Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 173 of 344
Found at i:57849694 original size:40 final size:40
Alignment explanation
Indices: 57849649--57849884 Score: 337
Period size: 40 Copynumber: 5.9 Consensus size: 40
57849639 CGAATACACG
* * * * *
57849649 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
57849689 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
57849729 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
57849769 TCACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57849809 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57849849 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
57849885 CATCATTCAA
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:57850230 original size:29 final size:29
Alignment explanation
Indices: 57850191--57850269 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
57850181 CTTAATAATC
*
57850191 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
57850221 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
57850250 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57850270 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:57850312 original size:43 final size:43
Alignment explanation
Indices: 57850251--57850353 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
57850241 TGCATTTCAA
57850251 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57850294 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57850337 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
57850354 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:57852253 original size:37 final size:37
Alignment explanation
Indices: 57852203--57852281 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57852193 TTATTACGAA
* * *
57852203 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57852240 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57852277 GTCTT
1 GTCTT
57852282 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57852487 original size:47 final size:47
Alignment explanation
Indices: 57852400--57852875 Score: 709
Period size: 47 Copynumber: 10.1 Consensus size: 47
57852390 CCTTTCGGGA
* * * * * * * * *
57852400 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57852447 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57852494 CTTCTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57852541 CTTATCACACACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57852588 CCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57852635 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57852682 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57852729 CTTATCACGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57852776 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57852823 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57852872 CTTA
1 CTTA
57852876 CTATCATTTC
Statistics
Matches: 399, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 358 0.90
49 41 0.10
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57858858 original size:40 final size:40
Alignment explanation
Indices: 57858800--57858984 Score: 284
Period size: 40 Copynumber: 4.6 Consensus size: 40
57858790 CAGATGATAA
* *
57858800 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
57858840 CCGGGCTAAG-CTCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
57858880 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57858920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57858960 CCGGGCTAAGTCCCAAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57858985 AGCAAGTAGT
Statistics
Matches: 135, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 132 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57858999 original size:80 final size:79
Alignment explanation
Indices: 57858796--57859016 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 79
57858786 TATTCAGATG
* * *
57858796 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CTCTGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTC-CCGAAGG
57858859 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
* * *
57858876 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
57858941 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * * *
57858956 ATAACCGGGCTAAGTCCCAAAGGAATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
57859017 ATGCTTGGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 16 0.13
80 107 0.85
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:57866958 original size:40 final size:40
Alignment explanation
Indices: 57866887--57867079 Score: 300
Period size: 40 Copynumber: 4.8 Consensus size: 40
57866877 TATCTAGCAC
* * *
57866887 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
57866926 AGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
57866966 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
57867006 AGCCTGCGGGTCTTTAAGCCTGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
57867046 AGCCTGCGGGTCTTTAAGCCCGGATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
57867080 CATCAAATAA
Statistics
Matches: 143, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.10
40 128 0.90
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:57867588 original size:39 final size:39
Alignment explanation
Indices: 57867534--57867612 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
57867524 ATATTCGACT
*
57867534 TTCACACATATAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
57867573 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
57867612 T
1 T
57867613 AAGCAATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (39 bp):
TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
Found at i:57870791 original size:26 final size:26
Alignment explanation
Indices: 57870757--57870810 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
57870747 CCCTACAAAA
* *
57870757 TTTTGACAATTTTACTCTTAGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
* *
57870783 TTTTAACAATTTTGCCCTTGGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
57870809 TT
1 TT
57870811 CGAGAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (26 bp):
TTTTAACAATTTTACCCTTAGTAAAT
Found at i:57873191 original size:29 final size:29
Alignment explanation
Indices: 57873090--57873233 Score: 112
Period size: 29 Copynumber: 4.9 Consensus size: 29
57873080 ACAACTTATC
* * *
57873090 AACGACCATCTAATTATGAAAATGGATGGT
1 AACGACCAT-TGATTATGAAAAGGGATAGT
* *
57873120 GACGACCATTGAATTATG-AAATGGATAGCT
1 AACGACCATTG-ATTATGAAAAGGGATAG-T
* * * *
57873150 -TCAACTATCGATTATGAAAAGGGATAGT
1 AACGACCATTGATTATGAAAAGGGATAGT
*
57873178 AACGACCATTGATTATGAAAAGGGATGGT
1 AACGACCATTGATTATGAAAAGGGATAGT
* * * *
57873207 GATGACCATCGAATTATGAAAAAGGAT
1 AACGACCATTG-ATTATGAAAAGGGAT
57873234 GCAGCTATCA
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
28 7 0.08
29 56 0.61
30 29 0.32
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (29 bp):
AACGACCATTGATTATGAAAAGGGATAGT
Found at i:57873204 original size:87 final size:82
Alignment explanation
Indices: 57873090--57873300 Score: 234
Period size: 87 Copynumber: 2.5 Consensus size: 82
57873080 ACAACTTATC
* * *
57873090 AACGACCATCTAATTATGAAAATGGATGGTGACGACCATTGAATTATG-AAATGGATAGCTTCAA
1 AACGACCAT-TGATTATGAAAA-GGATGGTGACGACCATCGAATTATGAAAAAGGAT-G---CAA
57873154 CTATCGATTATGAAAAGGGATAGT
60 CTATC-ATTATGAAAAGGGATAGT
* *
57873178 AACGACCATTGATTATGAAAAGGGATGGTGATGACCATCGAATTATGAAAAAGGATGCAGCTATC
1 AACGACCATTGATTATGAAAA-GGATGGTGACGACCATCGAATTATGAAAAAGGATGCAACTATC
*
57873243 ATTATGAAAAGGGATGGT
65 ATTATGAAAAGGGATAGT
* * *
57873261 GACGA-TA-TGATTATGAAAAGGATGGTG-C-AACATCGAATTA
1 AACGACCATTGATTATGAAAAGGATGGTGACGACCATCGAATTA
57873301 CAAAAAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
78 11 0.10
80 8 0.07
81 12 0.11
82 1 0.01
83 21 0.19
84 7 0.06
87 35 0.32
88 16 0.14
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (82 bp):
AACGACCATTGATTATGAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATGCAACTATCA
TTATGAAAAGGGATAGT
Found at i:57891510 original size:40 final size:40
Alignment explanation
Indices: 57891439--57891631 Score: 300
Period size: 40 Copynumber: 4.8 Consensus size: 40
57891429 TATCTAGCAC
* * *
57891439 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
57891478 AGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
57891518 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
57891558 AGCCTGCGGGTCTTTAAGCCTGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
57891598 AGCCTGCGGGTCTTTAAGCCCGGATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
57891632 CATCAAATAA
Statistics
Matches: 143, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.10
40 128 0.90
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:57892140 original size:39 final size:39
Alignment explanation
Indices: 57892086--57892164 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
57892076 ATATTCGACT
*
57892086 TTCACACATATAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
57892125 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
57892164 T
1 T
57892165 AAGCAATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (39 bp):
TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
Found at i:57895348 original size:26 final size:26
Alignment explanation
Indices: 57895314--57895367 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
57895304 CCCTACAAAA
* *
57895314 TTTTGACAATTTTACTCTTAGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
* *
57895340 TTTTAACAATTTTGCCCTTGGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
57895366 TT
1 TT
57895368 CGAGAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (26 bp):
TTTTAACAATTTTACCCTTAGTAAAT
Found at i:57897772 original size:30 final size:30
Alignment explanation
Indices: 57897736--57898005 Score: 171
Period size: 30 Copynumber: 9.1 Consensus size: 30
57897726 CAACTTATCA
*
57897736 ACGACCATCTAATTATGAAAATGGATGGTG
1 ACGACCATCTAATTATGAAAAGGGATGGTG
* *
57897766 ACGACCAT-TGAATTATGAAAATGGATAGCT-
1 ACGACCATCT-AATTATGAAAAGGGAT-GGTG
* * * * * *
57897796 TCAACTATC-GATTATGAAAAGGGATAGTA
1 ACGACCATCTAATTATGAAAAGGGATGGTG
57897825 ACGACCAT-TGAATTATGAAAAGGGATGGTG
1 ACGACCATCT-AATTATGAAAAGGGATGGTG
* * * *
57897855 ATGACCATCGAATTATGAAAAAGGATAGCT-
1 ACGACCATCTAATTATGAAAAGGGAT-GGTG
* * *
57897885 TC-AGCTATCGAATTATGAAAAGGGATGGTG
1 ACGA-CCATCTAATTATGAAAAGGGATGGTG
* *
57897915 ACGATCAT-TGAATTATGAAAAAGGATGGTG
1 ACGACCATCT-AATTATGAAAAGGGATGGTG
* * ** * *
57897945 ACAACCATCGAATTACAAAAAAGGATAGCT-
1 ACGACCATCTAATTATGAAAAGGGAT-GGTG
* * *
57897975 TCGACTATC-GATTATGAAAAGGGATGGTG
1 ACGACCATCTAATTATGAAAAGGGATGGTG
57898004 AC
1 AC
57898006 AACGATCATG
Statistics
Matches: 182, Mismatches: 43, Indels: 31
0.71 0.17 0.12
Matches are distributed among these distances:
28 3 0.02
29 36 0.20
30 136 0.75
31 7 0.04
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (30 bp):
ACGACCATCTAATTATGAAAAGGGATGGTG
Found at i:57897944 original size:90 final size:89
Alignment explanation
Indices: 57897736--57898005 Score: 391
Period size: 89 Copynumber: 3.0 Consensus size: 89
57897726 CAACTTATCA
* * * *
57897736 ACGACCATCT-AATTATGAAAATGGATGGTGACGACCATTGAATTATGAAAATGGATAGCTTCAA
1 ACGACCAT-TGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAG
* *
57897800 CTATCGATTATGAAAAGGGATAGTA
65 CTATCGATTATGAAAAGGGATGGTG
* *
57897825 ACGACCATTGAATTATGAAAAGGGATGGTGATGACCATCGAATTATGAAAAAGGATAGCTTCAGC
1 ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAGC
57897890 TATCGAATTATGAAAAGGGATGGTG
66 TATCG-ATTATGAAAAGGGATGGTG
* * **
57897915 ACGATCATTGAATTATGAAAAAGGATGGTGACAACCATCGAATTACAAAAAAGGATAGCTTC-GA
1 ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAG-
57897979 CTATCGATTATGAAAAGGGATGGTG
65 CTATCGATTATGAAAAGGGATGGTG
57898004 AC
1 AC
57898006 AACGATCATG
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
88 1 0.01
89 85 0.52
90 79 0.48
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (89 bp):
ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAGC
TATCGATTATGAAAAGGGATGGTG
Found at i:57897955 original size:60 final size:60
Alignment explanation
Indices: 57897736--57898008 Score: 209
Period size: 60 Copynumber: 4.6 Consensus size: 60
57897726 CAACTTATCA
* * * * * * *
57897736 ACGACCATCTAATTATGAAAATGGATGGTGACGACCATTGAATTATGAAAATGGATAGCT-
1 ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGAT-GGTG
* * * * * *
57897796 TC-AACTATCG-ATTATGAAAAGGGATAGTAACGACCATTGAATTATGAAAAGGGATGGTG
1 ACGAAC-ATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGATGGTG
* * * * * *
57897855 ATGACCATCGAATTATGAAAAAGGATAGCT-TCAGCTATCGAATTATGAAAAGGGATGGTG
1 ACGAACATCGAATTATGAAAAAGGAT-GGTGACAACCATCGAATTATGAAAAGGGATGGTG
* * ** * *
57897915 ACGATCATTGAATTATGAAAAAGGATGGTGACAACCATCGAATTACAAAAAAGGATAGCT-
1 ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGAT-GGTG
* *
57897975 TCG-ACTATCG-ATTATGAAAAGGGATGGTGACAAC
1 ACGAAC-ATCGAATTATGAAAAAGGATGGTGACAAC
57898009 GATCATGATT
Statistics
Matches: 171, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
58 2 0.01
59 73 0.43
60 93 0.54
61 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (60 bp):
ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGATGGTG
Found at i:57904495 original size:22 final size:22
Alignment explanation
Indices: 57904467--57904531 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
57904457 GCAAATATGT
* *
57904467 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
57904489 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
57904511 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57904532 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57904696 original size:41 final size:41
Alignment explanation
Indices: 57904639--57904747 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 41
57904629 CGACACAAAG
* *
57904639 TCGTCAAGCAACCATGCAATCCTTAATCGGTGGATCCACGA
1 TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
* * *
57904680 TCGTCAAGCAACCATGCGATTCTCAATCGGTGGATCTACGG
1 TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
*
57904721 TCATCAAGCAACCATGCGATCCTCAAT
1 TCGTCAAGCAACCATGCGATCCTCAAT
57904748 TTCTTCCTAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
Found at i:57905037 original size:27 final size:27
Alignment explanation
Indices: 57905005--57905345 Score: 255
Period size: 27 Copynumber: 12.6 Consensus size: 27
57904995 TTGGTAAATC
*
57905005 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
57905032 TGCAAACCAAAGGTATTTCG-TAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
57905058 TTGAAAGTCAAAGGTATTTCTG-CAATTT
1 TACAAA-TCAAGGGTATTTC-GATAATTT
**
57905086 TGTAAATCAAGGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
* * * *
57905113 TCCAAATTAAGGGTATTTCGGTACCTTT
1 TACAAATCAAGGGTATTTCGATA-ATTT
*
57905141 T-CAAATCGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
57905167 TACAAGTCAAGAGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
57905194 TACATGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
57905221 TACAAGTTC-AGGGTATTTCGGTAATTT
1 TACAA-ATCAAGGGTATTTCGATAATTT
** *
57905248 TACAGGTCGAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * * * *
57905275 CAAAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
57905302 TACAAA-CTAGGGATATTTTGGTAATTT
1 TACAAATCAAGGG-TATTTCGATAATTT
*
57905329 TACAAACCAAGGGTATT
1 TACAAATCAAGGGTATT
57905346 CAGTAATTTC
Statistics
Matches: 258, Mismatches: 45, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
26 21 0.08
27 216 0.84
28 21 0.08
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:57908307 original size:22 final size:21
Alignment explanation
Indices: 57908271--57908334 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
57908261 GCAAATACAT
57908271 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCAT-ATCAGG
* * *
57908293 TTGGCATAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
57908315 TTGGCACAAAGCCATGATCA
1 TTGGCACAAAGCCAT-ATCA
57908335 AAATAATTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:57908539 original size:40 final size:41
Alignment explanation
Indices: 57908477--57908555 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
57908467 AAAGCCACCG
* *
57908477 GTGGATCCACGGTCGTCAAGCAACCATGTGATTCTCAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
*
57908518 GTGGATCCAC-GTCGTTAAGCAACCATGCGATCCTCAAT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
57908556 TTCTTCCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 25 0.71
41 10 0.29
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
Found at i:57908883 original size:55 final size:54
Alignment explanation
Indices: 57908824--57908953 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 54
57908814 ATAAACCAAG
*
57908824 GGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTAAAAGTCAAA
1 GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAA-TCAAA
** * * * * * *
57908879 GGTATTTCTTTAATCTTGTAAATCAGGGGTATTTTTGTAATTTTTCAAATCAAG
1 GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAATCAAA
* *
57908933 GGTATCTCGGTAATTTT-CAAA
1 GGTATTTCGATAATTTTGCAAA
57908954 ATTGAGGGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 3 0.05
54 17 0.28
55 41 0.67
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (54 bp):
GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAATCAAA
Found at i:57909179 original size:27 final size:27
Alignment explanation
Indices: 57908793--57909181 Score: 151
Period size: 27 Copynumber: 14.4 Consensus size: 27
57908783 TTTCACCCTA
* * * *
57908793 CAAGGGTGTTTTGGTAAATCTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
57908820 CAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
57908847 CAATGGTATTTTTGTAATTTTTA-AAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* * * ** *
57908875 CAAAGGTATTTCT-TTAATCTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * * *
57908902 CAGGGGTATTTTTGTAATTTTTCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
57908929 CAAGGGTATCTCGGTAATTTT-CAAAAT
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
** ** * ***
57908956 TGAGGGTATTTCAGAAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * **
57908983 GGAGGGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
57909010 CAAGGGTAATTCGATAATTTTACAAGTC
1 CAAGGGTATTTTGGTAATTTTACAA-AC
* * ** ****
57909038 AAATGG-ATTTCAGTAATTTTACTGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
57909064 CGAGGGTATTTCGCTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
57909090 TTAGGGATATTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
*
57909118 C-AGGGTTGTTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* *
57909145 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
57909172 CAATGGTATT
1 CAAGGGTATT
57909182 CATTAATTTC
Statistics
Matches: 272, Mismatches: 78, Indels: 24
0.73 0.21 0.06
Matches are distributed among these distances:
26 9 0.03
27 234 0.86
28 28 0.10
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:57909666 original size:27 final size:27
Alignment explanation
Indices: 57909636--57909904 Score: 109
Period size: 27 Copynumber: 9.9 Consensus size: 27
57909626 GGTAAATCTA
*
57909636 CAAACCAAGGGTATTTCGATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
57909663 CAAACCAATGGTATTTTTG-TAATTTTTG
1 CAAATCAAGGGTA-TTTCGATAA-TTTTG
* * ** *
57909691 -AAAGTTAAAGGTATTTCTTTAATCTTG
1 CAAA-TCAAGGGTATTTCGATAATTTTG
* * * ** *
57909718 TAAATCAGGGGCATTTTTATAATTTTT
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
57909745 CAAATCAAGGGTATCTCGGTAATTTT-
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
57909771 CAAAATCGAGGGTATTTCGGTAATTTTA
1 C-AAATCAAGGGTATTTCGATAATTTTG
* ** * *
57909799 CAAGTGGAGGGTATTTCAATAATTTTA
1 CAAATCAAGGGTATTTCGATAATTTTG
** * *
57909826 CAGGTCGAGGGTATTTC-AGTAATTTTA
1 CAAATCAAGGGTATTTCGA-TAATTTTG
* * *
57909853 CAAGTTGAA-GGTATTTC-AGTAATTTTA
1 CAA-ATCAAGGGTATTTCGA-TAATTTTG
*** *
57909880 CTGGTCGAGGGTATTTCGATAATTT
1 CAAATCAAGGGTATTTCGATAATTT
57909905 CACAAATTAG
Statistics
Matches: 191, Mismatches: 40, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.02
27 162 0.85
28 25 0.13
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTG
Found at i:57909795 original size:54 final size:54
Alignment explanation
Indices: 57909737--57909911 Score: 140
Period size: 54 Copynumber: 3.2 Consensus size: 54
57909727 GGCATTTTTA
* ** *
57909737 TAATTTTTCAAATCAAGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATCTCAATAATTTTAC-AAATCGAGGGTATTTCAG
* ** * **
57909791 TAATTTTACAAGTGGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
* * * * ***
57909845 TAATTTTACAAGTTGAA-GGTATTTCAGTAATTTTACTGGTCGAGGGTATTTC-G
1 TAATTTTACAA-ATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
*
57909898 ATAATTTCACAAAT
1 -TAATTTTACAAAT
57909912 TAGGGATATT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 2 0.02
54 96 0.94
55 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
Found at i:57909837 original size:81 final size:81
Alignment explanation
Indices: 57909752--57909904 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
57909742 TTTCAAATCA
* * * *
57909752 AGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGGTAATTTTACAAGTGGAGGGTATTTC
1 AGGGTATCTCAGTAATTTTAC-AAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTC
57909816 AATAATTTTACAGGTCG
65 AATAATTTTACAGGTCG
* * * ** *
57909833 AGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACTGGTCGAGGGTATTTCG
1 AGGGTATCTCAGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCA
57909898 ATAATTT
66 ATAATTT
57909905 CACAAATTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.39
Consensus pattern (81 bp):
AGGGTATCTCAGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCA
ATAATTTTACAGGTCG
Found at i:57909921 original size:27 final size:26
Alignment explanation
Indices: 57909887--57909992 Score: 131
Period size: 27 Copynumber: 4.0 Consensus size: 26
57909877 TTACTGGTCG
* * * *
57909887 AGGGTATTTCGATAATTTCACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
*
57909913 AGGGATATTTTGGTAATTTTACAAACC
1 AGGG-TATTTTGGTAATTTTACAAACT
*
57909940 AGAGTTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
57909967 AGGGGTATTTTGGTAATTTTACAAAC
1 A-GGGTATTTTGGTAATTTTACAAAC
57909993 CAATGGTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.06
27 63 0.91
28 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:57909922 original size:54 final size:53
Alignment explanation
Indices: 57909776--57909935 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 53
57909766 ATTTTCAAAA
* * *
57909776 TCGAGGGTATTTCGGTAATTTTACAAGTGGAGGGTATTTCAATAATTTTACAGG
1 TCGAGGGTATTTCGATAATTTTACAAGT-TAGGGTATTTCAGTAATTTTACAGG
* *
57909830 TCGAGGGTATTTC-AGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACTGG
1 TCGAGGGTATTTCGA-TAATTTTACAAGTT-AGGGTATTTCAGTAATTTTACAGG
* * **
57909884 TCGAGGGTATTTCGATAATTTCACAAATTAGGGATATTTTGGTAATTTTACA
1 TCGAGGGTATTTCGATAATTTTACAAGTTAGGG-TATTTCAGTAATTTTACA
57909936 AACCAGAGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 3 0.03
54 87 0.96
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (53 bp):
TCGAGGGTATTTCGATAATTTTACAAGTTAGGGTATTTCAGTAATTTTACAGG
Found at i:57909922 original size:81 final size:81
Alignment explanation
Indices: 57909736--57909936 Score: 199
Period size: 81 Copynumber: 2.5 Consensus size: 81
57909726 GGGCATTTTT
** * * * * * * *
57909736 ATAATTTTTCAAATCAAGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGGTAATTTTAC
1 ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTAC-AAGTTGAAGGTATTTCAGTAATTTTAC
*
57909800 AAGTGGAGGGTATTTCA
65 AAGTCGAGGGTATTTCA
* ** *
57909817 ATAATTTTACAGGTCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACT
1 ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACA
* *
57909882 GGTCGAGGGTATTTCG
66 AGTCGAGGGTATTTCA
* **
57909898 ATAATTTCACAAAT-TAGGGATATTTTGGTAATTTTACAA
1 ATAATTTCACAAATCGAGGG-TATTTCAGTAATTTTACAA
57909937 ACCAGAGTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
80 4 0.04
81 93 0.95
82 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACA
AGTCGAGGGTATTTCA
Found at i:57909949 original size:54 final size:54
Alignment explanation
Indices: 57909891--57909994 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
57909881 TGGTCGAGGG
*
57909891 TATTTCGATAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAACCAGAGT
1 TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCAGAGT
* * * *
57909945 TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
1 TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCA
57909995 ATGGTATTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (54 bp):
TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCAGAGT
Found at i:57910000 original size:27 final size:26
Alignment explanation
Indices: 57909918--57910002 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
57909908 AAATTAGGGA
*
57909918 TATTTTGGTAATTTTACAAACCAGAGT
1 TATTTTGGTAATTTTACAAACCA-AGG
* *
57909945 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACCA-AGG
57909972 TATTTTGGTAATTTTACAAACCAATGG
1 TATTTTGGTAATTTTACAAACCAA-GG
57909999 TATT
1 TATT
57910003 CATTAATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (26 bp):
TATTTTGGTAATTTTACAAACCAAGG
Found at i:57913355 original size:40 final size:41
Alignment explanation
Indices: 57913253--57913373 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 41
57913243 TAAAAGCCAC
* * *
57913253 CAGTGGATCCACGGTCTTCAAGTAACCATGCGATCCTTAAT
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
* * *
57913294 CAGTGGGTCCATGGTCATCAAGCAACCAT-TGATCCTCAAT
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
* * *
57913334 CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAA
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAA
57913374 ATTCTTCCCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 34 0.51
41 33 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
Found at i:57913728 original size:27 final size:27
Alignment explanation
Indices: 57913671--57913984 Score: 136
Period size: 27 Copynumber: 11.6 Consensus size: 27
57913661 CAAACCAATA
* ** * *
57913671 GTATTTCTATAATTTTTGAAAGTCAAAG
1 GTATTTCTGTAATTTTCCAAA-TCGAGG
** *
57913699 GTATTTCTGTAATTTTGTAAATCGGGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * **
57913726 GTATTTTTTTAATTTTCCAAATAAAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
57913753 GTATTTC-GATAATTTTCCAAATCGAGG
1 GTATTTCTG-TAATTTTCCAAATCGAGG
* * * * *
57913780 GTATTTCAGAAATTTTACAAGTTGAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* ** **
57913807 ATATTT-TGATAATTTTATAGGTCGAGG
1 GTATTTCTG-TAATTTTCCAAATCGAGG
** * * *
57913834 GTATTTCAATAATTTTACAAGTTGAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* ** **
57913861 ATATTT-TGATAATTTTATAGGTCGAGG
1 GTATTTCTG-TAATTTTCCAAATCGAGG
** * *
57913888 GTATTTCAATAATTTTACAAGTCGAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * * *
57913915 GTATTTCGGTAATTTCCCAAATCAAGA
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * *
57913942 ATATTT-TGGTAATTTTACAAA-CCAGGG
1 GTATTTCT-GTAATTTTCCAAATCGA-GG
57913969 GTATTT-TGGTAATTTT
1 GTATTTCT-GTAATTTT
57913985 ATAAACCAAG
Statistics
Matches: 220, Mismatches: 58, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
26 3 0.01
27 198 0.90
28 19 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTCTGTAATTTTCCAAATCGAGG
Found at i:57913794 original size:54 final size:54
Alignment explanation
Indices: 57913754--57913929 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 54
57913744 AAATAAAGGG
*
57913754 TATTTCGATAATTTTCCAAATCGAGGGTATTTCAGA-AATTTTACAAGTTGAGGA
1 TATTTCGATAATTTTACAAATCGAGGGTATTTCA-ATAATTTTACAAGTTGAGGA
* * **
57913808 TATTTTGATAATTTTATAGGTCGAGGGTATTTCAATAATTTTACAAGTTGAGGA
1 TATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTTGAGGA
* * ** * *
57913862 TATTTTGATAATTTTATAGGTCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
1 TATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTTGAGGA
*
57913916 TATTTCGGTAATTT
1 TATTTCGATAATTT
57913930 CCCAAATCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 111 0.99
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTTGAGGA
Found at i:57913835 original size:81 final size:81
Alignment explanation
Indices: 57913750--57913961 Score: 228
Period size: 81 Copynumber: 2.6 Consensus size: 81
57913740 TTCCAAATAA
* * *
57913750 AGGGTATTTCGATAATTTTCCAAATCGAGGGTATTTCAGA-AATTTTACAAGTTGAGGATATTTT
1 AGGGTATTTCGATAATTTTCCAAATCGAGGATATTT-AGATAATTTTACAAGTCGAGGATATTTC
* * *
57913814 GATAATTTTATAGGTCG
65 AATAATTTTACAAGTCG
* * * * * * * *
57913831 AGGGTATTTCAATAATTTTACAAGTTGAGGATATTTTGATAATTTTATAGGTCGAGGGTATTTCA
1 AGGGTATTTCGATAATTTTCCAAATCGAGGATATTTAGATAATTTTACAAGTCGAGGATATTTCA
57913896 ATAATTTTACAAGTCG
66 ATAATTTTACAAGTCG
* * * * * *
57913912 AGGGTATTTCGGTAATTTCCCAAATCAAGAATATTTTGGTAATTTTACAA
1 AGGGTATTTCGATAATTTTCCAAATCGAGGATATTTAGATAATTTTACAA
57913962 ACCAGGGGTA
Statistics
Matches: 105, Mismatches: 25, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
80 2 0.02
81 103 0.98
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTCCAAATCGAGGATATTTAGATAATTTTACAAGTCGAGGATATTTCA
ATAATTTTACAAGTCG
Found at i:57913947 original size:54 final size:54
Alignment explanation
Indices: 57913645--57914009 Score: 220
Period size: 54 Copynumber: 6.8 Consensus size: 54
57913635 AAACCAAGGC
* * ** * * *
57913645 TATTTTAGA-AATTTTACAAACCAATAGTATTTCTATAATTTTTGA-AAGTCAAAGG
1 TATTTT-GATAATTTTACAAATCGAGGGTATTTCAATAA-TTTT-ACAAGTCGAGGG
** * *** * * **
57913700 TATTTCTG-TAATTTTGTAAATCGGGGGTATTTTTTTAATTTTCCAAATAAAGGG
1 TATTT-TGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
* * * *
57913754 TATTTCGATAATTTTCCAAATCGAGGGTATTTCAGA-AATTTTACAAGTTGAGGA
1 TATTTTGATAATTTTACAAATCGAGGGTATTTCA-ATAATTTTACAAGTCGAGGG
* ** * *
57913808 TATTTTGATAATTTTATAGGTCGAGGGTATTTCAATAATTTTACAAGTTGAGGA
1 TATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
* **
57913862 TATTTTGATAATTTTATAGGTCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
1 TATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
* * ** * ** *** * *
57913916 TATTTCGGTAATTTCCCAAATCAAGAATATTTTGGTAATTTTACAA-ACCAGGGG
1 TATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTCGA-GGG
* * * * *
57913970 TATTTTGGTAATTTTATAAACCAAGGGTA-TTCAGTAATTT
1 TATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTT
57914010 CAATAAATCT
Statistics
Matches: 247, Mismatches: 56, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
53 13 0.05
54 207 0.84
55 26 0.11
56 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAGTCGAGGG
Found at i:57913985 original size:27 final size:27
Alignment explanation
Indices: 57913897--57914000 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 27
57913887 GGTATTTCAA
** * *
57913897 TAATTTTACAAGTCGAGGGTATTTCGG
1 TAATTTTACAAACCAAGGGTATTTTGG
** * **
57913924 TAATTTCCCAAATCAAGAATATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
*
57913951 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
*
57913978 TAATTTTATAAACCAAGGGTATT
1 TAATTTTACAAACCAAGGGTATT
57914001 CAGTAATTTC
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACCAAGGGTATTTTGG
Found at i:57914106 original size:27 final size:26
Alignment explanation
Indices: 57914030--57914109 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
57914020 ATAAACCAAG
* *
57914030 GGTATTTCAATAATTCTACCATACAGG
1 GGTATTTCAGTAATTCTACC-TACAGC
*
57914057 GGCATTTCAGTAATTCTACCCTACAGC
1 GGTATTTCAGTAATTCTA-CCTACAGC
*
57914084 GGTATTTCAGTAATACTAGCCTACAG
1 GGTATTTCAGTAATTCTA-CCTACAG
57914110 ATATGAGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (26 bp):
GGTATTTCAGTAATTCTACCTACAGC
Found at i:57917633 original size:27 final size:28
Alignment explanation
Indices: 57917581--57917923 Score: 201
Period size: 27 Copynumber: 12.7 Consensus size: 28
57917571 TTTCATCTTA
* * * * *
57917581 CAAGGGTGTTTTGGTAAATCTACAAACT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *
57917609 C-AGGGTATTTCGGTAATTTTGCAAA-C
1 CAAGGGTATTTCGGTAATTTTACAAAGT
** * * **
57917635 CAATAGCATTTCTGTAATTTTTGAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *** **
57917663 CAAAGGTATTTATATAATTTTGTAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * *
57917690 CAAGGGTGTTTCTGTAATTTTCCAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
*
57917717 CAAGGGTATTTCAGTAATTTTACAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
57917744 CGAGTGTTTTTCGATAATTTTAC-AAGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
57917771 CGAGGGTATTTCAGTAATTTT--TAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
** *
57917797 CAAGGGTATTTTAGTAATTTTAC-AGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *
57917824 CAAGGGTATTTCGGTAATTTTA-TAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
*
57917851 CAAGGGTATTTTGGTAATTTTACAAA--
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
57917877 CCAGGGATATTTTGGCAATTTTACAAA-C
1 CAAGGG-TATTTCGGTAATTTTACAAAGT
*
57917905 CAAGGGTA-TTCAGTAATTT
1 CAAGGGTATTTCGGTAATTT
57917924 CAGTAAATCT
Statistics
Matches: 253, Mismatches: 52, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
26 38 0.15
27 189 0.75
28 26 0.10
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (28 bp):
CAAGGGTATTTCGGTAATTTTACAAAGT
Found at i:57917817 original size:80 final size:80
Alignment explanation
Indices: 57917642--57917871 Score: 208
Period size: 80 Copynumber: 2.9 Consensus size: 80
57917632 AACCAATAGC
* ** * ** ** * * *
57917642 ATTTCTGTAATTTTTGAAAGTCAAAGGTATTTATATAATTTTGTAAATCAAGGGTGTTTCTGTAA
1 ATTTCAGTAATTTTACAAA-TCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAA
* **
57917707 TTTTCCAAATCAAGGGT
65 TTTT-TAGGTCAAGGGT
* * * *
57917724 ATTTCAGTAATTTTACAAATCGAGTGTTTTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAAT
1 ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
57917789 TTTTAGGTCAAGGGT
66 TTTTAGGTCAAGGGT
* ** * * * **
57917804 ATTTTAGTAATTTTACAGGTCAAGGGTATTTCGGTAATTTTATAGGTCAAGGGTATTTTGGTAAT
1 ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
57917869 TTT
66 TTT
57917872 ACAAACCAGG
Statistics
Matches: 118, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
80 65 0.55
81 37 0.31
82 16 0.14
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (80 bp):
ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
TTTTAGGTCAAGGGT
Found at i:57917897 original size:107 final size:107
Alignment explanation
Indices: 57917689--57917898 Score: 228
Period size: 107 Copynumber: 2.0 Consensus size: 107
57917679 ATTTTGTAAA
* * * *
57917689 TCAAGGGTGTTTCTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGTGTTTT
1 TCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTTTT
* * *
57917754 TCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTTAGG
66 TCGATAATTTTACAAGACCAGGGTATTTCAGCAATTTTTAGG
** * * **
57917796 TCAAGGGTATTT-TAGTAATTTTACAGGTCAAGGGTATTTCGGTAATTTTATAGGTCAAGGGTAT
1 TCAAGGGTATTTCT-GTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGT-T
* **
57917860 TTT-GGTAATTTTACAA-ACCAGGGATATTTTGGCAATTTT
64 TTTCGATAATTTTACAAGACCAGGG-TATTTCAGCAATTTT
57917899 ACAAACCAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
106 6 0.07
107 74 0.88
108 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (107 bp):
TCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTTTT
TCGATAATTTTACAAGACCAGGGTATTTCAGCAATTTTTAGG
Found at i:57918031 original size:27 final size:27
Alignment explanation
Indices: 57917947--57918037 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
57917937 AACCAAGGGT
* *
57917947 ATTTTAGTAATTCTACCCTACAGGAGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * * *
57917974 ATTTCAATAATTCAATCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
57918001 ATTTCAGTAATTCTGCCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
*
57918028 ATTTTAGTAA
1 ATTTCAGTAA
57918038 AACTAGCCTA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:57918131 original size:17 final size:18
Alignment explanation
Indices: 57918109--57918143 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57918099 ATCTATTCAC
*
57918109 TTAGGCC-CATGGGCCAT
1 TTAGGCCACATGGCCCAT
57918126 TTAGGCCACATGGCCCAT
1 TTAGGCCACATGGCCCAT
57918144 CCCGACCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.23
Consensus pattern (18 bp):
TTAGGCCACATGGCCCAT
Found at i:57921878 original size:24 final size:24
Alignment explanation
Indices: 57921829--57921911 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
57921819 ATTCAAATCA
* * *
57921829 GCACACATAGTGCTA-ATCAACTCC
1 GCACACATAGTGCCATA-CTACACC
57921853 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
*
57921877 GCACACATAGTGCCATACTACACA
1 GCACACATAGTGCCATACTACACC
57921901 GCACACATAGT
1 GCACACATAGT
57921912 ACCAATGTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.35, C:0.34, G:0.13, T:0.18
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:57929871 original size:24 final size:24
Alignment explanation
Indices: 57929822--57929908 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
57929812 ATTCAAATCA
* * *
57929822 GCACACATAGTGCTA-ATCAACTCC
1 GCACACATAGTGCCATA-CTACACC
57929846 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
*
57929870 GCACACATAGTGCCATACTACACA
1 GCACACATAGTGCCATACTACACC
57929894 GCACACATAGTGCCA
1 GCACACATAGTGCCA
57929909 ATGTACACTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:57933231 original size:26 final size:27
Alignment explanation
Indices: 57933177--57933231 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
57933167 ATTCAACACC
* * *
57933177 TAGGGGTATTTTGGTCATTTTTTCCCT
1 TAGGGGCATTTCGGTCAATTTTTCCCT
*
57933204 TAGGGGCATTTCGGT-AATTTTTCTCT
1 TAGGGGCATTTCGGTCAATTTTTCCCT
57933230 TA
1 TA
57933232 TTACGGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (27 bp):
TAGGGGCATTTCGGTCAATTTTTCCCT
Found at i:57933582 original size:30 final size:28
Alignment explanation
Indices: 57933489--57933586 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
57933479 TACATACATG
*
57933489 CATATGGCCCACTAGGTCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTC-TATT
* *
57933517 CAAATGGCCCATCTA-GCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTC-TATT
* *
57933546 CTTATGGCCCCACCAGGCCCAATTCTCATT
1 CATATGG-CCCACTAGGCCCAATTCT-ATT
57933576 CATATGGCCCA
1 CATATGGCCCA
57933587 ATAGCCTCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 14 0.25
29 21 0.38
30 21 0.38
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTCTATT
Found at i:57933602 original size:59 final size:57
Alignment explanation
Indices: 57933491--57933604 Score: 131
Period size: 59 Copynumber: 2.0 Consensus size: 57
57933481 CATACATGCA
* * * * **
57933491 TATGGCCCACTAGGTCCAATCTTATTCAAATGGCCCATCTAGCCCAGTTCATATTCT
1 TATGGCCCACCAGGCCCAATCTCATTCAAATGGCCCATATAGCCCAAATCATATTCT
*
57933548 TATGGCCCCACCAGGCCCAATTCTCATTCATATGGCCCA-ATAGCCTCAAATCATATT
1 TATGG-CCCACCAGGCCCAA-TCTCATTCAAATGGCCCATATAGCC-CAAATCATATT
57933605 ATATTCATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 5 0.11
58 17 0.36
59 25 0.53
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (57 bp):
TATGGCCCACCAGGCCCAATCTCATTCAAATGGCCCATATAGCCCAAATCATATTCT
Found at i:57935575 original size:50 final size:50
Alignment explanation
Indices: 57935495--57935732 Score: 259
Period size: 50 Copynumber: 4.7 Consensus size: 50
57935485 ACTGAAGCTC
* * *
57935495 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * *
57935545 TCTGGTACACGTAGTAGCCTGCA-TTCAGTACTACACATGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTT-AGTACTACACATGCGACCTATCAA
* * **
57935595 TTTGATACACGTAGTAGCCTGCACTTAGTACTACCCACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTA--CACATG--CGACCTATCAA
* *** *
57935647 -CGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
*
57935696 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
57935733 CATGACCTAA
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
47 4 0.03
49 10 0.07
50 100 0.65
51 28 0.18
52 7 0.05
53 1 0.01
54 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:57935680 original size:101 final size:101
Alignment explanation
Indices: 57935556--57935737 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
57935546 CTGGTACACG
* * * * *
57935556 TAGTAGCCTGCATTCAGTACTACACATGTGACTTATCCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCATTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
57935621 AGTACTACCCACATGATCGAAGTTAACGGGTACGTA
66 AGTACTACACACATGATCGAAGTTAACGGGTACGTA
* *
57935657 TAGTAGCCTGCACTT-AGTACTACACATGCGACCTAACAATCTGGTACACGTAGTATCCTGCACT
1 TAGTAGCCTGCA-TTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACT
57935721 TAGTACTACACACATGA
65 TAGTACTACACACATGA
57935738 CCTAAAACTG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 70 0.97
102 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCATTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACATGATCGAAGTTAACGGGTACGTA
Found at i:57935740 original size:50 final size:50
Alignment explanation
Indices: 57935495--57935788 Score: 254
Period size: 50 Copynumber: 5.8 Consensus size: 50
57935485 ACTGAAGCTC
* * * * *
57935495 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
57935545 TCTGGTACACGTAGTAGCCTGCA-TTCAGTACTACACATGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTT-AGTACTACACATGTGACCTAACAA
* * * ** * * *
57935595 TTTGATACACGTAGTAGCCTGCACTTAGTACTACCCACATGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAA
* *** *
57935647 -CGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* **
57935696 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACACATGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
57935745 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACATGTG
57935789 TTCTCACAAT
Statistics
Matches: 191, Mismatches: 44, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
48 3 0.02
49 6 0.03
50 115 0.60
51 36 0.19
52 31 0.16
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:57935785 original size:151 final size:150
Alignment explanation
Indices: 57935498--57935786 Score: 395
Period size: 151 Copynumber: 1.9 Consensus size: 150
57935488 GAAGCTCTCT
* *
57935498 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
** * ** * * *
57935563 CTGCATTCAGTACTACACATGTGACTTATCCATTTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCATTCAGTACTACACACATGACTAAAACATTTGAAACACATAGTAGCCTGCACATAGTACTA
57935628 CCCACATGATCGAAGTTAACG
131 -CCACATGATCGAAGTTAACG
* *
57935649 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTATC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
*
57935714 CTGCACTT-AGTACTACACACATGACCTAAAAC-TGTCTTAAACACATAGTAGCCTGCACATAGT
66 CTGCA-TTCAGTACTACACACATGA-CTAAAACAT-T-TGAAACACATAGTAGCCTGCACATAGT
57935777 ACTA-CACATG
127 ACTACCACATG
57935787 TGTTCTCACA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
151 87 0.72
152 7 0.06
153 27 0.22
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
CTGCATTCAGTACTACACACATGACTAAAACATTTGAAACACATAGTAGCCTGCACATAGTACTA
CCACATGATCGAAGTTAACG
Found at i:57937825 original size:25 final size:25
Alignment explanation
Indices: 57937754--57937806 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
57937744 TGAATCAATA
57937754 AACTCATGAGTAAAATATCAAACAT
1 AACTCATGAGTAAAATATCAAACAT
57937779 AACTCATGAGTAAAATATCAAACAT
1 AACTCATGAGTAAAATATCAAACAT
57937804 AAC
1 AAC
57937807 CATACTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (25 bp):
AACTCATGAGTAAAATATCAAACAT
Found at i:57937842 original size:15 final size:16
Alignment explanation
Indices: 57937822--57937851 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57937812 TTATATATAT
57937822 CAAAACCA-AATCAAC
1 CAAAACCATAATCAAC
57937837 CAAAACCATAATCAA
1 CAAAACCATAATCAA
57937852 ATATAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.30, G:0.00, T:0.10
Consensus pattern (16 bp):
CAAAACCATAATCAAC
Found at i:57939242 original size:43 final size:42
Alignment explanation
Indices: 57939071--57939248 Score: 155
Period size: 43 Copynumber: 4.2 Consensus size: 42
57939061 TAACGCATAT
* * *
57939071 CATA-CAATGCCAACGTCCCATACGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACG-AAACA
* * ** * *
57939113 CATGTCGATGCCATTGTCCCAGACAG-GGTCTTACATGAATCA
1 CATATCAATGCCAACGTCCCAGAC-GTGGTCTTACACGAAACA
* * * * *
57939155 CA-ATTACGATGCCGATGTCCAAGACGTGGTCTTACTCGAAAACA
1 CATA-T-CAATGCCAACGTCCCAGACGTGGTCTTACACG-AAACA
57939199 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGAGAACA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGA-AACA
57939242 CATATCA
1 CATATCA
57939249 GAAATCCTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
42 13 0.12
43 89 0.80
44 8 0.07
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGAAACA
Found at i:57940627 original size:27 final size:27
Alignment explanation
Indices: 57940597--57940690 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
57940587 AATCTCATAT
*
57940597 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGCTAGAATTACTGAAATACCC
57940624 CTGTAGGGC-AGAATTACTGAAATACCC
1 CTGTA-GGCTAGAATTACTGAAATACCC
* *
57940651 TTGTAGTG-TAGAATTACTGAAATGCCC
1 CTGTAG-GCTAGAATTACTGAAATACCC
* *
57940678 CTATAGGGTAGAA
1 CTGTAGGCTAGAA
57940691 CTACAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.03
27 53 0.91
28 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTGAAATACCC
Found at i:57940726 original size:27 final size:26
Alignment explanation
Indices: 57940696--57940857 Score: 155
Period size: 27 Copynumber: 6.0 Consensus size: 26
57940686 TAGAACTACA
* * *
57940696 AAAATACCATTGGTTTACAAATTTACC
1 AAAATACC-CTGGTTTATAAAATTACC
57940723 AAAATATCCCTGGTTTATAAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
* *
57940750 AAAATACTCTTGGTTTGTAAAATTACC
1 AAAATAC-CCTGGTTTATAAAATTACC
* *
57940777 AAAATACCCCTGATTTATGAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
*
57940804 AAAATACCCTCGACTTGTA-AAAATTACC
1 AAAATACCCT-G-GTT-TATAAAATTACC
* *
57940832 AAAATACCCCTGATTTATAGAATTAC
1 AAAATA-CCCTGGTTTATAAAATTAC
57940858 TGTTTTACCC
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.06
27 81 0.71
28 20 0.18
29 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATACCCTGGTTTATAAAATTACC
Found at i:57940754 original size:54 final size:52
Alignment explanation
Indices: 57940696--57940857 Score: 189
Period size: 54 Copynumber: 3.0 Consensus size: 52
57940686 TAGAACTACA
* * *
57940696 AAAATACCATTGGTTTACAAATTTACCAAAATATCCCTGGTTTATAAAATTACC
1 AAAATACC-TTGGTTTA-AAAATTACCAAAATACCCCTGATTTATAAAATTACC
* *
57940750 AAAATACTCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACC
1 AAAATAC-CTTGGTTT-AAAAATTACCAAAATACCCCTGATTTATAAAATTACC
* * *
57940804 AAAATACCCTCGACTTGTAAAAATTACCAAAATACCCCTGATTTATAGAATTAC
1 AAAATA-CCTTG-GTT-TAAAAATTACCAAAATACCCCTGATTTATAAAATTAC
57940858 TGTTTTACCC
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
54 55 0.59
55 37 0.40
56 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (52 bp):
AAAATACCTTGGTTTAAAAATTACCAAAATACCCCTGATTTATAAAATTACC
Found at i:57940848 original size:55 final size:53
Alignment explanation
Indices: 57940718--57940857 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 53
57940708 GTTTACAAAT
* * * * **
57940718 TTACCAAAATATCCCTGGTTTATAAAATTACCAAAATACTCTTGGTTTGTAAAA
1 TTACCAAAATACCCCTGATTTAT-AAATTACCAAAATACCCTCGACTTGTAAAA
57940772 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
1 TTACCAAAATACCCCTGATTTAT-AAATTACCAAAATACCCTCGACTTGT-AAAA
57940827 TTACCAAAATACCCCTGATTTATAGAATTAC
1 TTACCAAAATACCCCTGATTTATA-AATTAC
57940858 TGTTTTACCC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 44 0.57
55 33 0.43
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (53 bp):
TTACCAAAATACCCCTGATTTATAAATTACCAAAATACCCTCGACTTGTAAAA
Found at i:57940941 original size:27 final size:27
Alignment explanation
Indices: 57940886--57940958 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
57940876 CAAAATTATT
* * *
57940886 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAACTACC
* *
57940913 GAAATACCCCTGTAGGGTAGGACTCCC
1 GAAATACCCCTGTAGGGTAGAACTACC
**
57940940 GATTTACCCCTAG-AGGGTA
1 GAAATACCCCT-GTAGGGTA
57940959 AAATGACTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAACTACC
Found at i:57941737 original size:26 final size:26
Alignment explanation
Indices: 57941686--57941744 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
57941676 ATATATATAT
*
57941686 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGGACTAGCCACA
* *
57941712 ATATCTGTATCTGGT-GACTTGTCACA
1 ATATCTGT-TCTGGTGGACTAGCCACA
57941738 ATATCTG
1 ATATCTG
57941745 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGGACTAGCCACA
Found at i:57946399 original size:27 final size:27
Alignment explanation
Indices: 57946357--57946463 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
57946347 AATCTCATAT
* * *
57946357 CTGTAGGCTAGCATTACTGAAATACGC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
57946384 CTGTTGGGTAGAATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
57946411 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* **
57946438 CTATAGGGTAGAATTACCAAAATACC
1 CTGTAGGGTAGAATTACTGAAATACC
57946464 ATTGGTTTAC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:57946479 original size:27 final size:27
Alignment explanation
Indices: 57946449--57946569 Score: 170
Period size: 27 Copynumber: 4.5 Consensus size: 27
57946439 TATAGGGTAG
* **
57946449 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
57946476 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
57946503 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
57946530 AATTACCAAAATACCCTTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
57946557 AATTACCGAAATA
1 AATTACCAAAATA
57946570 ACCTCAACTG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:57946480 original size:54 final size:54
Alignment explanation
Indices: 57946430--57946545 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
57946420 AGAATTACTG
* *
57946430 AAATGCCCCTA-TAGGGTAGAATTACCAAAATACCATTGGTTTACAAAATTACCA
1 AAATACCCCTAGT-GGGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCA
** * **
57946484 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCCTAGTGGGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCA
57946538 AAATACCC
1 AAATACCC
57946546 TTGATTTGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (54 bp):
AAATACCCCTAGTGGGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCA
Found at i:57946586 original size:54 final size:54
Alignment explanation
Indices: 57946474--57946606 Score: 144
Period size: 54 Copynumber: 2.5 Consensus size: 54
57946464 ATTGGTTTAC
* * ****
57946474 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGTAAAATTACCAAAATAACCTTCAACTGT
* *
57946528 AAAATTACCAAAATACCCTTGATTTGTGAAATTACCGAAATAACC-TCAACTGT
1 AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATAACCTTCAACTGT
* *
57946581 AAAAATTACCAAAGTACCCTCGATTT
1 -AAAATTACCAAAATACCCTTGATTT
57946607 ACAGAATTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.06
54 62 0.93
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATAACCTTCAACTGT
Found at i:57946652 original size:27 final size:27
Alignment explanation
Indices: 57946449--57946653 Score: 108
Period size: 27 Copynumber: 7.6 Consensus size: 27
57946439 TATAGGGTAG
* * * *
57946449 AATTACCAAAATACCATTGGTTTACAA
1 AATTATCAAAATACCCTCGATTTACAA
* * **
57946476 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTATCAAAATACCCTCGA-TTTACAA
* * * **
57946503 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTATCAAAATACCCTCGATTTACAA
* * ***
57946530 AATTACCAAAATACCCTTGATTTGTGA
1 AATTATCAAAATACCCTCGATTTACAA
* * * * *
57946557 AATTACCGAAATAACCTCAACTGTA-AA
1 AATTATCAAAATACCCTCGA-TTTACAA
* * *
57946584 AATTACCAAAGTACCCTCGATTTACAG
1 AATTATCAAAATACCCTCGATTTACAA
***
57946611 AATTATCATTTTACCCTCGATTTACAA
1 AATTATCAAAATACCCTCGATTTACAA
*
57946638 AATTATTAAAATACCC
1 AATTATCAAAATACCC
57946654 CTGTAGGGTA
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTATCAAAATACCCTCGATTTACAA
Found at i:57946668 original size:27 final size:27
Alignment explanation
Indices: 57946638--57946691 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
57946628 CGATTTACAA
*
57946638 AATTATTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
57946665 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
57946692 GACTACCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:57946706 original size:27 final size:27
Alignment explanation
Indices: 57946645--57946717 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
57946635 CAAAATTATT
* *
57946645 AAAATACCCCTGTAGGGTAGAATTACT
1 AAAATACCCCTGTAGGGTAGAACTACC
*
57946672 AAAATACCCCTGTAGGGTAGGACTACC
1 AAAATACCCCTGTAGGGTAGAACTACC
* ** *
57946699 GATTTACCCCTGAAGGGTA
1 AAAATACCCCTGTAGGGTA
57946718 AAATGACTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (27 bp):
AAAATACCCCTGTAGGGTAGAACTACC
Found at i:57947496 original size:26 final size:26
Alignment explanation
Indices: 57947445--57947503 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
57947435 ATATATATAT
*
57947445 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGGACTAGCCACA
* *
57947471 ATATCTGTATCTGGT-GACTTGTCACA
1 ATATCTGT-TCTGGTGGACTAGCCACA
57947497 ATATCTG
1 ATATCTG
57947504 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGGACTAGCCACA
Found at i:57950175 original size:43 final size:44
Alignment explanation
Indices: 57950028--57950184 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 44
57950018 TGTGTTATTG
* * * * *
57950028 TGTAAGACCACGTTTGGGA-TGTTGGCATCGAT-TTGTAATTTACG
1 TGTAAAACCACGTCTGGGACAGTTGGCATCGATATT-TGA-TTACA
* * * * *
57950072 TGTAAGACCATGTCTGGGACA-TTAGCATCG-TATATGATTTCA
1 TGTAAAACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
*
57950114 TGTAAAACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAAACCAC-GTCTGGGACAGTTGGCATCGATATTTGATTACA
*
57950157 TGTAAAACCACGTGTGGGAC-GTTGGCAT
1 TGTAAAACCACGTCTGGGACAGTTGGCAT
57950185 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 27 0.30
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAAACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
Found at i:57954924 original size:56 final size:56
Alignment explanation
Indices: 57954838--57954957 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
57954828 ACAAGAGATG
57954838 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57954894 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57954950 ATGGGCAA
1 ATGGGCAA
57954958 TAAACTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:57956200 original size:39 final size:40
Alignment explanation
Indices: 57956092--57956276 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
57956082 TCGAATGATG
* * *
57956092 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
57956131 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57956172 TCCGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57956211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57956250 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57956277 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57956298 original size:79 final size:79
Alignment explanation
Indices: 57956147--57956311 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
57956137 ACTAAGATCT
* * **
57956147 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
57956212 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * *
57956226 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* * *
57956289 TAT-CTGGTTAAATTCC
63 AATCCGGGTTAAATCCC
57956305 GAAGGCA
1 GAAGGCA
57956312 CGTGATTTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.68
80 21 0.29
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:57962826 original size:56 final size:56
Alignment explanation
Indices: 57962740--57962859 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
57962730 ACAAGGGATG
57962740 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57962796 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57962852 ATGGGCAA
1 ATGGGCAA
57962860 TAAACTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:57962963 original size:10 final size:10
Alignment explanation
Indices: 57962930--57962962 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
57962920 TGCATGACCA
57962930 AAAAAAAGA-
1 AAAAAAAGAG
57962939 AAAAAAAGAG
1 AAAAAAAGAG
*
57962949 AAAAGAAGAG
1 AAAAAAAGAG
57962959 AAAA
1 AAAA
57962963 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:57964202 original size:40 final size:40
Alignment explanation
Indices: 57963964--57964188 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
57963954 TCGAATGATG
* * * *
57963964 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
57964004 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57964044 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57964083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57964123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57964164 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57964189 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57968189 original size:86 final size:85
Alignment explanation
Indices: 57968044--57968472 Score: 469
Period size: 86 Copynumber: 5.1 Consensus size: 85
57968034 TATTTAAAAA
* *** *** * * *
57968044 AATTAAAATTGAATAAAATATGTTTCAAAATTTATTCCCGTCATTTAACAAATTTTATTCCATTC
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT-
*
57968109 TTTATTTTGTTTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* * *
57968130 AATTAAAATTGAATAAAATTTGTTTCGAGATTTATTCCTACCATTCAATAGATTTTATTCCATTT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCA-TT
* *
57968195 TTTATTTTGTCTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* * *
57968216 ATTTAAAATTGAATAAAATTTGTTTAGGGATTTATTACCT-CCGTTCAACATATTTTATTCCATT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATT-CCTACCGTTCAACAGATTTTATTCCATT
*
57968280 TTGATTTTGTTTCCAAACAAG
65 TTTATTTTGTTTCCAAACAAG
* * *
57968301 AATTAAAATTGAAT--AATTCTGTTTCGGGATTTATTCCCACCGTTCAATAGATTTTATTCAATT
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT
*
57968364 TTTATTTTGTTTCCAAATAAG
65 TTTATTTTGTTTCCAAACAAG
* * * *
57968385 AATT--AATTGAAT--AATTCTATTTCGGGATTTATTCCTGCCGTGT-AACAGATTTTATTCGAG
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGT-TCAACAGATTTTATTCCAT
* *
57968445 TTTGATTTAGTTTCCAAACAAG
64 TTTTATTTTGTTTCCAAACAAG
*
57968467 ATTTAA
1 AATTAA
57968473 TTAAATCGTT
Statistics
Matches: 299, Mismatches: 37, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
82 70 0.23
83 7 0.02
84 59 0.20
85 33 0.11
86 125 0.42
87 5 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (85 bp):
AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATTT
TTATTTTGTTTCCAAACAAG
Found at i:57968477 original size:170 final size:168
Alignment explanation
Indices: 57968090--57968472 Score: 472
Period size: 166 Copynumber: 2.3 Consensus size: 168
57968080 CCCGTCATTT
* * * * *
57968090 AACAAATTTTATTCCATTCTTTATTTTGTTTCCAAACGAGAATTAAAATTGAATAAAATTTGTTT
1 AACAGATTTTATTCCAGT-TTGATTTAGTTTCCAAACAAGAATTAAAATTGAAT-AAATTTGTTT
* * * *
57968155 CGAGATTTATTCCTACCATTCAATAGATTTTATTCCATTTTTTATTTTGTCTCCAAACGAGATTT
64 CGAGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATT
*
57968220 AAAATTGAATAAAATTTGTTTAGGGATTTATTACCTCCGTTC
129 -AAATTGAAT-AAATTTATTTAGGGATTTATTACCTCCGTTC
* * *
57968262 AACATATTTTATTCCATTTTGATTTTGTTTCCAAACAAGAATTAAAATTGAAT-AATTCTGTTTC
1 AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATT-TGTTTC
* * * *
57968326 GGGATTTATTCCCACCGTTCAATAGATTTTATT-CAATTTTTATTTTGTTTCCAAATAAGAATT-
65 GAGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTA
*
57968389 AATTGAAT-AATTCTATTTCGGGATTTATT-CCTGCCGTGT-
130 AATTGAATAAATT-TATTTAGGGATTTATTACCT-CCGT-TC
* *
57968428 AACAGATTTTATTCGAGTTTGATTTAGTTTCCAAACAAGATTTAA
1 AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAA
57968473 TTAAATCGTT
Statistics
Matches: 189, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
165 7 0.04
166 58 0.31
167 9 0.05
169 29 0.15
170 36 0.19
171 33 0.17
172 17 0.09
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (168 bp):
AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATTTGTTTCG
AGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTAA
ATTGAATAAATTTATTTAGGGATTTATTACCTCCGTTC
Found at i:57972194 original size:27 final size:27
Alignment explanation
Indices: 57972156--57972261 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
57972146 AGTGGATAAG
* *
57972156 TTGTAGAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
57972183 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
***
57972210 TTGTAAAATTACCAAAATA-CCCTCAAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
*
57972237 TTGTAAAATTACCAAAGTACCCCTG
1 TTGTAAAATTACCAAAATACCCCTG
57972262 ATTTAAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.06
27 62 0.89
28 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:57972299 original size:54 final size:54
Alignment explanation
Indices: 57972187--57972314 Score: 125
Period size: 54 Copynumber: 2.4 Consensus size: 54
57972177 CCTGGTTTGT
* * **
57972187 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCAACTTGT
1 AAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCAACTTAA
* *** * *
57972241 AAAATTACCAAAGTACCCCTGATTT-AAAGAATTACCATTTTACCCTCGATTTAA
1 AAAATTACCAAAATACCCCTGATTTGAAA-AATTACCAAAATACCCTCAACTTAA
* *
57972295 AAAA-TATCAAAATATCCCTG
1 AAAATTACCAAAATACCCCTG
57972315 TAGGGTAGGA
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
53 15 0.25
54 45 0.75
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCAACTTAA
Found at i:57973084 original size:31 final size:32
Alignment explanation
Indices: 57973046--57973106 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
57973036 CTCGCTGCAA
* *
57973046 TCTGGTGGCTTCGCCAC-ATATATATATCTAT
1 TCTGGTGGCCTAGCCACAATATATATATCTAT
*
57973077 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
57973107 GGTGACTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTAT
Found at i:57973121 original size:27 final size:26
Alignment explanation
Indices: 57973069--57973127 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
57973059 CCACATATAT
*
57973069 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
57973095 ATATCTATATCTGGTGACTTTGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
57973122 ATATCT
1 ATATCT
57973128 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:57979791 original size:27 final size:27
Alignment explanation
Indices: 57979748--57979852 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
57979738 AGTGGATAAG
* *
57979748 TTGTAGAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
57979775 TTGTAAAACTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
57979802 TTGTAAAATTACCAAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
*
57979829 TTGTAAAATTACCAAAGTACCCCT
1 TTGTAAAATTACCAAAATACCCCT
57979853 AATTTACAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.06
27 61 0.88
28 4 0.06
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:57979865 original size:27 final size:26
Alignment explanation
Indices: 57979833--57979907 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
57979823 CTCGACTTGT
57979833 AAAATTACCAAAGTACCCCTAATTTAC
1 AAAATTACCAAA-TACCCCTAATTTAC
* ** * *
57979860 AGAATTACCATTTTACCCTTGATTTAC
1 AAAATTACCA-AATACCCCTAATTTAC
57979887 AAAATTACCAACATACCCCTA
1 AAAATTACCAA-ATACCCCTA
57979908 TAGGGTAGGA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAATACCCCTAATTTAC
Found at i:57979866 original size:54 final size:54
Alignment explanation
Indices: 57979752--57979869 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
57979742 GATAAGTTGT
* ** ** **
57979752 AGAATTACTAAAATACCCCTGGTTTGTAAAACTACCAAAATACCCCTGGTTTGT
1 AGAATTACCAAAATACCCCTGACTTGTAAAACTACCAAAATACCCCTAATTTAC
* * *
57979806 AAAATTACCAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCTAATTTAC
1 AGAATTACCAAAATACCCCT-GACTTGTAAAACTACCAAAATACCCCTAATTTAC
57979860 AGAATTACCA
1 AGAATTACCA
57979870 TTTTACCCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 4 0.08
54 48 0.92
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (54 bp):
AGAATTACCAAAATACCCCTGACTTGTAAAACTACCAAAATACCCCTAATTTAC
Found at i:57980681 original size:26 final size:27
Alignment explanation
Indices: 57980652--57980711 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
57980642 ACATATATAT
*
57980652 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
57980678 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
57980705 ATATCTG
1 ATATCTG
57980712 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:57996267 original size:40 final size:39
Alignment explanation
Indices: 57996166--57996321 Score: 201
Period size: 39 Copynumber: 3.9 Consensus size: 39
57996156 TGATAACCGC
*
57996166 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCCGG
*
57996206 GCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGG
*
57996245 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGG
* *
57996285 GCT-AGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCC
57996322 TGCTAAATTT
Statistics
Matches: 104, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 61 0.59
40 41 0.39
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGG
Found at i:57996318 original size:79 final size:79
Alignment explanation
Indices: 57996166--57996320 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
57996156 TGATAACCGC
* * * *
57996166 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCAA
57996231 GCTACTATATCTGG
66 GCTACTATATCTGG
*
57996245 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCT-AGTCCCGAAGGCATTTGAGC
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAGC
57996308 AAG-TAGCTATATC
64 AAGCTA-CTATATC
57996321 CTGCTAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 6 0.09
79 62 0.91
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCAA
GCTACTATATCTGG
Found at i:58004266 original size:40 final size:39
Alignment explanation
Indices: 58004161--58004376 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 39
58004151 TGGATGATAA
*
58004161 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
58004201 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
58004240 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
58004280 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
58004320 CCGGGCT-AGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
58004359 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58004377 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
38 6 0.04
39 71 0.45
40 82 0.52
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:58004331 original size:79 final size:79
Alignment explanation
Indices: 58004157--58004343 Score: 279
Period size: 79 Copynumber: 2.4 Consensus size: 79
58004147 TATTTGGATG
* *
58004157 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
58004222 TTGTGCGAGCTACT
66 TTGTGCGAGCTACT
* * * *
58004236 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAACTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
58004300 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGCTACT
58004316 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
58004344 AGCAAGTAGC
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 3 0.03
79 61 0.62
80 34 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGCTACT
Found at i:58004376 original size:39 final size:40
Alignment explanation
Indices: 58004157--58004343 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
58004147 TATTTGGATG
* *
58004157 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58004197 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58004236 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58004276 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
58004316 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
58004344 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
39 52 0.39
40 82 0.61
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58012059 original size:53 final size:54
Alignment explanation
Indices: 58011978--58012177 Score: 226
Period size: 53 Copynumber: 3.7 Consensus size: 54
58011968 TTTCCTTTTT
* * * *
58011978 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATTCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
* * *
58012031 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTC-TTGCCTTATA
* * * *
58012085 GTAACTCATCAATGCCATGTCTTGACATGGTCTCACATGAT-TTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATT-CTTGCCTTATA
* * *
58012140 GAACTTAACAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
58012178 ATACCCTTAT
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.36
54 33 0.27
55 44 0.36
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
Found at i:58012114 original size:55 final size:54
Alignment explanation
Indices: 58011989--58012182 Score: 214
Period size: 55 Copynumber: 3.6 Consensus size: 54
58011979 AACTTACCAT
* * * *
58011989 TGCCATGTCTTGACATGGTCTTACGTGGTA-TTCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCT-TTGCCTTATAGAACTCAACAA
* * *
58012042 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCAACAA
* * * * *
58012097 TGCCATGTCTTGACATGGTCTCACATGATTTCC-TTGCCTTATAGAACTTAACAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCAACAA
* *
58012151 TGCCATGCCTTGGCATGGTCTTACATGATACC
1 TGCCATGCCTTGACATGGTCTTACATGGTACC
58012183 CTTATCTTAC
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 38 0.32
54 34 0.29
55 44 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCAACAA
Found at i:58012219 original size:47 final size:47
Alignment explanation
Indices: 58012164--58012285 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
58012154 CATGCCTTGG
* * *
58012164 CATGGTCTTACATGATACCCTTATCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
58012211 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
*
58012258 TATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
58012286 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
Found at i:58018697 original size:55 final size:53
Alignment explanation
Indices: 58018585--58018773 Score: 218
Period size: 55 Copynumber: 3.5 Consensus size: 53
58018575 AACTTACCAT
* * * * *
58018585 TGCCATGTCTTGACATGGTTTTACGTGGTATCCTTGCCCTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCAACAA
* * *
58018638 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCAACAA
* * * *
58018693 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTAACAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCAACAA
*
58018747 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
58018774 ATATCCTTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 34 0.29
55 45 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCAACAA
Found at i:58018815 original size:47 final size:47
Alignment explanation
Indices: 58018760--58018881 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
58018750 CATGCCTTGG
* *
58018760 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGATCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
* *
58018807 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
58018854 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
58018882 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
Found at i:58026594 original size:78 final size:78
Alignment explanation
Indices: 58026465--58026621 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
58026455 TTTTGGACTA
58026465 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
1 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
58026530 TGTTATTATTGTT
66 TGTTATTATTGTT
*
58026543 AAATGGTAATTTTGTCATTTTCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
1 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
58026608 TGTTATTATTGTT
66 TGTTATTATTGTT
58026621 A
1 A
58026622 TACATGAAAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (78 bp):
AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
TGTTATTATTGTT
Found at i:58026689 original size:17 final size:17
Alignment explanation
Indices: 58026650--58026692 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
58026640 CTATGATTGT
**
58026650 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
58026666 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
58026683 ATTGACATTT
1 ATTGACATTT
58026693 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:58029905 original size:18 final size:18
Alignment explanation
Indices: 58029878--58029920 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
58029868 TAAATTTGCG
*
58029878 TGAGTGAACATATGTATT
1 TGAGTAAACATATGTATT
58029896 TGAGTAAACATATGTATT
1 TGAGTAAACATATGTATT
58029914 TGAGTAA
1 TGAGTAA
58029921 CTCACCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (18 bp):
TGAGTAAACATATGTATT
Found at i:58033197 original size:17 final size:17
Alignment explanation
Indices: 58033158--58033200 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
58033148 CTATGATTGT
**
58033158 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
58033174 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
58033191 ATTGACATTT
1 ATTGACATTT
58033201 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:58043171 original size:45 final size:45
Alignment explanation
Indices: 58043106--58043194 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
58043096 TCTGATTCAA
*
58043106 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATTACTATCAG
1 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCAG
*
58043151 TTCCTGACTTGTATTGAGTTCTCTTGGCTTGCAAATCACTATCA
1 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCA
58043195 TTGACCTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (45 bp):
TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCAG
Found at i:58047239 original size:30 final size:30
Alignment explanation
Indices: 58047205--58047262 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
58047195 TGGCCATACA
*
58047205 ACACGCCCATAGAGAC-TGACCGTGTGTCAC
1 ACACGCCC-TAGACACATGACCGTGTGTCAC
* *
58047235 ACACGGCCTAGACACATGCCCGTGTGTC
1 ACACGCCCTAGACACATGACCGTGTGTC
58047263 TACCCGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.17
Consensus pattern (30 bp):
ACACGCCCTAGACACATGACCGTGTGTCAC
Found at i:58058033 original size:5 final size:5
Alignment explanation
Indices: 58058025--58058050 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
58058015 AAATCGAATC
58058025 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
58058051 TTACAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:58058068 original size:20 final size:20
Alignment explanation
Indices: 58058045--58058082 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58058035 AATTAAATTA
58058045 AATTA-ATTACAAACAGATCC
1 AATTATATTA-AAACAGATCC
58058065 AATTATATTAAAACAGAT
1 AATTATATTAAAACAGAT
58058083 TGAGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
AATTATATTAAAACAGATCC
Found at i:58059228 original size:21 final size:22
Alignment explanation
Indices: 58059191--58059233 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
58059181 CGGCTCGCCC
*
58059191 TTATTAATTTTTTATAT-TATA
1 TTATTAATTTTTAATATATATA
58059212 TTATT-ATTTTTAAATATATATA
1 TTATTAATTTTT-AATATATATA
58059234 GTACATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTAATTTTTAATATATATA
Found at i:58061752 original size:587 final size:580
Alignment explanation
Indices: 58060577--58061703 Score: 1488
Period size: 587 Copynumber: 1.9 Consensus size: 580
58060567 TTAAAGTACT
*
58060577 TATTTATTTATTTTAAATTTTATTTTTATCTCAAAACCCAATCATTCCACATTATTTTTCCCATT
1 TATTTATTTATTTTAAATTTTATTTTTATCTCAAAACCCAATCATTCCACATTATTTTTCCCACT
* * *
58060642 TTAGTTCTCTGTGACTTTTCTGTAATCCCTTCTTCTTTATTTCTTTCCCAAAATTCAGTTTTCTT
66 TTAGTTCTCTGTGACTTTTCTATAATCCCTTCTTCTTTATTTCTTCCCCAAAATTCAATTTTCTT
* *
58060707 GTAATTTCTTGCTTTTTCGGTTTTATCGTTACTTGTCGTCTATCAAGAGAGTTTTGTCCTCGTGT
131 GTAATTTCTTGCTTCTTCGGTTTTATCGTTACTTGTCGCCTATCAAGAGAGTTTTGTCCTCG-GT
* * ** *
58060772 GTTCTTTTAATCAGAGGTCAAGAAGGTTTTGAACGGTTTGGTGAGGCGAATCAAACGGTTCGTGG
195 G----TTTAATCAGAGGTCAAAAAGGATCCGAACGATTTGGTGAGGCGAATCAAACGGTTCGTGG
* *
58060837 TGCTGGGAATCACGATTTAATGTGTGTGTTCTGAACCTGTTTAAATTTGCTATCGAATCATTGTC
256 TACTGGGAATCACGATTTAATGTGTGTGTTCTGAACCTGTTTAAATTTGCTATCGAATCACTGTC
58060902 AGATTCTATGGAATACGACGATCTCTTGAGTGTTTCTAAAATTAAGGTGAGTAGGGATCGTTTTG
321 AGATTCTATGGAATACGACGATCTCTTGAGTGTTTCTAAAATTAAGGTGAGTAGGGATCGTTTTG
* * * * * *
58060967 ATGGTGGATTTCTTGATTTCCATTTGATTTTAGTGTGGGTTTTGGCACATTGATGTCGGTATTCT
386 ATGGTGGATTTCTTGATTTCCATTTGATTTCAGTGTGGGTTTTAGCACACTAATGTCGATATTCA
* * * *
58061032 TTTCGTTGAAGAAGTTTACATTTTGGGGTTATTTTAGGGTGGTTTCGTGACGACACGGATGTCCA
451 TTTCGTTGAAGAAATTCACATTTTGAGGCTATTTTAGGGTGGTTTCGTGACGACACGGA-GT---
* ** ** * *
58061097 CACAGCCATGTTCAATTGGGAATTAGGGTTTTAAGGAATTTTTTTTACTTAAATTTGTTTTAAGT
512 C-CAG-C-TGTTCAATTGAGAATTAGGGTTTTAAGGAATTTTTTCCACACAAATCTGTTTGAAGT
58061162 TTTAAAA
574 TTTAAAA
* * *
58061169 TATTTATTTATTTT-AATTTTAATTTTTATTTCAAAACCCAA-CAATTCCACTTTCTTTTTCCCA
1 TATTTATTTATTTTAAATTTT-ATTTTTATCTCAAAACCCAATC-ATTCCACATTATTTTTCCCA
* ** *
58061232 CTTTAGTTTTCTGTGACTTTTCTATAATTTCTTCTT-TCTTCTTTCTTCCCCAAAATTCAATTTT
64 CTTTAGTTCTCTGTGACTTTTCTATAATCCCTTCTTCT-TTATTTCTTCCCCAAAATTCAATTTT
* * *
58061296 CTTGTAATTTCTTGCTTCTTCGGTTTTATTGTTACTTGTCGCCTGTCAAGGGAGTTTTGTCCTC-
128 CTTGTAATTTCTTGCTTCTTCGGTTTTATCGTTACTTGTCGCCTATCAAGAGAGTTTTGTCCTCG
* * ** *
58061360 GTG-TTAATCAGAGGTGAAAAAGGATCCGAACGATTTGGT-AGAGTGAATTGAATGGTTCGTGGT
193 GTGTTTAATCAGAGGTCAAAAAGGATCCGAACGATTTGGTGAG-GCGAATCAAACGGTTCGTGGT
* * * *
58061423 ATTGGGAATCGCGATTTAAGGTGTGTTTGTTCTGAACTTGTTTAAATTTGCTATCGAATCACTGT
257 ACTGGGAATCACGATTTAA--TGTGTGTGTTCTGAACCTGTTTAAATTTGCTATCGAATCACTGT
* * *
58061488 TAGATTCTATGGAATACGACGATCTCTTGAGTGTTTCTGAAATTAAGGTGAGTA-GGAGTTGTTT
320 CAGATTCTATGGAATACGACGATCTCTTGAGTGTTTCTAAAATTAAGGTGAGTAGGGA-TCGTTT
* *
58061552 TGATGGTGGATTTCTTGATTTCCATTTGATTTCGGTGTGGGTTTTAGCACACTAATGTTGATATT
384 TGATGGTGGATTTCTTGATTTCCATTTGATTTCAGTGTGGGTTTTAGCACACTAATGTCGATATT
*
58061617 CATTTCGTTGAAGAAATTCACATTTTTAGGCTATTTTAGGGTGGTTTCGTGATCG-CAC-G-GT-
449 CATTTCGTTGAAGAAATTCACATTTTGAGGCTATTTTAGGGTGGTTTCGTGA-CGACACGGAGTC
58061678 C-G-TGTTCAATTGAGAATTAGGGTTTT
513 CAGCTGTTCAATTGAGAATTAGGGTTTT
58061704 TGGGCAATTT
Statistics
Matches: 478, Mismatches: 49, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
575 23 0.05
578 1 0.00
579 1 0.00
584 4 0.01
585 63 0.13
586 4 0.01
587 205 0.43
588 2 0.00
590 3 0.01
591 8 0.02
592 164 0.34
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (580 bp):
TATTTATTTATTTTAAATTTTATTTTTATCTCAAAACCCAATCATTCCACATTATTTTTCCCACT
TTAGTTCTCTGTGACTTTTCTATAATCCCTTCTTCTTTATTTCTTCCCCAAAATTCAATTTTCTT
GTAATTTCTTGCTTCTTCGGTTTTATCGTTACTTGTCGCCTATCAAGAGAGTTTTGTCCTCGGTG
TTTAATCAGAGGTCAAAAAGGATCCGAACGATTTGGTGAGGCGAATCAAACGGTTCGTGGTACTG
GGAATCACGATTTAATGTGTGTGTTCTGAACCTGTTTAAATTTGCTATCGAATCACTGTCAGATT
CTATGGAATACGACGATCTCTTGAGTGTTTCTAAAATTAAGGTGAGTAGGGATCGTTTTGATGGT
GGATTTCTTGATTTCCATTTGATTTCAGTGTGGGTTTTAGCACACTAATGTCGATATTCATTTCG
TTGAAGAAATTCACATTTTGAGGCTATTTTAGGGTGGTTTCGTGACGACACGGAGTCCAGCTGTT
CAATTGAGAATTAGGGTTTTAAGGAATTTTTTCCACACAAATCTGTTTGAAGTTTTAAAA
Found at i:58064564 original size:18 final size:18
Alignment explanation
Indices: 58064529--58064586 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
58064519 TTTTTTACTT
58064529 AAATTTT-TTTTAGGTTTTA
1 AAATTTTATTTTA--TTTTA
58064548 AAATATTTA-TTTATTTT-
1 AAAT-TTTATTTTATTTTA
58064565 AAATTTTATTTTTATTTTA
1 AAATTTTA-TTTTATTTTA
58064584 AAA
1 AAA
58064587 CCCAACCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 12 0.35
19 7 0.21
20 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
AAATTTTATTTTATTTTA
Found at i:58068460 original size:30 final size:30
Alignment explanation
Indices: 58068426--58068488 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
58068416 ACTTAACAAG
58068426 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
58068456 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
58068486 CAA
1 CAA
58068489 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:58072684 original size:93 final size:93
Alignment explanation
Indices: 58072572--58072740 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
58072562 CCATAAGTGA
* *
58072572 ACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 ACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
58072636 GAGCTCGGATGCCTAGTTACATCTCTCGT
65 GAGCTCGGATGCCTAGTTACATCTCTCGT
58072665 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
*
58072730 AGTTCGGATGC
66 AGCTCGGATGC
58072741 TCAACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTCGT
Found at i:58072732 original size:46 final size:46
Alignment explanation
Indices: 58072562--58072737 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
58072552 TGTAACCTGC
* *
58072562 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
58072608 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
58072658 CTC-T-CGT--ACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58072701 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58072738 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 3 0.03
45 1 0.01
46 60 0.55
47 26 0.24
49 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58076611 original size:93 final size:93
Alignment explanation
Indices: 58076499--58076669 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58076489 GCCCATAAGT
* *
58076499 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58076564 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
58076592 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58076657 CGAGTTCGGATGC
66 CGAGCTCGGATGC
58076670 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58076666 original size:46 final size:46
Alignment explanation
Indices: 58076491--58076666 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
58076481 TGTAACCCGC
* *
58076491 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
58076537 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
58076583 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
58076630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58076667 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:58092797 original size:17 final size:18
Alignment explanation
Indices: 58092765--58092798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58092755 TGCAAAAGCG
*
58092765 ACAAACACGGCAGCAAAT
1 ACAAACACGACAGCAAAT
58092783 ACAAACAC-ACAGCAAA
1 ACAAACACGACAGCAAA
58092799 ACAGACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.29, G:0.12, T:0.03
Consensus pattern (18 bp):
ACAAACACGACAGCAAAT
Found at i:58095380 original size:131 final size:131
Alignment explanation
Indices: 58095144--58095408 Score: 316
Period size: 131 Copynumber: 2.0 Consensus size: 131
58095134 GAATTCTTTA
* * * * * * **
58095144 AAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCTTAACGTGTTGGGTTGCAAT
1 AAACGAAGGCAATATGCGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAAT
* * * * * * *
58095209 TTATCGGTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCCCT
66 TTATCGGTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCT
58095274 T
131 T
* *
58095275 AAACGAAGGCAATGTGCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAAT
1 AAACGAAGGCAATATGCGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAAT
* * * * *
58095340 TTCTC-GTCTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTCTAAAAATCCT
66 TTATCGGT-TGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCC
58095404 TT
130 TT
58095406 AAA
1 AAA
58095409 ATGAGGGCAA
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
130 2 0.02
131 109 0.98
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AAACGAAGGCAATATGCGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAAT
TTATCGGTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCT
T
Found at i:58095444 original size:131 final size:130
Alignment explanation
Indices: 58095171--58095478 Score: 307
Period size: 131 Copynumber: 2.4 Consensus size: 130
58095161 GATACTTGGT
* * * * * * * *
58095171 AATTCGTGGAATCGTGCCTTAACGTGTTGGGTTGCAATTTATCGGTTGCTCAAAGTAATCGAAGG
1 AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTC-GTTGCTCAAAATAATCAAAGA
* * * * * **
58095236 TCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATGTGCGATATTTGG
65 TCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGCAATCTGCGATATTTAA
58095301 C
130 C
* * *
58095302 AATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTCTCGTCTGCTTAAAATAATCAAATA
1 AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGT-TGCTCAAAATAATCAAAGA
* * * * * *
58095367 TCCCTTCAAAATTTCACTCATATCTTCTAAAAATCCTTTAAAATGAGGGCAATACT-CGGTGTTT
65 TCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTT-AAACGAAGGCAAT-CTGCGATATTT
58095431 AAC
128 AAC
* **
58095434 AATTCG-GGAATCA-TGCCCTATCGTGCTGGGTTGTGATTTCTCGTT
1 AATTCGCGGAAT-AGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTT
58095479 TATTCAAAAC
Statistics
Matches: 145, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 116 0.80
132 25 0.17
133 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (130 bp):
AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTGCTCAAAATAATCAAAGAT
CCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGCAATCTGCGATATTTAAC
Found at i:58100301 original size:22 final size:22
Alignment explanation
Indices: 58100275--58100329 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
58100265 ACTTGTCGCG
*
58100275 TCGTCGGGATGACAGGTTCTTC
1 TCGTCGGGACGACAGGTTCTTC
58100297 TCGTCGGGACGACAGGTTCTTC
1 TCGTCGGGACGACAGGTTCTTC
58100319 TCGTCGGGACG
1 TCGTCGGGACG
58100330 TCGTGTGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.35, T:0.27
Consensus pattern (22 bp):
TCGTCGGGACGACAGGTTCTTC
Found at i:58106979 original size:27 final size:27
Alignment explanation
Indices: 58106949--58107126 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
58106939 ATATTGAGTC
* *
58106949 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
58106976 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
58107003 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
58107031 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
58107058 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
58107085 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
58107112 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58107127 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58115100 original size:27 final size:27
Alignment explanation
Indices: 58115070--58115247 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
58115060 ATATTGAGTC
* *
58115070 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
58115097 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
58115124 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
58115152 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
58115179 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
58115206 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
58115233 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58115248 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.