Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 154 of 378
Found at i:44394612 original size:20 final size:20
Alignment explanation
Indices: 44394546--44394612 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
44394536 ATTTTGATAA
*
44394546 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44394566 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
44394586 ACATGATATGAATGACATGC
1 ACATGATATGTATGATATGC
44394606 ACATGAT
1 ACATGAT
44394613 GTATTTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44394732 original size:48 final size:49
Alignment explanation
Indices: 44394661--44394781 Score: 176
Period size: 49 Copynumber: 2.5 Consensus size: 49
44394651 GAGGAAGTGC
*
44394661 AAAAGGGCTTATGCCCCAGTTATT-AAA-AGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGGCTT-TGCCCCAGTTATT
44394709 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGGCTTTGCCCCAGTTATT
*
44394758 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44394782 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
48 24 0.36
49 25 0.37
50 18 0.27
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGGCTTTGCCCCAGTTATT
Found at i:44394754 original size:25 final size:24
Alignment explanation
Indices: 44394661--44394781 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
44394651 GAGGAAGTGC
44394661 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44394685 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44394709 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44394733 AAAAGAGGGCTT-TGCCCCAGTTATT
1 -AAA-AGGGCTTATGCCCCAGTTATT
*
44394758 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44394782 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.03
24 55 0.62
25 24 0.27
26 7 0.08
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:44395009 original size:31 final size:31
Alignment explanation
Indices: 44394974--44395037 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
44394964 CGGTTACAGT
44394974 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
44395005 AAAGGCTTCGGCCCAGTGTTATGAACTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
44395036 AA
1 AA
44395038 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:44398682 original size:48 final size:47
Alignment explanation
Indices: 44398563--44398923 Score: 242
Period size: 48 Copynumber: 7.7 Consensus size: 47
44398553 TAAATTACCG
* * * * *
44398563 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAT--CGTCTCAATGCCA
* * * *
44398611 ATGCCATATCCTAAACATAGTCTTACACTAGCACTCGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-TCGTCTCAATGCCA
* * * * *
44398659 ATGCTAAGCCCCAGACATGGTCTTACA-T----T-GGCTCACATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATCGTCTCA-ATGCCA
* * *
44398701 A-GGCATGTCCCAGACATGGTCTTACACTAGCTGTTGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-ATCGTCTCAATGCCA
* * * * *
44398748 ATGCCATGTCCCAGACATGGTCTGACACTCGCTCTCGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-ATCGTCTCAATGCCA
** * * * *
44398796 ATTTCATGT-CCAGACATGGTCTTACACT-GGATCAGATGTCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATC-G-TCTCAATGCCA
* * ***
44398843 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TC-ACGCAATGTGGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATCGTCTCAA--T-GCCA
44398891 ATGCCATGTCCCAGACATGGTCTTACACTAGCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCA
44398924 CACATATCAC
Statistics
Matches: 246, Mismatches: 48, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
41 26 0.11
42 8 0.03
45 4 0.02
46 2 0.01
47 42 0.17
48 162 0.66
49 1 0.00
50 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCATCGTCTCAATGCCA
Found at i:44398821 original size:95 final size:92
Alignment explanation
Indices: 44398704--44398923 Score: 248
Period size: 95 Copynumber: 2.3 Consensus size: 92
44398694 CATGTCAAGG
* *
44398704 CATGTCCCAGACATGGTCTTACACTAGCTGTTGTCTCAATGCCAATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCAGATG--TCAATGCCAATGCCATGTCCCAGACATGGT
* *
44398769 CTGACACTCGCTCTCGTCTCAATGTCGATT-T-
64 CTGACACTAGCTCACG---CAATGT-GATTATC
* * *
44398800 CATGT-CCAGACATGGTCTTACACTGGATCAGATGTCGATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACT--AGCAGATGTCAATGCCAATGCCATGTCCCAGACATGGT
* *
44398864 CTTACACTAGCTCACGCAATGTGGTTGATGC
64 CTGACACTAGCTCACGCAATGTGATT-AT-C
44398895 CATGTCCCAGACATGGTCTTACACTAGCA
1 CATGTCCCAGACATGGTCTTACACTAGCA
44398924 CACATATCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
91 3 0.03
92 6 0.06
93 1 0.01
94 3 0.03
95 65 0.61
96 24 0.22
97 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGGTCTTACACTAGCAGATGTCAATGCCAATGCCATGTCCCAGACATGGTCT
GACACTAGCTCACGCAATGTGATTATC
Found at i:44400366 original size:76 final size:80
Alignment explanation
Indices: 44400267--44400423 Score: 198
Period size: 78 Copynumber: 2.0 Consensus size: 80
44400257 ATTTGATGTG
*
44400267 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTATATCT-GGGTTAAA-TCCCGCAGG
1 TATCCGGGCTTAAAGACCCGCAGGCCTA-ATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGG
44400329 CTTCGTGCTGGTATTA
65 CTTCGTGCTGGTATTA
* * * * * *
44400345 TATCC-GGCTTAAA-TCCCGCAGGCCTAGTGCTGGTATTATATCTAAGTTTAAAGTCCCGTAGGC
1 TATCCGGGCTTAAAGACCCGCAGGCCTAATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGGC
*
44400408 TTCGTGCTGGTGTTA
66 TTCGTGCTGGTATTA
44400423 T
1 T
44400424 GTTCAGGTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
76 22 0.32
77 17 0.25
78 29 0.43
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (80 bp):
TATCCGGGCTTAAAGACCCGCAGGCCTAATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGGC
TTCGTGCTGGTATTA
Found at i:44400375 original size:38 final size:38
Alignment explanation
Indices: 44400267--44400386 Score: 134
Period size: 38 Copynumber: 3.1 Consensus size: 38
44400257 ATTTGATGTG
* * * *
44400267 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCC-GGCTTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* * * *
44400307 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
44400345 TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
44400383 TATC
1 TATC
44400387 TAAGTTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 55 0.82
39 8 0.12
40 4 0.06
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:44400415 original size:40 final size:38
Alignment explanation
Indices: 44400315--44400423 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
44400305 TATATCTGGG
**
44400315 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGC
1 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAAGC
* * *
44400353 TTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTAAGT
1 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATC-AAGC
* *
44400392 TTAAAGTCCCGTAGGCTTCGTGCTGGTGTTAT
1 TTAAA-TCCCGCAGGCTTCGTGCTGGTATTAT
44400424 GTTCAGGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
38 32 0.53
39 6 0.10
40 22 0.37
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (38 bp):
TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAAGC
Found at i:44415204 original size:224 final size:224
Alignment explanation
Indices: 44414808--44415256 Score: 774
Period size: 224 Copynumber: 2.0 Consensus size: 224
44414798 GAATGACTTC
44414808 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATGTAAAGTCA
1 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATGTAAAGTCA
* * *
44414873 GCCAATCCATAGCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTTGGAAAG
66 ACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAAG
* * *
44414938 CACAGATCTCGAACCATTAAAGGACAATTCTTATATACCTTATCAACCATAACACACCGGCCTAA
131 CACAGATCTCGAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCGGCCCAA
*
44415003 GGGTTTGACACTCTAATCACAAACTTAGT
196 GGGTTTGACACTCTAATCACAAACTCAGT
*
44415032 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTGCAATTTACAACAGT-ATCATGTAAAGTC
1 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACA-TCATCATGTAAAGTC
* *
44415096 AACCAATCCATACCCAGAATTAATTTGAACTCAGCAAATGGTAGTAACATCAAATCAGTCGGAAA
65 AACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAA
* *
44415161 GCACAGATCTCGAACCATTAAAGGATAATTCTTACACACCTTATCAACCATAACACACCGGCCCC
130 GCACAGATCTCGAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCGGCCCA
44415226 AGGGTTTGACACTCTAATCACAAACTCAGT
195 AGGGTTTGACACTCTAATCACAAACTCAGT
44415256 A
1 A
44415257 GACTTAACAG
Statistics
Matches: 212, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
224 211 1.00
225 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (224 bp):
ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATGTAAAGTCA
ACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAAG
CACAGATCTCGAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCGGCCCAA
GGGTTTGACACTCTAATCACAAACTCAGT
Found at i:44418408 original size:48 final size:48
Alignment explanation
Indices: 44418346--44419060 Score: 1241
Period size: 48 Copynumber: 14.9 Consensus size: 48
44418336 TATATATGTG
* *
44418346 TGTGGTAAAGCCGAATGGCTAGTGTAAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
44418394 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
44418442 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
44418490 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGTA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
44418538 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTGTA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
44418586 TGTGGTAAAGCCGAATGGCTACTGTGAAATATCTATGAGATATGTGTA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
44418634 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
44418682 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
44418730 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
44418778 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
44418826 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
44418874 TGTGGTAAAGCCGAATGGCTACTGTGAAATATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATGTATA
*
44418924 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
44418972 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
44419020 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
44419061 GTGTGTATAT
Statistics
Matches: 643, Mismatches: 22, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 595 0.93
49 4 0.01
50 44 0.07
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:44419257 original size:37 final size:37
Alignment explanation
Indices: 44419205--44419303 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
44419195 ATATATTCCG
*
44419205 GGTAAGACCCGATGACTAGGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* * *
44419242 GGTAAGACCCAATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
*
44419279 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
44419304 GGACTATTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:44427135 original size:20 final size:20
Alignment explanation
Indices: 44427091--44427135 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44427081 AAATGATATG
* * *
44427091 AAAAAGATTAGAATAAGTAA
1 AAAAAGAGTAAAAAAAGTAA
*
44427111 TAAAAGAGTAAAAAAAGTAA
1 AAAAAGAGTAAAAAAAGTAA
44427131 AAAAA
1 AAAAA
44427136 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (20 bp):
AAAAAGAGTAAAAAAAGTAA
Found at i:44427505 original size:28 final size:29
Alignment explanation
Indices: 44427451--44427505 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
44427441 ATACAAGATC
*
44427451 TTAACATAAATAATCATAAAACCAATTTT
1 TTAACATAAATAATCATAAAACAAATTTT
44427480 TTAA-ATAAATAATACATAAAA-AAATT
1 TTAACATAAATAAT-CATAAAACAAATT
44427506 AGAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (29 bp):
TTAACATAAATAATCATAAAACAAATTTT
Found at i:44429465 original size:44 final size:44
Alignment explanation
Indices: 44429367--44429525 Score: 189
Period size: 44 Copynumber: 3.6 Consensus size: 44
44429357 CTAAAATTTG
* * *
44429367 CTCCCTTTCTACCTCGAGAAGATAAGATCTACAATCTTC-AGTCTA
1 CTCCCTTGCTACCTCAAGAAGATAAGA-CTACAATCTTCGA-CCTA
* * *
44429412 CTTCCTTGCTACCTCAAAAAGATAAGA-TAACAAT-TCTCGACCTG
1 CTCCCTTGCTACCTCAAGAAGATAAGACT-ACAATCT-TCGACCTA
*
44429456 CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCGGCCTA
1 CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCGACCTA
*
44429500 CTCCCTTGCTACCTCAGGAAGATAAG
1 CTCCCTTGCTACCTCAAGAAGATAAG
44429526 GCTGGTGGCT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.02
44 70 0.71
45 26 0.27
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (44 bp):
CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCGACCTA
Found at i:44429570 original size:177 final size:173
Alignment explanation
Indices: 44429337--44429926 Score: 602
Period size: 177 Copynumber: 3.3 Consensus size: 173
44429327 ACTGTAACTG
* * * * * * *
44429337 CAGGGAGATAAGACTTGTGGCTAAAATTTGCTCCCTTTCTACCTCGAGAAGATAAGATCTACAAT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGAT-T-C-AT
* * * * *
44429402 CTTC-AGTCTACTTCCTTGCTACCTCAAAAAGATAAGAT-AACAATTCTC-GACCTGCTCCCTTG
63 CTTCGA-TCTGC-TCCTTGCTACCTCAGAGAGATAAGATCTACAA-TCTCAG-TCTGCTCCCTTG
* *
44429464 CTACCTCAAGAAGATAAGACTACAATC-TTCGGCCTACTCCCTTGCTACCT
124 CTACCTCAGGAAGATAAGACTACAATCATT-AGCCTACTCCCTTGCTACCT
* * ** *
44429514 CAGGAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTATTACCTTGGGAAGATAAGATTCATCGT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATC-T
* * * * *
44429579 CTCCGATCTGCTCCATTACT-GCTCAGGGAGATAAGATCTACCATCTTTAGTCTGCTCCGTCTT-
65 -T-CGATCTGCTCC-TTGCTACCTCAGAGAGATAAGATCTACAATC-TCAGTCTGCTCC--CTTG
* * *
44429642 -TACCTCAGGAAGATAAGACTATAATCATTAGCCTGCTCCCTCGCTACCT
124 CTACCTCAGGAAGATAAGACTACAATCATTAGCCTACTCCCTTGCTACCT
*
44429691 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCTCCTGCTACCTC-GGAAGATAAGATTTTCCAT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGA--TT-CAT
* * * * * * *
44429755 CTTCGATCTGCTCTGTTGCTATCTGAGCGAGATAAAATCTGCAATCTTCAGTCTGCTTCCTTGCT
63 CTTCGATCTGCTC-CTTGCTACCTCAGAGAGATAAGATCTACAATC-TCAGTCTGCTCCCTTGCT
*
44429820 ACCTCAGGAAGATAAGACTACAATCATTAGTCTACTCCCTTGCTACCT
126 ACCTCAGGAAGATAAGACTACAATCATTAGCCTACTCCCTTGCTACCT
* *
44429868 CAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
44429927 TGTCGTTTTT
Statistics
Matches: 346, Mismatches: 48, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
174 3 0.01
175 5 0.01
176 47 0.14
177 266 0.77
178 18 0.05
179 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (173 bp):
CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATCTT
CGATCTGCTCCTTGCTACCTCAGAGAGATAAGATCTACAATCTCAGTCTGCTCCCTTGCTACCTC
AGGAAGATAAGACTACAATCATTAGCCTACTCCCTTGCTACCT
Found at i:44429678 original size:44 final size:45
Alignment explanation
Indices: 44429600--44429879 Score: 137
Period size: 44 Copynumber: 6.3 Consensus size: 45
44429590 TCCATTACTG
* * * * * **
44429600 CTCAGGGAGATAAGATCTACCATCTTTAGTCTGCTCCGTCTTTAC
1 CTCAGGAAGATAAGATCTACAATCATTAGCCTGCTCCCTCGCTAC
*
44429645 CTCAGGAAGATAAGA-CTATAATCATTAGCCTGCTCCCTCGCTAC
1 CTCAGGAAGATAAGATCTACAATCATTAGCCTGCTCCCTCGCTAC
* **** * **
44429689 CTCAGGAAGATAAG-GCTAGTGGC-TAAAATCTGCTCTCCT-GCTAC
1 CTCAGGAAGATAAGATCTACAATCAT-TAGCCTGCTC-CCTCGCTAC
* * * * * ** * *
44429733 CTC-GGAAGATAAGATTTTCCATC-TTCGATCTGCTCTGTTGCTAT
1 CTCAGGAAGATAAGATCTACAATCATTAG-CCTGCTCCCTCGCTAC
* * * * * *
44429777 CTGAGCG-AGATAAAATCTGCAATC-TTCAGTCTGCTTCCTTGCTAC
1 CTCAG-GAAGATAAGATCTACAATCATT-AGCCTGCTCCCTCGCTAC
* * *
44429822 CTCAGGAAGATAAGA-CTACAATCATTAGTCTACTCCCTTGCTAC
1 CTCAGGAAGATAAGATCTACAATCATTAGCCTGCTCCCTCGCTAC
*
44429866 CTCAGGGAGATAAG
1 CTCAGGAAGATAAG
44429880 GCTAGTGGCT
Statistics
Matches: 180, Mismatches: 44, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
43 12 0.07
44 108 0.60
45 58 0.32
46 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (45 bp):
CTCAGGAAGATAAGATCTACAATCATTAGCCTGCTCCCTCGCTAC
Found at i:44431169 original size:2 final size:2
Alignment explanation
Indices: 44431162--44431187 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44431152 TTTTATTTTC
44431162 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
44431188 TCTCTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44436964 original size:71 final size:71
Alignment explanation
Indices: 44436880--44437043 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44436870 CGATTTGTCT
44436880 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44436945 CTTTCA
66 CTTTCA
44436951 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44437016 CTTTCA
66 CTTTCA
44437022 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44437044 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44437081 original size:71 final size:70
Alignment explanation
Indices: 44436880--44437077 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
44436870 CGATTTGTCT
* * * *
44436880 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44436945 CTTTCA
65 CTTTCA
* * * *
44436951 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44437016 CTTTCA
65 CTTTCA
* * *
44437022 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCGCACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
44437078 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 1 0.01
71 96 0.81
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:44442020 original size:49 final size:47
Alignment explanation
Indices: 44441822--44442091 Score: 398
Period size: 47 Copynumber: 5.7 Consensus size: 47
44441812 ATGATATACA
* *
44441822 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
44441869 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
44441916 CATATGTGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCC-TAATGGCCAATGTGATGAATGTGAAAGTG
*
44441963 TATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
44442010 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
44442059 TATGTATATGTGATAAGGCCTAATGGCTAATGT
1 TA--TATATGTGATAAGGCCTAATGGCCAATGT
44442092 AAAATATATG
Statistics
Matches: 211, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 135 0.64
49 75 0.36
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:44442237 original size:37 final size:37
Alignment explanation
Indices: 44442187--44442271 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
44442177 GGAATATGTT
*
44442187 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
44442224 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
44442261 CCGGGTAAGAC
1 CCGGGTAAGAC
44442272 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:44448732 original size:71 final size:71
Alignment explanation
Indices: 44448648--44448811 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44448638 CGATTTGTCT
44448648 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44448713 CTTTCA
66 CTTTCA
44448719 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44448784 CTTTCA
66 CTTTCA
44448790 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44448812 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44448849 original size:71 final size:70
Alignment explanation
Indices: 44448648--44448845 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
44448638 CGATTTGTCT
* * * *
44448648 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44448713 CTTTCA
65 CTTTCA
* * * *
44448719 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44448784 CTTTCA
65 CTTTCA
* *
44448790 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
44448846 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:44451608 original size:89 final size:89
Alignment explanation
Indices: 44451445--44451614 Score: 297
Period size: 89 Copynumber: 1.9 Consensus size: 89
44451435 TTATCAAACT
* *
44451445 TCACAATGCCCATTTGAATAAATCTTTCAACTAACTTCTTAAAAGTAGTGTAGTTTTCTATCGAA
1 TCACAATGCCCATTTGAATAAATCTTTCAACTAACTTCTTAAAAGTAGTGCAGTTTTCTATCAAA
44451510 TGCCTTGTGATTCCTGCATGGTAC
66 TGCCTTGTGATTCCTGCATGGTAC
44451534 TCACAATGCCCATTTGAATAAATCTTTCAACTAACTTCTTAAAAGTAGTGCAGTTTTCTATCAAA
1 TCACAATGCCCATTTGAATAAATCTTTCAACTAACTTCTTAAAAGTAGTGCAGTTTTCTATCAAA
*
44451599 T-TCTCTGTGATTCCTG
66 TGCCT-TGTGATTCCTG
44451615 TATCGTACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 2 0.03
89 75 0.97
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (89 bp):
TCACAATGCCCATTTGAATAAATCTTTCAACTAACTTCTTAAAAGTAGTGCAGTTTTCTATCAAA
TGCCTTGTGATTCCTGCATGGTAC
Found at i:44453099 original size:19 final size:20
Alignment explanation
Indices: 44453077--44453121 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
44453067 TGATGGACTT
*
44453077 TAATGCATATG-ATGTAATG
1 TAATGCAGATGCATGTAATG
*
44453096 TAATGCAGATGCATGTAGTG
1 TAATGCAGATGCATGTAATG
44453116 -AATGCA
1 TAATGCA
44453122 AAAAGGCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (20 bp):
TAATGCAGATGCATGTAATG
Found at i:44456965 original size:29 final size:28
Alignment explanation
Indices: 44456914--44456983 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
44456904 ATTAAAATAA
*
44456914 TTTAAAACAATTAATATGCAAAACGATT
1 TTTAAAACAATTAATATACAAAACGATT
* * *
44456942 TTTAAAATAATATAATATATAAAATGA--
1 TTTAAAACAAT-TAATATACAAAACGATT
*
44456969 TTTAGAACAATTAAT
1 TTTAAAACAATTAAT
44456984 TTAAAAGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.11
27 9 0.26
28 10 0.29
29 12 0.34
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (28 bp):
TTTAAAACAATTAATATACAAAACGATT
Found at i:44467244 original size:39 final size:40
Alignment explanation
Indices: 44467198--44467335 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
44467188 GGACTAGGAT
*
44467198 CCGAAGGCATTCGTGCGAGTTAATAAATCAGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCAGGGCTAAGTC
* * * *
44467237 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCAGGGCTAAGTC
*** **
44467276 CCGAAGGCATTCGTGCGAGTCGCTATAACC-GGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCAGGGCTAAGTC
* *
44467316 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
44467336 CGTTATATCC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 21 0.25
39 23 0.28
40 35 0.42
41 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCAGGGCTAAGTC
Found at i:44473400 original size:26 final size:24
Alignment explanation
Indices: 44473338--44473406 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 24
44473328 ATAAAATATG
*
44473338 AAATA-TAATGAT-TAAATTATTA
1 AAATATTAATAATATAAATTATTA
*
44473360 AAATATTAATAATATAAATTACTTT
1 AAATATTAATAATATAAATTA-TTA
* *
44473385 AAATTTTACATTATATAAATTA
1 AAATATTA-ATAATATAAATTA
44473407 ATTCCTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.13
23 6 0.15
24 7 0.18
25 9 0.23
26 12 0.31
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (24 bp):
AAATATTAATAATATAAATTATTA
Found at i:44474089 original size:13 final size:13
Alignment explanation
Indices: 44474071--44474119 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
44474061 TTCTTCATTA
44474071 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
44474084 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
44474097 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
44474110 -TTTTGGAAAA
1 CTTTT-GAAAA
44474120 AATTTAAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 4 0.13
13 27 0.87
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:44480064 original size:56 final size:56
Alignment explanation
Indices: 44479932--44480066 Score: 225
Period size: 56 Copynumber: 2.4 Consensus size: 56
44479922 TTCGACTTGT
* * * *
44479932 GATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTCGCCATC
*
44479988 GATATGTGATTCCGATATATGTGTTCGAGTAAGACCACGTTTAATACGTCGCCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTCGCCATC
44480044 GATATGTGATTCCGATATATGTG
1 GATATGTGATTCCGATATATGTG
44480067 CACAAATAAG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (56 bp):
GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTCGCCATC
Found at i:44480100 original size:56 final size:55
Alignment explanation
Indices: 44479932--44480110 Score: 162
Period size: 56 Copynumber: 3.2 Consensus size: 55
44479922 TTCGACTTGT
* * ** * * * *
44479932 GATATGTGATTCTGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGCACAAATAAGACCACGTATAAGACG-TGGCATC
** * * * * *
44479988 GATATGTGATTCCGATATATGTGTTCGAGTAAGACCACGTTTAATACGTCGCCATC
1 GATATGTGATTCCGATATATGTGCACAAATAAGACCACGTATAAGACGT-GGCATC
*
44480044 GATATGTGATTCCGATATATGTGCACAAATAAGACC-CTGTATGAGACAGTGGCATC
1 GATATGTGATTCCGATATATGTGCACAAATAAGACCAC-GTATAAGAC-GTGGCATC
*
44480100 GTTATGTGATT
1 GATATGTGATT
44480111 ACATGTAAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
55 2 0.02
56 103 0.96
57 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (55 bp):
GATATGTGATTCCGATATATGTGCACAAATAAGACCACGTATAAGACGTGGCATC
Found at i:44482570 original size:27 final size:27
Alignment explanation
Indices: 44482540--44482595 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
44482530 GGCTTCCATA
44482540 TCATGATT-CGCCAAAAAGGATTTTCTT
1 TCATG-TTACGCCAAAAAGGATTTTCTT
* *
44482567 TCATGTTATGCCAAAAAGGCTTTTCTT
1 TCATGTTACGCCAAAAAGGATTTTCTT
44482594 TC
1 TC
44482596 CTGACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (27 bp):
TCATGTTACGCCAAAAAGGATTTTCTT
Found at i:44490064 original size:3 final size:3
Alignment explanation
Indices: 44490056--44490097 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
44490046 TCTTAATTTC
44490056 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44490098 TTGCAATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:44494767 original size:17 final size:17
Alignment explanation
Indices: 44494744--44494783 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
44494734 CATCAAGTTA
44494744 TTTTATTATATATT-TT
1 TTTTATTATATATTATT
44494760 TATTTATTATATATTATT
1 T-TTTATTATATATTATT
44494778 TTTTAT
1 TTTTAT
44494784 ATTCTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.82
18 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTATATATTATT
Found at i:44513148 original size:44 final size:44
Alignment explanation
Indices: 44513099--44513650 Score: 218
Period size: 44 Copynumber: 12.6 Consensus size: 44
44513089 GGAACAGGCT
* *
44513099 GAAGATTGTAAATCTTATCTCCCTGAGTAGCAGTGGAGCAGATC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* * ** *
44513143 AAAGATGGCGAATCTTATCTTCCC-GAAGTAGTAG-GGAAGCAGATT
1 GAAGATAGTAAATCTTATC-TCCCTG-AGTAGTAGTGG-AGCAGATC
* ** * ** *
44513188 TAAGCCACT-AGCCTTATCTCCCTGAGTAGTAGTGGAGCAG-GC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* * * * * *
44513230 TGAAGATTGTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATC
1 -GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* ** * * *
44513275 GAAGACAGCGAATCTTATCTCCCTAAGGTAGCAAG-GGAGCAGATT
1 GAAGATAGTAAATCTTATCTCCCTGA-GTAG-TAGTGGAGCAGATC
* ** * ** * * *
44513320 TAAGCCACT-AGCCTTGTCTCCCTGAGCAGTAGTGGAGCAG-GC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* * *
44513362 TGAAGATTGTAGATCTTATCTCCCTGAGTAGTAGTGAAGCAGATC
1 -GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
** * * *
44513407 GAAG---GCGAATCTTATTTTCCC-GAGGTAGTAG-GGAAGCAAATT
1 GAAGATAGTAAATCTTA-TCTCCCTGA-GTAGTAGTGG-AGCAGATC
* ** * ** * * * **
44513449 TAAGCCACT-AGCCTTATCTCCCTGAGCAGCAATGGAGCAGGCC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* * *
44513492 GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* * * * *
44513536 GAAGATGGTGAATCTTATCTCCCTGAGGTAGCAAG-GGAGTAGATT
1 GAAGATAGTAAATCTTATCTCCCTGA-GTAG-TAGTGGAGCAGATC
* ** * ** * * *
44513581 TAAGCCACT-AGCCTTGTCTCCCTGAGCAGTAGTGGAGCAG-GC
1 GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
* *
44513623 TGAAGATTGTAGATCTTATCTCCCTGAG
1 -GAAGATAGTAAATCTTATCTCCCTGAG
44513651 CAGCAATAGA
Statistics
Matches: 356, Mismatches: 124, Indels: 56
0.66 0.23 0.10
Matches are distributed among these distances:
41 10 0.03
42 25 0.07
43 65 0.18
44 198 0.56
45 54 0.15
46 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
GAAGATAGTAAATCTTATCTCCCTGAGTAGTAGTGGAGCAGATC
Found at i:44513237 original size:132 final size:130
Alignment explanation
Indices: 44513021--44513776 Score: 891
Period size: 132 Copynumber: 5.8 Consensus size: 130
44513011 GGAGATGGAA
* * *
44513021 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGTCTTGTCTCTCTGAGCAGC
1 AATCTTATCTCCC-GAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGC
* * * *
44513086 AGTGGAACAGGCTGAAGATTGTAAATCTTATCTCCCTGAGTAGCAGTGGAGCAGATCAAAGATGG
65 AGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATC-AAGAAGG
44513151 CG
129 CG
* * * *
44513153 AATCTTATCTTCCCGAAGTAG-TAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGTAG
1 AATCTTATC-TCCCGAGGTAGCAAGGG-AGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAG
* * * * *
44513217 TAGTGGAGCAGGCTGAAGATTGTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACA
64 CAGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATC-AAGA-A
44513282 -GCG
127 GGCG
* *
44513285 AATCTTATCTCCCTAAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTCCC-GAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGC
* * *
44513350 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGTAGTGAAGCAGATC--GAAGGC
65 AGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCAAGAAGGC
44513413 G
130 G
* * * *
44513414 AATCTTATTTTCCCGAGGTAG-TAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGCAG
1 AATCTTA-TCTCCCGAGGTAGCAAGGG-AGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAG
* * * *
44513478 CAATGGAGCAGGCCGAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
64 CAGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATC-AAGAAG
*
44513543 GTG
128 GCG
* *
44513546 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTCCC-GAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGC
* * * * * *
44513611 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAATAGAGCAGAT--TGAAGGA
65 AGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCAAGAAGGC
44513674 G
130 G
* * * * * * * *
44513675 AATCTTATTTTTCTGAGGCAG-TAGGGAAGCATATTTAAGCCACTAGCCTTGTCTCCTTGAGTAG
1 AATCTTA-TCTCCCGAGGTAGCAAGGG-AGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAG
**
44513739 CAGTGGAATAGGCTGAAGATTGTAAATCTCT-TCTCCCT
64 CAGTGGAGCAGGCTGAAGATTGTAAATCT-TATCTCCCT
44513777 AAAATTACAT
Statistics
Matches: 538, Mismatches: 70, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
128 9 0.02
129 187 0.35
130 9 0.02
131 13 0.02
132 308 0.57
133 12 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (130 bp):
AATCTTATCTCCCGAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGCA
GTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCAAGAAGGCG
Found at i:44513537 original size:261 final size:261
Alignment explanation
Indices: 44513021--44513778 Score: 1142
Period size: 261 Copynumber: 2.9 Consensus size: 261
44513011 GGAGATGGAA
* * *
44513021 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGTCTTGTCTCTCTGAGCAGC
1 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
* * * *
44513086 AGTGGAACAGGCTGAAGATTGTAAATCTTATCTCCCTGAGTAGCAGTGGAGCAGATCAAAGATGG
66 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGCAGTGAAGCAGATC---GAAGG
* * *
44513151 CGAATCTTATCTTCCCGAAGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGTA
128 CGAATCTTATTTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGTA
* * *
44513216 GTAGTGGAGCAGGCTGAAGATTGTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAC
193 GCAGTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAC
44513281 AGCG
258 AGCG
* *
44513285 AATCTTATCTCCCTAAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
*
44513350 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGTAGTGAAGCAGATCGAAGGCGA
66 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGCAGTGAAGCAGATCGAAGGCGA
*
44513415 ATCTTATTTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCA
131 ATCTTATTTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGTAGCA
* * * ** *
44513480 ATGGAGCAGGCCGAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
196 GTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGC
44513545 G
261 G
44513546 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
* * * *
44513611 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT-AGAGCAGATTGAAGGAG
66 AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGCAGTGA-AGCAGATCGAAGGCG
* * * * * *
44513675 AATCTTATTTTTCTGAGGCAGTAGGGAAGCATATTTAAGCCACTAGCCTTGTCTCCTTGAGTAGC
130 AATCTTATTTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGTAGC
**
44513740 AGTGGAATAGGCTGAAGATTGTAAATCTCT-TCTCCCTAA
195 AGTGGAGCAGGCTGAAGATTGTAAATCT-TATCTCCCTAA
44513779 AATTACATTG
Statistics
Matches: 451, Mismatches: 41, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
260 1 0.00
261 336 0.75
262 1 0.00
264 113 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (261 bp):
AATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGT
AGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTGAGTAGCAGTGAAGCAGATCGAAGGCGA
ATCTTATTTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCTTATCTCCCTGAGTAGCA
GTGGAGCAGGCTGAAGATTGTAAATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGC
G
Found at i:44513671 original size:44 final size:44
Alignment explanation
Indices: 44512975--44513671 Score: 200
Period size: 44 Copynumber: 15.9 Consensus size: 44
44512965 GTAAATTCAC
* * * * * * *
44512975 AGATCTTATCTTCATGAGGTAGTAATGGAGCAGATTGGAGATGGA
1 AGATCTTATCTCCCTGA-GCAGCAATGGAGCAGATTGAAGATTGT
* * * * * ****
44513020 AAATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACT
1 AGATCTTATCTCCCTGA-GCAGCAATGGAGCAGATTGAAGATTGT
* * * * **
44513065 AG-TCTTGTCTCTCTGAGCAGCAGTGGAACAGGCTGAAGATTGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * ** *
44513108 AAATCTTATCTCCCTGAGTAGCAGTGGAGCAGATCAAAGA-TGG
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * * ****
44513151 CGAATCTTATCTTCCC-GAAGTAG-TAGGGAAGCAGATTTAAGCCACT
1 AG-ATCTTATC-TCCCTG-AGCAGCAATGG-AGCAGATTGAAGATTGT
* * * * **
44513197 AG-CCTTATCTCCCTGAGTAGTAGTGGAGCAGGCTGAAGATTGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * ** * * **
44513240 AGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAG-
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * * ****
44513283 CGAATCTTATCTCCCTAAGGTAGCAAGGGAGCAGATTTAAGCCACT
1 AG-ATCTTATCTCCCTGA-GCAGCAATGGAGCAGATTGAAGATTGT
* * * * **
44513329 AG-CCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGATTGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * * **
44513372 AGATCTTATCTCCCTGAGTAGTAGTGAAGCAGATCGAAG-GCG-
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * * * ****
44513414 A-ATCTTATTTTCCC-GAGGTAG-TAGGGAAGCAAATTTAAGCCACT
1 AGATCTTA-TCTCCCTGA-GCAGCAATGG-AGCAGATTGAAGATTGT
* ***
44513458 AG-CCTTATCTCCCTGAGCAGCAATGGAGCAGGCCGAAGATTGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * * *
44513501 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
* * * * ****
44513545 -GAATCTTATCTCCCTGAGGTAGCAAGGGAGTAGATTTAAGCCACT
1 AG-ATCTTATCTCCCTGA-GCAGCAATGGAGCAGATTGAAGATTGT
* * * * **
44513590 AG-CCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGATTGT
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
*
44513633 AGATCTTATCTCCCTGAGCAGCAATAGAGCAGATTGAAG
1 AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAG
44513672 GAGAATCTTA
Statistics
Matches: 453, Mismatches: 173, Indels: 53
0.67 0.25 0.08
Matches are distributed among these distances:
41 9 0.02
42 19 0.04
43 93 0.21
44 244 0.54
45 85 0.19
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGCAGCAATGGAGCAGATTGAAGATTGT
Found at i:44523911 original size:27 final size:27
Alignment explanation
Indices: 44523893--44523962 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
44523883 ATAGTGAGTC
44523893 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44523920 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
44523948 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
44523963 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44531402 original size:29 final size:29
Alignment explanation
Indices: 44531360--44531417 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44531350 TAGTATAGTT
44531360 ATATAATCATTCACATATTTAAATAATCA
1 ATATAATCATTCACATATTTAAATAATCA
44531389 ATATAATCATTCACATATTTAAATAATCA
1 ATATAATCATTCACATATTTAAATAATCA
44531418 TTCCTAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
ATATAATCATTCACATATTTAAATAATCA
Found at i:44534196 original size:29 final size:29
Alignment explanation
Indices: 44534162--44534236 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
44534152 TACTCGATTT
*
44534162 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
44534191 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
44534220 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
44534237 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:44534253 original size:29 final size:29
Alignment explanation
Indices: 44534220--44534293 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44534210 CCTTCGAGCT
44534220 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44534249 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44534278 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44534294 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44542128 original size:29 final size:29
Alignment explanation
Indices: 44542095--44542168 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44542085 CCTTCGAGCT
44542095 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44542124 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44542153 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44542169 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44542129 original size:58 final size:58
Alignment explanation
Indices: 44542036--44542168 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
44542026 ATACTCGATT
* * * * *
44542036 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
44542094 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
44542152 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
44542169 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:44550006 original size:29 final size:29
Alignment explanation
Indices: 44549973--44550046 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44549963 CCTTCGAGCT
44549973 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44550002 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44550031 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44550047 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44550007 original size:58 final size:58
Alignment explanation
Indices: 44549914--44550046 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
44549904 ATACTCGATT
* * * * *
44549914 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
44549972 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
44550030 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
44550047 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:44557886 original size:29 final size:29
Alignment explanation
Indices: 44557853--44557926 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44557843 CCTTCGAGCT
44557853 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44557882 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44557911 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44557927 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44557887 original size:58 final size:58
Alignment explanation
Indices: 44557794--44557926 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
44557784 ATACTCGATT
* * * * *
44557794 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
44557852 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
44557910 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
44557927 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:44561673 original size:25 final size:24
Alignment explanation
Indices: 44561592--44561652 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
44561582 GCTATGCGGT
* ** *
44561592 ACTATGTGTGTGAGATTACATGGC
1 ACTATGTGTGCGAGAAAACGTGGC
44561616 ACTATGTGTGCGAGAAAACGTGGC
1 ACTATGTGTGCGAGAAAACGTGGC
44561640 ACTATGTGTGCGA
1 ACTATGTGTGCGA
44561653 ATAAGTAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (24 bp):
ACTATGTGTGCGAGAAAACGTGGC
Found at i:44568062 original size:17 final size:18
Alignment explanation
Indices: 44568040--44568075 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44568030 GTTACACAGA
*
44568040 TTGAGG-ACACGGGGGTG
1 TTGAGGCACACGGGCGTG
44568057 TTGAGGCACACGGGCGTG
1 TTGAGGCACACGGGCGTG
44568075 T
1 T
44568076 CCCTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.19
Consensus pattern (18 bp):
TTGAGGCACACGGGCGTG
Found at i:44570176 original size:15 final size:16
Alignment explanation
Indices: 44570156--44570230 Score: 72
Period size: 15 Copynumber: 5.0 Consensus size: 16
44570146 CATTATGATA
44570156 TTGTATCTTGGATTT-
1 TTGTATCTTGGATTTC
44570171 TTGTATC-TGGATTTC
1 TTGTATCTTGGATTTC
*
44570186 TT-TATTTTGGATTTC
1 TTGTATCTTGGATTTC
*
44570201 TTTGTA--TTGGACTTC
1 -TTGTATCTTGGATTTC
*
44570216 TT-TATCTTGGTTTTC
1 TTGTATCTTGGATTTC
44570231 ATGTCATCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.04
14 12 0.24
15 32 0.64
16 2 0.04
17 2 0.04
ACGTcount: A:0.12, C:0.11, G:0.17, T:0.60
Consensus pattern (16 bp):
TTGTATCTTGGATTTC
Found at i:44570219 original size:30 final size:31
Alignment explanation
Indices: 44570159--44570230 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
44570149 TATGATATTG
*
44570159 TATCTTGGA-TT-TTTGTATCTGGATTTCTT
1 TATCTTGGATTTCTTTGTATCTGGACTTCTT
*
44570188 TATTTTGGATTTCTTTGTAT-TGGACTTCTT
1 TATCTTGGATTTCTTTGTATCTGGACTTCTT
*
44570218 TATCTTGGTTTTC
1 TATCTTGGATTTC
44570231 ATGTCATCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.22
30 22 0.59
31 7 0.19
ACGTcount: A:0.12, C:0.11, G:0.17, T:0.60
Consensus pattern (31 bp):
TATCTTGGATTTCTTTGTATCTGGACTTCTT
Found at i:44574665 original size:27 final size:26
Alignment explanation
Indices: 44574617--44574676 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44574607 GCGAAGCTGC
*
44574617 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
44574644 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
44574670 CAGATAT
1 CAGATAT
44574677 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:44574680 original size:2 final size:2
Alignment explanation
Indices: 44574673--44574704 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44574663 ACCAGAACAG
44574673 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
44574705 GTGGCAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44576156 original size:24 final size:24
Alignment explanation
Indices: 44576132--44576560 Score: 759
Period size: 24 Copynumber: 17.9 Consensus size: 24
44576122 GACTATAGCA
* **
44576132 AATCGCACACATAGTGCTATAGCA
1 AATCGCACACATAGTGCCATAGTG
*
44576156 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
44576180 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
44576204 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576228 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
44576252 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
44576276 AATCGCACACATAGTGCTATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576300 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
44576324 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
44576348 AATCGCACACATAGTGCTATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576372 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
44576396 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
44576420 AATCGCACACATAGTGCTATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576444 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576468 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576492 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576516 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
44576540 AATCGCACACATAGTGCCATA
1 AATCGCACACATAGTGCCATA
44576561 TGGTCTTTGC
Statistics
Matches: 390, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 390 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (24 bp):
AATCGCACACATAGTGCCATAGTG
Found at i:44584355 original size:24 final size:24
Alignment explanation
Indices: 44584325--44584725 Score: 619
Period size: 24 Copynumber: 17.2 Consensus size: 24
44584315 GAATGTGACT
* *
44584325 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
44584349 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584373 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584397 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584421 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584445 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584469 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584493 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584517 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584541 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584565 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584589 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44584613 ATAGTAAATCG--CACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
44584635 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584659 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584682 ATAGT-AATCG--CACATAGT--C
1 ATAGTAAATCGCACACATAGTGCC
44584701 ATAG----TCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44584721 ATAGT
1 ATAGT
44584726 GTCGCACATA
Statistics
Matches: 359, Mismatches: 11, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
16 3 0.01
18 8 0.02
19 5 0.01
20 5 0.01
21 8 0.02
22 20 0.06
23 28 0.08
24 282 0.79
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:44586526 original size:40 final size:40
Alignment explanation
Indices: 44586468--44586651 Score: 124
Period size: 39 Copynumber: 4.7 Consensus size: 40
44586458 CGTTCAAAAA
* * ***
44586468 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
44586508 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * * * *
44586548 CCTTC-GG-CTTAGCCTGGATATCATAGCTCACACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * ** *
44586586 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
44586625 CCTTCGGG-CTTAGCCCGAATATCACAA
1 CCTTCGGGACATAACCCGGATATCACAA
44586652 TTCGCACATA
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 31 0.25
39 56 0.45
40 37 0.30
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:44586607 original size:39 final size:39
Alignment explanation
Indices: 44586498--44586659 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
44586488 TATGGTAACC
* *
44586498 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
44586538 CGCACAATTGCCTTC-GGCTTAGCCTGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
44586576 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
44586615 CGCACAATTGCCTTCGGGCTTAGCCCGAATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
44586654 CGCACA
1 CGCACA
44586660 TACATTCACA
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 31 0.28
39 64 0.59
40 14 0.13
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:44586619 original size:77 final size:79
Alignment explanation
Indices: 44586500--44586648 Score: 239
Period size: 77 Copynumber: 1.9 Consensus size: 79
44586490 TGGTAACCCG
*
44586500 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTC-GGCTTAGCCTG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
*
44586564 GATATCATAGCTCA
66 AATATCATAGCTCA
* * *
44586578 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
44586642 AATATCA
66 AATATCA
44586649 CAATTCGCAC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 34 0.52
78 31 0.48
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (79 bp):
CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
AATATCATAGCTCA
Found at i:44594433 original size:40 final size:39
Alignment explanation
Indices: 44594389--44594659 Score: 371
Period size: 39 Copynumber: 6.9 Consensus size: 39
44594379 GTTCAAAACA
* * ** * *
44594389 CCTTCGGGACATAGCCCGGCTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
44594429 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
44594469 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44594508 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44594547 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44594586 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44594625 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
44594660 TACATTCACA
Statistics
Matches: 217, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 177 0.82
40 40 0.18
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:44594500 original size:39 final size:39
Alignment explanation
Indices: 44594419--44594659 Score: 419
Period size: 39 Copynumber: 6.2 Consensus size: 39
44594409 TATGGTAACC
* * *
44594419 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
* **
44594459 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
44594498 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
44594537 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
44594576 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
44594615 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
44594654 CGCACA
1 CGCACA
44594660 TACATTCACA
Statistics
Matches: 194, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
39 177 0.91
40 17 0.09
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:44596439 original size:56 final size:56
Alignment explanation
Indices: 44596373--44596495 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 56
44596363 TGGGCTGTCA
* *
44596373 CACACATATATCAAAATCAAATATCGATGTCAACGTACTAGA-TGTGGTCTAACTTG
1 CACACATATATCAAAATCAAATATCGATGCCAACGTACTA-ATTGTGGTCTAACTGG
* *
44596429 CACACATATATCAAAATCACATATCGATGCCAACGTACTAATTGTGGTCTTACTGG
1 CACACATATATCAAAATCAAATATCGATGCCAACGTACTAATTGTGGTCTAACTGG
44596485 CACACAT-TATC
1 CACACATATATC
44596496 GATGCCATGG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 5 0.08
56 57 0.92
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (56 bp):
CACACATATATCAAAATCAAATATCGATGCCAACGTACTAATTGTGGTCTAACTGG
Found at i:44598000 original size:46 final size:46
Alignment explanation
Indices: 44597950--44598125 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44597940 TGGTTGAGCA
44597950 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44597996 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44598041 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44598089 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44598126 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44598106 original size:93 final size:93
Alignment explanation
Indices: 44597947--44598118 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44597937 GGATGGTTGA
* *
44597947 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44598012 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44598040 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44598105 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44598119 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44605535 original size:46 final size:46
Alignment explanation
Indices: 44605485--44605660 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44605475 TGGTTGAGCA
44605485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44605531 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44605576 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44605624 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44605661 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44605641 original size:93 final size:93
Alignment explanation
Indices: 44605482--44605653 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44605472 GGATGGTTGA
* *
44605482 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44605547 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44605575 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44605640 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44605654 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44619300 original size:20 final size:20
Alignment explanation
Indices: 44619257--44619301 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
44619247 TAACATATGA
*
44619257 TTAAATAAGTTTAATTAAAC
1 TTAATTAAGTTTAATTAAAC
44619277 -TAATTAAGTTTTAATT-AAC
1 TTAATTAAG-TTTAATTAAAC
44619296 TTAATT
1 TTAATT
44619302 TGTAACACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
TTAATTAAGTTTAATTAAAC
Found at i:44625590 original size:47 final size:47
Alignment explanation
Indices: 44625538--44625635 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
44625528 AATCTTTCTG
* * *
44625538 TTAAAATTTTTCATTTATTTTTTTTGTTAAAAATTAGTCATTGTATA
1 TTAAAATTTTTCATTCATTTATATTGTTAAAAATTAGTCATTGTATA
44625585 TTAAAATTTTTCATTCATTTATATTGTTAAAAATTAGTCATTGTATA
1 TTAAAATTTTTCATTCATTTATATTGTTAAAAATTAGTCATTGTATA
44625632 TTAA
1 TTAA
44625636 TATGAGATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (47 bp):
TTAAAATTTTTCATTCATTTATATTGTTAAAAATTAGTCATTGTATA
Found at i:44629884 original size:27 final size:28
Alignment explanation
Indices: 44629854--44629914 Score: 108
Period size: 27 Copynumber: 2.2 Consensus size: 28
44629844 TGGATATTCA
44629854 TTATAATCAACATTTCACTTTTCAT-TT
1 TTATAATCAACATTTCACTTTTCATCTT
44629881 TTATAATCAACATTTCACTTTTCATCTT
1 TTATAATCAACATTTCACTTTTCATCTT
44629909 TT-TAAT
1 TTATAAT
44629915 TCTTTCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (28 bp):
TTATAATCAACATTTCACTTTTCATCTT
Found at i:44629925 original size:24 final size:24
Alignment explanation
Indices: 44629893--44629959 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
44629883 ATAATCAACA
* *
44629893 TTTCACTTTTCATCTTTTTAATTC
1 TTTCTCTTTTCATATTTTTAATTC
*
44629917 TTTCTCTTTT-ATTTTTCTTAATTC
1 TTTCTCTTTTCATATTT-TTAATTC
*
44629941 TTTATC-TTTCATATTTTTA
1 TTTCTCTTTTCATATTTTTA
44629960 TAACCCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.30
24 26 0.70
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTCTCTTTTCATATTTTTAATTC
Found at i:44630519 original size:15 final size:15
Alignment explanation
Indices: 44630501--44630530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44630491 GATAGAGACA
44630501 CACATGATTTGTGAG
1 CACATGATTTGTGAG
44630516 CACATGATTTGTGAG
1 CACATGATTTGTGAG
44630531 TATAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
CACATGATTTGTGAG
Found at i:44643504 original size:23 final size:23
Alignment explanation
Indices: 44643478--44643580 Score: 188
Period size: 23 Copynumber: 4.5 Consensus size: 23
44643468 CTGTTACATA
* *
44643478 CCACAAAGGCATTGTAGAATACG
1 CCACAAAGGCATTGCAGCATACG
44643501 CCACAAAGGCATTGCAGCATACG
1 CCACAAAGGCATTGCAGCATACG
44643524 CCACAAAGGCATTGCAGCATACG
1 CCACAAAGGCATTGCAGCATACG
44643547 CCACAAAGGCATTGCAGCATACG
1 CCACAAAGGCATTGCAGCATACG
44643570 CCACAAAGGCA
1 CCACAAAGGCA
44643581 GAGTACGACA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.37, C:0.29, G:0.21, T:0.13
Consensus pattern (23 bp):
CCACAAAGGCATTGCAGCATACG
Found at i:44644515 original size:22 final size:20
Alignment explanation
Indices: 44644474--44644516 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
44644464 AATACTTAGG
*
44644474 TTTAGAAAGAAGAACCAAAT
1 TTTAGAAAGAAGAACAAAAT
*
44644494 TTTAGAACAGAAAGAAGAAAAT
1 TTTAGAA-AG-AAGAACAAAAT
44644516 T
1 T
44644517 AAAACGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.21
Consensus pattern (20 bp):
TTTAGAAAGAAGAACAAAAT
Found at i:44649499 original size:79 final size:80
Alignment explanation
Indices: 44649380--44649563 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
44649370 ACTACTCGTT
* * * *
44649380 CAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCACCAAGGCCTACGGGACTTAACCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
* *
44649445 ATATCA-CGA-TTGCA
66 ATAT-AGCCACTAGCA
* * * * * * *
44649459 CAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCGCACCAAGGCCTACGGGACTTAACCCG
44649523 GATATAGCCACTAGCA
65 GATATAGCCACTAGCA
* * *
44649539 CCATTGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGG
44649564 TTATAATTTC
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 2 0.02
79 58 0.67
80 26 0.30
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (80 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
ATATAGCCACTAGCA
Found at i:44649508 original size:40 final size:40
Alignment explanation
Indices: 44649456--44649563 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
44649446 TATCACGATT
** *
44649456 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
44649496 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
44649536 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
44649564 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:44651772 original size:40 final size:40
Alignment explanation
Indices: 44651717--44651884 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
44651707 TGAATGATAC
* *
44651717 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
44651757 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
44651797 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
44651837 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
44651877 CC-GGCTAA
1 CCGGGCTAA
44651885 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:44656995 original size:29 final size:29
Alignment explanation
Indices: 44656961--44657035 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
44656951 TACTCGATTT
*
44656961 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
44656990 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
44657019 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
44657036 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:44657052 original size:29 final size:29
Alignment explanation
Indices: 44657019--44657092 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44657009 CCTTCGAGCT
44657019 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44657048 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44657077 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44657093 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44664871 original size:29 final size:29
Alignment explanation
Indices: 44664837--44664911 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
44664827 TACTCGATTT
*
44664837 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
44664866 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
44664895 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
44664912 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:44664928 original size:29 final size:29
Alignment explanation
Indices: 44664895--44664968 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44664885 CCTTCGAGCT
44664895 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44664924 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44664953 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44664969 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44669359 original size:17 final size:16
Alignment explanation
Indices: 44669328--44669364 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
44669318 AAAATAATTA
44669328 TTTTGTTAGTTTTATT
1 TTTTGTTAGTTTTATT
*
44669344 TTTTGATTATTTTTATT
1 TTTTG-TTAGTTTTATT
44669361 TTTT
1 TTTT
44669365 TCCTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTGTTAGTTTTATT
Found at i:44679607 original size:19 final size:20
Alignment explanation
Indices: 44679583--44679620 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44679573 GGTACCACCA
44679583 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44679602 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44679621 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44679993 original size:46 final size:46
Alignment explanation
Indices: 44679845--44680016 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
44679835 AACCCGCCCC
* * *
44679845 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
44679891 TAAATGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
44679938 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
44679983 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44680017 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 5 0.05
45 20 0.19
46 45 0.43
47 24 0.23
48 1 0.01
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:44680473 original size:30 final size:30
Alignment explanation
Indices: 44680439--44680498 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44680429 ATTTAATACG
44680439 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
44680469 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
44680499 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:44684878 original size:19 final size:20
Alignment explanation
Indices: 44684854--44684891 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44684844 TTTTACACCA
44684854 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44684873 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44684892 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44690273 original size:5 final size:5
Alignment explanation
Indices: 44690263--44690287 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44690253 TGACTTGTGC
44690263 ATGTT ATGTT ATGTT ATGTT ATGTT
1 ATGTT ATGTT ATGTT ATGTT ATGTT
44690288 TTAATTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATGTT
Found at i:44706866 original size:2 final size:2
Alignment explanation
Indices: 44706859--44706896 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44706849 CAAGGCCCTG
44706859 AT AT 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 AT AT
44706897 CTGATTCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44711670 original size:35 final size:35
Alignment explanation
Indices: 44711631--44711836 Score: 166
Period size: 35 Copynumber: 5.9 Consensus size: 35
44711621 CAAAATACCA
* * *
44711631 ATACTTCTTTCAATAAACATCCTACCACAACATTG
1 ATACTTCATTCAATTAACATCCTACCACAACACTG
* * * * *
44711666 ATACTTCAATCAAGTAACATTCTGCCACAACACCG
1 ATACTTCATTCAATTAACATCCTACCACAACACTG
* * *** *
44711701 TTACTTCATTCATTTAATGCCCCACCACAACACTG
1 ATACTTCATTCAATTAACATCCTACCACAACACTG
44711736 ATACTTCATTCAATTAACATTCC-ACCACAACACTG
1 ATACTTCATTCAATTAACA-TCCTACCACAACACTG
* * ** **
44711771 TTACTTTATTC-ATGTAATGTCCTACCACAACACCA
1 ATACTTCATTCAAT-TAACATCCTACCACAACACTG
* *
44711806 ATACTTTATTCATTTAACAT-CTCACCACAAC
1 ATACTTCATTCAATTAACATCCT-ACCACAAC
44711837 GCCAAATTTT
Statistics
Matches: 132, Mismatches: 34, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
34 7 0.05
35 122 0.92
36 3 0.02
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (35 bp):
ATACTTCATTCAATTAACATCCTACCACAACACTG
Found at i:44711810 original size:70 final size:70
Alignment explanation
Indices: 44711650--44711836 Score: 232
Period size: 70 Copynumber: 2.7 Consensus size: 70
44711640 TCAATAAACA
* * * ** *
44711650 TCCTACCACAACATTGATACTTCAATCAAGTAACATTCTGCCACAACACCGTTACTTCATTCATT
1 TCCTACCACAACACTGATACTTCATTCAATTAACATTCCACCACAACACCGTTACTTCATTCATG
44711715 TAATG
66 TAATG
* * * *
44711720 CCCCACCACAACACTGATACTTCATTCAATTAACATTCCACCACAACACTGTTACTTTATTCATG
1 TCCTACCACAACACTGATACTTCATTCAATTAACATTCCACCACAACACCGTTACTTCATTCATG
44711785 TAATG
66 TAATG
** * *
44711790 TCCTACCACAACACCAATACTTTATTCATTTAACA-TCTCACCACAAC
1 TCCTACCACAACACTGATACTTCATTCAATTAACATTC-CACCACAAC
44711837 GCCAAATTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
69 2 0.02
70 98 0.98
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.30
Consensus pattern (70 bp):
TCCTACCACAACACTGATACTTCATTCAATTAACATTCCACCACAACACCGTTACTTCATTCATG
TAATG
Found at i:44711817 original size:105 final size:105
Alignment explanation
Indices: 44711631--44711822 Score: 242
Period size: 105 Copynumber: 1.8 Consensus size: 105
44711621 CAAAATACCA
* * * *
44711631 ATACTTCTTTCAATAAACATCCTACCACAACATTGATACTTCAATCAAGTAACATTCTGCCACAA
1 ATACTTCATTCAATAAACATCCTACCACAACACTGATACTTCAATCAAGTAACATCCTACCACAA
**
44711696 CACCGTTACTTCATTCATTTAATGCCCCACCACAACACTG
66 CACCAATACTTCATTCATTTAATGCCCCACCACAACACTG
* * * * * **
44711736 ATACTTCATTCAATTAACATTCC-ACCACAACACTGTTACTTTATTCATGTAATGTCCTACCACA
1 ATACTTCATTCAATAAACA-TCCTACCACAACACTGATACTTCAATCAAGTAACATCCTACCACA
*
44711800 ACACCAATACTTTATTCATTTAA
65 ACACCAATACTTCATTCATTTAA
44711823 CATCTCACCA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 69 0.96
106 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (105 bp):
ATACTTCATTCAATAAACATCCTACCACAACACTGATACTTCAATCAAGTAACATCCTACCACAA
CACCAATACTTCATTCATTTAATGCCCCACCACAACACTG
Found at i:44712370 original size:22 final size:20
Alignment explanation
Indices: 44712337--44712378 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
44712327 GTTAGCTAAA
44712337 CAAAATAATCATTCATTAAT
1 CAAAATAATCATTCATTAAT
44712357 CAAAACTACATCATTCATTAAT
1 CAAAA-TA-ATCATTCATTAAT
44712379 GAGACAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAAATAATCATTCATTAAT
Found at i:44715753 original size:2 final size:2
Alignment explanation
Indices: 44715748--44715775 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44715738 TAACACACGC
44715748 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
44715776 TCATTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44717918 original size:15 final size:15
Alignment explanation
Indices: 44717898--44717926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44717888 CTCGAAAATC
44717898 CATAAACCAAATTCG
1 CATAAACCAAATTCG
44717913 CATAAACCAAATTC
1 CATAAACCAAATTC
44717927 ATATAGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (15 bp):
CATAAACCAAATTCG
Found at i:44719964 original size:40 final size:39
Alignment explanation
Indices: 44719920--44720112 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
44719910 GTTCAAAACA
* * ** * *
44719920 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
44719960 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
44720000 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44720039 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44720078 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
44720113 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:44720031 original size:39 final size:39
Alignment explanation
Indices: 44719950--44720112 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
44719940 TATGGTAACC
* *
44719950 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
44719990 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44720029 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44720068 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
44720107 CGCACA
1 CGCACA
44720113 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:44727940 original size:34 final size:38
Alignment explanation
Indices: 44727875--44727946 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
44727865 TATGGTAACC
44727875 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAAATGCCTTCGGGACTTAA--CGGATATCACAACT
44727915 CGCAC-AATGCCTTCGGG-CTT-A-GGATATCACAA
1 CGCACAAATGCCTTCGGGACTTAACGGATATCACAA
44727947 GGCTTAGCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 11 0.34
37 1 0.03
38 3 0.09
39 12 0.38
40 5 0.16
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (38 bp):
CGCACAAATGCCTTCGGGACTTAACGGATATCACAACT
Found at i:44728043 original size:30 final size:34
Alignment explanation
Indices: 44727947--44728078 Score: 156
Period size: 36 Copynumber: 3.5 Consensus size: 34
44727937 GATATCACAA
44727947 GGCTTAGCCCGGATATCACAATCGCACAATTGCCTTCG
1 GGCTTAGCCCGGA-ATCAC--TC-CACAATTGCCTTCG
44727985 GGCTTAGCCCGGATATCACTCGCACAATTGCCTTCG
1 GGCTTAGCCCGGA-ATCACTC-CACAATTGCCTTCG
44728021 GGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCG
1 GGCTTAGCCCGGA-ATCAC---TC-CACAATTGCCTTCG
44728060 GGCTTAGCCCGGATATCAC
1 GGCTTAGCCCGGA-ATCAC
44728079 AATTCGCACA
Statistics
Matches: 91, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
36 36 0.40
38 19 0.21
39 36 0.40
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (34 bp):
GGCTTAGCCCGGAATCACTCCACAATTGCCTTCG
Found at i:44728058 original size:39 final size:38
Alignment explanation
Indices: 44727947--44728088 Score: 252
Period size: 39 Copynumber: 3.7 Consensus size: 38
44727937 GATATCACAA
44727947 GGCTTAGCCCGGATATCACAATCGCACAATTGCCTTCG
1 GGCTTAGCCCGGATATCACAATCGCACAATTGCCTTCG
44727985 GGCTTAGCCCGGATATCAC--TCGCACAATTGCCTTCG
1 GGCTTAGCCCGGATATCACAATCGCACAATTGCCTTCG
44728021 GGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCG
1 GGCTTAGCCCGGATATCACAA-TCGCACAATTGCCTTCG
44728060 GGCTTAGCCCGGATATCACAATTCGCACA
1 GGCTTAGCCCGGATATCACAA-TCGCACA
44728089 TTCATTCACA
Statistics
Matches: 101, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
36 36 0.36
38 19 0.19
39 46 0.46
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (38 bp):
GGCTTAGCCCGGATATCACAATCGCACAATTGCCTTCG
Found at i:44729856 original size:56 final size:56
Alignment explanation
Indices: 44729790--44729913 Score: 196
Period size: 56 Copynumber: 2.2 Consensus size: 56
44729780 TTGGCTGTCA
* *
44729790 CACACATATATCAAAATCAAATATCGATGTCAACGTACTAGA-TGTGGTCTAACTTG
1 CACACATATATCAAAATCAAATATCGATGCCAACGTACTA-ATTGTGGTCTAACTGG
* *
44729846 CACACATATATCAAAATCACATATCGATGCCAACGTACTAATTGTGGTCTTACTGG
1 CACACATATATCAAAATCAAATATCGATGCCAACGTACTAATTGTGGTCTAACTGG
44729902 CACACATATATC
1 CACACATATATC
44729914 GATGCCATGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 1 0.02
56 62 0.98
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (56 bp):
CACACATATATCAAAATCAAATATCGATGCCAACGTACTAATTGTGGTCTAACTGG
Found at i:44731409 original size:46 final size:45
Alignment explanation
Indices: 44731356--44731526 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
44731346 TGGTTGAGCA
44731356 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
**** * * *
44731402 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGGAAATGTA-ACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
* *
44731446 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
44731494 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTT
44731527 TTGGGCGGGT
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 93 0.90
47 3 0.03
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:44731509 original size:92 final size:92
Alignment explanation
Indices: 44731352--44731522 Score: 290
Period size: 92 Copynumber: 1.9 Consensus size: 92
44731342 TAGATGGTTG
* *
44731352 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
44731417 TTGAGTCCGAGTTCGGAAATGTAACTA
66 TTGAGTCCGAGTTCGGAAATGTAACTA
* *
44731444 AGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 AGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
44731508 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
44731523 ACTTTTGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
91 2 0.03
92 72 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (92 bp):
AGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGGAAATGTAACTA
Found at i:44732189 original size:40 final size:40
Alignment explanation
Indices: 44732134--44732301 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
44732124 TGAATGATAC
* *
44732134 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
44732174 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
44732214 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
44732254 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
44732294 CC-GGCTAA
1 CCGGGCTAA
44732302 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:44740217 original size:40 final size:40
Alignment explanation
Indices: 44740160--44740327 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
44740150 TGAATGATAC
*
44740160 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * *
44740200 CCGGGCTAAGACTCGAAGGCATTCATGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
44740240 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
44740280 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
44740320 CC-GGCTAA
1 CCGGGCTAA
44740328 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:44740317 original size:80 final size:80
Alignment explanation
Indices: 44740160--44740327 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
44740150 TGAATGATAC
* * ** * *
44740160 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACTCGAAGGCATTCA
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCA
*
44740225 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
44740240 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC-ATTC
* **
44740304 GTGCTTGTGGTTATAT
65 ATGCGAGTGGTTATAT
44740320 CC-GGCTAA
1 CCGGGCTAA
44740328 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCA
TGCGAGTGGTTATAT
Found at i:44742449 original size:18 final size:18
Alignment explanation
Indices: 44742426--44742485 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
44742416 CAGCCAGTCA
*
44742426 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAGTTAT
* *
44742444 TCAGTAATAGTCAATTAT
1 TCAGTAATAATCAGTTAT
44742462 TCAGTAATAATCAGTTAT
1 TCAGTAATAATCAGTTAT
*
44742480 TTAGTA
1 TCAGTA
44742486 CCTTTATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:44742662 original size:45 final size:45
Alignment explanation
Indices: 44742610--44742718 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
44742600 GAAACAGTAG
* *
44742610 CAGTAACAGTAACATTAATAGTATTCAACACACAAAGTG-CTGAAT
1 CAGTAACAGTAACAGTAATAGAATTCAACACACAAAGTGTC-GAAT
* * * ** * *
44742655 CTGTAACACTAACGGTAATAGAATTTGACACACAAATTGTCGAGT
1 CAGTAACAGTAACAGTAATAGAATTCAACACACAAAGTGTCGAAT
44742700 CAGTAACAGTAACAGTAAT
1 CAGTAACAGTAACAGTAAT
44742719 CTACACATAA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAATAGAATTCAACACACAAAGTGTCGAAT
Found at i:44742867 original size:20 final size:20
Alignment explanation
Indices: 44742842--44742881 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44742832 TTCAGTTTTC
44742842 AATCAGTATATATT-TCAATT
1 AATCAG-ATATATTCTCAATT
44742862 AATCAGATATATTCTCAATT
1 AATCAGATATATTCTCAATT
44742882 CAATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
AATCAGATATATTCTCAATT
Found at i:44742889 original size:16 final size:15
Alignment explanation
Indices: 44742849--44742898 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
44742839 TTCAATCAGT
44742849 ATATATTTCAATTAATCA
1 ATATATTTCAA-T--TCA
44742867 GATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
44742884 ATATATTTCAATTCA
1 ATATATTTCAATTCA
44742899 CTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:44743961 original size:16 final size:16
Alignment explanation
Indices: 44743937--44744004 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
44743927 TTAAATTTAT
*
44743937 TTATTATATAAATATC
1 TTATAATATAAATATC
*
44743953 TTATAATATAATTA-C
1 TTATAATATAAATATC
*
44743968 TTAGTTA-ATAAATATC
1 TTA-TAATATAAATATC
44743984 TTTTATAAATAGTAAATATC
1 --TTAT-AATA-TAAATATC
44744004 T
1 T
44744005 ATTAGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.25
16 15 0.38
17 1 0.03
18 5 0.12
19 1 0.03
20 8 0.20
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:44744112 original size:9 final size:9
Alignment explanation
Indices: 44744088--44744122 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
44744078 CACATTTGTC
44744088 TTTATTTTA
1 TTTATTTTA
44744097 TTTTATTTTA
1 -TTTATTTTA
*
44744107 TTTATTTAA
1 TTTATTTTA
44744116 TTTATTT
1 TTTATTT
44744123 AATTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:44744123 original size:9 final size:9
Alignment explanation
Indices: 44744088--44744126 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
44744078 CACATTTGTC
*
44744088 TTTATTTTAT
1 TTTA-TTTAA
*
44744098 TTTATTTTA
1 TTTATTTAA
44744107 TTTATTTAA
1 TTTATTTAA
44744116 TTTATTTAA
1 TTTATTTAA
44744125 TT
1 TT
44744127 AATATAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTAA
Found at i:44749139 original size:18 final size:18
Alignment explanation
Indices: 44749116--44749204 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
44749106 TCATCAATAT
44749116 TAATCAATTATTCAGTAA
1 TAATCAATTATTCAGTAA
*
44749134 TAATCATTTATTCAGTAA
1 TAATCAATTATTCAGTAA
* * **
44749152 CAGTCGTTTATTCAGTAA
1 TAATCAATTATTCAGTAA
* *
44749170 TAGTCAATTATTCAATAA
1 TAATCAATTATTCAGTAA
*
44749188 TAATCAGTTATTCAGTA
1 TAATCAATTATTCAGTA
44749205 CCTTTATTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (18 bp):
TAATCAATTATTCAGTAA
Found at i:44749381 original size:45 final size:45
Alignment explanation
Indices: 44749331--44749437 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
44749321 AATGGTAGCA
*
44749331 GTAACAGTAACATTAATAGTATTCAACACACAAAGTG-CTGAATCT-
1 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGTC-GAAT-TG
* * ** *
44749376 GTAACAGTAACGGTAACAGTATTTGACACACAAAGTGTCGAGTTG
1 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGTCGAATTG
44749421 GTAACAGTAACAGTAAT
1 GTAACAGTAACAGTAAT
44749438 GGTAACAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
44 1 0.02
45 50 0.96
46 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGTCGAATTG
Found at i:44749442 original size:18 final size:18
Alignment explanation
Indices: 44749419--44749453 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44749409 AGTGTCGAGT
44749419 TGGTAACAGTAACAGTAA
1 TGGTAACAGTAACAGTAA
44749437 TGGTAACAGTAACAGTA
1 TGGTAACAGTAACAGTA
44749454 GTCGGCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (18 bp):
TGGTAACAGTAACAGTAA
Found at i:44749595 original size:16 final size:16
Alignment explanation
Indices: 44749574--44749625 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 16
44749564 AACTTTCAGT
44749574 TTTCAATCAATATATA
1 TTTCAATCAATATATA
*
44749590 TTTCAATTAATCAGATATA
1 TTTCAATCAAT---ATATA
44749609 TTCTCAATTCAATATAT
1 TT-TCAA-TCAATATAT
44749626 TTCAATTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 10 0.34
18 4 0.14
19 7 0.24
20 4 0.14
21 4 0.14
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTCAATCAATATATA
Found at i:44749626 original size:16 final size:15
Alignment explanation
Indices: 44749585--44749634 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
44749575 TTCAATCAAT
44749585 ATATATTTCAATTAATCA
1 ATATATTTCAA-T--TCA
44749603 GATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
44749620 ATATATTTCAATTCA
1 ATATATTTCAATTCA
44749635 CTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:44750540 original size:19 final size:18
Alignment explanation
Indices: 44750512--44750547 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
44750502 GAGCATTCTG
*
44750512 TTTCTTTTCTTTGTTTCC
1 TTTCTTTTCTTTCTTTCC
44750530 TTTCTTTTTCTTTCTTTC
1 TTTC-TTTTCTTTCTTTC
44750548 TTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTCC
Found at i:44750693 original size:16 final size:16
Alignment explanation
Indices: 44750669--44750736 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
44750659 TTAAATTTAT
*
44750669 TTATTATATAAATATC
1 TTATAATATAAATATC
*
44750685 TTATAATATAATTA-C
1 TTATAATATAAATATC
*
44750700 TTA-ATTAATAAATATC
1 TTATAAT-ATAAATATC
44750716 TTTTATAAATAGTAAATATC
1 --TTAT-AATA-TAAATATC
44750736 T
1 T
44750737 ATTAGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 13 0.32
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:44754885 original size:36 final size:35
Alignment explanation
Indices: 44754845--44754921 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 35
44754835 TGAGCAAAAA
44754845 AATTGAAGAAGAGCTAAATGAAGATATCAAGATGTT
1 AATTGAA-AAGAGCTAAATGAAGATATCAAGATGTT
* *
44754881 AATTGGAAAAGGGCTAAATGAAGATATCAAGCTGTT
1 AATT-GAAAAGAGCTAAATGAAGATATCAAGATGTT
44754917 AATTG
1 AATTG
44754922 GAATTTTGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 34 0.89
37 3 0.08
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (35 bp):
AATTGAAAAGAGCTAAATGAAGATATCAAGATGTT
Done.