGGGTT
1 GGGTTAGGGTT
33998484 AGGGTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 10 0.29
24 1 0.03
27 1 0.03
28 22 0.65
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.44
Consensus pattern (23 bp):
GGGTTAGGGTTTTTAATTAAATT
Found at i:33998574 original size:29 final size:29
Alignment explanation
Indices: 33997828--33998573 Score: 1032
Period size: 29 Copynumber: 25.6 Consensus size: 29
33997818 TGTAAGAAAT
*
33997828 AATTTGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33997857 AGTTAGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33997886 AATTTGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33997915 AATTGGGTTAGGGTTAAGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33997944 AATTGGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33997973 AATTGGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998002 AATTACGTTAGGGTTATGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998031 AGTTATGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998060 AATTAGGTTAGGGTTATGGTTTTAAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* * *
33998089 AGTTATGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998118 AATTAGGTTAGGGTTAGGG-TTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998146 AATT-GAGTTAGGGTTAGGGGTTTTAATTA
1 AATTAG-GTTAGGGTTAGGGTTTTTAATTA
* * *
33998175 AGTTTGGTTAGGGTTATGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998204 AGTTAGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998233 AGTTAGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
33998262 AATTAGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* * *
33998291 AGTTAGGTTAGGGTTGGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998320 AATT-GGGTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998348 AATTGGGTTAGGGTTAGGGTTTTTAATTGA
1 AATTAGGTTAGGGTTAGGGTTTTTAATT-A
*
33998378 ATTGTGTTAGGGTTAGGGTTAGGGTTTTTAATTA
1 A----ATTA-GGTTAGGGTTAGGGTTTTTAATTA
* *
33998412 AGTTTGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998441 AATTGGGTTAGGGTTAGGG-TTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998469 AATTGGGTTAGGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998498 AGTTAGGTTAGGGTTAGGGTTTTTAATTG
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
*
33998527 AATTAGGTTAGGGTTAGGATTTTTAATTA
1 AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
33998556 AATTGGGTTTGGGTTAGG
1 AATTAGGTTAGGGTTAGG
33998574 AATAAACTTC
Statistics
Matches: 648, Mismatches: 58, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
27 1 0.00
28 79 0.12
29 535 0.83
30 6 0.01
34 4 0.01
35 23 0.04
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (29 bp):
AATTAGGTTAGGGTTAGGGTTTTTAATTA
Found at i:33998662 original size:42 final size:43
Alignment explanation
Indices: 33998581--33998664 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
33998571 AGGAATAAAC
*
33998581 TTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAATT
1 TTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAATT
*
33998624 TTCTATTTT-TTACATAAAAATAATATCAAAAT-ATTCAAAAT
1 TTCTATTTTATTACAT-AAAATAATATCAAAATAACTCAAAAT
33998665 ATTTGTACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 14 0.37
43 24 0.63
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (43 bp):
TTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAATT
Found at i:33999060 original size:18 final size:18
Alignment explanation
Indices: 33999034--33999074 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
33999024 GGACTCGAAA
33999034 AAGGATACATATAAGGGT
1 AAGGATACATATAAGGGT
*
33999052 AAGGGTACATATAAGGGT
1 AAGGATACATATAAGGGT
*
33999070 TAGGA
1 AAGGA
33999075 AACGCACCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (18 bp):
AAGGATACATATAAGGGT
Found at i:33999740 original size:7 final size:7
Alignment explanation
Indices: 33999728--33999753 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33999718 TATACATAAT
33999728 AATACTA
1 AATACTA
33999735 AATACTA
1 AATACTA
33999742 AATACTA
1 AATACTA
33999749 AATAC
1 AATAC
33999754 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:34000959 original size:22 final size:22
Alignment explanation
Indices: 34000928--34001051 Score: 122
Period size: 22 Copynumber: 5.3 Consensus size: 22
34000918 AAATATGGAT
34000928 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
34000950 TTAAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
** * * *
34000972 TTGAGAGGAAATTGAAATTAAATATGGAT
1 TTGAGA-G-AATT----TTGGA-AGGAAA
34001001 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
34001023 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAGGAAA
34001045 TTGAGAG
1 TTGAGAG
34001052 GAAATATGAG
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
22 57 0.70
23 4 0.05
24 4 0.05
27 4 0.05
28 4 0.05
29 9 0.11
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:34000970 original size:73 final size:73
Alignment explanation
Indices: 34000892--34001056 Score: 303
Period size: 73 Copynumber: 2.3 Consensus size: 73
34000882 TATTTTAAAA
34000892 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
34000957 AATTTTGG
66 AATTTTGG
* *
34000965 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
34001030 AATTTTGG
66 AATTTTGG
*
34001038 AAAGAAATTGAGAGGAAAT
1 AAGGAAATTGAGAGGAAAT
34001057 ATGAGAGATG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 89 1.00
ACGTcount: A:0.45, C:0.01, G:0.28, T:0.27
Consensus pattern (73 bp):
AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
AATTTTGG
Found at i:34011957 original size:20 final size:20
Alignment explanation
Indices: 34011928--34011967 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34011918 CAAAACCCCA
34011928 AAAATCCACACACCCATGTG
1 AAAATCCACACACCCATGTG
* *
34011948 AAAATGCACACACCCGTGTG
1 AAAATCCACACACCCATGTG
34011968 CAAACCAGTG
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:0.38, C:0.33, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCCACACACCCATGTG
Found at i:34017137 original size:13 final size:13
Alignment explanation
Indices: 34017119--34017153 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
34017109 AGGGTCACAC
*
34017119 AGCCGTGTCGTCA
1 AGCCGTGTAGTCA
34017132 AGCCGTGTAGTCA
1 AGCCGTGTAGTCA
34017145 AGCCGTGTA
1 AGCCGTGTA
34017154 ACTCTCTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (13 bp):
AGCCGTGTAGTCA
Found at i:34017367 original size:10 final size:10
Alignment explanation
Indices: 34017354--34017386 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34017344 CAAACCTATT
34017354 CAAAATATGC
1 CAAAATATGC
34017364 CAAAATATGC
1 CAAAATATGC
*
34017374 CAAAATATAC
1 CAAAATATGC
34017384 CAA
1 CAA
34017387 TTCACAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.18
Consensus pattern (10 bp):
CAAAATATGC
Found at i:34023826 original size:2 final size:2
Alignment explanation
Indices: 34023819--34023858 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
34023809 TGCTATAAAC
*
34023819 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34023859 TTTGGTGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34025247 original size:6 final size:6
Alignment explanation
Indices: 34025236--34025265 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34025226 AGCCATAGAA
*
34025236 GTCATG GTCATG GTCATG GACATG GTCATG
1 GTCATG GTCATG GTCATG GTCATG GTCATG
34025266 TAGGACCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (6 bp):
GTCATG
Found at i:34041557 original size:3 final size:3
Alignment explanation
Indices: 34041549--34041586 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34041539 AAAGATAAAT
34041549 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
34041587 TAATAATAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:34043291 original size:44 final size:44
Alignment explanation
Indices: 34043197--34043509 Score: 272
Period size: 44 Copynumber: 7.0 Consensus size: 44
34043187 AACTTCAAAG
* * * * * * * *
34043197 GTAGTTTCATTCTTCTCCGCTGCAACTTTAAGGAGATGAGATTC
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* * * *
34043241 GTAGCTTCAATCTGCTCTACTGCTACTTCAGGGAGACAAGGTTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* * *
34043285 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATGAGACTCGCTAT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T---T-T
* * * * * * * *
34043334 GGTAGATTTAATCTAAC-CTACTGCATCTTTAGAGG-TATAGGATTT
1 -GTAGCTTCAATCT-GCTCCACTGCAACTTCAG-GGAGATAAGATTT
*
34043379 G-ACGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTT
1 GTA-GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* *
34043423 GTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* *
34043467 GTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
34043510 CGCTATGGTA
Statistics
Matches: 213, Mismatches: 44, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
43 4 0.02
44 172 0.81
45 3 0.01
46 1 0.00
48 1 0.00
49 2 0.01
50 26 0.12
51 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
Found at i:34043390 original size:94 final size:94
Alignment explanation
Indices: 34043282--34043654 Score: 417
Period size: 94 Copynumber: 4.0 Consensus size: 94
34043272 GGAGACAAGG
* * * * *
34043282 TTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATGAGACTCGCTATGGTAGATTTAATC
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTTAATC
* * *
34043347 TAACCTACTGCATCTTTAGAGGTATAGGA
66 TAACCCACTGCAACTTTAGGGGTATAGGA
*
34043376 TTTG-ACGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-T---T-T-GTAGCTTTAAT
1 TTTGTA-GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTTAAT
* * * *
34043434 CT-GCTCCACTACAACTTCAGGGAG-ATAAGA
65 CTAAC-CCACTGCAACTTTAGGG-GTATAGGA
* * *
34043464 TTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCTATGGTAGATTTAAT-
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTTAATC
* * *
34043528 TCATCCCACTGCGACTTTAGGGGTGTAGGA
66 T-AACCCACTGCAACTTTAGGGGTATAGGA
* * * *
34043558 TCTGTAGCTTAAATTTTCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT-GATTTCAAT
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTT-AAT
34043622 CTAACCCACTGCAACTTTAGGGGTATAGGA
65 CTAACCCACTGCAACTTTAGGGGTATAGGA
34043652 TTT
1 TTT
34043655 ATGGTTAGTT
Statistics
Matches: 231, Mismatches: 33, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
87 1 0.00
88 68 0.29
89 4 0.02
90 1 0.00
92 1 0.00
93 10 0.04
94 144 0.62
95 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (94 bp):
TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTTAATC
TAACCCACTGCAACTTTAGGGGTATAGGA
Found at i:34043523 original size:182 final size:182
Alignment explanation
Indices: 34043197--34043605 Score: 536
Period size: 182 Copynumber: 2.2 Consensus size: 182
34043187 AACTTCAAAG
* * * * * *
34043197 GTAGTTTCATTCTTCTCCGCTGCAACTTTAAGGAGATGAGATTCGTAGCTTCAATCTGCTCTACT
1 GTAGCTTCAATCTTCTCCACTGCAACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCACT
* * * *
34043262 GCTACTTCAGGGAGACAAGGTTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATGAGAC
66 ACAACTTCAGGGAGACAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGAC
* *
34043327 TCGCTATGGTAGATTTAA-TCTAACCTACTGC-ATCTTTAGAGGTATAGGATTT
131 TCGCTATGGTAGATTTAATTC-AACCCACTGCGA-CTTTAGAGGTATAGGATCT
* * *
34043379 G-ACGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
1 GTA-GCTTCAATCTTCTCCACTGCAACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCAC
* * ** *
34043443 TACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGA
65 TACAACTTCAGGGAGACAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA
* * * *
34043508 TTCGCTATGGTAGATTTAATTCATCCCACTGCGACTTTAGGGGTGTAGGATCT
130 CTCGCTATGGTAGATTTAATTCAACCCACTGCGACTTTAGAGGTATAGGATCT
* *
34043561 GTAGCTTAAATTTTCTCCACTGCAACTTCAAGGAGATAAGATTCG
1 GTAGCTTCAATCTTCTCCACTGCAACTTCAAGGAGATAAGATTCG
34043606 CTATGGTGAT
Statistics
Matches: 195, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
181 1 0.01
182 190 0.97
183 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (182 bp):
GTAGCTTCAATCTTCTCCACTGCAACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCACT
ACAACTTCAGGGAGACAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGAC
TCGCTATGGTAGATTTAATTCAACCCACTGCGACTTTAGAGGTATAGGATCT
Found at i:34055877 original size:7 final size:7
Alignment explanation
Indices: 34055865--34055900 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
34055855 TGATATATAT
34055865 AATAAAA
1 AATAAAA
34055872 AATAAAA
1 AATAAAA
34055879 AATAAAA
1 AATAAAA
34055886 AATAAAA
1 AATAAAA
34055893 AATAAAA
1 AATAAAA
34055900 A
1 A
34055901 TGTCATGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:34056327 original size:61 final size:61
Alignment explanation
Indices: 34056262--34056376 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
34056252 ATTACTAAGG
* * *
34056262 ACTAAAATGTAACACGTG-AAAAAGAACAGGGGCCGAATAGGAATATATTCCCAAATAAATT
1 ACTAAAATATAACACGCGAAAAAAGAACAGGGG-CGAATAGGAAAATATTCCCAAATAAATT
* *
34056323 ACTAAAATATAACGCGCGAAAAAAGAACAGGGGCGAATGGGAAAATATTCCCAA
1 ACTAAAATATAACACGCGAAAAAAGAACAGGGGCGAATAGGAAAATATTCCCAA
34056377 CCCTAGGACA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
61 34 0.71
62 14 0.29
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.17
Consensus pattern (61 bp):
ACTAAAATATAACACGCGAAAAAAGAACAGGGGCGAATAGGAAAATATTCCCAAATAAATT
Found at i:34057559 original size:15 final size:14
Alignment explanation
Indices: 34057534--34057579 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
34057524 GGACTTGAAT
34057534 TTTTTATTTTTTGG
1 TTTTTATTTTTTGG
* *
34057548 TTTTTATGTTTTGT
1 TTTTTATTTTTTGG
34057562 TTATTTA-TTTTTGG
1 TT-TTTATTTTTTGG
34057576 TTTT
1 TTTT
34057580 AGGCCGGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 21 0.78
15 4 0.15
ACGTcount: A:0.09, C:0.00, G:0.13, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTGG
Found at i:34057676 original size:41 final size:41
Alignment explanation
Indices: 34057619--34057739 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
34057609 GGTCCGGTTG
*
34057619 GTGGACCCGAGTAATAAGATACTAAGATAGAGTTCAACAAT
1 GTGGACCCGAGTAATAAGATACTAAGACAGAGTTCAACAAT
34057660 GTGGACCCGAGTAATAAGATACTAAGACAGAGTTCAACAAT
1 GTGGACCCGAGTAATAAGATACTAAGACAGAGTTCAACAAT
* **
34057701 GTGGACCTGAGTAATAAGATGTTAAGACA-A-TTCAACAAT
1 GTGGACCCGAGTAATAAGATACTAAGACAGAGTTCAACAAT
34057740 CAACATATAC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 9 0.12
40 1 0.01
41 66 0.87
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (41 bp):
GTGGACCCGAGTAATAAGATACTAAGACAGAGTTCAACAAT
Found at i:34063754 original size:94 final size:95
Alignment explanation
Indices: 34063589--34063835 Score: 320
Period size: 94 Copynumber: 2.6 Consensus size: 95
34063579 ATTAAGGCTT
* * *
34063589 GTTGATTTATGATCACAGCCTAAGTTCATTTATTTACGATCATAAACAATCTTT-TATGAGTTAA
1 GTTGATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATCTTTCTATGAGTTAA
* * **
34063653 CTAATTTACTATCGCTACTTCAAACAGTTC
66 CTAATTTACTATCACTACTCCAAACAACTC
** * * *
34063683 GTTGATTTACAATCACAACCTAAGTTCATTGATTTATGACCATGAACAAT-TTTCTATGAGTTAG
1 GTTGATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATCTTTCTATGAGTTAA
*
34063747 CTGATTTACTATCACTACTCCAAACAACTC
66 CTAATTTACTATCACTACTCCAAACAACTC
* * * *
34063777 GTTGATTTATGATCATAGCCTAAATTCATTGATTTGTGATCATGAATAATCTTTC-ATGA
1 GTTGATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATCTTTCTATGA
34063836 TTTTATTTGT
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
93 3 0.02
94 123 0.95
95 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (95 bp):
GTTGATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATCTTTCTATGAGTTAA
CTAATTTACTATCACTACTCCAAACAACTC
Found at i:34076194 original size:25 final size:23
Alignment explanation
Indices: 34076158--34076205 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 23
34076148 GAAAAAAAAA
34076158 AGAAAAAAATTTGTTTAATAGGT
1 AGAAAAAAATTTGTTTAATAGGT
34076181 AGAAAAAAGTATTTGTTTAATAGGT
1 AGAAAAAA--ATTTGTTTAATAGGT
34076206 GTAACTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAAAAAAATTTGTTTAATAGGT
Found at i:34077441 original size:6 final size:6
Alignment explanation
Indices: 34077430--34077456 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34077420 TTTTTTTTTC
34077430 CTATCA CTATCA CTATCA CTATCA CTA
1 CTATCA CTATCA CTATCA CTATCA CTA
34077457 GTATTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
CTATCA
Found at i:34079193 original size:20 final size:18
Alignment explanation
Indices: 34079146--34079194 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34079136 CAAGATAAAC
34079146 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34079163 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34079183 ATTAAATTAATA
1 ATTAAATTAATA
34079195 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34081688 original size:23 final size:24
Alignment explanation
Indices: 34081658--34081728 Score: 87
Period size: 23 Copynumber: 3.1 Consensus size: 24
34081648 TATTGATCAA
34081658 TGGTAGCTTCAG-CTACATTTCAG
1 TGGTAGCTTCAGACTACATTTCAG
*
34081681 TGGTAGC-T-ATGTCTACATTTCAG
1 TGGTAGCTTCA-GACTACATTTCAG
*
34081704 TGGTAGCTTC-GACTACATATCAG
1 TGGTAGCTTCAGACTACATTTCAG
34081727 TG
1 TG
34081729 TGGCACTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.02
22 2 0.05
23 38 0.90
24 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (24 bp):
TGGTAGCTTCAGACTACATTTCAG
Found at i:34082926 original size:46 final size:47
Alignment explanation
Indices: 34082874--34082988 Score: 119
Period size: 49 Copynumber: 2.4 Consensus size: 47
34082864 GACAAAAAAT
*
34082874 ACCATAGATGAACTATGGCA-ATA-AGTGATATGTAATT-CTGTGTAAG
1 ACCATAGATGGACTATGGCACATATA-TGATATGTAATTAC-GTGTAAG
* * * *
34082920 ACCATAGCTGGGCTATGGCATCGGTATATGTTATGTAATTACGTGTAAG
1 ACCATAGATGGACTATGGCA-C-ATATATGATATGTAATTACGTGTAAG
*
34082969 ACCATAGTTGGACTATGGCA
1 ACCATAGATGGACTATGGCA
34082989 TTGAGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 17 0.30
49 38 0.67
50 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (47 bp):
ACCATAGATGGACTATGGCACATATATGATATGTAATTACGTGTAAG
Found at i:34084067 original size:23 final size:23
Alignment explanation
Indices: 34084019--34084084 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
34084009 ACATTATAGG
* * * *
34084019 ATGCGTCACAAAGGTTTTACAGA
1 ATGCGCCACAAAGGCTTAACAAA
34084042 ATGCGCCACAAAGGCTTAACAAA
1 ATGCGCCACAAAGGCTTAACAAA
* *
34084065 ATG-ACTACAAAGGCTTAACA
1 ATGCGCCACAAAGGCTTAACA
34084085 GAACATTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (23 bp):
ATGCGCCACAAAGGCTTAACAAA
Found at i:34088318 original size:14 final size:14
Alignment explanation
Indices: 34088299--34088326 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34088289 CGAATCTCTC
34088299 ACAGTTGATGAGGT
1 ACAGTTGATGAGGT
34088313 ACAGTTGATGAGGT
1 ACAGTTGATGAGGT
34088327 CTATGATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
ACAGTTGATGAGGT
Found at i:34093273 original size:24 final size:23
Alignment explanation
Indices: 34093211--34093273 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 23
34093201 TAGTGTTAGG
*
34093211 TTAGATTTTCTTTTCTTTTCGTTT
1 TTAGATTAT-TTTTCTTTTCGTTT
*
34093235 TTAGATTGGGTTTTTCCTTTTC-TTT
1 TTAGATT--ATTTTT-CTTTTCGTTT
34093260 TTAGATTATATTTT
1 TTAGATTAT-TTTT
34093274 AATTTTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.33
25 14 0.42
26 7 0.21
ACGTcount: A:0.13, C:0.10, G:0.11, T:0.67
Consensus pattern (23 bp):
TTAGATTATTTTTCTTTTCGTTT
Found at i:34093273 original size:25 final size:25
Alignment explanation
Indices: 34093221--34093273 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
34093211 TTAGATTTTC
* *
34093221 TTTTCTTTTCGTTTTTAGATTGGGT
1 TTTTCTTTTCGTTTTTAGATTAGAT
*
34093246 TTTTCCTTTTC-TTTTTAGATTATAT
1 TTTT-CTTTTCGTTTTTAGATTAGAT
34093271 TTT
1 TTT
34093274 AATTTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.68
Consensus pattern (25 bp):
TTTTCTTTTCGTTTTTAGATTAGAT
Found at i:34099045 original size:90 final size:88
Alignment explanation
Indices: 34098937--34099102 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 88
34098927 ATTTATTTAT
* * * **
34098937 TTGGGTATTTAAACTTTCAAAATGCATAAAAAAGGCCCTCAAATCTTTTAAAAAAAAGTCAATTA
1 TTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAA-C-TTAAAAAAAAAAACAATTA
34099002 AGCCCCTACTTTTTTTTACACTCAC
64 AGCCCCTACTTTTTTTTACACTCAC
* * *
34099027 TTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCTTCAAACTTAAAAAAAAAAACAATTAAG
1 TTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTAAAAAAAAAAACAATTAAG
*
34099092 CCCCTTCTTTT
66 CCCCTACTTTT
34099103 ATTAAAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 28 0.42
89 1 0.01
90 38 0.57
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (88 bp):
TTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTAAAAAAAAAAACAATTAAG
CCCCTACTTTTTTTTACACTCAC
Found at i:34099209 original size:18 final size:19
Alignment explanation
Indices: 34099176--34099219 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34099166 TTAAAAAATT
*
34099176 TATAAAAATTCG-AAAAGA
1 TATAAAAATTCGAAAAAAA
34099194 TATAAAAA-TCGTAAAAAAA
1 TATAAAAATTCG-AAAAAAA
34099213 TATAAAA
1 TATAAAA
34099220 TTTTATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 8 0.35
19 12 0.52
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
TATAAAAATTCGAAAAAAA
Found at i:34099496 original size:39 final size:37
Alignment explanation
Indices: 34099425--34099547 Score: 88
Period size: 39 Copynumber: 3.2 Consensus size: 37
34099415 GTCATTTATT
* * *
34099425 TTTTTTATGATTTTTAT-AAAATTTTACAAATTTTTTTA
1 TTTTTTA-AATTTTTATAAAAAATTT-CTAATTTTTTTA
**
34099463 TTTTTTAAAGTTTTTTATAAAAAATTTCTAATTTCTAGTAAA
1 TTTTTTAAA--TTTTTATAAAAAATTTCTAATTT-T--TTTA
* * *
34099505 TTTTTTAAATTTTTA-ATAAAATTTATGATTTTTTTA
1 TTTTTTAAATTTTTATAAAAAATTTCTAATTTTTTTA
34099541 TTATTTT
1 TT-TTTT
34099548 TTTCTAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
36 4 0.06
37 5 0.07
38 8 0.12
39 26 0.38
40 14 0.21
42 11 0.16
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (37 bp):
TTTTTTAAATTTTTATAAAAAATTTCTAATTTTTTTA
Found at i:34100028 original size:31 final size:31
Alignment explanation
Indices: 34099990--34100050 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
34099980 TCAAATGAAT
*
34099990 ATTATTAAAATAAGAGATTATGGCTAGATTC
1 ATTATTAAAATAAGAGATTATAGCTAGATTC
34100021 ATTATTAAAATAAGAGATTATAGCTAGATT
1 ATTATTAAAATAAGAGATTATAGCTAGATT
34100051 TATTTTGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (31 bp):
ATTATTAAAATAAGAGATTATAGCTAGATTC
Found at i:34104090 original size:15 final size:15
Alignment explanation
Indices: 34104070--34104116 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
34104060 TCATTTTAAA
34104070 AAAAAATGAAAAAAT
1 AAAAAATGAAAAAAT
* *
34104085 AAAAAATAAAAAAAA
1 AAAAAATGAAAAAAT
34104100 ACAAAATATGAAAAAAT
1 A-AAAA-ATGAAAAAAT
34104117 TTAGTACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 4 0.15
17 8 0.31
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:34104113 original size:25 final size:25
Alignment explanation
Indices: 34104066--34104116 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
34104056 ACTTTCATTT
*
34104066 TAAAAAAAAATGAAAAAATAAAAAA
1 TAAAAAAAAATCAAAAAATAAAAAA
*
34104091 TAAAAAAAAA-CAAAATATGAAAAAA
1 TAAAAAAAAATCAAAAAAT-AAAAAA
34104116 T
1 T
34104117 TTAGTACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (25 bp):
TAAAAAAAAATCAAAAAATAAAAAA
Found at i:34104504 original size:30 final size:30
Alignment explanation
Indices: 34104469--34104554 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
34104459 CACTGCCTGT
34104469 CCACACGGCCGTGTGGCGTACATGGCCAGG
1 CCACACGGCCGTGTGGCGTACATGGCCAGG
34104499 CCACACGGCCGTGTGGCGTACATGGCCAGG
1 CCACACGGCCGTGTGGCGTACATGGCCAGG
*
34104529 CCACACGGCCATGTGGC-TCACATGGC
1 CCACACGGCCGTGTGGCGT-ACATGGC
34104555 ATGGCACATG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.14
Consensus pattern (30 bp):
CCACACGGCCGTGTGGCGTACATGGCCAGG
Found at i:34104693 original size:10 final size:10
Alignment explanation
Indices: 34104649--34104693 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
34104639 AATTTTATAT
34104649 TTTTATTTAT-
1 TTTTATTT-TG
*
34104659 TTTTATTTTA
1 TTTTATTTTG
34104669 TTTTATTTTG
1 TTTTATTTTG
34104679 TTTTTATTTTG
1 -TTTTATTTTG
34104690 TTTT
1 TTTT
34104694 TGTTTTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 1 0.03
10 21 0.66
11 10 0.31
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.82
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:34104700 original size:12 final size:12
Alignment explanation
Indices: 34104669--34104719 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
34104659 TTTTATTTTA
34104669 TTTT-ATTTTGT
1 TTTTGATTTTGT
34104680 TTTT-ATTTTGT
1 TTTTGATTTTGT
*
34104691 TTTTGTTTTTGT
1 TTTTGATTTTGT
*
34104703 TTTTGCTTTTGCT
1 TTTTGATTTTG-T
34104716 TTTT
1 TTTT
34104720 TTGTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 15 0.42
12 16 0.44
13 5 0.14
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.80
Consensus pattern (12 bp):
TTTTGATTTTGT
Found at i:34104733 original size:12 final size:11
Alignment explanation
Indices: 34104648--34104752 Score: 78
Period size: 11 Copynumber: 9.9 Consensus size: 11
34104638 TAATTTTATA
*
34104648 TTTTTA-TTTA
1 TTTTTATTTTG
34104658 TTTTTATTTT-
1 TTTTTATTTTG
*
34104668 ATTTTATTTTG
1 TTTTTATTTTG
34104679 TTTTTATTTTG
1 TTTTTATTTTG
*
34104690 TTTTTGTTTTTG
1 TTTTT-ATTTTG
*
34104702 TTTTTGCTTTTG
1 TTTTT-ATTTTG
*
34104714 -CTTT-TTTTG
1 TTTTTATTTTG
*
34104723 TTTTTAATTT-
1 TTTTTATTTTG
**
34104733 TAATT-TTTTG
1 TTTTTATTTTG
34104743 TTTTTATTTT
1 TTTTTATTTT
34104753 ATTCTGCAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
9 8 0.11
10 24 0.32
11 28 0.37
12 16 0.21
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTG
Found at i:34104746 original size:19 final size:20
Alignment explanation
Indices: 34104716--34104753 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34104706 TGCTTTTGCT
34104716 TTTTTTGTTTTTAATTTTAA
1 TTTTTTGTTTTTAATTTTAA
34104736 TTTTTTGTTTTT-ATTTTA
1 TTTTTTGTTTTTAATTTTA
34104754 TTCTGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTGTTTTTAATTTTAA
Found at i:34105776 original size:7 final size:7
Alignment explanation
Indices: 34105772--34105812 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
34105762 AAAAAAAATA
34105772 AAAAAAG
1 AAAAAAG
34105779 AAAAAAAG
1 -AAAAAAG
34105787 AAAAAAG
1 AAAAAAG
34105794 AAAAAAG
1 AAAAAAG
34105801 AAAAAAG
1 AAAAAAG
34105808 AAAAA
1 AAAAA
34105813 TATATATCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:34105776 original size:8 final size:8
Alignment explanation
Indices: 34105763--34105812 Score: 70
Period size: 7 Copynumber: 6.6 Consensus size: 8
34105753 AATCAAAGGA
*
34105763 AAAAAAAT
1 AAAAAAAG
34105771 AAAAAAAG
1 AAAAAAAG
34105779 AAAAAAAG
1 AAAAAAAG
34105787 -AAAAAAG
1 AAAAAAAG
34105794 -AAAAAAG
1 AAAAAAAG
34105801 -AAAAAAG
1 AAAAAAAG
34105808 AAAAA
1 AAAAA
34105813 TATATATCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 21 0.52
8 19 0.47
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:34121795 original size:17 final size:17
Alignment explanation
Indices: 34121769--34121813 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
34121759 CATGTGGTGC
34121769 ATTT-AAAATATGTTTG
1 ATTTGAAAATATGTTTG
34121785 ATTTGAAAATATGTTTG
1 ATTTGAAAATATGTTTG
34121802 ATTTGAAAATAT
1 ATTTGAAAATAT
34121814 AAGTGATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
ATTTGAAAATATGTTTG
Found at i:34121820 original size:17 final size:17
Alignment explanation
Indices: 34121783--34121821 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
34121773 AAAATATGTT
***
34121783 TGATTTGAAAATATGTT
1 TGATTTGAAAATATAAG
34121800 TGATTTGAAAATATAAG
1 TGATTTGAAAATATAAG
34121817 TGATT
1 TGATT
34121822 ATATGATTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TGATTTGAAAATATAAG
Found at i:34122668 original size:42 final size:42
Alignment explanation
Indices: 34122590--34122669 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
34122580 ATGACACGAT
* **
34122590 CGTGTGACCCAAGTCAGTGAGTTACACGAGTTGAGACATTGC
1 CGTGTGACCCAAGTCAATGAGTTACACGAGCGGAGACATTGC
* * *
34122632 CGTGTGTCTCAAGTCAATGTGTTACACGAGCGGAGACA
1 CGTGTGACCCAAGTCAATGAGTTACACGAGCGGAGACA
34122670 CAAGCTTGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (42 bp):
CGTGTGACCCAAGTCAATGAGTTACACGAGCGGAGACATTGC
Found at i:34132153 original size:17 final size:17
Alignment explanation
Indices: 34132131--34132187 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
34132121 CAAATTAGCA
34132131 TCCCACTACTAACCACC
1 TCCCACTACTAACCACC
**
34132148 T-CC-C-ACTAACCATAA
1 TCCCACTACTAACCA-CC
34132163 TCCCACTACTAACCACC
1 TCCCACTACTAACCACC
*
34132180 TCGCACTA
1 TCCCACTA
34132188 ACCAGAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 2 0.06
16 4 0.13
17 9 0.29
18 8 0.26
ACGTcount: A:0.32, C:0.47, G:0.02, T:0.19
Consensus pattern (17 bp):
TCCCACTACTAACCACC
Found at i:34132171 original size:32 final size:32
Alignment explanation
Indices: 34132130--34132199 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
34132120 ACAAATTAGC
*
34132130 ATCCCACTACTAACCACCTCCCACTAACCATA
1 ATCCCACTACTAACCACCTCCCACTAACCAGA
*
34132162 ATCCCACTACTAACCACCTCGCACTAACCAGA
1 ATCCCACTACTAACCACCTCCCACTAACCAGA
34132194 ATCCCA
1 ATCCCA
34132200 ACATGACCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.46, G:0.03, T:0.17
Consensus pattern (32 bp):
ATCCCACTACTAACCACCTCCCACTAACCAGA
Found at i:34135019 original size:13 final size:13
Alignment explanation
Indices: 34135001--34135025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34134991 TAATTTTTTT
34135001 TCTATCTTAATTA
1 TCTATCTTAATTA
34135014 TCTATCTTAATT
1 TCTATCTTAATT
34135026 GCTTTCTTTA
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:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTATCTTAATTA
Found at i:34138342 original size:20 final size:20
Alignment explanation
Indices: 34138319--34138363 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34138309 GATATGCATT
*
34138319 CAGGGGTACGGAAGTACAAA
1 CAGGGGCACGGAAGTACAAA
* * *
34138339 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACGGAAGTACAAA
34138359 CAGGG
1 CAGGG
34138364 TATAATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.38, T:0.11
Consensus pattern (20 bp):
CAGGGGCACGGAAGTACAAA
Found at i:34149415 original size:126 final size:126
Alignment explanation
Indices: 34149254--34149526 Score: 377
Period size: 126 Copynumber: 2.2 Consensus size: 126
34149244 AGATTAGGGT
* * * * * *
34149254 TGGACGCACTTTTGTTATAGTAGCTC-CTAAAAAAATAATTTTAAGTAGACTTTTCTGAGCAAAC
1 TGGACGCGCTTTTGCTACAGTAGCTCTC-GAAAAAATAATTTTAAGCAGACGTTTCTGAGCAAAC
* * *
34149318 AGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTTAGCAGAAGTACTGAAAAAAGCTCCTACG
65 AGTGTCAAAAACACTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
* * *
34149380 TGGATGCGCTTTTGCTACAGTAGCTCTCGAAAAAATAATTTTGAGCGGACGTTTCTGAGCAAACA
1 TGGACGCGCTTTTGCTACAGTAGCTCTCGAAAAAATAATTTTAAGCAGACGTTTCTGAGCAAACA
* * * * *
34149445 GTGTCAAAAACATTTTAAGGAGGATGCTTTGTCAGCAGAAGTATTGAAAGAAGCTCCCACG
66 GTGTCAAAAACACTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
34149506 TGGACGCGCTTTTGCTACAGT
1 TGGACGCGCTTTTGCTACAGT
34149527 GGCGCATGGC
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
126 127 0.99
127 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (126 bp):
TGGACGCGCTTTTGCTACAGTAGCTCTCGAAAAAATAATTTTAAGCAGACGTTTCTGAGCAAACA
GTGTCAAAAACACTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTCCCACG
Found at i:34152314 original size:26 final size:26
Alignment explanation
Indices: 34152278--34152333 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
34152268 TTTCTCGAAG
34152278 TTTTACCAGGGGCAAAATCGTCAAAA
1 TTTTACCAGGGGCAAAATCGTCAAAA
* * *
34152304 TTTTACTAGGGGTAAAATTGTCAAAA
1 TTTTACCAGGGGCAAAATCGTCAAAA
34152330 TTTT
1 TTTT
34152334 GCTACAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (26 bp):
TTTTACCAGGGGCAAAATCGTCAAAA
Found at i:34152346 original size:26 final size:26
Alignment explanation
Indices: 34152289--34152347 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
34152279 TTTACCAGGG
***
34152289 GCAAAATCGTCAAAATTTTACTAGGG
1 GCAAAATCGTCAAAATTTTACTACAA
* * *
34152315 GTAAAATTGTCAAAATTTTGCTACAA
1 GCAAAATCGTCAAAATTTTACTACAA
34152341 GCAAAAT
1 GCAAAAT
34152348 AGGGATGATA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (26 bp):
GCAAAATCGTCAAAATTTTACTACAA
Found at i:34153978 original size:17 final size:17
Alignment explanation
Indices: 34153948--34153981 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34153938 AGTGTGATAT
*
34153948 AACTCTAACAAGCTTCC
1 AACTCGAACAAGCTTCC
*
34153965 AACTCGAACGAGCTTCC
1 AACTCGAACAAGCTTCC
34153982 GATTCGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (17 bp):
AACTCGAACAAGCTTCC
Found at i:34160077 original size:22 final size:22
Alignment explanation
Indices: 34160026--34160078 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
34160016 CCAAGTGATG
* *
34160026 AAAACGTGAAACTTAAACTAAC
1 AAAACATGAAACTGAAACTAAC
* **
34160048 AAAGCATGAAACTGAAACTAGT
1 AAAACATGAAACTGAAACTAAC
34160070 AAAACATGA
1 AAAACATGA
34160079 CTCTATGACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.17
Consensus pattern (22 bp):
AAAACATGAAACTGAAACTAAC
Found at i:34160570 original size:110 final size:112
Alignment explanation
Indices: 34160428--34160640 Score: 290
Period size: 110 Copynumber: 1.9 Consensus size: 112
34160418 CCAATTTCCG
* * * * * *
34160428 TATAAGTACGCCTTTTTGGTTGTTTTTGTTAAAGGAATA-CCTTTGTGGAAAATCTCTAATGAGG
1 TATAAGTACGCCTTTGTGGTTGTTTGTATTAAAGGAA-AGCCTTTGTGCAAAATATCTAATAAGG
* *
34160492 AA-A-CTTTATGGTAATCTATAAGGAGACGCCTTTGTGGAAATTTTCA
65 AATACCTTTATGGTAATCTATAAGGAAACACCTTTGTGGAAATTTTCA
* *
34160538 TATAAGTGA-GCCTTTGTGGTTGTTTGTATTAAAGGAAAGCCTTTGTGCTAAATATCTGATAAGG
1 TATAAGT-ACGCCTTTGTGGTTGTTTGTATTAAAGGAAAGCCTTTGTGCAAAATATCTAATAAGG
34160602 AATACCTTTATGGTAATCTATAAGGAAACACCTTTGTGG
65 AATACCTTTATGGTAATCTATAAGGAAACACCTTTGTGG
34160641 CGCAATCTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
109 1 0.01
110 54 0.61
111 2 0.02
112 32 0.36
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (112 bp):
TATAAGTACGCCTTTGTGGTTGTTTGTATTAAAGGAAAGCCTTTGTGCAAAATATCTAATAAGGA
ATACCTTTATGGTAATCTATAAGGAAACACCTTTGTGGAAATTTTCA
Found at i:34160821 original size:138 final size:137
Alignment explanation
Indices: 34160519--34160832 Score: 393
Period size: 138 Copynumber: 2.3 Consensus size: 137
34160509 ATAAGGAGAC
* * * * *
34160519 GCCTTTGTGGAAATTTTCATATAAGTGAGCCTTTGTGGTTGTTTGTATTAAAGGAAAGCCTTTGT
1 GCCTTTATGGAAATTTTC-TAAAAGTGAGTCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTGT
* *
34160584 GCTAAATATCTGATAAGGAATACCTTTATGGTAATCTATAAGGAAACACCTTTGTGGCGCAATCT
65 GCAAAATATCTGATAAGGAATACATTTATGGTAATCTATAAGGAAACACCTTTGTGGCGCAATCT
34160649 AAAGAAGT
130 AAAGAAGT
* * * *
34160657 GCTTTTATGGTAA-TTTCTATACAAGTGAGTCGTTGTGGTTGTTTATGTTAAAGGAATGCCTTTG
1 GCCTTTATGGAAATTTTCTA-A-AAGTGAGTCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTG
* * * * *
34160721 TGGAAAATTTAT-TG-TAAGGAATATATTTATGGTAATTTATAAGGAAACACTTTTTTGGCGCAA
64 TGCAAAA--TATCTGATAAGGAATACATTTATGGTAATCTATAAGGAAACACCTTTGTGGCGCAA
34160784 TCTAAAGAAGT
127 TCTAAAGAAGT
34160795 GCCTTTATGGAAATTTTCGTAAAAGTGAGT-GTTTGTGG
1 GCCTTTATGGAAATTTTC-TAAAAGTGAGTCG-TTGTGG
34160833 CTATCTCTAA
Statistics
Matches: 151, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
136 2 0.01
137 5 0.03
138 132 0.87
139 7 0.05
140 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (137 bp):
GCCTTTATGGAAATTTTCTAAAAGTGAGTCGTTGTGGTTGTTTATATTAAAGGAAAGCCTTTGTG
CAAAATATCTGATAAGGAATACATTTATGGTAATCTATAAGGAAACACCTTTGTGGCGCAATCTA
AAGAAGT
Found at i:34162557 original size:12 final size:12
Alignment explanation
Indices: 34162540--34162564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34162530 GCTTTCTTGT
34162540 TTAAAGGATGAA
1 TTAAAGGATGAA
34162552 TTAAAGGATGAA
1 TTAAAGGATGAA
34162564 T
1 T
34162565 GGGAGCAAGG
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAAAGGATGAA
Found at i:34178030 original size:59 final size:59
Alignment explanation
Indices: 34177938--34178058 Score: 217
Period size: 59 Copynumber: 2.1 Consensus size: 59
34177928 ATAAGTTAAA
34177938 CAAGTTGAGACATGCTCAGCAATTTCCCTTTTCATGTC-AAACCACCAATAAGAGCCCTT
1 CAAGTTGAGACATGCTCAGCAATTTCCCTTTTCAT-TCTAAACCACCAATAAGAGCCCTT
*
34177997 CAAGTTGAGACATGCTCAGCAATTTCCCTTTTCATTCTAGACCACCAATAAGAGCCCTT
1 CAAGTTGAGACATGCTCAGCAATTTCCCTTTTCATTCTAAACCACCAATAAGAGCCCTT
34178056 CAA
1 CAA
34178059 ATCTTTGTAC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 2 0.03
59 58 0.97
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (59 bp):
CAAGTTGAGACATGCTCAGCAATTTCCCTTTTCATTCTAAACCACCAATAAGAGCCCTT
Found at i:34179582 original size:23 final size:23
Alignment explanation
Indices: 34179556--34179601 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34179546 CTACAATATA
*
34179556 CAAAAAATATTAAAAATGACAAC
1 CAAAAAATATTAAAAACGACAAC
*
34179579 CAAATAATATTAAAAACGACAAC
1 CAAAAAATATTAAAAACGACAAC
34179602 AGAACAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.15, G:0.04, T:0.17
Consensus pattern (23 bp):
CAAAAAATATTAAAAACGACAAC
Found at i:34179653 original size:12 final size:12
Alignment explanation
Indices: 34179626--34179687 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
34179616 AACAACTGTG
*
34179626 AAACAACA-ATA
1 AAACAACACAAA
34179637 AAACAACACAAA
1 AAACAACACAAA
*
34179649 AAACAACACCAA
1 AAACAACACAAA
* *
34179661 CAACAACAC-CA
1 AAACAACACAAA
* *
34179672 AAATAGCACAAA
1 AAACAACACAAA
34179684 AAAC
1 AAAC
34179688 CTGCAAGATG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
11 15 0.38
12 25 0.62
ACGTcount: A:0.68, C:0.27, G:0.02, T:0.03
Consensus pattern (12 bp):
AAACAACACAAA
Found at i:34184241 original size:22 final size:21
Alignment explanation
Indices: 34184192--34184243 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
34184182 AATAATTATG
*
34184192 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
34184212 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
34184235 TTAATATTA
1 TTAATATTA
34184244 AGAATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:34184271 original size:121 final size:120
Alignment explanation
Indices: 34184094--34184317 Score: 412
Period size: 121 Copynumber: 1.9 Consensus size: 120
34184084 ATTTACAAAA
* *
34184094 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTATTAAATTATAT
34184159 ATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
66 ATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
*
34184214 ATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTTATTAAATTATA
1 ATATATTATGATTTTAGTAAATTAATA-TAAGAATATCTAATATTAAGAATTTTATTAAATTATA
34184279 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
65 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
34184318 ATATGATTAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 25 0.25
121 75 0.75
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
ATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTATTAAATTATAT
ATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
Found at i:34184556 original size:16 final size:16
Alignment explanation
Indices: 34184532--34184568 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34184522 TTGAATTGCT
*
34184532 ATTACGCCTCTATTCC
1 ATTATGCCTCTATTCC
34184548 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
34184564 ATTAT
1 ATTAT
34184569 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTATGCCTCTATTCC
Found at i:34186322 original size:12 final size:10
Alignment explanation
Indices: 34186293--34186317 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34186283 AAGAAAAATG
34186293 TTTTTGAATT
1 TTTTTGAATT
34186303 TTTTTGAATT
1 TTTTTGAATT
34186313 TTTTT
1 TTTTT
34186318 TTGAAACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTGAATT
Found at i:34189750 original size:74 final size:75
Alignment explanation
Indices: 34189606--34189758 Score: 175
Period size: 74 Copynumber: 2.1 Consensus size: 75
34189596 GGATCTATAA
* * ** ** *
34189606 TATGCAAATATACATGTATATGTTCTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATAT
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATAG
34189671 GAGGTTCAAT
66 GAGGTTCAAT
* * * *
34189681 TATGCAAATATGCATGTATATGTT-TTGTAATGAGTTTAAGTATGAAATTTATATATGTACA-AG
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATA-
*
34189744 GGAGGTTCGAT
65 GGAGGTTCAAT
34189755 TATG
1 TATG
34189759 TATGTATATT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
73 1 0.02
74 41 0.63
75 23 0.35
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (75 bp):
TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTACATAG
GAGGTTCAAT
Found at i:34190114 original size:41 final size:41
Alignment explanation
Indices: 34190063--34190223 Score: 241
Period size: 41 Copynumber: 3.9 Consensus size: 41
34190053 TCAGGTTTAT
*
34190063 TGCTAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
1 TGCTGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
* * * * *
34190104 TGCCGATGAAACATTTCAAACTTTATGTATAGCAGGCTTGA
1 TGCTGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
*
34190145 TGCTGGTGAAACATTTCAGACTGTACGTCTAGCAGGCTTGA
1 TGCTGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
* *
34190186 CGCTGGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 TGCTGGTGAAACATTTCAGACTTTACGTCTAGCAGGCT
34190224 AAGTGCCAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
TGCTGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
Found at i:34198127 original size:41 final size:41
Alignment explanation
Indices: 34198081--34198222 Score: 221
Period size: 41 Copynumber: 3.5 Consensus size: 41
34198071 TTTATTGCTA
* *
34198081 GTGAAACATTTCAGACTTTACATCTAGCAGGCTTGATGCCA
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCG
* *
34198122 ATGAAACATTTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCG
* * *
34198163 GTGAAACATTTCAGGCTTTACGTCTAGCAGGCTTGACGCTG
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCG
34198204 GTGAAACATTTCAGACTTT
1 GTGAAACATTTCAGACTTT
34198223 GTTTATTAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGATGCCG
Found at i:34198243 original size:19 final size:19
Alignment explanation
Indices: 34198219--34198255 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
34198209 ACATTTCAGA
34198219 CTTTGTTTATTAAAAATGT
1 CTTTGTTTATTAAAAATGT
34198238 CTTTGTTTATTAAAAATG
1 CTTTGTTTATTAAAAATG
34198256 GTTAGAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (19 bp):
CTTTGTTTATTAAAAATGT
Done.