Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 162 of 425
Found at i:49325330 original size:47 final size:47
Alignment explanation
Indices: 49325255--49325365 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
49325245 CCCCTCGGGA
* * *
49325255 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
49325302 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
49325349 CTTATCACATATATACA
1 CTTATCACTTATATACA
49325366 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:49325421 original size:46 final size:46
Alignment explanation
Indices: 49325369--49325550 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
49325359 ATATACATCT
* * *
49325369 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
49325415 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
49325461 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
49325507 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
49325551 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:49335493 original size:30 final size:30
Alignment explanation
Indices: 49335457--49335557 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49335447 GACAAGATTG
* * *
49335457 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49335487 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49335515 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49335544 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49335558 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49335569 original size:29 final size:28
Alignment explanation
Indices: 49335486--49335561 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49335476 AAAATTGTAC
* *
49335486 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49335514 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49335543 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49335562 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49340723 original size:27 final size:27
Alignment explanation
Indices: 49340682--49340735 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49340672 TGTCATGTGA
* *
49340682 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
49340709 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
49340736 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:49341055 original size:49 final size:50
Alignment explanation
Indices: 49340981--49341228 Score: 268
Period size: 49 Copynumber: 5.0 Consensus size: 50
49340971 ATCTATTGTG
* * *
49340981 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAACT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT
* * * * *
49341031 -GGTCAAATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAC-T
* * * * * ***
49341081 CGATCACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT
*
49341131 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAA-T
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAACT
* * * *
49341180 TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAAC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAC
49341229 CTTGTCTACA
Statistics
Matches: 163, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 84 0.52
50 43 0.26
51 36 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT
Found at i:49341172 original size:101 final size:98
Alignment explanation
Indices: 49340984--49341228 Score: 294
Period size: 100 Copynumber: 2.5 Consensus size: 98
49340974 TATTGTGAGG
* *
49340984 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAACTGGTCAAATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCAAATGTGTAGTACT
* *
49341049 ATGTGCAGGCTACTATGCGTACCCG-ATAACTTCGA
66 AAGTGCAGGCTACTACGCGTA-CCGAATAA-TT-GA
* * *** **
49341084 TCACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT-GGTCAAATGTGTAGTAC
* *
49341149 TAAGTGCAGGCTACTACGTGTACCGAATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGAATAATTGA
* * * *
49341183 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAC
49341229 CTTGTCTACA
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
99 38 0.31
100 45 0.37
101 38 0.31
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCAAATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGAATAATTGA
Found at i:49344144 original size:20 final size:20
Alignment explanation
Indices: 49344121--49344159 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49344111 TAAACATGGT
49344121 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
49344141 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
49344160 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:49344305 original size:24 final size:24
Alignment explanation
Indices: 49344209--49344304 Score: 147
Period size: 24 Copynumber: 4.0 Consensus size: 24
49344199 GGAAGAAGTG
49344209 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49344233 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49344257 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * * *
49344281 TAAAAAGGATTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49344305 TGAAAGAGGC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:49348457 original size:31 final size:31
Alignment explanation
Indices: 49348419--49348482 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
49348409 CCTTTTCATA
49348419 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
49348450 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
49348481 TT
1 TT
49348483 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:49348735 original size:23 final size:22
Alignment explanation
Indices: 49348655--49348743 Score: 97
Period size: 24 Copynumber: 3.8 Consensus size: 22
49348645 TGCTTTATCA
*
49348655 TATAACTGGAGGCCTAGCCTCTTT
1 TATAACTGG-GGCATAGCC-CTTT
*
49348679 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGC-ATAGCCCTTT
*
49348703 CAATAACTGGGGCATCAGCCCTTT
1 -TATAACTGGGGCAT-AGCCCTTT
49348727 TATAACTGGGGCATAGC
1 TATAACTGGGGCATAGC
49348744 TGCTCCTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 3 0.05
23 14 0.25
24 27 0.48
25 12 0.21
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (22 bp):
TATAACTGGGGCATAGCCCTTT
Found at i:49348754 original size:49 final size:51
Alignment explanation
Indices: 49348638--49348757 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 51
49348628 TCCACTGGCA
*
49348638 GCATAGCTGCT-TTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGG
1 GCATAGCTGCTCTT-TCA-ATAACTGGAGGCATAGCCTCTTTTAATAACTGGG
*
49348690 GCAAAAGC--C-CTTTCAATAACTGG-GGCATCAGCC-CTTTT-ATAACTGGG
1 GC-ATAGCTGCTCTTTCAATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGG
*
49348737 GCATAGCTGCTCCTTCAATAA
1 GCATAGCTGCTCTTTCAATAA
49348758 ATAAACCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
46 4 0.07
47 11 0.19
48 10 0.17
49 21 0.36
50 3 0.05
51 3 0.05
52 2 0.03
53 4 0.07
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (51 bp):
GCATAGCTGCTCTTTCAATAACTGGAGGCATAGCCTCTTTTAATAACTGGG
Found at i:49349876 original size:30 final size:30
Alignment explanation
Indices: 49349842--49349921 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
49349832 AGTCGAGGCT
49349842 ATCCCTTTTCATAATTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
** ** *
49349872 ATCCCTTTTCATTGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
**
49349902 ATTGCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
49349922 AGTCGAAGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:49349926 original size:90 final size:90
Alignment explanation
Indices: 49349817--49350033 Score: 242
Period size: 90 Copynumber: 2.4 Consensus size: 90
49349807 AAGTTATCTT
* * * * ** * * *
49349817 TTTTCATAGTTCGACAGTCGAGGCTATCCCTTTTCATAATTTGATGGTC-ATCA-CCATCCCTTT
1 TTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGA--AGCCAACCCTTT
**
49349880 TCATTGTTCAATGGTCGTCACCATTGC
64 TCATTGTTCAATGGTCGTCACCATCCC
* * *
49349907 TTTTCATAATTTGATAGTCGAAGCTATCCCGTTTCGTAAATCAATAGCCGAAGCCAACCCTTTTC
1 TTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGAAGCCAACCCTTTTC
**
49349972 ATTGTTTGATGGTCGTCACCATCCC
66 ATTGTTCAATGGTCGTCACCATCCC
*
49349997 TTTTCATAA-TCGATAGCCGAAGCTATCCCTTTTCATA
1 TTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATA
49350034 TTCGTTAGCC
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
89 25 0.24
90 79 0.75
91 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (90 bp):
TTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGAAGCCAACCCTTTTC
ATTGTTCAATGGTCGTCACCATCCC
Found at i:49349970 original size:60 final size:59
Alignment explanation
Indices: 49349906--49350033 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 59
49349896 GTCACCATTG
* *
49349906 CTTTTCATAATTTGATAGTCG-AAGCTATCCCGTTTCGTAAATCAATAGCCGAAGCCAACC
1 CTTTTCATAATTTGATAGTCGTAA-CCATCCCGTTTCAT-AATCAATAGCCGAAGCCAACC
** * * * * * *
49349966 CTTTTCATTGTTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCC
1 CTTTTCATAATTTGATAGTCGTAACCATCCCGTTTCATAATCAATAGCCGAAGCCAACC
49350025 CTTTTCATA
1 CTTTTCATA
49350034 TTCGTTAGCC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
59 26 0.46
60 29 0.52
61 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (59 bp):
CTTTTCATAATTTGATAGTCGTAACCATCCCGTTTCATAATCAATAGCCGAAGCCAACC
Found at i:49350051 original size:30 final size:29
Alignment explanation
Indices: 49349906--49350062 Score: 109
Period size: 30 Copynumber: 5.3 Consensus size: 29
49349896 GTCACCATTG
* *
49349906 CTTTTCATAATTTGATAGTCGAAGCTATCC
1 CTTTTCATAA-TCGATAGCCGAAGCTATCC
* * * * *
49349936 CGTTTCGTAAATCAATAGCCGAAGCCAACC
1 CTTTTCAT-AATCGATAGCCGAAGCTATCC
** * * * * *
49349966 CTTTTCATTGTTTGATGGTCGTCA-CCATCC
1 CTTTTCA-TAATCGATAGCCG-AAGCTATCC
49349996 CTTTTCATAATCGATAGCCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
* *
49350025 CTTTTCATATTCGTTAGCCTGAAGCTATCC
1 CTTTTCATAATCGATAGCC-GAAGCTATCC
*
49350055 ATTTTCAT
1 CTTTTCAT
49350063 TTTTCGATGA
Statistics
Matches: 95, Mismatches: 27, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
28 1 0.01
29 30 0.32
30 60 0.63
31 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (29 bp):
CTTTTCATAATCGATAGCCGAAGCTATCC
Found at i:49357910 original size:22 final size:21
Alignment explanation
Indices: 49357868--49357910 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
49357858 GAAATAATAA
*
49357868 GATGTACAGTGATTTGAAACG
1 GATGTACAGTGATTGGAAACG
* *
49357889 GATGTACCGGTGATTGGGAACG
1 GATGTA-CAGTGATTGGAAACG
49357911 AAACGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.26
Consensus pattern (21 bp):
GATGTACAGTGATTGGAAACG
Found at i:49359162 original size:47 final size:47
Alignment explanation
Indices: 49359111--49359206 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
49359101 TTAGGGGAGA
* *
49359111 GAGTTGTAACAGCCCATTTTTAGTGAAAATCAAAATAGTGGTTTTGG
1 GAGTTGTAACAACCCATTTTTAGTGAAAATAAAAATAGTGGTTTTGG
49359158 GAGTTGTAACAACCCATTTTTAGTGAAAATAAAAATAGTGGTTTTGG
1 GAGTTGTAACAACCCATTTTTAGTGAAAATAAAAATAGTGGTTTTGG
49359205 GA
1 GA
49359207 CCACAAAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (47 bp):
GAGTTGTAACAACCCATTTTTAGTGAAAATAAAAATAGTGGTTTTGG
Found at i:49373751 original size:172 final size:172
Alignment explanation
Indices: 49373465--49373781 Score: 607
Period size: 172 Copynumber: 1.8 Consensus size: 172
49373455 AACTTAAATG
49373465 GCCATTTCATCATCAACCATTTCACTAATCAAATCATAACCATAAACATACCACATCAATATGTC
1 GCCATTTCATCATCAACCATTTCACTAATCAAATCATAACCATAAACATACCACATCAATATGTC
* *
49373530 ATAACCTACATTTTTCACTTATCTTCCATATGTAAGTTCTCACCATATTATCATCTAATTCATGC
66 ATAACCTACATTTTTCACTTATCTTCCATATGTAAGTTATCACCATATTATCATCTAATTCATAC
49373595 CATAAAATATACCAACACAAGGTATATATATATACAAATCAT
131 CATAAAATATACCAACACAAGGTATATATATATACAAATCAT
*
49373637 GCCATTTCATCATCAACCATTTCACTAATCAAATCATAACCATAATCATACCACATCAATATGTC
1 GCCATTTCATCATCAACCATTTCACTAATCAAATCATAACCATAAACATACCACATCAATATGTC
49373702 ATAACCTACATTTTTCACTTATCTTCCATATGTAAGTTATCACCATATTATCATCTAATTCATAC
66 ATAACCTACATTTTTCACTTATCTTCCATATGTAAGTTATCACCATATTATCATCTAATTCATAC
49373767 CATAAAATATACCAA
131 CATAAAATATACCAA
49373782 TTCATCATTA
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 142 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (172 bp):
GCCATTTCATCATCAACCATTTCACTAATCAAATCATAACCATAAACATACCACATCAATATGTC
ATAACCTACATTTTTCACTTATCTTCCATATGTAAGTTATCACCATATTATCATCTAATTCATAC
CATAAAATATACCAACACAAGGTATATATATATACAAATCAT
Found at i:49373783 original size:22 final size:24
Alignment explanation
Indices: 49373758--49373812 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
49373748 ATTATCATCT
49373758 AATTCAT-ACCAT-AAAATATACC
1 AATTCATCACCATCAAAATATACC
** *
49373780 AATTCATCATTATCAAAATGTACC
1 AATTCATCACCATCAAAATATACC
49373804 AATTCATCA
1 AATTCATCA
49373813 TCCCTATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 18 0.64
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (24 bp):
AATTCATCACCATCAAAATATACC
Found at i:49374902 original size:42 final size:42
Alignment explanation
Indices: 49374733--49374902 Score: 112
Period size: 43 Copynumber: 4.0 Consensus size: 42
49374723 TCGTACAATG
* * *
49374733 CCATATCTCAGATATGGTCTTACATGTCA-TCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACACGT-ATTCTCATATCGATA
* * * * * *
49374775 CCAATAGCCCA-ACTATGGTCTTACCCGAAATT-TCGTATGGATG
1 CC-ATATCCCAGA-TATGGTCTTACACG-TATTCTCATATCGATA
* * * * * * **
49374818 CCATGTCCCAAAACATGGTCTTACCCGTAATATCATGCCGATA
1 CCATATCCC-AGATATGGTCTTACACGTATTCTCATATCGATA
*
49374861 CCATATCCCAGATATGGTCTTACACGTATTCTCATCTCGATA
1 CCATATCCCAGATATGGTCTTACACGTATTCTCATATCGATA
49374903 ACCCTAATGT
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
42 36 0.38
43 58 0.60
44 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGTATTCTCATATCGATA
Found at i:49379450 original size:27 final size:26
Alignment explanation
Indices: 49379398--49379457 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
49379388 CCACATATAT
*
49379398 ATATTTGTTCTGGTGGCTTAGCCACA
1 ATATTTGTTCTGGTGACTTAGCCACA
* *
49379424 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATTTGT-TCTGGTGACTTAGCCACA
49379451 ATATTTG
1 ATATTTG
49379458 GTAGCCTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.42
Consensus pattern (26 bp):
ATATTTGTTCTGGTGACTTAGCCACA
Found at i:49383432 original size:93 final size:93
Alignment explanation
Indices: 49383273--49383444 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49383263 TGCCCATAAG
* *
49383273 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49383338 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
49383366 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49383431 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49383445 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49383441 original size:46 final size:46
Alignment explanation
Indices: 49383266--49383441 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49383256 CCATATATGC
* * *
49383266 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
49383312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
49383362 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49383405 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49383442 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49390618 original size:93 final size:93
Alignment explanation
Indices: 49390456--49390625 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
49390446 CCCATAAGCA
* * *
49390456 AACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
49390521 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
49390549 AACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49390613 CGAGTTCGGATGC
65 CGAGTTCGGATGC
49390626 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:49390621 original size:46 final size:47
Alignment explanation
Indices: 49390447--49390622 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
49390437 GCCAATATGC
* * * *
49390447 CCATAAGCAAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* * *
49390493 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
49390543 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
49390586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49390623 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 30 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:49390641 original size:46 final size:44
Alignment explanation
Indices: 49390498--49390641 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
49390488 CGCATCCATA
*
49390498 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
49390545 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
49390591 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
49390637 AGTGA
1 AGTGA
49390642 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:49396975 original size:37 final size:37
Alignment explanation
Indices: 49396898--49397114 Score: 375
Period size: 37 Copynumber: 5.9 Consensus size: 37
49396888 GCTCAGATGA
* * * *
49396898 AATCTCCACACGAAGTTATCGGG-CTTACCGGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
49396934 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
49396971 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
49397008 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
49397045 AATCTCCACACGTAGTCATCAGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
49397082 AATCTCCACACGTAGTCAT-GGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49397115 ATATATTTCC
Statistics
Matches: 174, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
36 34 0.20
37 140 0.80
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:49397316 original size:48 final size:48
Alignment explanation
Indices: 49397255--49397977 Score: 1099
Period size: 48 Copynumber: 15.0 Consensus size: 48
49397245 ATATACACAC
* * *
49397255 ATCTCCTACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
49397303 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
49397351 ATCTCATATATATATTTTACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397401 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
49397449 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397501 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
49397549 ATCTTATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATC-T-CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
49397599 ATCTCATACATAATTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
49397647 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
49397695 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397745 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
49397793 ATCTCATACATAATTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397841 AT-T--T-C--A---CAC--TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
49397878 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397928 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
49397976 AT
1 AT
49397978 ATTTATCTTG
Statistics
Matches: 626, Mismatches: 26, Indels: 46
0.90 0.04 0.07
Matches are distributed among these distances:
37 30 0.05
38 1 0.00
39 3 0.00
42 2 0.00
44 1 0.00
45 2 0.00
47 1 0.00
48 369 0.59
49 2 0.00
50 168 0.27
52 47 0.08
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:49397366 original size:98 final size:96
Alignment explanation
Indices: 49397255--49397977 Score: 1099
Period size: 98 Copynumber: 7.5 Consensus size: 96
49397245 ATATACACAC
* * * *
49397255 ATCTCCTACATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
49397320 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * *
49397351 ATCTCATATATATATTTTACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
49397416 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
*
49397449 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
49397514 TTCACATTAGCCATTCGGCTTTACCACATATACAT
62 TTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
49397549 ATCTTATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATT
1 ATC-T-CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
49397614 CACACTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
49397647 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
*
49397712 CACATTAGCCATTCGGCTTTACCACGTATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
*
49397745 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
49397810 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
49397841 AT-T--T-C--A---CAC--TAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
49397895 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
49397928 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
49397978 ATTTATCTTG
Statistics
Matches: 580, Mismatches: 26, Indels: 40
0.90 0.04 0.06
Matches are distributed among these distances:
85 33 0.06
87 46 0.08
88 1 0.00
90 2 0.00
91 1 0.00
92 1 0.00
93 2 0.00
95 1 0.00
96 96 0.17
97 1 0.00
98 301 0.52
100 94 0.16
101 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:49397659 original size:146 final size:144
Alignment explanation
Indices: 49397264--49397977 Score: 1090
Period size: 146 Copynumber: 5.0 Consensus size: 144
49397254 CATCTCCTAC
* * * *
49397264 ATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATATATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAATTCACATTAGCCA
* * *
49397329 TTCGGCTTTACCACATATACATATCTCATATATATATTTTACATTAACCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACA
* *
49397394 TATACATATCTCATAC
129 TATACATATCTTATAT
49397410 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATA-A-TTCACATTA
49397475 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
62 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
49397540 CATATACATATCTTATATAT
127 CATATACATATC-T-TATAT
* *
49397560 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAATTCACATTAGCCA
*
49397625 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
49397690 TACATATCTCATATAT
131 TACATATCT--TATAT
* * *
49397706 ATATTTCACATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAATTCACATTAGCCA
*
49397771 TTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCATTCGGCTTTACCAC--A
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
49397834 T--ATA-C------
131 TACATATCTTATAT
*
49397839 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA-A-TTCACATTAGC
49397904 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
64 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
49397969 TATACATAT
129 TATACATAT
49397978 ATTTATCTTG
Statistics
Matches: 532, Mismatches: 22, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
133 48 0.09
135 74 0.14
137 2 0.00
139 3 0.01
141 1 0.00
142 3 0.01
144 2 0.00
145 1 0.00
146 254 0.48
147 1 0.00
148 56 0.11
149 1 0.00
150 86 0.16
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (144 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAATTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTTATAT
Found at i:49397843 original size:85 final size:87
Alignment explanation
Indices: 49397750--49397929 Score: 328
Period size: 85 Copynumber: 2.1 Consensus size: 87
49397740 TACATATCTC
*
49397750 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA-A-TTCACAT
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACAT
49397813 TAGCCATTCGGCTTTACCACAT
66 TAGCCATTCGGCTTTACCACAT
*
49397835 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACAT
49397900 TAGCCATTCGGCTTTACCACAT
66 TAGCCATTCGGCTTTACCACAT
49397922 ATACATAT
1 ATACATAT
49397930 CTCATACATA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
85 53 0.58
86 1 0.01
87 37 0.41
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (87 bp):
ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACAT
TAGCCATTCGGCTTTACCACAT
Found at i:49397848 original size:37 final size:37
Alignment explanation
Indices: 49397798--49397879 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
49397788 TACATATCTC
* *
49397798 ATACATAATTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACAT
49397835 ATACATATTTCACACTAGCCATTCGGCTTTACCACAT
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACAT
49397872 ATACATAT
1 ATACATAT
49397880 CTCATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (37 bp):
ATACATATTTCACACTAGCCATTCGGCTTTACCACAT
Found at i:49397893 original size:50 final size:50
Alignment explanation
Indices: 49397832--49397977 Score: 260
Period size: 50 Copynumber: 3.0 Consensus size: 50
49397822 GGCTTTACCA
*
49397832 CATATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 CATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
*
49397882 CATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
49397932 C--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
49397978 ATTTATCTTG
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 44 0.47
50 49 0.53
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (50 bp):
CATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
Found at i:49397939 original size:135 final size:133
Alignment explanation
Indices: 49397699--49397977 Score: 495
Period size: 135 Copynumber: 2.1 Consensus size: 133
49397689 ATACATATCT
* * *
49397699 CATATATATATTTCACATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACA
1 CATATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
49397764 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCATTCGGCTTTA
66 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCATTCGGCTTTA
49397829 CCA
131 CCA
*
49397832 CATATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCA
1 CATATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCA
*
49397897 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
64 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCATTCGGCTT
49397962 TACCA
129 TACCA
49397967 CATATACATAT
1 CATATACATAT
49397978 ATTTATCTTG
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
133 48 0.35
135 91 0.65
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (133 bp):
CATATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
TTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCATTCGGCTTTA
CCA
Found at i:49400400 original size:9 final size:9
Alignment explanation
Indices: 49400370--49400417 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
49400360 CATTCTTCTT
49400370 TTTCTTTTA
1 TTTCTTTTA
49400379 TTATCCTTATTA
1 TT-T-CTT-TTA
49400391 TTTCTTTTA
1 TTTCTTTTA
* *
49400400 TTTATTTCA
1 TTTCTTTTA
49400409 TTTCTTTTA
1 TTTCTTTTA
49400418 CATAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 19 0.59
10 4 0.12
11 4 0.12
12 5 0.16
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:49401291 original size:25 final size:25
Alignment explanation
Indices: 49401257--49401311 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
49401247 CGGTTAAAGA
49401257 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
**
49401282 ATTCGCACACATGGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
49401307 ATTCG
1 ATTCG
49401312 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:49401540 original size:40 final size:40
Alignment explanation
Indices: 49401471--49401711 Score: 365
Period size: 40 Copynumber: 6.0 Consensus size: 40
49401461 GCCTGATTAC
* * * *
49401471 ACATCACCGGCACGAATGCCCTTCAGGACTTAGCCCAGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
** *
49401511 GTAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
49401551 ACATCACTAGCACGAATGCTGTTCGGGACTTAGCCCGGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
49401591 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
49401631 ATATCACCAGCACGAATGCTCTCCGGGACTTAGCCCGGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
49401671 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
49401711 A
1 A
49401712 TATATAACTC
Statistics
Matches: 182, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (40 bp):
ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:49403407 original size:40 final size:40
Alignment explanation
Indices: 49403326--49403505 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
49403316 AAACCAAGTA
** * *
49403326 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
49403365 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49403405 CCTTCGGGACTT-GCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49403444 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49403484 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
49403506 CAATCCGAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 64 0.49
40 66 0.51
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:49403457 original size:79 final size:79
Alignment explanation
Indices: 49403326--49403505 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 79
49403316 AAACCAAGTA
* * * *
49403326 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTC-GGGCTTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
49403389 GTAACTCGCACAATTG
64 GTAACTCGCACAAATG
49403405 CCTTCGGGACTT-GCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGG-CTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
49403469 TAACTCGCACAAATG
65 TAACTCGCACAAATG
49403484 CCTTCGGGCTTAGCCCGGTTAT
1 CCTTCGGGCTTAGCCCGGTTAT
49403506 CAATCCGAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
78 8 0.09
79 84 0.91
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
CCTTCGGGCTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:49412655 original size:29 final size:29
Alignment explanation
Indices: 49412616--49412694 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49412606 CTTAATAATC
*
49412616 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49412646 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49412675 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49412695 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49427333 original size:40 final size:40
Alignment explanation
Indices: 49427246--49427457 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
49427236 CCTTCGGAAT
* * *
49427246 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
49427285 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
49427325 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
49427365 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
49427405 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
49427445 TTAGCCCGGATAT
1 TTAACCCGGATAT
49427458 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:49427371 original size:80 final size:80
Alignment explanation
Indices: 49427246--49427457 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
49427236 CCTTCGGAAT
* * * ** * ***
49427246 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
49427310 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
49427325 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
49427390 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
49427405 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
49427458 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:49435319 original size:40 final size:39
Alignment explanation
Indices: 49435273--49435410 Score: 147
Period size: 38 Copynumber: 3.5 Consensus size: 39
49435263 CGGATATAAC
*
49435273 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGTT-TAGT
* *
49435313 GACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGTTTAGT
* * * *
49435352 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA-T
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGG-TTTAGT
* *
49435390 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
49435411 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 29 0.33
39 27 0.31
40 29 0.33
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGTTTAGT
Found at i:49435393 original size:38 final size:40
Alignment explanation
Indices: 49435274--49435460 Score: 178
Period size: 39 Copynumber: 4.8 Consensus size: 40
49435264 GGATATAACG
* ** *
49435274 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
49435314 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-TTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
49435353 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA-TA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
49435391 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGA--TA-TT
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
49435428 ACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
49435461 ATCATTCAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
36 16 0.13
37 12 0.10
38 32 0.25
39 37 0.29
40 29 0.23
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:49442410 original size:40 final size:39
Alignment explanation
Indices: 49442245--49442428 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49442235 AAATTGAATG
* * *
49442245 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49442285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49442325 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49442365 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49442404 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49442429 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49442453 original size:80 final size:81
Alignment explanation
Indices: 49442285--49442473 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49442275 GCTGGAAATT
* * * *
49442285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49442350 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49442366 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49442429 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49442445 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49442474 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49450847 original size:50 final size:49
Alignment explanation
Indices: 49450782--49450907 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 49
49450772 TGAGGCTGAT
*
49450782 GCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCTGTGCCGA-C
1 GCCATGTCCCAGACATG-TCTTACACTAGCTCTCACATATCCGTG-CGAGC
* * * *
49450832 GCCATGTCTCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCTAGT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTCTCACATATCCGTGCGAGC
49450882 GCCATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACATGTCTTACACT
49450908 GACACATCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 12 0.18
50 55 0.81
51 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCGTGCGAGC
Found at i:49451009 original size:46 final size:45
Alignment explanation
Indices: 49450888--49451046 Score: 126
Period size: 46 Copynumber: 3.5 Consensus size: 45
49450878 TAGTGCCATG
** ** * *
49450888 TCCCAGACATGTCTTACACTGACACA-TCTTGTA-GTCGATGCCTA
1 TCCCAGACATGTCTTACACTGACTTAGTC-TCAAGGCCGATGCATA
* *
49450932 TCCCAGACATGTCTTACACTGGCTTAAGTCTCGAGGCCGATGCATA
1 TCCCAGACATGTCTTACACTGACTT-AGTCTCAAGGCCGATGCATA
* * * *
49450978 TCCTAGACATGTTTTACACTAGCACTT-GTCTCAATGCCGATGCCATG
1 TCCCAGACATGTCTTACACT-G-ACTTAGTCTCAAGGCCGATG-CATA
*
49451025 TCCCAAACATGGTCTTACACTG
1 TCCCAGACAT-GTCTTACACTG
49451047 GCTCACACCA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
44 22 0.24
45 3 0.03
46 42 0.46
47 13 0.14
48 12 0.13
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGACTTAGTCTCAAGGCCGATGCATA
Found at i:49453750 original size:2 final size:2
Alignment explanation
Indices: 49453738--49453767 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49453728 GCTTTAATAC
*
49453738 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49453768 CCCTTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:49455767 original size:20 final size:19
Alignment explanation
Indices: 49455744--49455790 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
49455734 TATTTCTTAA
49455744 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
49455764 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
49455784 AATTAAA
1 AATTAAA
49455791 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:49458221 original size:42 final size:42
Alignment explanation
Indices: 49458153--49458262 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
49458143 TTTTCAGTGG
* * * * *
49458153 GCATGCTTAACATGCGATTCAGATTTATAATCTACGTAGTCA
1 GCATGCTTAACATGCAAATCATATTTATAATCAACATAGTCA
*
49458195 GCATGCTTACCATGCAAATCATATTTATAATCAACATAGTCA
1 GCATGCTTAACATGCAAATCATATTTATAATCAACATAGTCA
* *
49458237 ACATGCTTAACATGCAAATCCTATTT
1 GCATGCTTAACATGCAAATCATATTT
49458263 CAATATTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (42 bp):
GCATGCTTAACATGCAAATCATATTTATAATCAACATAGTCA
Found at i:49458551 original size:13 final size:13
Alignment explanation
Indices: 49458533--49458560 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49458523 ATCTAAATAA
49458533 ATATTTATATTTT
1 ATATTTATATTTT
49458546 ATATTTATATTTT
1 ATATTTATATTTT
49458559 AT
1 AT
49458561 TTGACGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:49459020 original size:11 final size:10
Alignment explanation
Indices: 49459000--49459025 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49458990 ATCATCATTC
49459000 AAAAATAAAA
1 AAAAATAAAA
49459010 AAAAATAAAA
1 AAAAATAAAA
49459020 AAAAAT
1 AAAAAT
49459026 TAGAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:49460222 original size:20 final size:20
Alignment explanation
Indices: 49460197--49460234 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49460187 GTTTATTCGC
*
49460197 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
49460217 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
49460235 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:49461895 original size:28 final size:28
Alignment explanation
Indices: 49461863--49461931 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49461853 GCGTAGATCA
49461863 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49461891 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49461919 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49461932 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49468232 original size:20 final size:20
Alignment explanation
Indices: 49468207--49468244 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49468197 GTTTATTCGC
*
49468207 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
49468227 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
49468245 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:49469903 original size:28 final size:28
Alignment explanation
Indices: 49469871--49469939 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49469861 GCGTAGATCA
49469871 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49469899 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49469927 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49469940 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49475652 original size:12 final size:12
Alignment explanation
Indices: 49475635--49475659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49475625 TTTTGAATGA
49475635 ATTTGATTAAAT
1 ATTTGATTAAAT
49475647 ATTTGATTAAAT
1 ATTTGATTAAAT
49475659 A
1 A
49475660 AGTTTAATTT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:49476053 original size:44 final size:43
Alignment explanation
Indices: 49475977--49476146 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
49475967 CATAGGATTC
* *
49475977 CGATTTGTGATTTCATGTAAGACCACGCCTGGGACATTGGCAT
1 CGATTTGTGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
* * *
49476020 CGATTTGTGATTTGCATGTAAGACAATTTCTGGGACATCGGCAT
1 CGATTTGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCAT
* * * * * *
49476064 CG-TGTATGAGTTT-GTGTAAGACCCTGTCTGGGACAGTGACAT
1 CGATTTGTGA-TTTCATGTAAGACCATGTCTGGGACATTGGCAT
* * * *
49476106 CGATATGTGATTTCATGTAAGACCACGTCTGAGACGTTGGC
1 CGATTTGTGATTTCATGTAAGACCATGTCTGGGACATTGGC
49476147 GTTGTACAAG
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 27 0.27
43 43 0.43
44 30 0.30
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATTTGTGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
Found at i:49479390 original size:48 final size:48
Alignment explanation
Indices: 49479319--49480163 Score: 1385
Period size: 48 Copynumber: 17.9 Consensus size: 48
49479309 AGATAAATAT
*
49479319 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49479367 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
49479415 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
49479463 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49479511 ATATGTATATGTGGTAAAGCCGAATGGC---TGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
49479556 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49479604 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
49479652 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATGTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
49479700 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
49479748 ATATGTATATGTGGTAAAGCCGATTGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
* * *
49479798 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGCATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
49479846 ATATGTATATGTGGTAAAGCCGAATGGC-----T---A-ATG--TGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
49479883 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
49479931 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49479979 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
49480027 ATATGTATCTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49480075 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
49480123 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
49480164 ATAGGATATG
Statistics
Matches: 750, Mismatches: 31, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
37 31 0.04
39 3 0.00
40 1 0.00
42 1 0.00
43 1 0.00
45 45 0.06
46 2 0.00
48 620 0.83
49 4 0.01
50 42 0.06
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:49479896 original size:37 final size:37
Alignment explanation
Indices: 49479846--49479923 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49479836 TATGCATGAG
49479846 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49479883 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49479920 ATAT
1 ATAT
49479924 ATATGAGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (37 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:49480377 original size:37 final size:37
Alignment explanation
Indices: 49480313--49480415 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
49480303 GGAAATATAT
* * *
49480313 TCCGGGTATGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGCTAAGACCCGATAACTACGTGTGGAGATTATG
** * *
49480350 TTTGGCTAAGACCCGATAACTATGTGTGGAGATTTTG
1 TCCGGCTAAGACCCGATAACTACGTGTGGAGATTATG
*
49480387 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGCTAAGACCCGATAACTACGTGTGG
49480416 GGACTATTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGCTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:49481764 original size:13 final size:13
Alignment explanation
Indices: 49481746--49481772 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49481736 CATTCAACAC
49481746 ATAGGGGTATTTT
1 ATAGGGGTATTTT
49481759 ATAGGGGTATTTT
1 ATAGGGGTATTTT
49481772 A
1 A
49481773 GTCATTCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (13 bp):
ATAGGGGTATTTT
Found at i:49482101 original size:18 final size:18
Alignment explanation
Indices: 49482078--49482115 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
49482068 CCACAACCCG
49482078 TTACTAAACACTAACAGA
1 TTACTAAACACTAACAGA
49482096 TTACTAAACACTAACAGA
1 TTACTAAACACTAACAGA
49482114 TT
1 TT
49482116 CATACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
TTACTAAACACTAACAGA
Found at i:49482214 original size:57 final size:56
Alignment explanation
Indices: 49482122--49482271 Score: 171
Period size: 57 Copynumber: 2.6 Consensus size: 56
49482112 GATTCATACT
* * * *
49482122 TATTCATTTGGCCCCTTTAGGCCCAATCTCATTCATATGGCCCATTAGG-CCCAATC-
1 TATTCATATGG-CCCATTAGGCCCAATCACATTCATATGACCCATT-GGCCCCAATCA
*
49482178 TCATTCATATGGCCCATTAGGCCCAAATCACTTTCATATGACCCATTGGCCCCAATCA
1 T-ATTCATATGGCCCATTAGGCCC-AATCACATTCATATGACCCATTGGCCCCAATCA
* *
49482236 TATTCATATGGCTCA-TCGGCCTCAATCACATTCATA
1 TATTCATATGGCCCATTAGGCC-CAATCACATTCATA
49482272 GTCATGCAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
56 31 0.38
57 49 0.60
58 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (56 bp):
TATTCATATGGCCCATTAGGCCCAATCACATTCATATGACCCATTGGCCCCAATCA
Found at i:49482216 original size:29 final size:28
Alignment explanation
Indices: 49482123--49482271 Score: 167
Period size: 28 Copynumber: 5.2 Consensus size: 28
49482113 ATTCATACTT
* * *
49482123 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
*
49482152 ATTCATATGGCCCATTAGGCCCAATCTC
1 ATTCATATGGCCCATTAGGCCCAATCAC
49482180 ATTCATATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCC-AATCAC
* * *
49482209 TTTCATATGACCCATT-GGCCCCAATCAT
1 ATTCATATGGCCCATTAGG-CCCAATCAC
* *
49482237 ATTCATATGGCTCA-TCGGCCTCAATCAC
1 ATTCATATGGCCCATTAGGCC-CAATCAC
49482265 ATTCATA
1 ATTCATA
49482272 GTCATGCAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
27 3 0.03
28 72 0.68
29 31 0.29
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.30
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:49490607 original size:14 final size:16
Alignment explanation
Indices: 49490577--49490608 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49490567 TAATAACTTA
49490577 AACTAATAACTAAATT
1 AACTAATAACTAAATT
49490593 AACTAA-AAC-AAATT
1 AACTAATAACTAAATT
49490607 AA
1 AA
49490609 GTATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (16 bp):
AACTAATAACTAAATT
Found at i:49492290 original size:17 final size:15
Alignment explanation
Indices: 49492244--49492292 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
49492234 AAACACTTTC
* *
49492244 TTCTTTTCCACTCTT
1 TTCTTTTTCACTCAT
49492259 TTCTTTTTCACTCAT
1 TTCTTTTTCACTCAT
49492274 TTCTTTTTCTAACTCAT
1 TTCTTTTTC--ACTCAT
49492291 TT
1 TT
49492293 TCAAATCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 22 0.73
17 8 0.27
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (15 bp):
TTCTTTTTCACTCAT
Found at i:49492443 original size:18 final size:18
Alignment explanation
Indices: 49492398--49492446 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
49492388 TTGCTCACCA
49492398 TCTTTTCTTTCTTCAATC
1 TCTTTTCTTTCTTCAATC
* *
49492416 TCTCTCTCTTT-TTCAATTT
1 TCT-TTTCTTTCTTCAA-TC
49492435 TCTTTTCTTTCT
1 TCTTTTCTTTCT
49492447 CACATGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTTTTCTTTCTTCAATC
Found at i:49495212 original size:30 final size:30
Alignment explanation
Indices: 49495176--49495276 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49495166 GACAAGATTG
* * *
49495176 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49495206 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49495234 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49495263 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49495277 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49495288 original size:29 final size:28
Alignment explanation
Indices: 49495205--49495280 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49495195 AAAATTGTAC
* *
49495205 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49495233 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49495262 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49495281 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49497295 original size:40 final size:40
Alignment explanation
Indices: 49497171--49497297 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
49497161 CTGGAAATTT
* * * * *
49497171 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
49497211 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
49497251 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
49497291 TATCCGG
1 TATCCGG
49497298 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:49505193 original size:40 final size:38
Alignment explanation
Indices: 49505108--49505256 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 38
49505098 AATTGAATGA
* * * **
49505108 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC--GAGATGC
* *
49505148 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT-GC
*
49505186 TACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATTC
1 T--ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATGC
*
49505226 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
49505257 ACGTTTATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
37 1 0.01
38 28 0.31
39 5 0.05
40 55 0.60
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATGC
Found at i:49505268 original size:38 final size:38
Alignment explanation
Indices: 49505145--49505270 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 38
49505135 ATGCTGGAAA
* * *
49505145 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
* * * *
49505183 GGCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA
1 --TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
*
49505223 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGT
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GT
49505261 TTATATCCGG
1 TTATATCCGG
49505271 TTATATTCCG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 40 0.56
40 31 0.43
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
Found at i:49510573 original size:20 final size:20
Alignment explanation
Indices: 49510548--49510585 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49510538 GTTTATTCGC
*
49510548 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
49510568 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
49510586 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:49512242 original size:28 final size:28
Alignment explanation
Indices: 49512210--49512278 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49512200 GCGTAGATCA
49512210 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49512238 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49512266 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49512279 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49513891 original size:26 final size:27
Alignment explanation
Indices: 49513852--49513934 Score: 141
Period size: 26 Copynumber: 3.1 Consensus size: 27
49513842 AGCGTAGATC
49513852 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
49513879 ACGAAA-TACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
49513905 ACCGAAATTACCCCTAAATAGCAAAATT
1 A-CGAAATTACCCCTAAAGAGCAAAATT
49513933 AC
1 AC
49513935 CATATACCCC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
26 21 0.40
27 12 0.23
28 20 0.38
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.18
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:49513927 original size:28 final size:28
Alignment explanation
Indices: 49513853--49513935 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
49513843 GCGTAGATCA
49513853 CGAAATTACCCCTAAAGAGCAAAATTA-
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49513880 CGAAA-TACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49513907 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49513935 C
1 C
49513936 ATATACCCCT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
26 21 0.40
27 10 0.19
28 22 0.42
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49516367 original size:17 final size:19
Alignment explanation
Indices: 49516325--49516368 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49516315 ATGAAATTTT
*
49516325 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
49516344 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
49516362 AA-TATTA
1 AATTATTA
49516369 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:49518231 original size:28 final size:27
Alignment explanation
Indices: 49518156--49518237 Score: 139
Period size: 26 Copynumber: 3.0 Consensus size: 27
49518146 AGCGTAGATC
49518156 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
49518183 ACGAAA-TACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
49518209 ACCGAAATTACCCCTAAATAGCAAAATT
1 A-CGAAATTACCCCTAAAGAGCAAAATT
49518237 A
1 A
49518238 ACAATATACC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
26 21 0.40
27 11 0.21
28 20 0.38
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.18
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:49518885 original size:10 final size:9
Alignment explanation
Indices: 49518865--49518889 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49518855 AATTTGGTTA
49518865 TTTTATTTT
1 TTTTATTTT
49518874 TTTTATTTT
1 TTTTATTTT
49518883 TTTTATT
1 TTTTATT
49518890 ATGCTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTATTTT
Found at i:49520040 original size:42 final size:42
Alignment explanation
Indices: 49519972--49520200 Score: 215
Period size: 42 Copynumber: 5.3 Consensus size: 42
49519962 CATTCCAACT
* * * *
49519972 ATGGTCTTACTCGAAGTCTCACATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
* * * **
49520014 ATAGTCTTATACGAAATCACATATCGATGCCGCATCCCAGAC
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
* * * * *
49520056 ACGGTCTTACACGAAATCTCATACCGAAGCCATATCCCATAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
* *
49520098 ATGGTCTTACACGTAATCTCATATCGATGCTAATGCCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATC---G---ATGCCATATCCCAGAC
* * * * *
49520146 ATGGTCTTACACGAGATCTCATATCAATGCTATGTCTCAGAC
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
49520188 ATGGTCTTACACG
1 ATGGTCTTACACG
49520201 TATCACAATG
Statistics
Matches: 150, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
42 112 0.75
45 1 0.01
48 37 0.25
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
Found at i:49520137 original size:48 final size:48
Alignment explanation
Indices: 49520084--49520177 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
49520074 TCATACCGAA
* *
49520084 GCCATATCCCATATATGGTCTTACACGTA-ATCTCATATCGATGCTAAT
1 GCCATATCCCAGATATGGTCTTACACG-AGATCTCATATCAATGCTAAT
49520132 GCCATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGCTA
1 GCCATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGCTA
49520178 TGTCTCAGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGCTAAT
Found at i:49520290 original size:37 final size:36
Alignment explanation
Indices: 49520188--49520303 Score: 135
Period size: 37 Copynumber: 3.2 Consensus size: 36
49520178 TGTCTCAGAC
* *
49520188 ATGGTCTTACACGTATCACAATGGCATAGCCCAGCT
1 ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
* *
49520224 ATGGTCTTACATC-TCATCATGATGCCATAGCCCAACT
1 ATGGTCTTACA-CGT-ATCACGATGCCATAGCCCAGCT
* * *
49520261 ATGGTCTTACACAGTTTTACGATGTCATAGCCCAGCT
1 ATGGTCTTACAC-GTATCACGATGCCATAGCCCAGCT
49520298 ATGGTC
1 ATGGTC
49520304 ATAGCCATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
36 13 0.19
37 53 0.79
38 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (36 bp):
ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
Found at i:49523011 original size:28 final size:28
Alignment explanation
Indices: 49522966--49523043 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
49522956 TGCATCTTCG
*
49522966 ATGTCTCGCACACTAAGTGCCATACTCA
1 ATGTCTCGCACACCAAGTGCCATACTCA
* * * *
49522994 ATGTCTCGTAGACCAAGTGTCATTCTCA
1 ATGTCTCGCACACCAAGTGCCATACTCA
* * *
49523022 ATATTTCGCACACTAAGTGCCA
1 ATGTCTCGCACACCAAGTGCCA
49523044 CACATATATA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
ATGTCTCGCACACCAAGTGCCATACTCA
Found at i:49523103 original size:40 final size:40
Alignment explanation
Indices: 49523054--49523129 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
49523044 CACATATATA
49523054 TAGCCGAAGCTATCTCAAA-TCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCAAACT-GCACACCAAGTGCCACATT
* * *
49523094 TAGCCGAAGCTATTTTAAACTGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCA
49523130 TTCTTAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACATT
Found at i:49527089 original size:13 final size:14
Alignment explanation
Indices: 49527066--49527095 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
49527056 ATAGGATTCA
49527066 AAAGAAATAAAAAT
1 AAAGAAATAAAAAT
49527080 AAAG-AATAAAAAT
1 AAAGAAATAAAAAT
49527093 AAA
1 AAA
49527096 ATTCTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAGAAATAAAAAT
Found at i:49531426 original size:14 final size:13
Alignment explanation
Indices: 49531403--49531434 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
49531393 GGGATATCAA
49531403 AACAATAATTAAG
1 AACAATAATTAAG
49531416 AACACATAATTAAG
1 AACA-ATAATTAAG
49531430 AACAA
1 AACAA
49531435 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:49548907 original size:19 final size:19
Alignment explanation
Indices: 49548883--49548956 Score: 109
Period size: 19 Copynumber: 4.1 Consensus size: 19
49548873 TTAATCATTC
49548883 ATACGTACCTAGACAATTT
1 ATACGTACCTAGACAATTT
*
49548902 ATACGTACCTGGACAATTT
1 ATACGTACCTAGACAATTT
*
49548921 ATATGTA--TA-ACAATTT
1 ATACGTACCTAGACAATTT
49548937 ATACGTACCTAGACAATTT
1 ATACGTACCTAGACAATTT
49548956 A
1 A
49548957 ATCTATTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
16 13 0.27
17 1 0.02
18 2 0.04
19 32 0.67
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
ATACGTACCTAGACAATTT
Found at i:49549074 original size:39 final size:39
Alignment explanation
Indices: 49549031--49549117 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
49549021 CCGGCAATTT
*
49549031 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
1 GCCTGCTAGGTACAAACCTGAACTTAACACCGGCACGAG
* *
49549070 GCCTGCTAGGTACAAACCTGAATTTAATACCGGCACGAG
1 GCCTGCTAGGTACAAACCTGAACTTAACACCGGCACGAG
49549109 GCCTGCTAG
1 GCCTGCTAG
49549118 ACATTAAGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
GCCTGCTAGGTACAAACCTGAACTTAACACCGGCACGAG
Found at i:49555780 original size:49 final size:50
Alignment explanation
Indices: 49555703--49555880 Score: 232
Period size: 52 Copynumber: 3.5 Consensus size: 50
49555693 ACTAGTGACT
* *
49555703 CAAGTGTGGTACTATGTGAAGGCAACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
49555752 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* * * *
49555804 CAAGTGTGGTACTATGTGAAGTCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* * * *
49555855 TAAGGGTGGTACTGTGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
49555881 CGGGTATCCG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 33 0.29
50 4 0.04
51 36 0.32
52 41 0.36
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:49555823 original size:52 final size:51
Alignment explanation
Indices: 49555703--49555850 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 51
49555693 ACTAGTGACT
* *
49555703 CAAGTGTGGTACTATGTGAAGGCAACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
49555752 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
49555804 CAAGTGTGGTACTATGTGAAGTCCACTTTGTGAAGAAGGTAGCTTTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTG
49555851 ACTATAAGGG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
49 33 0.36
51 18 0.20
52 41 0.45
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:49558499 original size:17 final size:19
Alignment explanation
Indices: 49558457--49558500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49558447 ATGAAATTTT
*
49558457 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
49558476 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
49558494 AA-TATTA
1 AATTATTA
49558501 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:49560347 original size:28 final size:28
Alignment explanation
Indices: 49560315--49560383 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
49560305 GCGTAGATCA
49560315 CGAAATTACCCCTAAAGAGAAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAAATTAC
* *
49560343 CGAAATTACCCCTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGAAAAATTAC
*
49560371 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49560384 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGAAAAATTAC
Found at i:49563720 original size:30 final size:30
Alignment explanation
Indices: 49563686--49563746 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49563676 TCCTTAACTC
49563686 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
49563716 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
49563746 A
1 A
49563747 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:49565316 original size:24 final size:24
Alignment explanation
Indices: 49565289--49565405 Score: 135
Period size: 24 Copynumber: 4.9 Consensus size: 24
49565279 AAGTTGCACG
*
49565289 TTGTGGACAAGCCACTCAATAACA
1 TTGTGGTCAAGCCACTCAATAACA
* * *
49565313 TTGTTGCCAAGCCAGTCAATAACA
1 TTGTGGTCAAGCCACTCAATAACA
** **
49565337 TTGTTTTCAAGCCACTCAATAATG
1 TTGTGGTCAAGCCACTCAATAACA
*
49565361 TTGTGGTCAAGCCACCCAATAACA
1 TTGTGGTCAAGCCACTCAATAACA
* *
49565385 TTGTGGTTAAACCACTCAATA
1 TTGTGGTCAAGCCACTCAATA
49565406 TTGCAGTAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (24 bp):
TTGTGGTCAAGCCACTCAATAACA
Found at i:49582161 original size:52 final size:52
Alignment explanation
Indices: 49582039--49582286 Score: 209
Period size: 52 Copynumber: 4.6 Consensus size: 52
49582029 TAGGATATGA
* *
49582039 CAATGTGCTGAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGG
*
49582091 AAATGTG-TCAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGG
1 CAATGTGCT-AAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGG
* * * * * *
49582143 CAATATGCTAAGTAAAATAAGTCCATGACAATATGCTAAGTGAAATAAGACCATTG
1 CAATGTGCTAAGTGAAATAAGACCATGGC---AT-CTAAGTGAAATAAGTCCATGG
* * *
49582199 C---GT-TTAAGTGAAACAAGTCCATGGCAATGTGCTAAGTCTAAGTGAAATAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAG---A---CCATG-GC--A-TCTAAGTGAAATAAGTCCATGG
*
49582257 CAATGTGCTAAGTGAAATAAGTCCATGGCA
1 CAATGTGCTAAGTGAAATAAGACCATGGCA
49582287 ATGTGCTTAG
Statistics
Matches: 153, Mismatches: 25, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
51 1 0.01
52 80 0.52
53 3 0.02
55 4 0.03
56 24 0.16
58 25 0.16
59 2 0.01
61 2 0.01
62 12 0.08
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (52 bp):
CAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGG
Found at i:49582184 original size:80 final size:80
Alignment explanation
Indices: 49582070--49582286 Score: 267
Period size: 80 Copynumber: 2.6 Consensus size: 80
49582060 ACCATGGCAT
* *
49582070 CTAAGTGAAATAAGTCCATGGA-AATGTG-TCAAGTGAAATAAGACCATGGCATCTAAGTGAAAT
1 CTAAGTAAAATAAGTCCAT-GACAATGTGCT-AAGTGAAATAAGACCATGGCATCTAAGTGAAAC
49582133 AAGTCCATGGCAATATG
64 AAGTCCATGGCAATATG
* * * *
49582150 CTAAGTAAAATAAGTCCATGACAATATGCTAAGTGAAATAAGACCATTGCGTTTAAGTGAAACAA
1 CTAAGTAAAATAAGTCCATGACAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAA
*
49582215 GTCCATGGCAATGTG
66 GTCCATGGCAATATG
* *
49582230 CTAAGTCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGTCCATGGCA
1 CTAAG--T-A---AAATAAGTCCATGACAATGTGCTAAGTGAAATAAGACCATGGCA
49582287 ATGTGCTTAG
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 2 0.02
80 73 0.62
81 1 0.01
82 1 0.01
83 1 0.01
86 39 0.33
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (80 bp):
CTAAGTAAAATAAGTCCATGACAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAA
GTCCATGGCAATATG
Found at i:49582251 original size:34 final size:33
Alignment explanation
Indices: 49582203--49582322 Score: 160
Period size: 34 Copynumber: 3.7 Consensus size: 33
49582193 CCATTGCGTT
*
49582203 TAAGTGAAACAAGTCCATGGCAATGTGCTAAGTC
1 TAAGTGAAATAAGTCCATGGCAATGTGCT-AGTC
49582237 TAAGTGAAATAAGTCCATGGCAA--TG-T-G-C
1 TAAGTGAAATAAGTCCATGGCAATGTGCTAGTC
*
49582265 TAAGTGAAATAAGTCCATGGCAATGTGCTTAGTT
1 TAAGTGAAATAAGTCCATGGCAATGTGC-TAGTC
*
49582299 TAAGTGAAATAAGTCCACGGCAAT
1 TAAGTGAAATAAGTCCATGGCAAT
49582323 AGAATTATAA
Statistics
Matches: 77, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
28 24 0.31
29 1 0.01
30 2 0.03
31 1 0.01
32 3 0.04
33 1 0.01
34 45 0.58
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (33 bp):
TAAGTGAAATAAGTCCATGGCAATGTGCTAGTC
Found at i:49582292 original size:28 final size:28
Alignment explanation
Indices: 49582039--49582293 Score: 239
Period size: 28 Copynumber: 9.3 Consensus size: 28
49582029 TAGGATATGA
* * *
49582039 CAATGTGCTGAGTGAAATAGGACCATGG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
49582067 C-A--T-CTAAGTGAAATAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
* *
49582091 AAATGTG-TCAAGTGAAATAAGACCATGG
1 CAATGTGCT-AAGTGAAATAAGTCCATGG
49582119 C-A--T-CTAAGTGAAATAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
* * *
49582143 CAATATGCTAAGTAAAATAAGTCCATGA
1 CAATGTGCTAAGTGAAATAAGTCCATGG
* * *
49582171 CAATATGCTAAGTGAAATAAGACCATTG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
* *
49582199 C---GT-TTAAGTGAAACAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
49582223 CAATGTGCTAAGTCTAAGTGAAATAAGTCCATGG
1 CAA--TG-T--G-CTAAGTGAAATAAGTCCATGG
49582257 CAATGTGCTAAGTGAAATAAGTCCATGG
1 CAATGTGCTAAGTGAAATAAGTCCATGG
49582285 CAATGTGCT
1 CAATGTGCT
49582294 TAGTTTAAGT
Statistics
Matches: 187, Mismatches: 20, Indels: 40
0.76 0.08 0.16
Matches are distributed among these distances:
24 55 0.29
25 6 0.03
27 5 0.03
28 93 0.50
29 2 0.01
30 1 0.01
31 1 0.01
32 2 0.01
34 22 0.12
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (28 bp):
CAATGTGCTAAGTGAAATAAGTCCATGG
Found at i:49584489 original size:34 final size:34
Alignment explanation
Indices: 49584451--49584602 Score: 150
Period size: 34 Copynumber: 4.5 Consensus size: 34
49584441 TTCATGCATT
*
49584451 TTAAGCTGCTGGAATAAATGTTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATGTTCATCTTAGTTAA
* *
49584485 TTAAGTTGCTAGAATAAATGGTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATGTTCATCTTAGTTAA
* * *
49584519 TTGAGTTGTTGGAATAAATGCTT-ATTTTAGTTAA
1 TTAAGTTGCTGGAATAAATG-TTCATCTTAGTTAA
* * * **
49584553 TTAA-TTGCTAGAATAATTACTT-ATCTTAGTTTCT
1 TTAAGTTGCTGGAATAAAT-GTTCATCTTAG-TTAA
49584587 TTAA-TTGCTGGAATAA
1 TTAAGTTGCTGGAATAA
49584603 CTTATTGATA
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
33 19 0.19
34 78 0.80
35 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (34 bp):
TTAAGTTGCTGGAATAAATGTTCATCTTAGTTAA
Found at i:49584599 original size:67 final size:68
Alignment explanation
Indices: 49584457--49584602 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 68
49584447 CATTTTAAGC
**
49584457 TGCTGGAATAAATGTTCATCTTAGTTAATTAAGTTGCTAGAATAAATGGTCATCTTAGTTAATTG
1 TGCTGGAATAAATGTTCATCTTAGTTAATTAAGTTGCTAGAATAAATACTCATCTTAGTTAATTG
*
49584522 AGT
66 AAT
* * * * **
49584525 TGTTGGAATAAATGCTT-ATTTTAGTTAATTAA-TTGCTAGAATAATTACTTATCTTAGTTTCTT
1 TGCTGGAATAAATG-TTCATCTTAGTTAATTAAGTTGCTAGAATAAATACTCATCTTAGTTAATT
*
49584588 TAAT
65 GAAT
49584592 TGCTGGAATAA
1 TGCTGGAATAA
49584603 CTTATTGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
67 37 0.56
68 27 0.41
69 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (68 bp):
TGCTGGAATAAATGTTCATCTTAGTTAATTAAGTTGCTAGAATAAATACTCATCTTAGTTAATTG
AAT
Found at i:49584730 original size:12 final size:11
Alignment explanation
Indices: 49584696--49584730 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
49584686 ATTAAGTATA
*
49584696 GTGTGTTTAAT
1 GTGTTTTTAAT
49584707 GTGTTTTTAAT
1 GTGTTTTTAAT
49584718 GTGTTTGTTAAT
1 GTGTTT-TTAAT
49584730 G
1 G
49584731 CTTGTAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (11 bp):
GTGTTTTTAAT
Found at i:49587963 original size:61 final size:61
Alignment explanation
Indices: 49587868--49587991 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
49587858 TTGCTCTAAA
*
49587868 TTGTGGTTAAAAAGATTCGATCGTGTTTTGAAAGATTATACTATTCAATTGCTACATGTTC
1 TTGTGGTTAAAAAGATTCGATCGTGTTTTGAAAGATTATACTACTCAATTGCTACATGTTC
49587929 TTGTGGTTAAAAAGATTCGATCGTGTTTTGAAAGATTATACTACTCAATTGCTACATGTTC
1 TTGTGGTTAAAAAGATTCGATCGTGTTTTGAAAGATTATACTACTCAATTGCTACATGTTC
49587990 TT
1 TT
49587992 TCTAAGTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (61 bp):
TTGTGGTTAAAAAGATTCGATCGTGTTTTGAAAGATTATACTACTCAATTGCTACATGTTC
Found at i:49590117 original size:27 final size:27
Alignment explanation
Indices: 49590068--49590414 Score: 205
Period size: 27 Copynumber: 12.9 Consensus size: 27
49590058 GGTAAATCTA
* *
49590068 CAAACCAAGGGTATTT-TCATAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* *
49590095 CAAACCAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCTGTAA-TTTTG
*
49590123 -AAAGTCAAAGGTATTTCTGTAATTTTG
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
* * * *
49590150 TAAATTAGGGGTATTTCTGTAATTTTT
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
49590177 CAAATCAAGGGTCTTTC-GATAATTTTC
1 CAAATCAAGGGTATTTCTG-TAATTTTG
* * *
49590204 CAAATTAGGGGTATTT-TGGTAATTTTC
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* *
49590231 CAAATTAGGGGTATTT-TGGTAATTTT-
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * * *
49590257 AAAATTAAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCTGTAATTTTG
* * * *
49590284 CAAGTCGAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCTGTAATTTTG
** **
49590311 CAGGTCAAGGGTATTT-TGGTAATTTCA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
49590338 CAAATC-AGGCATATTT-TGGAAATTTTA
1 CAAATCAAGG-GTATTTCT-GTAATTTTG
* *
49590365 CAAA-CCAGGGTATTT-TGGTAATTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
*
49590391 CAAA-CTAAGGGTATTTCAGTAATT
1 CAAATC-AAGGGTATTTCTGTAATT
49590415 CTACCCTACA
Statistics
Matches: 269, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
26 47 0.17
27 196 0.73
28 26 0.10
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTG
Found at i:49590238 original size:81 final size:80
Alignment explanation
Indices: 49590132--49590344 Score: 216
Period size: 80 Copynumber: 2.6 Consensus size: 80
49590122 GAAAGTCAAA
** * *
49590132 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTCT-GTAATTTTTCAAATCAAGGGTCTTTCGA
1 GGTATTTCTGTAATTTTCCAAATTAGGGGTATTT-TGGTAA-TTTTAAAATCAAGGGTATTTCGA
49590196 TAATTTTCCAAATTAGG
64 TAATTTTCCAAATTAGG
* *
49590213 GGTATTT-TGGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTAAAATTAAGGGTATTTCGGT
1 GGTATTTCT-GTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTAAAATCAAGGGTATTTCGAT
* * *
49590277 AATTTTAC-AAGTCGAG
65 AATTTTCCAAATTAG-G
* * ** * * *
49590293 GGTATTTCAGTAATTTTACAGGTCAAGGGTATTTTGGTAATTTCACAAATCA
1 GGTATTTCTGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTA-AAATCA
49590345 GGCATATTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
79 4 0.04
80 67 0.61
81 39 0.35
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (80 bp):
GGTATTTCTGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTAAAATCAAGGGTATTTCGATA
ATTTTCCAAATTAGG
Found at i:49590307 original size:107 final size:106
Alignment explanation
Indices: 49590073--49590414 Score: 300
Period size: 107 Copynumber: 3.2 Consensus size: 106
49590063 ATCTACAAAC
* * * *** **
49590073 CAAGGGTATTTTCA-TAATTTTGCAAACCAATGGTATTTCT-GTAATTTTTGAAAGTCAAAGGTA
1 CAAGGGTA-TTTCAGTAATTTTACAAATCAAGGGTATTT-TGGTAATTTCACAAA-TCAGGGGTA
* * * *
49590136 TTTCT-GTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTTCAAAT
63 TTT-TGGTAATTTT-AAAATTAAGGGTATTTCGGTAATTTTAC-AAT
* * * * *
49590182 CAAGGGTCTTTC-GATAATTTTCCAAATTAGGGGTATTTTGGTAATTTTC-CAAATTAGGGGTAT
1 CAAGGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTTGGTAA-TTTCACAAATCAGGGGTAT
49590245 TTTGGTAATTTTAAAATTAAGGGTATTTCGGTAATTTTACAAGT
64 TTTGGTAATTTTAAAATTAAGGGTATTTCGGTAATTTTACAA-T
* ** **
49590289 CGAGGGTATTTCAGTAATTTTACAGGTCAAGGGTATTTTGGTAATTTCACAAATCAGGCATATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTCACAAATCAGGGGTATTT
* ** * *
49590354 TGGAAATTTTACAAA-CCAGGGTATTTTGGTAATTTTACAAA
66 TGGTAATTTTA-AAATTAAGGGTATTTCGGTAATTTTACAAT
49590395 CTAAGGGTATTTCAGTAATT
1 C-AAGGGTATTTCAGTAATT
49590415 CTACCCTACA
Statistics
Matches: 192, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
106 7 0.04
107 123 0.64
108 26 0.14
109 33 0.17
110 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (106 bp):
CAAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTCACAAATCAGGGGTATTT
TGGTAATTTTAAAATTAAGGGTATTTCGGTAATTTTACAAT
Found at i:49590414 original size:80 final size:80
Alignment explanation
Indices: 49590212--49590406 Score: 216
Period size: 80 Copynumber: 2.4 Consensus size: 80
49590202 TCCAAATTAG
* * * * * *
49590212 GGGTATTTTGGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTAAAATTAAGGGTATTTCGGT
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTCAAAATTAAGGATATTTCGGA
* *
49590277 AATTTTACAAGTCGA
66 AATTTTACAAGACCA
** ** * *
49590292 GGGTATTTCAGTAATTTTAC-AGGTCAAGGGTATTTTGGTAATTTCACAAA-TCAGGCATATTTT
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTTGGTAATTTCA-AAATTAAGG-ATATTTC
49590355 GGAAATTTTACAA-ACCA
63 GGAAATTTTACAAGACCA
49590372 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
49590407 CAGTAATTCT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.02
80 70 0.74
81 22 0.23
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTCAAAATTAAGGATATTTCGGA
AATTTTACAAGACCA
Found at i:49590433 original size:27 final size:27
Alignment explanation
Indices: 49590403--49590478 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
49590393 AACTAAGGGT
49590403 ATTTCAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
49590430 ATTTCAATAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
49590457 ATTTCAGTAATACTAGCCTACA
1 ATTTCAGTAATTCTACCCTACA
49590479 AATATGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:49590441 original size:107 final size:107
Alignment explanation
Indices: 49590242--49590441 Score: 226
Period size: 107 Copynumber: 1.9 Consensus size: 107
49590232 AAATTAGGGG
* * * *
49590242 TATTTTGGTAATTTTAAAATTAAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAAT
1 TATTTTGGAAATTTTAAAATCAAGGGTATTTCGGTAATTTTACAACTCAAGGGTATTTCAGTAAT
* ** * ***
49590307 TTTACAGGTCAAGGGTATTTTGGTAATTTCACAAATCAGGCA
66 TCTACACCTCAAGGGCATTTCAATAATTTCACAAATCAGGCA
* *
49590349 TATTTTGGAAATTTTACAAA-CCAGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAGTA
1 TATTTTGGAAATTTTA-AAATCAAGGGTATTTCGGTAATTTTAC-AACTCAAGGGTATTTCAGTA
*
49590412 ATTCTAC-CCTACAGGGGCATTTCAATAATT
64 ATTCTACACCT-CAAGGGCATTTCAATAATT
49590442 CTACCCTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
106 1 0.01
107 69 0.91
108 6 0.08
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (107 bp):
TATTTTGGAAATTTTAAAATCAAGGGTATTTCGGTAATTTTACAACTCAAGGGTATTTCAGTAAT
TCTACACCTCAAGGGCATTTCAATAATTTCACAAATCAGGCA
Found at i:49591749 original size:34 final size:32
Alignment explanation
Indices: 49591711--49591851 Score: 113
Period size: 34 Copynumber: 4.2 Consensus size: 32
49591701 TAAGTTACTG
49591711 GAATAAATGTTCATCTTAGTTAATTAAATTGCTA
1 GAATAAATGTT-ATCTTAGTTAATT-AATTGCTA
* * * * * *
49591745 GAATAAATGGTCATCTTAGTCACTTGAGTTGTTG
1 GAATAAAT-GTTATCTTAGTTAATT-AATTGCTA
49591779 GAATAAATGCTTAGT-TTAGTTAATTAATTGCTA
1 GAATAAATG-TTA-TCTTAGTTAATTAATTGCTA
* * * *
49591812 GAATAATTACTTATCTTAGTCTATTTAATTGCTG
1 GAATAAAT-GTTATCTTAGT-TAATTAATTGCTA
49591846 GAATAA
1 GAATAA
49591852 CTTATTGCTA
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
32 1 0.01
33 21 0.25
34 59 0.70
35 3 0.04
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (32 bp):
GAATAAATGTTATCTTAGTTAATTAATTGCTA
Found at i:49591848 original size:67 final size:68
Alignment explanation
Indices: 49591699--49591851 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 68
49591689 TTTCATGCAT
* **
49591699 TTTAAGTTACTGGAATAAATGTTCATCTTAGTTAATTAAATTGCTAGAATAAATGGTCATCTTAG
1 TTTAA-TTGCTGGAATAAATGTTCATCTTAGTTAATTAAATTGCTAGAATAAATACTCATCTTAG
49591764 TCAC
65 TCAC
* * * * *
49591768 TTGAGTTGTTGGAATAAATGCTT-AGT-TTAGTTAATT-AATTGCTAGAATAATTACTTATCTTA
1 TTTAATTGCTGGAATAAATG-TTCA-TCTTAGTTAATTAAATTGCTAGAATAAATACTCATCTTA
49591830 GTCTA-
64 GTC-AC
49591835 TTTAATTGCTGGAATAA
1 TTTAATTGCTGGAATAA
49591852 CTTATTGCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
67 39 0.56
68 25 0.36
69 6 0.09
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (68 bp):
TTTAATTGCTGGAATAAATGTTCATCTTAGTTAATTAAATTGCTAGAATAAATACTCATCTTAGT
CAC
Found at i:49594033 original size:27 final size:27
Alignment explanation
Indices: 49593965--49594035 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
49593955 CGAAAAAGGG
* **
49593965 AAAGAAATAAAAAAAGAAAAAAAGAATG
1 AAAGAAA-ACAAAAAGAAAAAAAGAACA
* *
49593993 AAAGAAAACTAAAAGAAAAAGAGAACA
1 AAAGAAAACAAAAAGAAAAAAAGAACA
* *
49594020 AAAGAGAGCAAAAAGA
1 AAAGAAAACAAAAAGA
49594036 GATTAAGAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAGAAAACAAAAAGAAAAAAAGAACA
Found at i:49594443 original size:34 final size:34
Alignment explanation
Indices: 49594399--49594549 Score: 155
Period size: 34 Copynumber: 4.5 Consensus size: 34
49594389 TTCAAGCATT
* *
49594399 TTAAGCTGCTGGAGTAAATGCTCATATTAGTTAA
1 TTAAGTTGCTGGAATAAATGCTCATATTAGTTAA
* * *
49594433 TTAAGTTGCTGGAATAAATGTTCATCTTGGTTAA
1 TTAAGTTGCTGGAATAAATGCTCATATTAGTTAA
* * *
49594467 TTGAGTTGCTGGAATAAATGCTTATTTTA-TTAA
1 TTAAGTTGCTGGAATAAATGCTCATATTAGTTAA
* ** * *
49594500 TTAA-TTGCTGGAATAAGTGCTTGTCTTAGTTTAT
1 TTAAGTTGCTGGAATAAATGCTCATATTAG-TTAA
49594534 TTAA-TTGCTGGAATAA
1 TTAAGTTGCTGGAATAA
49594550 CTTATTGTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
32 21 0.21
33 7 0.07
34 72 0.72
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (34 bp):
TTAAGTTGCTGGAATAAATGCTCATATTAGTTAA
Found at i:49594543 original size:66 final size:68
Alignment explanation
Indices: 49594405--49594549 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 68
49594395 CATTTTAAGC
* *
49594405 TGCTGGAGTAAATGCTCATATTAGTTAATTAAGTTGCTGGAATAAATGTTCATCTTGGTTAATTG
1 TGCTGGAATAAATGCTCATATTAGTTAATTAAGTTGCTGGAATAAATGTTCATCTTAGTTAATTG
*
49594470 AGT
66 AAT
* * * * *
49594473 TGCTGGAATAAATGCTTATTTTA-TTAATTAA-TTGCTGGAATAAGTGCTT-GTCTTAGTTTATT
1 TGCTGGAATAAATGCTCATATTAGTTAATTAAGTTGCTGGAATAAATG-TTCATCTTAGTTAATT
*
49594535 TAAT
65 GAAT
49594539 TGCTGGAATAA
1 TGCTGGAATAA
49594550 CTTATTGTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 37 0.55
67 10 0.15
68 20 0.30
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (68 bp):
TGCTGGAATAAATGCTCATATTAGTTAATTAAGTTGCTGGAATAAATGTTCATCTTAGTTAATTG
AAT
Found at i:49594677 original size:12 final size:11
Alignment explanation
Indices: 49594648--49594677 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
49594638 GTATAGTATG
49594648 TTTAATGTGTT
1 TTTAATGTGTT
49594659 TTTAATGTGTT
1 TTTAATGTGTT
49594670 TGTTAATG
1 T-TTAATG
49594678 CTTGTAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:49598574 original size:40 final size:39
Alignment explanation
Indices: 49598537--49598720 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
49598527 GCTACTCGTT
* *
49598537 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
49598577 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49598617 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
49598655 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49598696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49598721 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 21 0.16
40 69 0.54
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:49598680 original size:78 final size:81
Alignment explanation
Indices: 49598537--49598720 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
49598527 GCTACTCGTT
* * *
49598537 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
49598602 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
49598617 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
49598679 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
49598696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49598721 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 3 0.03
78 47 0.51
79 29 0.31
80 14 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:49606746 original size:40 final size:39
Alignment explanation
Indices: 49606709--49606892 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
49606699 GCTACTCGTT
* *
49606709 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
49606749 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49606789 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
49606827 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49606868 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49606893 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 21 0.16
40 69 0.54
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Done.