Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 162 of 292
Found at i:48313821 original size:17 final size:17
Alignment explanation
Indices: 48313796--48313829 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48313786 AGATTAATTT
*
48313796 GGGCATGTGGGCCAAAA
1 GGGCATGTGGCCCAAAA
*
48313813 GGGCCTGTGGCCCAAAA
1 GGGCATGTGGCCCAAAA
48313830 ATTTAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.24, G:0.38, T:0.12
Consensus pattern (17 bp):
GGGCATGTGGCCCAAAA
Found at i:48317391 original size:39 final size:39
Alignment explanation
Indices: 48317337--48317538 Score: 341
Period size: 39 Copynumber: 5.2 Consensus size: 39
48317327 ATTATATTAT
* *
48317337 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48317376 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48317415 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48317454 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48317493 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48317532 CAGCACG
1 CAGCACG
48317539 GATACATTTC
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 152 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:48317542 original size:17 final size:17
Alignment explanation
Indices: 48317520--48317555 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48317510 GACTTTAGCC
48317520 CGGATACATTTCCAGCA
1 CGGATACATTTCCAGCA
48317537 CGGATACATTTCCAGCA
1 CGGATACATTTCCAGCA
48317554 CG
1 CG
48317556 AAGCCTGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (17 bp):
CGGATACATTTCCAGCA
Found at i:48317568 original size:56 final size:56
Alignment explanation
Indices: 48317481--48317590 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
48317471 GACTTTGGCC
* *
48317481 CGGATATATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCA
1 CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCA
48317537 CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
48317591 TGTCTTGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (56 bp):
CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCA
Found at i:48326361 original size:40 final size:40
Alignment explanation
Indices: 48326306--48326423 Score: 182
Period size: 40 Copynumber: 3.0 Consensus size: 40
48326296 GGAAAAAAAA
* *
48326306 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTAT
* *
48326346 TATAATCGGGTTAAGTCCCGAAGGCATTCGTACAGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTAT
* *
48326386 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTT
48326424 GTTACATCTG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTAT
Found at i:48329815 original size:39 final size:39
Alignment explanation
Indices: 48329772--48330085 Score: 513
Period size: 39 Copynumber: 8.1 Consensus size: 39
48329762 ATTATATTAT
* *
48329772 CAGCACGAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48329811 CAGCACGAAGCCTGTGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48329850 CAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
48329889 CAGCACGAAGCTTGTGGGACTTTAGCCCGGATACGTTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
48329928 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48329967 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48330006 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48330045 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA-TTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48330083 CAG
1 CAG
48330086 TGTCTTGCAT
Statistics
Matches: 257, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
38 6 0.02
39 251 0.98
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:48336497 original size:47 final size:47
Alignment explanation
Indices: 48336446--48336550 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
48336436 TAGTATTAAT
*
48336446 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
48336493 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
48336540 AATGTGATAAG
1 TATGTGATAAG
48336551 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:48337791 original size:14 final size:13
Alignment explanation
Indices: 48337772--48337802 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
48337762 CTTTATTCAA
48337772 AAAAAAAAATGTTC
1 AAAAAAAAA-GTTC
48337786 AAAAAAAAAGTTC
1 AAAAAAAAAGTTC
48337799 AAAA
1 AAAA
48337803 TTTTAGTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAGTTC
Found at i:48344295 original size:17 final size:19
Alignment explanation
Indices: 48344259--48344295 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
48344249 AAAACCCATA
48344259 ACACGGCCCATGTGGGCCC
1 ACACGGCCCATGTGGGCCC
*
48344278 ACAC-GCCCGTGT-GGCCC
1 ACACGGCCCATGTGGGCCC
48344295 A
1 A
48344296 TAAAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.16, C:0.43, G:0.30, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTGGGCCC
Found at i:48357223 original size:29 final size:30
Alignment explanation
Indices: 48357167--48357223 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
48357157 AAATTCACAT
* *
48357167 CTTAGGTAAAATGACTATTTTGCACCTAAC
1 CTTAGGTAAAATGACCATTTTACACCTAAC
*
48357197 CTTA-GTAAAATGACCATTTTACCCCTA
1 CTTAGGTAAAATGACCATTTTACACCTA
48357224 CCCTCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (30 bp):
CTTAGGTAAAATGACCATTTTACACCTAAC
Found at i:48357787 original size:24 final size:22
Alignment explanation
Indices: 48357759--48357804 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48357749 TCTTGACATT
*
48357759 ATGGCCGGATATGCTCCTTTAAAA
1 ATGGCCGAAT-TGCT-CTTTAAAA
*
48357783 ATGGCCTAATTGCTCTTTAAAA
1 ATGGCCGAATTGCTCTTTAAAA
48357805 GGCCAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGGCCGAATTGCTCTTTAAAA
Found at i:48360561 original size:40 final size:41
Alignment explanation
Indices: 48360504--48360688 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
48360494 TCGAATGATG
* * *
48360504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTTACTAAA
*
48360544 TCCGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTGAGTTACTAAA
*
48360584 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTTACTAAA
*
48360623 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTTACTA-AA
* *
48360664 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48360689 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 39 0.30
40 83 0.63
41 9 0.07
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTTACTAAA
Found at i:48360641 original size:79 final size:81
Alignment explanation
Indices: 48360504--48360688 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
48360494 TCGAATGATG
*
48360504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
48360568 TGTGTGAGTTACTA-AA
65 TGTGCGAGTTACTATAA
* * * **
48360584 TCCGGGTTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
48360647 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
48360664 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
48360689 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.65
80 31 0.34
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:48360710 original size:79 final size:78
Alignment explanation
Indices: 48360504--48360721 Score: 221
Period size: 79 Copynumber: 2.7 Consensus size: 78
48360494 TCGAATGATG
** * * *
48360504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATT
*
48360568 TGTGTGAGTTACTAAA
63 TGTGCGAGTTACTAAA
* ** *
48360584 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGAT-CCGAAGGCATTT
48360648 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
*
48360664 -CCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCC-GAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
48360722 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
78 1 0.01
79 73 0.61
80 45 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:48360718 original size:119 final size:119
Alignment explanation
Indices: 48360504--48360721 Score: 273
Period size: 119 Copynumber: 1.8 Consensus size: 119
48360494 TCGAATGATG
*
48360504 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
*** *
48360569 GTGTGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
48360623 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCTGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGATCC-GAAGGCAT
*
48360686 TTGAACGAG-TAGCTATATCC-GGTTAAACTCCGAAGG
64 TTGAACGAGTTA-CTAAATCCGGGTT-AACTCCGAAGG
48360722 TACGTGATTC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
118 9 0.11
119 68 0.81
120 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48367743 original size:42 final size:42
Alignment explanation
Indices: 48367679--48367758 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
48367669 CCCTTAGCCT
*
48367679 GTGTGCAACACTGACTTTAAAACACGACCATGACACACGCCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCC
* *
48367721 GTGTACAACACTGGCTTTAAAACACGGCCATGACACAC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACAC
48367759 ACCTGTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (42 bp):
GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCC
Found at i:48368831 original size:48 final size:47
Alignment explanation
Indices: 48368704--48368871 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 47
48368694 CTCTTAGCCA
* *
48368704 ATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGACGCTG
* * *
48368751 ATGCATGCCCCAGACATGTCTTACACTTGCACTCATC-TCTACGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGACGCTG
* ** *
48368797 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGACGCTG
* * *
48368845 ATTCATGTCCTAGACATTTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
48368872 AGAATTGTAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 20 0.20
47 58 0.57
48 23 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGACGCTG
Found at i:48368860 original size:94 final size:92
Alignment explanation
Indices: 48368608--48368873 Score: 247
Period size: 94 Copynumber: 2.9 Consensus size: 92
48368598 TCATCGAGGT
* * * * **
48368608 CGATGCCATGTCCCAGACATGGTCCTATACTAGCTCTCGTATAAATGT-TTTGATGCATGTCCT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTC--AT-AATGTGGCTGATGCATGTCCTA
*
48368671 GAACATGTCTTACACTAGCATGACTCTTAGC
63 G-ACATGTCTTACACTAGCATCACTCTTAGC
* * * * * *
48368702 CAATG-CATGTCCCAGACA-CGTCTTACACTGGCTA-TCATCATCGAGGCTGATGCATGCCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATAAT-GTGGCTGATGCATGTCCTAG
*
48368764 ACATGTCTTACACTTGCACTCA-TCTCTACGC
64 ACATGTCTTACACTAGCA-TCACTCT-TA-GC
* * *
48368795 TGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGATTCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCTGATGCATGTCCTAGAC
*
48368860 ATTTCTTACACTAG
66 ATGTCTTACACTAG
48368874 AATTGTAATG
Statistics
Matches: 137, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
89 2 0.01
90 3 0.02
91 31 0.23
92 17 0.12
93 18 0.13
94 47 0.34
95 19 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCTGATGCATGTCCTAGAC
ATGTCTTACACTAGCATCACTCTTAGC
Found at i:48370280 original size:93 final size:93
Alignment explanation
Indices: 48370168--48370338 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48370158 GCCCCTAAGT
* *
48370168 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48370232 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
48370261 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48370326 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48370339 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48370335 original size:46 final size:46
Alignment explanation
Indices: 48370163--48370335 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
48370153 AACCCGCCCC
* * *
48370163 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* *
48370209 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
48370257 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
48370302 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48370336 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48376017 original size:93 final size:92
Alignment explanation
Indices: 48375911--48376080 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
48375901 GCCCCTAAGT
* *
48375911 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
48375976 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
48376003 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48376068 CGAGTTCGGATGC
65 CGAGTTCGGATGC
48376081 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 6 0.08
93 67 0.92
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48376077 original size:46 final size:46
Alignment explanation
Indices: 48375906--48376077 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48375896 AACCCGCCCC
* * * *
48375906 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
48375951 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
48375999 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
48376044 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48376078 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 13 0.12
46 49 0.46
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48382243 original size:93 final size:93
Alignment explanation
Indices: 48382130--48382301 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
48382120 GCCCATAAGT
* * *
48382130 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48382195 CGA-TCTCGGATGCCTAGTTACATCTCTC
66 CGAGT-TCGGATGCCTAGTTACATCTCTC
*
48382223 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48382288 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
48382302 CAAACATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:48382297 original size:46 final size:46
Alignment explanation
Indices: 48382122--48382297 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
48382112 TGTAACCCGC
* * *
48382122 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48382168 CCATAAGTTAACTCGGACTCAACTCAACGA-TCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGC-A--T
* ***
48382214 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48382261 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48382298 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48384220 original size:151 final size:149
Alignment explanation
Indices: 48384002--48384439 Score: 469
Period size: 150 Copynumber: 2.9 Consensus size: 149
48383992 TGATTTTGGG
* **
48384002 AAAAATAGTGTTTTTTTAATAAAAAATGAGAAAGTTTAGATTTTGGAAAAATAAATGTATATTTT
1 AAAAATAGTATTTTTTTAA-AAAAAA--AG-AAGTTTAGATTTT-GAAAAATAAAAATATATTTT
48384067 TTTAGTAAATTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTCAACT-CTT
61 TTTAGT-AATTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTT-AACTAC-T
** * * * *
48384131 TTAAAGTCAAAGCTTTAATCTTT-A-A
123 CCAAAATAAAAACTTTAATATTTAAGA
*
48384156 AAAAATAGTATTTTTTTAAAAAAAAAGACAGTTTAGATTTTGAAAAAATAAAAATATGTGTTTTT
1 AAAAATAGTATTTTTTTAAAAAAAAAGA-AGTTTAGATTTTG-AAAAATAAAAATATAT-TTTTT
* * *
48384221 TAGTTATTCTAAAGGAAAGCTTAAATTTTTAAAACAAAGATTTGA-TTTTTTTTAACTACTCCAA
63 TAGTAATT-TAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTAACTACTCCAA
*
48384285 AATAAAAACTTTATTATTTAAGA
127 AATAAAAACTTTAATATTTAAGA
* ** * *
48384308 AAAAATAATAATTTTTTT--AAAATGAGAATGTTTAGATTTTGAAAAAGAAAAATCTATTTTTTT
1 AAAAATAGT-ATTTTTTTAAAAAAAAAGAA-GTTTAGATTTTGAAAAATAAAAATATATTTTTTT
* * * *
48384371 AAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGA--TTTTTTTAACTATTCCGA
64 -AGT-AATTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTAACTACTCCAA
48384434 AATAAA
127 AATAAA
48384440 GTTTTGATTT
Statistics
Matches: 246, Mismatches: 27, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
149 28 0.11
150 73 0.30
151 61 0.25
152 52 0.21
153 14 0.06
154 18 0.07
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (149 bp):
AAAAATAGTATTTTTTTAAAAAAAAAGAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTTAG
TAATTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTAACTACTCCAAAATA
AAAACTTTAATATTTAAGA
Found at i:48384395 original size:150 final size:146
Alignment explanation
Indices: 48384024--48384504 Score: 462
Period size: 150 Copynumber: 3.2 Consensus size: 146
48384014 TTTTTAATAA
* * * * *
48384024 AAAATGAGAAAGTTTAGATTTTGGAAAAATAAATGTATATTTTTTTAGTAAATTTAAAGGAAAGT
1 AAAATGAGAATGTTTAGATTTTGAAAAAAAAAATCTATA-TTTTTTAGTAATTTTAAAGGAAAGT
** * *
48384089 TTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTCAACT-CTTTTAAAGTCAAAGCTTTAATCTT
65 TTAAATTTTTAAAACAAAGTTTTGA-TTTTTTTT-AACTAC-TCCAAAAT-AAAGCTTT-ATTTT
*
48384153 T-A-AAAAAATAGTATTTTTTT
125 TAAGAAAAAATAATATTTTTTT
** * * * * *
48384173 AAAAAAAAAGACA-GTTTAGATTTTGAAAAAATAAAAATATGTGTTTTTTAGTTATTCTAAAGGA
1 --AAAATGAGA-ATGTTTAGATTTTG-AAAAA-AAAAATCTATATTTTTTAGTAATTTTAAAGGA
* * *
48384237 AAGCTTAAATTTTTAAAACAAAGATTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTATTAT
61 AAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAAT-AAAGCTTTATT-T
48384302 TTAAGAAAAAATAATAATTTTTTT
124 TTAAGAAAAAATAAT-ATTTTTTT
*
48384326 AAAATGAGAATGTTTAGATTTTGAAAAAGAAAAATCTAT-TTTTTTAAGTCATTTTAAAGGAAAG
1 AAAATGAGAATGTTTAGATTTTGAAAAA-AAAAATCTATATTTTTT-AGTAATTTTAAAGGAAAG
* * * *
48384390 TTTAAAATTTTAAAACAAAGTTTTGA-TTTTTTTAACTATTCCGAAATAAAGTTTTGATTTTTAA
64 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAGCTTT-ATTTTTAA
* *
48384454 G-AAAAGTAATTATTCTTTCT
128 GAAAAAATAA-TATT-TTTTT
*
48384474 -AAA-GAAAAT-TTT-GATTTTGAAAAAAAAAATC
1 AAAATGAGAATGTTTAGATTTTGAAAAAAAAAATC
48384505 CACACCGAAG
Statistics
Matches: 281, Mismatches: 36, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
143 7 0.02
144 12 0.04
145 3 0.01
146 5 0.02
147 13 0.05
148 17 0.06
149 30 0.11
150 72 0.26
151 48 0.17
152 59 0.21
153 15 0.05
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.41
Consensus pattern (146 bp):
AAAATGAGAATGTTTAGATTTTGAAAAAAAAAATCTATATTTTTTAGTAATTTTAAAGGAAAGTT
TAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAGCTTTATTTTTAAGAA
AAAATAATATTTTTTT
Found at i:48389417 original size:46 final size:46
Alignment explanation
Indices: 48389271--48389535 Score: 209
Period size: 46 Copynumber: 5.7 Consensus size: 46
48389261 TTTGTGAGCT
* * * * *
48389271 AGTGTAAGA-CATGTATGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCC
* * * * *
48389317 AGTGTAAGACCATGTTTGGTACATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACG-AAGCC
* *
48389365 ACTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* * *
48389411 AGTGTAAGA-CATGTCTGTGACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGA-AGCC
** * * * *
48389457 AGTGTAAGACCATGTCTGGGACATGACATC-TACTTGGGATAGGAGCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGA-CGAAGCC
48389504 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGG
48389536 TACCTTACCC
Statistics
Matches: 177, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 72 0.41
47 72 0.41
48 28 0.16
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:48395258 original size:46 final size:46
Alignment explanation
Indices: 48395101--48395309 Score: 151
Period size: 46 Copynumber: 4.5 Consensus size: 46
48395091 TGTGAGCTAA
* *
48395101 TGTAAGACATGTCTGGGACATGCATCGACC-AC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCG-CCTACGA-GATGATAGCCAG
* * * ** * * *
48395147 TGTAAAACCATGTCTAGGACATGGCATCGGCATTA--AGGCGAGAGCTAC
1 TGTAAGA-CATGTCTGGGACAT-GCATC-GC-CTACGAGATGATAGCCAG
* *
48395195 TGTAAGACATGTTTGGGACATGCATTGACCT-CGAGAT-ATAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCG-CCTACGAGATGAT-AGCCAG
* * **
48395241 TGTAAGACATGCCTGGGACATGCATCGGCTACGAGATGATAGTTAG
1 TGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGATAGCCAG
48395287 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
48395310 GTATCGGTAC
Statistics
Matches: 126, Mismatches: 25, Indels: 23
0.72 0.14 0.13
Matches are distributed among these distances:
45 5 0.04
46 58 0.46
47 41 0.33
48 19 0.15
49 2 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGATAGCCAG
Found at i:48398062 original size:27 final size:27
Alignment explanation
Indices: 48397981--48398056 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
48397971 TTACCACCTA
* *
48397981 ATCCTCGTATTTACCATCTCATTGGACT
1 ATCC-CGTATTTAACATCCCATTGGACT
* * *
48398009 AACCCGTGTTTAACGTCCCATTGGACT
1 ATCCCGTATTTAACATCCCATTGGACT
48398036 ATCCCGTATTTAACATCCCAT
1 ATCCCGTATTTAACATCCCAT
48398057 CAGACTGTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (27 bp):
ATCCCGTATTTAACATCCCATTGGACT
Found at i:48399621 original size:28 final size:27
Alignment explanation
Indices: 48399559--48399627 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
48399549 TAGTGAGTCT
*
48399559 GCACACTTAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
*
48399586 GCACACTTAGTGCTACATGATCAAACTC
1 GCACACTTAGTGCTACATAATC-AACTC
48399614 GCACACTTAGTGCT
1 GCACACTTAGTGCT
48399628 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:48407102 original size:40 final size:40
Alignment explanation
Indices: 48407047--48407123 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
48407037 ACGGTACCTT
* *
48407047 TTGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCATAC
* * *
48407087 TTGGTTTGTAGGGTTGGCTGAGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCA
48407124 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.31, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCATAC
Found at i:48412949 original size:15 final size:17
Alignment explanation
Indices: 48412914--48412954 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
48412904 TAATTTGAAC
*
48412914 CGTGTGGGCCACACGGG
1 CGTGTGAGCCACACGGG
48412931 CGTGTGAGCC-CAC-GG
1 CGTGTGAGCCACACGGG
48412946 CGTGTGAGC
1 CGTGTGAGC
48412955 TCAATTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 9 0.39
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (17 bp):
CGTGTGAGCCACACGGG
Found at i:48419338 original size:19 final size:19
Alignment explanation
Indices: 48419314--48419351 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48419304 TTAGTTAATA
48419314 ATTTTAATGA-TATTTTATT
1 ATTTT-ATGATTATTTTATT
*
48419333 ATTTTATTATTATTTTATT
1 ATTTTATGATTATTTTATT
48419352 TAGTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTATGATTATTTTATT
Found at i:48421558 original size:46 final size:46
Alignment explanation
Indices: 48421503--48421913 Score: 526
Period size: 46 Copynumber: 9.0 Consensus size: 46
48421493 GCTTTCTCAA
* * *
48421503 ATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
48421549 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
48421595 ATGAAAT--G-AAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
48421638 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
48421684 ATGAAATGAATAAGACCATGGTTGAAAGATACAATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
48421730 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
48421776 GGGGAAATGAATAAGACCATGGTTGAAAGATACCATAGCAACATGAC
1 -ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
48421823 GGGGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACATGAT
1 -ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
48421870 A-GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
48421914 TTGAAGATAA
Statistics
Matches: 333, Mismatches: 25, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
43 41 0.12
44 1 0.00
45 3 0.01
46 200 0.60
47 88 0.26
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:48421621 original size:89 final size:90
Alignment explanation
Indices: 48421514--48421929 Score: 491
Period size: 89 Copynumber: 4.6 Consensus size: 90
48421504 TGAAATGTGT
* **
48421514 AAGACCATGGTTGAAAGATGCCATGGCAACATGATA-GAAAATGTGTAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAATAAGACCATGGTTGAAAGA
48421578 TACCATGGCAACATGACATGAAATG-
65 TACCATGGCAACATGACATGAAATGA
**
48421603 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGAT
**
48421668 ACCATGGCAATGTGACATGAAATGAA
66 ACCATGGCAACATGACATGAAATG-A
* * *
48421694 TAAGACCATGGTTGAAAGATACAATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 -AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
**
48421759 TACCATGGCAACATGACGGGGAAATGAA
65 TACCATGGCAACATGAC-ATGAAATG-A
* *** *
48421787 TAAGACCATGGTTGAAAGATACCATAGCAACATGACGGGGAAATGAATAAGATCATGGTTGAAAG
1 -AAGACCATGGTTGAAAGATACCATGGCAACATGA-TATGAAATGAATAAGACCATGGTTGAAAG
* *
48421852 ATACCATGGCAACATGATA-GAAAACGA
64 ATACCATGGCAACATGACATG-AAATGA
* * * *
48421879 GTAAGACCATAGTTGAAAGATACTATGGCATCATG-T-TGAAGATAAATAAGA
1 --AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAA-ATGAATAAGA
48421930 TCGTGGATGA
Statistics
Matches: 289, Mismatches: 29, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
89 84 0.29
90 4 0.01
91 9 0.03
92 76 0.26
93 74 0.26
94 42 0.15
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (90 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAATGA
Found at i:48422038 original size:13 final size:13
Alignment explanation
Indices: 48421996--48422039 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
48421986 ACCTGATGAC
48421996 AAATGGTTATATG
1 AAATGGTTATATG
* **
48422009 AATTGGTTATACA
1 AAATGGTTATATG
*
48422022 AAATGGTTATGTG
1 AAATGGTTATATG
48422035 AAATG
1 AAATG
48422040 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:48423026 original size:26 final size:26
Alignment explanation
Indices: 48422959--48423033 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
48422949 TGAATTTTGA
48422959 AATATATTACAAGTATTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
*
48422985 AATATA-TA-AA-T-GTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
48423007 AATATATTACAAGTATTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
48423033 A
1 A
48423034 CCATGGTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 16 0.37
23 3 0.07
24 4 0.09
25 3 0.07
26 17 0.40
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (26 bp):
AATATATTACAAGTATTAAAGATAAG
Found at i:48423203 original size:47 final size:46
Alignment explanation
Indices: 48423028--48423248 Score: 275
Period size: 47 Copynumber: 4.8 Consensus size: 46
48423018 AGTATTAAAG
** **
48423028 ATAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGA
48423074 ATAAGACCATGGTTGAAAGATACCATGGCAACATGGTA-GGGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACAT-G-ACGGGAAATGA
48423121 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGCAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG-AAATGA
* * * *
48423168 ATAAGACCATGGTTGAAACATACCATGGAAACATGACAGAAAAT-A
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGA
** * * *
48423213 AGTAAGATTATAGTTGAAAGATACTATGGCATCATG
1 A-TAAGACCATGGTTGAAAGATACCATGGCAACATG
48423249 TCGAAGATAA
Statistics
Matches: 155, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
45 3 0.02
46 67 0.43
47 84 0.54
48 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGA
Found at i:48423219 original size:93 final size:93
Alignment explanation
Indices: 48423028--48423248 Score: 284
Period size: 93 Copynumber: 2.4 Consensus size: 93
48423018 AGTATTAAAG
** * *
48423028 ATAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAATGAATAAGACCATGGTTGAAAG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAC
* ** *
48423093 ATACCATGGCAACATGGTAGGGAAATGA
66 ATACCATGGAAACATGACAGGAAAATGA
*
48423121 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGCAAATGAATAAGACCATGGTTGAAA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGACCATGGTTGAAA
48423186 CATACCATGGAAACATGACA-GAAAAT-A
65 CATACCATGGAAACATGACAGGAAAATGA
** * * *
48423213 AGTAAGATTATAGTTGAAAGATACTATGGCATCATG
1 A-TAAGACCATGGTTGAAAGATACCATGGCAACATG
48423249 TCGAAGATAA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.02
93 70 0.62
94 40 0.36
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (93 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAC
ATACCATGGAAACATGACAGGAAAATGA
Found at i:48424238 original size:36 final size:36
Alignment explanation
Indices: 48424186--48424256 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
48424176 TCATCTAAGT
48424186 CTGTATTGTGCTGAAAAGAGGGTGGTTCTGAGGACC
1 CTGTATTGTGCTGAAAAGAGGGTGGTTCTGAGGACC
48424222 CTGTATTGTG-TCGAAAAGAGGGTGGTTCTGAGGAC
1 CTGTATTGTGCT-GAAAAGAGGGTGGTTCTGAGGAC
48424257 TGAAGAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.28
Consensus pattern (36 bp):
CTGTATTGTGCTGAAAAGAGGGTGGTTCTGAGGACC
Found at i:48428829 original size:40 final size:40
Alignment explanation
Indices: 48428757--48428835 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
48428747 TTACAGTACC
* *
48428757 ACTTGGTGTGTAGGGCTAGATGGGTCGGTTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCAT
* * *
48428797 ACTTGGTGTGTAGGGCTGGGTAGGTTGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCA
48428836 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.15, C:0.16, G:0.33, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCAT
Found at i:48434169 original size:39 final size:39
Alignment explanation
Indices: 48434122--48434264 Score: 252
Period size: 39 Copynumber: 3.7 Consensus size: 39
48434112 TGTGTGAGAT
48434122 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
48434161 TTATATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
48434199 TTATATCCGAGCTAAATCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
48434238 TTATATCCAGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
48434265 ATTATGTAGG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 38 0.39
39 60 0.61
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:48442140 original size:39 final size:39
Alignment explanation
Indices: 48442089--48442271 Score: 330
Period size: 39 Copynumber: 4.7 Consensus size: 39
48442079 TGTGTGAGAT
48442089 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
48442128 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
48442167 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
48442206 TTATATCCGAGCTAAATCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
48442245 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
48442272 ATTATGTTGG
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:48447762 original size:40 final size:40
Alignment explanation
Indices: 48447709--48447933 Score: 346
Period size: 40 Copynumber: 5.6 Consensus size: 40
48447699 ACTACTTGCT
*
48447709 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48447749 CAACTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48447789 CAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48447829 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48447869 CAAATGCCTTC-GGAGCTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCGCA
*
48447909 CAACTGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
48447934 TTATCATCTG
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 4 0.02
40 163 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48450063 original size:25 final size:25
Alignment explanation
Indices: 48450035--48450088 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
48450025 AATTTGATAT
*
48450035 TTCAGCAGAGAATGCATTGTTGAGA
1 TTCAGCAGAGAAGGCATTGTTGAGA
*
48450060 TTCAGCAGATAAGGCATTGTTGAGA
1 TTCAGCAGAGAAGGCATTGTTGAGA
48450085 TTCA
1 TTCA
48450089 CAAACTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (25 bp):
TTCAGCAGAGAAGGCATTGTTGAGA
Found at i:48450708 original size:15 final size:16
Alignment explanation
Indices: 48450674--48450712 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
48450664 CATAAAATTG
48450674 AGATTAATTTATAGGA
1 AGATTAATTTATAGGA
48450690 AGATTAATTTATA-GA
1 AGATTAATTTATAGGA
48450705 AGA-TAATT
1 AGATTAATT
48450713 AAATTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (16 bp):
AGATTAATTTATAGGA
Found at i:48450961 original size:58 final size:59
Alignment explanation
Indices: 48450834--48450965 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 59
48450824 TCATTCATAT
*
48450834 TTTAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTATCTTTATTAAATTATA
1 TTTAATAATAATTAAATTAAGAATG-TATTAAATTATATATTATTATC--TATTAAATTATA
* *
48450896 TTTAATAATAATTAAATTAAAGTATG-ATT-AATTATTTATTATTTATC-ATTAAATTATA
1 TTTAATAATAATTAAATT-AAGAATGTATTAAATTATATATTA-TTATCTATTAAATTATA
48450954 TTTAATAATAAT
1 TTTAATAATAAT
48450966 CCTACTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
58 23 0.35
60 11 0.17
61 8 0.12
62 17 0.26
63 6 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (59 bp):
TTTAATAATAATTAAATTAAGAATGTATTAAATTATATATTATTATCTATTAAATTATA
Found at i:48452843 original size:8 final size:8
Alignment explanation
Indices: 48452830--48452857 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
48452820 AATATAAAAT
48452830 ATATGATA
1 ATATGATA
48452838 ATATGATA
1 ATATGATA
48452846 ATATGATA
1 ATATGATA
48452854 ATAT
1 ATAT
48452858 TTATTATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (8 bp):
ATATGATA
Found at i:48452972 original size:28 final size:28
Alignment explanation
Indices: 48452932--48452990 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
48452922 GTCATTATCA
48452932 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
48452960 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
48452988 ACC
1 ACC
48452991 ACATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:48458368 original size:39 final size:39
Alignment explanation
Indices: 48458250--48458432 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
48458240 TCGTTCAAAC
* * ** * **
48458250 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
48458290 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
48458330 GCCTTCGGGCTTAGCCCAGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
48458369 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
48458408 GCCTTCAGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
48458433 CTCGAACATT
Statistics
Matches: 123, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 85 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:48461612 original size:27 final size:28
Alignment explanation
Indices: 48461574--48461631 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
48461564 GTCATTATCA
48461574 ACCCCATAAGTTAT-AAACTTTTCCTAT
1 ACCCCATAAGTTATGAAACTTTTCCTAT
*
48461601 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATGAAACTTTTCCTAT
48461629 ACC
1 ACC
48461632 TCATTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (28 bp):
ACCCCATAAGTTATGAAACTTTTCCTAT
Found at i:48463666 original size:2 final size:2
Alignment explanation
Indices: 48463659--48463692 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48463649 TATCAAGTGA
48463659 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
48463693 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48464138 original size:58 final size:57
Alignment explanation
Indices: 48464017--48464141 Score: 162
Period size: 58 Copynumber: 2.2 Consensus size: 57
48464007 AATAGAGGGA
* * * *
48464017 ACCCAACTATGGTTATTTTTTTTTGGTCACCGAATTATGAAAAGTTACAAAATGGTC
1 ACCCAACTATGGTTATTTTTTTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
* *
48464074 ACCCAACTATGGTTTTTTTCTCTTTTGATCACCCAACTATG-AAAGTTATAAAATGATC
1 ACCCAACTATGGTTATTTT-T-TTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
*
48464132 ATCCAACTAT
1 ACCCAACTAT
48464142 CCAATTTGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 18 0.31
58 25 0.42
59 16 0.27
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (57 bp):
ACCCAACTATGGTTATTTTTTTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
Found at i:48464158 original size:58 final size:59
Alignment explanation
Indices: 48464035--48464163 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 59
48464025 ATGGTTATTT
* * * **** *
48464035 TTTTTTGGTCACCGAATTATGAAAAGTTACAAAATGGTCACCCAACTATGGTTTTTTTC
1 TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
* * * *
48464094 TCTTTTGATCACCCAACTATG-AAAGTTATAAAATGATCATCCAACTATCCAATTTGTC
1 TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
48464152 TTTTTTGGTCAC
1 TTTTTTGGTCAC
48464164 TAGTTGGCTA
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
58 39 0.70
59 17 0.30
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (59 bp):
TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
Found at i:48464873 original size:16 final size:16
Alignment explanation
Indices: 48464839--48464872 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48464829 ATTAAACATG
48464839 AAATGATCCAAACCCA
1 AAATGATCCAAACCCA
*
48464855 AAATGA-CCTAACCCA
1 AAATGATCCAAACCCA
48464870 AAA
1 AAA
48464873 AAACTCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.53, C:0.29, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATGATCCAAACCCA
Found at i:48464949 original size:26 final size:26
Alignment explanation
Indices: 48464907--48464957 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
48464897 GATCCGAACT
48464907 CAAAACTTATTTAACTTGAAATAACC
1 CAAAACTTATTTAACTTGAAATAACC
* *
48464933 CAAAA-TTTTTTATACTTGAATTAAC
1 CAAAACTTATTTA-ACTTGAAATAAC
48464958 TTGGTCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (26 bp):
CAAAACTTATTTAACTTGAAATAACC
Found at i:48468541 original size:4 final size:4
Alignment explanation
Indices: 48468532--48468563 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
48468522 CTACCTCGGC
48468532 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
48468564 AAAATCTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:48472335 original size:16 final size:13
Alignment explanation
Indices: 48472310--48472349 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
48472300 CTACATATAC
48472310 TTTTACAACAACA
1 TTTTACAACAACA
48472323 TTTTACAACAACA
1 TTTTACAACAACA
48472336 TTTTACAACAACA
1 TTTTACAACAACA
48472349 T
1 T
48472350 AAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTACAACAACA
Found at i:48473100 original size:11 final size:11
Alignment explanation
Indices: 48473084--48473108 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48473074 ACAAAAAAGG
48473084 GGAAAATGAAA
1 GGAAAATGAAA
48473095 GGAAAATGAAA
1 GGAAAATGAAA
48473106 GGA
1 GGA
48473109 GAACGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (11 bp):
GGAAAATGAAA
Found at i:48475069 original size:2 final size:2
Alignment explanation
Indices: 48475057--48475088 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
48475047 ATCCTATAAA
48475057 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48475089 AAACATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48475675 original size:67 final size:67
Alignment explanation
Indices: 48475592--48475722 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
48475582 AATGCAATCA
* * *
48475592 ATTGAGTTTTTAATCAAAAGTTAGTAATTAATCGAACCTTTTAAATAT-AGTTTTTCGTCGAAGC
1 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGA-TTTTCCGTCGAAGC
48475656 CCC
65 CCC
*
48475659 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACTTTTTAAATATGATTTTCCGTCGAAGC
1 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGATTTTCCGTCGAAGC
48475723 TCTTGATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 58 0.98
68 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (67 bp):
ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGATTTTCCGTCGAAGCC
CC
Found at i:48475843 original size:31 final size:31
Alignment explanation
Indices: 48475769--48475846 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 31
48475759 GAACATAAAA
* *
48475769 GCTTAATTGATTCTTTAAATTATTTTATGAG
1 GCTTAATTGATTTTTTAAATTATTTTAAGAG
*
48475800 GACTTAATTGATTTTTTTAATTATTTTAAGAG
1 G-CTTAATTGATTTTTTAAATTATTTTAAGAG
*
48475832 GCTTAAATGATTTTT
1 GCTTAATTGATTTTT
48475847 AAGGATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 14 0.33
32 28 0.67
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (31 bp):
GCTTAATTGATTTTTTAAATTATTTTAAGAG
Found at i:48475964 original size:30 final size:30
Alignment explanation
Indices: 48475930--48475994 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
48475920 TTTAATAATA
* *
48475930 TTTAATAACTTAT-ATAATATTTTATAACAT
1 TTTAATAACTTATAATAAT-TTTTAAAAAAT
* *
48475960 TTTAATAATTTCTAATAATTTTTAAAAAAT
1 TTTAATAACTTATAATAATTTTTAAAAAAT
48475990 TTTAA
1 TTTAA
48475995 ATAAAAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAATAACTTATAATAATTTTTAAAAAAT
Found at i:48475970 original size:19 final size:19
Alignment explanation
Indices: 48475919--48475994 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
48475909 ATTTTAATTT
48475919 TTTTAATAATATTTAATAAC
1 TTTTAATAAT-TTTAATAAC
48475939 TTATATAAT-ATTTT-ATAAC
1 TT-T-TAATAATTTTAATAAC
*
48475958 ATTTTAATAATTTCTAATAAT
1 -TTTTAATAATTT-TAATAAC
*
48475979 TTTTAAAAAATTTTAA
1 TTTT-AATAATTTTAA
48475995 ATAAAAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.09
19 10 0.21
20 15 0.32
21 14 0.30
22 4 0.09
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATAATTTTAATAAC
Found at i:48476309 original size:17 final size:18
Alignment explanation
Indices: 48476272--48476312 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48476262 TTTTTACAAA
48476272 TATATTTTTAATAAGTTTT
1 TATA-TTTTAATAAGTTTT
*
48476291 TATATTTTAATTA-TTTT
1 TATATTTTAATAAGTTTT
48476308 TATAT
1 TATAT
48476313 AGATTCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTAATAAGTTTT
Found at i:48476313 original size:19 final size:20
Alignment explanation
Indices: 48476271--48476313 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
48476261 TTTTTTACAA
48476271 ATATATTTTTAATAAGTTTT
1 ATATATTTTTAATAAGTTTT
* *
48476291 -TATA-TTTTAATTATTTTT
1 ATATATTTTTAATAAGTTTT
48476309 ATATA
1 ATATA
48476314 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
ATATATTTTTAATAAGTTTT
Found at i:48476360 original size:9 final size:9
Alignment explanation
Indices: 48476346--48476370 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48476336 TCATTTAATA
48476346 TTTTCATAT
1 TTTTCATAT
48476355 TTTTCATAT
1 TTTTCATAT
48476364 TTTTCAT
1 TTTTCAT
48476371 GACATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTCATAT
Found at i:48477214 original size:18 final size:18
Alignment explanation
Indices: 48477180--48477217 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48477170 TTTTGAATTA
*
48477180 ATTTAAATATTTAAATAC
1 ATTTAAATAATTAAATAC
48477198 ATTTCAAATAATT-AATAC
1 ATTT-AAATAATTAAATAC
48477216 AT
1 AT
48477218 AGAAGGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAATAATTAAATAC
Found at i:48478531 original size:13 final size:13
Alignment explanation
Indices: 48478513--48478540 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48478503 TAGAAATTTT
48478513 TTTAAAATTTAAC
1 TTTAAAATTTAAC
48478526 TTTAAAATTTAAC
1 TTTAAAATTTAAC
48478539 TT
1 TT
48478541 ACTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTAAAATTTAAC
Found at i:48478552 original size:2 final size:2
Alignment explanation
Indices: 48478545--48478579 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48478535 TAACTTACTT
48478545 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48478580 TTTAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48479841 original size:2 final size:2
Alignment explanation
Indices: 48479834--48479868 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48479824 CAGTTCAAGA
48479834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48479869 AACCAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48480418 original size:27 final size:27
Alignment explanation
Indices: 48480364--48480418 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48480354 AGCTGCTAGA
* *
48480364 AACAGTAAATGTGGCAAAGCCACTAGT
1 AACAGTAAATGTGACAAAGCCACCAGT
* * *
48480391 AACAGTGAATGTGACATAGTCACCAGT
1 AACAGTAAATGTGACAAAGCCACCAGT
48480418 A
1 A
48480419 CAATACTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (27 bp):
AACAGTAAATGTGACAAAGCCACCAGT
Found at i:48480600 original size:27 final size:27
Alignment explanation
Indices: 48480570--48480678 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
48480560 CATTTTACTA
*
48480570 TACAGGGATATTATGGTCATTTTATCC
1 TACAGGGATATTACGGTCATTTTATCC
**
48480597 TACAGGGGCATTACGGTCATTTTATCC
1 TACAGGGATATTACGGTCATTTTATCC
* *
48480624 TACA-TGAGTATTACGGTCATTTTACCC
1 TACAGGGA-TATTACGGTCATTTTATCC
* *
48480651 TACAGGGGTATTACGGTCGTTTTA-CC
1 TACAGGGATATTACGGTCATTTTATCC
48480677 TA
1 TA
48480679 TTTTGGGGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.07
27 64 0.91
28 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
TACAGGGATATTACGGTCATTTTATCC
Found at i:48481903 original size:20 final size:19
Alignment explanation
Indices: 48481858--48481904 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
48481848 TAGGGGGAAA
*
48481858 AAAGAAGAAAATAGAGAAC
1 AAAGGAGAAAATAGAGAAC
*
48481877 AAAGGAGAAAATGGAGAAC
1 AAAGGAGAAAATAGAGAAC
48481896 AGAAGGAGA
1 A-AAGGAGA
48481905 GCAATCTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (19 bp):
AAAGGAGAAAATAGAGAAC
Found at i:48483004 original size:2 final size:2
Alignment explanation
Indices: 48482999--48483024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48482989 AAAGATTTAA
48482999 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
48483025 TTTAAAATGT
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:48484344 original size:46 final size:44
Alignment explanation
Indices: 48484285--48484399 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
48484275 ACAGGACAAA
* *
48484285 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
48484331 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
48484375 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
48484400 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:48484380 original size:44 final size:45
Alignment explanation
Indices: 48484285--48484418 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
48484275 ACAGGACAAA
* *
48484285 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
48484331 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
48484375 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
48484419 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:48493454 original size:137 final size:136
Alignment explanation
Indices: 48493208--48493493 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
48493198 CATTGGGCCT
**
48493208 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
*
48493273 AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
48493338 CATATGC
131 -ATATGC
*
48493345 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
*
48493410 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
48493475 ATATGC
131 ATATGC
48493481 AAGCCCATTTGGG
1 AAGCCCATTTGGG
48493494 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 19 0.13
137 125 0.87
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
ATATGC
Found at i:48493778 original size:25 final size:27
Alignment explanation
Indices: 48493741--48493793 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
48493731 TCAAACATGC
48493741 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
48493767 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
48493793 A
1 A
48493794 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:48495300 original size:26 final size:26
Alignment explanation
Indices: 48495271--48495406 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
48495261 CATGATATTC
48495271 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48495297 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48495323 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48495349 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48495375 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48495401 TTATCA
1 TTATCA
48495407 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48496819 original size:72 final size:72
Alignment explanation
Indices: 48496736--48496879 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
48496726 AAATATTATA
48496736 AGCCACATAATTTTTATACCTTTATTATATTTTTAGTTGATATATTTCATATATAATAATATTAA
1 AGCCACATAATTTTTATACCTTTATTATATTTTTAGTTGATATATTTCATATATAATAATATTAA
48496801 CAAATTT
66 CAAATTT
48496808 AGCCACATAATTTTTATACCTTTATTATATTTTTAGTTGATATATTTCATATATAATAATATTAA
1 AGCCACATAATTTTTATACCTTTATTATATTTTTAGTTGATATATTTCATATATAATAATATTAA
48496873 CAAATTT
66 CAAATTT
48496880 GAATATCATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (72 bp):
AGCCACATAATTTTTATACCTTTATTATATTTTTAGTTGATATATTTCATATATAATAATATTAA
CAAATTT
Found at i:48497110 original size:17 final size:18
Alignment explanation
Indices: 48497077--48497111 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48497067 ATAGAAGTTG
48497077 AAATAACTATAAATTTAA
1 AAATAACTATAAATTTAA
*
48497095 AAATAATTAT-AATTTAA
1 AAATAACTATAAATTTAA
48497112 TAGAAGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAACTATAAATTTAA
Found at i:48497116 original size:44 final size:43
Alignment explanation
Indices: 48497066--48497151 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
48497056 AGTTAAACAG
* *
48497066 AATAGAAGTTGAAATAACTATAAATTTAAAAATAATTATAATTT
1 AATAGAAGTTGAAATAACTACAAA-TTAAAAATAATTAGAATTT
** * *
48497110 AATAGAAGTTGTGATAATTACACATTAAAAATAATTAGAATT
1 AATAGAAGTTGAAATAACTACAAATTAAAAATAATTAGAATT
48497152 AGAATTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.35
Consensus pattern (43 bp):
AATAGAAGTTGAAATAACTACAAATTAAAAATAATTAGAATTT
Found at i:48497397 original size:25 final size:24
Alignment explanation
Indices: 48497343--48497397 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
48497333 TTCAACCAAA
* *
48497343 ATTTTATTTTAATATATTTTATAT
1 ATTTTATTTTAATATATTTGAAAT
48497367 ATTTTTATTTTAATAT-TGTTGAAAT
1 A-TTTTATTTTAATATAT-TTGAAAT
48497392 CATTTT
1 -ATTTT
48497398 TTTGAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.08
25 23 0.88
26 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
ATTTTATTTTAATATATTTGAAAT
Found at i:48498767 original size:2 final size:2
Alignment explanation
Indices: 48498760--48498788 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48498750 TTAAAATAGA
48498760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48498789 AATAAAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48498882 original size:27 final size:29
Alignment explanation
Indices: 48498843--48498904 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
48498833 TAAAATAAGG
*
48498843 TATATAAAATAATTT-TAA-AATAAATAA
1 TATATAAAATAATTTAAAAGAATAAATAA
**
48498870 TATATAAGTTAATTTAAAAGTAATAAATAA
1 TATATAAAATAATTTAAAAG-AATAAATAA
48498900 TATAT
1 TATAT
48498905 TGAATGAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 13 0.45
28 2 0.07
30 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TATATAAAATAATTTAAAAGAATAAATAA
Found at i:48500358 original size:44 final size:44
Alignment explanation
Indices: 48500286--48500492 Score: 118
Period size: 44 Copynumber: 4.7 Consensus size: 44
48500276 CTCGATTCGA
* **
48500286 CCTACTGCAACTTTAGAG-GTATGGGATTTATAGCCTT-AATCTGC
1 CCTACTGCAACTTCAGAGAG-ATAAGATTTATA-CCTTCAATCTGC
* * * **
48500330 CCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATT
1 CCTACTGCAACTTCAGAGAGATAAGATTT-ATACCTTCAATCT-GC
* * ** ** *
48500376 CC-ACTGCAACTTTAGGGAGATAAGACTTGGTAATTTCAAACTGC
1 CCTACTGCAACTTCAGAGAGATAAGA-TTTATACCTTCAATCTGC
* * * ** *
48500420 TCC-ACTGCATCTTCAGGGAGATAATG-TTAATGGCTTTAATCTGC
1 -CCTACTGCAACTTCAGAGAGATAA-GATTTATACCTTCAATCTGC
*
48500464 TCTACTGCAACTTCAGAGAGATAAGATTT
1 CCTACTGCAACTTCAGAGAGATAAGATTT
48500493 GCCATGGTAG
Statistics
Matches: 123, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
43 2 0.02
44 59 0.48
45 57 0.46
46 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CCTACTGCAACTTCAGAGAGATAAGATTTATACCTTCAATCTGC
Found at i:48500656 original size:44 final size:45
Alignment explanation
Indices: 48500554--48500737 Score: 142
Period size: 44 Copynumber: 4.1 Consensus size: 45
48500544 TAACTCGTAG
* * * **
48500554 CTTTAACCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTGT
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAGATAAGACTTGCTAA
* ** * *
48500599 CTTCAGTCT-TCCCACTACAATTTCAGAGAGATAAGACTTG-TAA
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAGATAAGACTTGCTAA
* * ** *
48500642 CTTTAACCTGTCCCACTGCAACTTCAGGGGGATAAGGTTTGCTATT
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAGATAAGACTTGCTA-A
* * * * *
48500688 CTTCAATCTATTCCACTGTAACTTCAGAGAGATAAGA-TCTG-TAA
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAGATAAGACT-TGCTAA
48500732 CTTTAA
1 CTTTAA
48500738 TCTACTCCTC
Statistics
Matches: 105, Mismatches: 30, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
43 7 0.07
44 56 0.53
45 11 0.10
46 31 0.30
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (45 bp):
CTTTAACCTGTCCCACTGCAACTTCAGAGAGATAAGACTTGCTAA
Found at i:48500717 original size:88 final size:87
Alignment explanation
Indices: 48500554--48500737 Score: 217
Period size: 88 Copynumber: 2.1 Consensus size: 87
48500544 TAACTCGTAG
* *
48500554 CTTTAACCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTGTCTTCAGTCTTCCCACTACAA
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAAATAAGATTTGCTGTCTTCAATCTTCCCACTACAA
*
48500619 TTTCAGAGAGATAAGA-CTTGTAA
66 CTTCA-AGAGATAAGATC-TGTAA
* ** * * * **
48500642 CTTTAACCTGTCCCACTGCAACTTCAGGGGGATAAGGTTTGCTATTCTTCAATCTATTCCACTGT
1 CTTTAACCTGTCCCACTGCAACTTCAGAGAAATAAGATTTGCT-GTCTTCAATCT-TCCCACTAC
48500707 AACTTCAGAGAGATAAGATCTGTAA
64 AACTTCA-AGAGATAAGATCTGTAA
48500732 CTTTAA
1 CTTTAA
48500738 TCTACTCCTC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
88 38 0.46
89 9 0.11
90 34 0.41
91 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (87 bp):
CTTTAACCTGTCCCACTGCAACTTCAGAGAAATAAGATTTGCTGTCTTCAATCTTCCCACTACAA
CTTCAAGAGATAAGATCTGTAA
Found at i:48500754 original size:44 final size:44
Alignment explanation
Indices: 48500620--48500755 Score: 123
Period size: 44 Copynumber: 3.0 Consensus size: 44
48500610 CCACTACAAT
* * *
48500620 TTCAGAGAGATAAGA-CTTGTAACTTTAACCT-GTCCCACTGCAAC
1 TTCAGAGAGATAAGATC-TGTAACTTTAATCTACT-CCACTGTAAC
* * * * * * *
48500664 TTCAGGGGGATAAGGTTTGCTATTCTTCAATCTATTCCACTGTAAC
1 TTCAGAGAGATAAGATCTG-TA-ACTTTAATCTACTCCACTGTAAC
*
48500710 TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCTCTGTAAC
1 TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCACTGTAAC
48500754 TT
1 TT
48500756 TAAGGAGATG
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
44 35 0.49
45 4 0.06
46 31 0.44
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCACTGTAAC
Found at i:48505469 original size:24 final size:24
Alignment explanation
Indices: 48505414--48505521 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
48505404 AATCTCAAAT
48505414 GCACTATGTGTGCGATTTACTAT-
1 GCACTATGTGTGCGATTTACTATA
48505437 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
48505461 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
48505485 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
48505509 GCACTATGTGTGC
1 GCACTATGTGTGC
48505522 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.29
24 50 0.64
25 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:48507278 original size:47 final size:47
Alignment explanation
Indices: 48507226--48507400 Score: 189
Period size: 47 Copynumber: 3.7 Consensus size: 47
48507216 GTTGAACATT
*
48507226 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTC
* * * * *
48507273 TGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGT-AACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CGTC
* * *
48507320 CAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTC
*
48507366 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48507401 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 37 0.36
47 51 0.49
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTC
Found at i:48514258 original size:30 final size:30
Alignment explanation
Indices: 48514222--48514396 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
48514212 ACTTTTCTGA
*
48514222 ACTAGCCACACCTTTTCCACCACCAGCTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
48514252 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
48514282 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
48514312 ACTAGCCACACCTTCTCTACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
48514342 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
48514372 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
48514397 CTTGTACCTA
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 126 0.98
ACGTcount: A:0.26, C:0.48, G:0.05, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:48514900 original size:23 final size:23
Alignment explanation
Indices: 48514874--48514917 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48514864 TTTTTTTTGT
48514874 TATTATTATATT-TCTTAATATTA
1 TATTA-TATATTCTCTTAATATTA
*
48514897 TATTATATATTCTTTTAATAT
1 TATTATATATTCTCTTAATAT
48514918 ATTAGGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATATATTCTCTTAATATTA
Found at i:48514918 original size:20 final size:20
Alignment explanation
Indices: 48514877--48514921 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48514867 TTTTTGTTAT
*
48514877 TATTATATTTCTTAATATTA
1 TATTATATTTCTTAATAATA
*
48514897 TATTATATATTCTT-TTAATA
1 TATTATAT-TTCTTAATAATA
48514917 TATTA
1 TATTA
48514922 GGTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATATTTCTTAATAATA
Found at i:48514967 original size:27 final size:25
Alignment explanation
Indices: 48514937--48515012 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
48514927 ATTTTAAATT
48514937 CTATATTACGTATATATATATTTTATA
1 CTATATTA--TATATATATATTTTATA
* * * *
48514964 CTATTTTATTTATATATCTTTAATA
1 CTATATTATATATATATATTTTATA
*
48514989 TTATATTATTTATATATATATTTT
1 CTATATTA--TATATATATATTTT
48515013 TTTTTCTACA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 20 0.53
27 18 0.47
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (25 bp):
CTATATTATATATATATATTTTATA
Found at i:48514977 original size:25 final size:25
Alignment explanation
Indices: 48514949--48515007 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
48514939 ATATTACGTA
* *
48514949 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
48514974 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
48514999 TATATATAT
1 TATATATAT
48515008 ATTTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:48515002 original size:23 final size:23
Alignment explanation
Indices: 48514874--48515003 Score: 56
Period size: 23 Copynumber: 5.5 Consensus size: 23
48514864 TTTTTTTTGT
*
48514874 TATTA-TTATATTTCTTAATATTA
1 TATTATTTATATCT-TTAATATTA
* *
48514897 TATTATATAT-TCTTT--TAATA
1 TATTATTTATATCTTTAATATTA
**
48514917 TATTAGGTATAT-TTTAA-ATTCTA
1 TATTATTTATATCTTTAATA-T-TA
* * *
48514940 TATTACGTATATATATATTTTATACTA
1 TATTA--T-T-TATATCTTTAATATTA
*
48514967 TTTTATTTATATATCTTTAATATTA
1 TATTA-TT-TATATCTTTAATATTA
48514992 TATTATTTATAT
1 TATTATTTATAT
48515004 ATATATTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 24
0.66 0.13 0.20
Matches are distributed among these distances:
20 15 0.19
21 2 0.03
22 2 0.03
23 19 0.24
24 5 0.06
25 19 0.24
26 1 0.01
27 11 0.14
28 4 0.05
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTTATATCTTTAATATTA
Found at i:48515081 original size:25 final size:23
Alignment explanation
Indices: 48515030--48515094 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 23
48515020 ACATGTTATC
*
48515030 TTATGTATATA-TCTTAACTATA
1 TTATGTATATATTTTTAACTATA
48515052 TTATGTATATATTTTTAACGCTATA
1 TTATGTATATATTTTTAA--CTATA
*
48515077 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
48515095 TATTATCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
25 22 0.58
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:48515271 original size:16 final size:15
Alignment explanation
Indices: 48515247--48515294 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
48515237 TAATTATTAT
*
48515247 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
48515263 TATTTTAATATTTTA
1 TATTTTAATATTTTA
48515278 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
48515294 T
1 T
48515295 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:48515282 original size:7 final size:8
Alignment explanation
Indices: 48515247--48515298 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
48515237 TAATTATTAT
*
48515247 TATTCTAA
1 TATTTTAA
*
48515255 TATTTTGA
1 TATTTTAA
48515263 TATTTTAA
1 TATTTTAA
48515271 TATTTT-A
1 TATTTTAA
48515278 TATTTTATA
1 TATTTTA-A
*
48515287 TATTTTAT
1 TATTTTAA
48515295 TATT
1 TATT
48515299 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:48522331 original size:17 final size:17
Alignment explanation
Indices: 48522286--48522339 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
48522276 GCGACCACAA
*
48522286 TTAGCAACGTAAAAATT
1 TTAGCGACGTAAAAATT
*
48522303 TTA--GAAGTAAAAATT
1 TTAGCGACGTAAAAATT
48522318 TTAGCGACGTAAAAATT
1 TTAGCGACGTAAAAATT
48522335 TTAGC
1 TTAGC
48522340 TTTAATTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 13 0.41
17 19 0.59
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (17 bp):
TTAGCGACGTAAAAATT
Found at i:48530580 original size:12 final size:12
Alignment explanation
Indices: 48530558--48530593 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
48530548 TGGGATATGC
*
48530558 AATGAATGAATG
1 AATGCATGAATG
*
48530570 GATGCATGAATG
1 AATGCATGAATG
48530582 AATGCATGAATG
1 AATGCATGAATG
48530594 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:48530580 original size:16 final size:17
Alignment explanation
Indices: 48530554--48530585 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48530544 AGTATGGGAT
48530554 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
48530571 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
48530586 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:48532188 original size:16 final size:15
Alignment explanation
Indices: 48532167--48532214 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
48532157 GATGTGAATA
48532167 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
48532183 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
48532198 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
48532214 A
1 A
48532215 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:48532197 original size:8 final size:8
Alignment explanation
Indices: 48532163--48532214 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
48532153 CAATGATGTG
*
48532163 AATAATAA
1 AATATTAA
48532171 AATATATAA
1 AATAT-TAA
48532180 AATA-TAA
1 AATATTAA
48532187 AATATTAA
1 AATATTAA
*
48532195 AATATCAA
1 AATATTAA
*
48532203 AATATTAG
1 AATATTAA
48532211 AATA
1 AATA
48532215 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:48532214 original size:24 final size:24
Alignment explanation
Indices: 48532162--48532218 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
48532152 ACAATGATGT
*
48532162 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
48532186 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
48532210 GAATAATAA
1 GAATAATAA
48532219 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:48532399 original size:25 final size:25
Alignment explanation
Indices: 48532365--48532429 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
48532355 CGTGATAATA
*
48532365 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
48532390 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
48532413 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
48532430 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:48532482 original size:25 final size:25
Alignment explanation
Indices: 48532453--48532511 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
48532443 AAAAATATAT
* *
48532453 ATATATATAAATAATATAATATTAA
1 ATATATATAAATAAAATAATATAAA
*
48532478 ATATATATAAATAAAATAGTATAAA
1 ATATATATAAATAAAATAATATAAA
48532503 ATATATATA
1 ATATATATA
48532512 TACGTAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATATATAAATAAAATAATATAAA
Found at i:48532504 original size:15 final size:14
Alignment explanation
Indices: 48532444--48532505 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
48532434 ACATGTAGAA
*
48532444 AAAATATATATATAT
1 AAAATATATA-AAAT
*
48532459 ATAAATAATATAATAT
1 A-AAAT-ATATAAAAT
*
48532475 TAAATATATATAAAT
1 AAAATATATA-AAAT
48532490 AAAATAGTATAAAAT
1 AAAATA-TATAAAAT
48532505 A
1 A
48532506 TATATATACG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.12
15 18 0.45
16 12 0.30
17 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:48532523 original size:27 final size:26
Alignment explanation
Indices: 48532451--48532523 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
48532441 GAAAAAATAT
* *
48532451 ATATATATATAAATAATATAATATTAA
1 ATATATATAT-AATAATATAGTATAAA
*
48532478 ATATATATA-AATAAAATAGTATAAA
1 ATATATATATAATAATATAGTATAAA
*
48532503 ATATATATATACGTAATATAG
1 ATATATATATA-ATAATATAG
48532524 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 22 0.56
26 1 0.03
27 16 0.41
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATATATATAATAATATAGTATAAA
Found at i:48532564 original size:20 final size:20
Alignment explanation
Indices: 48532539--48532583 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48532529 AAAATATACC
*
48532539 TAATATATTAAT-AGAATATA
1 TAATATAATAATAAGAA-ATA
*
48532559 TAATATAATATTAAGAAATA
1 TAATATAATAATAAGAAATA
48532579 TAATA
1 TAATA
48532584 ATAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TAATATAATAATAAGAAATA
Found at i:48532572 original size:23 final size:23
Alignment explanation
Indices: 48532543--48532586 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48532533 TATACCTAAT
*
48532543 ATATTAATAGAATAT-ATAATATA
1 ATATTAAGA-AATATAATAATATA
48532566 ATATTAAGAAATATAATAATA
1 ATATTAAGAAATATAATAATA
48532587 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATTAAGAAATATAATAATATA
Found at i:48533147 original size:30 final size:30
Alignment explanation
Indices: 48533067--48533241 Score: 224
Period size: 30 Copynumber: 5.8 Consensus size: 30
48533057 TAGGTACAAG
** * *
48533067 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* ** ** * *
48533097 AGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
48533127 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
48533157 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
48533187 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
48533217 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
48533242 TGAGAAAAGT
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 130 1.00
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:48534192 original size:47 final size:47
Alignment explanation
Indices: 48534141--48534317 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
48534131 TGGTTGAACA
48534141 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
* * *
48534188 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--ATG
* * *
48534233 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
* *
48534281 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48534318 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 2 0.02
46 36 0.33
47 57 0.52
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
Found at i:48542445 original size:46 final size:47
Alignment explanation
Indices: 48542388--48542563 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 47
48542378 TATTTGGGCA
*
48542388 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * * * * *
48542434 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAAGCG
* *
48542481 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * *
48542527 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48542564 GCGGATTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 63 0.59
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
Found at i:48542543 original size:93 final size:93
Alignment explanation
Indices: 48542384--48542556 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
48542374 GGGATATTTG
48542384 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAGCGTCCAAACTCGTTGAG
48542449 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * ** *
48542477 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGTCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGC-AAGCGTCCAAACTCGTTGA
48542541 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
48542557 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAGCGTCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:48545536 original size:15 final size:15
Alignment explanation
Indices: 48545501--48545561 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
48545491 CTTGGGTTTT
* *
48545501 TTTATCCTGGATCTC
1 TTTATTCTGGATTTC
48545516 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
* *
48545531 TTTATTCCGGGTTTC
1 TTTATTCTGGATTTC
*
48545546 TCTA-TCTTGGATTTC
1 TTTATTC-TGGATTTC
48545561 T
1 T
48545562 ATTCAGGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 2 0.05
15 36 0.95
ACGTcount: A:0.11, C:0.20, G:0.15, T:0.54
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:48548016 original size:45 final size:46
Alignment explanation
Indices: 48547961--48548134 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
48547951 TATTTGGGCA
48547961 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
48548007 TCC-AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
48548053 TCCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
48548098 -CCTAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48548135 GCGGATCACA
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 4 0.04
44 5 0.05
45 45 0.43
46 27 0.26
47 20 0.19
49 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:48548114 original size:92 final size:92
Alignment explanation
Indices: 48547957--48548127 Score: 292
Period size: 92 Copynumber: 1.9 Consensus size: 92
48547947 GGGATATTTG
*
48547957 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAACTCGTTGAGT
48548022 TGAGTCCGAGTTCGTGAGATGTAACTA
66 TGAGTCCGAGTTCGTGAGATGTAACTA
*
48548049 GGCATCCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACG-CCTAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AA-CTCGTTGA
48548112 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
48548128 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
90 2 0.03
91 23 0.31
92 50 0.67
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTA
Done.