Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 390 of 438
Found at i:121614562 original size:80 final size:81
Alignment explanation
Indices: 121614410--121614602 Score: 239
Period size: 80 Copynumber: 2.4 Consensus size: 81
121614400 GTATTTCAAT
* * * * *
121614410 ATTTTACAAATCGAGAGTATTTC-GATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAG
1 ATTTTACAAACCAAGGGTATTTCAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAG
121614474 CCAGGGGTATTTTGGTA
65 CCAGGGGTATTTTGGTA
* * * *
121614491 ATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGT-TTTTGGTAATTTTACTGAT
1 ATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AAG
*
121614555 CGA-GGGTATTTTGGTA
65 CCAGGGGTATTTTGGTA
* *
121614571 ATTTTATAAACTAAGGGTATTTCAGTAATTTT
1 ATTTTACAAACCAAGGGTATTTCAGTAATTTT
121614603 GTAAATTGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
80 56 0.58
81 39 0.41
82 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGC
CAGGGGTATTTTGGTA
Found at i:121614626 original size:27 final size:27
Alignment explanation
Indices: 121614595--121614777 Score: 233
Period size: 27 Copynumber: 6.8 Consensus size: 27
121614585 GGGTATTTCA
* * *
121614595 GTAATTTTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
121614622 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
121614649 GTAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
121614676 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
121614703 GTAATT-TTTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
121614729 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
121614756 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
121614778 CTTTGGTAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.17
27 115 0.83
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:121614627 original size:54 final size:54
Alignment explanation
Indices: 121614569--121614774 Score: 202
Period size: 54 Copynumber: 3.9 Consensus size: 54
121614559 GGTATTTTGG
*** * *
121614569 TAATTTTATAAA-CTAAGGGTATTTCAGTAATTTTGTAAATTGAAGGTAAAACGA
1 TAATTTTATAAATC-AAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAACGA
* * * * *
121614623 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGG
1 TAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAACGA
* * * * * * *
121614677 TAATTCTATAAATCGAGGGTAAAACGGTAATT-TTTAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAACGA
* * *
121614730 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATC-AAGG
1 TAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAAGG
121614775 GTACTTTGGT
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
53 52 0.39
54 79 0.60
55 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (54 bp):
TAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAACGA
Found at i:121614742 original size:80 final size:81
Alignment explanation
Indices: 121614594--121614777 Score: 271
Period size: 80 Copynumber: 2.3 Consensus size: 81
121614584 AGGGTATTTC
* * * *
121614594 AGTAATTTTGTAAATTGAAGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
121614659 AAATCGAAGGTAAAAT
66 AAATCGAAGGTAAAAT
* * * *
121614675 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTTT-TAAATCGAGGGTAAAATGGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
121614739 AAATCGAGGGTAAAAT
66 AAATCGAAGGTAAAAT
*
121614755 AGTAATTCTGTAAATCAAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
121614778 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 61 0.67
81 30 0.33
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAAGGTAAAAT
Found at i:121614814 original size:107 final size:109
Alignment explanation
Indices: 121614553--121614822 Score: 305
Period size: 107 Copynumber: 2.5 Consensus size: 109
121614543 AATTTTACTG
* * * *
121614553 ATCG-AGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTCAGTAATTTTGTAAATTGAAGGTA
1 ATCGAAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAAGGTA
* * *
121614617 AAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAA
66 AAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
** * * *** * *
121614661 ATCGAA-GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTT-TAAATCGAGGGTA
1 ATCGAAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAAGGTA
* * *
121614724 AAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAA
66 AAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
* * * *
121614768 ATC-AAGGGTACTTTGGTAATTTTACAAATTGAGGGCATTTCAGTAATTTGGTAAA
1 ATCGAAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTTTGTAAA
121614823 CTAAAGTATT
Statistics
Matches: 128, Mismatches: 31, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
106 2 0.02
107 84 0.66
108 41 0.32
109 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.34
Consensus pattern (109 bp):
ATCGAAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAAGGTA
AAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
Found at i:121617124 original size:16 final size:16
Alignment explanation
Indices: 121617099--121617137 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
121617089 ATGAATCGGC
121617099 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
121617115 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATGCCG
121617131 AAAAGCC
1 AAAAGCC
121617138 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:121617411 original size:29 final size:29
Alignment explanation
Indices: 121617375--121617475 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
121617365 TAGGCCTAAC
121617375 GGGCCATATAAATGTGATTTGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* * *
121617404 GGGCCATATACAGGTGATTTGGGCCTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* * *
121617433 GGGCCATATGAATATGA-ATGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* *
121617461 GGGCCAGATACATGT
1 GGGCCATATAAATGT
121617476 ATGTGAATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 20 0.34
29 39 0.66
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGGCTTAAT
Found at i:121617463 original size:28 final size:29
Alignment explanation
Indices: 121617352--121617466 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
121617342 GTGAGCATGA
* * *
121617352 ATATGAATGTGA-CTAGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
121617380 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
121617409 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* * *
121617438 ATATGAATATGA-ATGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
121617466 A
1 A
121617467 GATACATGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:121625033 original size:40 final size:40
Alignment explanation
Indices: 121624906--121625035 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
121624896 ATGCTGGAAA
* * *
121624906 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
121624946 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
121624986 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
121625026 TTATATCCGG
1 TTATATCCGG
121625036 TTATATTTCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:121630293 original size:23 final size:23
Alignment explanation
Indices: 121630263--121630312 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
121630253 CTCGATTAAG
121630263 GGACGATATACATATGTACGAAT
1 GGACGATATACATATGTACGAAT
* *
121630286 GGACGATATGCATGTGTACGAAT
1 GGACGATATACATATGTACGAAT
121630309 GGAC
1 GGAC
121630313 TCTGTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (23 bp):
GGACGATATACATATGTACGAAT
Found at i:121632487 original size:18 final size:18
Alignment explanation
Indices: 121632464--121632498 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
121632454 ATGATGTGCC
*
121632464 AAACTATTTTTATGCTTG
1 AAACTATTTTGATGCTTG
121632482 AAACTATTTTGATGCTT
1 AAACTATTTTGATGCTT
121632499 CCTGTTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
AAACTATTTTGATGCTTG
Found at i:121641176 original size:18 final size:18
Alignment explanation
Indices: 121641150--121641186 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
121641140 TGAGTTTTCA
* *
121641150 AATTCGAATAACTCAAAT
1 AATTAGAATAAATCAAAT
121641168 AATTAGAATAAATCAAAT
1 AATTAGAATAAATCAAAT
121641186 A
1 A
121641187 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTAGAATAAATCAAAT
Found at i:121641451 original size:129 final size:132
Alignment explanation
Indices: 121641237--121641528 Score: 371
Period size: 129 Copynumber: 2.2 Consensus size: 132
121641227 ACATTTGTAC
* * * *
121641237 TTTTCCTCTAAAACTTTTACACCCCTCCCATCCCACCCCACCCTCATTTACCCCAAACCCATTTA
1 TTTTCCCCCAAAACTTTTACTCCCCTCCCATCCCA--CCACCCTCATCTACCCCAAACCCATTTA
* * * * *
121641302 CCCCTATTTTACTCCCCCATTTATTTTCCCCCTAAATTTTACTCCCCCAAAAACCTTCAAAAC-T
64 CCCCCATTTTACTCCCCCATTTAATTTCCCCCAAAATTTTAAT-CCCCAAAAACCCTCAAAACTT
121641366 TTTTA
128 TTTTA
* * * *
121641371 TTTTCCCCGAAAACTTTTACTCCCCTCCCATCCTA-C-CCCT-ATCTACCCCAAATCCATTTCCC
1 TTTTCCCCCAAAACTTTTACTCCCCTCCCATCCCACCACCCTCATCTACCCCAAACCCATTTACC
*
121641433 CCCATTTTAC-CCCTCCATTTAATTTCCTCCAAAATTTTAATCCCCAAAAACCCTCAAAACTTTT
66 CCCATTTTACTCCC-CCATTTAATTTCCCCCAAAATTTTAATCCCCAAAAACCCTCAAAACTTTT
*
121641497 TTC
130 TTA
121641500 TTTTCCCCCAAAACTTTTACT-CCCTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCCTCCCA
121641529 CTTTCCCCCT
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
128 29 0.21
129 76 0.54
130 4 0.03
131 1 0.01
134 31 0.22
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (132 bp):
TTTTCCCCCAAAACTTTTACTCCCCTCCCATCCCACCACCCTCATCTACCCCAAACCCATTTACC
CCCATTTTACTCCCCCATTTAATTTCCCCCAAAATTTTAATCCCCAAAAACCCTCAAAACTTTTT
TA
Found at i:121641545 original size:30 final size:30
Alignment explanation
Indices: 121641501--121641559 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
121641491 ACTTTTTTCT
121641501 TTTCCCCCAAAACTTTTACT-CCCTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCCTCCCAC
*
121641530 TTTCCCCCTAAAACTTTTATTCCCCTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCCTCCCA
121641560 TCCCACCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCCTCCCAC
Found at i:121647104 original size:46 final size:45
Alignment explanation
Indices: 121646950--121647211 Score: 183
Period size: 46 Copynumber: 5.6 Consensus size: 45
121646940 GGGTTATTGT
* * * * *
121646950 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TATGAAGA
* * ** * * *
121646996 GAGTCAGTGTAAGACCACGTCTGGGACATGGCATCTACATTTAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAT-GAAGA
* * *
121647044 GAGCTAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGTGAAGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-ATGAAG-A
121647091 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTATG-AGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGAAGA
* * *
121647133 TGTGTCAGTGTAAGACCATGTCTGGGACATGGAATCGGCACGTAT--AGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TATGAAGA
* * *
121647181 GGTGTCAGTGTAAGACCATGTCTGGGGCATG
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATG
121647212 GCGTCGGCAT
Statistics
Matches: 177, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.07
45 16 0.09
46 60 0.34
47 29 0.16
48 53 0.30
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGAAGA
Found at i:121647219 original size:48 final size:48
Alignment explanation
Indices: 121646955--121647220 Score: 199
Period size: 48 Copynumber: 5.7 Consensus size: 48
121646945 ATTGTGAGCT
*
121646955 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATTATGAGA---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC--TATGAGAGGTGTC
* ** * *
121647001 AGTGTAAGACCACGTCTGGGACATGGCATCTACA-T-TTAGATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGA-G-GTGTC
* * *
121647048 TAGAGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGTGA-A-GTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-ATGAGAGGT--GTC
*
121647095 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--CTATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGAGGTGTC
*
121647139 AGTGTAAGACCATGTCTGGGACATGGAATCGGCACGTAT-AGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TATGAGAGGTGTC
* *
121647187 AGTGTAAGACCATGTCTGGGGCATGGCGTCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
121647221 TTCTACCCCA
Statistics
Matches: 180, Mismatches: 19, Indels: 40
0.75 0.08 0.17
Matches are distributed among these distances:
43 4 0.02
44 16 0.09
45 17 0.09
46 54 0.30
47 30 0.17
48 56 0.31
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGAGGTGTC
Found at i:121647521 original size:47 final size:47
Alignment explanation
Indices: 121647452--121647546 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
121647442 TTGATGAATG
121647452 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
1 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
*
121647499 GTAGAGTTGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
1 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
121647546 G
1 G
121647547 CTTACTCCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (47 bp):
GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
Found at i:121649794 original size:30 final size:30
Alignment explanation
Indices: 121649760--121649819 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
121649750 ATTTAATACG
121649760 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
121649790 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
121649820 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:121656404 original size:30 final size:30
Alignment explanation
Indices: 121656370--121656429 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
121656360 CATTTAATGC
121656370 GAACTTTGGAAAAATTACACTTTTGCCCCT
1 GAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
121656400 GAACTTTTGCATAATTACACTTTTTCCCCT
1 GAACTTTGGAAAAATTACACTTTTGCCCCT
121656430 AGGCTCGGGA
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:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
GAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:121658487 original size:22 final size:21
Alignment explanation
Indices: 121658435--121658488 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 21
121658425 TTCGAACTGA
121658435 GAAGGAAA-GGGAAAAAAAAG
1 GAAGGAAAGGGGAAAAAAAAG
* *
121658455 GAAGGATAAAGGGGAAAGCAAAAT
1 GAAGG--AAAGGGGAAA-AAAAAG
121658479 GAAGGAAAGG
1 GAAGGAAAGG
121658489 AAAGAGGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 5 0.18
22 8 0.29
23 6 0.21
24 9 0.32
ACGTcount: A:0.57, C:0.02, G:0.37, T:0.04
Consensus pattern (21 bp):
GAAGGAAAGGGGAAAAAAAAG
Found at i:121672382 original size:2 final size:2
Alignment explanation
Indices: 121672377--121672407 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
121672367 TATGAACTTT
121672377 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
121672408 ACCTTGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:121674258 original size:14 final size:14
Alignment explanation
Indices: 121674220--121674264 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
121674210 TTAGGTTACT
121674220 TCTCTCACT-TCCTC
1 TCTCTCACTCT-CTC
*
121674234 TCTCTCCCTCTCTC
1 TCTCTCACTCTCTC
*
121674248 TCTCTCACTCTCAC
1 TCTCTCACTCTCTC
121674262 TCT
1 TCT
121674265 TTTCCCCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 26 0.96
15 1 0.04
ACGTcount: A:0.07, C:0.51, G:0.00, T:0.42
Consensus pattern (14 bp):
TCTCTCACTCTCTC
Found at i:121678710 original size:25 final size:25
Alignment explanation
Indices: 121678682--121678751 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 25
121678672 AATATATGGC
121678682 TCTTTGGAGCTTCCCGATTAAAGGA
1 TCTTTGGAGCTTCCCGATTAAAGGA
* *
121678707 TCTTTTATGAGCTTCCCGATTAATGGA
1 TC-TTT-GGAGCTTCCCGATTAAAGGA
** *
121678734 TCTCCGAAGCTTCCCGAT
1 TCTTTGGAGCTTCCCGAT
121678752 ATTGGATCGC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
25 13 0.35
26 4 0.11
27 20 0.54
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TCTTTGGAGCTTCCCGATTAAAGGA
Found at i:121688205 original size:29 final size:29
Alignment explanation
Indices: 121688173--121688232 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
121688163 ATTGAATATG
*
121688173 ATTGATTTCTGACATGAATTTTAAATGAT
1 ATTGATTTCTGACATGAATGTTAAATGAT
121688202 ATTGATTTCTGACATGAATGTTAAATGAT
1 ATTGATTTCTGACATGAATGTTAAATGAT
121688231 AT
1 AT
121688233 GAAATATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (29 bp):
ATTGATTTCTGACATGAATGTTAAATGAT
Found at i:121689804 original size:25 final size:24
Alignment explanation
Indices: 121689762--121689809 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
121689752 GAACAAAAAT
*
121689762 AATTTAATTCAAACTAATTAATTAA
1 AATTCAATTCAAACTAA-TAATTAA
**
121689787 AATTCAATTCAATTTAATAATTA
1 AATTCAATTCAAACTAATAATTA
121689810 CACTACCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTCAATTCAAACTAATAATTAA
Found at i:121690398 original size:31 final size:29
Alignment explanation
Indices: 121690355--121690416 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
121690345 ATTTTAAAAT
* *
121690355 TATATATGAATTTTGATTCAATGTGTAATTA
1 TATATATAAATTTTAATT-AA-GTGTAATTA
*
121690386 TATATATAAATTTTAATTTAGTGTAATTA
1 TATATATAAATTTTAATTAAGTGTAATTA
121690415 TA
1 TA
121690417 CACATGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
30 1 0.04
31 16 0.57
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.50
Consensus pattern (29 bp):
TATATATAAATTTTAATTAAGTGTAATTA
Found at i:121694827 original size:13 final size:13
Alignment explanation
Indices: 121694797--121694842 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
121694787 ACGATAAATT
*
121694797 ATTAATATAAAAT
1 ATTAATATAAAAA
121694810 A-TAAT-TGAAAAA
1 ATTAATAT-AAAAA
121694822 ATTAATATAAATAA
1 ATTAATATAAA-AA
121694836 ATTAATA
1 ATTAATA
121694843 AATTGTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.32
13 8 0.29
14 10 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
ATTAATATAAAAA
Found at i:121695165 original size:25 final size:28
Alignment explanation
Indices: 121695105--121695165 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 28
121695095 TTATTCTATA
121695105 AATATTTTTATAAAAATTGTTATGTGTT
1 AATATTTTTATAAAAATTGTTATGTGTT
* * * *
121695133 TATCTTTTTA-AAATA-T-TTATTTGTT
1 AATATTTTTATAAAAATTGTTATGTGTT
121695158 AATATTTT
1 AATATTTT
121695166 ATTATATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 14 0.52
26 1 0.04
27 4 0.15
28 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (28 bp):
AATATTTTTATAAAAATTGTTATGTGTT
Found at i:121697518 original size:130 final size:130
Alignment explanation
Indices: 121697249--121697652 Score: 317
Period size: 131 Copynumber: 3.1 Consensus size: 130
121697239 TAGCATTACA
* * * *
121697249 TAATTTAATTTT-TTACCTATTAATTGTAACAACACAATTTATCGTCA-T-C-AATTATTAATAA
1 TAATTTAATTTTATTACTTATTAATAGCAACGACACAA-TT-T-GTCATTGCAAATTATTAATAA
* * * * * * * *
121697310 AATGTGTAGC-AATCAAACAAGTTGTTGCTAAACGTTAAAATATTATCAGCAACATTAAAATATT
63 AATCTATAACGAA-AAAACAAGTTGTTGTTAAACGTTAAAATATTAACA--AACCTTAAAATATC
*
121697374 GTTGA-A
125 GTT-ATG
* * * ** * *
121697380 TAAATTAATTTTATT-CTTATTCATCGCAACGACATGATTTGTCATTGCGAATTTTTAATAAAAT
1 TAATTTAATTTTATTACTTATTAATAGCAACGACACAATTTGTCATTGCAAATTATTAATAAAAT
* * * *
121697444 TTATAAC-AAGACACAAGTTATTGTTAAACGTTAAAATATTAACAATAACCTTAAAATATCGTTA
66 CTATAACGAAAAAACAAGTTGTTGTTAAACGTTAAAATATTAAC-A-AACCTTAAAATATCGTTA
121697508 TG
129 TG
* * *
121697510 TAATTTAATTTTTTTTTTTACTTATTAATAGCAATGACACAATTTGTCATTGTAAATTATTAATA
1 TAATTTAA----TTTTATTACTTATTAATAGCAACGACACAATTTGTCATTGCAAATTATTAATA
* * * * *
121697575 AAATCTGTAACGAAAAAATAAATTGTTGTTAAACGTT--AGTATTAAC-AACCTTAAAATGTCGT
62 AAATCTATAACGAAAAAACAAGTTGTTGTTAAACGTTAAAATATTAACAAACCTTAAAATATCGT
121697637 TATG
127 TATG
*
121697641 TATTTTAATTTT
1 TAATTTAATTTT
121697653 CTATTTATTG
Statistics
Matches: 220, Mismatches: 41, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
127 4 0.02
128 4 0.02
129 3 0.01
130 54 0.25
131 73 0.33
132 2 0.01
134 14 0.06
135 46 0.21
136 20 0.09
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (130 bp):
TAATTTAATTTTATTACTTATTAATAGCAACGACACAATTTGTCATTGCAAATTATTAATAAAAT
CTATAACGAAAAAACAAGTTGTTGTTAAACGTTAAAATATTAACAAACCTTAAAATATCGTTATG
Found at i:121707131 original size:15 final size:14
Alignment explanation
Indices: 121707089--121707131 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
121707079 TCCATGTTCG
121707089 TATATCATAATTTCA
1 TATATCAT-ATTTCA
*
121707104 TACATTCATATTTCA
1 TATA-TCATATTTCA
121707119 TATATCATCATTT
1 TATATCAT-ATTT
121707132 TCATGTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATCATATTTCA
Found at i:121707423 original size:57 final size:57
Alignment explanation
Indices: 121707329--121707485 Score: 181
Period size: 57 Copynumber: 2.8 Consensus size: 57
121707319 TATCATATAA
* * ** * *
121707329 CAGGATTACTTGTCCAAGCTAAATCCTATTTCCAACATATGCTCATAAGAGCTTAAT
1 CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCTCAGAAGAGCTCAAT
*
121707386 CAGGATCACTAGTCCAGGCTAAATCCT-TTCTGTAACATATGCTCAGAAGAGCTCAAT
1 CAGGATTACTAGTCCAGGCTAAATCCTATT-TGTAACATATGCTCAGAAGAGCTCAAT
* * * * * *
121707443 TAGGATTACCAGTCCTGGTTAAATTCTAATTGTAACATATGCT
1 CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCT
121707486 TGAGAGGGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
56 2 0.02
57 81 0.96
58 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (57 bp):
CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCTCAGAAGAGCTCAAT
Found at i:121717374 original size:43 final size:42
Alignment explanation
Indices: 121717318--121717478 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 42
121717308 TCTATATGTT
*
121717318 TTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGA
1 TTAT-GTGTAAGACCACGTCTGGGACGTTGGCATC-ATATGTGA
* * * * *
121717362 TTATGTGAAAGACCATGTCTGGGACATTGGCATCATATTTTA
1 TTATGTGTAAGACCACGTCTGGGACGTTGGCATCATATGTGA
* **
121717404 TT-CGTGTAAGACCTTGTCTGGGACAG-TGGCATCAATATGTGA
1 TTATGTGTAAGACCACGTCTGGGAC-GTTGGCATC-ATATGTGA
*** *
121717446 TTGCATGTAAGACCACGTTTGGGACGTTGGCAT
1 TTATGTGTAAGACCACGTCTGGGACGTTGGCAT
121717479 TATACGATAT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 26 0.27
42 17 0.18
43 50 0.52
44 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TTATGTGTAAGACCACGTCTGGGACGTTGGCATCATATGTGA
Found at i:121717434 original size:84 final size:82
Alignment explanation
Indices: 121717316--121717478 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 82
121717306 TTTCTATATG
* *
121717316 TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATT-ATGTGAAAGACCATGT
1 TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTCATGT--AAGACCACGT
121717380 CTGGGACATTGGCATCATA
64 CTGGGACATTGGCATCATA
** *
121717399 TTTTATTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCAATATGTGATTGCATGTAAGACCACG
1 TTTTA-TCGTGTAAGACCACGTCTAGGAC-GTTGGCATCAATATGTGATT-CATGTAAGACCACG
* *
121717463 TTTGGGACGTTGGCAT
63 TCTGGGACATTGGCAT
121717479 TATACGATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
83 5 0.07
84 59 0.86
85 1 0.01
86 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (82 bp):
TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTCATGTAAGACCACGTCT
GGGACATTGGCATCATA
Found at i:121718509 original size:16 final size:16
Alignment explanation
Indices: 121718488--121718525 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
121718478 ATTTGGCTTA
*
121718488 GTAATGGGGTAAAATG
1 GTAATGGAGTAAAATG
121718504 GTAATGGAGTAAAATG
1 GTAATGGAGTAAAATG
121718520 GTAATG
1 GTAATG
121718526 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (16 bp):
GTAATGGAGTAAAATG
Found at i:121720083 original size:10 final size:10
Alignment explanation
Indices: 121720068--121720092 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
121720058 TAATTCACTT
121720068 ATTTAATTCA
1 ATTTAATTCA
121720078 ATTTAATTCA
1 ATTTAATTCA
121720088 ATTTA
1 ATTTA
121720093 CATCACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAATTCA
Found at i:121727083 original size:3 final size:3
Alignment explanation
Indices: 121727075--121727101 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
121727065 TAATTCATAC
121727075 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
121727102 TTCTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:121727555 original size:10 final size:10
Alignment explanation
Indices: 121727540--121727564 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
121727530 TAATTCACTT
121727540 ATTTAATTCA
1 ATTTAATTCA
121727550 ATTTAATTCA
1 ATTTAATTCA
121727560 ATTTA
1 ATTTA
121727565 CATCACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAATTCA
Found at i:121736340 original size:20 final size:21
Alignment explanation
Indices: 121736315--121736353 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121736305 TCCTTAAAAT
*
121736315 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
121736335 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
121736354 ACCAACTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:121741929 original size:34 final size:34
Alignment explanation
Indices: 121741855--121741957 Score: 116
Period size: 34 Copynumber: 3.0 Consensus size: 34
121741845 GAATACATTC
* * * * * *
121741855 TGGGCCTAAGCCCATATCAGTAACGGTAACAATC
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
* *
121741889 TAGGCCTTAGCCCATTTTAGTAACAGTAGCAGTA
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
*
121741923 TGGGCCTTAGCCCATTTCAATAACAGTAGTCAGTA
1 TGGGCCTTAGCCCATTTCAGTAACAGTAG-CAGTA
121741958 CAGTAACCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 52 0.91
35 5 0.09
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
Found at i:121741997 original size:18 final size:18
Alignment explanation
Indices: 121741952--121741998 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
121741942 ATAACAGTAG
*
121741952 TCAGTACAGTAACCATAA
1 TCAGTACAGTAACAATAA
* *
121741970 TCAATACAGTAATAATAA
1 TCAGTACAGTAACAATAA
*
121741988 TCAGTGCAGTA
1 TCAGTACAGTA
121741999 TGCAAGCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (18 bp):
TCAGTACAGTAACAATAA
Found at i:121742283 original size:23 final size:24
Alignment explanation
Indices: 121742257--121742307 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
121742247 CACCCATGCA
*
121742257 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATATAAT-CATGGC
121742280 ATGCAACATACATATAATCATGGC
1 ATGCAACATACATATAATCATGGC
121742304 ATGC
1 ATGC
121742308 TCAACACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (24 bp):
ATGCAACATACATATAATCATGGC
Found at i:121742415 original size:54 final size:53
Alignment explanation
Indices: 121742338--121742504 Score: 216
Period size: 54 Copynumber: 3.2 Consensus size: 53
121742328 GTAGAAAAAA
* * * * * *
121742338 TCTGTCATTTTACCTTATCGGGGTATTACAGTTATTTTACCCTACAAGAGTATT
1 TCTGTCA-TTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
*
121742392 TCGGTCATTCTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
1 TCTGTCATT-TACCCTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
*
121742446 TCTATCATTT---C-ATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
1 TCTGTCATTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
121742495 TCTGTCATTT
1 TCTGTCATTT
121742505 CATCACATAA
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
49 47 0.46
50 1 0.01
53 3 0.03
54 51 0.50
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.43
Consensus pattern (53 bp):
TCTGTCATTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATT
Found at i:121742479 original size:49 final size:49
Alignment explanation
Indices: 121742357--121742507 Score: 203
Period size: 49 Copynumber: 3.0 Consensus size: 49
121742347 TTACCTTATC
* * * * *
121742357 GGGGTATTACAGTTATTTTACCCTACAAGAGTATTTCGGTCATTCTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATT-T---C-ATA
*
121742411 GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTATCATTTCATA
1 GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATTTCATA
121742460 GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATTTCAT
1 GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATTTCAT
121742508 CACATAAGGG
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
49 50 0.56
50 1 0.01
53 1 0.01
54 38 0.42
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (49 bp):
GGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATTTCATA
Found at i:121742517 original size:27 final size:27
Alignment explanation
Indices: 121742341--121742504 Score: 169
Period size: 27 Copynumber: 6.3 Consensus size: 27
121742331 GAAAAAATCT
* ** *
121742341 GTCATTTTACCTTATCGGGGTATTACA
1 GTCATTTTACCCTATAAGGGTATTTCA
* * * *
121742368 GTTATTTTACCCTACAAGAGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCA
* *
121742395 GTCATTCTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCA
121742422 GTCATTTTACCCTATAAGGGTATTTCTA
1 GTCATTTTACCCTATAAGGGTATTTC-A
*
121742450 -TCA-TTT---C-ATAGGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCA
*
121742471 GTCATTTTACCCTATAAGGGTATTTCT
1 GTCATTTTACCCTATAAGGGTATTTCA
121742498 GTCATTT
1 GTCATTT
121742505 CATCACATAA
Statistics
Matches: 111, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.01
22 15 0.14
23 4 0.04
26 4 0.04
27 86 0.77
28 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCA
Found at i:121746510 original size:24 final size:25
Alignment explanation
Indices: 121746461--121746510 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
121746451 ACCCTTCTAA
* *
121746461 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
121746486 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
121746510 T
1 T
121746511 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:121751095 original size:3 final size:3
Alignment explanation
Indices: 121751020--121751076 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
121751010 CATTCCTCTT
*
121751020 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
121751068 TTA TTA TTA
1 TTA TTA TTA
121751077 GTTTTTACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:121752720 original size:6 final size:6
Alignment explanation
Indices: 121752703--121752800 Score: 133
Period size: 6 Copynumber: 16.3 Consensus size: 6
121752693 TCCATTTGTC
* * *
121752703 TTTATT TCTATT TTTATT TTTATT TCTATT TTTATT TTTATT TCTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
121752751 TTTATT TTTATT TTTATT TTTATT TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
121752799 TT
1 TT
121752801 GAACTATATT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:121761798 original size:65 final size:66
Alignment explanation
Indices: 121761680--121761802 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 66
121761670 CCAAACCTGT
* * * *
121761680 AGGGTATACTGACTTATTCAACACGGCCAAGTCACACGCCCGTGTGGTAGGCCGTGTGCCATTTA
1 AGGGTATACTAACTTATGCAACACGGACAAGTCACACGCCCGTATGGTAGGCCGTGTGCCATTTA
121761745 G
66 G
* *
121761746 AGGGTATACTAACTTGTGCCACACGGAC-AGTCACACGCCCGTAT-GTGAGGCCGTGTG
1 AGGGTATACTAACTTATGCAACACGGACAAGTCACACGCCCGTATGGT-AGGCCGTGTG
121761803 GAGCATACTA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 2 0.04
65 25 0.50
66 23 0.46
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (66 bp):
AGGGTATACTAACTTATGCAACACGGACAAGTCACACGCCCGTATGGTAGGCCGTGTGCCATTTA
G
Found at i:121761939 original size:37 final size:37
Alignment explanation
Indices: 121761885--121761958 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
121761875 CGGCTGAGAC
121761885 ACACACCCGTGTCTCTACCCGTGTGGACAAAAATAGG
1 ACACACCCGTGTCTCTACCCGTGTGGACAAAAATAGG
*
121761922 ACACACCCGTGTGTCTACCCGTGTGGACAAAAATAGG
1 ACACACCCGTGTCTCTACCCGTGTGGACAAAAATAGG
121761959 CTATTTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (37 bp):
ACACACCCGTGTCTCTACCCGTGTGGACAAAAATAGG
Found at i:121772849 original size:33 final size:33
Alignment explanation
Indices: 121772809--121772959 Score: 194
Period size: 33 Copynumber: 4.5 Consensus size: 33
121772799 TACTCTCTGT
121772809 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
121772842 TTAGTGTGCTAGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
121772875 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* ** * * *
121772908 TTGGTGTATTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
121772941 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
121772960 CTGATGATGT
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
33 88 0.87
34 6 0.06
35 7 0.07
ACGTcount: A:0.15, C:0.10, G:0.35, T:0.40
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:121776128 original size:3 final size:3
Alignment explanation
Indices: 121776120--121776145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
121776110 TGAGTGTTTT
121776120 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
121776146 TTTTTTCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:121776585 original size:22 final size:22
Alignment explanation
Indices: 121776560--121776601 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
121776550 TTTTTATCCT
121776560 TTAA-AATATATAAAATTATAAA
1 TTAATAATA-ATAAAATTATAAA
*
121776582 TTAATAATAGTAAAATTATA
1 TTAATAATAATAAAATTATA
121776602 TTTTTATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAATAATAATAAAATTATAAA
Found at i:121782185 original size:2 final size:2
Alignment explanation
Indices: 121782180--121782215 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
121782170 TGTTTTTGGT
121782180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121782216 CCCATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121782312 original size:2 final size:2
Alignment explanation
Indices: 121782307--121782336 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
121782297 TGTTTTTGGT
121782307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121782337 CCCATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121782433 original size:2 final size:2
Alignment explanation
Indices: 121782428--121782457 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
121782418 TGTTTTTGGT
121782428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121782458 CCCATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121782449 original size:123 final size:123
Alignment explanation
Indices: 121782088--121782676 Score: 1105
Period size: 121 Copynumber: 4.8 Consensus size: 123
121782078 AAAAGTCAAA
121782088 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
1 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
121782153 ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATATATAT
66 ATGGTTCTAAATATATTTGTTTTTGG---T-TATATATATATATATATATATATATATATAT
121782215 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
1 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
121782280 ATGGTTCTAAATATATTTGTTTTTGG-T-TATATATATATATATATATATATATATAT
66 ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATAT
121782336 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
1 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
121782401 ATGGTTCTAAATATATTTGTTTTTGG-T-TATATATATATATATATATATATATATAT
66 ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATAT
121782457 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
1 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
121782522 ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATAT
66 ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATAT
121782580 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
1 ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
*
121782645 ATGGTTCTAAATATATTTGTTTTTAGTTATAT
66 ATGGTTCTAAATATATTTGTTTTTGGTTATAT
121782677 GGTTCTAAAT
Statistics
Matches: 459, Mismatches: 1, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
121 241 0.53
122 2 0.00
123 125 0.27
127 91 0.20
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (123 bp):
ACCCATAAAAACTTCTCAACAAGTTGGCCAATTGCTCTAAAGCAATTGTGAAATGGATGTGAATT
ATGGTTCTAAATATATTTGTTTTTGGTTATATATATATATATATATATATATATATAT
Found at i:121782554 original size:2 final size:2
Alignment explanation
Indices: 121782549--121782580 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
121782539 TGTTTTTGGT
121782549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121782581 CCCATAAAAA
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):
TA
Found at i:121782678 original size:30 final size:30
Alignment explanation
Indices: 121782644--121782706 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
121782634 GGATGTGAAT
121782644 TATGGTTCTAAATATATTTGTTTTTAGTTA
1 TATGGTTCTAAATATATTTGTTTTTAGTTA
*
121782674 TATGGTTCTAAATATATTTGTTTTTGGTTA
1 TATGGTTCTAAATATATTTGTTTTTAGTTA
121782704 TAT
1 TAT
121782707 ATATATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TATGGTTCTAAATATATTTGTTTTTAGTTA
Found at i:121784918 original size:39 final size:40
Alignment explanation
Indices: 121784840--121784928 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
121784830 TAAAATTATC
* ** *
121784840 TTTAATACAATAAAATATTTATTATATTTATTTTTA-TTT
1 TTTAATATAATAAAATATTTATTATATTTATGATAATTTT
*
121784879 TTTAATATAATAAAATATTTGTTATATTTATGATAATTTT
1 TTTAATATAATAAAATATTTATTATATTTATGATAATTTT
121784919 TTTAATATAA
1 TTTAATATAA
121784929 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 31 0.70
40 13 0.30
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATGATAATTTT
Found at i:121784973 original size:18 final size:18
Alignment explanation
Indices: 121784950--121784985 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
121784940 GTGTTAAAAA
121784950 AAATTATTTTAGGGTTTT
1 AAATTATTTTAGGGTTTT
121784968 AAATTATTTTAGGGTTTT
1 AAATTATTTTAGGGTTTT
121784986 TTTAGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (18 bp):
AAATTATTTTAGGGTTTT
Found at i:121787842 original size:16 final size:15
Alignment explanation
Indices: 121787817--121787846 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
121787807 CCTTTCCCAT
121787817 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
121787832 AAAAGAAAAAGAAAA
1 AAAA-AAAAAGAAAA
121787847 CAGCTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:121788334 original size:27 final size:28
Alignment explanation
Indices: 121788281--121788335 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
121788271 AAAATTCAAA
* *
121788281 TAAACATATAAAAATACATAAATATTTT
1 TAAACATATAAAAATAAATAAACATTTT
* *
121788309 TAAA-ATATAATAATAAATATACATTTT
1 TAAACATATAAAAATAAATAAACATTTT
121788336 ATATTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAACATATAAAAATAAATAAACATTTT
Found at i:121791807 original size:23 final size:23
Alignment explanation
Indices: 121791777--121791826 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
121791767 CGGCGAAAAA
121791777 AGAAAAAACATTAAAAGCTCTTT
1 AGAAAAAACATTAAAAGCTCTTT
121791800 AGAAAAAACATTAAAAGCTCTTT
1 AGAAAAAACATTAAAAGCTCTTT
121791823 AGAA
1 AGAA
121791827 GCCTTCTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.10, T:0.24
Consensus pattern (23 bp):
AGAAAAAACATTAAAAGCTCTTT
Found at i:121794509 original size:13 final size:13
Alignment explanation
Indices: 121794491--121794520 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
121794481 CTATAACAAC
*
121794491 ATAATTACTAAAT
1 ATAATTACGAAAT
121794504 ATAATTACGAAAT
1 ATAATTACGAAAT
121794517 ATAA
1 ATAA
121794521 GGGTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (13 bp):
ATAATTACGAAAT
Found at i:121801856 original size:20 final size:22
Alignment explanation
Indices: 121801826--121801873 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
121801816 TATTCATCAA
121801826 TTATAT-A-TTTTTA-TGA-TT
1 TTATATAATTTTTTATTGATTT
121801844 TTATATAATTTTTTATTGATTT
1 TTATATAATTTTTTATTGATTT
121801866 TTATATAA
1 TTATATAA
121801874 AATACTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.23
19 1 0.04
20 6 0.23
21 3 0.12
22 10 0.38
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTATATAATTTTTTATTGATTT
Found at i:121803369 original size:3 final size:3
Alignment explanation
Indices: 121803363--121803607 Score: 96
Period size: 3 Copynumber: 82.3 Consensus size: 3
121803353 AAAATACAAC
* * * *
121803363 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
121803406 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
121803450 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
121803495 AAT AAT AAT AAT AAT AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT
* * * * *
121803540 AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T
* *
121803585 AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT A
121803608 GTGATGAGAA
Statistics
Matches: 180, Mismatches: 44, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
2 18 0.10
3 145 0.81
4 17 0.09
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:121803369 original size:22 final size:22
Alignment explanation
Indices: 121803318--121803378 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
121803308 ATAAGTAAAT
* *
121803318 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
121803339 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
121803361 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
121803379 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:121803626 original size:16 final size:16
Alignment explanation
Indices: 121803607--121803638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
121803597 TTATAATAAT
121803607 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
121803623 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
121803639 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:121803771 original size:16 final size:15
Alignment explanation
Indices: 121803742--121803784 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
121803732 TATACGTATG
*
121803742 AAAAATAATGATAGT
1 AAAAATAATAATAGT
121803757 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
121803773 AATAATAATAAT
1 AAAAATAATAAT
121803785 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:121803887 original size:3 final size:3
Alignment explanation
Indices: 121803879--121803905 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
121803869 ACACTACCAT
121803879 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
121803906 TAGAAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:121804007 original size:3 final size:3
Alignment explanation
Indices: 121803999--121804072 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
121803989 AAATATACAC
121803999 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
121804047 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
121804073 TTAAAATGCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:121804589 original size:25 final size:25
Alignment explanation
Indices: 121804546--121804602 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
121804536 ATCTCAAAAA
121804546 AAAAGAAAAATCCCCTCTTGAATCTC
1 AAAA-AAAAATCCCCTCTTGAATCTC
* *
121804572 AAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAATCCCCTCTTGAATCTC
121804597 AAAAAA
1 AAAAAA
121804603 TTTCTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (25 bp):
AAAAAAAAATCCCCTCTTGAATCTC
Found at i:121804603 original size:22 final size:23
Alignment explanation
Indices: 121804551--121804610 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
121804541 AAAAAAAAAG
* *
121804551 AAAAATCCCCTCTTGAATCTCAAAA
1 AAAAATCTCTTCTTGAATCTC--AA
121804576 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
121804598 AAAAATTTCTTCT
1 AAAAATCTCTTCT
121804611 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.41
25 19 0.59
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:121805102 original size:2 final size:2
Alignment explanation
Indices: 121805095--121805120 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
121805085 ATTAAGCCTT
121805095 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
121805121 AATAGAATGC
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):
TA
Found at i:121805601 original size:15 final size:16
Alignment explanation
Indices: 121805581--121805610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121805571 AAAAATTAAT
121805581 TAATA-TAATTAACTC
1 TAATATTAATTAACTC
121805596 TAATATTAATTAACT
1 TAATATTAATTAACT
121805611 GATAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATTAATTAACTC
Found at i:121809645 original size:16 final size:15
Alignment explanation
Indices: 121809626--121809657 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
121809616 TCATTAAACC
121809626 TAAAAATACAAAAAAA
1 TAAAAATA-AAAAAAA
121809642 TAAAAATAAAAAAAA
1 TAAAAATAAAAAAAA
121809657 T
1 T
121809658 CCAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAAAAAA
Found at i:121810508 original size:20 final size:20
Alignment explanation
Indices: 121810483--121810688 Score: 72
Period size: 21 Copynumber: 9.7 Consensus size: 20
121810473 GTTGGATTTT
121810483 GAATCAAGTT-AAAAAATAAA
1 GAATCAA-TTCAAAAAATAAA
* *
121810503 GAATCAATTCAAACAATAAT
1 GAATCAATTCAAAAAATAAA
* * *
121810523 GAATCGATTTAAAACAACAAA
1 GAATCAATTCAAAA-AATAAA
* ** *
121810544 CAATTGATTCAAAGAAGTAAA
1 GAATCAATTCAAA-AAATAAA
* *
121810565 GAATCAATTTAAAACAACAATCA
1 GAATCAATTCAAAA-AATAA--A
* **
121810588 TGAATCAATTTAAAGAAGCAAA
1 -GAATCAATTCAAA-AAATAAA
* * * *
121810610 TAATCGATTTAAAACAACAATAAT
1 GAATC-AATT-CAA-AA-AATAAA
* *
121810634 GAATCGATTCAAATAAGTAAA
1 GAATCAATTCAAA-AAATAAA
* *
121810655 GAATCAATTTCAAACAACAAA
1 GAATCAA-TTCAAAAAATAAA
*
121810676 TAATCAATTCAAA
1 GAATCAATTCAAA
121810689 GAAGAAAAGA
Statistics
Matches: 136, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
19 2 0.01
20 33 0.24
21 55 0.40
22 14 0.10
23 6 0.04
24 25 0.18
25 1 0.01
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (20 bp):
GAATCAATTCAAAAAATAAA
Found at i:121810593 original size:24 final size:23
Alignment explanation
Indices: 121810565--121810684 Score: 85
Period size: 21 Copynumber: 5.4 Consensus size: 23
121810555 AAGAAGTAAA
121810565 GAATCAATTTAAAACAACAATCAT
1 GAATCAATTTAAAACAACAAT-AT
*
121810589 GAATCAATTTAAAGA-AGCAA-AT
1 GAATCAATTTAAA-ACAACAATAT
*
121810611 -AATCGATTTAAAACAACAATAAT
1 GAATCAATTTAAAACAACAAT-AT
* * **
121810634 GAATCGATTCAAATA-AGTAA-A-
1 GAATCAATTTAAA-ACAACAATAT
*
121810655 GAATCAATTTCAAACAACAA-AT
1 GAATCAATTTAAAACAACAATAT
121810677 -AATCAATT
1 GAATCAATT
121810685 CAAAGAAGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.03
21 37 0.48
22 3 0.04
23 2 0.03
24 31 0.40
25 2 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (23 bp):
GAATCAATTTAAAACAACAATAT
Found at i:121810605 original size:45 final size:43
Alignment explanation
Indices: 121810483--121810718 Score: 232
Period size: 45 Copynumber: 5.5 Consensus size: 43
121810473 GTTGGATTTT
* * * *
121810483 GAATCAAGTTAAAA-AATAAA-GAATCAATTCAAACAA-TAAT
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
* * **
121810523 GAATCGATTTAAAACAACAAA-CAATTGATTCAAAGAAGTAAA
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
* *
121810565 GAATCAATTTAAAACAACAATCATGAATCAATTTAAAGAAGCAAA
1 GAATCAATTTAAAACAACAA--ATGAATCAATTCAAAGAAGTAAA
* * * *
121810610 TAATCGATTTAAAACAACAATAATGAATCGATTCAAATAAGTAAA
1 GAATCAATTTAAAACAAC-A-AATGAATCAATTCAAAGAAGTAAA
* *
121810655 GAATCAATTTCAAACAACAAAT-AATCAATTCAAAGAAGAAAA
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
*
121810697 GAAT-AGATTTAAAATAACAAAT
1 GAATCA-ATTTAAAACAACAAAT
121810719 TTAGTAACAA
Statistics
Matches: 160, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
40 12 0.08
41 18 0.11
42 57 0.36
43 3 0.02
44 2 0.01
45 66 0.41
46 1 0.01
47 1 0.01
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (43 bp):
GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
Found at i:121810624 original size:87 final size:85
Alignment explanation
Indices: 121810483--121810718 Score: 271
Period size: 87 Copynumber: 2.8 Consensus size: 85
121810473 GTTGGATTTT
* * * * * *
121810483 GAATCAAGTTAAAA-AATAAAGAATCAATTCAAACAA-TAATGAATCGATTTAAAACAACAAA-C
1 GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAAATC
*
121810545 AATTGATTCAAAGAAGTAAA
66 AATCGATTCAAAGAAGTAAA
* * *
121810565 GAATCAATTTAAAACAACAATCATGAATCAATTTAAAGAAGCAAATAATCGATTTAAAACAACAA
1 GAATCAATTTAAAACAACAA--AT-AATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAAC-A
* *
121810630 TAATGAATCGATTCAAATAAGTAAA
62 -AATCAATCGATTCAAAGAAGTAAA
* * *
121810655 GAATCAATTTCAAACAACAAATAATCAATTCAAAGAAGAAAAGAATAGATTTAAAATAACAAAT
1 GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAAAT
121810719 TTAGTAACAA
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
82 13 0.10
83 4 0.03
85 4 0.03
86 14 0.11
87 52 0.40
88 3 0.02
89 2 0.02
90 37 0.29
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (85 bp):
GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAAATC
AATCGATTCAAAGAAGTAAA
Found at i:121812154 original size:19 final size:20
Alignment explanation
Indices: 121812120--121812168 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
121812110 TATTTTTAAA
* *
121812120 ATTAAAAATCTTTAAA-ATT
1 ATTAAAAATATATAAATATT
*
121812139 ATTAAAAATATATAAATTTT
1 ATTAAAAATATATAAATATT
*
121812159 ATAAAAAATA
1 ATTAAAAATA
121812169 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAAAAATATATAAATATT
Found at i:121812171 original size:16 final size:15
Alignment explanation
Indices: 121812150--121812179 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
121812140 TTAAAAATAT
121812150 ATAAATTTTATAAAAA
1 ATAAATTTT-TAAAAA
121812166 ATAAATTTTTAAAA
1 ATAAATTTTTAAAA
121812180 TTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATTTTTAAAAA
Found at i:121812172 original size:34 final size:33
Alignment explanation
Indices: 121812134--121812198 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
121812124 AAAATCTTTA
*
121812134 AAATTATTAAAAATATATAAATTTTATAAAAAAT
1 AAATTATTAAAAATATAAAAATTTTA-AAAAAAT
* * *
121812168 AAATTTTTAAAATTTTAAAAATTTTAAAAAA
1 AAATTATTAAAAATATAAAAATTTTAAAAAA
121812199 TTAATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 5 0.19
34 22 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
AAATTATTAAAAATATAAAAATTTTAAAAAAAT
Found at i:121812200 original size:10 final size:9
Alignment explanation
Indices: 121812168--121812197 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
121812158 TATAAAAAAT
*
121812168 AAATTTTTA
1 AAATTTTAA
121812177 AAATTTTAA
1 AAATTTTAA
121812186 AAATTTTAA
1 AAATTTTAA
121812195 AAA
1 AAA
121812198 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTTTAA
Found at i:121817535 original size:19 final size:18
Alignment explanation
Indices: 121817502--121817539 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
121817492 GCAAACATAT
121817502 AATATATTTTATAATTAAA
1 AATATATTTTATAA-TAAA
121817521 AATAT-TTTTATTAATAAA
1 AATATATTTTA-TAATAAA
121817539 A
1 A
121817540 CTGGCTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATTTTATAATAAA
Found at i:121822884 original size:2 final size:2
Alignment explanation
Indices: 121822877--121822906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
121822867 GTAACTTCAA
121822877 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
121822907 TAGTAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121826320 original size:47 final size:47
Alignment explanation
Indices: 121826245--121826410 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
121826235 TCACTTGTGT
* **
121826245 GAGCTAGTGTAAGACA-GTCTGGGACATGCATCGGCCACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTA
* *
121826290 GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCTCAAGATGTA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAAGATGTA
* *
121826338 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATGAA-ATGT-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAAGATGTA
*
121826383 --GTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
121826411 GCAACGACAC
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
44 11 0.10
45 28 0.26
46 27 0.25
47 39 0.37
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTA
Found at i:121830350 original size:13 final size:13
Alignment explanation
Indices: 121830332--121830369 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
121830322 GCCCAAACGT
121830332 CGAAATTTTCAAA
1 CGAAATTTTCAAA
121830345 CGAAATTTTCAAA
1 CGAAATTTTCAAA
*
121830358 TGAAATTTTCAA
1 CGAAATTTTCAA
121830370 TAAATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:121831809 original size:15 final size:15
Alignment explanation
Indices: 121831769--121831806 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
121831759 GAAGCCCAGA
121831769 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
121831784 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
121831799 AT-AAGAAA
1 ATAAAGAAA
121831807 ATCTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:121839388 original size:2 final size:2
Alignment explanation
Indices: 121839381--121839418 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
121839371 TTACTCCACT
121839381 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
121839419 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:121839509 original size:12 final size:12
Alignment explanation
Indices: 121839492--121839521 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
121839482 CGACCATCGT
121839492 GCACGGTGGCCG
1 GCACGGTGGCCG
121839504 GCACGGTGGCCG
1 GCACGGTGGCCG
*
121839516 ACACGG
1 GCACGG
121839522 CGGCGCTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.33, G:0.47, T:0.07
Consensus pattern (12 bp):
GCACGGTGGCCG
Found at i:121850632 original size:28 final size:28
Alignment explanation
Indices: 121850592--121850661 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
121850582 ATGAAAGTTT
* *
121850592 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTATGCGAGTTTGATT-ATCGAG
*
121850620 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTATGCGAGTTTGATTATCGAG
121850648 CACTAAGTATGCGA
1 CACTAAGTATGCGA
121850662 AAGAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
CACTAAGTATGCGAGTTTGATTATCGAG
Found at i:121871052 original size:13 final size:13
Alignment explanation
Indices: 121871034--121871058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121871024 AGGCTGTGTG
121871034 AGGGACACGGGCC
1 AGGGACACGGGCC
121871047 AGGGACACGGGC
1 AGGGACACGGGC
121871059 GTGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:121871618 original size:42 final size:42
Alignment explanation
Indices: 121871545--121871644 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
121871535 ACATCCTTTT
* *
121871545 CAGAAGCCCA-AA-GGCTGAACGGAAGCACATAAGTGCTAAA
1 CAGAAGCCCATAAGGGTTGAACGGAAGCACATAAGAGCTAAA
* *
121871585 CAGAAGCCCATAAGGGTTGAGCGGAAGCTCATAAGAGCTAAA
1 CAGAAGCCCATAAGGGTTGAACGGAAGCACATAAGAGCTAAA
* *
121871627 CGGAAACCCATAAGGGTT
1 CAGAAGCCCATAAGGGTT
121871645 AAATAAAAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 10 0.19
41 2 0.04
42 40 0.77
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (42 bp):
CAGAAGCCCATAAGGGTTGAACGGAAGCACATAAGAGCTAAA
Found at i:121871647 original size:21 final size:21
Alignment explanation
Indices: 121871547--121871647 Score: 89
Period size: 21 Copynumber: 4.9 Consensus size: 21
121871537 ATCCTTTTCA
*
121871547 GAAGCCCA-AA-GGCTGAACG
1 GAAGCCCATAAGGGCTAAACG
* * *
121871566 GAAGCACATAAGTGCTAAACA
1 GAAGCCCATAAGGGCTAAACG
* * *
121871587 GAAGCCCATAAGGGTTGAGCG
1 GAAGCCCATAAGGGCTAAACG
* *
121871608 GAAGCTCATAAGAGCTAAACG
1 GAAGCCCATAAGGGCTAAACG
* *
121871629 GAAACCCATAAGGGTTAAA
1 GAAGCCCATAAGGGCTAAA
121871648 TAAAAGCTCG
Statistics
Matches: 61, Mismatches: 19, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
19 7 0.11
20 2 0.03
21 52 0.85
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.13
Consensus pattern (21 bp):
GAAGCCCATAAGGGCTAAACG
Found at i:121871655 original size:42 final size:42
Alignment explanation
Indices: 121871566--121871740 Score: 158
Period size: 42 Copynumber: 4.2 Consensus size: 42
121871556 AGGCTGAACG
* * * * * *
121871566 GAAGCACATAAGTGCTAAACAGAAGCCCATAAGGGTTGAGCG
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
* *
121871608 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAATA
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
* * * *
121871650 AAAGCTCGTAAGAGTTGAACAGAAACCCATCAA-GGTTAAACA
1 GAAGCTCATAAGAGCTAAACAGAAACCCAT-AAGGGTTAAACA
* * **
121871692 GAAGCTCA-ATAGAGCTAAAC-GAAAACTCATATGAATTAAACA
1 GAAGCTCATA-AGAGCTAAACAG-AAACCCATAAGGGTTAAACA
121871734 GAAGCTC
1 GAAGCTC
121871741 GTGAGGGATA
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.03
42 102 0.95
43 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
Found at i:121872341 original size:13 final size:15
Alignment explanation
Indices: 121872306--121872342 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
121872296 GATTTGGTCC
121872306 TAAAATCAATGTATA
1 TAAAATCAATGTATA
121872321 TCAAAATCAAT-T-TA
1 T-AAAATCAATGTATA
121872335 TAAAATCA
1 TAAAATCA
121872343 TCATACAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 2 0.10
16 9 0.43
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAAATCAATGTATA
Found at i:121878335 original size:21 final size:22
Alignment explanation
Indices: 121878309--121878349 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
121878299 CACTTGACAC
121878309 AGGGGCACACAC-CT-GTGTGGG
1 AGGGGCA-ACACGCTCGTGTGGG
121878330 AGGGGCAACACGCTCGTGTG
1 AGGGGCAACACGCTCGTGTG
121878350 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.20, C:0.24, G:0.41, T:0.15
Consensus pattern (22 bp):
AGGGGCAACACGCTCGTGTGGG
Found at i:121879559 original size:47 final size:47
Alignment explanation
Indices: 121879488--121879577 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
121879478 GGTAAGACGC
* *
121879488 CGATGCCATGTCCTAGACACGGTCTTACATTGACTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACACGGTCTTACACTGACT-ATCATCTCAAGT
121879535 CGATGCCATGTCCCAGAC-CTGGTCTTACACTGACTATCATCTC
1 CGATGCCATGTCCCAGACAC-GGTCTTACACTGACTATCATCTC
121879578 GTAGCTGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 3 0.08
47 36 0.92
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACACGGTCTTACACTGACTATCATCTCAAGT
Found at i:121885440 original size:25 final size:25
Alignment explanation
Indices: 121885319--121885438 Score: 156
Period size: 24 Copynumber: 4.8 Consensus size: 25
121885309 GAGGAAGTGC
* *
121885319 AAAAGGGCTATGCCCTAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
121885343 AAAAGGGCTTTGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
121885367 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
121885392 AAAAGGGCTTTTGCCCCAGTTTA-TG
1 AAAAGGGC-TTTGCCCCAGTTTACCG
121885417 AAAAAGGGCTTTTGCCCCAGTT
1 -AAAAGGGC-TTTGCCCCAGTT
121885439 ATTAAAAGAG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
24 39 0.44
25 15 0.17
26 34 0.39
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:121885451 original size:25 final size:26
Alignment explanation
Indices: 121885342--121885451 Score: 101
Period size: 25 Copynumber: 4.4 Consensus size: 26
121885332 CCTAGTTACC
*
121885342 GAAAAG-GGC-TTTGCCCCAG-TTACC
1 GAAAAGAGGCTTTTGCCCCAGTTTA-T
* *
121885366 GAAAAG-GGC-TTTGCCCTAGTTTACC
1 GAAAAGAGGCTTTTGCCCCAGTTTA-T
121885391 GAAAAG-GGCTTTTGCCCCAGTTTAT
1 GAAAAGAGGCTTTTGCCCCAGTTTAT
121885416 GAAAA-AGGGCTTTTGCCCCAG-TTAT
1 GAAAAGA-GGCTTTTGCCCCAGTTTAT
*
121885441 TAAAAGAGGCT
1 GAAAAGAGGCT
121885452 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
24 18 0.23
25 31 0.40
26 28 0.36
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (26 bp):
GAAAAGAGGCTTTTGCCCCAGTTTAT
Found at i:121891519 original size:46 final size:47
Alignment explanation
Indices: 121891431--121891651 Score: 229
Period size: 46 Copynumber: 4.7 Consensus size: 47
121891421 ATCTCAAGTT
* * * *
121891431 GATGCCATGTCCCAGACCTGGTCTTACATTGACTATCATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAGGCC
* * *
121891479 GATGCATATTCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTAGGCC
* * *
121891525 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGGCC
* *
121891571 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTAGGCC
*
121891619 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC
121891652 ACACACGAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.01
46 77 0.52
47 38 0.26
48 29 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGGCC
Found at i:121901845 original size:62 final size:62
Alignment explanation
Indices: 121901748--121901869 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
121901738 GCCATTAATT
121901748 AGGAAGCTTCGGATAGCTTTATGTCGGGAAATTCAAGCAAGCTATATCGGGAAGCTCTGGTC
1 AGGAAGCTTCGGATAGCTTTATGTCGGGAAATTCAAGCAAGCTATATCGGGAAGCTCTGGTC
121901810 AGGAAGCTTCGGATAG-TCTTATGTCGGGAAATTCAAGCAAGCTATATCGGGAAGCTCTGG
1 AGGAAGCTTCGGATAGCT-TTATGTCGGGAAATTCAAGCAAGCTATATCGGGAAGCTCTGG
121901870 ATAGCCATTA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 1 0.02
62 58 0.98
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (62 bp):
AGGAAGCTTCGGATAGCTTTATGTCGGGAAATTCAAGCAAGCTATATCGGGAAGCTCTGGTC
Found at i:121901906 original size:26 final size:26
Alignment explanation
Indices: 121901872--121901929 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
121901862 AGCTCTGGAT
*
121901872 AGCCATTAATCAGGAAGCTCATAAAA
1 AGCCATTAATCAGGAAGCTCACAAAA
* * *
121901898 AGCCTTTAATCGGGAAGCTCACGAAA
1 AGCCATTAATCAGGAAGCTCACAAAA
121901924 AGCCAT
1 AGCCAT
121901930 ATATTGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAA
Found at i:121915743 original size:26 final size:27
Alignment explanation
Indices: 121915603--121916045 Score: 479
Period size: 27 Copynumber: 16.7 Consensus size: 27
121915593 TTTACCCTAC
* * * *
121915603 AGGGTATGTCGGTCATTTTACACTAT-A
1 AGGGTATTTCGGTAATTTTACA-AATCG
*
121915630 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
121915657 AGGGTGTTTCGATAATTTCATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
121915684 GGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
121915711 AGAGTATTTCGGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
121915737 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
121915764 AGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
121915790 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
121915817 AGGGTATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
121915843 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
121915870 AGGGTATTTCGATAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
121915896 AAGGTACTTCAGTAATTTCAC-AATCT
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
121915922 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
121915949 AGGGTATTTTAGTAACTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
121915975 AGGGTATTTCGATAACTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
121916002 -GGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
121916028 AGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
121916046 CTCTTTATTA
Statistics
Matches: 354, Mismatches: 55, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
26 163 0.46
27 191 0.54
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:121915759 original size:53 final size:53
Alignment explanation
Indices: 121915630--121916045 Score: 484
Period size: 53 Copynumber: 7.8 Consensus size: 53
121915620 TTACACTATA
* *
121915630 AGGGTATTTC-GATAATTTTACAAATCGAGGGTGTTTCGATAATTTCATA-AATCG
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAATAATTT--TACAATCG
* * * **
121915684 GGGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCGGTAATTTTACAATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCG
* *
121915737 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAATTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCG
* * *
121915790 AGGGTATTTC-GATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCG
* * *
121915843 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCG
* * * * * *
121915896 AAGGTACTTCAGTAATTTCAC-AATCTAAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTAC-AATCG
* * * * *
121915949 AGGGTATTTTAGTAACTTCAC-AATCGAGGGTATTTCGATAACTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTAC-AATCG
* *
121916002 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTT
121916046 CTCTTTATTA
Statistics
Matches: 315, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
52 40 0.13
53 235 0.75
54 39 0.12
55 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCG
Found at i:121915850 original size:79 final size:79
Alignment explanation
Indices: 121915630--121916045 Score: 504
Period size: 79 Copynumber: 5.2 Consensus size: 79
121915620 TTACACTATA
* * * *
121915630 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC-GATAATTTCATAAATCGGGGGTATTTT
1 AGGGTATTTCGATAATTTTAC-AATCGAGGGTATTTCAG-TAATTTCA-CAATCGAGGGTATTTC
121915694 AGTAATTTTACAAATCG
63 AGTAATTTTACAAATCG
* * * *
121915711 AGAGTATTTCGGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAA
1 AGGGTATTTCGATAATTTTACAATCGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCAG
* *
121915776 TAATTTCAC-AATTG
65 TAATTTTACAAATCG
* *
121915790 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATTGAGGGTATTTCGG
1 AGGGTATTTCGATAATTTTAC-AATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAG
121915855 TAATTTTACAAATCG
65 TAATTTTACAAATCG
* * * * *
121915870 AGGGTATTTCGATAATTTCACAATCGAAGGTACTTCAGTAATTTCACAATCTAAGGTATTTCAGT
1 AGGGTATTTCGATAATTTTACAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGT
121915935 AATTTTACAAATCG
66 AATTTTACAAATCG
* * *
121915949 AGGGTATTT-TAGTAACTTCACAATCGAGGGTATTTC-GATAACTTT-ACAAATCG-GGGTATTT
1 AGGGTATTTCGA-TAATTTTACAATCGAGGGTATTTCAG-TAA-TTTCAC-AATCGAGGGTATTT
*
121916010 CGGTAATTTTACAAATCG
62 CAGTAATTTTACAAATCG
121916028 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
121916046 CTCTTTATTA
Statistics
Matches: 293, Mismatches: 33, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
78 2 0.01
79 172 0.59
80 99 0.34
81 20 0.07
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (79 bp):
AGGGTATTTCGATAATTTTACAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGT
AATTTTACAAATCG
Found at i:121917259 original size:13 final size:15
Alignment explanation
Indices: 121917230--121917261 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
121917220 CCCATACTAC
121917230 AGGCCCAATACTTCT
1 AGGCCCAATACTTCT
121917245 AGGCCCAA-A-TTCT
1 AGGCCCAATACTTCT
121917258 AGGC
1 AGGC
121917262 GTTACATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (15 bp):
AGGCCCAATACTTCT
Found at i:121926140 original size:19 final size:19
Alignment explanation
Indices: 121926108--121926153 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
121926098 ACAACATATA
* * *
121926108 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
121926127 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
121926146 ATATATAT
1 ATA-ATAT
121926154 ACTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:121928736 original size:25 final size:25
Alignment explanation
Indices: 121928686--121928750 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
121928676 TACAAGAACC
*
121928686 ATATAACGGGAAGCTCGAGAGGGCT
1 ATATAACGGGAAGCTCGAGAGAGCT
* *
121928711 ATATATCGGGATGCTC-ATGAGAGCT
1 ATATAACGGGAAGCTCGA-GAGAGCT
* *
121928736 A-ATAACAGGACGCTC
1 ATATAACGGGAAGCTC
121928751 TTTTGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (25 bp):
ATATAACGGGAAGCTCGAGAGAGCT
Found at i:121940390 original size:25 final size:25
Alignment explanation
Indices: 121940362--121940409 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121940352 AGTTCTTTTG
*
121940362 AGCTAAATATCGGTAAGCTCATATA
1 AGCTAAATATCGATAAGCTCATATA
* *
121940387 AGCTAAGTATCGATAAGGTCATA
1 AGCTAAATATCGATAAGCTCATA
121940410 AGAGTTGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTAAATATCGATAAGCTCATATA
Found at i:121954553 original size:17 final size:16
Alignment explanation
Indices: 121954531--121954562 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
121954521 TATGTTTCCA
121954531 TAGCTATTAGACACCTC
1 TAGCTATTAGA-ACCTC
121954548 TAGCTATTAGAACCT
1 TAGCTATTAGAACCT
121954563 TACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
TAGCTATTAGAACCTC
Found at i:121960294 original size:2 final size:2
Alignment explanation
Indices: 121960287--121960315 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
121960277 GAGACTAGTC
121960287 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
121960316 CATGTCATGA
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:121962353 original size:30 final size:30
Alignment explanation
Indices: 121962319--121962379 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
121962309 TCCTTAACTC
121962319 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
121962349 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
121962379 A
1 A
121962380 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:121964558 original size:16 final size:16
Alignment explanation
Indices: 121964534--121964567 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
121964524 GAGTTTGTCA
121964534 AACCCTAGAGTTCGCC
1 AACCCTAGAGTTCGCC
* *
121964550 AACCTTAGAGTTCTCC
1 AACCCTAGAGTTCGCC
121964566 AA
1 AA
121964568 ATGACGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (16 bp):
AACCCTAGAGTTCGCC
Found at i:121967931 original size:16 final size:16
Alignment explanation
Indices: 121967912--121967942 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121967902 TTCTATCAAA
*
121967912 ATCATTTAATAAAATC
1 ATCATATAATAAAATC
121967928 ATCATATAATAAAAT
1 ATCATATAATAAAAT
121967943 TAGAGCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCATATAATAAAATC
Found at i:121968037 original size:13 final size:13
Alignment explanation
Indices: 121968019--121968044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121968009 CACTCATAGA
121968019 ATCAAAAACTAAT
1 ATCAAAAACTAAT
121968032 ATCAAAAACTAAT
1 ATCAAAAACTAAT
121968045 GAATTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCAAAAACTAAT
Found at i:121974893 original size:14 final size:16
Alignment explanation
Indices: 121974860--121974896 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
121974850 TTTTAATTAG
*
121974860 TATTATGAGATAAAAT
1 TATTATTAGATAAAAT
121974876 TATTATTAGA-AAAA-
1 TATTATTAGATAAAAT
121974890 TATTATT
1 TATTATT
121974897 GTATGTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
TATTATTAGATAAAAT
Found at i:121974925 original size:12 final size:12
Alignment explanation
Indices: 121974908--121974932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
121974898 TATGTATGTT
121974908 TGAAAATTTTTA
1 TGAAAATTTTTA
121974920 TGAAAATTTTTA
1 TGAAAATTTTTA
121974932 T
1 T
121974933 TATTTGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:121975000 original size:3 final size:3
Alignment explanation
Indices: 121974986--121975050 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
121974976 TGTTTATGAA
*
121974986 ATT ATA 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 ATT ATT
121975034 ATT ATTT ATT ATT ATT A
1 ATT A-TT ATT ATT ATT A
121975051 AATATGTAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Done.