Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 175 of 320
Found at i:57888741 original size:40 final size:39
Alignment explanation
Indices: 57888505--57888760 Score: 331
Period size: 40 Copynumber: 6.4 Consensus size: 39
57888495 GATGATAACG
*
57888505 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
57888545 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
57888585 GGGCTAAGTCCCGAAGGCATTTGTGCGTGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
57888625 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
* *
57888665 GGGCTAAGCCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
57888705 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
57888745 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
57888761 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 19 0.09
40 181 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:57896831 original size:68 final size:67
Alignment explanation
Indices: 57896733--57896931 Score: 191
Period size: 68 Copynumber: 3.0 Consensus size: 67
57896723 ATTTTAATAG
* * *
57896733 ATTTAATATTTAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATCAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATAT-AAAGTG
57896797 ATT
65 ATT
* * *
57896800 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-AT-AA
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATAAA
57896862 --G---
62 GTGATT
* * * *
57896863 CTTTAATGTTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATA-TAAAGTG
57896928 ATT
65 ATT
57896931 A
1 A
57896932 AGTTTAATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 27 0.26
63 3 0.03
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.27
69 1 0.01
70 4 0.04
71 3 0.03
72 14 0.13
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATAAAGTGA
TT
Found at i:57896875 original size:62 final size:59
Alignment explanation
Indices: 57896803--57896919 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
57896793 AGTGATTATC
* * *
57896803 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGCT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGCT
* *
57896865 TTAATGTTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
57896920 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGCT
Found at i:57897416 original size:29 final size:30
Alignment explanation
Indices: 57897373--57897453 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
57897363 GATTTTCCAA
* *
57897373 CACATAGTAC-CTGATAAATATAACACTGG
1 CACAAAGTACTCTGATAAATATAACACCGG
*
57897402 CACAGAGT-CTCTGAT-AATAGTAACACCGG
1 CACAAAGTACTCTGATAAATA-TAACACCGG
* *
57897431 TACAAATTACT-TGATAAATATAA
1 CACAAAGTACTCTGATAAATATAA
57897454 TCATAAGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 5 0.12
29 32 0.74
30 6 0.14
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (30 bp):
CACAAAGTACTCTGATAAATATAACACCGG
Found at i:57897589 original size:17 final size:19
Alignment explanation
Indices: 57897560--57897599 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
57897550 CATCTTTATA
57897560 ACATGATACTATA-A-TCC
1 ACATGATACTATACATTCC
57897577 ACATGAT-CATATACATTCC
1 ACATGATAC-TATACATTCC
57897596 ACAT
1 ACAT
57897600 AATAATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 1 0.05
19 7 0.35
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (19 bp):
ACATGATACTATACATTCC
Found at i:57905005 original size:136 final size:139
Alignment explanation
Indices: 57904739--57905018 Score: 458
Period size: 136 Copynumber: 2.0 Consensus size: 139
57904729 ACTGTTAAAG
* *
57904739 CAATTCAGATGTTATGTAATCCAACTCAACCACTCAATGCCATCCTTGCCTTCTACTGCTACAAG
1 CAATTCAGATGTTATGTAATCCAACTCAACCACTAAATGCCATACTTGCCTTCTACTGCT--AAG
* *
57904804 TAGATCAAATGAACACATTATCTAAGCCATCAAGAAGCGATTGCTAGAGAAATGCTACAGCAACC
64 -AGATCAAATGAACACATTATCTAAGCCATCAAGAAGCCATTGCCAGAGAAATGCTACAGCAACC
57904869 AAAAAGTACAAA
128 AAAAAGTACAAA
57904881 CAATTCAGATGTTATGTAATCCAACTCAACCACTAAATGCCATACTTGCCTTCTACTGCT-AG-G
1 CAATTCAGATGTTATGTAATCCAACTCAACCACTAAATGCCATACTTGCCTTCTACTGCTAAGAG
* *
57904944 -TCAAATGAACACATTATCTAAGCCATCAAGAAGCCATTGCCAGAGAAATGCTAGAGCAACCATA
66 ATCAAATGAACACATTATCTAAGCCATCAAGAAGCCATTGCCAGAGAAATGCTACAGCAACCAAA
57905008 AAGTACAAA
131 AAGTACAAA
57905017 CA
1 CA
57905019 TTATTTGCGA
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
136 71 0.54
137 1 0.01
139 2 0.02
142 58 0.44
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (139 bp):
CAATTCAGATGTTATGTAATCCAACTCAACCACTAAATGCCATACTTGCCTTCTACTGCTAAGAG
ATCAAATGAACACATTATCTAAGCCATCAAGAAGCCATTGCCAGAGAAATGCTACAGCAACCAAA
AAGTACAAA
Found at i:57921032 original size:78 final size:78
Alignment explanation
Indices: 57920890--57921037 Score: 242
Period size: 78 Copynumber: 1.9 Consensus size: 78
57920880 TGCCAGGCCA
* * * *
57920890 TGTCAAACCTGTAGGGTATACTAACTTATGCCATACGGCCAAGTCATACGCCTGTGTGCCAGGCC
1 TGTCAAACCTGTAGGGTATACTAACTTATGCCACACGGCCAAGTCACACGCCCGTGTGCAAGGCC
57920955 ATGTACTAGGTCG
66 ATGTACTAGGTCG
*
57920968 TGTCAAACCTGTAGGGTATACTAACTTATGCCACACGGCCAAGTCACACGCCCGTGTGTAAGGCC
1 TGTCAAACCTGTAGGGTATACTAACTTATGCCACACGGCCAAGTCACACGCCCGTGTGCAAGGCC
*
57921033 GTGTA
66 ATGTA
57921038 GAGCATACTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (78 bp):
TGTCAAACCTGTAGGGTATACTAACTTATGCCACACGGCCAAGTCACACGCCCGTGTGCAAGGCC
ATGTACTAGGTCG
Found at i:57928217 original size:47 final size:47
Alignment explanation
Indices: 57928163--57928616 Score: 746
Period size: 47 Copynumber: 9.6 Consensus size: 47
57928153 TATTTGAATA
57928163 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57928210 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57928261 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57928308 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57928355 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57928402 AATGTGAGAGGGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57928449 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57928496 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
57928543 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57928590 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
57928617 TACCGAAGGG
Statistics
Matches: 384, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 338 0.88
51 46 0.12
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:57928790 original size:37 final size:37
Alignment explanation
Indices: 57928734--57928812 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57928724 CCGAGCTCTA
* *
57928734 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
57928771 AAGACCCGATAACTTCGTGTGGGGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
57928808 AAGAC
1 AAGAC
57928813 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:57930754 original size:29 final size:29
Alignment explanation
Indices: 57930719--57930792 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
57930709 GTTGTGAGAT
* *
57930719 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
57930748 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
57930777 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57930793 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:57931299 original size:40 final size:40
Alignment explanation
Indices: 57931105--57931287 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
57931095 TTAAATGATG
* * *
57931105 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
57931145 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
57931185 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * *
57931225 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
57931265 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
57931288 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 109 0.87
41 8 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:57934911 original size:47 final size:47
Alignment explanation
Indices: 57934857--57935413 Score: 839
Period size: 47 Copynumber: 11.6 Consensus size: 47
57934847 TATTTGAATA
57934857 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAAT-TGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG-ATGTGATG
57934904 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57934955 AATGTGAGAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57935001 AATTTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57935048 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57935095 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57935142 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57935189 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57935236 AATGTGAAAGTGTATATATATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----------TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57935293 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
57935340 AATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57935387 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
57935414 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 20, Indels: 32
0.90 0.04 0.06
Matches are distributed among these distances:
46 45 0.09
47 338 0.71
50 2 0.00
51 43 0.09
57 46 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:57935269 original size:104 final size:104
Alignment explanation
Indices: 57935154--57935358 Score: 392
Period size: 104 Copynumber: 2.0 Consensus size: 104
57935144 TGTGAGAGTG
57935154 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCC
57935219 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATA
* *
57935258 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCC
57935323 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
57935359 GTGACAAGGC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (104 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATA
Found at i:57935320 original size:245 final size:234
Alignment explanation
Indices: 57934857--57935413 Score: 837
Period size: 245 Copynumber: 2.3 Consensus size: 234
57934847 TATTTGAATA
57934857 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAAT-TGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG-ATGTGATGAATGTGAAAGTG----T
* *
57934921 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCTA
61 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCTA
* *
57934986 ATGGCCGATGTGATGAATTTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
126 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57935051 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
191 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57935095 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
57935160 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGG-CTAATGG
57935225 CCGATGTGATGAATGTGAAAGTGTATATATATATATATATGTGATAAGGCCTAATGGCCGATGTG
130 CCGATGTGATGAATGTGAAAGTG----------TATATATGTGATAAGGCCTAATGGCCGATGTG
*
57935290 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
185 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
57935340 AATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
57935405 TGTGATAAG
66 TGTGATAAG
57935414 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 16, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
234 61 0.21
235 28 0.10
237 2 0.01
238 54 0.19
245 146 0.50
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (234 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:57935588 original size:37 final size:37
Alignment explanation
Indices: 57935532--57935610 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
57935522 CCGAGCTCTA
* * *
57935532 AAGACCCGTTGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
57935569 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
57935606 AAGAC
1 AAGAC
57935611 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57940796 original size:24 final size:24
Alignment explanation
Indices: 57940742--57940847 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 24
57940732 AAACTCCTCC
57940742 TGAGCT-GATGAACAGTAAGCTCTA
1 TGAGCTGGA-GAACAGTAAGCTCTA
* *
57940766 TCCAGCTGGA-AATAGTAAGCTCTAA
1 T-GAGCTGGAGAACAGTAAGCTCT-A
57940791 TGAGCT-GAGAACAGTAAGCTCTTA
1 TGAGCTGGAGAACAGTAAGCTC-TA
* * *
57940815 CGAGCT-GATATATCGGTAAGCTCATA
1 TGAGCTGGAGA-A-CAGTAAGCTC-TA
57940841 TGAGCTG
1 TGAGCTG
57940848 CGGTGAGTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.03
24 37 0.57
25 8 0.12
26 18 0.28
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (24 bp):
TGAGCTGGAGAACAGTAAGCTCTA
Found at i:57945952 original size:15 final size:14
Alignment explanation
Indices: 57945928--57945966 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
57945918 TTTAAGGGGC
*
57945928 TAAAAAAATAAAAT
1 TAAAAAAATAAAAA
57945942 TAAAAACAATAAAAA
1 TAAAAA-AATAAAAA
57945957 TAAATAAAAT
1 TAAA-AAAAT
57945967 TATTAACACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 14 0.64
16 2 0.09
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:57948616 original size:41 final size:42
Alignment explanation
Indices: 57948527--57948618 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
57948517 GTGCTAAACA
* * * *
57948527 GAAACCTATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGATTAAACAGAAGCTCATAAGAGCTGAACG
*
57948569 GAAACCCATAAGGATTAAACAGAAGCTCAT-TGAGCTGAACG
1 GAAACCCATAAGGATTAAACAGAAGCTCATAAGAGCTGAACG
57948610 GAAACCCAT
1 GAAACCCAT
57948619 TAGGGTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 19 0.42
42 26 0.58
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGATTAAACAGAAGCTCATAAGAGCTGAACG
Found at i:57948628 original size:21 final size:21
Alignment explanation
Indices: 57948527--57948640 Score: 77
Period size: 21 Copynumber: 5.5 Consensus size: 21
57948517 GTGCTAAACA
*
57948527 GAAACCTATAAGGGTTGAACG
1 GAAACCCATAAGGGTTGAACG
* * * *
57948548 GAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACG
* * *
57948569 GAAACCCATAAGGATTAAACA
1 GAAACCCATAAGGGTTGAACG
* * * * *
57948590 GAAGCTCAT-TGAGCTGAACG
1 GAAACCCATAAGGGTTGAACG
* *
57948610 GAAACCCATTAGGGTTGAACT
1 GAAACCCATAAGGGTTGAACG
*
57948631 GAAACTCATA
1 GAAACCCATA
57948641 TAAGTTAAAT
Statistics
Matches: 64, Mismatches: 28, Indels: 2
0.68 0.30 0.02
Matches are distributed among these distances:
20 12 0.19
21 52 0.81
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAACG
Found at i:57948639 original size:41 final size:42
Alignment explanation
Indices: 57948527--57948640 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 42
57948517 GTGCTAAACA
* *
57948527 GAAACCTATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGCTGAACG
* * *
57948569 GAAACCCATAAGGATTAAACAGAAGCTCAT-TGAGCTGAACG
1 GAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGCTGAACG
* * *
57948610 GAAACCCATTAGGGTTGAACTGAAACTCATA
1 GAAACCCATAAGGGTTGAACAGAAGCTCATA
57948641 TAAGTTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 35 0.57
42 26 0.43
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (42 bp):
GAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGCTGAACG
Found at i:57950884 original size:26 final size:26
Alignment explanation
Indices: 57950846--57950979 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
57950836 TGATACAAAT
*
57950846 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57950872 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57950898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57950924 TAATAATGGGTTAGGTAAATCTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57950950 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57950976 TGAT
1 TGAT
57950980 GGGAATTTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57951079 original size:10 final size:10
Alignment explanation
Indices: 57951064--57951093 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
57951054 AGAACAAAGT
57951064 TTTGTCCATC
1 TTTGTCCATC
57951074 TTTGTCCATC
1 TTTGTCCATC
*
57951084 TTTGTTCATC
1 TTTGTCCATC
57951094 ATAGCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTGTCCATC
Found at i:57952609 original size:27 final size:27
Alignment explanation
Indices: 57952569--57952709 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
57952559 AGGAAGCGTC
57952569 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
57952596 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
57952622 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* *
57952650 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
57952677 CTGGTGGCTTTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
57952704 CTGGTG
1 CTGGTG
57952710 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:57952629 original size:54 final size:54
Alignment explanation
Indices: 57952566--57952709 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
57952556 TGGAGGAAGC
*
57952566 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
57952620 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
57952674 GTTCTGGTGGCTTTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
57952710 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:57952720 original size:27 final size:27
Alignment explanation
Indices: 57952569--57952727 Score: 145
Period size: 27 Copynumber: 5.9 Consensus size: 27
57952559 AGGAAGCGTC
57952569 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
* *
57952596 TTGGTGGC-TCTGCCACATATATCTGT-C
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
57952623 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
57952650 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
*
57952677 CTGGTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTTCGCCACAATATCTGTAT
* *
57952704 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGCTTCGCCACAATATCTG
57952728 GCAGCCTCGC
Statistics
Matches: 110, Mismatches: 8, Indels: 28
0.75 0.05 0.19
Matches are distributed among these distances:
25 2 0.02
26 9 0.08
27 95 0.86
28 3 0.03
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:57952721 original size:81 final size:80
Alignment explanation
Indices: 57952569--57952727 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
57952559 AGGAAGCGTC
*
57952569 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
57952634 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
57952650 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTTTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTGAC
*
57952712 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
57952728 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 19 0.28
81 50 0.72
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:57955715 original size:17 final size:17
Alignment explanation
Indices: 57955690--57955754 Score: 94
Period size: 17 Copynumber: 3.7 Consensus size: 17
57955680 AATCAAAATC
*
57955690 AAAATTATATATATTTT
1 AAAAATATATATATTTT
57955707 AAAAATATATATATTTT
1 AAAAATATATATATTTT
*
57955724 AAAAATATATATAAAATTT
1 AAAAATATATAT--ATTTT
57955743 AAAAATATATAT
1 AAAAATATATAT
57955755 CAAAAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 28 0.64
19 16 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAATATATATATTTT
Found at i:57955719 original size:19 final size:19
Alignment explanation
Indices: 57955690--57955754 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
57955680 AATCAAAATC
57955690 AAAAT-TATATATATTTT-
1 AAAATATATATATATTTTA
57955707 AAAA-ATATATATATTTTA
1 AAAATATATATATATTTTA
* *
57955725 AAAATATATATAAAATTTA
1 AAAATATATATATATTTTA
57955744 AAAATATATAT
1 AAAATATATAT
57955755 CAAAAACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.37
18 4 0.09
19 23 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATATATATATATTTTA
Found at i:57955766 original size:19 final size:19
Alignment explanation
Indices: 57955723--57955767 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
57955713 ATATATATTT
**
57955723 TAAAAATATATATAAAATT
1 TAAAAATATATATAAAAAC
57955742 TAAAAATATATATCAAAAAC
1 TAAAAATATATAT-AAAAAC
57955762 TAAAAA
1 TAAAAA
57955768 ACTAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAATATATATAAAAAC
Found at i:57956156 original size:22 final size:24
Alignment explanation
Indices: 57956102--57956156 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
57956092 TATTTTTAGA
*
57956102 TATATATTTTTAAAATTATATATAT
1 TATAT-TTTTTAAAAGTATATATAT
*
57956127 TAAAATTTTTTAAAAGT-TATAT-T
1 T-ATATTTTTTAAAAGTATATATAT
57956150 TATATTT
1 TATATTT
57956157 ATATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 5 0.19
25 11 0.42
26 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATTTTTTAAAAGTATATATAT
Found at i:57956192 original size:20 final size:21
Alignment explanation
Indices: 57956157--57956195 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
57956147 ATTTATATTT
*
57956157 ATATTTAATTTAATTTTTAAA
1 ATATTTAATGTAATTTTTAAA
57956178 ATATTTAA-GTAATTTTTA
1 ATATTTAATGTAATTTTTA
57956196 TTTTTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
ATATTTAATGTAATTTTTAAA
Found at i:57963262 original size:14 final size:16
Alignment explanation
Indices: 57963231--57963265 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
57963221 TCCATTTGAA
57963231 ATTTTTAAAAATATAT
1 ATTTTTAAAAATATAT
57963247 ATTTTTAAAAATATAT
1 ATTTTTAAAAATATAT
57963263 ATT
1 ATT
57963266 AATTACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTTAAAAATATAT
Found at i:57963498 original size:18 final size:19
Alignment explanation
Indices: 57963468--57963538 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
57963458 TATTTAAGCT
57963468 TAGAAATTATAAAAATTTA
1 TAGAAATTATAAAAATTTA
57963487 TAGAAA-TATAAAAATTT-
1 TAGAAATTATAAAAATTTA
* *
57963504 TATAAGTTATATAGAAA-TTA
1 TAGAAATTATA-A-AAATTTA
* *
57963524 TTGAAATGATAAAAA
1 TAGAAATTATAAAAA
57963539 GTAATAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 4 0.10
18 18 0.43
19 10 0.24
20 10 0.24
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
TAGAAATTATAAAAATTTA
Found at i:57963952 original size:19 final size:19
Alignment explanation
Indices: 57963907--57963953 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
57963897 ATCAAATTAA
*
57963907 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
57963926 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
57963945 AATAAAAAT
1 AATAAAAAT
57963954 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:57968076 original size:14 final size:14
Alignment explanation
Indices: 57968057--57968086 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57968047 AAATCAAAGG
57968057 GATGGAGATTTAGA
1 GATGGAGATTTAGA
*
57968071 GATGGAGCTTTAGA
1 GATGGAGATTTAGA
57968085 GA
1 GA
57968087 AGCAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.37, T:0.27
Consensus pattern (14 bp):
GATGGAGATTTAGA
Found at i:57968173 original size:14 final size:14
Alignment explanation
Indices: 57968154--57968183 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57968144 AATGGTGGAA
*
57968154 GGATTTTGATTTGG
1 GGATTTCGATTTGG
57968168 GGATTTCGATTTGG
1 GGATTTCGATTTGG
57968182 GG
1 GG
57968184 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:57969584 original size:16 final size:15
Alignment explanation
Indices: 57969541--57969587 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
57969531 AGGGGTTATA
*
57969541 GTTTAGTGTTTAAGG
1 GTTTAGTGTTTTAGG
*
57969556 GTTTTAG-GATTTAGAG
1 G-TTTAGTGTTTTAG-G
57969572 GTTTAGTGTTTTAGG
1 GTTTAGTGTTTTAGG
57969587 G
1 G
57969588 GTTATAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (15 bp):
GTTTAGTGTTTTAGG
Found at i:57969590 original size:16 final size:16
Alignment explanation
Indices: 57969541--57969590 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
57969531 AGGGGTTATA
*
57969541 GTTTAGTGTTTAAGGG
1 GTTTAGTGTTTTAGGG
* * *
57969557 TTTTAG-GATTTAGAG
1 GTTTAGTGTTTTAGGG
57969572 GTTTAGTGTTTTAGGG
1 GTTTAGTGTTTTAGGG
57969588 GTT
1 GTT
57969591 ATAGATTAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (16 bp):
GTTTAGTGTTTTAGGG
Found at i:57969741 original size:40 final size:41
Alignment explanation
Indices: 57969691--57969794 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
57969681 CTGGTTTTTA
* * ***
57969691 GCTCTAGTTTTTAGCGGCGTTTT-ACCAAAAGCGTTGCTAAT
1 GCTCT-GTTTTTAGCGGCGTTTTAACAAAAAACCCCGCTAAT
*
57969732 GCTCTGTTTTTAGCGGCGTTTTAACAAAAAACCCCGCTATT
1 GCTCTGTTTTTAGCGGCGTTTTAACAAAAAACCCCGCTAAT
57969773 GCTCTGTTTTTAGCGGCGTTTT
1 GCTCTGTTTTTAGCGGCGTTTT
57969795 TGGTAAAACG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 17 0.30
41 39 0.70
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
GCTCTGTTTTTAGCGGCGTTTTAACAAAAAACCCCGCTAAT
Found at i:57969814 original size:40 final size:40
Alignment explanation
Indices: 57969691--57969825 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 40
57969681 CTGGTTTTTA
* * ** *
57969691 GCTCTAGTTTTTAGCGGCG-TTTTACCAAAAGCGTTGCTAAT
1 GCTCT-GTTTTTAGCGGCGTTTTTA-AAAAAACGCAGCTATT
* * *
57969732 GCTCTGTTTTTAGCGGCGTTTTAACAAAAAACCCCGCTATT
1 GCTCTGTTTTTAGCGGCGTTTTTA-AAAAAACGCAGCTATT
***
57969773 GCTCTGTTTTTAGCGGCGTTTTTGGTAAAACGCAGCTATT
1 GCTCTGTTTTTAGCGGCGTTTTTAAAAAAACGCAGCTATT
*
57969813 GCTCCGTGTTTTA
1 GCTCTGT-TTTTA
57969826 TAATTTTTAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 31 0.40
41 47 0.60
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (40 bp):
GCTCTGTTTTTAGCGGCGTTTTTAAAAAAACGCAGCTATT
Found at i:57969864 original size:12 final size:12
Alignment explanation
Indices: 57969849--57969874 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57969839 GTTTTTTGAT
57969849 AAAACGCCGCTA
1 AAAACGCCGCTA
57969861 AAAACGCCGCTA
1 AAAACGCCGCTA
57969873 AA
1 AA
57969875 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:57971734 original size:24 final size:24
Alignment explanation
Indices: 57971689--57971734 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57971679 AAAGAATAAT
* *
57971689 TTAAATACTACTTACAATAAAAAA
1 TTAAATACAACTTACAAAAAAAAA
57971713 TTAAATACCAACTTA-AAAAAAA
1 TTAAATA-CAACTTACAAAAAAA
57971735 TTGGTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (24 bp):
TTAAATACAACTTACAAAAAAAAA
Found at i:57998160 original size:53 final size:53
Alignment explanation
Indices: 57998097--57998207 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
57998087 TTTTTGTCAT
* *
57998097 GGGCGACCACAGGGGCATGTCTAGGCCGTGTGAAGGACACGGGCCAGGGACAC
1 GGGCGACCACAGAGGCATGTCTAAGCCGTGTGAAGGACACGGGCCAGGGACAC
* * * *
57998150 GGGCGACCACATAGTCGTGTCTAAGCCGTGTGAAGGGCACGGGCCAGGGACAC
1 GGGCGACCACAGAGGCATGTCTAAGCCGTGTGAAGGACACGGGCCAGGGACAC
57998203 GGGCG
1 GGGCG
57998208 TGTGCTTGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.22, C:0.26, G:0.41, T:0.11
Consensus pattern (53 bp):
GGGCGACCACAGAGGCATGTCTAAGCCGTGTGAAGGACACGGGCCAGGGACAC
Found at i:58014635 original size:42 final size:41
Alignment explanation
Indices: 58014560--58014713 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 41
58014550 CGAGGATTAT
**
58014560 GTGTAAGACCATATCT-GGATATGGCATTAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
*
58014601 GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
* * * *
58014643 GTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-C
*
58014686 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
58014714 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
41 16 0.16
42 48 0.49
43 33 0.34
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:58014732 original size:85 final size:83
Alignment explanation
Indices: 58014560--58014732 Score: 188
Period size: 85 Copynumber: 2.1 Consensus size: 83
58014550 CGAGGATTAT
* * * *
58014560 GTGTAAGACCATATCTGGATATGGCATTAATATGAGACTTCGTGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATAGCTGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTGGGATATG
* **
58014625 ACATCGATATGAGATTTC
66 ACATCGATATGAGACTGA
* *
58014643 GTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGA-TTACATGTAAGACCATATCTGGGAT
1 GTGTAAGACCATAGCT-GGATA-TGGCATCAATACGAGACTT-CATGTAAGACCATATCTGGGAT
* * *
58014707 ATGGCATTGGTATG-GTACTGA
63 ATGACATCGATATGAG-ACTGA
58014728 GTGTA
1 GTGTA
58014733 CGGGGCTCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
83 15 0.20
84 7 0.09
85 52 0.70
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTGGGATATG
ACATCGATATGAGACTGA
Found at i:58014766 original size:22 final size:22
Alignment explanation
Indices: 58014738--58014782 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
58014728 GTGTACGGGG
58014738 CTCCTAAATATCCTTTAGTATT
1 CTCCTAAATATCCTTTAGTATT
58014760 CTCCTAAATATCCTTTAGTATT
1 CTCCTAAATATCCTTTAGTATT
58014782 C
1 C
58014783 CAAGTGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.44
Consensus pattern (22 bp):
CTCCTAAATATCCTTTAGTATT
Found at i:58019736 original size:718 final size:718
Alignment explanation
Indices: 58018357--58020502 Score: 4003
Period size: 718 Copynumber: 3.0 Consensus size: 718
58018347 TGCAGTCCTT
*
58018357 AATCATATGGTCTTTGACTAGAGTACCAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
*
58018422 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTATCTAGAATAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
* * *
58018487 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGCTGGTCACACTTGCCAGCATATGATAGCGAGC
131 ACCTTACATTTCTCCAATTTCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
* *
58018552 TATCCCATCAAACTCCTCCTAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGAATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
58018617 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
58018682 TATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
326 TATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
*
58018747 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAAC
391 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAAC
58018812 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
456 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
58018877 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
521 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
58018942 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
586 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
58019007 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTAAG
651 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTAAG
58019072 AGC
716 AGC
58019075 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
58019140 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
* * *
58019205 ACCTTACATTTCTCTAATTTCTTATAAAGAGTGTTGGTCACACTTTCCAGCATATGACAACGAGC
131 ACCTTACATTTCTCCAATTTCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
* * *
58019270 TATCCCATCAAACCCCTCCCAATGTTTTCTAGCATTATTTTGAGTGGTTGTGGGCATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
58019335 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
* *
58019400 TATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTATGTGTCATTTTTTTGAAC
326 TATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
58019465 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAAC
391 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAAC
58019530 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
456 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
* *
58019595 TGCAATGATAATCCCTATACTCATTGAATTAAGTCACCTTAGGGCAATCTTAATCAATTAGTAAG
521 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
58019660 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
586 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
* * *
58019725 CGCTCCACGTTTGGTCATAATCCAATTAATACTTGAACCTAATTTCTTAGGTATT----CGTAAG
651 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTAAG
58019786 AGC
716 AGC
*
58019789 AATCATATGGTCTTTGACTAGAGTACTAGGCTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
*
58019854 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTTGTTTGTCTAGAATAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
58019919 ACCTTACATTTCTCCAATTTCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
131 ACCTTACATTTCTCCAATTTCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
58019984 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
58020049 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTTCCATTCATTATAG
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCC-TTTTCCATTCATTATAG
58020114 TTATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAA
325 TTATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAA
58020179 CTAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAA
390 CTAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAA
* *
58020244 CAAACGATATGCATTAAGATAATGCATACGTCTGACATTAAATCTTGGAAAATATTTGTAAGTCA
455 CAAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCA
58020309 TTGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAA
520 TTGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAA
*
58020374 GAAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTACTAATAA
585 GAAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAA
* *
58020439 TCGCTTCACGTTTGGTCATAATCCAATTAATATGTGAACCTGATTCCTTAGGTATTCACACGTA
650 TCGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTA
58020503 CTAATGATCG
Statistics
Matches: 1382, Mismatches: 41, Indels: 9
0.97 0.03 0.01
Matches are distributed among these distances:
714 308 0.22
715 386 0.28
718 684 0.49
719 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (718 bp):
AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
ACCTTACATTTCTCCAATTTCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
TATTTTCGTTTAGTTTGTTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAAC
AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTAAG
AGC
Found at i:58020476 original size:71 final size:71
Alignment explanation
Indices: 58020388--58020554 Score: 298
Period size: 71 Copynumber: 2.4 Consensus size: 71
58020378 ATGAATTTTC
58020388 ATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTACTAATAATCGCTTCACGTTTG
1 ATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTACTAATAATCGCTTCACGTTTG
58020453 GTCATA
66 GTCATA
* * *
58020459 ATCCAATTAATATGTGAACCTGATTCCTTAGGTATTCACACGTACTAATGATCGCTTCACGTTTG
1 ATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTACTAATAATCGCTTCACGTTTG
58020524 GTCATA
66 GTCATA
*
58020530 ATCCAATTAATACATGAACCTAATT
1 ATCCAATTAATACGTGAACCTAATT
58020555 TATGCTTGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (71 bp):
ATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACACGTACTAATAATCGCTTCACGTTTG
GTCATA
Found at i:58031743 original size:18 final size:18
Alignment explanation
Indices: 58031720--58031794 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
58031710 ATATAGTTTA
58031720 GATATGAAGTTTTGTTAT
1 GATATGAAGTTTTGTTAT
* * *
58031738 GATATGAAGATCTGTTCT
1 GATATGAAGTTTTGTTAT
*
58031756 GATATTG-AGTTTTGATAT
1 GATA-TGAAGTTTTGTTAT
*
58031774 GATATGGAA-TTTTGTTGT
1 GATAT-GAAGTTTTGTTAT
58031792 GAT
1 GAT
58031795 TTAGAGTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.02
18 41 0.91
19 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.47
Consensus pattern (18 bp):
GATATGAAGTTTTGTTAT
Found at i:58031802 original size:36 final size:36
Alignment explanation
Indices: 58031727--58031826 Score: 89
Period size: 36 Copynumber: 2.8 Consensus size: 36
58031717 TTAGATATGA
* * * *
58031727 AGTTTTGTTATGATAT-GAAGATCTGTTCTGATATTG
1 AGTTTTGATATGATATGGAA-TTTTGTTGTGATATTG
58031763 AGTTTTGATATGATATGGAATTTTGTTGTGAT-TTAG
1 AGTTTTGATATGATATGGAATTTTGTTGTGATATT-G
* * *
58031799 AGTTCT-ATTATCATCTGGAATTTTGTTG
1 AGTTTTGA-TATGATATGGAATTTTGTTG
58031827 CCTTCGGGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 3 0.06
36 48 0.89
37 3 0.06
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (36 bp):
AGTTTTGATATGATATGGAATTTTGTTGTGATATTG
Found at i:58031917 original size:34 final size:34
Alignment explanation
Indices: 58031868--58031932 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
58031858 GATACCTTAG
* *
58031868 CACTTACGTGTTCTCTGGTGTTTTGGA-GGATTAA
1 CACTTACGTGCTCTCTAGTG-TTTGGATGGATTAA
*
58031902 CACTTATGTGCTCTCTAGTGTTTGGATGGAT
1 CACTTACGTGCTCTCTAGTGTTTGGATGGAT
58031933 CCTATACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.42
Consensus pattern (34 bp):
CACTTACGTGCTCTCTAGTGTTTGGATGGATTAA
Found at i:58037511 original size:47 final size:47
Alignment explanation
Indices: 58037455--58037548 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
58037445 GGTAAAAGAA
58037455 TGAATTATATTGATAGACTAAGCACTAAAAGGTTATGTTGAGATTAC
1 TGAATTATATTGATAGACTAAGCACTAAAAGGTTATGTTGAGATTAC
*
58037502 TGAATTATATTGATAGACTAAGCACTAATAGGTTATGTTGAGATTAC
1 TGAATTATATTGATAGACTAAGCACTAAAAGGTTATGTTGAGATTAC
58037549 CTTGACTCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (47 bp):
TGAATTATATTGATAGACTAAGCACTAAAAGGTTATGTTGAGATTAC
Found at i:58041106 original size:25 final size:24
Alignment explanation
Indices: 58041078--58041124 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
58041068 TTTTGTTAAA
58041078 AAAAAGGTT-AAAAATAAAAAAAACT
1 AAAAA-GTTGAAAAA-AAAAAAAACT
*
58041103 AAAAATTTGAAAAAAAAAAAAA
1 AAAAAGTTGAAAAAAAAAAAAA
58041125 TTTGCCTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAAAGTTGAAAAAAAAAAAAACT
Found at i:58041115 original size:18 final size:17
Alignment explanation
Indices: 58041093--58041128 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
58041083 GGTTAAAAAT
58041093 AAAAAAAACTAAAAATTTG
1 AAAAAAAA--AAAAATTTG
58041112 AAAAAAAAAAAAATTTG
1 AAAAAAAAAAAAATTTG
58041129 CCTGACAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAAAAAAAAAATTTG
Found at i:58041263 original size:36 final size:34
Alignment explanation
Indices: 58041220--58041304 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
58041210 GAAGAAGAAG
* * *
58041220 AAGAAAAAGAA-GAAGAGGACGGCGGGAAAGGAAAGA
1 AAGAAAAAAAAGGAAGAAGACGGAGGG-AAGG-AA-A
*
58041256 AAGAAAAAAAAGGAAGAAGAGGGAGGGAAGGAAA
1 AAGAAAAAAAAGGAAGAAGACGGAGGGAAGGAAA
*
58041290 AAGAAAAATAAGGAA
1 AAGAAAAAAAAGGAA
58041305 AAAAATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
34 15 0.35
35 2 0.05
36 14 0.33
37 12 0.28
ACGTcount: A:0.61, C:0.02, G:0.35, T:0.01
Consensus pattern (34 bp):
AAGAAAAAAAAGGAAGAAGACGGAGGGAAGGAAA
Found at i:58041449 original size:21 final size:22
Alignment explanation
Indices: 58041412--58041455 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
58041402 ATAATTAAAG
58041412 TGTTAAAAATATAAATTT-TTT
1 TGTTAAAAATATAAATTTGTTT
*
58041433 TGTTATAAAAT-TTAATTTGTTT
1 TGTTA-AAAATATAAATTTGTTT
58041455 T
1 T
58041456 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TGTTAAAAATATAAATTTGTTT
Found at i:58041455 original size:23 final size:22
Alignment explanation
Indices: 58041412--58041461 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
58041402 ATAATTAAAG
58041412 TGTTA-AAAATATAAATTTTTT
1 TGTTATAAAATATAAATTTTTT
* *
58041433 TGTTATAAAATTTAATTTGTTTT
1 TGTTATAAAATATAAATT-TTTT
*
58041456 TATTAT
1 TGTTAT
58041462 TATTGTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TGTTATAAAATATAAATTTTTT
Found at i:58041494 original size:7 final size:7
Alignment explanation
Indices: 58041482--58041525 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
58041472 TTAATTTGAA
58041482 TTTAATT
1 TTTAATT
58041489 TTTAATT
1 TTTAATT
58041496 TTTAATT
1 TTTAATT
58041503 TTTAATT
1 TTTAATT
58041510 TTTAATT
1 TTTAATT
58041517 TTTAATT
1 TTTAATT
58041524 TT
1 TT
58041526 ATTTTTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:58041508 original size:21 final size:20
Alignment explanation
Indices: 58041482--58041532 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 20
58041472 TTAATTTGAA
58041482 TTTAATTTTTAATTTTTAATT
1 TTTAATTTTTAATTTTTAA-T
58041503 TTTAATTTTTAATTTTTAAT
1 TTTAATTTTTAATTTTTAAT
58041523 TTT-ATTTTTA
1 TTTAATTTTTA
58041533 TAAGGTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 19 0.63
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTAATTTTTAATTTTTAAT
Found at i:58041601 original size:21 final size:19
Alignment explanation
Indices: 58041575--58041623 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
58041565 GGTATGTTTG
*
58041575 TATTTATTTTATATTTTTAT
1 TATTTATTTT-TATTTTTAA
*
58041595 TGATTTATAATTTATTTTTAA
1 T-ATTTAT-TTTTATTTTTAA
58041616 TATTTATT
1 TATTTATT
58041624 GGAGTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTATTTTTATTTTTAA
Found at i:58041875 original size:31 final size:31
Alignment explanation
Indices: 58041837--58041896 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
58041827 ATTATGAGTT
* *
58041837 AAAAAATTATATCAACTTTTAAAATAACATA
1 AAAAAATTATACCAACATTTAAAATAACATA
*
58041868 AAAAAATTATACCGACATTTAAAATAACA
1 AAAAAATTATACCAACATTTAAAATAACA
58041897 ATACATACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAAAATTATACCAACATTTAAAATAACATA
Found at i:58042221 original size:13 final size:13
Alignment explanation
Indices: 58042193--58042233 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
58042183 TTCCCTATCG
*
58042193 CTTCTTTCTTTTTT
1 CTTCTTT-TCTTTT
*
58042207 CTTTTTTTCTTTT
1 CTTCTTTTCTTTT
58042220 CTTCTTTTCTTTT
1 CTTCTTTTCTTTT
58042233 C
1 C
58042234 CGCTGCCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTCTTTTCTTTT
Found at i:58042228 original size:8 final size:8
Alignment explanation
Indices: 58042198--58042230 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
58042188 TATCGCTTCT
58042198 TTCTTTT-
1 TTCTTTTC
*
58042205 TTCTTTTT
1 TTCTTTTC
58042213 TTCTTTTC
1 TTCTTTTC
58042221 TTCTTTTC
1 TTCTTTTC
58042229 TT
1 TT
58042231 TTCCGCTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTCTTTTC
Found at i:58042931 original size:33 final size:30
Alignment explanation
Indices: 58042847--58042908 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
58042837 TTTATAGGCA
58042847 TTTACTTGTTAAGTTGCACCTATCTTAATG
1 TTTACTTGTTAAGTTGCACCTATCTTAATG
58042877 TTTACTTGTTAAGTTGCACCTATCTTAATG
1 TTTACTTGTTAAGTTGCACCTATCTTAATG
58042907 TT
1 TT
58042909 ATTTAAGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (30 bp):
TTTACTTGTTAAGTTGCACCTATCTTAATG
Found at i:58044536 original size:47 final size:47
Alignment explanation
Indices: 58044479--58044692 Score: 190
Period size: 47 Copynumber: 4.6 Consensus size: 47
58044469 AGAGCTAATT
*
58044479 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACGAAAGCTAGTG
* * * *
58044527 TAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATC-GACTCGAGACGAAAGCTAGTG
* * * * *
58044573 TAAGA-CATGTCTGGGATAT-GCATTGGCTACGAGATGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACT-CGAGACGAAAGCT-AGTG
* * * *
58044619 TAAGACCATGTCTGGGACATGGCATC-AGCTTGAGA-TATGAGCTTGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CTCGAGACGA-AAGCTAGTG
*
58044666 TAAGACCGTGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
58044693 GTACCTTACC
Statistics
Matches: 136, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 59 0.43
47 62 0.46
48 12 0.09
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACTCGAGACGAAAGCTAGTG
Found at i:58044573 original size:46 final size:47
Alignment explanation
Indices: 58044479--58044693 Score: 192
Period size: 46 Copynumber: 4.6 Consensus size: 47
58044469 AGAGCTAATT
* * * *
58044479 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-AAGCCAGTG
*
58044527 TAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-AAGCCAGTG
* * * *
58044573 TAAGA-CATGTCTGGGATAT-GCATTGG-CTACGAGATGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGA-AGCCAGTG
* * * **
58044619 TAAGACCATGTCTGGGACATGGCATCAG-CTTGAGA-TATGAGCTTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGA--AGCCAGTG
*
58044666 TAAGACCGTGTCTGGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
58044694 TACCTTACCC
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
45 3 0.02
46 64 0.46
47 61 0.44
48 12 0.09
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAAGCCAGTG
Found at i:58052569 original size:25 final size:25
Alignment explanation
Indices: 58052541--58052590 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
58052531 CATTGAGTTG
58052541 GTATCAATCAATATCGTTCAATTTC
1 GTATCAATCAATATCGTTCAATTTC
*
58052566 GTATCAATCAATATTGTTCAATTTC
1 GTATCAATCAATATCGTTCAATTTC
58052591 ACATACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (25 bp):
GTATCAATCAATATCGTTCAATTTC
Found at i:58055146 original size:17 final size:19
Alignment explanation
Indices: 58055104--58055147 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
58055094 AAGAAATTTT
*
58055104 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
58055123 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
58055141 AA-TATTA
1 AATTATTA
58055148 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:58064029 original size:11 final size:11
Alignment explanation
Indices: 58064009--58064045 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
58063999 CGGTCGACAG
58064009 TGGT-TGGCGA
1 TGGTCTGGCGA
58064019 TGGTCTGGCGA
1 TGGTCTGGCGA
*
58064030 TGGTCTGACGA
1 TGGTCTGGCGA
58064041 TGGTC
1 TGGTC
58064046 GAAGGCAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.11, C:0.16, G:0.43, T:0.30
Consensus pattern (11 bp):
TGGTCTGGCGA
Found at i:58067496 original size:48 final size:48
Alignment explanation
Indices: 58067425--58068131 Score: 802
Period size: 48 Copynumber: 14.3 Consensus size: 48
58067415 TGTACAAGAT
*
58067425 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58067473 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58067521 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-G
*** * * * * * *
58067570 TAAAGCCGAATG-GCTAGTGTGAAATAT-GT-ATG-AGATAT-G-TATATGTGG
1 -AAATATGTATGAGATA-TGT-ATATGTGGTAAAGCCGA-ATGGCTA-ATGT-G
* * * * ** * * *
58067618 TAAAGCCGAATGGCTAGCGTGAAATATGTATGA-GATATGTATATGTGGTAAAGCCGAATGGCTA
1 -AAA----TAT-G-TA---TGAGATATGTAT-ATG-T-GGTA-AAGCCG-AATGGCTAA------
58067682 GTGTG
45 -TGTG
* *
58067687 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58067735 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58067783 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58067831 AAATATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58067879 AAATATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58067927 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58067975 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58068023 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58068071 AAATATATATGAGATATG--TATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58068117 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
58068132 GTGTGTATAT
Statistics
Matches: 582, Mismatches: 43, Indels: 70
0.84 0.06 0.10
Matches are distributed among these distances:
46 40 0.07
47 2 0.00
48 457 0.79
49 8 0.01
50 12 0.02
51 4 0.01
53 1 0.00
54 1 0.00
55 5 0.01
56 4 0.01
57 10 0.02
58 4 0.01
59 14 0.02
61 3 0.01
62 4 0.01
63 3 0.01
64 3 0.01
68 3 0.01
69 1 0.00
70 3 0.01
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:58067571 original size:22 final size:22
Alignment explanation
Indices: 58067543--58067590 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
58067533 GATATGTATA
58067543 TGTGGTAAAGCCGAATGGCTAG
1 TGTGGTAAAGCCGAATGGCTAG
58067565 TGTGGTAAAGCCGAATGGCTAG
1 TGTGGTAAAGCCGAATGGCTAG
58067587 TGTG
1 TGTG
58067591 AAATATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (22 bp):
TGTGGTAAAGCCGAATGGCTAG
Found at i:58067577 original size:70 final size:70
Alignment explanation
Indices: 58067495--58067634 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
58067485 GATATGTATA
58067495 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
58067560 GCTAG
66 GCTAG
*
58067565 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
58067630 GCTAG
66 GCTAG
58067635 CGTGAAATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (70 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAG
Found at i:58067585 original size:118 final size:118
Alignment explanation
Indices: 58067447--58067686 Score: 453
Period size: 118 Copynumber: 2.0 Consensus size: 118
58067437 GATATGTATA
58067447 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
58067512 GCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
66 GCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
*
58067565 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
58067630 GCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
66 GCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
58067683 TGTG
1 TGTG
58067687 AAATATGTAT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (118 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
Found at i:58067628 original size:166 final size:166
Alignment explanation
Indices: 58067425--58067732 Score: 580
Period size: 166 Copynumber: 1.9 Consensus size: 166
58067415 TGTACAAGAT
*
58067425 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATAT
58067490 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
58067555 GAATGGCTAGTGTGGTAAAGCCGAATGGCTAGTGTG
131 GAATGGCTAGTGTGGTAAAGCCGAATGGCTAGTGTG
* *
58067591 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAGATAT
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATAT
*
58067656 GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
58067721 GAATGGCTAGTG
131 GAATGGCTAGTG
58067733 CGAAATATGT
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 138 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (166 bp):
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATAT
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
GAATGGCTAGTGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:58067742 original size:144 final size:144
Alignment explanation
Indices: 58067565--58068131 Score: 976
Period size: 144 Copynumber: 4.0 Consensus size: 144
58067555 GAATGGCTAG
* *
58067565 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
** * * *
58067630 GCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
66 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
58067695 ATGAGATATGTATA
131 ATGAGATATGTATA
*
58067709 TGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
58067774 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
66 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
58067839 ATGAGATATGTATA
131 ATGAGATATGTATA
* *
58067853 TGTGGTAAATCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAATCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
58067918 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
66 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
58067983 ATGAGATATGTATA
131 ATGAGATATGTATA
*
58067997 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* * * *
58068062 GCTAATGTGAAATATATATGAGATATG--TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
66 GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
*
58068125 AGGAGAT
131 ATGAGAT
58068132 GTGTGTATAT
Statistics
Matches: 406, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
142 40 0.10
144 366 0.90
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.30
Consensus pattern (144 bp):
TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGT
ATGAGATATGTATA
Found at i:58068141 original size:96 final size:95
Alignment explanation
Indices: 58067565--58068131 Score: 938
Period size: 96 Copynumber: 5.9 Consensus size: 95
58067555 GAATGGCTAG
* *
58067565 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG-ATATGTGGTAAAGCCGAATG
** *
58067630 GCTAGCGTGAAATATGTATGAGATATGTATA
65 GCTAATGCGAAATATGTATGAGATATGTATA
* *
58067661 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG-ATATGTGGTAAAGCCGAATG
*
58067726 GCTAGTGCGAAATATGTATGAGATATGTATA
65 GCTAATGCGAAATATGTATGAGATATGTATA
58067757 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG-ATATGTGGTAAAGCCGAATG
58067822 GCTAATGCGAAATATGTATGAGATATGTATA
65 GCTAATGCGAAATATGTATGAGATATGTATA
* *
58067853 TGTGGTAAATCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAATCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG-ATATGTGGTAAAGCCGAATG
58067918 GCTAATGCGAAATATGTATGAGATATGTATA
65 GCTAATGCGAAATATGTATGAGATATGTATA
58067949 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG-ATATGTGGTAAAGCCGAATG
*
58068014 GCTAATGTGAAATATGTATGAGATATGTATA
65 GCTAATGCGAAATATGTATGAGATATGTATA
* *
58068045 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG-TATGTGGTAAAGCCGAATGG
1 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGATATGTGGTAAAGCCGAATGG
* * *
58068109 CTAGTGTGAAATATGTAGGAGAT
66 CTAATGCGAAATATGTATGAGAT
58068132 GTGTGTATAT
Statistics
Matches: 457, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
94 41 0.09
96 416 0.91
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.30
Consensus pattern (95 bp):
TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGATATGTGGTAAAGCCGAATGG
CTAATGCGAAATATGTATGAGATATGTATA
Found at i:58068322 original size:37 final size:37
Alignment explanation
Indices: 58068272--58068374 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
58068262 GGAAATATAT
58068272 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58068309 TCCGGGTAAGACCCGATGACTACGTGTGTAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58068346 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
58068375 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58070343 original size:11 final size:11
Alignment explanation
Indices: 58070313--58070346 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
58070303 AATATTGTAT
58070313 TTATTAATTT-
1 TTATTAATTTA
58070323 TTATTAATTTA
1 TTATTAATTTA
*
58070334 TTATTTATTTA
1 TTATTAATTTA
58070345 TT
1 TT
58070347 CCAAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:58082387 original size:74 final size:74
Alignment explanation
Indices: 58082266--58082414 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
58082256 ATCCATTCAA
58082266 GATTAAGGTATGCCAAAATTTGAATGTCAGAATTTAATAAAGCCATAAATGGATTCAGGCTCTAT
1 GATTAAGGTATGCCAAAATTTGAATGTCAGAATTTAATAAAGCCATAAATGGATTCAGGCTCTAT
58082331 TCTTATTGG
66 TCTTATTGG
* *
58082340 GATTAAGGTATGCCAAAATTTGAATGTCAGAATTTAATAAAGTCATAAATGGATTCAGGGTCTAT
1 GATTAAGGTATGCCAAAATTTGAATGTCAGAATTTAATAAAGCCATAAATGGATTCAGGCTCTAT
58082405 TCTTATTGG
66 TCTTATTGG
58082414 G
1 G
58082415 TCAATCCAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (74 bp):
GATTAAGGTATGCCAAAATTTGAATGTCAGAATTTAATAAAGCCATAAATGGATTCAGGCTCTAT
TCTTATTGG
Found at i:58084941 original size:24 final size:23
Alignment explanation
Indices: 58084911--58084969 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
58084901 GAGCACATAA
58084911 TCGGGAAGCTTACAAAGAGCCATT
1 TCGGGAAGCTTACAAAGAGCC-TT
* *
58084935 TCGGGAAGCTCATAAAGAGCCTT
1 TCGGGAAGCTTACAAAGAGCCTT
*
58084958 TCAGGAAGCTTA
1 TCGGGAAGCTTA
58084970 TCAGGGCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (23 bp):
TCGGGAAGCTTACAAAGAGCCTT
Found at i:58084964 original size:23 final size:24
Alignment explanation
Indices: 58084914--58085076 Score: 81
Period size: 24 Copynumber: 6.8 Consensus size: 24
58084904 CACATAATCG
* *
58084914 GGAAGCTTACAAAGAGCCATTTCG
1 GGAAGCTCACAAAGAGCCATTTCA
*
58084938 GGAAGCTCATAAAGAGCC-TTTCA
1 GGAAGCTCACAAAGAGCCATTTCA
* * * * *
58084961 GGAAGCTTATC--AGGGCTATATAA
1 GGAAGCTCA-CAAAGAGCCATTTCA
* * *
58084984 TGGGAAGCTCA-TAAGAGCTGTAATT-A
1 --GGAAGCTCACAAAGAGC--CATTTCA
* *
58085010 GGAAGTTCACAAAGAACCATATT-A
1 GGAAGCTCACAAAGAGCCAT-TTCA
*
58085034 GGAAGCTCACGAAA-AGCC-TATCA
1 GGAAGCTCAC-AAAGAGCCATTTCA
58085057 GGAAGCTCACAAAGAGCCAT
1 GGAAGCTCACAAAGAGCCAT
58085077 GTGATGGAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
22 8 0.08
23 32 0.31
24 40 0.38
25 20 0.19
26 1 0.01
27 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATTTCA
Found at i:58085033 original size:24 final size:24
Alignment explanation
Indices: 58085006--58085076 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
58084996 AAGAGCTGTA
* *
58085006 ATTAGGAAGTTCACAAAGAACCAT
1 ATTAGGAAGCTCACAAAGAGCCAT
58085030 ATTAGGAAGCTCACGAAA-AGCC-T
1 ATTAGGAAGCTCAC-AAAGAGCCAT
*
58085053 ATCAGGAAGCTCACAAAGAGCCAT
1 ATTAGGAAGCTCACAAAGAGCCAT
58085077 GTGATGGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.07
23 18 0.44
24 17 0.41
25 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (24 bp):
ATTAGGAAGCTCACAAAGAGCCAT
Found at i:58085646 original size:21 final size:21
Alignment explanation
Indices: 58085607--58085646 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58085597 TGAATTTAAT
*
58085607 GTCAATTTAATCTATTTCATA
1 GTCAATTTAATCTAATTCATA
58085628 GTCAATTTAAT-TCAATTCA
1 GTCAATTTAATCT-AATTCA
58085647 CATCCTAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (21 bp):
GTCAATTTAATCTAATTCATA
Found at i:58087658 original size:40 final size:40
Alignment explanation
Indices: 58087574--58087798 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
58087564 TTGAATGATG
* * * *
58087574 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AAA
* * * *
58087614 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58087654 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58087693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58087733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58087774 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58087799 AATGAGGAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58087816 original size:80 final size:80
Alignment explanation
Indices: 58087613--58087831 Score: 216
Period size: 79 Copynumber: 2.8 Consensus size: 80
58087603 AAGTGATCAT
* * ** * *
58087613 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
58087675 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* ** *
58087692 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
58087757 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * * *
58087773 A-CCGGGCTATGTCCCGAAGGCATTTGAATGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
58087832 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.48
80 58 0.48
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:58092239 original size:42 final size:43
Alignment explanation
Indices: 58092117--58092241 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
58092107 ATCACATGTA
* * *
58092117 TCGCATCCATTATGAACTCGAACCACTCAATGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAATGAGCTCGGATGC
*
58092160 TCGCATCCATAATGAACTCAGACCACTCAATGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAATGAGCTCGGATGC
**
58092203 TCGCATCCATAATGAACT-GGACCACTCAACAAGCTCGGA
1 TCGCATCCATAATGAACTCGGACCACTCAATGAGCTCGGA
58092242 CGCCACACAT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 18 0.24
43 57 0.76
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAATGAGCTCGGATGC
Found at i:58104933 original size:47 final size:47
Alignment explanation
Indices: 58104882--58105075 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
58104872 GATTTTATGA
*
58104882 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58104929 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58104976 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
58105023 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
58105070 GATGAA
1 GATGAA
58105076 CGTGGAAGTA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:58104978 original size:22 final size:22
Alignment explanation
Indices: 58104905--58105025 Score: 63
Period size: 22 Copynumber: 5.2 Consensus size: 22
58104895 ATGCATATAC
58104905 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * *
58104927 GTGATGAATG-TGAACTTG-CATATGT
1 GTGAT-AAGGCCGAA-TGGCCA-A--T
58104952 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* *
58104974 GTGATGAATG-TGAACAT-G-CATATGT
1 GTGAT-AAGGCCG-A-ATGGCCA-A--T
58104999 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
58105021 GTGAT
1 GTGAT
58105026 GAATGTGAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 25 0.34
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:58105105 original size:94 final size:94
Alignment explanation
Indices: 58104882--58105115 Score: 292
Period size: 94 Copynumber: 2.5 Consensus size: 94
58104872 GATTTTATGA
* * ** * *
58104882 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTTGCA
1 GATGAACGTGAACATACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
58104947 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGATAAGGCAGAATGGCCAATGT
* * *
58104976 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACATACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
58105041 TATATGTGATAAGGTAGAATGGCCAATGT
66 TATATGTGATAAGGCAGAATGGCCAATGT
* * * *
58105070 GATGAACGTGGAAGTATATATATGTG-GCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAA-CATACATATGTGTGAGAAGGCCGAATGGCCAATG
58105116 CGAAATGTGT
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
94 110 0.88
95 6 0.05
96 9 0.07
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
GATGAACGTGAACATACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATGTGATAAGGCAGAATGGCCAATGT
Found at i:58105153 original size:46 final size:46
Alignment explanation
Indices: 58105103--58105276 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
58105093 GTGGCGAAGC
*
58105103 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
58105149 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
58105195 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAA-T
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
* * ** *
58105240 CTGAATGGCTAATGTGAGATATGTATGAGATGTATAT
1 C-GAATGGCTAATGCGAAACGTGTATGAGATGGATAT
58105277 ATATATATTG
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 118 0.99
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
Found at i:58106800 original size:40 final size:40
Alignment explanation
Indices: 58106752--58106945 Score: 289
Period size: 40 Copynumber: 4.8 Consensus size: 40
58106742 ATATATCCAA
*
58106752 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGG
* * *
58106792 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCTGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGG
*
58106832 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGG
* **
58106872 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGG
* * *
58106912 GCTAAGTCCTGAAGGGCATTCGTGCCGGTGATGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
58106946 GTAATCAGGC
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGG
Found at i:58106876 original size:80 final size:80
Alignment explanation
Indices: 58106752--58106945 Score: 334
Period size: 80 Copynumber: 2.4 Consensus size: 80
58106742 ATATATCCAA
58106752 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
58106817 TGGTGTTATATCTGG
66 TGGTGTTACATCCGG
58106832 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
58106897 TGGTGTTACATCCGG
66 TGGTGTTACATCCGG
* * **
58106912 GCTAAGTCCTGAAGGGCATTCGTGCCGGTGATGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGT
58106946 GTAATCAGGC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (80 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
TGGTGTTACATCCGG
Found at i:58110524 original size:47 final size:47
Alignment explanation
Indices: 58110473--58110991 Score: 808
Period size: 47 Copynumber: 11.0 Consensus size: 47
58110463 GATTTTATCA
58110473 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58110520 GATGAATGTGAACATTCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58110567 GATGAATGTGAACATGCATATACGTGGTAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58110614 GATGAATGTGAACATGCATATACGTGATAAAGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58110661 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58110708 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58110755 GATGAATGTGAACATGCATATACGTGATAAAGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58110802 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
58110849 GATGAATGTGAACATGCATATATGTGATAAGGTTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
58110896 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** *
58110943 GATGAACGTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATGT
1 GATGAATGT-GAACATGCATATATGT-GATAAGGCCGAATGGCCAATGT
58110990 GA
1 GA
58110992 AATGTGTATG
Statistics
Matches: 437, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 431 0.99
48 6 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:58111029 original size:46 final size:46
Alignment explanation
Indices: 58110976--58111149 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 46
58110966 GTGGCGAAGC
* ** *
58110976 CGAATGGCTAATGTGAAATGTGTATGAGTTGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTAAAGT
* *
58111022 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTAAAGT
* * *
58111068 CAAACGGCTAATGCAAAACATGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTAAAGT
* * * *
58111114 CGAATGGCTAATGTGAGATATGTATGAGATGTATAT
1 CGAATGGCTAATGCGAAACATGTATGAGATGGATAT
58111150 ATATATATAT
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 112 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTAAAGT
Found at i:58117601 original size:47 final size:47
Alignment explanation
Indices: 58117519--58118041 Score: 326
Period size: 47 Copynumber: 10.6 Consensus size: 47
58117509 TTAAACCCAT
*
58117519 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
58117568 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58117615 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
58117662 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATATCA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG--ATGA
** ** *** * * *
58117711 CACCT-AATAGCCGATGTGATGA-ATGTGA-AAGTGTATATATGTGATAAGGCCTAATGGCCG
1 -ATGTGAA-A---G-TGT-AT-ATATGTGATAAG-GCCTA-ATG-GCCGATG--TGAT-G--A
* ** * *
58117771 ATGTGATGAA-TGTGA-A-A-GTG-TATTGTGTGATAA-GGCCTAATAGCCGATGTGATGA
1 ATGTGA--AAGTGT-ATATATGTGATA-AG-G-CCTAATGGCC-GAT-G-TGA-----TGA
*
58117826 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
58117875 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
58117922 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
58117969 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
58118016 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
58118042 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 52, Indels: 80
0.74 0.10 0.16
Matches are distributed among these distances:
47 259 0.68
49 30 0.08
50 3 0.01
52 1 0.00
53 12 0.03
54 17 0.04
55 21 0.05
56 15 0.04
57 12 0.03
58 5 0.01
59 5 0.01
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:58117656 original size:94 final size:94
Alignment explanation
Indices: 58117519--58118041 Score: 382
Period size: 94 Copynumber: 5.3 Consensus size: 94
58117509 TTAAACCCAT
58117519 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
58117584 GCGTGATAAGGCCTAATGGCCGATGTGATGA
64 GTGTGATAAGGCCTAATGGCCGATGTGATGA
* *
58117615 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATGT
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
* *
58117680 GTGATAAGGCCTAATAGCCGATGTGATATCA
66 GTGATAAGGCCTAATGGCCGATGTG--ATGA
** * * **
58117711 CACCT-AATAGCCGATGTGATGA-ATGTGA-AAGTGTATATATGTGATAAGGCCTAATG-GCCG-
1 -ATGTGAA-A---G-TGT-AT-ATATGTGATAAG-G-CT-TA----AT--GGCC-GATGTGATGA
* * ** *
58117771 ATGTGATGAA-TGTGA-AAGTGT-AT-TGTGTGATAA-GGCCTAATAGCCGATGTGATGA
48 ATGTGA--AAGTGT-ATATGTGTGATAAG-G-CCTAATGGCC-GAT----G-T--GATGA
58117826 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
58117891 GCGTGATAAGGCTTAATGGCCGATGTGATGA
64 GTGTGATAAGGCCTAATGGCCGATGTGATGA
** *
58117922 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
* * * * * *
58117987 GTGACAGGGCCGAGTGGCCAATGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
58118016 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
58118042 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 47, Indels: 92
0.71 0.10 0.19
Matches are distributed among these distances:
94 169 0.50
96 32 0.10
97 3 0.01
98 1 0.00
99 1 0.00
100 1 0.00
101 6 0.02
102 15 0.04
103 19 0.06
104 15 0.04
105 3 0.01
108 3 0.01
109 14 0.04
110 22 0.07
111 16 0.05
112 4 0.01
114 4 0.01
115 6 0.02
117 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:58117728 original size:71 final size:71
Alignment explanation
Indices: 58117642--58117777 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
58117632 TGTGATAAGG
* *
58117642 CCTAATGGCCGATGTGATAAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT
1 CCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
58117707 ATCACA
66 ATCACA
* *
58117713 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 CCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
58117778 GAATGTGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (71 bp):
CCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
ATCACA
Found at i:58117728 original size:118 final size:117
Alignment explanation
Indices: 58117595--58117823 Score: 431
Period size: 118 Copynumber: 1.9 Consensus size: 117
58117585 CGTGATAAGG
*
58117595 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
58117660 AAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATATCACA
66 AAATGTGAAAGTGTAT-TGTGTGATAAGGCCTAATAGCCGATGTGATATCACA
58117713 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
58117778 GAATGTGAAAGTGTATTGTGTGATAAGGCCTAATAGCCGATGTGAT
66 AAATGTGAAAGTGTATTGTGTGATAAGGCCTAATAGCCGATGTGAT
58117824 GAATGTGAAA
Statistics
Matches: 109, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 30 0.28
118 79 0.72
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (117 bp):
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
AAATGTGAAAGTGTATTGTGTGATAAGGCCTAATAGCCGATGTGATATCACA
Found at i:58119883 original size:21 final size:21
Alignment explanation
Indices: 58119853--58119904 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
58119843 ACGGCCTGCA
* **
58119853 ACACGAGCATGTCTTTGGACC
1 ACACGGGCATGTCCCTGGACC
58119874 ACACGGGCATGTCCCTGGACC
1 ACACGGGCATGTCCCTGGACC
*
58119895 ACATGGGCAT
1 ACACGGGCAT
58119905 TTGTTCCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (21 bp):
ACACGGGCATGTCCCTGGACC
Found at i:58140325 original size:178 final size:178
Alignment explanation
Indices: 58140020--58140350 Score: 563
Period size: 178 Copynumber: 1.9 Consensus size: 178
58140010 CTCCAAACTT
** *
58140020 AAGTTGATTTGGTGATGTATTGAGCTCGTCCTGGCTTGGTTTCGATTTATCAGGTGTTCTCGATT
1 AAGTTGATTTGGTGATGTATTGAGCTCGTCCTGGCTTAATTTCGATTTATCAGGTGTTCTCAATT
* *
58140085 TCTGTATCCGCCATTCATCTAGTTTCTCGATTTAAAGCCTTCGTTCTTTATAGATAGGTCCTTTA
66 TCTGTATCCGCCATTCATCTAGTTTCTCGATTTAAAGCCTTCATTCTTCATAGATAGGTCCTTTA
58140150 TTGTTGCTTGAACATGGCTTGTGCGGTTCTTCAAACTTATTTCCTACA
131 TTGTTGCTTGAACATGGCTTGTGCGGTTCTTCAAACTTATTTCCTACA
*
58140198 AAGTTGATTTGGTGATGTATTGAGCTCGTCCTGGCTTAATTTCGGTTTATCAGGTGTTCTCAATT
1 AAGTTGATTTGGTGATGTATTGAGCTCGTCCTGGCTTAATTTCGATTTATCAGGTGTTCTCAATT
** * *
58140263 TCTGTATCCGCCATTCATCTAGTTTCTCGATTTGTAGCCTTCATTCTTCATAGATTGGTCCTTTG
66 TCTGTATCCGCCATTCATCTAGTTTCTCGATTTAAAGCCTTCATTCTTCATAGATAGGTCCTTTA
*
58140328 TTGTTGCTTGAGCATGGCTTGTG
131 TTGTTGCTTGAACATGGCTTGTG
58140351 TAGGTTGCAC
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 142 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (178 bp):
AAGTTGATTTGGTGATGTATTGAGCTCGTCCTGGCTTAATTTCGATTTATCAGGTGTTCTCAATT
TCTGTATCCGCCATTCATCTAGTTTCTCGATTTAAAGCCTTCATTCTTCATAGATAGGTCCTTTA
TTGTTGCTTGAACATGGCTTGTGCGGTTCTTCAAACTTATTTCCTACA
Found at i:58145927 original size:30 final size:30
Alignment explanation
Indices: 58145893--58145952 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58145883 TTCCCGAGCC
*
58145893 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
58145923 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
58145953 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:58160183 original size:15 final size:15
Alignment explanation
Indices: 58160163--58160211 Score: 98
Period size: 15 Copynumber: 3.3 Consensus size: 15
58160153 TCGACTTCTT
58160163 GTTCTTCCCAAACTC
1 GTTCTTCCCAAACTC
58160178 GTTCTTCCCAAACTC
1 GTTCTTCCCAAACTC
58160193 GTTCTTCCCAAACTC
1 GTTCTTCCCAAACTC
58160208 GTTC
1 GTTC
58160212 CACGTAGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.18, C:0.39, G:0.08, T:0.35
Consensus pattern (15 bp):
GTTCTTCCCAAACTC
Found at i:58164406 original size:36 final size:36
Alignment explanation
Indices: 58164337--58164420 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
58164327 CTATTCCTTA
* * *
58164337 TTCCTCACCTGTATCTTCTTTATCGACTGCATCTTG
1 TTCCTCACCTGTATCTACTTTATCGACTACATCTTC
* *
58164373 TTCCTCACTTGTATCTACTTTATC-AGTCACATCTTC
1 TTCCTCACCTGTATCTACTTTATCGACT-ACATCTTC
*
58164409 TTCCTCATCTGT
1 TTCCTCACCTGT
58164421 GGTCTTATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.45
Consensus pattern (36 bp):
TTCCTCACCTGTATCTACTTTATCGACTACATCTTC
Found at i:58167388 original size:40 final size:40
Alignment explanation
Indices: 58167326--58167543 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
58167316 AAGCCAAGTA
* * * *
58167326 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58167365 CCTTCGGGACATAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58167405 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58167445 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * * *
58167485 CCTTCGGGACTTAGCTCGGA-ACTAGTCATTAGCGCAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58167525 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58167544 TTATCATCAA
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
39 13 0.08
40 142 0.92
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58173846 original size:53 final size:53
Alignment explanation
Indices: 58173789--58173891 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
58173779 GATTTTCTTC
* *
58173789 TCTATTGATTCATTATGGTATTC-TCCCATGATTCTTTGTG-TTTTTCTTTCTCT
1 TCTATTGATTCATTATAGT-TTCTTCCC-TGATTCTCTGTGATTTTTCTTTCTCT
* *
58173842 TCTATTGGTTCCTTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTC
1 TCTATTGATTCATTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTC
58173892 CTACGTCAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 14 0.32
53 30 0.68
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.56
Consensus pattern (53 bp):
TCTATTGATTCATTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTCTCT
Found at i:58178600 original size:26 final size:26
Alignment explanation
Indices: 58178564--58178615 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58178554 CAGTTAGTCT
58178564 CGATTAAAGCTTTTGAAATATTCATA
1 CGATTAAAGCTTTTGAAATATTCATA
58178590 CGATTAAAGCTTTTGAAATATTCATA
1 CGATTAAAGCTTTTGAAATATTCATA
58178616 GTCCTTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
CGATTAAAGCTTTTGAAATATTCATA
Found at i:58181633 original size:46 final size:45
Alignment explanation
Indices: 58181577--58181744 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 45
58181567 ACTCGTAGTC
*
58181577 GATGCATGTCCCAGACATGTTTTACACTGGCTTATGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-TGTCTCGAGGCT
* * *
58181623 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TTGTCTCGAGGCT
* * * *
58181669 GATGCCATGTCCCAGACATGGCCTTACACTGGTTCTTGTAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TTGT-CTCGAGGCT
*
58181717 GATGCATGTCCAAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
58181745 AGCTCACAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
46 53 0.50
47 28 0.27
48 23 0.22
49 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTTGTCTCGAGGCT
Found at i:58188635 original size:94 final size:94
Alignment explanation
Indices: 58188526--58188714 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
58188516 GGAATTTTTA
58188526 AGTGTTAGTCAATTTAGGTTGGGGCCATTCACATCTATTATTATTTTTGAGATCGACCTTCATTC
1 AGTGTTAGTCAATTTAGGTTGGGGCCATTCACATCTATTATTATTTTTGAGATCGACCTTCATTC
58188591 TTTTTGTTCATCTTTTCTTCACCAAGCTT
66 TTTTTGTTCATCTTTTCTTCACCAAGCTT
58188620 AGTGTTAGTCAATTTAGGTTGGGGCCATTCACATCTATTATTATTTTTGAGATCGACCTTCATTC
1 AGTGTTAGTCAATTTAGGTTGGGGCCATTCACATCTATTATTATTTTTGAGATCGACCTTCATTC
58188685 TTTTTGTTCATCTTTTCTTCACCAAGCTT
66 TTTTTGTTCATCTTTTCTTCACCAAGCTT
58188714 A
1 A
58188715 ATCTTCTACT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (94 bp):
AGTGTTAGTCAATTTAGGTTGGGGCCATTCACATCTATTATTATTTTTGAGATCGACCTTCATTC
TTTTTGTTCATCTTTTCTTCACCAAGCTT
Found at i:58190076 original size:20 final size:21
Alignment explanation
Indices: 58190033--58190078 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
58190023 ACTGTTTTGT
58190033 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
58190053 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
58190072 TATGGGC
1 TATGGGC
58190079 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:58197787 original size:26 final size:26
Alignment explanation
Indices: 58197737--58197798 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
58197727 AACAAAAGTT
*
58197737 AGTATAAAAAAAGAAATAAAGAAAGATA
1 AGTAT-AAAAAAGAAAGAAAGAAAGA-A
*
58197765 AGTATAAAAAA-AAAGAAATAAAGAA
1 AGTATAAAAAAGAAAGAAAGAAAGAA
58197790 AG-ATAAAAA
1 AGTATAAAAA
58197799 CATAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.22
25 3 0.09
26 11 0.34
27 6 0.19
28 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (26 bp):
AGTATAAAAAAGAAAGAAAGAAAGAA
Found at i:58197806 original size:30 final size:30
Alignment explanation
Indices: 58197740--58197806 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
58197730 AAAAGTTAGT
** *
58197740 ATAAAAAAAGAAATAAAGAAAGATAAGTAT
1 ATAAAAAAAGAAATAAAGAAAGATAAAAAC
*
58197770 AAAAAAAAAGAAATAAAGAAAGATAAAAAC
1 ATAAAAAAAGAAATAAAGAAAGATAAAAAC
58197800 ATAAAAA
1 ATAAAAA
58197807 TTAAGAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (30 bp):
ATAAAAAAAGAAATAAAGAAAGATAAAAAC
Found at i:58200123 original size:15 final size:15
Alignment explanation
Indices: 58200103--58200133 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58200093 CTATTCAAAT
58200103 TCCATATACCATATA
1 TCCATATACCATATA
*
58200118 TCCATATATCATATA
1 TCCATATACCATATA
58200133 T
1 T
58200134 AAATCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
TCCATATACCATATA
Found at i:58200353 original size:25 final size:26
Alignment explanation
Indices: 58200325--58200416 Score: 109
Period size: 25 Copynumber: 3.7 Consensus size: 26
58200315 GAATTAGTAT
*
58200325 GCTCTCATGAGCTGTA-AATCGGTAA
1 GCTCACATGAGCTGTAGAATCGGTAA
*
58200350 GCTCACATGAGCTG-AGAATCGATAA
1 GCTCACATGAGCTGTAGAATCGGTAA
* * *
58200375 GCTAACACGAGCT-AAGAATCGGTAA
1 GCTCACATGAGCTGTAGAATCGGTAA
*
58200400 GCTCATATGAGCTGTAG
1 GCTCACATGAGCTGTAG
58200417 TGTGTCTGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 52 0.95
26 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (26 bp):
GCTCACATGAGCTGTAGAATCGGTAA
Found at i:58210928 original size:23 final size:23
Alignment explanation
Indices: 58210884--58210928 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58210874 TTTATTATTA
*
58210884 TTAGCAGCTCTGCTACGTTACTT
1 TTAGCAGCTCTGCTACGATACTT
*
58210907 TTAGCAGC-CTCGCTGCGATACT
1 TTAGCAGCTCT-GCTACGATACT
58210929 AGTGTACTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (23 bp):
TTAGCAGCTCTGCTACGATACTT
Found at i:58221658 original size:21 final size:21
Alignment explanation
Indices: 58221596--58221651 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
58221586 ATCCCCACAT
58221596 GGTGAGATGGTTGGTACGGGA
1 GGTGAGATGGTTGGTACGGGA
58221617 GGTGAGATGGTTGGTACGGGA
1 GGTGAGATGGTTGGTACGGGA
*
58221638 GGTGAGACGGTTGG
1 GGTGAGATGGTTGG
58221652 ATTGGGATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.05, G:0.54, T:0.23
Consensus pattern (21 bp):
GGTGAGATGGTTGGTACGGGA
Found at i:58223371 original size:42 final size:46
Alignment explanation
Indices: 58223289--58223393 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 46
58223279 ATTGTATCAA
* * *
58223289 TCTCGCACACTAAGTGCATATATATATATAGCCGAAGCTATCTCG-T
1 TCTCACACACTAAGTGCATATATATATATA-CCAAAGCTATCCCGAT
58223335 TCTCACACACTAAGTGCA-A-ATATATAT-CCAAAGCTATCCCGAT
1 TCTCACACACTAAGTGCATATATATATATACCAAAGCTATCCCGAT
58223378 T-TCGA-ACACTAAGTGC
1 TCTC-ACACACTAAGTGC
58223394 CCATAATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
42 25 0.46
43 3 0.06
44 8 0.15
45 1 0.02
46 17 0.31
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (46 bp):
TCTCACACACTAAGTGCATATATATATATACCAAAGCTATCCCGAT
Found at i:58228610 original size:48 final size:47
Alignment explanation
Indices: 58228488--58228648 Score: 159
Period size: 48 Copynumber: 3.4 Consensus size: 47
58228478 TATGTGTGCT
** * * *
58228488 AGTGTAAGACATGTCTAGGACATGCATTAGCCAC-A-TTATGA-GAGCC
1 AGTGTAAGACATGTC-AGGACATGCATCGGCCTCGAGATAT-ACAAGCC
* *
58228534 AGTGTAAGATATGTCAGGACATGCATCGGCCTTGAGATATACAAGCC
1 AGTGTAAGACATGTCAGGACATGCATCGGCCTCGAGATATACAAGCC
* *
58228581 AGTGTAAGACATGT-ATGGGACATGCATCGGCCTCGAGGTATACAAGCT
1 AGTGTAAGACATGTCA--GGACATGCATCGGCCTCGAGATATACAAGCC
*
58228629 AGTGTAAGACCTGTCTAGGA
1 AGTGTAAGACATGTC-AGGA
58228649 TATGGCATTA
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
45 14 0.15
46 17 0.18
47 20 0.21
48 44 0.46
50 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCAGGACATGCATCGGCCTCGAGATATACAAGCC
Found at i:58228732 original size:49 final size:47
Alignment explanation
Indices: 58228488--58228841 Score: 162
Period size: 49 Copynumber: 7.5 Consensus size: 47
58228478 TATGTGTGCT
* * ** *
58228488 AGTGTAAGACATGTCTAGGACAT-GCAT-TAGCCACATTA-TGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGA-CCTGA-TAGTGAAAGCC
** *
58228534 AGTGTAAGATATGTC-AGGACAT-GCATCGGCCTTGAGATA-T-ACAAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACC-T--GATAGTGA-AAGCC
* * * * *
58228581 AGTGTAAGACATGTATGGGACAT-GCATCGGCCTCGAGGTA-T-ACAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCT-GA--TAGTGA-AAGCC
* * * * * *
58228629 AGTGTAAGACCTGTCTAGGATATGGCAT-TAGCTTG-TTGTG--TGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGA-CCTGATAGTGAAAGCC
* * *
58228673 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTGATAG-TGAAAGCC
* **** * *
58228722 AGTGTAAGACCTGTCTAAGACACAATATCGGCCTCGATATGTGAAAGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCT-GATA-GTGAAAGCC
* **
58228771 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTTGAT-GTGTTAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTGATAGTGAAAGCC
58228818 AGTGTAAGACCATGTCTAGGACAT
1 AGTGTAAGACC-TGTCTAGGACAT
58228842 AACGTTGGCA
Statistics
Matches: 236, Mismatches: 50, Indels: 42
0.72 0.15 0.13
Matches are distributed among these distances:
44 28 0.12
45 16 0.07
46 20 0.08
47 40 0.17
48 59 0.25
49 71 0.30
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACCTGATAGTGAAAGCC
Found at i:58233683 original size:10 final size:10
Alignment explanation
Indices: 58233661--58233707 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
58233651 AAATCTATCG
*
58233661 AAAA-TAATC
1 AAAATTAATT
58233670 AAAATTAATT
1 AAAATTAATT
*
58233680 AAAATTTGATAT
1 AAAA-TTAAT-T
58233692 AAAATTAATT
1 AAAATTAATT
58233702 AAAATT
1 AAAATT
58233708 CAACATGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:58235229 original size:27 final size:27
Alignment explanation
Indices: 58235199--58235377 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
58235189 ATATTGAGCC
* * *
58235199 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
58235226 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
58235253 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
58235281 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
58235308 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
58235335 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
58235362 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
58235378 TACAATTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Done.