Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 153 of 770
Found at i:45077574 original size:40 final size:40
Alignment explanation
Indices: 45077529--45077695 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
45077519 CGGAATATAA
45077529 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45077569 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45077609 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45077649 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45077688 CCGGATAT
1 CCGGATAT
45077696 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45079795 original size:68 final size:68
Alignment explanation
Indices: 45079723--45079906 Score: 250
Period size: 68 Copynumber: 2.7 Consensus size: 68
45079713 CATCATGTGT
* *
45079723 ACAAGAAG-GCTAC-GAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACAGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
45079786 TGTAG
64 TGTAG
45079791 ACAAG-AGAGCTACATGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACA-GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
45079855 GTAG
65 GTAG
** * *
45079859 ACAAG-AGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTA-CAGAGAGATAAATGTAGCTAGGTCACATGTGTGAT
45079907 TCCAAGTGAA
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
67 2 0.02
68 95 0.90
69 4 0.04
70 5 0.05
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (68 bp):
ACAAGAAGAGCTACAGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:45079980 original size:66 final size:68
Alignment explanation
Indices: 45079783--45079980 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 68
45079773 GGGATGTATC
* * * *
45079783 CCATGTAGACAAGAGAGCTACATGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCT--A-GAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGA
* *
45079845 TGTATC-
63 AGGA-CA
* *
45079851 CCATGTAGACAAGAGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGA
45079916 AGGACA
63 AGGACA
* * *
45079922 CCATGTAGACAAGAGAGCTA-CGAGATAAAT-CAGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTAGAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTG
45079981 TTCACCATGT
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
66 26 0.23
67 9 0.08
68 51 0.45
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTAGAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:45085820 original size:30 final size:30
Alignment explanation
Indices: 45085786--45085843 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
45085776 TTTTCGAGTA
*
45085786 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
45085816 TAGGGGCAAAATGGTCATTTTTCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
45085844 ACGTCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:45086255 original size:47 final size:46
Alignment explanation
Indices: 45086182--45086399 Score: 178
Period size: 47 Copynumber: 4.7 Consensus size: 46
45086172 GATTTCTTGT
* * ** **
45086182 GTGCCAGCGTAAGACATGTCTGGGACATGCATCGGTTACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGACAA
*
45086228 GTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCACAGAGACAA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGACAA
** *
45086276 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGACGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGAC-AA
* * * **
45086321 GATAGCCAATGTAAGACATGTCCGGGACACGCATCGGCTA-AGAG--TT
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGACAA
* *
45086367 GTGCTAGGGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
45086400 AGCATGTATA
Statistics
Matches: 141, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 29 0.21
45 4 0.03
46 23 0.16
47 62 0.44
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGACAA
Found at i:45086348 original size:94 final size:91
Alignment explanation
Indices: 45086182--45086399 Score: 237
Period size: 94 Copynumber: 2.4 Consensus size: 91
45086172 GATTTCTTGT
* ** *
45086182 GTGCCAGCGTAAGACATGTCTGGGACATGCATCGGTTACATTATGAGTGCCAGTATAAGACCATG
1 GTGCCAGCGTAAGACATGTCTGGGACATGCATCGGCTACACGATGAGTGCCAATATAAGACCATG
* *
45086247 TCTGGGACATGGCATCGGC-ACAGAGACAA
66 TCCGGGACA-CGCATCGGCTA-AGAG--AA
* *
45086276 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGACGATGA-TAGCCAATGTAAGA-C
1 GTGCCAGCGTAAGACATGTCTGGGACATGCATCGG-CTAC-ACGATGAGT-GCCAATATAAGACC
**
45086338 ATGTCCGGGACACGCATCGGCTAAGAGTT
63 ATGTCCGGGACACGCATCGGCTAAGAGAA
* *
45086367 GTGCTAGGGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGCGTAAGACATGTCTGGGACATGCATC
45086400 AGCATGTATA
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
91 31 0.29
93 12 0.11
94 49 0.45
95 16 0.15
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (91 bp):
GTGCCAGCGTAAGACATGTCTGGGACATGCATCGGCTACACGATGAGTGCCAATATAAGACCATG
TCCGGGACACGCATCGGCTAAGAGAA
Found at i:45091774 original size:43 final size:42
Alignment explanation
Indices: 45091725--45091837 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
45091715 CCAGACGTGG
45091725 TCTTACATGTAATCAAATATCGATGCCACTATCCCAGACACAGT
1 TCTTACATGTAATCAAATATCGATGCCAC-ATCCCAGAC-CAGT
* * * * * * **
45091769 T-TTACACGAAATCAAGTA-CAATGCCAACGTCCTAGACGTGT
1 TCTTACATGTAATCAAATATCGATGCC-ACATCCCAGACCAGT
45091810 TCTTACATGTAATCAAATATCGATGCCA
1 TCTTACATGTAATCAAATATCGATGCCA
45091838 GTGTCCTAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
41 3 0.06
42 28 0.52
43 22 0.41
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (42 bp):
TCTTACATGTAATCAAATATCGATGCCACATCCCAGACCAGT
Found at i:45091816 original size:42 final size:42
Alignment explanation
Indices: 45091700--45091950 Score: 175
Period size: 43 Copynumber: 5.9 Consensus size: 42
45091690 AGAAAGCTTG
* * *
45091700 TACAATGCCAACGTGCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAA
* * *** * *
45091742 TATCGATGCC-ACTATCCCAGACACAGTTTTACACGAAATCAAG
1 TA-CAATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATCAAA
* * * *
45091785 TACAATGCCAACGTCCTAGACGTGTTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAA
* ** * * *
45091827 TATCGATGCCAGTGTCCTAGACAG-GGTCTTACGCGAAATCAAG
1 TA-CAATGCCAACGTCCCAGAC-GTGGTCTTACACGAAATCAAA
* * * *
45091870 TAAAATGTCAACGTCCCAGATGTGGTCTTACATGTAAA-CTATAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACG-AAATC-A-AA
* * *
45091914 TTCGATGCCAACGTCCCAGATGTGGTCTTACACGAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACGAAA
45091951 ATACATATCA
Statistics
Matches: 156, Mismatches: 44, Indels: 17
0.72 0.20 0.08
Matches are distributed among these distances:
41 1 0.01
42 54 0.35
43 70 0.45
44 31 0.20
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAA
Found at i:45091849 original size:85 final size:84
Alignment explanation
Indices: 45091699--45091923 Score: 290
Period size: 85 Copynumber: 2.6 Consensus size: 84
45091689 CAGAAAGCTT
45091699 GTACAATGCCAACGTGCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAC
1 GTACAATGCCAACGT-CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAC
*
45091764 ACAGTTTTACACGAAATCAA
65 ACAGTCTTACACGAAATCAA
* * * *
45091784 GTACAATGCCAACGTCCTAGACGTGTTCTTACATGTAATCAAATATCGATGCCAGTGTCCTAGAC
1 GTACAATGCCAACGTCC-AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAC
** *
45091849 AGGGTCTTACGCGAAATCAA
65 ACAGTCTTACACGAAATCAA
* * * *
45091869 GTAAAATGTCAACGTCCCAGATGTGGTCTTACATGTAAACTATAAT-TCGATGCCA
1 GTACAATGCCAACGT-CCAGACGTGGTCTTACATGTAATC-A-AATATCGATGCCA
45091924 ACGTCCCAGA
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
84 2 0.02
85 106 0.86
86 12 0.10
87 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (84 bp):
GTACAATGCCAACGTCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
CAGTCTTACACGAAATCAA
Found at i:45112450 original size:20 final size:20
Alignment explanation
Indices: 45112412--45112450 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45112402 ACTTGCATAT
* **
45112412 ATATATATATGTATTTATGC
1 ATATATATATATAAGTATGC
45112432 ATATATATATATAAGTATG
1 ATATATATATATAAGTATG
45112451 TGTGAGGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATATATATATAAGTATGC
Found at i:45122324 original size:2 final size:2
Alignment explanation
Indices: 45122317--45122343 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45122307 GAGACTAGTC
45122317 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
45122344 CACATGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45123295 original size:35 final size:35
Alignment explanation
Indices: 45123255--45123325 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45123245 CTTGTTTATA
45123255 ACCTTACCACATCCTGGTCACTTAATGAACACATC
1 ACCTTACCACATCCTGGTCACTTAATGAACACATC
45123290 ACCTTACCACATCCTGGTCACTTAATGAACACATC
1 ACCTTACCACATCCTGGTCACTTAATGAACACATC
45123325 A
1 A
45123326 TTCACATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.25
Consensus pattern (35 bp):
ACCTTACCACATCCTGGTCACTTAATGAACACATC
Found at i:45131489 original size:30 final size:29
Alignment explanation
Indices: 45131437--45131499 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
45131427 TATGATATGG
45131437 TATCTTGGATTTCTGTACCTTGGA-TATCTT
1 TATCTTGGATTTCTGTA-CTTGGACT-TCTT
45131467 TATCTTGGATTCCTCTGT-CTTGGACTTCTT
1 TATCTTGGATT--TCTGTACTTGGACTTCTT
45131497 TAT
1 TAT
45131500 TCTGGTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 24 0.80
31 1 0.03
32 5 0.17
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.51
Consensus pattern (29 bp):
TATCTTGGATTTCTGTACTTGGACTTCTT
Found at i:45137200 original size:38 final size:38
Alignment explanation
Indices: 45137138--45137350 Score: 302
Period size: 38 Copynumber: 5.6 Consensus size: 38
45137128 TCGAAATATG
*
45137138 ATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
45137176 ATATCCGGGTTAGATTCCGTAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
45137214 ATATCCGGGTTAAATCCTGTAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
45137252 ATATTCGGGTTAAATACCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
45137290 ATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
45137328 ATATCCGGGTTAAA-CCCACAGGC
1 ATATCCGGGTTAAATCCCGCAGGC
45137351 CTAGTACTGG
Statistics
Matches: 154, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
37 8 0.05
38 146 0.95
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:45137465 original size:45 final size:45
Alignment explanation
Indices: 45137369--45137494 Score: 138
Period size: 46 Copynumber: 2.9 Consensus size: 45
45137359 GGTATTATAA
* * *
45137369 TCGGGCCTTT-GAGCCTAGCAGACTATTATGACGGTGAGACATTAT
1 TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-ACATTAT
*
45137414 TCGGGCCTTTCAAGCCTAGCAGGCTATAATGCCGGTGAA-ATGATAT
1 TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACAT--TAT
*
45137460 T-GGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
45137495 TGAATAAAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.17
43 15 0.21
44 2 0.03
45 16 0.22
46 27 0.38
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (45 bp):
TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATTAT
Found at i:45138844 original size:48 final size:48
Alignment explanation
Indices: 45138755--45138849 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
45138745 TAAGCGTAAG
* * *
45138755 ACCTATCTGGGATAGGCATCGGCACAGCCTAGTGAGTGCTAGTATAAA
1 ACCTATCTGGGATAGGCATCAGCACAGCCTAGAGAGAGCTAGTATAAA
*
45138803 ACCTAT-TGGGAATAGGCATCAGCACAGGC-AGAGCAGAGCTAGTATAA
1 ACCTATCTGGG-ATAGGCATCAGCACAGCCTAGAG-AGAGCTAGTATAA
45138850 GGCCATAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 7 0.17
48 34 0.83
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (48 bp):
ACCTATCTGGGATAGGCATCAGCACAGCCTAGAGAGAGCTAGTATAAA
Found at i:45141169 original size:38 final size:38
Alignment explanation
Indices: 45141121--45141428 Score: 427
Period size: 38 Copynumber: 8.1 Consensus size: 38
45141111 TCGAAATATG
* *
45141121 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTAGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
** *
45141159 ATATTTGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
45141197 ATATTCAGATTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
45141235 ATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
45141273 ATATCCGGGTTAAATCTCGCACGCTTCGTGTTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
45141311 ATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
45141349 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
45141387 ATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
45141425 ATAT
1 ATAT
45141429 TTGGCCCTTT
Statistics
Matches: 240, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 240 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:45141506 original size:46 final size:44
Alignment explanation
Indices: 45141429--45141554 Score: 139
Period size: 46 Copynumber: 2.9 Consensus size: 44
45141419 GGTATTATAT
* * * * *
45141429 TTGGCCCTTTGAGCCTAGCAGACTATTATGCCGGTGAGACGTTA
1 TTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAACGATA
* *
45141473 TTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATG
1 TT-GGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAAACGATA
* *
45141519 TTGGGCC-TTGAGCCTAGCAGGCGA-AATGCCAGTGAA
1 TTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
45141555 TGAATAAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 11 0.15
43 14 0.20
44 4 0.06
45 12 0.17
46 30 0.42
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (44 bp):
TTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAACGATA
Found at i:45142600 original size:60 final size:60
Alignment explanation
Indices: 45142533--45142672 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
45142523 CCCAACTGTG
* *
45142533 TTGATATGGGGAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTGAT-
1 TTGATATGGGCAAGGCCCAATATACTCTCATAC-TGTAA-AGGGCTACGGCCCAGATTAATA
* * * * *
45142592 TCTGATATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATA
1 T-TGATATGGGCAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAATA
*
45142653 TTGATATGGGCTGAGGCCCA
1 TTGATATGGGC-AAGGCCCA
45142673 GTTAACTCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
59 1 0.01
60 48 0.71
61 17 0.25
62 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (60 bp):
TTGATATGGGCAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAATA
Found at i:45149160 original size:39 final size:39
Alignment explanation
Indices: 45149074--45149251 Score: 143
Period size: 39 Copynumber: 4.6 Consensus size: 39
45149064 ACTTGAAACC
* *
45149074 AATTACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTGCGGGACTTT-AGCCCGGATAT
* * *
45149113 AATACCAGCTCGAAGCCTGCGGGACTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
* * * *
45149152 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGATAT
* * * *
45149191 AATTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATAA
1 AATTCCAGCACGA-AGCCTGCGGGA-CTTTAGCCCGGATAT
45149230 AATTCCAGCAC-ATAGCCTGCGG
1 AATTCCAGCACGA-AGCCTGCGG
45149252 ACCCTAAGTC
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 15 0.13
39 102 0.86
40 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
AATTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
Found at i:45149193 original size:78 final size:78
Alignment explanation
Indices: 45149106--45149269 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
45149096 GAATTTAAAC
* * * * * *
45149106 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACAAAATTCCAGCACATAGC
*
45149168 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
45149183 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAAAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACAAAATTCCAGCACATAGCCT
45149248 GCGGACCCTAAGT
66 GCGGACCCTAAGT
45149261 CCGGATATA
1 CCGGATATA
45149270 CATCACTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 8 0.11
78 66 0.89
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACAAAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:45149252 original size:39 final size:39
Alignment explanation
Indices: 45149154--45149267 Score: 201
Period size: 39 Copynumber: 2.9 Consensus size: 39
45149144 CCGGACATAT
* * *
45149154 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAAAA
45149193 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAAAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAAAA
45149232 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
45149268 TACATCACTG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAAAA
Found at i:45149721 original size:2 final size:2
Alignment explanation
Indices: 45149709--45149740 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
45149699 TACTTTCAGA
45149709 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45149741 CGACTTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45154624 original size:51 final size:51
Alignment explanation
Indices: 45154564--45154711 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
45154554 CGGATACATG
*
45154564 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GCCCAAAGCTATTTTATTCAAAAA
* * *
45154615 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCAAAAA
*
45154666 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAACTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTC
45154712 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCAAAAA
Found at i:45157078 original size:46 final size:46
Alignment explanation
Indices: 45157028--45157203 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
45157018 TGGTTGAGCA
*
45157028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
45157074 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* **
45157121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
45157167 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45157204 GCGAGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 7 0.07
45 7 0.07
46 57 0.53
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:45157184 original size:93 final size:93
Alignment explanation
Indices: 45157025--45157196 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
45157015 GGATGGTTGA
* * * *
45157025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCATTGAGT
45157090 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45157118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAA-CTCATTGAG
*
45157182 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
45157197 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45158675 original size:42 final size:42
Alignment explanation
Indices: 45158643--45158769 Score: 130
Period size: 48 Copynumber: 2.9 Consensus size: 42
45158633 TAGTCCAACT
*
45158643 ATGGTCTTACAC-AAAGTCTCATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAA-TCACATATCGATGCCATGTCCCAGAC
45158685 ATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATC---G---ATGCCATGTCCCAGAC
* ** *
45158733 ATGGTCTTACATGGGATCACATATTGATGCCAATGTC
1 ATGGTCTTACACGAAATCACATATCGATGCC-ATGTC
45158770 ATGTCCCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
42 25 0.35
43 8 0.11
45 2 0.03
48 37 0.51
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAGAC
Found at i:45158740 original size:48 final size:48
Alignment explanation
Indices: 45158669--45158849 Score: 281
Period size: 48 Copynumber: 3.8 Consensus size: 48
45158659 TCTCATATCG
* * ** *
45158669 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTGATGCCA
*
45158717 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTGATGCCA
*
45158765 ATGTCATGTCCCAAACATGGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTGATGCCA
* *
45158813 ATGTCATGTCCCAAACATGGTCTTACATTGGATCACA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACA
45158850 ATGCCATAGC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTGATGCCA
Found at i:45158863 original size:37 final size:37
Alignment explanation
Indices: 45158822--45158909 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 37
45158812 AATGTCATGT
*
45158822 CCCAAACATGGTCTTACAT-TGGATCACAATGCCATAG
1 CCCAAACATGGTCTTACATAT-CATCACAATGCCATAG
** * * *
45158859 CCCAATTATGGTTTTACATATCATTACGATGCCATAG
1 CCCAAACATGGTCTTACATATCATCACAATGCCATAG
45158896 -CCAAACTATGGTCT
1 CCCAAAC-ATGGTCT
45158910 AACACGGTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
36 4 0.10
37 35 0.88
38 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (37 bp):
CCCAAACATGGTCTTACATATCATCACAATGCCATAG
Found at i:45158922 original size:37 final size:37
Alignment explanation
Indices: 45158850--45158983 Score: 164
Period size: 37 Copynumber: 3.6 Consensus size: 37
45158840 TTGGATCACA
* * * * *
45158850 ATGCCATAGCCCAATTATGGTTTTACA-TATCATTACG
1 ATGCCATAGCCAAACTATGGTCTAACAGGAT-ATTACG
45158887 ATGCCATAGCCAAACTATGGTCTAACACGG-TATTACG
1 ATGCCATAGCCAAACTATGGTCTAACA-GGATATTACG
*
45158924 ATGCCATAGCCTAACTATGGTCTAACAGGATATTACG
1 ATGCCATAGCCAAACTATGGTCTAACAGGATATTACG
* *
45158961 ATGCCATAGCCCAGCTATGGTCT
1 ATGCCATAGCCAAACTATGGTCT
45158984 TATACGTACT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
36 2 0.02
37 83 0.97
38 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (37 bp):
ATGCCATAGCCAAACTATGGTCTAACAGGATATTACG
Found at i:45159903 original size:27 final size:27
Alignment explanation
Indices: 45159872--45160013 Score: 196
Period size: 27 Copynumber: 5.3 Consensus size: 27
45159862 TAGTTTACCA
*
45159872 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45159899 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45159926 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45159953 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45159980 AATTACC-AAGATACCCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
45160007 AATTACC
1 AATTACC
45160014 ATTTTGCCCC
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
26 2 0.02
27 102 0.98
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:45160151 original size:11 final size:11
Alignment explanation
Indices: 45160135--45160177 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
45160125 ACAGGATAGG
45160135 ACATGATATGC
1 ACATGATATGC
45160146 ACATGATATG-
1 ACATGATATGC
**
45160156 TTATGATATGC
1 ACATGATATGC
45160167 ACATGATATGC
1 ACATGATATGC
45160178 TATGATATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:45160161 original size:21 final size:21
Alignment explanation
Indices: 45160137--45160185 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
45160127 AGGATAGGAC
*
45160137 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
45160158 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
45160179 ATGATAT
1 ATGATAT
45160186 ACTCACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:45160340 original size:24 final size:25
Alignment explanation
Indices: 45160233--45160327 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
45160223 AGGAAGTGCT
45160233 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
45160258 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
45160283 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
45160308 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
45160328 ATTGAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:45169932 original size:114 final size:114
Alignment explanation
Indices: 45169732--45169948 Score: 398
Period size: 114 Copynumber: 1.9 Consensus size: 114
45169722 CTGATTGAAA
*
45169732 CTTATATATGTTTAATTATGCTTCTTTAAATTGAGAATGATTGGTAAGTTGTACTTATTAGACAT
1 CTTATATATGTTTAATTATGCTTCTTGAAATTGAGAATGATTGGTAAGTTGTACTTATTAGACAT
*
45169797 ATGAGCTTGCTAAGCATAATAGCTTACTCTATTTACTTATGTTTAATAG
66 ATGAGCTTACTAAGCATAATAGCTTACTCTATTTACTTATGTTTAATAG
*
45169846 CTTATTTATGTTTAATTATGCTTCTTGAAATTGAGAATGATTGGTAAGTTGTACTTATTAGACAT
1 CTTATATATGTTTAATTATGCTTCTTGAAATTGAGAATGATTGGTAAGTTGTACTTATTAGACAT
*
45169911 ATGAGCTTACTAAGCTTAATAGCTTACTCTATTTACTT
66 ATGAGCTTACTAAGCATAATAGCTTACTCTATTTACTT
45169949 TTCCATGTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (114 bp):
CTTATATATGTTTAATTATGCTTCTTGAAATTGAGAATGATTGGTAAGTTGTACTTATTAGACAT
ATGAGCTTACTAAGCATAATAGCTTACTCTATTTACTTATGTTTAATAG
Found at i:45169971 original size:8 final size:8
Alignment explanation
Indices: 45169958--45169982 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45169948 TTTCCATGTT
45169958 TTAATAGC
1 TTAATAGC
45169966 TTAATAGC
1 TTAATAGC
45169974 TTAATAGC
1 TTAATAGC
45169982 T
1 T
45169983 AAACCCTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TTAATAGC
Found at i:45176540 original size:40 final size:40
Alignment explanation
Indices: 45176458--45176678 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
45176448 TATTCGGATG
* * *
45176458 ATATCCGGGCTAAGTCCCAAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
45176497 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
45176537 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
* ** *
45176577 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * * *
45176617 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
* *
45176657 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
45176679 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 41 0.26
40 114 0.71
41 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:45176598 original size:80 final size:79
Alignment explanation
Indices: 45176458--45176678 Score: 302
Period size: 80 Copynumber: 2.8 Consensus size: 79
45176448 TATTCGGATG
* * * * *
45176458 ATATCCGGGCTAAGTCCCAAAGGCATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCTGGGCTAAGTCCCGAAGGCA
*
45176522 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
*
45176537 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGGCA
*
45176602 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
45176617 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCT-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGG
45176679 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 38 0.30
80 88 0.69
81 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:45193469 original size:43 final size:44
Alignment explanation
Indices: 45193420--45193586 Score: 216
Period size: 43 Copynumber: 3.9 Consensus size: 44
45193410 GATTATTAAG
*
45193420 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
45193464 -TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
45193506 ATATGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
45193549 ATGTGATAACATGTAAGACCATATCTGTGACA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
45193587 TGTAGAGCTA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 7 0.07
43 100 0.93
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:45193888 original size:19 final size:20
Alignment explanation
Indices: 45193853--45193898 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
45193843 AGTAAAATGA
45193853 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
45193873 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
45193892 TTTCTGG
1 TTTCTGG
45193899 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:45196663 original size:12 final size:12
Alignment explanation
Indices: 45196648--45196679 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45196638 ACCCAAGGAG
45196648 AAGAGGAAGGGA
1 AAGAGGAAGGGA
45196660 AAGAGGAAGGGA
1 AAGAGGAAGGGA
*
45196672 AAGGGGAA
1 AAGAGGAA
45196680 AGGGGAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (12 bp):
AAGAGGAAGGGA
Found at i:45198071 original size:43 final size:43
Alignment explanation
Indices: 45198023--45198185 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
45198013 ATTACCGAGA
* * *
45198023 TGTGATTTCATGGAAGACCATTTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
45198066 TGTGATTACATGTAAGACTATGTCTGGGACATTGGAATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
45198109 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGAAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
45198152 TGTGATTACGTGTAAGACCATGTCTGCGACATTG
1 TGTGATTACATGTAAGACCATGTCTGGGACATTG
45198186 TCATCATTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:45198201 original size:43 final size:41
Alignment explanation
Indices: 45198022--45198212 Score: 163
Period size: 43 Copynumber: 4.5 Consensus size: 41
45198012 GATTACCGAG
* * *
45198022 ATGTGATTTCATGGAAGACCATTTCTGGGACATTGGCAT-TGT
1 ATGTGATTACATGTAAGACCATGTCT-GGACATTGGCATAT-T
* *
45198064 ATTGTGATTACATGTAAGACTATGTCTGGGACATTGGAAT-TGT
1 A-TGTGATTACATGTAAGACCATGTCT-GGACATTGGCATAT-T
*
45198107 ATTGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT-TGA
1 A-TGTGATTACATGTAAGACCATGTCT-GGACATTGGCATAT-T
* *
45198150 ATTGTGATTACGTGTAAGACCATGTCTGCGACATTGTCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTG-GACATTGGCAT-ATT
* * *
45198194 ATATGATTTCGTGTAAGAC
1 ATGTGATTACATGTAAGAC
45198213 TCTTTCTGGG
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.02
43 127 0.97
44 1 0.01
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (41 bp):
ATGTGATTACATGTAAGACCATGTCTGGACATTGGCATATT
Found at i:45199719 original size:27 final size:28
Alignment explanation
Indices: 45199689--45199758 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45199679 ATAATAAGTC
*
45199689 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
45199716 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
45199744 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45199759 GTACAAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45200541 original size:58 final size:58
Alignment explanation
Indices: 45200470--45200585 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
45200460 TTCACATTCG
45200470 GCAACTACACATACACAAGCCAATTTTTCTTCCTATCATCAAATTTAACACGAATCAC
1 GCAACTACACATACACAAGCCAATTTTTCTTCCTATCATCAAATTTAACACGAATCAC
45200528 GCAACTACACATACACAAGCCAATTTTTCTTCCTATCATCAAATTTAACACGAATCAC
1 GCAACTACACATACACAAGCCAATTTTTCTTCCTATCATCAAATTTAACACGAATCAC
45200586 AAACTTAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.28
Consensus pattern (58 bp):
GCAACTACACATACACAAGCCAATTTTTCTTCCTATCATCAAATTTAACACGAATCAC
Found at i:45209157 original size:43 final size:44
Alignment explanation
Indices: 45209108--45209306 Score: 226
Period size: 43 Copynumber: 4.6 Consensus size: 44
45209098 TGTTACCAAG
* *
45209108 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
45209152 -TGTGATTACATGTAATACCATGTTTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
45209195 -TGTGATTACGTGTAAGACCATGTCTGGGGCATTGACATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
45209237 ATATGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
45209280 ATGTGATAAAATGTAAGACCATATCTG
1 ATGTGATTACATGTAAGACCATGTCTG
45209307 AGATATGGCA
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 132 0.99
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:45211145 original size:8 final size:8
Alignment explanation
Indices: 45211132--45211161 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45211122 CTAGATCGGT
45211132 AAAAGCCA
1 AAAAGCCA
45211140 AAAAGCCA
1 AAAAGCCA
*
45211148 AAATGCCA
1 AAAAGCCA
45211156 AAAAGC
1 AAAAGC
45211162 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAGCCA
Found at i:45211566 original size:27 final size:26
Alignment explanation
Indices: 45211522--45211607 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
45211512 GGAGGAAGTA
* *
45211522 TTCTGGTGGCTTTACCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
45211549 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * *
45211575 TTTCTGGTGACTCTGTCACAATATTTG
1 -TTCTGGTGGCTCTGCCACAATATCTG
45211602 TTCTGG
1 TTCTGG
45211608 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:45217037 original size:25 final size:25
Alignment explanation
Indices: 45217003--45217093 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
45216993 CATTTTCCTT
*
45217003 GCTCGTGTGAGTATACTGATTTACA
1 GCTCGTGTGAGCATACTGATTTACA
45217028 GCTCGTGTGAGCAT-CTCGATTTACA
1 GCTCGTGTGAGCATACT-GATTTACA
* * *
45217053 GCTTGTGAGAGCATACCGATTTACA
1 GCTCGTGTGAGCATACTGATTTACA
* *
45217078 ACTCGTGTGAGAATAC
1 GCTCGTGTGAGCATAC
45217094 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.04
25 53 0.95
26 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
GCTCGTGTGAGCATACTGATTTACA
Found at i:45217768 original size:20 final size:20
Alignment explanation
Indices: 45217735--45217778 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
45217725 TAAAGATAGT
* *
45217735 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAATAATA
45217755 AAATGCAAAT-GAAAATAATA
1 AAATGC-AATGGAAAATAATA
45217775 AAAT
1 AAAT
45217779 TTGAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGCAATGGAAAATAATA
Found at i:45218203 original size:20 final size:20
Alignment explanation
Indices: 45218170--45218208 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45218160 GATATATGGT
45218170 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
45218190 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
45218209 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:45222013 original size:28 final size:28
Alignment explanation
Indices: 45221981--45222049 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
45221971 GCGTAGATCA
45221981 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
45222009 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
45222037 CGATA-TACCCCTA
1 CGAAATTACCCCTA
45222050 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:45226298 original size:28 final size:28
Alignment explanation
Indices: 45226266--45226334 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
45226256 GCGTAGATCA
45226266 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
45226294 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
45226322 CGATA-TACCCCTA
1 CGAAATTACCCCTA
45226335 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:45231266 original size:47 final size:47
Alignment explanation
Indices: 45231157--45231267 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
45231147 CCGGGATAAG
*
45231157 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
45231204 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
45231251 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
45231268 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:45232039 original size:4 final size:4
Alignment explanation
Indices: 45232030--45232058 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45232020 CCCTTTTCTA
45232030 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
45232059 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:45236588 original size:27 final size:28
Alignment explanation
Indices: 45236558--45236620 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
45236548 TTTAAAACCC
45236558 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
*
45236585 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
45236612 TA-GGGTAAT
1 TAGGGGTAAT
45236621 TTCGTGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATATCGGTAATTTTGCTCTT
Found at i:45236621 original size:27 final size:27
Alignment explanation
Indices: 45236568--45236624 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
45236558 TAGGGGTATA
45236568 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
45236595 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
45236622 TCG
1 TCG
45236625 TGATCTACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (27 bp):
TCGGTAATTTTGCTCTTTAGGGTAATT
Found at i:45238272 original size:20 final size:20
Alignment explanation
Indices: 45238249--45238286 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45238239 CACATCCAAA
*
45238249 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
45238269 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
45238287 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:45244581 original size:28 final size:28
Alignment explanation
Indices: 45244535--45244603 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
45244525 TTTAAAACCC
*
45244535 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
45244562 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
45244590 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
45244604 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:45246251 original size:20 final size:20
Alignment explanation
Indices: 45246228--45246265 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45246218 CACATCCAAA
*
45246228 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
45246248 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
45246266 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:45247489 original size:37 final size:38
Alignment explanation
Indices: 45247439--45247512 Score: 123
Period size: 37 Copynumber: 1.9 Consensus size: 38
45247429 ATAAATATGT
45247439 ATGTATGATATGCACATGACATGTATGATATGCACATAC
1 ATGTATGA-ATGCACATGACATGTATGATATGCACATAC
*
45247478 ATGTATG-ATGCACATGATATGTATGATATGCACAT
1 ATGTATGAATGCACATGACATGTATGATATGCACAT
45247513 GAGATGTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 27 0.79
39 7 0.21
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (38 bp):
ATGTATGAATGCACATGACATGTATGATATGCACATAC
Found at i:45247529 original size:20 final size:20
Alignment explanation
Indices: 45247439--45247519 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
45247429 ATAAATATGT
45247439 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
45247459 ATGTATGATATGCACAT-AC
1 ATGTATGATATGCACATGAC
*
45247478 ATGTATG--ATGCACATGAT
1 ATGTATGATATGCACATGAC
*
45247496 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
45247516 ATGT
1 ATGT
45247520 TCATAATGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.14
18 8 0.14
19 9 0.16
20 31 0.55
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:45247642 original size:24 final size:24
Alignment explanation
Indices: 45247564--45247680 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 24
45247554 GAGGAAGTGC
*
45247564 AAAAGGGCTTATGCCCCA-TTATC
1 AAAAGGGCTTATGCCCCAGTTATT
45247587 AAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
45247609 AAAAGGGCTTATGCTCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45247633 GAAAGGGCTT-TCGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
45247657 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45247681 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.21
23 24 0.30
24 29 0.36
25 11 0.14
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45247679 original size:49 final size:46
Alignment explanation
Indices: 45247564--45247680 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 46
45247554 GAGGAAGTGC
* * **
45247564 AAAAGGGCTTATGCCCCA-TTATCAAAAGGGCTTATGCCCAGTTAT
1 AAAAGGGCTTAGGCTCCAGTTATTGAAAGGGCTTATGCCCAGTTAT
*
45247609 AAAAGGGCTTATGCTCCAGTTATTGAAAGGGCTT-TCGCCCCAGTTATT
1 AAAAGGGCTTAGGCTCCAGTTATTGAAAGGGCTTAT-G-CCCAGTTA-T
45247657 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGG-CTCCAGTTAT
45247681 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
45 18 0.29
46 14 0.23
47 8 0.13
48 9 0.15
49 13 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTAGGCTCCAGTTATTGAAAGGGCTTATGCCCAGTTAT
Found at i:45247898 original size:26 final size:29
Alignment explanation
Indices: 45247869--45247926 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
45247859 CCGTTACAGT
45247869 AAAGGCTTCGG-CC-A-TATGAAATATGA
1 AAAGGCTTCGGCCCAATTATGAAATATGA
45247895 AAAGGCTTCGGCCCAGATTATGAAATATGA
1 AAAGGCTTCGGCCCA-ATTATGAAATATGA
45247925 AA
1 AA
45247927 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.39
27 2 0.07
29 1 0.04
30 14 0.50
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAATTATGAAATATGA
Found at i:45254113 original size:25 final size:25
Alignment explanation
Indices: 45254085--45254132 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45254075 TTATACCATG
* * *
45254085 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45254110 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45254133 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45254201 original size:20 final size:20
Alignment explanation
Indices: 45254176--45254259 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
45254166 TAAATATGGT
45254176 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
45254196 ATGTATGATGTGCACATGAC
1 ATGTATGATATGCACATGAC
* *
45254216 ATGTATGATATGAACATGAT
1 ATGTATGATATGCACATGAC
*
45254236 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
45254256 ATGT
1 ATGT
45254260 TCATAAATGC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:45254336 original size:23 final size:23
Alignment explanation
Indices: 45254306--45254472 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
45254296 AGGAAGTGCA
45254306 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
45254329 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45254352 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
45254376 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
45254400 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
45254423 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45254446 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
45254470 AAA
1 AAA
45254473 AGAGGCTAGG
Statistics
Matches: 138, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
23 70 0.51
24 68 0.49
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:45254384 original size:24 final size:24
Alignment explanation
Indices: 45254304--45254493 Score: 271
Period size: 24 Copynumber: 8.0 Consensus size: 24
45254294 GGAGGAAGTG
45254304 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
45254328 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
45254351 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
45254374 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
45254398 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
45254422 C-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
** *
45254445 TGAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
45254469 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
45254494 ATGATAAAGC
Statistics
Matches: 155, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 67 0.43
24 77 0.50
25 11 0.07
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:45254427 original size:71 final size:70
Alignment explanation
Indices: 45254304--45254493 Score: 283
Period size: 71 Copynumber: 2.7 Consensus size: 70
45254294 GGAGGAAGTG
* *
45254304 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCA
45254369 GTTAT
66 GTTAT
45254374 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCC
45254439 AGTTAT
65 AGTTAT
** * *
45254445 TGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
45254494 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
70 24 0.22
71 74 0.67
72 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCA
GTTAT
Found at i:45254719 original size:30 final size:31
Alignment explanation
Indices: 45254685--45254747 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
45254675 CGTTTACAGT
45254685 AAAGGCTTCGGCCCAG-AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
45254715 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45254746 AA
1 AA
45254748 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45257474 original size:40 final size:40
Alignment explanation
Indices: 45257348--45257499 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
45257338 CATTTGAATG
* * * * *
45257348 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
45257388 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
**
45257428 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* ** *
45257468 AAATCCGGATTAAGACCCGAAGGCAATGGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
45257500 TTGTGGTTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:45262627 original size:25 final size:25
Alignment explanation
Indices: 45262535--45262639 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
45262525 GAGCTGCCCA
45262535 TTAT-TGGCTCACATGAGCTTCCTG
1 TTATATGGCTCACATGAGCTTCCTG
* * * *
45262559 -AATACGGCTCTCATGATCTTCCTG
1 TTATATGGCTCACATGAGCTTCCTG
*** * * *
45262583 TTATACAACTTGA-ATAAGCTTCCCG
1 TTATATGGC-TCACATGAGCTTCCTG
*
45262608 TTATATGGCTCACATGAGCTTCCTA
1 TTATATGGCTCACATGAGCTTCCTG
45262633 TTATATG
1 TTATATG
45262640 CTCGAGAGAG
Statistics
Matches: 58, Mismatches: 19, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
23 2 0.03
24 19 0.33
25 36 0.62
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (25 bp):
TTATATGGCTCACATGAGCTTCCTG
Found at i:45264861 original size:19 final size:19
Alignment explanation
Indices: 45264837--45264875 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45264827 CTAAAAGAAG
45264837 TTCCAGAAATATTTCAATC
1 TTCCAGAAATATTTCAATC
45264856 TTCCAGAAATATTTCAATC
1 TTCCAGAAATATTTCAATC
45264875 T
1 T
45264876 CTAACTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (19 bp):
TTCCAGAAATATTTCAATC
Found at i:45267462 original size:40 final size:40
Alignment explanation
Indices: 45267373--45267448 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
45267363 CATTCTCAAT
* *
45267373 ATTTAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCAC
1 ATTTAGCCGAAGCTATCTCAAACCACACACCAAGTGCCAC
* *
45267413 ATTTAGCCGAAGCTATTTCAAACCACACACTAAGTG
1 ATTTAGCCGAAGCTATCTCAAACCACACACCAAGTG
45267449 TCATTCTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.22
Consensus pattern (40 bp):
ATTTAGCCGAAGCTATCTCAAACCACACACCAAGTGCCAC
Found at i:45269589 original size:51 final size:52
Alignment explanation
Indices: 45269511--45269645 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
45269501 ACGGATACCC
* * *
45269511 AGTGGCCTGCATATAGTACCACCCTTGTAGTCAAAACTA-CCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGTCAAAACTATCCTTCTTCACAA
* *
45269562 AGTGGCCTTCACATAGTACCACACTTGT-GACCAAAACTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-TCAAAACTATCCTTCTTCACAA
* *
45269614 AGTTGCCTTCACATAGTACCACACATG-AGTCA
1 AGTGGCCTTCACATAGTACCACACTTGTAGTCA
45269646 CTAGTGACAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.01
51 35 0.48
52 37 0.51
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (52 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGTCAAAACTATCCTTCTTCACAA
Found at i:45276186 original size:3 final size:3
Alignment explanation
Indices: 45276180--45276239 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
45276170 ATTTAAGGAA
* * *
45276180 AAT AAT ATAT AAT AAGT AAT AAT AAT ATAT AATT AAA AAT AAT ACT CAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
45276229 AAT AA- AAT AAT
1 AAT AAT AAT AAT
45276240 TTTATAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 32 0.70
4 12 0.26
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45276211 original size:10 final size:10
Alignment explanation
Indices: 45276180--45276212 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45276170 ATTTAAGGAA
45276180 AATAATATAT
1 AATAATATAT
45276190 AATAAGTA-AT
1 AATAA-TATAT
45276200 AATAATATAT
1 AATAATATAT
45276210 AAT
1 AAT
45276213 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:45276211 original size:17 final size:18
Alignment explanation
Indices: 45276180--45276223 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
45276170 ATTTAAGGAA
45276180 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
45276197 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
45276214 AAAAATAATA
1 AATAATAATA
45276224 CTCATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:45276219 original size:37 final size:42
Alignment explanation
Indices: 45276178--45276260 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
45276168 TAATTTAAGG
*
45276178 AAAATAATA-T-ATAAT-AAGTAA-TAATAATATATAAT-TA
1 AAAATAATACTCATAATAAAATAATTAATAATATATAATATA
*
45276215 AAAATAATACTCATAATAAAATAATTTTATAATATATAATATA
1 AAAATAATACTCATAATAAAATAA-TTAATAATATATAATATA
45276258 AAA
1 AAA
45276261 GCAAAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
37 9 0.24
38 1 0.03
39 5 0.13
40 5 0.13
42 13 0.34
43 5 0.13
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (42 bp):
AAAATAATACTCATAATAAAATAATTAATAATATATAATATA
Found at i:45276220 original size:20 final size:20
Alignment explanation
Indices: 45276138--45276223 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
45276128 ATGTGAAAAT
45276138 ATAATAATATATAA-AAGAGA
1 ATAATAATATATAATAAGA-A
* *
45276158 TGTAA-AATA-ATAATTTAAGGA
1 -ATAATAATATATAA--TAAGAA
*
45276179 A-AATAATATATAATAAGTA
1 ATAATAATATATAATAAGAA
45276198 ATAATAATATATAATTAA-AA
1 ATAATAATATATAA-TAAGAA
45276218 ATAATA
1 ATAATA
45276224 CTCATAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
19 12 0.23
20 27 0.51
21 11 0.21
22 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAATAATATATAATAAGAA
Found at i:45276305 original size:21 final size:19
Alignment explanation
Indices: 45276282--45276318 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45276272 ATAAACAAAT
*
45276282 AATAATAT-ATATATATAG
1 AATAATATAATAAATATAG
45276300 AATAATATAATAAATATAG
1 AATAATATAATAAATATAG
45276319 GACTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAATATAATAAATATAG
Found at i:45287911 original size:26 final size:26
Alignment explanation
Indices: 45287875--45287983 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
45287865 TGATACAAAT
45287875 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
45287901 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
45287927 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
45287952 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
45287978 TGATAA
1 TGATAA
45287984 GAATTTCATG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:45287948 original size:51 final size:52
Alignment explanation
Indices: 45287875--45287983 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
45287865 TGATACAAAT
45287875 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
* * *
45287927 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
45287978 TGATAA
1 TGATAA
45287984 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 47 0.87
52 7 0.13
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:45289639 original size:27 final size:26
Alignment explanation
Indices: 45289598--45289757 Score: 195
Period size: 26 Copynumber: 6.2 Consensus size: 26
45289588 GAGGAAGCGT
*
45289598 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
*
45289625 TCTGGTGGCTCTGCCACAATATCTGA
1 TCTGGTGGCTCTGCCACATTATCTGA
45289651 TCTGGTGGCTCTG-CACA-TATCTGA
1 TCTGGTGGCTCTGCCACATTATCTGA
*
45289675 TCT-GTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
45289701 TCTGGT-G-TCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTG-A
* * *
45289727 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
45289753 TCTGG
1 TCTGG
45289758 CAGCCATGCT
Statistics
Matches: 118, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
23 9 0.08
24 14 0.12
25 18 0.15
26 44 0.37
27 26 0.22
28 7 0.06
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:45289730 original size:76 final size:78
Alignment explanation
Indices: 45289602--45289756 Score: 203
Period size: 76 Copynumber: 2.0 Consensus size: 78
45289592 AAGCGTTCTG
*
45289602 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGATCTGGTGGCTCTG-CA
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGATCTGGTGACTCTGTCA
45289666 CA-TATCTGATCT
66 CATTATCTGATCT
* * *
45289678 GTGGCTCTGCCAC-ATATATCTGTTCTGGT-G-TCTGCCACGATTATCTGTATCTGGTGACTCTG
1 GTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCAC-AATATCTG-ATCTGGTGACTCTG
*
45289740 TCACATTATCTGTTCT
63 TCACATTATCTGATCT
45289756 G
1 G
45289757 GCAGCCATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
74 8 0.12
75 10 0.14
76 37 0.54
77 4 0.06
78 10 0.14
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (78 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGATCTGGTGACTCTGTCA
CATTATCTGATCT
Found at i:45295044 original size:26 final size:26
Alignment explanation
Indices: 45295007--45295090 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
45294997 TGATACAAAT
* *
45295007 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45295033 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45295059 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45295085 TGATAA
1 TGATAA
45295091 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:45296572 original size:28 final size:26
Alignment explanation
Indices: 45296530--45296604 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
45296520 AAAAGTAGCT
* *
45296530 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
45296558 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
45296584 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
45296605 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:45296748 original size:27 final size:27
Alignment explanation
Indices: 45296707--45296870 Score: 203
Period size: 27 Copynumber: 6.2 Consensus size: 27
45296697 GAGGAAGCGT
*
45296707 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
45296734 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
45296761 TCTGGTGGC-CTG-CACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
45296786 TCTGGTGGCTCTGCCAC-ATATATCTGT
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
*
45296813 TCTGGTGGC-CTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTG-A
* * *
45296840 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGA
45296866 TCTGG
1 TCTGG
45296871 CAGCCATGCT
Statistics
Matches: 123, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
25 22 0.18
26 25 0.20
27 70 0.57
28 6 0.05
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:45296787 original size:52 final size:53
Alignment explanation
Indices: 45296705--45296870 Score: 228
Period size: 52 Copynumber: 3.1 Consensus size: 53
45296695 TGGAGGAAGC
*
45296705 GTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGC-CTGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCT
* * *
45296759 GATCTGGTGGCCTG-CACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCCTGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCT
* * * *
45296811 GTTCTGGTGGCCTGCCACGATTATCTGTATCTGGTGACTCTGTCAC-ATTATCT
1 GTTCTGGTGGCCTGCCACAATTATCTG-ATCTGGTGGCTCTGCCACAAATATCT
45296864 GTTCTGG
1 GTTCTGG
45296871 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
52 49 0.49
53 24 0.24
54 26 0.26
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (53 bp):
GTTCTGGTGGCCTGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCT
Found at i:45298084 original size:49 final size:49
Alignment explanation
Indices: 45297966--45298069 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
45297956 CTCGTATGGC
* *
45297966 CCACAC-GACCCAAGAAGCCCAACTTATGTGGCCCACACACCTGTGTAGT
1 CCACACAG-CCCAAGAAGCCCAACCTATGTGGCCCACACACCCGTGTAGT
* *
45298015 CCATACAGCCCAAGAAGCCCAACCTATGTGGCCCACACACCCGTGTGGT
1 CCACACAGCCCAAGAAGCCCAACCTATGTGGCCCACACACCCGTGTAGT
45298064 CCACAC
1 CCACAC
45298070 GGCCTAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 48 0.98
50 1 0.02
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.14
Consensus pattern (49 bp):
CCACACAGCCCAAGAAGCCCAACCTATGTGGCCCACACACCCGTGTAGT
Found at i:45301726 original size:40 final size:40
Alignment explanation
Indices: 45301598--45301728 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
45301588 TATGCTGGAA
* * * *
45301598 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
45301638 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
45301678 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
45301718 ATTATATCCGG
1 ATTATATCCGG
45301729 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:45306080 original size:8 final size:8
Alignment explanation
Indices: 45306067--45306101 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
45306057 TTATTTGCAA
45306067 TTTGTAAT
1 TTTGTAAT
45306075 TTTGTAAT
1 TTTGTAAT
45306083 TTTGTAAT
1 TTTGTAAT
45306091 TTTGTAAT
1 TTTGTAAT
45306099 TTT
1 TTT
45306102 CTTTTCAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (8 bp):
TTTGTAAT
Found at i:45323456 original size:13 final size:14
Alignment explanation
Indices: 45323430--45323462 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45323420 ATAAAATAGA
45323430 AATTTATATTTAAT
1 AATTTATATTTAAT
45323444 AATTTAT-TTTAAT
1 AATTTATATTTAAT
45323457 ATATTT
1 A-ATTT
45323463 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:45326593 original size:40 final size:40
Alignment explanation
Indices: 45326528--45326622 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
45326518 CTATCTTTGT
* * * *
45326528 CCAACCCAACACACC-A-TGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* *
45326566 CCAGCCCTACACACCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
45326606 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
45326623 AAGGTACTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.27
39 1 0.02
40 34 0.71
ACGTcount: A:0.37, C:0.38, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Found at i:45329754 original size:23 final size:23
Alignment explanation
Indices: 45329724--45329771 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45329714 TTGCAAACTG
* *
45329724 TTAAAGCCTTCATTGTTCTATAC
1 TTAAAGCCTTCATCGTCCTATAC
45329747 TTAAAGCCTTCATCGTCCTATAC
1 TTAAAGCCTTCATCGTCCTATAC
45329770 TT
1 TT
45329772 GCAAATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (23 bp):
TTAAAGCCTTCATCGTCCTATAC
Found at i:45331036 original size:13 final size:13
Alignment explanation
Indices: 45331014--45331048 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45331004 GTATAATTAA
*
45331014 AAAGTCAATATTT
1 AAAGTTAATATTT
45331027 AAAGTTAATATTT
1 AAAGTTAATATTT
*
45331040 AAAGATAAT
1 AAAGTTAAT
45331049 CATAACTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (13 bp):
AAAGTTAATATTT
Found at i:45337232 original size:15 final size:15
Alignment explanation
Indices: 45337198--45337257 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
45337188 GTGTTGTAAA
*
45337198 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
45337213 TTGGATTTCTTTAT-
1 TTGGATTTCTTTATC
* **
45337227 TCTGGACTTCTTCGTC
1 T-TGGATTTCTTTATC
* *
45337243 TCGGATTTCTCTATC
1 TTGGATTTCTTTATC
45337258 ATGGGTTTTC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.52
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:45337926 original size:14 final size:15
Alignment explanation
Indices: 45337907--45337936 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45337897 AAAGTTCATG
45337907 TGGATT-TTCTTGTC
1 TGGATTATTCTTGTC
45337921 TGGATTATTCTTGTC
1 TGGATTATTCTTGTC
45337936 T
1 T
45337937 TTGAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.10, C:0.13, G:0.20, T:0.57
Consensus pattern (15 bp):
TGGATTATTCTTGTC
Found at i:45340571 original size:12 final size:12
Alignment explanation
Indices: 45340554--45340592 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
45340544 TAGGCTCATT
45340554 AATATTTAATTC
1 AATATTTAATTC
45340566 AATATTTAATTC
1 AATATTTAATTC
* *
45340578 AGTCTTTAATTC
1 AATATTTAATTC
45340590 AAT
1 AAT
45340593 TTCCACAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (12 bp):
AATATTTAATTC
Found at i:45362029 original size:2 final size:2
Alignment explanation
Indices: 45362022--45362054 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45362012 TTTGGCCACA
45362022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45362055 CACATCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45362169 original size:25 final size:25
Alignment explanation
Indices: 45362140--45362264 Score: 85
Period size: 23 Copynumber: 5.2 Consensus size: 25
45362130 ATTCTACCTT
45362140 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
45362165 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
45362187 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
45362212 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
45362234 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
45362259 ATCACA
1 ATCACA
45362265 TTGGCCATTC
Statistics
Matches: 76, Mismatches: 6, Indels: 36
0.64 0.05 0.31
Matches are distributed among these distances:
22 13 0.17
23 22 0.29
24 22 0.29
25 19 0.25
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:45362169 original size:47 final size:47
Alignment explanation
Indices: 45362118--45362684 Score: 954
Period size: 47 Copynumber: 12.1 Consensus size: 47
45362108 TTCCACGTTT
* **
45362118 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
45362165 ATCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
45362212 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * *
45362259 ATCACATTGGCCATTCGGCATTATCAGATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
45362306 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * *
45362353 TTCACATTGGCCATTCGTCCTTATCATACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
45362400 ATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
45362447 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
45362494 ATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
45362541 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
45362588 ATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * **
45362635 ATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
45362682 ATC
1 ATC
45362685 TCATAAAATC
Statistics
Matches: 490, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 490 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:45362190 original size:22 final size:22
Alignment explanation
Indices: 45362165--45362239 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
45362155 GTTCACATTC
45362165 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
*
45362187 ATCACACATAT-G-CATGTTCA-CATT
1 AT--CACAT-TGGCCA--TTCAGCCTT
*
45362211 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
45362234 ATCACA
1 ATCACA
45362240 CATATGCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 12 0.29
23 11 0.27
24 11 0.27
25 7 0.17
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:45362567 original size:22 final size:22
Alignment explanation
Indices: 45362447--45362568 Score: 56
Period size: 22 Copynumber: 5.3 Consensus size: 22
45362437 GTTCACATTC
45362447 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
45362469 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
45362493 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
45362516 AGCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
45362540 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45362563 ATCACA
1 ATCACA
45362569 CATATGCATG
Statistics
Matches: 72, Mismatches: 12, Indels: 32
0.62 0.10 0.28
Matches are distributed among these distances:
22 21 0.29
23 18 0.25
24 18 0.25
25 15 0.21
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45376908 original size:5 final size:5
Alignment explanation
Indices: 45376879--45376936 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
45376869 CCTCCTATCT
45376879 TTTTA TTCTTA -TTT- TTTTA -TTTA TTTTA TTTTA TTTTTA TTTTCA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A
*
45376924 TTTCAA TTTTA TT
1 TTT-TA TTTTA TT
45376937 ATTTTAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
4 9 0.20
5 19 0.43
6 16 0.36
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:45376918 original size:6 final size:6
Alignment explanation
Indices: 45376878--45376926 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
45376868 TCCTCCTATC
* *
45376878 TTTTTA TTCTTA TTTTT- TTATTTA -TTTTA -TTTTA TTTTTA TTTTCA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA
45376924 TTT
1 TTT
45376927 CAATTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 11 0.30
6 26 0.70
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:45379872 original size:13 final size:13
Alignment explanation
Indices: 45379856--45379888 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45379846 TTTAATTAAA
*
45379856 TTAGTTAATTAGT
1 TTAGATAATTAGT
45379869 TTAGATAATTAGT
1 TTAGATAATTAGT
45379882 TTA-ATAA
1 TTAGATAA
45379889 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:45388913 original size:61 final size:61
Alignment explanation
Indices: 45388840--45388966 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 61
45388830 TGCTTCAAAT
* * *
45388840 CGTGTTAGAGTCTATTGAATA-GAAACGGCCGTGTGGTCTACCCGTGTAAGGAAGTCTAGGC
1 CGTGTTAGAGTCTACT-AAAACGAAACGGCCGTGTGGTCTACCCGTGTAAGGAAGTCCAGGC
* * * ** *
45388901 CGTGTTAGAGTCTGCTAAAACTACACGGGTGTGTGGTCTACCCGTGTAAGGAAGTCCAGGT
1 CGTGTTAGAGTCTACTAAAACGAAACGGCCGTGTGGTCTACCCGTGTAAGGAAGTCCAGGC
45388962 CGTGT
1 CGTGT
45388967 CGATTTCTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 3 0.05
61 53 0.95
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (61 bp):
CGTGTTAGAGTCTACTAAAACGAAACGGCCGTGTGGTCTACCCGTGTAAGGAAGTCCAGGC
Found at i:45398176 original size:43 final size:43
Alignment explanation
Indices: 45398115--45398287 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
45398105 AGTGGCATTC
* * *
45398115 TCCCACAAACGCCGCTAAAGAACATGACCTATAGCAGCGCTTT
1 TCCCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTT
* * **
45398158 TCCCACAAACGCCACTAAAGAACATGATCTTTAGTGGCATTTT
1 TCCCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTT
* **
45398201 TCCCACAAACGCTACTAAAGAACATGACCTTTAGCGATGCTTT
1 TCCCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTT
* * * **
45398244 TACTA-AAAGCGCCACTAAAGATCATGTTCTTTAGCGGCGCTTT
1 TCCCACAAA-CGCCACTAAAGAACATGACCTTTAGCGGCGCTTT
45398287 T
1 T
45398288 TCGAAAAATG
Statistics
Matches: 107, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 3 0.03
43 104 0.97
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTT
Found at i:45398257 original size:86 final size:85
Alignment explanation
Indices: 45398103--45398277 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 85
45398093 TCAGCTAAAG
* *
45398103 TTAGTGGCATTCTCCCACAAACGCCGCTAAAGAACATGACCTATAGCAGCGCTTTTCCCACAAAC
1 TTAGTGGCATTCTCCCACAAACGCCACTAAAGAACATGACCTATAGCAGCGCTTTTACCACAAAC
45398168 GCCACTAAAGAACATGATCT
66 GCCACTAAAGAACATGATCT
* * * * *
45398188 TTAGTGGCATTTTTCCCACAAACGCTACTAAAGAACATGACCTTTAGC-GATGCTTTTACTA-AA
1 TTAGTGGCA-TTCTCCCACAAACGCCACTAAAGAACATGACCTATAGCAG-CGCTTTTACCACAA
* *
45398251 AGCGCCACTAAAGATCATGTTCT
64 A-CGCCACTAAAGAACATGATCT
45398274 TTAG
1 TTAG
45398278 CGGCGCTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 13 0.17
86 65 0.83
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (85 bp):
TTAGTGGCATTCTCCCACAAACGCCACTAAAGAACATGACCTATAGCAGCGCTTTTACCACAAAC
GCCACTAAAGAACATGATCT
Found at i:45399681 original size:3 final size:3
Alignment explanation
Indices: 45399673--45399824 Score: 154
Period size: 3 Copynumber: 51.3 Consensus size: 3
45399663 AGGATGGAAC
* * * *
45399673 AAT AAT AAT AA- AAT AA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
* * *
45399718 AAT AAT -AT ATT AAT -AT AAAT AGT AAT -AT AA- AGAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT
*
45399761 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45399809 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
45399825 GTGATGATGA
Statistics
Matches: 123, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
2 11 0.09
3 105 0.85
4 5 0.04
5 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:45399712 original size:30 final size:29
Alignment explanation
Indices: 45399652--45399813 Score: 75
Period size: 30 Copynumber: 5.4 Consensus size: 29
45399642 AATGAAGACA
**
45399652 AAAATAAAATAAGGATGGAACAATAATAAT
1 AAAATAAAATAAAAAT-GAACAATAATAAT
45399682 AAAATAAAATAAAAAT-AACAATACATTAAT
1 AAAATAAAATAAAAATGAACAATA-A-TAAT
* * * * *
45399712 AAGAGT--AATAATATATTAA-TATAAATAGT
1 AA-AATAAAATAA-AAATGAACAAT-AATAAT
* *
45399741 AATATAAAGATAATAAT-AACAATAATAAT
1 AAAATAAA-ATAAAAATGAACAATAATAAT
* * *
45399770 AATAGTAATAATAATAAT-AATAATAATAAT
1 AA-AATAA-AATAAAAATGAACAATAATAAT
45399800 AATAATAATAATAA
1 AA-AATAA-AATAA
45399814 TAATAATAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
28 8 0.08
29 20 0.19
30 66 0.63
31 10 0.10
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAATAAAATAAAAATGAACAATAATAAT
Found at i:45400016 original size:20 final size:20
Alignment explanation
Indices: 45399876--45400036 Score: 59
Period size: 20 Copynumber: 8.1 Consensus size: 20
45399866 TGCAAAAGGA
*
45399876 AATAT-ATAATGA-AGTAAT
1 AATATAATAATAATAGTAAT
45399894 AATATAA-AATTAATTAGCCTAAT
1 AATATAATAA-TAA-TAG--TAAT
* * *
45399917 AATATGATAATAATATTAGT
1 AATATAATAATAATAGTAAT
* *
45399937 AACA-ATACAATAATAGTAAT
1 AATATA-ATAATAATAGTAAT
*
45399957 AA-AGTAGA-AA-AGATAATAAT
1 AATA-TA-ATAATA-ATAGTAAT
* * * * *
45399977 AATGTATTAAAAAGAATAAT
1 AATATAATAATAATAGTAAT
45399997 AATATAATAATAATAGTAAT
1 AATATAATAATAATAGTAAT
* **
45400017 CATGGAA-AATAATAGTAAT
1 AATATAATAATAATAGTAAT
45400036 A
1 A
45400037 TTAATATTTT
Statistics
Matches: 106, Mismatches: 23, Indels: 27
0.68 0.15 0.17
Matches are distributed among these distances:
18 7 0.07
19 17 0.16
20 60 0.57
21 5 0.05
22 2 0.02
23 13 0.12
24 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.30
Consensus pattern (20 bp):
AATATAATAATAATAGTAAT
Found at i:45400823 original size:17 final size:17
Alignment explanation
Indices: 45400796--45400828 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
45400786 AGGAGGAAAA
45400796 TAAAAAAG-AAATAAAC
1 TAAAAAAGAAAATAAAC
45400812 TAAAAAATGAAAATAAA
1 TAAAAAA-GAAAATAAA
45400829 GACCTTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
TAAAAAAGAAAATAAAC
Found at i:45401039 original size:49 final size:49
Alignment explanation
Indices: 45400967--45401063 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
45400957 CATTTACAAA
45400967 GTATTTGCCCATTTGCTTGTCATTTCTGCCTTTAATTTCTTGCAGGTGG
1 GTATTTGCCCATTTGCTTGTCATTTCTGCCTTTAATTTCTTGCAGGTGG
45401016 GTATTTGCCCATTTGCTTGTCATTTCTGCCTTTAATTTCTTGCAGGTG
1 GTATTTGCCCATTTGCTTGTCATTTCTGCCTTTAATTTCTTGCAGGTG
45401064 ACGGTGCAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (49 bp):
GTATTTGCCCATTTGCTTGTCATTTCTGCCTTTAATTTCTTGCAGGTGG
Found at i:45401626 original size:44 final size:44
Alignment explanation
Indices: 45401578--45401871 Score: 186
Period size: 44 Copynumber: 6.7 Consensus size: 44
45401568 TTGTCACCTT
* * * * *
45401578 AATCTGCTCCACTGGAACTTCATGGAAATAGGATTAGTAGCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
45401622 AATCTACTCCGCTGTAACTTCAGGGAGATAAGATTAGTAG-TCTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * *
45401666 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * ** **
45401710 AGTCTACTCCACTGCAACTTTAAAGAGATAAGACTT-GTAATTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * * *
45401754 AACCTGCTCTACT---ACTGCAGAGAGATAAGGTTAGTGGCTAT-
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * ** *
45401795 AATCTGCTCCACTGCAACGTCTGGGAAATAAGATCCGCTACCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * * * *
45401840 AGTCTGCTCTATTGTAACTTCAGGGAGATAAG
1 AATCTACTCCACTGCAACTTCAGGGAGATAAG
45401872 GTTGGTGGCT
Statistics
Matches: 192, Mismatches: 48, Indels: 19
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.01
41 27 0.14
42 1 0.01
43 1 0.01
44 130 0.68
45 31 0.16
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:45401738 original size:88 final size:88
Alignment explanation
Indices: 45401578--45401742 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 88
45401568 TTGTCACCTT
* * * * *
45401578 AATCTGCTCCACTGGAACTTCATGGAAATAGGATTAGTAGCTTCAATCTACTCCGCTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTC
**
45401643 AGGGAGATAAGATTAGTAGTCTC
66 AAAGAGATAAGATTAGTAGTCTC
* * * * * *
45401666 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAGTCTACTCCACTGCAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTC
45401731 AAAGAGATAAGA
66 AAAGAGATAAGA
45401743 CTTGTAATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
88 64 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTC
AAAGAGATAAGATTAGTAGTCTC
Found at i:45402032 original size:44 final size:44
Alignment explanation
Indices: 45401966--45402541 Score: 249
Period size: 44 Copynumber: 13.0 Consensus size: 44
45401956 ACAAAATCTG
* * *
45401966 AATCATCAGTCTGCTCCTTTGCTACGTCAGGAAGATAAGACTAC
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
* * * * *
45402010 AATCTTCAGCCTGCTTCCTTGCTACCTTA-GAGAGATAAGGCTAG
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGA-AGATAAGACTAC
*** ** * * *
45402054 TGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGA-TTC
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
* * * *
45402097 ACTGCTTTCAATCTG--CCCTGCTGCTATCTC-GAGAAGACAAGATCTAC
1 AAT-C-TTCAGTCTGCTCCCT--TGCTACCTCAG-GAAGATAAGA-CTAC
* * *
45402144 AATCATCACTCTGCTCCCTTGATACCTCAGGAAGATAAGACTAC
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
* * * * *
45402188 AATCTTCAGGCTGCTCCCTTGCTACCTTAGGGAGATAAGGCTAG
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
*** ** * * * * * *
45402232 TGGCTAAAATTTGCTCCCCTACTACCTCAAGAAGATAAGATTCAC
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-AC
* * * * * * *
45402277 CA-CTTTCAATCTAC-CCCACTGCTATCTCGAGG-AGACAAGATCTAT
1 AATC-TTCAGTCTGCTCCC-TTGCTACCTC-AGGAAGATAAGA-CTAC
* * *
45402322 AATCATCAGTCTGCTCCCTTACTACCTTAGGAAGATAAGACTAC
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
* * * * *
45402366 AATCTTCAGCCTGCTCCCTTGCTACCTGAGGGAGATAAGGCTAG
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
*** ** * *
45402410 TGGCTAAAATCTGCTCCCCTT-CTACCTCAGGAAGATAAGA-TTC
1 AATCTTCAGTCTGCT-CCCTTGCTACCTCAGGAAGATAAGACTAC
** ** * * * *
45402453 GCTGCTTTTGATCCGC-CCCACTGCTATCTCAAGG-AGACAAGATCTAC
1 AAT-CTTCAG-TCTGCTCCC-TTGCTACCTC-AGGAAGATAAGA-CTAC
* * * *
45402500 AATCTTCAGTCTACTCCCTTGTTACTTTAGGAAGATAAGACT
1 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACT
45402542 TGCCATCCTC
Statistics
Matches: 377, Mismatches: 125, Indels: 60
0.67 0.22 0.11
Matches are distributed among these distances:
43 10 0.03
44 207 0.55
45 130 0.34
46 19 0.05
47 11 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTAC
Found at i:45402226 original size:178 final size:178
Alignment explanation
Indices: 45401861--45402541 Score: 965
Period size: 178 Copynumber: 3.8 Consensus size: 178
45401851 TTGTAACTTC
* * * *
45401861 AGGGAGATAAGGTTGGTGGCTAAAATCTGCTCTCCTGCTACCTC-GAGAAGATAAGATTC-GTCG
1 AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAG-GAAGATAAGATTCACT-G
* * * * *
45401924 CTTTCGATCTGCCCCACTGCTATCTCAAGGAGACAAAATCT-GAATCATCAGTCTGCTCCTTTGC
64 CTTTCAATCTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCATCAGTCTGCTCCCTTGA
* *
45401988 TACGTCAGGAAGATAAGACTACAATCTTCAGCCTGCTTCCTTGCTACCTT
129 TACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTT
*
45402038 AGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCACTGCT
1 AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCACTGCT
** * * *
45402103 TTCAATCTGCCCTGCTGCTATCTCGAGAAGACAAGATCTACAATCATCACTCTGCTCCCTTGATA
66 TTCAATCTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCATCAGTCTGCTCCCTTGATA
*
45402168 CCTCAGGAAGATAAGACTACAATCTTCAGGCTGCTCCCTTGCTACCTT
131 CCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTT
* * * **
45402216 AGGGAGATAAGGCTAGTGGCTAAAATTTGCTCCCCTACTACCTCAAGAAGATAAGATTCACCACT
1 AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCACTGCT
* * *
45402281 TTCAATCTACCCCACTGCTATCTCGAGGAGACAAGATCTATAATCATCAGTCTGCTCCCTT-ACT
66 TTCAATCTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCATCAGTCTGCTCCCTTGA-T
* *
45402345 ACCTTAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTG
130 ACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTT
* *
45402394 AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTTCTACCTCAGGAAGATAAGATTCGCTGCT
1 AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCACTGCT
** * * * *
45402459 TTTGATCCGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCTTCAGTCTACTCCCTTGTTA
66 TTCAATCTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCATCAGTCTGCTCCCTTGATA
* *
45402524 CTTTAGGAAGATAAGACT
131 CCTCAGGAAGATAAGACT
45402542 TGCCATCCTC
Statistics
Matches: 450, Mismatches: 49, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
177 90 0.20
178 360 0.80
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (178 bp):
AGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCACTGCT
TTCAATCTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCATCAGTCTGCTCCCTTGATA
CCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTT
Done.