Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 150 of 438
Found at i:45178673 original size:81 final size:81
Alignment explanation
Indices: 45178526--45178677 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
45178516 ACAAGCCAGA
* * ****
45178526 GGTATTTTGGTAATTTTACAAACCAGGAGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAGGAGTATTTCAGTAATTTTACAAACTAAGGGTAAAACGGT
45178591 AATTTTACTGATCGAG
66 AATTTTACTGATCGAG
** **
45178607 GGTATTTTGGTAATTTTGTAAACCAAGG-GTATTTCAGTAATTTTGTAAA-TCAAGGGTAAAACG
1 GGTATTTTGGTAATTTTACAAACC-AGGAGTATTTCAGTAATTTTACAAACT-AAGGGTAAAACG
45178670 GTAATTTT
64 GTAATTTT
45178678 GTAAATCGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.02
81 55 0.93
82 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAGGAGTATTTCAGTAATTTTACAAACTAAGGGTAAAACGGT
AATTTTACTGATCGAG
Found at i:45178862 original size:54 final size:54
Alignment explanation
Indices: 45178643--45178853 Score: 305
Period size: 54 Copynumber: 3.9 Consensus size: 54
45178633 GGGTATTTCA
* * *
45178643 GTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
* * * *
45178697 ATAATTCTGTAAATTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
* *
45178751 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
* * * *
45178805 GTAACTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTA
45178854 CTTTGGTAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 140 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
Found at i:45178898 original size:81 final size:81
Alignment explanation
Indices: 45178614--45178872 Score: 286
Period size: 81 Copynumber: 3.2 Consensus size: 81
45178604 GAGGGTATTT
* * ** * *
45178614 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTG
1 TGGTAATTTTATAAATCAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
45178679 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * ** * * *
45178695 CGATAATTCTGTAAATTGAGGGTAAAAT-GGTAATTTTATAAATCGAGGGTAAAACTGTAATTCT
1 TGGTAATTTTATAAATCAAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCT
45178759 GTAAATCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* * * *
45178776 TGGTAATTTTATAAATCAAGGGTAAAACGGTAACTCTGTAAATCGAGGGTAAAACGGTAATTCTG
1 TGGTAATTTTATAAATCAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
* ***
45178841 TAAATTGAGGGTACTT
66 TAAATCGAGGGTAAAA
*
45178857 TGGTAATTTTACAAAT
1 TGGTAATTTTATAAAT
45178873 TGAGGGCATT
Statistics
Matches: 147, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 3 0.02
81 142 0.97
82 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
TGGTAATTTTATAAATCAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:45181219 original size:16 final size:15
Alignment explanation
Indices: 45181192--45181225 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
45181182 ATAACTAGTA
*
45181192 TATAATTATATTTAT
1 TATAATTATATTAAT
45181207 TATAATATATATTAAT
1 TATAAT-TATATTAAT
45181223 TAT
1 TAT
45181226 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:45181960 original size:25 final size:23
Alignment explanation
Indices: 45181932--45181990 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
45181922 ATTTTTCTCC
*
45181932 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAA-TTTATTGAATTA-T
45181957 TAAATTTTCAATTTATTGAATTAT
1 TAAATTTT-AATTTATTGAATTAT
45181981 TAATATTTTA
1 TAA-ATTTTA
45181991 TACTAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 24 0.77
26 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TAAATTTTAATTTATTGAATTAT
Found at i:45182889 original size:3 final size:3
Alignment explanation
Indices: 45182881--45183015 Score: 184
Period size: 3 Copynumber: 45.7 Consensus size: 3
45182871 CAAGGATCCT
* *
45182881 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA AAA GAA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
45182928 -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAA GGA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
45182975 GAA GAA AAA GAA CAA GAA CAA GAA GAA CAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
45183016 TAGAGATCAA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 4 0.03
3 111 0.97
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45186237 original size:80 final size:80
Alignment explanation
Indices: 45186153--45186301 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
45186143 TATGGTAACC
* * * *
45186153 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
45186217 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
45186233 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
45186298 CCGG
66 CCGG
45186302 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:45186243 original size:40 final size:38
Alignment explanation
Indices: 45186194--45186301 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
45186184 ATCACGATTT
*
45186194 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
45186234 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
45186274 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
45186302 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:45202853 original size:26 final size:26
Alignment explanation
Indices: 45202817--45202869 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45202807 TCTCAGTTGA
45202817 TAATAGCCTGATCTCAAGTCTATCTT
1 TAATAGCCTGATCTCAAGTCTATCTT
*
45202843 TAATAGCCTGATCTTAAGTCTATCTT
1 TAATAGCCTGATCTCAAGTCTATCTT
45202869 T
1 T
45202870 GAGAATACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (26 bp):
TAATAGCCTGATCTCAAGTCTATCTT
Found at i:45207089 original size:21 final size:21
Alignment explanation
Indices: 45207060--45207101 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45207050 GAAATATATG
*
45207060 GACTTGTATGGTAATGCGTAA
1 GACTCGTATGGTAATGCGTAA
45207081 GACTCGTATGGTAATGCGTAA
1 GACTCGTATGGTAATGCGTAA
45207102 AGTTCGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (21 bp):
GACTCGTATGGTAATGCGTAA
Found at i:45220793 original size:40 final size:40
Alignment explanation
Indices: 45220666--45220795 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
45220656 ATGCTGGAAA
* *
45220666 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
45220706 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
45220746 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
45220786 TTATATCCGG
1 TTATATCCGG
45220796 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:45222682 original size:40 final size:40
Alignment explanation
Indices: 45222571--45222786 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
45222561 AAGCCAAGTA
* * * *
45222571 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
45222610 CCTTCGGGACATAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45222649 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45222689 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
45222729 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45222769 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
45222787 TTATCATCCA
Statistics
Matches: 162, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 48 0.30
40 113 0.70
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45230362 original size:40 final size:40
Alignment explanation
Indices: 45230300--45230517 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
45230290 AAGCCAAGTA
* * * *
45230300 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
45230339 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45230379 CCTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45230419 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
45230459 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45230499 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45230518 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45231795 original size:16 final size:17
Alignment explanation
Indices: 45231774--45231807 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45231764 TGAGAGCCTC
45231774 TCTTTCTC-TTTCTTTT
1 TCTTTCTCTTTTCTTTT
45231790 TCTTTCTCTTTTCTTTT
1 TCTTTCTCTTTTCTTTT
45231807 T
1 T
45231808 TTTTTCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTCTCTTTTCTTTT
Found at i:45239767 original size:48 final size:47
Alignment explanation
Indices: 45239696--45239823 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 47
45239686 AGCTCCCGTA
* *
45239696 TAAGACCATATTTGGGATATGGCTTTGGCAGT-GACATGTGATTCC-ATG
1 TAAGACCAT-GTTGGGACATGGCTTTGGCA-TCGACATGTGA-TCCTATG
**
45239744 TAAGACCATGTCTGGGACATGGCTTTGGCATCGTTATGTGATCCTATG
1 TAAGACCATGT-TGGGACATGGCTTTGGCATCGACATGTGATCCTATG
* *
45239792 TAAGACCCTGTTCGGGACATGGCATTGGCATC
1 TAAGACCATGTT-GGGACATGGCTTTGGCATC
45239824 ATAATGAGAC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
47 6 0.09
48 64 0.91
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (47 bp):
TAAGACCATGTTGGGACATGGCTTTGGCATCGACATGTGATCCTATG
Found at i:45239842 original size:48 final size:48
Alignment explanation
Indices: 45239741--45239962 Score: 127
Period size: 48 Copynumber: 4.7 Consensus size: 48
45239731 ATGTGATTCC
* * * * *
45239741 ATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGTTATGTGATCCT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATAATGAGATCAT
*
45239789 ATGTAAGACCCTGT-TCGGGACATGGCATTGGCATCATAATGAGA-CAT
1 ATGTAAGACCATGTCT-GGGACATGGCATTGGCATCATAATGAGATCAT
* * ** * **
45239836 CGTGTAAGACCATAG-CTGGG-CTATCGGC-TTCG-AT--TTGTGTGATCCC
1 -ATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCATAATGAGATCAT
* * * * * * **
45239882 ATGTAAGACAATGTCTAGGACATGGCATTGGCATCGTTATGTGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATAATGAGATCAT
* * *
45239930 ATGTAAGACCATATCTAGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
45239963 CCCTACCTTG
Statistics
Matches: 138, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 4 0.03
45 24 0.17
46 4 0.03
47 6 0.04
48 95 0.69
49 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATAATGAGATCAT
Found at i:45245087 original size:49 final size:49
Alignment explanation
Indices: 45245031--45245545 Score: 886
Period size: 49 Copynumber: 10.5 Consensus size: 49
45245021 TACATATATG
*
45245031 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
45245080 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
45245129 TGTGATAAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
45245178 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
45245227 TGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
45245276 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
45245325 TGTGATGAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
45245374 TGTGATGAGGCCTAATGGTCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
45245423 TGTGATGAGGCCTAATGGCTGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
45245472 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
45245521 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
45245546 AAAATATATG
Statistics
Matches: 445, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 445 1.00
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
Found at i:45245691 original size:37 final size:37
Alignment explanation
Indices: 45245641--45245756 Score: 214
Period size: 37 Copynumber: 3.1 Consensus size: 37
45245631 GGAATATGTT
45245641 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
45245678 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
**
45245715 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
45245752 CCGGG
1 CCGGG
45245757 TAAGACTTCT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 77 1.00
ACGTcount: A:0.24, C:0.22, G:0.35, T:0.19
Consensus pattern (37 bp):
CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:45248931 original size:46 final size:46
Alignment explanation
Indices: 45248760--45248935 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
45248750 TGTAACCCGC
* * * * *
45248760 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * ** *
45248806 CCATGAGTGAACTCAAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* * *
45248856 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* *
45248899 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45248936 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:45248931 original size:93 final size:93
Alignment explanation
Indices: 45248767--45248938 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
45248757 CGCCCATAAG
* * * *
45248767 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATGAGTGAACTCAAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAAACTCAACTCA
45248832 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * ** **
45248860 CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAAACTCAACTCA
*
45248925 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
45248939 TCAACCATCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45250896 original size:20 final size:20
Alignment explanation
Indices: 45250870--45250917 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
45250860 GATTCTGATA
45250870 TACATGATATGTATGATATGC
1 TACATGATATGTATGATAT-C
45250891 -ACATGATATGTATGATATC
1 TACATGATATGTATGATATC
45250910 TACATGAT
1 TACATGAT
45250918 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
TACATGATATGTATGATATC
Found at i:45251025 original size:25 final size:25
Alignment explanation
Indices: 45250965--45251048 Score: 118
Period size: 26 Copynumber: 3.4 Consensus size: 25
45250955 AGGAAGTGCA
*
45250965 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
45250990 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
45251016 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
45251039 AAAAGAGGCT
1 AAAAG-GGCT
45251049 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.24
25 8 0.15
26 24 0.44
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:45257098 original size:26 final size:26
Alignment explanation
Indices: 45257060--45257126 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
45257050 TAGGCCGTGT
* * *
45257060 ATGTCACACGGGCCATCAGCACGGCC
1 ATGTCACAAGGGCCATCAACACGACC
45257086 ATGTCACAAGGGCCATCAACACGACC
1 ATGTCACAAGGGCCATCAACACGACC
*
45257112 ATGTCACAATGGCCA
1 ATGTCACAAGGGCCA
45257127 CACGGGCGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.13
Consensus pattern (26 bp):
ATGTCACAAGGGCCATCAACACGACC
Found at i:45263559 original size:46 final size:46
Alignment explanation
Indices: 45263392--45263707 Score: 162
Period size: 48 Copynumber: 6.7 Consensus size: 46
45263382 AGGGAGAGCC
* * ** * *
45263392 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTTAGATGAGAG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTAGATGTGTG
* * * * **
45263438 CTACTGTAAGA-CATGTTTGGGACAT-ACATCGGCCTCGCA-ATGTAAGCC
1 --AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACGTAGATGT--GTG
* **
45263486 AGTGTAAGA-CATGTCTGCAACAT-GCATCGGCTACG-AGATGTGTG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACGTAGATGTGTG
* *
45263530 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACG--TAGATGTGTG
* * * * *
45263578 AGTGTAAGACCATGTTTGGGACATGGAATGGGCACTGATATATTGAGAG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-G-TAGA-TGTGTG
* ** * * *
45263627 CTAGTGTAAGA-CATGTCTGGGACATGGTGTCGGCCTCGATTTCGAT-TGTC
1 --AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACG---TAGATGTGTG
*
45263677 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
45263708 ACTTGATGGA
Statistics
Matches: 206, Mismatches: 44, Indels: 35
0.72 0.15 0.12
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 47 0.23
47 15 0.07
48 62 0.30
49 22 0.11
50 20 0.10
51 12 0.06
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTAGATGTGTG
Found at i:45263587 original size:48 final size:48
Alignment explanation
Indices: 45263486--45263707 Score: 188
Period size: 48 Copynumber: 4.6 Consensus size: 48
45263476 AATGTAAGCC
** * *
45263486 AGTGTAAGA-CATGTCTGCAACAT-GCATCGGCTACGAGAT---GTGTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATAGAGTGTT
*
45263530 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACG-TATAGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATAGA-GTGTT
* * * * *
45263578 AGTGTAAGACCATGTTTGGGACATGGAATGGGCACTGATATATTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATA--GAGTGTT
** * * * * *
45263629 AGTGTAAGA-CATGTCTGGGACATGGTGTCGGCCTCGATTTCGATTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATAGAGTGTT
45263677 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
45263708 ACTTGATGGA
Statistics
Matches: 144, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 8 0.06
48 49 0.34
49 20 0.14
50 26 0.18
51 14 0.10
52 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATAGAGTGTT
Found at i:45273189 original size:31 final size:31
Alignment explanation
Indices: 45273140--45273218 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
45273130 TTTAACGGTT
**
45273140 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
45273171 ACTGGGCCAAAGCTTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
* **
45273202 ATTGGGCCTTAGCCTTT
1 ACTGGGCCAAAGCCTTT
45273219 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:45273508 original size:26 final size:26
Alignment explanation
Indices: 45273424--45273559 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
45273414 CTGGAGGCCT
45273424 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
45273448 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
45273473 AGCCCTTTTCAATAAACTGGGGAATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
45273499 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
45273525 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
45273551 AGCCCTTTT
1 AGCCCTTTT
45273560 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 33 0.33
26 57 0.56
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:45274388 original size:27 final size:27
Alignment explanation
Indices: 45274358--45274449 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
45274348 GGGCACATTT
*
45274358 GTCATTTTACTATATAGGGG-TATTACG
1 GTCATTTTACCATATAGGGGCT-TTACG
* * *
45274385 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATATAGGGGCTTTACG
* *
45274412 GTC-TCTTTACCCTATTGGGGCTTTACG
1 GTCAT-TTTACCATATAGGGGCTTTACG
*
45274439 GTCTTTTTACC
1 GTCATTTTACC
45274450 TAATAGGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 53 0.96
28 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGCTTTACG
Found at i:45274616 original size:27 final size:27
Alignment explanation
Indices: 45274479--45274858 Score: 234
Period size: 27 Copynumber: 14.0 Consensus size: 27
45274469 ATTTCATCCT
* * *
45274479 TCAAGGGTGTTTTGGTAAATCTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * ** **
45274506 CCAAGGATATTTCAGTAATTTTGTTAAA
1 TCAAGGGTATTTTGGTAATTTT-ACAAA
* * *** *
45274534 CCAATGGTATTTCCATAATTTTTAGAAA
1 TCAAGGGTATTTTGGTAA-TTTTACAAA
* **
45274562 GTCAA-GGTATTTCT-GTAACTTTGTAAA
1 -TCAAGGGTATTT-TGGTAATTTTACAAA
45274589 TC-AGGAGTATTTTGGTAATTTTACAAA
1 TCAAGG-GTATTTTGGTAATTTTACAAA
** * *
45274616 TTGAGGGTATTTCGGTAATTTAACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
**
45274643 -CCTGTGGTATTTTGGTAATTTTACAAA
1 TCAAG-GGTATTTTGGTAATTTTACAAA
* *
45274670 -CTAGGGGTATTTTGGTAATTTTACAAC
1 TC-AAGGGTATTTTGGTAATTTTACAAA
** *
45274697 TTGAGGGTATTTCGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
45274724 CCAAGGGTATTTTAGCAATTTTACAGAA
1 TCAAGGGTATTTTGGTAATTTTACA-AA
* **
45274752 T-AA-GTTATTTTGGTAATTTTACTGA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* ***
45274777 TCGAGGGTATTTTGGTAATTTTGTGAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * **
45274804 CCAAGGGTATTTTAGTAATTTTGTAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* *
45274831 TCGAGGGTACTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
45274858 T
1 T
45274859 TGAAGGTATT
Statistics
Matches: 271, Mismatches: 68, Indels: 28
0.74 0.19 0.08
Matches are distributed among these distances:
25 3 0.01
26 22 0.08
27 203 0.75
28 36 0.13
29 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTTACAAA
Found at i:45274682 original size:81 final size:80
Alignment explanation
Indices: 45274586--45274878 Score: 338
Period size: 81 Copynumber: 3.6 Consensus size: 80
45274576 GTAACTTTGT
* * *
45274586 AAATCAGGAGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAACC-TGTGG
1 AAAT-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GG
*
45274650 TATTTTGGTAATTTTAC
64 TATTTTAGTAATTTTAC
*
45274667 AAACTAGGGGTATTTTGGTAATTTTACAACTTGAGGGTATTTCGGTAATTTTACAAACCAAGGGT
1 AAA-TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGT
*
45274732 ATTTTAGCAATTTTAC
65 ATTTTAGTAATTTTAC
* * ** * * ***
45274748 AGAATA-AGTTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTGAACCAAGGGT
1 A-AATAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGT
**
45274812 ATTTTAGTAATTTTGT
65 ATTTTAGTAATTTTAC
* * * *
45274828 AAATCGAGGGTACTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTT
1 AAATAG-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
45274879 GGTAAACTAA
Statistics
Matches: 178, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.02
80 62 0.35
81 109 0.61
82 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
AAATAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTA
TTTTAGTAATTTTAC
Found at i:45274838 original size:107 final size:107
Alignment explanation
Indices: 45274650--45274855 Score: 236
Period size: 107 Copynumber: 1.9 Consensus size: 107
45274640 AAACCTGTGG
* ** *
45274650 TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAACTTGAGGGTATTTCGGTAA
1 TATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAACTCAAGGGTATTTCAGTAA
*
45274715 TTTTACAAACCAAGGGTATTTTAGCAATTTTACAGAATAAGT
66 TTTTACAAACCAAGGGTACTTTAGCAATTTTACAGAATAAGT
* * ** *
45274757 TATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTGAAC-CAAGGGTATTTTAGT
1 TATTTTGGTAATTTTAC-AAACGAGGGGTATTTTGGTAATTTT-ACAACTCAAGGGTATTTCAGT
** * * * *
45274820 AATTTTGTAAATCGAGGGTACTTTGGTAATTTTACA
64 AATTTTACAAACCAAGGGTACTTTAGCAATTTTACA
45274856 AATTGAAGGT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
107 75 0.93
108 6 0.07
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (107 bp):
TATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAACTCAAGGGTATTTCAGTAA
TTTTACAAACCAAGGGTACTTTAGCAATTTTACAGAATAAGT
Found at i:45277149 original size:31 final size:31
Alignment explanation
Indices: 45277114--45277192 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
45277104 CTTAACGATT
* *
45277114 ACTGGGCTGAATCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
45277145 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* **
45277176 ATTGGGCCTTAGCCTTT
1 ACTGGGCCGAAGCCTTT
45277193 ACTATAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:45277439 original size:25 final size:26
Alignment explanation
Indices: 45277411--45277558 Score: 248
Period size: 25 Copynumber: 5.8 Consensus size: 26
45277401 CTCTTTTAAT
45277411 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
45277436 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
45277461 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
45277486 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
45277512 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
45277538 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
45277559 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 59 0.50
26 58 0.50
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:45277546 original size:52 final size:51
Alignment explanation
Indices: 45277411--45277558 Score: 262
Period size: 52 Copynumber: 2.9 Consensus size: 51
45277401 CTCTTTTAAT
*
45277411 AACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATA
*
45277461 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATA
45277512 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
45277559 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 34 0.36
51 24 0.26
52 36 0.38
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATA
Found at i:45278387 original size:27 final size:27
Alignment explanation
Indices: 45278357--45278448 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
45278347 GGGCACATTC
*
45278357 GTCATTTTACCATATAGGGG-TATTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
* *
45278384 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
* * *
45278411 GTC-TCTTTACCCTGCAAGGGCTTTACG
1 GTCAT-TTTACCATACAGGGGCTTTACG
*
45278438 GTCTTTTTACC
1 GTCATTTTACC
45278449 TAATAAGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:45278457 original size:27 final size:27
Alignment explanation
Indices: 45278379--45278448 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
45278369 TATAGGGGTA
* *
45278379 TTACGGTCACTTTACCCTACAGGGGCT
1 TTACGGTCTCTTTACCCTACAAGGGCT
*
45278406 TTACGGTCTCTTTACCCTGCAAGGGCT
1 TTACGGTCTCTTTACCCTACAAGGGCT
*
45278433 TTACGGTCTTTTTACC
1 TTACGGTCTCTTTACC
45278449 TAATAAGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.36
Consensus pattern (27 bp):
TTACGGTCTCTTTACCCTACAAGGGCT
Found at i:45278632 original size:54 final size:52
Alignment explanation
Indices: 45278565--45278838 Score: 209
Period size: 54 Copynumber: 5.1 Consensus size: 52
45278555 TAGAAAGTCA
*
45278565 AGGGTATTTCT-GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGGTAA-TTTGTAAA-CAGGGGTATTTTGGTAATTTTACAAATCG
** * *
45278619 AGGGTATTTCT-GTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAATTTG
1 AGGGTATTT-TGGTAATTT-GTAAAC-AGGGGTATTTTGGTAATTTTACAAA-TCG
* ** * * *
45278674 -GGGTATTTTGGTAATTTTGCAAATTGAGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAA-TTTGTAAACAG-GGGTATTTTGGTAATTTTACAAATCG
* * **
45278727 ATGGTATTTTAGTAATTT-TACAGACTA-GGGTATTTTGGTAA-TTTACTGATCG
1 AGGGTATTTTGGTAATTTGTA-A-AC-AGGGGTATTTTGGTAATTTTACAAATCG
* * **
45278779 AGGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAA-TTTGTAAACAG-GGGTATTTTGGTAATTTTACAAATCG
45278833 AGGGTA
1 AGGGTA
45278839 AAACAGTAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
52 23 0.13
53 40 0.23
54 107 0.61
55 6 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (52 bp):
AGGGTATTTTGGTAATTTGTAAACAGGGGTATTTTGGTAATTTTACAAATCG
Found at i:45278677 original size:81 final size:80
Alignment explanation
Indices: 45278592--45278824 Score: 292
Period size: 81 Copynumber: 2.9 Consensus size: 80
45278582 TTGTAAATCA
*
45278592 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCT-GTAATTTCACAAACTAGTGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT-TAGTAATTTTACAAACTAGTGGTATTTT
* *
45278656 GGTAATTTTACAAATTT
65 AGTAATTTTACAAA-CT
* * *
45278673 GGGGTATTTTGGTAATTTTGCAAATTGAGGGTATTTTAGTAATTTTACAAACCAATGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTTA
*
45278738 GTAATTTTACAGACT
66 GTAATTTTACAAACT
* ** * * **
45278753 AGGGTATTTTGGTAA-TTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTGAG-GGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACT-AGTGGTATTTT
45278816 AGTAATTTT
65 AGTAATTTT
45278825 GTAAATCGAG
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 46 0.35
80 17 0.13
81 70 0.53
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.44
Consensus pattern (80 bp):
GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTTA
GTAATTTTACAAACT
Found at i:45278837 original size:27 final size:27
Alignment explanation
Indices: 45278593--45278838 Score: 234
Period size: 27 Copynumber: 9.2 Consensus size: 27
45278583 TGTAAATCAG
*
45278593 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
45278620 GGGTATTTCT-GTAATTTCACAAA-CTA
1 GGGTATTT-TGGTAATTTTACAAATCGA
*
45278646 GTGGTATTTTGGTAATTTTACAAATTTG-
1 G-GGTATTTTGGTAATTTTACAAA-TCGA
* *
45278674 GGGTATTTTGGTAATTTTGCAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
45278701 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * *
45278728 TGGTATTTTAGTAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
45278754 GGGTATTTTGGTAA-TTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
45278780 GGGTATTTTGGTAATTTTGTAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
* **
45278807 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
45278834 GGGTA
1 GGGTA
45278839 AAACAGTAAT
Statistics
Matches: 185, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
25 7 0.04
26 37 0.20
27 138 0.75
28 3 0.02
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:45278846 original size:27 final size:28
Alignment explanation
Indices: 45278790--45278861 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
45278780 GGGTATTTTG
****
45278790 GTAATTTTGTAAA-CTGAGGGTATTTTA
1 GTAATTTTGTAAATCTGAGGGTAAAACA
45278817 GTAATTTTGTAAATC-GAGGGTAAAACA
1 GTAATTTTGTAAATCTGAGGGTAAAACA
*
45278844 GTAATTCTGTAAAT-TGAG
1 GTAATTTTGTAAATCTGAG
45278862 TTTGGTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (28 bp):
GTAATTTTGTAAATCTGAGGGTAAAACA
Found at i:45288531 original size:46 final size:46
Alignment explanation
Indices: 45288481--45288702 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
45288471 TGGTTGAGCA
45288481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
45288527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
45288573 TTCGAACTCTTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45288618 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45288666 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45288703 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 3 0.02
46 108 0.71
47 27 0.18
48 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45291501 original size:18 final size:18
Alignment explanation
Indices: 45291474--45291518 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
45291464 GTCATTCGGT
*
45291474 TCTTCCTCTGATTCTACC
1 TCTTCGTCTGATTCTACC
45291492 TCTTCGTCTGATTCTACC
1 TCTTCGTCTGATTCTACC
*
45291510 TCTCCGTCT
1 TCTTCGTCT
45291519 CAGTAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.38, G:0.09, T:0.44
Consensus pattern (18 bp):
TCTTCGTCTGATTCTACC
Found at i:45292569 original size:22 final size:21
Alignment explanation
Indices: 45292544--45292592 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
45292534 ATAGGCTAGT
*
45292544 GGGATTAG-GGGGAGTATATTTA
1 GGGATTAGTGGGGA-TA-ATTAA
45292566 GGGATT-GTGGGGATAATTAA
1 GGGATTAGTGGGGATAATTAA
45292586 GGGATTA
1 GGGATTA
45292593 TGATGGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.42
21 3 0.12
22 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.31
Consensus pattern (21 bp):
GGGATTAGTGGGGATAATTAA
Found at i:45303616 original size:45 final size:44
Alignment explanation
Indices: 45303530--45303616 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
45303520 TATATAATCT
*
45303530 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGCGACACCC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATACGACACCC
* *
45303574 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATATATGACAC
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATACGACAC
45303617 ATGTTTTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATACGACACCC
Found at i:45309363 original size:39 final size:39
Alignment explanation
Indices: 45309305--45309484 Score: 166
Period size: 40 Copynumber: 4.6 Consensus size: 39
45309295 AATCAAGCAT
** * *
45309305 CTTCGGGT-TTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
* *
45309342 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCA-CAATGC
* * *
45309382 CTTCGGGACTGAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AATGC
* * * * *
45309422 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCAC-AATGC
* *
45309463 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45309485 CATTCGAGTA
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 15 0.13
40 61 0.53
41 28 0.24
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
Found at i:45309387 original size:40 final size:40
Alignment explanation
Indices: 45309340--45309484 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
45309330 CTCGCACAAG
* * * *
45309340 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
45309380 GCCTTCGGGACTGAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
45309420 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
45309461 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
45309485 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:45310091 original size:21 final size:23
Alignment explanation
Indices: 45310067--45310112 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
45310057 TACCTTTTAC
*
45310067 TAACT-AATGCAT-TACATATTA
1 TAACTCAATACATATACATATTA
*
45310088 TAACTCAATACGTATACATATTA
1 TAACTCAATACATATACATATTA
45310111 TA
1 TA
45310113 GAAATAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
TAACTCAATACATATACATATTA
Found at i:45315411 original size:39 final size:39
Alignment explanation
Indices: 45315353--45315532 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 39
45315343 AATCAAGCAT
** * *
45315353 CTTCGGGT-TTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
* *
45315390 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCA-CAATGC
* *
45315430 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AATGC
* * * * *
45315470 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCAC-AATGC
* *
45315511 ATTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45315533 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 15 0.13
40 63 0.53
41 28 0.24
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
Found at i:45315435 original size:40 final size:40
Alignment explanation
Indices: 45315388--45315532 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
45315378 CTCGCACAAG
* * * *
45315388 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
45315428 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
45315468 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
45315509 GCATTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
45315533 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 26 0.28
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:45328964 original size:71 final size:68
Alignment explanation
Indices: 45328873--45329067 Score: 239
Period size: 68 Copynumber: 2.8 Consensus size: 68
45328863 CGATTTATCT
* * * *
45328873 CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGAGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GATACATCACAT---ATCACACATGAGACCTAGCTACATTTA
45328937 TCTCACA
62 TCTCACA
* *
45328944 CGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACCTAGCTACATTTATCTC
1 CGTAGCTCTCTTGTCTACATGGGATACATCACATATCACACATGAGACCTAGCTACATTTATCTC
*
45329009 TCA
66 ACA
* * * * *
45329012 TGTAGCTCTCTTGTCTGCATGGGATACATCCCTTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCACATATCACACATGAGACCTAGCTAC
45329068 TATATAGTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
68 84 0.74
70 1 0.01
71 28 0.25
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCACATATCACACATGAGACCTAGCTACATTTATCTC
ACA
Found at i:45329005 original size:68 final size:68
Alignment explanation
Indices: 45328910--45329067 Score: 262
Period size: 68 Copynumber: 2.3 Consensus size: 68
45328900 TTCACTTGGA
* *
45328910 ATCACTCATGAGACCTAGCTACATTTATCTCACACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCACACGTAGCTCTCTTGTCTACATGGGATACATCC
45328975 CAT
66 CAT
* * *
45328978 ATCACACATGTGACCTAGCTACATTTATCTCTCATGTAGCTCTCTTGTCTGCATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCACACGTAGCTCTCTTGTCTACATGGGATACATCC
*
45329043 CTT
66 CAT
45329046 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
45329068 TATATAGTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 84 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCACACGTAGCTCTCTTGTCTACATGGGATACATCC
CAT
Found at i:45329085 original size:68 final size:66
Alignment explanation
Indices: 45328868--45329093 Score: 222
Period size: 68 Copynumber: 3.3 Consensus size: 66
45328858 CTAGCCGATT
* * * * * *
45328868 TATCTCGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGAGACCTAGCTAC
1 TATCTCGTAGCTCTCTTGTCTACATGG-GATACATCCCAT---ATCACACATGTGACCTAGCTAC
*
45328932 ATTTA
62 ATATA
* *
45328937 TCTCACACGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACCTAGCTACAT
1 TAT--CTCGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACCTAGCTACAT
*
45329002 TTA
64 ATA
* * *
45329005 TCTCTCATGTAGCTCTCTTGTCTGCATGGGATACATCCCTTATCACACATGTGACCTAGCTACTA
1 TATCTC--GTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACCTAGCTAC-A
45329070 TATA
63 TATA
45329074 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
45329094 ACACATGATG
Statistics
Matches: 136, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
66 2 0.01
67 1 0.01
68 92 0.68
69 6 0.04
70 6 0.04
71 29 0.21
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (66 bp):
TATCTCGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACCTAGCTACATAT
A
Found at i:45335806 original size:8 final size:8
Alignment explanation
Indices: 45335793--45335937 Score: 125
Period size: 8 Copynumber: 18.5 Consensus size: 8
45335783 ACCTTATCAC
45335793 TTATACCT
1 TTATACCT
45335801 TTATACCAT
1 TTATACC-T
45335810 AGTTAT--CT
1 --TTATACCT
45335818 TTATACCT
1 TTATACCT
45335826 TTATACCT
1 TTATACCT
45335834 TTATACC-
1 TTATACCT
45335841 -T-TACCT
1 TTATACCT
45335847 TTATACCAT
1 TTATACC-T
45335856 AGTTAT--CT
1 --TTATACCT
45335864 TTATACCT
1 TTATACCT
45335872 TTATACCT
1 TTATACCT
45335880 TTATACCT
1 TTATACCT
45335888 TTATACC-
1 TTATACCT
45335895 -T-TACCT
1 TTATACCT
45335901 TTATACCAT
1 TTATACC-T
45335910 AGTTAT--CT
1 --TTATACCT
45335918 TTATACCT
1 TTATACCT
45335926 TTATACCT
1 TTATACCT
45335934 TTAT
1 TTAT
45335938 CAAATACATT
Statistics
Matches: 116, Mismatches: 0, Indels: 42
0.73 0.00 0.27
Matches are distributed among these distances:
5 8 0.07
6 14 0.12
7 2 0.02
8 74 0.64
9 6 0.05
11 12 0.10
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (8 bp):
TTATACCT
Found at i:45335847 original size:13 final size:13
Alignment explanation
Indices: 45335829--45335907 Score: 65
Period size: 13 Copynumber: 5.9 Consensus size: 13
45335819 TATACCTTTA
45335829 TACCTTTATACCT
1 TACCTTTATACCT
*
45335842 TACCTTTATACCA
1 TACCTTTATACCT
* *
45335855 TA--GTTAT-CTTT
1 TACCTTTATAC-CT
45335866 ATACCTTTATACCTTT
1 -TACCTTTATACC--T
45335882 ATACCTTTATACCT
1 -TACCTTTATACCT
45335896 TACCTTTATACC
1 TACCTTTATACC
45335908 ATAGTTATCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 1 0.02
11 4 0.08
12 2 0.04
13 26 0.49
14 5 0.09
15 1 0.02
16 14 0.26
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (13 bp):
TACCTTTATACCT
Found at i:45335853 original size:54 final size:50
Alignment explanation
Indices: 45335796--45335937 Score: 220
Period size: 54 Copynumber: 2.8 Consensus size: 50
45335786 TTATCACTTA
45335796 TACCTTTATACCATAGTTATCTTTATACCTTTATACC--T-T-TATACCT
1 TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTATATATACCT
45335842 TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTATACCTTTATACCT
1 TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTATA----TATACCT
45335896 TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTAT
1 TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTAT
45335938 CAAATACATT
Statistics
Matches: 88, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
46 37 0.42
48 1 0.01
49 1 0.01
54 49 0.56
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (50 bp):
TACCTTTATACCATAGTTATCTTTATACCTTTATACCTTTATATATACCT
Found at i:45339067 original size:49 final size:48
Alignment explanation
Indices: 45338912--45339235 Score: 256
Period size: 49 Copynumber: 6.8 Consensus size: 48
45338902 TTATAGGTAG
* **
45338912 ATGCCGACGCCATGTTCCCA-ACATGGTCTTACACTAGCTCT-CAGATCT
1 ATGCCGATGCCATG-TCCCAGACA-GGTCTTACACTAGCTCTCCTTATCT
* * * **
45338960 AAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACT-TTATTA-CAT
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCTTATC-T
* *
45339007 CAAGCCAGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCT
1 -ATGCC-GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTC-CTTATCT
* * * * *
45339058 GTGTCGATGCCGTGTCCCAGACAGGTCTTACACTAGCACACC---TC-
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCTTATCT
* * * *
45339102 AAGCCGATGCCATGTCTCAGACAGGTCTTACACTAGCT-TGCATATCTT
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCTTATC-T
* * * * *
45339150 GAGGCCGATGCCATGTCTCAAACAGGTCTTACAC-AGGCTCTCATCTATCA
1 -ATGCCGATGCCATGTCCCAGACAGGTCTTACACTA-GCTCTCCT-TATCT
*
45339200 ATGCTGATGCCATG-CCCAGACAGGTCTTACACTAGC
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTAGC
45339236 ACGCACATCA
Statistics
Matches: 221, Mismatches: 37, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 32 0.14
45 2 0.01
46 4 0.02
47 21 0.10
48 38 0.17
49 110 0.50
50 4 0.02
51 8 0.04
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCTTATCT
Found at i:45339159 original size:93 final size:93
Alignment explanation
Indices: 45338914--45339235 Score: 316
Period size: 93 Copynumber: 3.4 Consensus size: 93
45338904 ATAGGTAGAT
* *
45338914 GCCGACGCCATGTTCCCA-ACATGGTCTTACACTAGCTCT-CAGATCT-AAGTCGATGCCATGTC
1 GCCGATGCCATG-TCCCAGACA-GGTCTTACACTAGCTCTGCATATCTGAAGTCGATGCCATGTC
* *
45338976 CCAGACAGGTCTTACACTAACTTTATTACATCAA
64 CCAGACAGGTCTTACACTAGC---A-CACATCAA
* * * *
45339010 GCCAGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTG-TGTCGATGCCGTGTC
1 GCC-GATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-GCATATCTGAAGTCGATGCCATGTC
*
45339074 CCAGACAGGTCTTACACTAGCACACCTCAA
64 CCAGACAGGTCTTACACTAGCACACATCAA
* * * *
45339104 GCCGATGCCATGTCTCAGACAGGTCTTACACTAGCT-TGCATATCTTGAGGCCGATGCCATGTCT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTGCATATC-TGAAGTCGATGCCATGTCC
* *
45339168 CAAACAGGTCTTACAC-AGGCTCTCATCTATCAA
65 CAGACAGGTCTTACACTA-G--CACA-C-ATCAA
*
45339201 TGCTGATGCCATG-CCCAGACAGGTCTTACACTAGC
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTAGC
45339236 ACGCACATCA
Statistics
Matches: 192, Mismatches: 21, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
91 6 0.03
92 4 0.02
93 59 0.31
94 9 0.05
95 4 0.02
96 25 0.13
97 36 0.19
98 49 0.26
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTGCATATCTGAAGTCGATGCCATGTCCC
AGACAGGTCTTACACTAGCACACATCAA
Found at i:45341246 original size:40 final size:40
Alignment explanation
Indices: 45341209--45341426 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
45341199 GCTACTCGTT
* *
45341209 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45341249 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
45341289 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
45341328 CAAATGCCTTCGGGACTTAACCTAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
45341368 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
45341409 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
45341427 GCCCAGACAT
Statistics
Matches: 162, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 42 0.26
40 107 0.66
41 13 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45341321 original size:79 final size:79
Alignment explanation
Indices: 45341209--45341433 Score: 319
Period size: 79 Copynumber: 2.8 Consensus size: 79
45341199 GCTACTCGTT
* *
45341209 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
45341273 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
45341289 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTAGA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
45341354 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* * * * *
45341368 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCA
45341432 GA
64 GA
45341434 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 75 0.57
80 48 0.37
81 8 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TTTAGTAACTCGCA
Found at i:45341393 original size:119 final size:120
Alignment explanation
Indices: 45341209--45341426 Score: 300
Period size: 119 Copynumber: 1.8 Consensus size: 120
45341199 GCTACTCGTT
* * *
45341209 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCAGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
45341274 ATTTAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
45341328 CAAATGCCTTCGGGACTTAACCTAGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACC-AGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
45341391 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
45341427 GCCCAGACAT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 65 0.76
120 18 0.21
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCAGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45349353 original size:39 final size:39
Alignment explanation
Indices: 45349305--45349468 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 39
45349295 CGGAGTTTAA
**
45349305 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTAGC
* *
45349344 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGAC-TAGC
** * *
45349384 CTAGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-C-TAGC
* * **
45349424 CCGGATATAGTCACTTAGCACAAA-GCCTTCGAAACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGAC-TAGC
45349464 CCGGA
1 CCGGA
45349469 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.32
40 59 0.58
41 9 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTAGC
Found at i:45359896 original size:22 final size:22
Alignment explanation
Indices: 45359869--45359946 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
45359859 TTAGTACTAC
45359869 ACACGTGACCTCACCATCTAAT
1 ACACGTGACCTCACCATCTAAT
* * *
45359891 ACACGTAGTAGCCTGTACTTAGTACT-AC
1 ACACGT-G-A-CCT-CAC-CA-T-CTAAT
45359919 ACACGTGACCTCACCATCTAAT
1 ACACGTGACCTCACCATCTAAT
45359941 ACACGT
1 ACACGT
45359947 AGTAGCCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 8 0.19
29 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (22 bp):
ACACGTGACCTCACCATCTAAT
Found at i:45359911 original size:50 final size:50
Alignment explanation
Indices: 45359797--45359976 Score: 265
Period size: 50 Copynumber: 3.6 Consensus size: 50
45359787 CTGGTACGCA
* * * **
45359797 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
*
45359846 TAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
*
45359896 TAGTAGCCTGTACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
*
45359946 TAGTAGCCTGTACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
45359977 TCACAGTTTT
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
49 28 0.23
50 89 0.74
51 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
Found at i:45365003 original size:70 final size:71
Alignment explanation
Indices: 45364923--45365085 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
45364913 GAGATGTATC
45364923 CCATGTAGACAAGAGAGCTACGTGAAA-ATAAATGTAGCTAGGTCGCATACGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATACGTGATTCCAAGTGA
45364987 AGGACA
66 AGGACA
*
45364993 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATACGTGATTCCAAGTGA
45365058 AGGACA
66 AGGACA
45365064 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
45365086 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 27 0.30
71 64 0.70
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATACGTGATTCCAAGTGA
AGGACA
Found at i:45371522 original size:2 final size:2
Alignment explanation
Indices: 45371515--45371544 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
45371505 AGCATAGTTG
*
45371515 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45371545 TCGACCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45372211 original size:29 final size:28
Alignment explanation
Indices: 45372178--45372276 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
45372168 GACGAGAATG
* *
45372178 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-GAAATATATA
*
45372207 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAA-TATATA
* * *
45372236 GCACTATGTGTGCGAGCTG-ATTTTATA
1 GCACTAAGTGTGCGAGCTGAAATATATA
45372263 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45372277 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.30
28 4 0.07
29 39 0.64
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGCTGAAATATATA
Found at i:45380065 original size:27 final size:27
Alignment explanation
Indices: 45379981--45380134 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
45379971 GACGAGAATG
* * *
45379981 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
45380010 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
45380039 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
45380066 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
45380094 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
45380121 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45380135 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:45380102 original size:55 final size:55
Alignment explanation
Indices: 45380031--45380134 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
45380021 GCGAGCTCAA
45380031 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
45380086 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
45380135 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:45387249 original size:42 final size:42
Alignment explanation
Indices: 45387202--45387307 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
45387192 TATTGGTCTC
45387202 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
1 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
45387244 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
1 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
* *
45387286 GCACTACGTGTGCGGGTTTAAA
1 GCACTAAGTGTGCGGGTATAAA
45387308 ATTGTACAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (42 bp):
GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
Found at i:45391206 original size:42 final size:42
Alignment explanation
Indices: 45391159--45391265 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
45391149 TATTGGTCTC
45391159 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
45391201 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
45391243 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
45391266 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:45391330 original size:27 final size:28
Alignment explanation
Indices: 45391273--45391342 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
45391263 AAAATTGTAC
**
45391273 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
45391301 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45391328 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45391343 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45398432 original size:42 final size:42
Alignment explanation
Indices: 45398385--45398491 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
45398375 TATTGGTCTC
45398385 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
45398427 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
45398469 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
45398492 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:45398556 original size:27 final size:28
Alignment explanation
Indices: 45398499--45398568 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
45398489 AAAATTGTAC
**
45398499 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
45398527 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45398554 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45398569 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45403444 original size:46 final size:46
Alignment explanation
Indices: 45403388--45403561 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 46
45403378 TGTTTGGGCA
45403388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* *** * * *
45403434 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGAATG
* **
45403479 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* *
45403527 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
45403562 CGGCGGGTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 32 0.30
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
Found at i:45403543 original size:93 final size:93
Alignment explanation
Indices: 45403384--45403555 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45403374 AGGATGTTTG
* *
45403384 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
45403449 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* ** *
45403477 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
45403542 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
45403556 ACTTATCGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:45406396 original size:15 final size:15
Alignment explanation
Indices: 45406343--45406393 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
45406333 GTATCTTGGG
*
45406343 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
45406358 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
45406373 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
45406387 TTTCTTT
1 TTTCTTT
45406394 TATCTTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.28
15 23 0.72
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45408927 original size:93 final size:92
Alignment explanation
Indices: 45408769--45408939 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
45408759 AGGATGTTTG
*
45408769 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
45408834 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* *
45408861 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
45408926 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45408940 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 51 0.68
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:45408933 original size:46 final size:45
Alignment explanation
Indices: 45408774--45408947 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
45408764 GTTTGGGCAT
45408774 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
45408818 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
45408866 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
45408911 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45408948 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 21 0.19
46 47 0.43
47 31 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45418647 original size:64 final size:64
Alignment explanation
Indices: 45418570--45418762 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
45418560 TAATGATTAT
45418570 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * ** * *** * *** * * *
45418634 TGATATGTTTGTGTTTGAG-CCTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
45418691 AT
63 AG
45418693 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
45418757 TGATAT
1 TGATAT
45418763 GTTGTGTTCG
Statistics
Matches: 84, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
58 2 0.02
59 22 0.26
60 8 0.10
61 7 0.08
62 7 0.08
63 8 0.10
64 28 0.33
65 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (64 bp):
TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
Found at i:45418752 original size:123 final size:123
Alignment explanation
Indices: 45418420--45418879 Score: 825
Period size: 122 Copynumber: 3.8 Consensus size: 123
45418410 GAATTATGTG
*
45418420 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
45418485 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAAC-A
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
45418542 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
45418607 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
45418665 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
45418730 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATG-TTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
45418787 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
45418852 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
45418880 AATTATATCC
Statistics
Matches: 328, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
122 228 0.70
123 100 0.30
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:45418851 original size:245 final size:245
Alignment explanation
Indices: 45418420--45418879 Score: 823
Period size: 245 Copynumber: 1.9 Consensus size: 245
45418410 GAATTATGTG
45418420 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
45418485 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACAAAATGAAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACAAAATGAAA
* * * *
45418550 TATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTC
131 TATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
*
45418615 CCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
196 CCGAAGACAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
*
45418665 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
45418730 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATG-TTGTGTTCGAGCCTTAGTAACGAAAATGAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAAC-AAAATGAA
*
45418794 ATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
130 ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
*
45418859 CCCGAAGACATTTATGCTAGT
195 CCCGAAGACAATTATGCTAGT
45418880 AATTATATCC
Statistics
Matches: 205, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
244 20 0.10
245 185 0.90
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (245 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACAAAATGAAA
TATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
CCGAAGACAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:45419045 original size:40 final size:40
Alignment explanation
Indices: 45418848--45419051 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 40
45418838 TGAATGATAC
* * * * **
45418848 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
45418888 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
45418928 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
45418968 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
45419008 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
45419048 CCGG
1 CCGG
45419052 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:45426128 original size:123 final size:123
Alignment explanation
Indices: 45425909--45426368 Score: 807
Period size: 123 Copynumber: 3.8 Consensus size: 123
45425899 GAATTATGTG
*
45425909 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
45425974 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
45426032 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
45426097 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
45426155 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
45426220 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATG--TGTGTTCGAGCCTTAGCAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
45426276 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
45426341 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
45426369 AATTATAGCC
Statistics
Matches: 326, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 106 0.33
123 220 0.67
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:45426392 original size:40 final size:40
Alignment explanation
Indices: 45426337--45426564 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
45426327 TGAATGATAC
* * * * * *
45426337 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* * * * *
45426377 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
45426417 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
45426457 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
45426497 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
45426537 CCGGGCTAAGACCCGAGGGCATTCGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
45426565 GTGTGGTTAT
Statistics
Matches: 168, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTATAT
Found at i:45434142 original size:29 final size:29
Alignment explanation
Indices: 45434100--45434200 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
45434090 GAATATGACC
*
45434100 GGGCCTAACGGGCCATATAAATGTGATTT
1 GGGCCTAATGGGCCATATAAATGTGATTT
* *
45434129 GGGCCTAATGGGCCATATACAGGTGATTT
1 GGGCCTAATGGGCCATATAAATGTGATTT
* *
45434158 GGGCCTAATGGGCCATATGAATATGA-TT
1 GGGCCTAATGGGCCATATAAATGTGATTT
*
45434186 GGGCTTAATGGGCCA
1 GGGCCTAATGGGCCA
45434201 GATACAGGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
GGGCCTAATGGGCCATATAAATGTGATTT
Found at i:45434196 original size:28 final size:29
Alignment explanation
Indices: 45434087--45434200 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
45434077 TGAGTACGAT
** *
45434087 TATGAATATGA-CCGGGCCTAACGGGCCA
1 TATGAATATGATTTGGGCCTAATGGGCCA
* *
45434115 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATATGATTTGGGCCTAATGGGCCA
**
45434144 TAT-ACAGGTGATTTGGGCCTAATGGGCCA
1 TATGA-ATATGATTTGGGCCTAATGGGCCA
*
45434173 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATGAATATGATTTGGGCCTAATGGGCCA
45434201 GATACAGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
TATGAATATGATTTGGGCCTAATGGGCCA
Found at i:45434207 original size:57 final size:58
Alignment explanation
Indices: 45434100--45434209 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 58
45434090 GAATATGACC
* *
45434100 GGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTT
1 GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTT
* * *
45434158 GGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
45434210 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTT
Found at i:45439548 original size:40 final size:41
Alignment explanation
Indices: 45439483--45439565 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 41
45439473 CAATAGTAAA
* *
45439483 AAAATTAAAAATGAAAATAAGAAATATTTTT-GGATTTTTG
1 AAAATTAAAAATCAAAATAAGAAATATTTTTGGGATTCTTG
45439523 AAAATTAAAAA-CAAAA-ACAGAAAATATTTTTGGGATTCTTG
1 AAAATTAAAAATCAAAATA-AG-AAATATTTTTGGGATTCTTG
45439564 AA
1 AA
45439566 TTTTGTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
38 1 0.03
39 6 0.16
40 21 0.55
41 10 0.26
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (41 bp):
AAAATTAAAAATCAAAATAAGAAATATTTTTGGGATTCTTG
Found at i:45442333 original size:26 final size:26
Alignment explanation
Indices: 45442304--45442384 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
45442294 TTGGCCACAT
* *
45442304 ATACTGATATTGGCAACTTTGCTGCG
1 ATACTGATACTAGCAACTTTGCTGCG
* *
45442330 ATACT-ACTACTAGTAGCTTTGCTGCG
1 ATACTGA-TACTAGCAACTTTGCTGCG
* *
45442356 TTACTGAAACTAGCAACTTTGCTGCG
1 ATACTGATACTAGCAACTTTGCTGCG
45442382 ATA
1 ATA
45442385 ATAATGTGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 1 0.02
26 42 0.95
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (26 bp):
ATACTGATACTAGCAACTTTGCTGCG
Found at i:45444258 original size:43 final size:44
Alignment explanation
Indices: 45444195--45444283 Score: 153
Period size: 43 Copynumber: 2.0 Consensus size: 44
45444185 AATTTTAATT
45444195 TTAAGTGGATAGAGCCCTTGGTTCTAGATAGTAGGCTACTTTAA
1 TTAAGTGGATAGAGCCCTTGGTTCTAGATAGTAGGCTACTTTAA
* *
45444239 TTAA-TGGATAGGGCTCTTGGTTCTAGATAGTAGGCTACTTTAA
1 TTAAGTGGATAGAGCCCTTGGTTCTAGATAGTAGGCTACTTTAA
45444282 TT
1 TT
45444284 TTAATTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 39 0.91
44 4 0.09
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (44 bp):
TTAAGTGGATAGAGCCCTTGGTTCTAGATAGTAGGCTACTTTAA
Found at i:45444556 original size:24 final size:23
Alignment explanation
Indices: 45444529--45444573 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
45444519 GAGAAAATCA
* *
45444529 AGGAGAGGATTATGGAGAGATTTT
1 AGGAAAGGATTAAGGA-AGATTTT
45444553 AGGAAAGGATTAAGGAAGATT
1 AGGAAAGGATTAAGGAAGATT
45444574 GAAGGAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (23 bp):
AGGAAAGGATTAAGGAAGATTTT
Found at i:45446058 original size:26 final size:26
Alignment explanation
Indices: 45446022--45446102 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
45446012 TTGGCCACAT
* *
45446022 ATACTGATACTGGTAGCTTTGTTGCG
1 ATACTGATACTGGAAGCTTTGCTGCG
* * *
45446048 ATACTGCTACTGGCAGCTTTACTGC-
1 ATACTGATACTGGAAGCTTTGCTGCG
*
45446073 ATTACTGATACTGGAAGCTTCGCTGCG
1 A-TACTGATACTGGAAGCTTTGCTGCG
45446100 ATA
1 ATA
45446103 ATGGTGTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.02
26 43 0.96
27 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (26 bp):
ATACTGATACTGGAAGCTTTGCTGCG
Found at i:45450711 original size:15 final size:15
Alignment explanation
Indices: 45450691--45450721 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45450681 GATGAGTGTA
45450691 TGAACGACATTATGG
1 TGAACGACATTATGG
45450706 TGAACGACATTATGG
1 TGAACGACATTATGG
45450721 T
1 T
45450722 ATATGAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (15 bp):
TGAACGACATTATGG
Found at i:45456243 original size:26 final size:26
Alignment explanation
Indices: 45456207--45456262 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
45456197 TAGTAAATGC
*
45456207 TATTTTGAAATTATTATTAAGTATTA
1 TATTTTGAAATTAGTATTAAGTATTA
* * **
45456233 TATTTTTAAATTCGTATTATTTATTA
1 TATTTTGAAATTAGTATTAAGTATTA
45456259 TATT
1 TATT
45456263 ATTATATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTTTGAAATTAGTATTAAGTATTA
Found at i:45456406 original size:38 final size:37
Alignment explanation
Indices: 45456323--45456417 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
45456313 TTACATATTT
* * *
45456323 TTATATATTTTATATC-TATTATAAATTGTTTTAAAG
1 TTATATATATTATATCATATTATAAATGGATTTAAAG
*
45456359 TTATGTATATTATATCATATGT-TAAATGGATTTAAAG
1 TTATATATATTATATCATAT-TATAAATGGATTTAAAG
45456396 ATTATATATATATATAT-ATATT
1 -TTATATATAT-TATATCATATT
45456418 TTTTTTTGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 14 0.28
37 17 0.34
38 14 0.28
39 5 0.10
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (37 bp):
TTATATATATTATATCATATTATAAATGGATTTAAAG
Found at i:45463180 original size:40 final size:40
Alignment explanation
Indices: 45463084--45463236 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
45463074 CGAATGGTAT
* * * *
45463084 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
45463125 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
45463165 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
45463205 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
45463237 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:45471190 original size:40 final size:40
Alignment explanation
Indices: 45471094--45471246 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
45471084 CGAATGGTAT
* ** * *
45471094 CCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAAA
* *
45471135 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
45471175 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
45471215 CCGGGCTATGTCCCAAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
45471247 CGCTATATCC
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 68 0.74
41 24 0.26
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:45478431 original size:220 final size:220
Alignment explanation
Indices: 45478049--45478840 Score: 1149
Period size: 220 Copynumber: 3.6 Consensus size: 220
45478039 ACAGGCTAAA
* *
45478049 GCATAGCAGATCTGGCCTTCAGATGTTTACACTGAAGCAAATCCAAGATGATTTGGCATCTCTAT
1 GCATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTAT
* * *
45478114 ATTGTCAGAGAACAAATCGAAGAAATAGATTCGGCATCTCCATATTCGACGGAGAGCATATCGAA
66 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
45478179 GACA-ATGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATCTGGCATCT
131 GACATA-GCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCT
*
45478243 TTATGTTTACAAGGAACAAATCGAAG
195 TTGTGTTTACAAGGAACAAATCGAAG
*
45478269 GCATAGCAGATCTGACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTAT
1 GCATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTAT
*
45478334 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAA
66 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
45478399 GACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTT
131 GACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTT
*
45478464 TGCGTTTACAAGGAACAAATCGAAG
196 TGTGTTTACAAGGAACAAATCGAAG
* *
45478489 GCATAGCAGATCTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGT
1 GCATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTAT
*
45478554 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTTCATATTCGACGGAGAGCAGATCGAA
66 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
** *
45478619 GACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCT
131 GACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTT
* *
45478684 CGTGTTTACAAGGAGCAAATCGAAG
196 TGTGTTTACAAGGAACAAATCGAAG
* * * * * * *** * * * * ** *
45478709 ACATAGCAAATTTGGCTTTCACG-CGTTTATGTTGAATCAAATCTAAGATAATTTGGTGTCTCTG
1 GCATAGCAGATCTGACCTTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTA
* * ** ** * * *
45478773 TATTGTCAGAGAGCAGATCGAAGATTGCAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCA
65 TATTGTCAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCG
45478837 AAGA
129 AAGA
45478841 TATTAACATG
Statistics
Matches: 524, Mismatches: 45, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
220 504 0.96
221 20 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (220 bp):
GCATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTAT
ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
GACATAGCAGATCTAACCTTTGGATGTTTTCACATCAAAGCGGATCCAAGATGATTTGGCATCTT
TGTGTTTACAAGGAACAAATCGAAG
Found at i:45479555 original size:17 final size:17
Alignment explanation
Indices: 45479520--45479571 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
45479510 GCCTGAAAAA
*
45479520 AGAAAAAGAAAACTCAAT
1 AGAAAAAGAAAAC-AAAT
*
45479538 AGAAAAGGAAAACAAAT
1 AGAAAAAGAAAACAAAT
*
45479555 AGGAAAAAGAAATCAAA
1 A-GAAAAAGAAAACAAA
45479572 GATTTCTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (17 bp):
AGAAAAAGAAAACAAAT
Found at i:45480843 original size:3 final size:3
Alignment explanation
Indices: 45480837--45480876 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45480827 TTTTTTTAAA
45480837 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45480877 TTCCTTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45487294 original size:68 final size:65
Alignment explanation
Indices: 45487177--45487429 Score: 221
Period size: 68 Copynumber: 3.8 Consensus size: 65
45487167 ATACAGATGG
* ** * * * *
45487177 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTACGAGA-A
45487241 TTA
64 -TA
* * *
45487244 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GGAT
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGAAT
45487308 A
65 A
* * * * *
45487309 TATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAAGACACCATGTAGACAAGAGAGCTACGA-A
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGTG---TACACCATGTAGACAAGAGAGCTACGAGA
45487373 ATA
63 ATA
* * *
45487376 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
45487430 CAAAATTATG
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 27 0.18
65 3 0.02
66 23 0.15
67 31 0.20
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (65 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGAATA
Found at i:45497395 original size:43 final size:43
Alignment explanation
Indices: 45497178--45497383 Score: 358
Period size: 43 Copynumber: 4.8 Consensus size: 43
45497168 GAAACTCGGG
* *
45497178 GATATGTATTCGAGTCTTCGTGCCTAGCAGGCTTCGTGCCGGT
1 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
*
45497221 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCAGGT
1 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
*
45497264 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGT
1 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
45497307 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
1 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
* *
45497350 GATATGTATTCGGGTCTTCGTGCTTAGCAGGCTT
1 GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
45497384 AATGCCAGTG
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 155 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.33
Consensus pattern (43 bp):
GATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT
Found at i:45497652 original size:29 final size:29
Alignment explanation
Indices: 45497552--45497708 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 29
45497542 ATGATTAGAG
* * *
45497552 GCACTGTGTGTGCAAATTCCGTTAACCGA
1 GCACTATGTGTGCGAATTCCATTAACCGA
* **
45497581 GCACTATGTGTGCGAGA-T-CAGTAATTGA
1 GCACTATGTGTGCGA-ATTCCATTAACCGA
* *
45497609 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATTCCATTAACCGA
* ** **
45497639 GCATTATGTGTGCGAGATT--GGTAATTGA
1 GCACTATGTGTGCGA-ATTCCATTAACCGA
* *
45497667 GGCACTGTGTGTGCGAGTT-C-TTCAACCGA
1 -GCACTATGTGTGCGAATTCCATT-AACCGA
45497696 GCACTATGTGTGC
1 GCACTATGTGTGC
45497709 TAGATCGGTC
Statistics
Matches: 96, Mismatches: 24, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
28 27 0.28
29 59 0.61
30 10 0.10
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAATTCCATTAACCGA
Found at i:45497737 original size:58 final size:58
Alignment explanation
Indices: 45497549--45497717 Score: 252
Period size: 58 Copynumber: 2.9 Consensus size: 58
45497539 CGAATGATTA
* *
45497549 GAGGCACTGTGTGTGCAAATTCCGTT-AACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCC-TTCAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * *
45497607 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCATTATGTGTGCGAGATTGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
45497665 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCTAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGT
45497718 CAGTGGGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 30 0.30
58 71 0.70
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:45501183 original size:48 final size:48
Alignment explanation
Indices: 45501112--45501409 Score: 506
Period size: 48 Copynumber: 6.2 Consensus size: 48
45501102 CAAGATAAAT
* * *
45501112 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
45501160 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
45501208 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
45501256 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
45501304 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
45501352 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
45501400 ATGTGTATAT
1 ATATGTATAT
45501410 ATTGTGGCCG
Statistics
Matches: 234, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 234 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:45501591 original size:37 final size:37
Alignment explanation
Indices: 45501541--45501650 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
45501531 GGAAATATAT
45501541 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
45501578 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
45501615 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
45501651 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:45503368 original size:13 final size:13
Alignment explanation
Indices: 45503350--45503374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45503340 TCAAGCAGAC
45503350 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
45503363 GCCCGTGTCCCT
1 GCCCGTGTCCCT
45503375 CACTCGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:45506976 original size:39 final size:37
Alignment explanation
Indices: 45506918--45507060 Score: 133
Period size: 39 Copynumber: 3.7 Consensus size: 37
45506908 CCGCACCAAG
* * * *
45506918 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAT
1 GCCTTCGGGTCTTAACCCGGATAT-A-GACTAGCACAAT
* * *
45506957 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TA-GACTAGCAC-AAT
* *
45506997 GCCTTCGGGTCTTAGCCCGGATGTAGCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATAG-ACTAGCACAA-T
*
45507036 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
45507061 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.03
39 59 0.68
40 25 0.29
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (37 bp):
GCCTTCGGGTCTTAACCCGGATATAGACTAGCACAAT
Found at i:45507001 original size:40 final size:38
Alignment explanation
Indices: 45506950--45507055 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 38
45506940 ATCACGATTT
*
45506950 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCACAATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
45506989 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
*
45507028 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
45507056 TTATAATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
38 3 0.05
39 33 0.54
40 25 0.41
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:45511716 original size:17 final size:18
Alignment explanation
Indices: 45511674--45511722 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
45511664 AGTTGAAAAG
45511674 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
45511693 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
45511710 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
45511723 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:45512625 original size:40 final size:40
Alignment explanation
Indices: 45512544--45512694 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
45512534 AAATTGAATG
* * ** *
45512544 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTAATT
**
45512583 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTAATT
* * *
45512623 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCCAGTAATT
* *
45512663 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
45512695 ACTTGATTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
39 17 0.18
40 76 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTAATT
Found at i:45512708 original size:40 final size:40
Alignment explanation
Indices: 45512580--45512710 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
45512570 TATGCTGGAA
* *
45512580 ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGC-CAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAC-TTG
* * * *
45512620 GTTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
*
45512660 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACTTG
45512700 ATTATATCCGG
1 ATTATATCCGG
45512711 TTATATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.04
40 72 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACTTG
Found at i:45521070 original size:39 final size:39
Alignment explanation
Indices: 45521016--45521138 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
45521006 ATTTGATGTG
45521016 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
45521055 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
45521094 TATCCGGACTTAGGGTCCG-AGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
45521132 TGTCCGG
1 TATCCGG
45521139 CTAAAGTCCC
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 23 0.28
39 58 0.72
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:45525978 original size:2 final size:2
Alignment explanation
Indices: 45525971--45526005 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
45525961 ATTTGAGTTC
45525971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45526006 GTATGAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45527303 original size:2 final size:2
Alignment explanation
Indices: 45527298--45527329 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
45527288 GTGAAAGTCG
45527298 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45527330 TCTAAAAGTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:45527858 original size:39 final size:39
Alignment explanation
Indices: 45527795--45527879 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
45527785 ATTTGATGTG
45527795 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
45527834 TATCTGGATTTAGGGTCCGCAGGCTATGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
45527873 TGTCCGG
1 TATCCGG
45527880 GCTAAAGTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:45533842 original size:29 final size:28
Alignment explanation
Indices: 45533801--45533855 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
45533791 CCGAACTATT
45533801 GATATCATGGCCCAAAGCAAAATTAGCC
1 GATATCATGGCCCAAAGCAAAATTAGCC
* *
45533829 GATATTCATGGCCCGAAGCCAAATTAG
1 GATA-TCATGGCCCAAAGCAAAATTAG
45533856 TATAACTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (28 bp):
GATATCATGGCCCAAAGCAAAATTAGCC
Found at i:45536626 original size:46 final size:46
Alignment explanation
Indices: 45536572--45536747 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
45536562 TGGTTGAGCA
*
45536572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
45536618 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
45536665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45536711 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45536748 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45536728 original size:93 final size:93
Alignment explanation
Indices: 45536569--45536740 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
45536559 GGATGGTTGA
* ***
45536569 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCAAACTCGTTGAGT
45536634 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
45536662 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCAAACTCGTTGAGT
45536727 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45536741 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45539535 original size:34 final size:33
Alignment explanation
Indices: 45539475--45539558 Score: 89
Period size: 36 Copynumber: 2.5 Consensus size: 33
45539465 TTTAATTAAT
* * *
45539475 TTAATTTTTTATAAAATTCTAAAATATGTAAATA
1 TTAATTTTTT-TAAAAGTCAAAAATATGTAAAAA
*
45539509 -TAATTTTTTTAAAAGTCAAAATAATATTTAAAAA
1 TTAATTTTTTTAAAAGTC-AAA-AATATGTAAAAA
45539543 TTAAATTTTTTTAAAA
1 TT-AATTTTTTTAAAA
45539559 AGGAGTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 7 0.17
33 11 0.26
34 10 0.24
35 1 0.02
36 13 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (33 bp):
TTAATTTTTTTAAAAGTCAAAAATATGTAAAAA
Done.