Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 83 of 325
Found at i:23731781 original size:44 final size:44
Alignment explanation
Indices: 23731718--23731806 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
23731708 TCATTAATTT
*
23731718 TTGTGTTAGTTATAAATTCACCTTCCTTATTATTAGAATCCCTA
1 TTGTGTTAGTTATAAATTCACCTTCCTGATTATTAGAATCCCTA
23731762 TTGTGTTAGTTATAAATTCACCTTCCTGATTATTAGAATCCCTA
1 TTGTGTTAGTTATAAATTCACCTTCCTGATTATTAGAATCCCTA
23731806 T
1 T
23731807 GTTGTATATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (44 bp):
TTGTGTTAGTTATAAATTCACCTTCCTGATTATTAGAATCCCTA
Found at i:23743952 original size:17 final size:17
Alignment explanation
Indices: 23743930--23743964 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23743920 ATGTATCATG
23743930 TATAAATTTATCAACTT
1 TATAAATTTATCAACTT
23743947 TATAAATTTATCAACTT
1 TATAAATTTATCAACTT
23743964 T
1 T
23743965 CACTTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAAATTTATCAACTT
Found at i:23751490 original size:40 final size:40
Alignment explanation
Indices: 23751407--23751614 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
23751397 CGGGATTTAA
* * * * * *
23751407 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
23751447 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
23751487 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
23751527 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
23751567 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
23751607 CCGGATAT
1 CCGGATAT
23751615 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:23751527 original size:80 final size:80
Alignment explanation
Indices: 23751433--23751614 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
23751423 GCTCGATTGT
* * *** * * * **
23751433 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
23751498 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
23751513 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
23751578 TACTAGCATAATTGC
66 AACTAGCACAAATGC
23751593 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23751615 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:23759517 original size:40 final size:40
Alignment explanation
Indices: 23759434--23759641 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
23759424 CGGGATTTAA
* * * * * *
23759434 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
23759474 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
23759514 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
23759554 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
23759594 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
23759634 CCGGATAT
1 CCGGATAT
23759642 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:23759554 original size:80 final size:80
Alignment explanation
Indices: 23759460--23759641 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
23759450 GCTCGATTGT
* * *** * * * **
23759460 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
23759525 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
23759540 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
23759605 TACTAGCATAATTGC
66 AACTAGCACAAATGC
23759620 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23759642 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:23763735 original size:40 final size:40
Alignment explanation
Indices: 23763676--23763882 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
23763666 TGAATGATAC
* *
23763676 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
23763715 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23763755 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
23763795 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
23763835 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23763875 CC-GGCTAA
1 CCGGGCTAA
23763883 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.10
40 137 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:23771794 original size:40 final size:40
Alignment explanation
Indices: 23771739--23771945 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
23771729 TGAATGATAC
* * *
23771739 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
23771779 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
23771819 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
23771859 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
23771899 CCGGGTTAAGACCC-AAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23771938 CC-GGCTAA
1 CCGGGCTAA
23771946 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 5 0.03
39 21 0.14
40 123 0.81
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:23776029 original size:15 final size:15
Alignment explanation
Indices: 23775980--23776048 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
23775970 AAAGTCGACT
*
23775980 AGAAAACCAAAAT-A
1 AGAAATCCAAAATAA
* *
23775994 AGAAATCCAAGACAGA
1 AGAAATCCAAAATA-A
*
23776010 A-AAATCCATAATAA
1 AGAAATCCAAAATAA
*
23776024 AGAAATCCAAAATAC
1 AGAAATCCAAAATAA
*
23776039 AGAAACCCAA
1 AGAAATCCAA
23776049 TATCCATTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 12 0.28
15 29 0.67
16 2 0.05
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.10
Consensus pattern (15 bp):
AGAAATCCAAAATAA
Found at i:23783306 original size:28 final size:28
Alignment explanation
Indices: 23783262--23783318 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
23783252 GGGGTGGAGG
*
23783262 TTGTTGAGCAGCTGAATTTGTTTAAACA
1 TTGTTGAGCAGCCGAATTTGTTTAAACA
*
23783290 TTGTTGAGTAGCCGAATTTGTTTAAACA
1 TTGTTGAGCAGCCGAATTTGTTTAAACA
23783318 T
1 T
23783319 ACTCCGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (28 bp):
TTGTTGAGCAGCCGAATTTGTTTAAACA
Found at i:23785970 original size:21 final size:21
Alignment explanation
Indices: 23785924--23785976 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
23785914 AAAAATCACT
*
23785924 TAATAAAAC-TTGTATAACTA
1 TAATCAAACATTGTATAACTA
*
23785944 TCATCAAACATTG-ATAATCTA
1 TAATCAAACATTGTATAA-CTA
*
23785965 TAATCAATCATT
1 TAATCAAACATT
23785977 AAAATACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (21 bp):
TAATCAAACATTGTATAACTA
Found at i:23788880 original size:7 final size:7
Alignment explanation
Indices: 23788870--23788896 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23788860 GATAATACCC
23788870 GATAAAT
1 GATAAAT
23788877 GATAAAT
1 GATAAAT
23788884 GATAAAT
1 GATAAAT
23788891 GATAAA
1 GATAAA
23788897 AATGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:23790923 original size:15 final size:15
Alignment explanation
Indices: 23790905--23790937 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23790895 TTTATGAAAG
23790905 TTAAATTTTGAGGCT
1 TTAAATTTTGAGGCT
23790920 TTAAATTTTGAGGCT
1 TTAAATTTTGAGGCT
23790935 TTA
1 TTA
23790938 CGACCTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (15 bp):
TTAAATTTTGAGGCT
Found at i:23797616 original size:47 final size:47
Alignment explanation
Indices: 23797547--23797751 Score: 311
Period size: 47 Copynumber: 4.4 Consensus size: 47
23797537 CCCTTCGGGA
* * * *
23797547 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
23797594 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
23797641 CTTATCACATATATACACTTTCACGTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
23797688 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
23797735 TTTATCACATATATACA
1 CTTATCACATATATACA
23797752 TATCACACAT
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:23797801 original size:48 final size:48
Alignment explanation
Indices: 23797725--23797860 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
23797715 CATCACATGG
* *
23797725 GCCATTAGGCTTTATCACATATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTA-C-CACATATACATATCACACATATATTTCACATTA
23797775 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
23797823 GCCATTCGGCTTTACCACATATACATATCACACATATA
1 GCCATTCGGCTTTACCACATATACATATCACACATATA
23797861 CTTATTTATC
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
48 70 0.83
49 1 0.01
50 13 0.15
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
Found at i:23797806 original size:94 final size:95
Alignment explanation
Indices: 23797575--23797860 Score: 302
Period size: 94 Copynumber: 3.0 Consensus size: 95
23797565 TTTCACATCC
* *
23797575 ATCACATTGGCCACTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
* * *
23797640 CCTTATCACATATATACACT-T-TCACGT-T
66 CTTTATCACATATATACA-TATCACACATAT
* *
23797668 CATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAG
1 -ATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
23797733 GCTTTATCACATATATACATATCACACATAT
65 GCTTTATCACATATATACATATCACACATAT
* * * **
23797764 ATTTCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACACATAT-ATTTCACATTAGC
1 A--TCACATTGGCCATTCGGCCTTATCACACATATACACT-T-TCACAT-TCA--TCACATCGGC
* *
23797825 CATTCGGCTTTA-C-CACATATACATATCACACATAT
59 CATTAGGCTTTATCACATATATACATATCACACATAT
23797860 A
1 A
23797861 CTTATTTATC
Statistics
Matches: 167, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
93 1 0.01
94 80 0.48
95 15 0.09
96 30 0.18
97 22 0.13
98 19 0.11
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (95 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
CTTTATCACATATATACATATCACACATAT
Found at i:23800922 original size:29 final size:29
Alignment explanation
Indices: 23800880--23800943 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
23800870 ACAGCCTAAG
*
23800880 ACACGGGCGTGTCCCTGGCCATGTGAGCC
1 ACACGGGCGTGTCCCTGGCCATGTGAACC
*
23800909 ACACGGGCGTGTCCCTGGCCGTGTGAACC
1 ACACGGGCGTGTCCCTGGCCATGTGAACC
23800938 ACACGG
1 ACACGG
23800944 CCTATCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (29 bp):
ACACGGGCGTGTCCCTGGCCATGTGAACC
Found at i:23803477 original size:22 final size:22
Alignment explanation
Indices: 23803427--23803484 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
23803417 CTCTCGTGCA
* *
23803427 TTCTTTTTGCGGCTTTCTATTT
1 TTCTTTTTGTGGCTTTCTATTG
* * *
23803449 TTTTTTTTGTGGCTTTTTGTTG
1 TTCTTTTTGTGGCTTTCTATTG
23803471 TTC-TTTTGTGGCTT
1 TTCTTTTTGTGGCTT
23803485 CTTTAGGCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.02, C:0.12, G:0.19, T:0.67
Consensus pattern (22 bp):
TTCTTTTTGTGGCTTTCTATTG
Found at i:23808152 original size:123 final size:123
Alignment explanation
Indices: 23807933--23808271 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
23807923 GAATTATGTG
23807933 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
23807998 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
23808056 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
23808121 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
23808179 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
23808244 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
23808272 AATTATATCC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:23808295 original size:40 final size:40
Alignment explanation
Indices: 23808240--23808483 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 40
23808230 TGAATGATAC
* * * * **
23808240 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
23808280 CCGGGTTAAGACCCGAAGGCAATCGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
23808320 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
23808360 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
23808400 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
23808440 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
23808480 CCGG
1 CCGG
23808484 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 178 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:23810443 original size:15 final size:15
Alignment explanation
Indices: 23810423--23810453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23810413 GGCTTTTTGT
23810423 TTTTTAGGGTTAAGG
1 TTTTTAGGGTTAAGG
*
23810438 TTTTTAGGGTTTAGG
1 TTTTTAGGGTTAAGG
23810453 T
1 T
23810454 GAGAGAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (15 bp):
TTTTTAGGGTTAAGG
Found at i:23810988 original size:27 final size:27
Alignment explanation
Indices: 23810947--23811009 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
23810937 TGTCATGTGA
* *
23810947 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
23810974 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
23811001 GGTTGAATG
1 AATTGAATG
23811010 AATTGCTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:23811344 original size:49 final size:49
Alignment explanation
Indices: 23811251--23811489 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 49
23811241 TATTGTGAGA
* * *
23811251 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* * * * *
23811300 TCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACTC-GATAACTTTG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-TTAG
* * ***
23811350 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACGGTTAGG
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA-G
* * *
23811401 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* * * * *
23811450 TCGCATATGTAGTACTAGGTGCAGGCTACTATGCGTACCA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
23811490 AATAGCCTTG
Statistics
Matches: 155, Mismatches: 30, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
49 72 0.46
50 48 0.31
51 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
Found at i:23811384 original size:28 final size:27
Alignment explanation
Indices: 23811353--23811436 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
23811343 AACTTTGATC
23811353 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
23811381 ACGTGTATCAG-AC--GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
23811403 ACGTGTGTAGTACTAAGTGCAGGATACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
23811431 ACGTGT
1 ACGTGT
23811437 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 1 0.02
24 3 0.07
25 6 0.14
26 3 0.07
27 1 0.02
28 15 0.36
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:23811523 original size:150 final size:150
Alignment explanation
Indices: 23811251--23811531 Score: 370
Period size: 150 Copynumber: 1.9 Consensus size: 150
23811241 TATTGTGAGA
* * * *
23811251 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTATTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATAATTAGTCGCATATGTAGTACT
* * * * * * *
23811316 AAGTGCAGGCTATTATGCGTACTCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAGGCTACTATGCGTACTCAATAACTTGGATCAAGTGTGTAGAAATAAGTGCAGGCAACT
23811381 ACGTGTATCAGACGGTTAGG
131 ACGTGTATCAGACGGTTAGG
*
23811401 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATAATTGGTCGCATATGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATAATTAGTCGCATATGTAGTACT
* * * *
23811466 AGGTGCAGGCTACTATGCGTAC-CAAATAGCCTTGGCTACAAGTGTG-A-AAATATGTGCAGGCA
66 AAGTGCAGGCTACTATGCGTACTC-AATA-ACTTGGAT-CAAGTGTGTAGAAATAAGTGCAGGCA
23811528 ACTA
128 ACTA
23811532 AGTATCAGTT
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
149 1 0.01
150 98 0.88
151 6 0.05
152 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (150 bp):
TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATAATTAGTCGCATATGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATAACTTGGATCAAGTGTGTAGAAATAAGTGCAGGCAACT
ACGTGTATCAGACGGTTAGG
Found at i:23819023 original size:15 final size:16
Alignment explanation
Indices: 23818993--23819025 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23818983 TTACATTATT
23818993 CAAAATATATATTTTA
1 CAAAATATATATTTTA
23819009 CAAAATATA-ATTTTA
1 CAAAATATATATTTTA
23819024 CA
1 CA
23819026 TTTCAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
CAAAATATATATTTTA
Found at i:23819844 original size:20 final size:20
Alignment explanation
Indices: 23819797--23819845 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
23819787 ATAAAATATT
* *
23819797 ATAAAACAAATAATAAACGA
1 ATAAAAAAAATAATAAACAA
* **
23819817 TTTTAAAAAATAATAAACAA
1 ATAAAAAAAATAATAAACAA
23819837 ATAAAAAAA
1 ATAAAAAAA
23819846 CAAGAAAAAA
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (20 bp):
ATAAAAAAAATAATAAACAA
Found at i:23822977 original size:46 final size:46
Alignment explanation
Indices: 23822910--23823087 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
23822900 TGTAACCCGC
*
23822910 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
23822956 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCATAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * ** *
23823002 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
23823049 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
23823088 CTCAACCATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:23823030 original size:93 final size:93
Alignment explanation
Indices: 23822918--23823088 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
23822908 GCCCATAAGT
* *** *
23822918 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
23822983 CGAGCTCGGATGCATAGTTACATCTCTC
66 CGAGCTCGGATGCATAGTTACATCTCTC
*
23823011 GAACTCGAACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
23823076 CGAGTTCGGATGC
66 CGAGCTCGGATGC
23823089 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCATAGTTACATCTCTC
Found at i:23825529 original size:12 final size:12
Alignment explanation
Indices: 23825512--23825536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23825502 AATATGCTAC
23825512 GGATATGTACAG
1 GGATATGTACAG
23825524 GGATATGTACAG
1 GGATATGTACAG
23825536 G
1 G
23825537 TACGTACGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (12 bp):
GGATATGTACAG
Found at i:23826354 original size:16 final size:16
Alignment explanation
Indices: 23826333--23826370 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
23826323 GAGTGTCTAA
23826333 GTATGTCATGTTGCAT
1 GTATGTCATGTTGCAT
23826349 GTATGTCATGTTGCAT
1 GTATGTCATGTTGCAT
23826365 GCTATG
1 G-TATG
23826371 AAATATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.42
Consensus pattern (16 bp):
GTATGTCATGTTGCAT
Found at i:23829628 original size:18 final size:16
Alignment explanation
Indices: 23829599--23829643 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 16
23829589 AATATAATCA
*
23829599 ATATTTTGAAAATTTT
1 ATATTTTTAAAATTTT
23829615 GATACTTTTTAAAATTTT
1 -ATA-TTTTTAAAATTTT
23829633 ATATTTTTAAA
1 ATATTTTTAAA
23829644 GTTGTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 12 0.46
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
ATATTTTTAAAATTTT
Found at i:23829858 original size:31 final size:30
Alignment explanation
Indices: 23829814--23829888 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
23829804 AGGGTTTATA
23829814 TTTTTTATAATTTTAATAAAATTTTAATAT
1 TTTTTTATAATTTTAATAAAATTTTAATAT
* *
23829844 TTTTTTCTATATTTTTATAAAATTTTAATA-
1 TTTTTTATA-ATTTTAATAAAATTTTAATAT
23829874 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
23829889 TTCATTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.12
30 16 0.40
31 19 0.47
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTATAATTTTAATAAAATTTTAATAT
Found at i:23829876 original size:19 final size:18
Alignment explanation
Indices: 23829852--23829888 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23829842 ATTTTTTTCT
23829852 ATATTTTTATAAAATTTTA
1 ATATTTTT-TAAAATTTTA
*
23829871 ATATTTTTTATAATTTTA
1 ATATTTTTTAAAATTTTA
23829889 TTCATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTTTAAAATTTTA
Found at i:23836599 original size:15 final size:15
Alignment explanation
Indices: 23836579--23836635 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23836569 CCCATTTGAG
*
23836579 AAAAAAGAGCAGCAA
1 AAAAAAGACCAGCAA
**
23836594 AAAAAATTCCAGCAA
1 AAAAAAGACCAGCAA
**
23836609 AAAAAATTTCCAGCAA
1 AAAAAA-GACCAGCAA
*
23836625 AAAAAAAACCA
1 AAAAAAGACCA
23836636 AAAAAAGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
15 21 0.58
16 15 0.42
ACGTcount: A:0.65, C:0.18, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAAGACCAGCAA
Found at i:23836611 original size:16 final size:16
Alignment explanation
Indices: 23836588--23836631 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
23836578 GAAAAAAGAG
23836588 CAGC-AAAAAAAATTC
1 CAGCAAAAAAAAATTC
*
23836603 CAGCAAAAAAAATTTC
1 CAGCAAAAAAAAATTC
23836619 CAGCAAAAAAAAA
1 CAGCAAAAAAAAA
23836632 ACCAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.11
Consensus pattern (16 bp):
CAGCAAAAAAAAATTC
Found at i:23837467 original size:17 final size:17
Alignment explanation
Indices: 23837409--23837469 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
23837399 TTCGAATTTA
23837409 ATATATATATTTT-T--
1 ATATATATATTTTGTAC
* *
23837423 ATA-ACTATATTATATAC
1 ATATA-TATATTTTGTAC
23837440 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
23837457 ATATCAT-TATTTT
1 ATAT-ATATATTTT
23837470 ATATTATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
17 23 0.61
18 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:23838660 original size:296 final size:296
Alignment explanation
Indices: 23838126--23838718 Score: 1132
Period size: 296 Copynumber: 2.0 Consensus size: 296
23838116 TTAATAGAAA
*
23838126 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTTGACATCAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATCAAGACACTAACTAATCAATTC
*
23838191 GGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
23838256 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
23838321 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
*
23838386 AAAGTCGATCCTCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAC
*
23838422 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATCAAGACACTAACTAATCAATTC
* *
23838487 AGTACTAATTTTTGGGCGTGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
23838552 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
23838617 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
23838682 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAC
23838718 A
1 A
23838719 ACTTGGCGAC
Statistics
Matches: 291, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 291 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (296 bp):
AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATCAAGACACTAACTAATCAATTC
AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAC
Found at i:23841491 original size:14 final size:14
Alignment explanation
Indices: 23841472--23841501 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23841462 AAAGAAAATT
23841472 TTCTTCTAATAAAA
1 TTCTTCTAATAAAA
*
23841486 TTCTTCTAATGAAA
1 TTCTTCTAATAAAA
23841500 TT
1 TT
23841502 GAATTGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (14 bp):
TTCTTCTAATAAAA
Found at i:23850015 original size:77 final size:75
Alignment explanation
Indices: 23849826--23850787 Score: 1166
Period size: 75 Copynumber: 12.5 Consensus size: 75
23849816 TTTATTTCTA
* * * *
23849826 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23849891 AATTTCTGTT
66 AATTTCTGTT
** ** *
23849901 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTT
*
23849964 TCAATTTCTATT
64 TCAATTTCTGTT
*
23849976 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23850041 AATTTCTGTTCAATTTATGT
66 AATTTCTG---------T-T
* **
23850061 CTTTCAAAACAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 -TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
**
23850126 CAATTTCTGCC
65 CAATTTCTGTT
** *
23850137 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
*
23850202 TCAATTTCTGTC
64 TCAATTTCTGTT
* *
23850214 TTTCAAAAAAATCCACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23850279 AATTTCTGTC
66 AATTTCTGTT
*
23850289 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23850354 AATTT-TTTT
66 AATTTCTGTT
**
23850363 CTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 -TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
*
23850428 CAATTTCTGTC
65 CAATTTCTGTT
**
23850439 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23850504 AATTTCTGTC
66 AATTTCTGTT
* * *
23850514 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATT
* **
23850578 TTTAATTTCTACT
63 TTCAATTTCTGTT
* * **
23850591 TTTCAAAAAAATCAATCAACTCATATTGAGAGAGGTGAGTTGAACCTCAAAGCACACCCTGAGGT
1 TTTC--AAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAG-ACACGTTGAGGT
23850656 ATTTTCAATTTCTGTT
60 ATTTTCAATTTCTGTT
* * *
23850672 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTAT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
*
23850737 TTTCAAGTTTTTGGCTT
62 TTTCAA-TTTCT-G-TT
23850754 TTT---AAAAATCAACTCATAATT-CGAGAGGTGAGTT
1 TTTCAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTT
23850788 AAACTTCATA
Statistics
Matches: 794, Mismatches: 60, Indels: 64
0.86 0.07 0.07
Matches are distributed among these distances:
73 40 0.05
74 3 0.00
75 374 0.47
76 2 0.00
77 163 0.21
78 5 0.01
79 57 0.07
80 4 0.01
81 69 0.09
82 5 0.01
83 1 0.00
84 1 0.00
85 1 0.00
86 69 0.09
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTT
Found at i:23851049 original size:31 final size:31
Alignment explanation
Indices: 23851014--23851098 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 31
23851004 TTGTATTTTG
*
23851014 ACCCCTAAACTTTTCTTTAAATTTCACTTAA
1 ACCCCTAAACTTTTCTTTAAATTACACTTAA
* * *
23851045 ACCCCTAAAC-TTTCCTTAAATTACATTTTA
1 ACCCCTAAACTTTTCTTTAAATTACACTTAA
**
23851075 A-CCCTAAA-TTTTCTAAAAATTACA
1 ACCCCTAAACTTTTCTTTAAATTACA
23851099 TTTAGCCCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 19 0.41
30 17 0.37
31 10 0.22
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (31 bp):
ACCCCTAAACTTTTCTTTAAATTACACTTAA
Found at i:23851326 original size:15 final size:15
Alignment explanation
Indices: 23851306--23851361 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23851296 CCCATTTGAG
*
23851306 AAAAAAGAGCAGCAA
1 AAAAAAGACCAGCAA
**
23851321 AAAAAATTCCAGCAA
1 AAAAAAGACCAGCAA
**
23851336 AAAAAATTTCCAGCAA
1 AAAAAA-GACCAGCAA
23851352 AAAAAA-ACCA
1 AAAAAAGACCA
23851362 AAAAAAGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 3 0.08
15 18 0.50
16 15 0.42
ACGTcount: A:0.64, C:0.18, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAAGACCAGCAA
Found at i:23851338 original size:16 final size:16
Alignment explanation
Indices: 23851315--23851358 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
23851305 GAAAAAAGAG
23851315 CAGC-AAAAAAAATTC
1 CAGCAAAAAAAAATTC
*
23851330 CAGCAAAAAAAATTTC
1 CAGCAAAAAAAAATTC
23851346 CAGCAAAAAAAAA
1 CAGCAAAAAAAAA
23851359 CCAAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.11
Consensus pattern (16 bp):
CAGCAAAAAAAAATTC
Found at i:23851925 original size:15 final size:16
Alignment explanation
Indices: 23851892--23851925 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23851882 TTTTATTTGT
23851892 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
23851908 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
23851923 AAT
1 AAT
23851926 AAAAAATAAA
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:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:23853358 original size:296 final size:296
Alignment explanation
Indices: 23852824--23853419 Score: 1120
Period size: 296 Copynumber: 2.0 Consensus size: 296
23852814 TTAATAGAAA
*
23852824 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTTGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
*
23852889 AGTACCAATTTTTGCGTGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
23852954 ATTCTCTCAAGTTTCGTAGACCAAAGGCACTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCACTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
23853019 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTCAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTCAATTTTCACTTTCAAAC
*
23853084 AAAGTAGATCCTCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTAGATCCCCGTTTTCAAAAGAATGGTTTCGAC
23853120 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
* *
23853185 GGTACCAATTTTTGGGCGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
*
23853250 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCACTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
*
23853315 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTCAATTTTCACTTTCAAAC
*
23853380 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTAGATCCCCGTTTTCAAAAGAATGGTTTCGAC
23853416 AGAT
1 AGAT
23853420 GAAATTGAAA
Statistics
Matches: 292, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
296 292 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (296 bp):
AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
AGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
ATTCTCTCAAGTTTCGTAGACCAAAGGCACTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTCAATTTTCACTTTCAAAC
AAAGTAGATCCCCGTTTTCAAAAGAATGGTTTCGAC
Found at i:23855380 original size:46 final size:46
Alignment explanation
Indices: 23855182--23855450 Score: 180
Period size: 46 Copynumber: 5.7 Consensus size: 46
23855172 GTATAATTCT
*
23855182 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCCATCAA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCAAGGCC
* * * **
23855229 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-TGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCTCAAG-GCC
* * * * **
23855279 GATGCCATGTCCCAGACATGGTCTTATACT-G-ACACATTTTGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCA-TCTCAAGGCC
* *
23855325 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGGCC
* *
23855371 GATGCATGTCCCAGACATGTC-TACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
23855416 -AGTGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GA-TG-CATGTCCCAGACAT-GTCTTACACTGGCTC
23855451 ACAAATGACC
Statistics
Matches: 180, Mismatches: 25, Indels: 33
0.76 0.11 0.14
Matches are distributed among these distances:
44 10 0.06
45 38 0.21
46 47 0.26
47 35 0.19
48 12 0.07
49 5 0.03
50 30 0.17
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
Found at i:23860899 original size:50 final size:46
Alignment explanation
Indices: 23860802--23860930 Score: 125
Period size: 50 Copynumber: 2.7 Consensus size: 46
23860792 TGATAATTTG
* * * * *
23860802 TATAGTTTCAAATATAGCATTGATCATTATATTAGATTTGTGTTGAATGAC
1 TATA-TTTTAAATATAACATTGATCATTATATTAGA-AT-AG-T-AATGAA
*
23860853 TAAATTTTAAATATAACATTGATCATTATATT-GTAATAGTAATGAA
1 TATATTTTAAATATAACATTGATCATTATATTAG-AATAGTAATGAA
*
23860899 TATATTTTAAGATATAACATTGAACATTATAT
1 TATATTTTAA-ATATAACATTGATCATTATAT
23860931 GTTTGTTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
46 14 0.21
47 21 0.31
48 1 0.01
49 2 0.03
50 27 0.40
51 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (46 bp):
TATATTTTAAATATAACATTGATCATTATATTAGAATAGTAATGAA
Found at i:23867048 original size:22 final size:22
Alignment explanation
Indices: 23867020--23867064 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23867010 GAGTCAAAAC
23867020 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
23867042 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
23867064 A
1 A
23867065 CCTTGTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (22 bp):
AGGGGAACCCGAAATCATTCTG
Found at i:23869443 original size:24 final size:25
Alignment explanation
Indices: 23869407--23869454 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
23869397 TCAAACATGC
23869407 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
23869432 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
23869455 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:23870966 original size:26 final size:26
Alignment explanation
Indices: 23870930--23871012 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
23870920 CATGAAATTC
23870930 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23870956 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23870981 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23871007 TTATCA
1 TTATCA
23871013 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23875172 original size:25 final size:26
Alignment explanation
Indices: 23875135--23875186 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
23875125 TCAAACATGC
23875135 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
23875161 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
23875186 A
1 A
23875187 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:23876732 original size:25 final size:26
Alignment explanation
Indices: 23876663--23876745 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
23876653 CATGAAATTC
23876663 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23876689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
23876715 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23876740 TTATCA
1 TTATCA
23876746 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
25 22 0.39
26 34 0.61
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23879791 original size:2 final size:2
Alignment explanation
Indices: 23879784--23879828 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23879774 GTTTAATACT
23879784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23879826 TA T
1 TA T
23879829 CTTTATAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23879937 original size:19 final size:19
Alignment explanation
Indices: 23879877--23879947 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
23879867 TTTAATACGT
23879877 TTTTATAAAATTTT-A-AA
1 TTTTATAAAATTTTCATAA
23879894 TATTT-TAAACATGTTTCATTAA
1 T-TTTATAAA-AT-TTTCA-TAA
23879916 TTTTATAAAATTTTCATAA
1 TTTTATAAAATTTTCATAA
*
23879935 TTTAATAGAAATT
1 TTTTATA-AAATT
23879948 ATTTTATCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.11
18 5 0.11
19 12 0.27
20 11 0.24
21 5 0.11
22 7 0.16
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTATAAAATTTTCATAA
Found at i:23880006 original size:10 final size:10
Alignment explanation
Indices: 23879981--23880043 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
23879971 TAATATATAA
23879981 TATTTTTTGAT
1 TATTTTTT-AT
*
23879992 AATTTTTTAT
1 TATTTTTTAT
*
23880002 GATTTTTTATT
1 TATTTTTTA-T
23880013 ATATTTTTTAT
1 -TATTTTTTAT
*
23880024 TATTTTTTAA
1 TATTTTTTAT
*
23880034 TAGTTTTTAT
1 TATTTTTTAT
23880044 GGAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 27 0.61
11 9 0.20
12 8 0.18
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:23880009 original size:12 final size:12
Alignment explanation
Indices: 23879994--23880031 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
23879984 TTTTTGATAA
23879994 TTTT-TTATGATT
1 TTTTATTAT-ATT
23880006 TTTTATTATATT
1 TTTTATTATATT
23880018 TTTTATTAT-TT
1 TTTTATTATATT
23880029 TTT
1 TTT
23880032 AATAGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 16 0.64
13 4 0.16
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:23880018 original size:22 final size:20
Alignment explanation
Indices: 23879982--23880044 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 20
23879972 AATATATAAT
*
23879982 ATTTTTTGATAATTTTTTATG
1 ATTTTTTAAT-ATTTTTTATG
*
23880003 ATTTTTTATTATATTTTTTATT
1 ATTTTTTA--ATATTTTTTATG
*
23880025 ATTTTTTAATAGTTTTTATG
1 ATTTTTTAATATTTTTTATG
23880045 GAAAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 10 0.28
21 7 0.19
22 17 0.47
23 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
ATTTTTTAATATTTTTTATG
Found at i:23881929 original size:33 final size:33
Alignment explanation
Indices: 23881887--23881956 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
23881877 TGTATGTACA
*
23881887 AAACGTTTAAAAACATAGCATTTACATATATAT
1 AAACGTTTAAAAACATAGCATTTACATATATAC
23881920 AAACGTTTAAAAACATAGCATTTACATATATAC
1 AAACGTTTAAAAACATAGCATTTACATATATAC
23881953 AAAC
1 AAAC
23881957 CAAACATAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (33 bp):
AAACGTTTAAAAACATAGCATTTACATATATAC
Found at i:23883488 original size:16 final size:16
Alignment explanation
Indices: 23883467--23883501 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23883457 ACTGATGACT
23883467 CAACTTTAAAACGCTA
1 CAACTTTAAAACGCTA
23883483 CAACTTTAAAACGCTA
1 CAACTTTAAAACGCTA
23883499 CAA
1 CAA
23883502 GAGTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (16 bp):
CAACTTTAAAACGCTA
Found at i:23883940 original size:2 final size:2
Alignment explanation
Indices: 23883933--23883972 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23883923 AATTTACCCT
23883933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23883973 CAAATTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23885411 original size:13 final size:13
Alignment explanation
Indices: 23885366--23885416 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
23885356 ATATTTTCAT
23885366 TATTTTAAATATA
1 TATTTTAAATATA
*
23885379 T-TTTGTAATATATT
1 TATTT-TAA-ATATA
*
23885393 TGTTTTAAATATA
1 TATTTTAAATATA
23885406 TATTTTAAATA
1 TATTTTAAATA
23885417 AGTAGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.09
13 18 0.56
14 8 0.25
15 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:23887483 original size:17 final size:17
Alignment explanation
Indices: 23887426--23887474 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
23887416 TACATGACCG
*
23887426 TGCCACATGGCCATGCA
1 TGCCACATGACCATGCA
23887443 TGCCACATGACCATGCA
1 TGCCACATGACCATGCA
23887460 TGCCACATGACCATG
1 TGCCACATGACCATG
23887475 TGTGTCACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.20, T:0.18
Consensus pattern (17 bp):
TGCCACATGACCATGCA
Found at i:23893483 original size:6 final size:6
Alignment explanation
Indices: 23893472--23893583 Score: 113
Period size: 6 Copynumber: 18.3 Consensus size: 6
23893462 TATCAAAACT
* *
23893472 AGAATC AGAATC AGAATC AGAATC AAAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
23893520 AG-GTGAC AGAATC AGAATC AGAATC A-ATATC AGGTAA-C AGAATC AAAATC
1 AGAAT--C AGAATC AGAATC AGAATC AGA-ATC A-G-AATC AGAATC AGAATC
*
23893570 AGAATC AGCATC AG
1 AGAATC AGAATC AG
23893584 GTAACAGAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
5 4 0.04
6 78 0.88
7 4 0.04
8 2 0.02
9 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:23893536 original size:31 final size:31
Alignment explanation
Indices: 23893472--23893593 Score: 160
Period size: 31 Copynumber: 4.0 Consensus size: 31
23893462 TATCAAAACT
*
23893472 AGAATCAGAATCAGAATCA-G-AATCAAAATC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAATC
* *
23893502 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
23893533 AGAATCAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGGTAACAGAATC
* *
23893564 AAAATCAGAATCAGCATCAGGTAACAGAAT
1 AGAATCAGAATCAGAATCAGGTAACAGAAT
23893594 TAAAAATCAG
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
30 19 0.23
31 61 0.75
32 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:23893785 original size:27 final size:26
Alignment explanation
Indices: 23893743--23893844 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
23893733 GCTCAGTTAT
* *
23893743 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
23893770 CAGATATTATGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
23893796 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
23893824 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
23893845 TTAAAAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.80
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:23894037 original size:22 final size:22
Alignment explanation
Indices: 23894003--23894067 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
23893993 GCAAATACGT
*
23894003 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
23894025 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
23894047 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
23894068 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:23894958 original size:27 final size:27
Alignment explanation
Indices: 23894521--23894950 Score: 533
Period size: 27 Copynumber: 15.9 Consensus size: 27
23894511 AGGTATCTTA
23894521 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23894548 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
** *
23894575 GTAATTCTATTCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
23894602 GTAATTCTAACCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23894629 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
23894656 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
23894683 GTAATTCTACCCTATAGAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
**
23894710 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23894737 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
23894764 GTAATTCTACCCTACAGGGATATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23894791 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23894818 GTAATTCTTCCCTACAGGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-G
*
23894845 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* ** *
23894872 GTAATTTTA-CAAACTAGGGGTATTTTG
1 GTAATTCTACCCTAC-AGGGGTATTTCG
* ** * *
23894899 GTAATTTTA-CAAACTAGCGGTATTTTG
1 GTAATTCTACCCTAC-AGGGGTATTTCG
* *
23894926 GTAATTCTATCCTACAAGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
23894951 TAGTAATTTC
Statistics
Matches: 358, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.01
27 348 0.97
28 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:23895009 original size:27 final size:27
Alignment explanation
Indices: 23894963--23895159 Score: 211
Period size: 27 Copynumber: 7.3 Consensus size: 27
23894953 GTAATTTCAC
** * *
23894963 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
23894990 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
23895017 AATCGAGGGTAAACA--GTAATTCTATA
1 AATCGAGGGTAAA-ATGGTAATTCTATA
*
23895043 AATAGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
23895070 AATTGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
23895097 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
23895124 AATCGAAGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
23895151 AATCGAGGG
1 AATCGAGGG
23895160 CATTTTAGTA
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 22 0.15
27 118 0.83
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:23895026 original size:80 final size:80
Alignment explanation
Indices: 23894967--23895148 Score: 247
Period size: 80 Copynumber: 2.3 Consensus size: 80
23894957 TTTCACAATC
* * *
23894967 GAGGGTAAAACAGTAATTTTGTAAACTGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAAACA
1 GAGGGTAAAACAGTAATTCTATAAACTGAAGGTAAAATAGTAATTTTGTAAATCGAGGGTAAACA
23895032 GTAATTCTATAAATA
66 GTAATTCTATAAATA
** * *
23895047 GAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTGAAAC
1 GAGGGTAAAACAGTAATTCTATAAACTGAAGGTAAAATAGTAATTTTGTAAATCGAGGGT-AAAC
* *
23895112 GGTAATTCTATAAATC
65 AGTAATTCTATAAATA
* **
23895128 GAAGGTAAAATGGTAATTCTA
1 GAGGGTAAAACAGTAATTCTA
23895149 CAAATCGAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 53 0.58
81 38 0.42
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (80 bp):
GAGGGTAAAACAGTAATTCTATAAACTGAAGGTAAAATAGTAATTTTGTAAATCGAGGGTAAACA
GTAATTCTATAAATA
Found at i:23895145 original size:81 final size:80
Alignment explanation
Indices: 23894963--23895179 Score: 281
Period size: 81 Copynumber: 2.7 Consensus size: 80
23894953 GTAATTTCAC
** * * * * *
23894963 AATCGAGGGTAAAACAGTAATTTTGTAAACTGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
23895028 AACAGTAATTCTATA
66 AACAGTAATTCTATA
*
23895043 AATAGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGT-
*
23895108 AAACGGTAATTCTATA
65 AAACAGTAATTCTATA
* * * * ***
23895124 AATCGAAGGTAAAATGGTAATTCTACAAATCGAGGGCATTTTAGTAATTTTGTAAA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAA
23895180 CCAATAGTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 56 0.47
81 63 0.53
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (80 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
AACAGTAATTCTATA
Found at i:23895253 original size:27 final size:27
Alignment explanation
Indices: 23895238--23895418 Score: 220
Period size: 27 Copynumber: 6.7 Consensus size: 27
23895228 TTTGTAAATT
*
23895238 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
23895264 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* *
23895292 AGTGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
23895319 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * **
23895346 AAGGGTATTTTGGTAATTTTATAAATA
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
23895373 AAGGGTATTTTAGTAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
23895400 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
23895419 GGTAAACTAA
Statistics
Matches: 130, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:23895330 original size:81 final size:81
Alignment explanation
Indices: 23895211--23895418 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
23895201 TTAGAAAGTT
** ** * *
23895211 AAGGGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 AAGGGTATTT-TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
*
23895275 CGGTAATTTCACAAA-C
65 CGGTAATTTCACAAATA
*
23895291 CAGTGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
1 AAG-GGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
* * *
23895355 TTGGTAATTTTATAAATA
64 TCGGTAATTTCACAAATA
*
23895373 AAGGGTATTTTAGTAATTTTACAAGCCAGGGGTATTTTGGTAATTT
1 AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
23895419 GGTAAACTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
80 4 0.04
81 104 0.94
82 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTC
GGTAATTTCACAAATA
Found at i:23896749 original size:362 final size:362
Alignment explanation
Indices: 23896247--23896950 Score: 1205
Period size: 362 Copynumber: 1.9 Consensus size: 362
23896237 TGGTGTTACA
* * * *
23896247 GATGTACAGAAAGGTGAACTCACCATGTGAGTTTAAGACGATCAGGTAACTTTTAACATTCTTAA
1 GATGTACAGAAAGGCGAACTCACCATGCGAGTTCAAGACGATCAAGTAACTTTTAACATTCTTAA
* * * * *
23896312 AGCGATGAAATTTCTCGATCCGAAAAAAGAGTGCTTAGTTTTGGAAGAAATAGAAACCTTGATTT
66 AGCGATGAAATTTCCCGATCCGAAAAAAGAGTGCTCAGTTATGGAAGAAATAGAAACCTTAAATT
23896377 CTATGTAAAGCCATCTTGAA-AAAGATCCATTGGAGAAAGT-CTTAGGGTTTGACCCTTTGGAGG
131 CTATGTAAAGCCATCTTGAAGAAA-ATCCATTGGAGAAA-TCCTTAGGGTTTGACCCTTTGGAGG
23896440 ATAAAGAATGTGAAGAAAACATGGCTGTGATGGAAGCCAACCCGAGGAATTTTATTCGATCCACA
194 ATAAAGAATGTGAAGAAAACATGGCTGTGATGGAAGCCAACCCGAGGAATTTTATTCGATCCACA
* *
23896505 TGATTTGAACCATTGGAATTGGAAGTTAGAAAATTTGTGCAACCCAAATTGTCAATCGAAGAACC
259 CGATTTGAACCATTGGAATTGGAAGTCAGAAAATTTGTGCAACCCAAATTGTCAATCGAAGAACC
23896570 ACCTACACTCCAAATAAAGTGACGGGAAGAACATTAATT
324 ACCTACACTCCAAATAAAGTGACGGGAAGAACATTAATT
*
23896609 GATGTATAGAAAGGCGAACTCACCATGCGAGTTCAAGACGATCAAGTAACTTTTAACATTCTTAA
1 GATGTACAGAAAGGCGAACTCACCATGCGAGTTCAAGACGATCAAGTAACTTTTAACATTCTTAA
* *
23896674 AGCGATGAAATTTCCCGATCCGACAGAAGAGTGCTCAGTTATGGAAGAAATAGAAACCTTAAATT
66 AGCGATGAAATTTCCCGATCCGAAAAAAGAGTGCTCAGTTATGGAAGAAATAGAAACCTTAAATT
23896739 CTATGTAAAGCCATCTTGAAGAAAATCCATTGGAGAAATCCTTAGGGTTTGACCCTTTGGAGGAT
131 CTATGTAAAGCCATCTTGAAGAAAATCCATTGGAGAAATCCTTAGGGTTTGACCCTTTGGAGGAT
* *
23896804 GAAGAATGTGAAGAAAACATGGCTGTGATGGAAGCCAACCTGAGGAATTTTATTCGATCCACACG
196 AAAGAATGTGAAGAAAACATGGCTGTGATGGAAGCCAACCCGAGGAATTTTATTCGATCCACACG
*
23896869 GTTTGAACCATTGGAATTGGAAGTCAGAAAATTTGTGCAACCCAAATTGTCAATCGAAGAACCAC
261 ATTTGAACCATTGGAATTGGAAGTCAGAAAATTTGTGCAACCCAAATTGTCAATCGAAGAACCAC
* *
23896934 CTACACTCGAACTAAAG
326 CTACACTCCAAATAAAG
23896951 GTACTTCCTT
Statistics
Matches: 321, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
361 1 0.00
362 317 0.99
363 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (362 bp):
GATGTACAGAAAGGCGAACTCACCATGCGAGTTCAAGACGATCAAGTAACTTTTAACATTCTTAA
AGCGATGAAATTTCCCGATCCGAAAAAAGAGTGCTCAGTTATGGAAGAAATAGAAACCTTAAATT
CTATGTAAAGCCATCTTGAAGAAAATCCATTGGAGAAATCCTTAGGGTTTGACCCTTTGGAGGAT
AAAGAATGTGAAGAAAACATGGCTGTGATGGAAGCCAACCCGAGGAATTTTATTCGATCCACACG
ATTTGAACCATTGGAATTGGAAGTCAGAAAATTTGTGCAACCCAAATTGTCAATCGAAGAACCAC
CTACACTCCAAATAAAGTGACGGGAAGAACATTAATT
Found at i:23910288 original size:23 final size:22
Alignment explanation
Indices: 23910257--23910306 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
23910247 ATAGTTGATT
* *
23910257 TTAAATTTTTTATTATTAGACTG
1 TTAAATTTTATA-TATTACACTG
*
23910280 TTAAGTTTTATATATTACACTG
1 TTAAATTTTATATATTACACTG
23910302 -TAAAT
1 TTAAAT
23910307 AGGCATTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 10 0.43
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (22 bp):
TTAAATTTTATATATTACACTG
Found at i:23910741 original size:16 final size:18
Alignment explanation
Indices: 23910714--23910749 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
23910704 ATGATAGCCT
23910714 AAAAAGTGC-AAAAGAAA
1 AAAAAGTGCAAAAAGAAA
23910731 AAAAAGT-CAAAAAGAAA
1 AAAAAGTGCAAAAAGAAA
23910748 AA
1 AA
23910750 TTACATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAAGTGCAAAAAGAAA
Found at i:23915815 original size:46 final size:46
Alignment explanation
Indices: 23915762--23916019 Score: 198
Period size: 47 Copynumber: 5.5 Consensus size: 46
23915752 GTTGTTGGAT
23915762 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAG-CACATTATGAGAGCC
* *
23915808 AGTGTAAGACCATGTCTGGGACATGGCATCAG--CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACATT---ATGAGAGCC
* *
23915856 AGTGTAAGA-CATGTCTGGGACATGCATCGGC-C-TCGA-GACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCACAT-TATGA-G--AGCC
* * * * *
23915902 AGTGTAAGA-CATGCCTGGGACATGCATCGGCTACGA-GATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGC-AC-ATTATGAGAGCC
*
23915948 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACATT---ATGAGAGCC
*
23915995 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
23916020 GCATAGGCAC
Statistics
Matches: 177, Mismatches: 14, Indels: 42
0.76 0.06 0.18
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 6 0.03
46 62 0.35
47 72 0.41
48 31 0.18
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCACATTATGAGAGCC
Found at i:23916017 original size:140 final size:140
Alignment explanation
Indices: 23915762--23916019 Score: 378
Period size: 140 Copynumber: 1.8 Consensus size: 140
23915752 GTTGTTGGAT
* *
23915762 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGCCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
23915827 GACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
66 GACATGGCATCAGCATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
23915892 GACGTAAGCC
131 GACGTAAGCC
* * * *
23915902 AGTGTAAGACATGCCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGCCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
* *
23915966 GGACATGGCATC-G-ACTTGAGATGTGAGCCAGTGTAAGACCATGTCTAGGACATG
65 GGACATGGCATCAGCA-TTGAGACGAGAGCCAGTGTAAGA-CATGTCTAGGACATG
23916020 GCATAGGCAC
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 82 0.78
141 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATGCCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:23916020 original size:47 final size:47
Alignment explanation
Indices: 23915803--23916023 Score: 247
Period size: 47 Copynumber: 4.7 Consensus size: 47
23915793 CACATTATGA
* *
23915803 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TCGAGACGT
* *
23915851 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGACGT
* * * *
23915897 AAGCCAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACG-T
* * *
23915944 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGT
*
23915990 GAGCCAGTGTAAGACCATGTCTAGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
23916024 AGGCACCTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
45 3 0.02
46 61 0.40
47 66 0.44
48 21 0.14
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGT
Found at i:23919115 original size:42 final size:42
Alignment explanation
Indices: 23918958--23919106 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
23918948 CATACCAATA
* * * *
23918958 CCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCGATG
1 CCATATCCCAGATATGGCCTTACACG-AAGTCTCATATAGATG
* * * * * **
23919000 CCA-ATAGCTAGCTATGGTCTTACACGAAATCTCATATCTATG
1 CCATAT-CCCAGATATGGCCTTACACGAAGTCTCATATAGATG
* *
23919042 CCATATCCCATATATGGTCTTACACGAAGTCTCATATAGATG
1 CCATATCCCAGATATGGCCTTACACGAAGTCTCATATAGATG
23919084 CCATATCCCAGATATGGCCTTAC
1 CCATATCCCAGATATGGCCTTAC
23919107 TCATAGTCTT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.04
42 83 0.93
43 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGCCTTACACGAAGTCTCATATAGATG
Found at i:23925586 original size:42 final size:42
Alignment explanation
Indices: 23925477--23925626 Score: 187
Period size: 42 Copynumber: 3.5 Consensus size: 42
23925467 CTTACCAATG
* * * *
23925477 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATT
* *
23925519 CCAACAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGATT
1 CC-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATCGATT
* *
23925562 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATAGATGT
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGAT-T
23925605 -CATATCCCAGATATGGTCTTAC
1 CCATATCCCAGATATGGTCTTAC
23925627 CCATAGTCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 58 0.62
43 36 0.38
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATT
Found at i:23926446 original size:38 final size:38
Alignment explanation
Indices: 23926387--23926466 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
23926377 AACCCTAGCC
23926387 ATGG-TTTCCTCTTGTAAATTTTGGCCATGGGAGAAAG
1 ATGGATTTCCTCTTGTAAATTTTGGCCATGGGAGAAAG
*
23926424 ATGGATTTTCTCTTGTAAATTTTGGCCATGGGAGAAAG
1 ATGGATTTCCTCTTGTAAATTTTGGCCATGGGAGAAAG
23926462 ATGGA
1 ATGGA
23926467 CAAAAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (38 bp):
ATGGATTTCCTCTTGTAAATTTTGGCCATGGGAGAAAG
Found at i:23927622 original size:2 final size:2
Alignment explanation
Indices: 23927617--23927645 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23927607 AAGTATAGAC
23927617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23927646 GGCATGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23931072 original size:17 final size:17
Alignment explanation
Indices: 23931052--23931093 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23931042 TAAATTGTAC
23931052 TATTTATAT-TATTGAA
1 TATTTATATATATTGAA
23931068 TTATTTA-ATCATATTGAA
1 -TATTTATAT-ATATTGAA
23931086 TATTTATA
1 TATTTATA
23931094 AATTTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TATTTATATATATTGAA
Found at i:23936855 original size:30 final size:30
Alignment explanation
Indices: 23936801--23936930 Score: 169
Period size: 30 Copynumber: 4.4 Consensus size: 30
23936791 TAGTGAATCT
*
23936801 GCACACTTAGTGCTATAT-ATTTTCAGCTC
1 GCACACTTAGTGCTATATAATTTTCAACTC
*
23936830 GCACACTTAGTGCTATATAATTTTCAGCTC
1 GCACACTTAGTGCTATATAATTTTCAACTC
23936860 GCACACTTAGTGCTATATAA---TCAAACTC
1 GCACACTTAGTGCTATATAATTTTC-AACTC
* * * *
23936888 GCACACTTAGTGCTGTACAATTTTAAACCC
1 GCACACTTAGTGCTATATAATTTTCAACTC
23936918 GCACACTTAGTGC
1 GCACACTTAGTGC
23936931 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 18 0.20
30 48 0.53
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
GCACACTTAGTGCTATATAATTTTCAACTC
Found at i:23936910 original size:58 final size:58
Alignment explanation
Indices: 23936801--23936930 Score: 172
Period size: 58 Copynumber: 2.2 Consensus size: 58
23936791 TAGTGAATCT
* * * * * *
23936801 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTC
1 GCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAACCC
*
23936860 GCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCC
1 GCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAACCC
23936918 GCACACTTAGTGC
1 GCACACTTAGTGC
23936931 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.67
59 19 0.30
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (58 bp):
GCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCC
Found at i:23942653 original size:14 final size:14
Alignment explanation
Indices: 23942634--23942672 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23942624 GTTTGATAGT
* *
23942634 AAAATGTTTTCCGG
1 AAAATGATTTACGG
*
23942648 AAAATGATTTATGG
1 AAAATGATTTACGG
23942662 AAAATGATTTA
1 AAAATGATTTA
23942673 TTTTTCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (14 bp):
AAAATGATTTACGG
Found at i:23942673 original size:14 final size:14
Alignment explanation
Indices: 23942646--23942673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23942636 AATGTTTTCC
23942646 GGAAAATGATTTAT
1 GGAAAATGATTTAT
23942660 GGAAAATGATTTAT
1 GGAAAATGATTTAT
23942674 TTTTCTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
GGAAAATGATTTAT
Found at i:23942804 original size:20 final size:20
Alignment explanation
Indices: 23942781--23942820 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23942771 CTATTTTTAC
23942781 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
23942801 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
23942821 TTTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:23942825 original size:16 final size:18
Alignment explanation
Indices: 23942776--23942820 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
23942766 AAAAGCTATT
* *
23942776 TTTACATATATTAATAAA
1 TTTATATATTTTAATAAA
23942794 TTTATATATATATTAATAAA
1 TTTATATAT-T-TTAATAAA
23942814 TTTATAT
1 TTTATAT
23942821 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATTTTAATAAA
Found at i:23942882 original size:18 final size:18
Alignment explanation
Indices: 23942859--23942894 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23942849 GATTTATTTA
23942859 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
23942877 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
23942895 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:23951276 original size:40 final size:40
Alignment explanation
Indices: 23951210--23951360 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
23951200 AAATTGAATG
* * *
23951210 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
23951249 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
23951289 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
23951329 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
23951361 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:23959289 original size:40 final size:40
Alignment explanation
Indices: 23959223--23959389 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
23959213 AAATTGAATG
* * *
23959223 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
23959262 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
23959302 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
23959342 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
23959382 ATATCCGG
1 ATATCCGG
23959390 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:23963368 original size:14 final size:14
Alignment explanation
Indices: 23963346--23963379 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23963336 AACATCATGC
*
23963346 AATTATAACTTCAA
1 AATTATAACATCAA
*
23963360 AATTTTAACATCAA
1 AATTATAACATCAA
23963374 AATTAT
1 AATTAT
23963380 CAGAATTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTATAACATCAA
Found at i:23963576 original size:15 final size:15
Alignment explanation
Indices: 23963556--23963586 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23963546 GTAAAATAAA
23963556 AGCTATAAATCACCT
1 AGCTATAAATCACCT
23963571 AGCTATAAATCACCT
1 AGCTATAAATCACCT
23963586 A
1 A
23963587 CTCAAATGCT
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:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
AGCTATAAATCACCT
Found at i:23966005 original size:48 final size:48
Alignment explanation
Indices: 23965773--23966005 Score: 263
Period size: 48 Copynumber: 4.9 Consensus size: 48
23965763 TATAGATACA
* * * * * *
23965773 GATGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCATAACAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCC
* * * * * *
23965821 GAGGCCATGTTTCAAACATGGTCCTACACTGGCTCACACAACAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCC
* * *
23965869 GATGCCATGTTCTAAACATGGTCTTACACTGGCTCATATATCGAA-GTC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC-AATGCC
* *
23965917 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAA-GCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC-AATGCC
* *
23965965 AATGCCAAGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
23966006 AAGCTTAGTA
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
48 154 0.99
49 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCC
Found at i:23967685 original size:137 final size:137
Alignment explanation
Indices: 23967439--23967851 Score: 754
Period size: 137 Copynumber: 3.0 Consensus size: 137
23967429 TTGGTGAAAG
* * *
23967439 AACGTGCGAAGGGTTAGAACGGTAACATTGTAACATTGATATATGGAATACATCATGGATCTTCT
1 AACGTGTGAAGGGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATGGATCTTCT
23967504 CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
66 CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
23967569 CCAATAA
131 CCAATAA
23967576 AACGTGTGAAGGGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATGGATCTTCT
1 AACGTGTGAAGGGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATGGATCTTCT
23967641 CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
66 CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
23967706 CCAATAA
131 CCAATAA
* *
23967713 AACGTGTGAAGAGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATAGATCTTCT
1 AACGTGTGAAGGGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATGGATCTTCT
* * *
23967778 CTAACTTAGACGGTAAAGCTAATCAGTATGCTACCGGTCTAATATTCTCGGTTACTTCATAGGGT
66 CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
23967843 CCAATAA
131 CCAATAA
23967850 AA
1 AA
23967852 TATGGACTTA
Statistics
Matches: 268, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 268 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (137 bp):
AACGTGTGAAGGGTTAGAACGGTAACATTGTAACATTGACACATGGAATACATCATGGATCTTCT
CTAACTCAGACGGTAAAGCTAATCAGTATGCTACCGGTCTGATTTTCTCGGTTACTTCATAGGGT
CCAATAA
Found at i:23983399 original size:48 final size:48
Alignment explanation
Indices: 23983274--23983609 Score: 274
Period size: 48 Copynumber: 7.0 Consensus size: 48
23983264 AAATAGTAGG
* *
23983274 ATGCCGATGCCATG-TCTCAAACATGGTCTTACACTGGCTCTCTTATATCG
1 ATGCCGATGCCATGTTC-CAAACATGGTCTTACACTAGCTCTC--ATATCA
* * * * * *
23983324 GTACCGATGCCATGTCCCAGACATGGTCTTACACTAGATCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCA
* *
23983372 ATGCCGAGGCCATGTTCCAAACATGGTCCTACACTAGCTCATACA-A-CA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTC-T-CATATCA
* * * * *
23983420 ATGTCGATTCTATGTTCCAAACATGGTCTTACACTAGCTCACATAGCGA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATC-A
* * * *
23983469 A-GTCGATGCCATGTCCCAAACATAGTCTTACACT-GACT-TACATATTGA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAG-CTCT-CATA-TCA
* * * * *
23983517 A-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * *
23983564 AAGCCGATGCCATG-TCTCAGACATGGTCCTACACTAGCTCACATAT
1 ATGCCGATGCCATGTTC-CAAACATGGTCTTACACTAGCTCTCATAT
23983610 AACCCTAGTA
Statistics
Matches: 237, Mismatches: 36, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 6 0.03
48 187 0.79
49 5 0.02
50 36 0.15
51 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:23983556 original size:144 final size:144
Alignment explanation
Indices: 23983276--23983608 Score: 345
Period size: 144 Copynumber: 2.3 Consensus size: 144
23983266 ATAGTAGGAT
* * * *
23983276 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCTTATATCG--GTACCGATGCCATGT
1 GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCAC--ATAGCGAAGT--CGATGCCATGT
* * *
23983339 CCCAGACATGGTCTTACACTAGATCTCATAACAATGCCGAGGCCATGTTCCAAACATGGTCCTAC
62 CCCAAACATAGTCTTACACTAGATCTCATAACAATGCCGAGGCCATGTCCCAAACATGGTCCTAC
* *
23983404 ACTAGCTCATACAACAAT
127 ACTAGCTCACACAACAAA
* * * *
23983422 GTCGATTCTATGT-TCCAAACATGGTCTTACACTAGCTCACATAGCGAAGTCGATGCCATGTCCC
1 GCCGATGCCATGTCT-CAAACATGGTCCTACACTAGCTCACATAGCGAAGTCGATGCCATGTCCC
** * * * *
23983486 AAACATAGTCTTACACT-GA-CTTACATATTGAA-GTCGATGCCATGTCCCAGACATGGTCTTAC
65 AAACATAGTCTTACACTAGATC-T-CATA-ACAATGCCGAGGCCATGTCCCAAACATGGTCCTAC
* * *
23983548 ACTGGCTCACATATCAAA
127 ACTAGCTCACACAACAAA
*
23983566 GCCGATGCCATGTCTCAGACATGGTCCTACACTAGCTCACATA
1 GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCACATA
23983609 TAACCCTAGT
Statistics
Matches: 155, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 112 0.72
145 4 0.03
146 35 0.23
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (144 bp):
GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCACATAGCGAAGTCGATGCCATGTCCCA
AACATAGTCTTACACTAGATCTCATAACAATGCCGAGGCCATGTCCCAAACATGGTCCTACACTA
GCTCACACAACAAA
Found at i:23983608 original size:96 final size:96
Alignment explanation
Indices: 23983276--23983610 Score: 343
Period size: 96 Copynumber: 3.5 Consensus size: 96
23983266 ATAGTAGGAT
* * * * ***
23983276 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCTTATATCGGTACCGATGCCATGTCC
1 GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCACATATAGAAGT--CGATGCCATGTCC
* * *
23983341 CAGACATGGTCTTACACTAGATCTCATAACAAT
64 CAGACATGGTCTTACACTAGCTCACATAACAAA
* * * * * * *
23983374 GCCGAGGCCATGT-TCCAAACATGGTCCTACACTAGCTCATACA-ACAATGTCGATTCTATGTTC
1 GCCGATGCCATGTCT-CAAACATGGTCCTACACTAGCTCACATATAGAA-GTCGATGCCATGTCC
* * *
23983437 CAAACATGGTCTTACACTAGCTCACATAGCGAA
64 CAGACATGGTCTTACACTAGCTCACATAACAAA
* * * * * *
23983470 GTCGATGCCATGTCCCAAACATAGTCTTACACT-GACTTACATATTGAAGTCGATGCCATGTCCC
1 GCCGATGCCATGTCTCAAACATGGTCCTACACTAG-CTCACATATAGAAGTCGATGCCATGTCCC
* *
23983534 AGACATGGTCTTACACTGGCTCACATATCAAA
65 AGACATGGTCTTACACTAGCTCACATAACAAA
*
23983566 GCCGATGCCATGTCTCAGACATGGTCCTACACTAGCTCACATATA
1 GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCACATATA
23983611 ACCCTAGTAT
Statistics
Matches: 188, Mismatches: 43, Indels: 14
0.77 0.18 0.06
Matches are distributed among these distances:
95 1 0.01
96 146 0.78
97 5 0.03
98 36 0.19
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCTCAAACATGGTCCTACACTAGCTCACATATAGAAGTCGATGCCATGTCCCA
GACATGGTCTTACACTAGCTCACATAACAAA
Found at i:23987491 original size:21 final size:21
Alignment explanation
Indices: 23987467--23987506 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23987457 CAAGTAATGA
23987467 TTTAGAAA-ATAATTTAATTTC
1 TTTA-AAATATAATTTAATTTC
*
23987488 TTTAAAATATTATTTAATT
1 TTTAAAATATAATTTAATT
23987507 GATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAAAATATAATTTAATTTC
Found at i:23988356 original size:18 final size:20
Alignment explanation
Indices: 23988333--23988372 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
23988323 TCAAGTAGAA
23988333 AAAAAATCAA-A-AGATTTG
1 AAAAAATCAATAGAGATTTG
*
23988351 AAAAAATGAATAGAGATTTG
1 AAAAAATCAATAGAGATTTG
23988371 AA
1 AA
23988373 GTTTGATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAAAATCAATAGAGATTTG
Found at i:23988472 original size:96 final size:97
Alignment explanation
Indices: 23988371--23988554 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 97
23988361 TAGAGATTTG
* * *
23988371 AAGTTTGATAGATTTGAGAAGAAAAAA-ATAGCAGA-CAAAAAAAGAG-CCTAATGGTGGAATAG
1 AAGTTTGAAAGATTTGAGAAGAAAAAATAAAG--GACCAAAAAAAGAGTCC-AATGATGGAATAG
*
23988433 ATGAG-AAAATGAAGAGCACTGAAAAAGATTTTTT
63 ATGAGAAAAATGAAGAGCACCGAAAAAGATTTTTT
* *
23988467 AAGTTTGAAAGATTTGAGAAGAAAAAATAAAGGACCAAAAACATAGTCCAATGATGGAATAGATG
1 AAGTTTGAAAGATTTGAGAAGAAAAAATAAAGGACCAAAAAAAGAGTCCAATGATGGAATAGATG
23988532 AGAAAAATGAAGAGCACCGAAAA
66 AGAAAAATGAAGAGCACCGAAAA
23988555 CAAAAACCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
95 2 0.03
96 52 0.67
97 24 0.31
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.19
Consensus pattern (97 bp):
AAGTTTGAAAGATTTGAGAAGAAAAAATAAAGGACCAAAAAAAGAGTCCAATGATGGAATAGATG
AGAAAAATGAAGAGCACCGAAAAAGATTTTTT
Found at i:23989031 original size:14 final size:14
Alignment explanation
Indices: 23989009--23989038 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23988999 TTTGCCATGG
23989009 TAACCAAATACATA
1 TAACCAAATACATA
*
23989023 TAACTAAATACATA
1 TAACCAAATACATA
23989037 TA
1 TA
23989039 TATATCCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCAAATACATA
Found at i:23992532 original size:33 final size:33
Alignment explanation
Indices: 23992490--23992554 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
23992480 TCACGAACCA
23992490 TCTATAGTAACCA-AGAAGTC-CTAGAAAACTTCG
1 TCTATAGTAACCAGA-AAGTCTC-AGAAAACTTCG
23992523 TCTATAGTAACCAGAAAGTCTCAGAAAACTTC
1 TCTATAGTAACCAGAAAGTCTCAGAAAACTTC
23992555 AGACTTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.25
Consensus pattern (33 bp):
TCTATAGTAACCAGAAAGTCTCAGAAAACTTCG
Found at i:23998211 original size:40 final size:40
Alignment explanation
Indices: 23998138--23998345 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
23998128 CAATTGAATG
* * ** *
23998138 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
23998178 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
23998218 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
23998258 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
23998298 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
23998338 ATATCCGG
1 ATATCCGG
23998346 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:23998276 original size:80 final size:80
Alignment explanation
Indices: 23998140--23998345 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
23998130 ATTGAATGAT
* * ** * * * *
23998140 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
23998204 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
23998220 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
23998285 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
23998300 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
23998346 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:23999941 original size:42 final size:42
Alignment explanation
Indices: 23999829--23999955 Score: 159
Period size: 41 Copynumber: 3.1 Consensus size: 42
23999819 TAGAGCCTAG
* * * * *
23999829 TATAATACACCGGCA-CAGAGCTTGCTAGGCAGTAAACCTAA
1 TATAATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
* *
23999870 TTTAATACACCGGTAT-AAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
* *
23999911 TATCATACACCGGCATCAAAGCCTACTAGGCAATAAGCCTGA
1 TATAATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
23999953 TAT
1 TAT
23999956 TATATCACTG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 46 0.63
42 27 0.37
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (42 bp):
TATAATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
Found at i:24001985 original size:12 final size:12
Alignment explanation
Indices: 24001965--24002000 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
24001955 TTTCCTCGTT
24001965 GGAAAATTATAG
1 GGAAAATTATAG
*
24001977 GGAATATTATAG
1 GGAAAATTATAG
24001989 GGAAAATTATAG
1 GGAAAATTATAG
24002001 TTTTCATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (12 bp):
GGAAAATTATAG
Found at i:24002565 original size:34 final size:34
Alignment explanation
Indices: 24002527--24002597 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
24002517 TGAAAGTTAA
*
24002527 ATTATAATATTTTATTAAATTTCACAAAATAAAT
1 ATTATAATATTATATTAAATTTCACAAAATAAAT
24002561 ATTATAATATTATATTAAATTTCACAAAATAAAT
1 ATTATAATATTATATTAAATTTCACAAAATAAAT
24002595 ATT
1 ATT
24002598 CATTAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (34 bp):
ATTATAATATTATATTAAATTTCACAAAATAAAT
Found at i:24008093 original size:39 final size:39
Alignment explanation
Indices: 24007993--24008177 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 39
24007983 TCGAATGATG
* * *
24007993 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAA
*
24008033 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
24008073 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
24008112 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
24008153 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
24008178 AAGAGTAGCT
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 40 0.30
40 82 0.62
41 11 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24008130 original size:79 final size:81
Alignment explanation
Indices: 24007993--24008177 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
24007983 TCGAATGATG
*
24007993 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
24008057 TGTGCGAGTTACTA-AA
65 TGTGCGAGTTACTATAA
* * * **
24008073 TCCGGGTTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
24008136 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
24008153 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
24008178 AAGAGTAGCT
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:24008194 original size:79 final size:79
Alignment explanation
Indices: 24007993--24008209 Score: 225
Period size: 79 Copynumber: 2.7 Consensus size: 79
24007983 TCGAATGATG
* * **
24007993 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTA-AGTGACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTC-CGAAGGCATTTGT--AAGAGTTACTATATCCGGGTTAAGATCCGAAGGCAT
24008056 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* ** *
24008073 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGTAAGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATTT
24008137 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
*
24008153 -CCGGGCTATGTCCCGAAGGCATTTG-AAGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGT-CCGAAGGCATTTGTAAGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
24008210 TACGTGATTC
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
78 16 0.14
79 69 0.59
80 32 0.27
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTAAGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:24013176 original size:20 final size:21
Alignment explanation
Indices: 24013151--24013190 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24013141 AACCATTATA
24013151 ATAAA-TTACAACT-TCAACTT
1 ATAAATTTA-AACTATCAACTT
24013171 ATAAATTTAAACTATCAACT
1 ATAAATTTAAACTATCAACT
24013191 AAAATAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATTTAAACTATCAACTT
Found at i:24013927 original size:2 final size:2
Alignment explanation
Indices: 24013922--24013960 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24013912 CAATAGTGTG
24013922 TA TA 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 TA TA T
24013961 CATCTGATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24017534 original size:2 final size:2
Alignment explanation
Indices: 24017527--24017560 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24017517 CTACCCTTTC
24017527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24017561 TTACTGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24027456 original size:15 final size:13
Alignment explanation
Indices: 24027401--24027457 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
24027391 AAAACTAAAC
24027401 ACAAATAAAATAA
1 ACAAATAAAATAA
* *
24027414 A-TACT-AAATAA
1 ACAAATAAAATAA
*
24027425 ATAAATAAAATAA
1 ACAAATAAAATAA
24027438 ACAAATAAAAATGAA
1 ACAAAT-AAAAT-AA
24027453 ACAAA
1 ACAAA
24027458 ATCTAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 7 0.20
12 4 0.11
13 12 0.34
14 5 0.14
15 7 0.20
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.18
Consensus pattern (13 bp):
ACAAATAAAATAA
Found at i:24039606 original size:23 final size:23
Alignment explanation
Indices: 24039580--24039627 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
24039570 ACACCTATTT
24039580 TTACATGTTTTACAAACAAGTTC
1 TTACATGTTTTACAAACAAGTTC
24039603 TTACATGTTTTACAAACAAGTTC
1 TTACATGTTTTACAAACAAGTTC
24039626 TT
1 TT
24039628 TTAGGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (23 bp):
TTACATGTTTTACAAACAAGTTC
Found at i:24045199 original size:48 final size:48
Alignment explanation
Indices: 24045142--24045237 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
24045132 AATATACGAG
24045142 AAAGCTTGAAATCCCAACTTAAAATCACATATATGAATAATTACTTTT
1 AAAGCTTGAAATCCCAACTTAAAATCACATATATGAATAATTACTTTT
24045190 AAAGCTTGAAATCCCAACTTAAAATCACATATATGAATAATTACTTTT
1 AAAGCTTGAAATCCCAACTTAAAATCACATATATGAATAATTACTTTT
24045238 TTAAAAGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (48 bp):
AAAGCTTGAAATCCCAACTTAAAATCACATATATGAATAATTACTTTT
Found at i:24055621 original size:29 final size:30
Alignment explanation
Indices: 24055555--24055614 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
24055545 GTTAAACTTA
*
24055555 TTTAA-TTTTTAAAATTTTTGATGTATTTT
1 TTTAATTTTTTAAAATTTTTGATATATTTT
*
24055584 TTTAATTTTTTAGAA-TTTTGATATATTTT
1 TTTAATTTTTTAAAATTTTTGATATATTTT
24055613 TT
1 TT
24055615 GTGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (30 bp):
TTTAATTTTTTAAAATTTTTGATATATTTT
Found at i:24061214 original size:3 final size:3
Alignment explanation
Indices: 24061206--24061262 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
24061196 ATGAATTAAA
*
24061206 TAT TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
24061251 TAAT T-T TAT TAT
1 T-AT TAT TAT TAT
24061263 CTAATGCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.08
3 39 0.81
4 5 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Done.