Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 169 of 343
Found at i:55995236 original size:94 final size:94
Alignment explanation
Indices: 55995075--55995424 Score: 309
Period size: 94 Copynumber: 3.7 Consensus size: 94
55995065 AGAGCCAATA
* * * * *
55995075 TAAGACCATGTCTGGGACATGGCATCGACATTGAGATGA-TGGCTAGTGTAAGACGTGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGA
* *
55995139 CATGCATCAGTCGCGTCATGATAGCCCGTG
65 CATGCATCAGACGCGTCATGATAGCCAGTG
* *
55995169 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGT-GCTAGAGTAAGACATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGA
* * * * * *
55995233 CATGCATCGGCCTCAATGATGTTAGCCAGTG
65 CATGCATCAGACGC-GTCATGATAGCCAGTG
* * * ** *
55995264 TAAGA-CGTGTCTGGGACAT-GCATCAGCTA-AGTTTCGT-GCTAGTGTAAGACATGTCTAGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGAC
* * * * *
55995325 ATGCATCAACACGTGTACACGAGAGCTAGTG
66 ATGCATC-AGACGCGT-CATGATAGCCAGTG
* * * *
55995356 TAAGACCATGTCTAGGACATGGCATCGGCCTCGATG-GAGCTAGCCAGTGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATCGG-CTAGAGGTGAG-TAGCTAGTGTAAGA-CATGTCTGG
55995420 GACAT
63 GACAT
55995425 AGCAGTGACA
Statistics
Matches: 202, Mismatches: 43, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
91 35 0.17
92 17 0.08
93 19 0.09
94 84 0.42
95 21 0.10
96 2 0.01
97 11 0.05
98 13 0.06
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGAC
ATGCATCAGACGCGTCATGATAGCCAGTG
Found at i:55995325 original size:44 final size:48
Alignment explanation
Indices: 55995208--55995332 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 48
55995198 GTAGAGGTGA
* *
55995208 GTGCTAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATGATGTT
* * *
55995256 -AGCCAGTGTAAGACGTGTCTGGGACATGCATCAG-CT-AA-G-T-TT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATGATGTT
*
55995298 CGTGCTAGTGTAAGACATGTCTAGGACATGCATCA
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCA
55995333 ACACGTGTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 2 0.03
43 1 0.02
44 30 0.45
45 2 0.03
46 2 0.03
47 29 0.44
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATGATGTT
Found at i:55999146 original size:42 final size:42
Alignment explanation
Indices: 55999073--55999211 Score: 147
Period size: 42 Copynumber: 3.2 Consensus size: 42
55999063 AGATGTAGTT
* * * *
55999073 TTACATGTAATCGAATATCGATGCCACTGTCCCAGACAGGGTC
1 TTACATGAAATCAAATA-AGATGCCAATGTCCCAGACAGGGTC
*
55999116 TTACATGAAATCAAATAAGATGCCAATGTCCCAGACATGGTC
1 TTACATGAAATCAAATAAGATGCCAATGTCCCAGACAGGGTC
* *
55999158 TTACATGTAAATCATAAGTCA-ATGCCAATGTCCCAAAC-GTGGTC
1 TTACATG-AAATCA-AA-TAAGATGCCAATGTCCCAGACAG-GGTC
*
55999202 TTACACGAAA
1 TTACATGAAA
55999212 ACACATATCG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 29 0.35
43 24 0.29
44 28 0.34
45 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
TTACATGAAATCAAATAAGATGCCAATGTCCCAGACAGGGTC
Found at i:55999201 original size:44 final size:42
Alignment explanation
Indices: 55999073--55999211 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 42
55999063 AGATGTAGTT
* * * *
55999073 TTACATGTAATCGAATATCGATGCCACTGTCCCAGACAG-GGTC
1 TTACATGAAATCAAATA-AGATGCCAATGTCCCAGAC-GTGGTC
*
55999116 TTACATGAAATCAAATAAGATGCCAATGTCCCAGACATGGTC
1 TTACATGAAATCAAATAAGATGCCAATGTCCCAGACGTGGTC
* *
55999158 TTACATGTAAATCATAAGTCA-ATGCCAATGTCCCAAACGTGGTC
1 TTACATG-AAATCA-AA-TAAGATGCCAATGTCCCAGACGTGGTC
*
55999202 TTACACGAAA
1 TTACATGAAA
55999212 ACACATATCG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.34
43 24 0.29
44 29 0.35
45 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
TTACATGAAATCAAATAAGATGCCAATGTCCCAGACGTGGTC
Found at i:56005772 original size:43 final size:42
Alignment explanation
Indices: 56005724--56005822 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
56005714 TCCAAGACGT
* * *
56005724 GGTCTTACATGTAATCGAATATCGGTGCC-ACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-AGATGCCGA-TATCCCAGACAG
* * * *
56005767 GGTCTTACACGAAATCAAATAAGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGCCGATATCCCAGACAG
56005809 GGTCTTACATGTAA
1 GGTCTTACATGTAA
56005823 ATCATAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCCGATATCCCAGACAG
Found at i:56005807 original size:42 final size:43
Alignment explanation
Indices: 56005757--56005866 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
56005747 GGTGCCACTA
*
56005757 TCCCAGACAGGGTCTTACACGAAATCA-AA-TAAGATGCCGATG
1 TCCCAGACAGGGTCTTACACGAAATCATAAGT-AGATGCCAATG
* * *
56005799 TCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCAATG
1 TCCCAGACAGGGTCTTACACG-AAATCATAAGTAGATGCCAATG
*
56005843 TCCCAAAC-GTGGTCTTACACGAAA
1 TCCCAGACAG-GGTCTTACACGAAA
56005867 ACACATATCG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 19 0.33
43 9 0.16
44 28 0.49
45 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCATAAGTAGATGCCAATG
Found at i:56007618 original size:27 final size:27
Alignment explanation
Indices: 56007587--56007764 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56007577 TAAATTGTAC
*
56007587 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
56007614 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
56007640 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
56007668 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
56007695 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
56007723 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
56007750 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56007765 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:56007648 original size:54 final size:55
Alignment explanation
Indices: 56007587--56007764 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
56007577 TAAATTGTAC
* **
56007587 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
56007642 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
56007695 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
56007750 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56007765 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:56009207 original size:41 final size:41
Alignment explanation
Indices: 56009150--56009232 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
56009140 TCGGTTCTAG
*
56009150 GACTACCATAGCGCGTATGAGTCTAGCTATACATGCCGAAT
1 GACTACCATAGCGCGTATGAGTCTAGCTATAAATGCCGAAT
56009191 GACTACCATAGCGCGTATGAGTCTAGCTATAAATGCCGAAT
1 GACTACCATAGCGCGTATGAGTCTAGCTATAAATGCCGAAT
56009232 G
1 G
56009233 TTATGTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
GACTACCATAGCGCGTATGAGTCTAGCTATAAATGCCGAAT
Found at i:56015679 original size:27 final size:27
Alignment explanation
Indices: 56015648--56015825 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56015638 TAAATTGTAC
*
56015648 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
56015675 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
56015701 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
56015729 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
56015756 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
56015784 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
56015811 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56015826 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:56015709 original size:54 final size:55
Alignment explanation
Indices: 56015648--56015825 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
56015638 TAAATTGTAC
* **
56015648 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
56015703 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
56015756 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
56015811 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56015826 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:56017237 original size:11 final size:11
Alignment explanation
Indices: 56017221--56017246 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56017211 CTTTTCAGAC
56017221 GTCGAAACTTT
1 GTCGAAACTTT
56017232 GTCGAAACTTT
1 GTCGAAACTTT
56017243 GTCG
1 GTCG
56017247 GATATCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (11 bp):
GTCGAAACTTT
Found at i:56023714 original size:19 final size:19
Alignment explanation
Indices: 56023692--56023735 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
56023682 TGAAATAAAC
56023692 TTTTACTAGTCAACAAGAG
1 TTTTACTAGTCAACAAGAG
*
56023711 TTTTACTAGTCAACAAGGG
1 TTTTACTAGTCAACAAGAG
56023730 TTTTAC
1 TTTTAC
56023736 ATTCTCTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TTTTACTAGTCAACAAGAG
Found at i:56028424 original size:20 final size:20
Alignment explanation
Indices: 56028399--56028437 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56028389 AAACAGGGTC
*
56028399 ACACGCCTGTGTGGCTTGGG
1 ACACGCATGTGTGGCTTGGG
*
56028419 ACACGCATGTGTGGGTTGG
1 ACACGCATGTGTGGCTTGG
56028438 CCGTGTGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.41, T:0.26
Consensus pattern (20 bp):
ACACGCATGTGTGGCTTGGG
Found at i:56032071 original size:32 final size:32
Alignment explanation
Indices: 56032026--56032107 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
56032016 CAACCCCTCA
* * * * * *
56032026 CAATCTCAATTGGGGCTAGCCCATCTTAGAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
56032058 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
*
56032090 CAATATAAGTTGGGCCTA
1 CAATATCAGTTGGGCCTA
56032108 CAAACCCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATATCAGAAC
Found at i:56033052 original size:44 final size:44
Alignment explanation
Indices: 56033000--56033099 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
56032990 ACAGGCGTGT
56033000 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
* *
56033044 GGTTACACACGTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
56033088 GATTACACACCT
1 GATTACACACCT
56033100 GGTTACGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
Found at i:56040655 original size:15 final size:15
Alignment explanation
Indices: 56040635--56040665 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56040625 AAACCTATAA
*
56040635 AAATTAAATTAAACT
1 AAATTAAATAAAACT
56040650 AAATTAAATAAAACT
1 AAATTAAATAAAACT
56040665 A
1 A
56040666 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:56042302 original size:46 final size:46
Alignment explanation
Indices: 56042241--56042646 Score: 607
Period size: 46 Copynumber: 8.8 Consensus size: 46
56042231 TTGACATGAC
* * * * *
56042241 GCCATAGTGTCTTTCAACTATGGTCTTACTCAGTTTC-TTTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTT
* ** * ***
56042287 TCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
* *** * *
56042333 GCCATGGTATCTTTCAACCAAGGTCTTGTTCATTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
*
56042379 GCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
*
56042425 GCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
56042471 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
56042517 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
56042563 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
*
56042609 GCCATGGTATCTTTCAACCATGGCCTTACACATTTCAT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
56042647 TTCAGAAAGA
Statistics
Matches: 333, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 3 0.01
46 330 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
Found at i:56044865 original size:40 final size:40
Alignment explanation
Indices: 56044775--56044995 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
56044765 ACCCAAGTAT
* ** * *
56044775 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56044813 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56044853 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * * *
56044893 CTTCGGGTTTTGGCCCAGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56044933 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
56044974 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56044996 CATTCGAATA
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 90 0.61
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56052961 original size:40 final size:40
Alignment explanation
Indices: 56052871--56053091 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
56052861 ACCCAAGTAT
* ** * *
56052871 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56052909 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56052949 CTTCGAGACTTAGCCCGGATATAGTCGCTAACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
56052989 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56053029 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
56053070 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56053092 CATTCGAATA
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 90 0.61
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56061066 original size:40 final size:40
Alignment explanation
Indices: 56060976--56061196 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
56060966 ACCCAAGTAT
* ** * *
56060976 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56061014 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56061054 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
56061094 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56061134 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
56061175 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56061197 CATTCGAATA
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 92 0.61
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56065448 original size:147 final size:147
Alignment explanation
Indices: 56065181--56065472 Score: 566
Period size: 147 Copynumber: 2.0 Consensus size: 147
56065171 TTCATTTGAC
56065181 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
1 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
*
56065246 GTTGAATAATTGAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
66 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
56065311 CCTTATTAGGTTTCATT
131 CCTTATTAGGTTTCATT
56065328 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
1 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
*
56065393 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTGCATTAACTCGATCTATGGATTC
66 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
56065458 CCTTATTAGGTTTCA
131 CCTTATTAGGTTTCA
56065473 CCCTCATCTG
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (147 bp):
TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
CCTTATTAGGTTTCATT
Found at i:56082680 original size:17 final size:16
Alignment explanation
Indices: 56082641--56082689 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
56082631 ATTCACCAAA
*
56082641 TGATACTATCTGCCAT
1 TGATACTATCTGCCAG
*
56082657 TCAATACTATCTGCCAGG
1 T-GATACTATCTGCCA-G
*
56082675 TGATACAATCTGCCA
1 TGATACTATCTGCCA
56082690 AAGATATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (16 bp):
TGATACTATCTGCCAG
Found at i:56085293 original size:24 final size:23
Alignment explanation
Indices: 56085250--56085295 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
56085240 GTGTACAATT
*
56085250 ATAGTATTTATACTTGTTATTAA
1 ATAGTATTTATACTTATTATTAA
56085273 ATAGATATTTATTA-TTATTATTA
1 ATAG-TATTTA-TACTTATTATTA
56085296 TTATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 14 0.70
25 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (23 bp):
ATAGTATTTATACTTATTATTAA
Found at i:56092691 original size:16 final size:17
Alignment explanation
Indices: 56092667--56092710 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
56092657 AGTGTTATTG
56092667 TTGAATTGAATGA-GAA
1 TTGAATTGAATGATGAA
*
56092683 TTGAGTTGAATGATGAA
1 TTGAATTGAATGATGAA
*
56092700 TATGTATTGAA
1 T-TGAATTGAA
56092711 ATTGAATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 4 0.17
18 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (17 bp):
TTGAATTGAATGATGAA
Found at i:56107337 original size:18 final size:21
Alignment explanation
Indices: 56107314--56107354 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
56107304 CACCCAATTT
56107314 AAGAAGAA-AT-TTG-AAAAA
1 AAGAAGAAGATATTGTAAAAA
56107332 AAGAAGAAGATATTGTAAAAA
1 AAGAAGAAGATATTGTAAAAA
56107353 AA
1 AA
56107355 AAATGTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 3 0.15
21 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (21 bp):
AAGAAGAAGATATTGTAAAAA
Found at i:56107338 original size:21 final size:22
Alignment explanation
Indices: 56107314--56107355 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
56107304 CACCCAATTT
*
56107314 AAGAAGAAATT-TGAAAAAAAG
1 AAGAAGAAATTGTAAAAAAAAG
*
56107335 AAGAAGATATTGTAAAAAAAA
1 AAGAAGAAATTGTAAAAAAAA
56107356 AATGTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAAGAAATTGTAAAAAAAAG
Found at i:56109049 original size:17 final size:18
Alignment explanation
Indices: 56109027--56109067 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
56109017 TCATAAAAAA
56109027 TTTTAAGAAAACAAT-AT
1 TTTTAAGAAAACAATAAT
* *
56109044 TTTTAAGATAATAATAAT
1 TTTTAAGAAAACAATAAT
56109062 TTTTAA
1 TTTTAA
56109068 AAGGAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAAGAAAACAATAAT
Found at i:56109961 original size:26 final size:26
Alignment explanation
Indices: 56109894--56109965 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
56109884 TCTCATACCT
56109894 ATTTTA-CCCTCAATAAAA-TTTGACG
1 ATTTTACCCCT-AATAAAATTTTGACG
* **
56109919 ATTTTACCCATGGTAAAATTTTGACG
1 ATTTTACCCCTAATAAAATTTTGACG
56109945 ATTTTACCCCTAATAAAATTT
1 ATTTTACCCCTAATAAAATTT
56109966 CGAGAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.28
26 28 0.72
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:56113856 original size:24 final size:25
Alignment explanation
Indices: 56113793--56113856 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
56113783 GCTTGAACTT
* * *
56113793 CCCGA-TATATGGCTATTCGGAGCTC
1 CCCGATTATA-GGCTCTTCGAAGCTA
56113818 CCCGATTAATA-GCTCTTCGAAGCTA
1 CCCGATT-ATAGGCTCTTCGAAGCTA
56113843 CCC-ATTATAGGCTC
1 CCCGATTATAGGCTC
56113857 GTACGAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.09
24 7 0.21
25 19 0.58
26 1 0.03
27 3 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (25 bp):
CCCGATTATAGGCTCTTCGAAGCTA
Found at i:56123167 original size:28 final size:30
Alignment explanation
Indices: 56123136--56123193 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
56123126 GACCTATAAA
*
56123136 TTACATTTTA-CCAATTT-TCCTTAAATTT
1 TTACACTTTATCCAATTTATCCTTAAATTT
*
56123164 TTACACTTTATTCAATTTAGTCCTTAAATT
1 TTACACTTTATCCAATTTA-TCCTTAAATT
56123194 GAAACTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.36
29 6 0.24
31 10 0.40
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (30 bp):
TTACACTTTATCCAATTTATCCTTAAATTT
Found at i:56132137 original size:13 final size:13
Alignment explanation
Indices: 56132119--56132145 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56132109 CCAATATTAT
56132119 TGGTATTAGTACC
1 TGGTATTAGTACC
56132132 TGGTATTAGTACC
1 TGGTATTAGTACC
56132145 T
1 T
56132146 ATAATCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (13 bp):
TGGTATTAGTACC
Found at i:56132653 original size:15 final size:15
Alignment explanation
Indices: 56132633--56132662 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56132623 AATTGTTGTA
56132633 TCTGAACATATCTTT
1 TCTGAACATATCTTT
56132648 TCTGAACATATCTTT
1 TCTGAACATATCTTT
56132663 CCTTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TCTGAACATATCTTT
Found at i:56135373 original size:23 final size:23
Alignment explanation
Indices: 56135347--56135398 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
56135337 GCCTTTGCAA
56135347 CATATTCTGAGGAGCCTTTT-TGG
1 CATATTCTGAGGAG-CTTTTGTGG
*
56135370 CATATTCTGTGGAGCTTTTGTGG
1 CATATTCTGAGGAGCTTTTGTGG
56135393 CATATT
1 CATATT
56135399 TTGTAATGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (23 bp):
CATATTCTGAGGAGCTTTTGTGG
Found at i:56136962 original size:15 final size:16
Alignment explanation
Indices: 56136942--56136971 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56136932 AAGATCTTAT
56136942 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
56136957 AATCATAACCTTACT
1 AATCATAACCTTACT
56136972 AAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:56137189 original size:42 final size:41
Alignment explanation
Indices: 56137142--56137295 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
56137132 TACCATACCA
* *
56137142 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAAG-AATCTCATATCG
* * * *
56137184 ATGCCAATAGCCTA-ACTATGGTCTTACACAAAATCTCATATTG
1 ATGCC-ATATCCCAGA-TATGGTCTTACA-AGAATCTCATATCG
* * *
56137227 GTGCCAAATCCCAAATATGGTCTTACAAGAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACAAGAA-TCTCATATC-G
*
56137269 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
56137296 CATAAACTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 54 0.59
43 35 0.38
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAATCTCATATCG
Found at i:56146667 original size:28 final size:28
Alignment explanation
Indices: 56146634--56146689 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
56146624 AAATAAAAAC
56146634 TCTTAAATAAAATAGTGGTAAAATACTA
1 TCTTAAATAAAATAGTGGTAAAATACTA
56146662 TCTTAAATAAAATAGTGGTAAAATACTA
1 TCTTAAATAAAATAGTGGTAAAATACTA
56146690 AGCAATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (28 bp):
TCTTAAATAAAATAGTGGTAAAATACTA
Found at i:56155416 original size:13 final size:13
Alignment explanation
Indices: 56155398--56155423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56155388 GCTCGACAGG
56155398 GACACGCCCGTGT
1 GACACGCCCGTGT
56155411 GACACGCCCGTGT
1 GACACGCCCGTGT
56155424 TCAATTTCTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:56160261 original size:13 final size:13
Alignment explanation
Indices: 56160243--56160268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56160233 GCTCGACAGG
56160243 GACACGCCCGTGT
1 GACACGCCCGTGT
56160256 GACACGCCCGTGT
1 GACACGCCCGTGT
56160269 TCGATTTCTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:56166480 original size:35 final size:35
Alignment explanation
Indices: 56166436--56166519 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
56166426 ACATGTGAGT
*
56166436 TTATATTGAATTTGTGTATTCGG-TCATATGCGAAG
1 TTATATTGAATTTGTATATTCGGCT-ATATGCGAAG
* * * *
56166471 TTATCTTGAATGTGTATATTCGGCTATATGTGATG
1 TTATATTGAATTTGTATATTCGGCTATATGCGAAG
*
56166506 TTCTATTGAATTTG
1 TTATATTGAATTTG
56166520 AATTATAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.46
Consensus pattern (35 bp):
TTATATTGAATTTGTATATTCGGCTATATGCGAAG
Found at i:56169157 original size:21 final size:20
Alignment explanation
Indices: 56169129--56169167 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
56169119 CAAAACTTGT
56169129 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
56169149 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
56169168 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:56170600 original size:111 final size:110
Alignment explanation
Indices: 56170461--56170685 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 110
56170451 GCATACTGAC
*
56170461 TTTAATTCAATTTCAACACCAGGGGAAACACGGCCGCGCAACATGACCATGTGTCACACACGGCT
1 TTTAATTCAATTTCAACACCAGGGGAAACAAGGCCGCGCAACATGACCATGTGTCACACACGGCT
56170526 AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
66 AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
*
56170571 TTTAATTTCAATTTCAACACCAGGGGAAACAAGGCCGCGTAACATGACCATGTGTCACACACGGC
1 TTTAA-TTCAATTTCAACACCAGGGGAAACAAGGCCGCGCAACATGACCATGTGTCACACACGGC
*
56170636 TAAGACACATGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
65 TAAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
56170682 TTTA
1 TTTA
56170686 CCAAGCCATT
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
110 5 0.05
111 106 0.95
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (110 bp):
TTTAATTCAATTTCAACACCAGGGGAAACAAGGCCGCGCAACATGACCATGTGTCACACACGGCT
AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
Found at i:56171589 original size:42 final size:42
Alignment explanation
Indices: 56171527--56171610 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
56171517 GCCATAGTCC
*
56171527 AACTATGGTTTTACACATTCGTCGCCAAGGCCCTACCATGGT
1 AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
56171569 AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
1 AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
56171611 CTTACATTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (42 bp):
AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
Found at i:56171937 original size:12 final size:13
Alignment explanation
Indices: 56171912--56171941 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
56171902 AAGTAATCAA
56171912 AATCAACTTATTT
1 AATCAACTTATTT
56171925 AATCAAC-TATTT
1 AATCAACTTATTT
56171937 AATCA
1 AATCA
56171942 CTTTAGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (13 bp):
AATCAACTTATTT
Found at i:56178949 original size:27 final size:27
Alignment explanation
Indices: 56178918--56179095 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
56178908 TAAATTGTAC
56178918 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
56178945 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
56178972 GGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56178999 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56179027 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56179054 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56179081 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56179096 GACTCAATAT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 112 0.83
28 23 0.17
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56179032 original size:82 final size:81
Alignment explanation
Indices: 56178919--56179074 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
56178909 AAATTGTACA
* * *
56178919 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGT
56178984 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
56179000 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTG
*
56179065 TGCGAGTTGA
65 TGCGAATTGA
56179075 TTATATAGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56179086 original size:82 final size:81
Alignment explanation
Indices: 56178915--56179095 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
56178905 GATTAAATTG
* * *
56178915 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTAA
56178980 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
56178996 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTA
* **
56179061 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
56179078 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56179096 GACTCAATAT
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACCACGCAGCACTAA
GTGTGCGAATTGACCA
Found at i:56184545 original size:21 final size:21
Alignment explanation
Indices: 56184506--56184545 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56184496 ACACGGTGTT
* *
56184506 GAGGAAACAATGTGGGAACTA
1 GAGGAAACAATGAGAGAACTA
*
56184527 GAGGATACAATGAGAGAAC
1 GAGGAAACAATGAGAGAAC
56184546 ACTATCCGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.33, T:0.12
Consensus pattern (21 bp):
GAGGAAACAATGAGAGAACTA
Found at i:56191843 original size:47 final size:45
Alignment explanation
Indices: 56191692--56191867 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
56191682 ACATCTCATA
* * * *
56191692 GCCGATGCATGTCCCAGACATGTCTTACACTGGATTACGTCCCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CT-CGTCTCAATG
56191738 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCAATG
* *
56191784 GCTGATGCCATGTCCCAGACATGGTCTTACATTAGCTC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTC-TCAA--TG
* *
56191832 GCCGATGCATGTCCCAGACATGTCATACAGTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
56191868 ACACAAATGA
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
45 4 0.04
46 61 0.54
47 31 0.27
48 17 0.15
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCAATG
Found at i:56195071 original size:13 final size:13
Alignment explanation
Indices: 56195053--56195077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56195043 ATTCAAATTT
56195053 ATTATTAGGATAC
1 ATTATTAGGATAC
56195066 ATTATTAGGATA
1 ATTATTAGGATA
56195078 GGATAATCTT
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:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTATTAGGATAC
Found at i:56195804 original size:13 final size:14
Alignment explanation
Indices: 56195786--56195814 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
56195776 AAGGGATATG
56195786 GTTAAAAT-TTTAA
1 GTTAAAATATTTAA
56195799 GTTAAAATATTTAA
1 GTTAAAATATTTAA
56195813 GT
1 GT
56195815 CGGGTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (14 bp):
GTTAAAATATTTAA
Found at i:56197205 original size:27 final size:27
Alignment explanation
Indices: 56197107--56197213 Score: 101
Period size: 28 Copynumber: 3.9 Consensus size: 27
56197097 CTGCCAGTAA
* * *
56197107 AGATA-TTGTGACAGAGTCACCAAATAC
1 AGATATTTGTGGCAGAGCCACCAGAT-C
* * *
56197134 AGATAATTGTGGCAGGGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAG-ATC
*
56197162 AGATATTTAT-GCTAGAGCCACCAGATC
1 AGATATTTGTGGC-AGAGCCACCAGATC
*
56197189 AGGTATTTGTGGCAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
56197214 ACACTTCCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 29 0.45
28 35 0.54
29 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
AGATATTTGTGGCAGAGCCACCAGATC
Found at i:56198319 original size:17 final size:17
Alignment explanation
Indices: 56198294--56198326 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56198284 TCAGATATGG
56198294 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
*
56198311 AGAAGAGAAAAGATGA
1 AGAAAAGAAAAGATGA
56198327 GAATGGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:56200389 original size:21 final size:21
Alignment explanation
Indices: 56200314--56200379 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
56200304 GTCTTGAATT
56200314 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
56200335 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
56200360 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
56200380 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:56201655 original size:28 final size:29
Alignment explanation
Indices: 56201619--56201678 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
56201609 TTTGATTTAG
* *
56201619 AAAACAATTTAAAGTATAAATTTAT-TAA
1 AAAACAATTTAAAATATAAATATATGTAA
*
56201647 AAAATAATTTAAAATATAAATATATGTAA
1 AAAACAATTTAAAATATAAATATATGTAA
56201676 AAA
1 AAA
56201679 TAGCTTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAACAATTTAAAATATAAATATATGTAA
Found at i:56201778 original size:19 final size:20
Alignment explanation
Indices: 56201754--56201797 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
56201744 TCCAAACACT
56201754 AGAAAAGTAAATC-GTTTCC
1 AGAAAAGTAAATCAGTTTCC
*
56201773 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCAGTTTCC
56201793 AGAAA
1 AGAAA
56201798 TCATTTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (20 bp):
AGAAAAGTAAATCAGTTTCC
Found at i:56201818 original size:14 final size:14
Alignment explanation
Indices: 56201781--56201811 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56201771 CCAGAAAAGT
56201781 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
56201795 AAATCATTTTCCGG
1 AAATCATTTTCCAG
56201809 AAA
1 AAA
56201812 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:56208143 original size:47 final size:44
Alignment explanation
Indices: 56208037--56208167 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 44
56208027 TACATCCTGA
56208037 GGCCGATGCATGTCCTAGACATGTCTTACACTAGAACTTCTCTCAAT
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAG--C-TCTCTCAAT
** *
56208084 -GCTAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AATGT
1 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTC-TCAA--T
*
56208131 GGCCGATGCATGTCCTAGACATGTCTTCCACTAGCTC
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTC
56208168 ACAGAAATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
45 6 0.08
46 21 0.30
47 27 0.38
48 17 0.24
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (44 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCTCAAT
Found at i:56215488 original size:25 final size:24
Alignment explanation
Indices: 56215434--56215495 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
56215424 AGATTCAGTT
* *
56215434 TTTTCTTCTTCTTTTTCTTCTTTTC
1 TTTTCTT-TTCTTTTTCTTCTCTAC
56215459 TTTTCTTTTCTTTTCTCTTCATCTAC
1 TTTTCTTTTCTTTT-TCTTC-TCTAC
56215485 -TTTCTTTTCTT
1 TTTTCTTTTCTT
56215496 CTTTTCCTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 7 0.21
25 23 0.70
26 3 0.09
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTCTTTTTCTTCTCTAC
Found at i:56215493 original size:5 final size:5
Alignment explanation
Indices: 56215434--56215474 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
56215424 AGATTCAGTT
*
56215434 TTTTC TTCTTC TTTT- TCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
56215475 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:56216606 original size:26 final size:27
Alignment explanation
Indices: 56216544--56216606 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
56216534 ATTACTAGAA
* *
56216544 TACCCCTAAGTATGGAAAATTACCATTT
1 TACCCCT-AGTATGCAAAATGACCATTT
**
56216572 TACGTCTAG-ATGCAAAATGACCATTT
1 TACCCCTAGTATGCAAAATGACCATTT
56216598 TACCCCTAG
1 TACCCCTAG
56216607 GGTTAATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 22 0.76
27 2 0.07
28 5 0.17
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (27 bp):
TACCCCTAGTATGCAAAATGACCATTT
Found at i:56220197 original size:42 final size:42
Alignment explanation
Indices: 56220091--56220204 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 42
56220081 CGTACCAATG
* * * * *
56220091 CCATATCTCAGATATGGTCATACATGTAATCTCATATCGATT
1 CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
* * ** *
56220133 CCAATAGCCCAGCTATTATCTTATACG-AAGTCCCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACACGTAA-TCCCATATCGATA
*
56220176 CCATATCCCAGATATGGTCTTACATGTAA
1 CCATATCCCAGATATGGTCTTACACGTAA
56220205 ATCTCAGTAA
Statistics
Matches: 53, Mismatches: 16, Indels: 5
0.72 0.22 0.07
Matches are distributed among these distances:
42 22 0.42
43 31 0.58
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
Found at i:56220538 original size:16 final size:17
Alignment explanation
Indices: 56220517--56220548 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56220507 AATTCAACCC
56220517 AAAAATTAC-ATTTTGG
1 AAAAATTACAATTTTGG
56220533 AAAAATTACAATTTTG
1 AAAAATTACAATTTTG
56220549 CCCTCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (17 bp):
AAAAATTACAATTTTGG
Found at i:56227933 original size:27 final size:27
Alignment explanation
Indices: 56227893--56227975 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
56227883 TGGAGGAAGC
* *
56227893 ATACTGATACTGGTGGCTTCGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
*
56227920 ATACTGTTATTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
56227947 ATACTGTTACTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
56227974 AT
1 AT
56227976 CTATTGATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
ATACTGTTACTGGTGGCTTTGCCACAT
Found at i:56232790 original size:29 final size:29
Alignment explanation
Indices: 56232755--56232828 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56232745 GTTGTGAGAT
* *
56232755 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56232784 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56232813 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56232829 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56241028 original size:29 final size:29
Alignment explanation
Indices: 56240993--56241066 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56240983 GTTGTGAGAT
* *
56240993 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56241022 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56241051 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56241067 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56253336 original size:50 final size:50
Alignment explanation
Indices: 56253224--56253589 Score: 303
Period size: 50 Copynumber: 7.6 Consensus size: 50
56253214 AGATGTCGAC
* * * * * * * *
56253224 GCCATGTCCCGGACATGGTCTTACACTGGCTCGC--ACATCAAAGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
56253272 GCCATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGCCGAT
* * *
56253322 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTGTC-AGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG-GCCGAT
* * * * * * *
56253372 ACCATGTCCCAGACATGTTCTTACTCT-G-ACACATCT-T--AAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
* * * * *
56253417 GCTATGTCCCAGACATGGTCTTACGCTAGCTTTCATATCTCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
* * * * **
56253467 GCCATCTCCCAGACATGGTCTTACACTAGCTCTC--GTCTCAATACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
* * * *
56253515 GTCATGTCCCAAACATGGTCTTACACTAGCTCTCATA-AT-GTGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
*
56253563 G-CATGTGCCAGACAT-GTCTTACACTAG
1 GCCATGTCCCAGACATGGTCTTACACTAG
56253590 TACACATATC
Statistics
Matches: 258, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
45 28 0.11
46 14 0.05
47 18 0.07
48 82 0.32
49 4 0.02
50 111 0.43
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
Found at i:56253574 original size:145 final size:144
Alignment explanation
Indices: 56253225--56253589 Score: 375
Period size: 145 Copynumber: 2.5 Consensus size: 144
56253215 GATGTCGACG
** * *
56253225 CCATGTCCCGGACATGGTCTTACACTGGCTCGCACATCA-AAGTCAATGCCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACT-G---ACACATCATAAGCCAATG-CATGTCCCAGACATG
*
56253289 GTCTTACACT-GACTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
61 GTCTTACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCT
* *
56253353 CTCATCTGTCAGTGCCAATA
126 CTCATC-GTCAATACCAATA
* * * * *
56253373 CCATGTCCCAGACATGTTCTTACTCTGACACATCTTAAGCCGATGCTATGTCCCAGACATGGTCT
1 CCATGTCCCAAACATGGTCTTACACTGACACATCATAAGCCAATGC-ATGTCCCAGACATGGTCT
* * * * *
56253438 TACGCTAG-CTTTCATATCTCGAGGCTGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCG
65 TACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCA
* *
56253502 TC-TCAATACCGATG
130 TCGTCAATACCAATA
* * *
56253516 TCATGTCCCAAACATGGTCTTACACT-AGCTC-TCATAATGTGGCCAATGCATGTGCCAGACAT-
1 CCATGTCCCAAACATGGTCTTACACTGA-CACATCATAA----GCCAATGCATGTCCCAGACATG
56253578 GTCTTACACTAG
61 GTCTTACACTAG
56253590 TACACATATC
Statistics
Matches: 183, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
142 6 0.03
143 32 0.17
144 18 0.10
145 95 0.52
146 8 0.04
147 1 0.01
148 23 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAAACATGGTCTTACACTGACACATCATAAGCCAATGCATGTCCCAGACATGGTCTT
ACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCAT
CGTCAATACCAATA
Found at i:56257033 original size:29 final size:28
Alignment explanation
Indices: 56256983--56257064 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
56256973 GAATATGGAT
* *
56256983 GTGAATTGGCCTAACGGGCCATATA-AA
1 GTGATTTGGCCTAATGGGCCATATACAA
* *
56257010 TGTTATTTGGACCTAATGGGCCATGTACAA
1 -GTGATTTGG-CCTAATGGGCCATATACAA
56257040 GTGATTTGGGCCTAATGGGCCATAT
1 GTGATTT-GGCCTAATGGGCCATAT
56257065 GAATATGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.16
29 34 0.76
30 4 0.09
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
GTGATTTGGCCTAATGGGCCATATACAA
Found at i:56257073 original size:29 final size:28
Alignment explanation
Indices: 56256990--56257085 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
56256980 GATGTGAATT
*
56256990 GGCCTAACGGGCCATATAA-ATGTTATTTG
1 GGCCTAATGGGCCATATAATATG--ATTTG
* *
56257019 GACCTAATGGGCCATGTACA-AGTGATTTG
1 GGCCTAATGGGCCATATA-ATA-TGATTTG
56257048 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATAT-AATATGATTTG
*
56257076 GGCTTAATGG
1 GGCCTAATGG
56257086 TCCAGATACA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
28 12 0.21
29 39 0.68
30 4 0.07
31 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAATATGATTTG
Found at i:56257401 original size:26 final size:26
Alignment explanation
Indices: 56257372--56257426 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
56257362 AAATCGTAAT
* *
56257372 TAAGG-GAAAATTTACCGAAATACCCC
1 TAAGGAGAAAA-TGACCAAAATACCCC
56257398 TAAGGATGAAAATGACCAAAATACCCC
1 TAAGGA-GAAAATGACCAAAATACCCC
56257425 TA
1 TA
56257427 GTTGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 15 0.60
28 5 0.20
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (26 bp):
TAAGGAGAAAATGACCAAAATACCCC
Found at i:56258183 original size:17 final size:18
Alignment explanation
Indices: 56258150--56258184 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56258140 TTTTAAGAAG
56258150 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
56258168 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
56258185 TTCAATGTAA
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:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:56261549 original size:29 final size:29
Alignment explanation
Indices: 56261494--56261609 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
56261484 GTGAGCATGA
* * *
56261494 ATATGAATGTGA-CTGGGCCTAACGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
56261522 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
56261551 ATATGTAGGTGATTTGGGCCCTAATGGGCC
1 ATATGAATGTGATTTGGG-CCTAATGGGCC
* * *
56261581 ATATGAATAT-AATTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
56261609 A
1 A
56261610 GATACAGGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 22 0.31
29 33 0.46
30 17 0.24
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:56262697 original size:17 final size:18
Alignment explanation
Indices: 56262665--56262698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56262655 TTTAAGAAGG
56262665 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
56262683 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
56262699 TTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:56285406 original size:42 final size:42
Alignment explanation
Indices: 56285241--56285405 Score: 197
Period size: 42 Copynumber: 3.9 Consensus size: 42
56285231 TACCATACCA
* *
56285241 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
* * * * *
56285283 ATGCCAATAGT-CCAGCTCTGGTCTTAAACGAAATCTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGTAATCTCATATTG
* * * *
56285326 GTGCCATATCCCAGATACGGTCTTACACGTAGTCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
*
56285368 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCAT
56285406 TAACCCTAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.67
43 32 0.31
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
Found at i:56286534 original size:36 final size:36
Alignment explanation
Indices: 56286494--56286565 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
56286484 ATTCCATAAA
56286494 ACTGTAGACCATAAAAATGTAAGAAAAACAAGTTTT
1 ACTGTAGACCATAAAAATGTAAGAAAAACAAGTTTT
56286530 ACTGTAGACCATAAAAATGTAAGAAAAACAAGTTTT
1 ACTGTAGACCATAAAAATGTAAGAAAAACAAGTTTT
56286566 CCTACGTCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (36 bp):
ACTGTAGACCATAAAAATGTAAGAAAAACAAGTTTT
Found at i:56292619 original size:22 final size:22
Alignment explanation
Indices: 56292592--56292633 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56292582 AGGACCAATT
56292592 TGTAAAA-TGGTTATAAAATGTG
1 TGTAAAAGT-GTTATAAAATGTG
*
56292614 TGTAAAAGTGTTATTAAATG
1 TGTAAAAGTGTTATAAAATG
56292634 AAACATGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (22 bp):
TGTAAAAGTGTTATAAAATGTG
Found at i:56302992 original size:27 final size:27
Alignment explanation
Indices: 56302962--56303016 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
56302952 AGGTGCAAGT
56302962 TGTTCTTCCCTTAGTGCAATGTCTATG
1 TGTTCTTCCCTTAGTGCAATGTCTATG
56302989 TGTTCTTCCCTTAGTGCAATGTCTATG
1 TGTTCTTCCCTTAGTGCAATGTCTATG
56303016 T
1 T
56303017 TCATACAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (27 bp):
TGTTCTTCCCTTAGTGCAATGTCTATG
Found at i:56305660 original size:49 final size:49
Alignment explanation
Indices: 56305581--56305757 Score: 239
Period size: 49 Copynumber: 3.6 Consensus size: 49
56305571 AGATACCAAC
*
56305581 GCCATGTCCCAGACATGGTCTTACACTGACTCTCA-ACTATCGTTGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATA-TATCGATGTCGAT
* *
56305631 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGTCGAT
* * ** *
56305680 GTCGTGTCCCAGACAGAACTTACACTGACTCTCATATATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGTCGAT
* *
56305729 GCCATGTCCCAGACAGGTATTGCACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
56305758 ACGCAACAAG
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
49 94 0.85
50 16 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGTCGAT
Found at i:56305780 original size:98 final size:99
Alignment explanation
Indices: 56305585--56305780 Score: 220
Period size: 98 Copynumber: 2.0 Consensus size: 99
56305575 ACCAACGCCA
** * *
56305585 TGTCCCAGACATGGTCTTACACTGACTCTCAACTATCGTTGTCGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACATGAACTTACACTGACTCTCAACTATCGGTGTCGATGCCATGTCCCAGACAGGTA
*** * * * * *
56305650 TTACACTGACTTTCATATATCGAGGTCGATGTCG
66 TTACACTGACACGCATAAAGCAACGTCCATGTCG
56305684 TGTCCCAGACA-GAACTTACACTGACTCTCATA-TATCGGTGTCGATGCCATGTCCCAGACAGGT
1 TGTCCCAGACATGAACTTACACTGACTCTCA-ACTATCGGTGTCGATGCCATGTCCCAGACAGGT
*
56305747 ATTGCACTGACACGCA-ACAAGCTAACG-CCATGTC
65 ATTACACTGACACGCATA-AAGC-AACGTCCATGTC
56305781 CCAAACAGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 66 0.81
99 14 0.17
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (99 bp):
TGTCCCAGACATGAACTTACACTGACTCTCAACTATCGGTGTCGATGCCATGTCCCAGACAGGTA
TTACACTGACACGCATAAAGCAACGTCCATGTCG
Found at i:56312993 original size:49 final size:49
Alignment explanation
Indices: 56312893--56313078 Score: 203
Period size: 49 Copynumber: 3.8 Consensus size: 49
56312883 CATGTGATAA
* * * *
56312893 GATGCCGATGCAATGTCCCAAACATGGTCTTACATTGACTCTCATCTATC
1 GATGCCGATGCCATGTCCCAGACA-GGTCTTACACTAACTCTCATCTATC
* * * * *
56312943 GATGTCGATGCCATATCCCAGACAGGTTTTACACTAACTTTCATATATC
1 GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
* * *
56312992 GA-GACCGATGTCGTGTCCCAGACAGGTCTTACACTGACTCTCATCTATC
1 GATG-CCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
* ** *
56313041 GGTGTAGATGCCATGTCCTAGACAGGTCTTACACTAAC
1 GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAAC
56313079 ACGCAATAAG
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 88 0.80
50 21 0.19
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (49 bp):
GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
Found at i:56313101 original size:98 final size:99
Alignment explanation
Indices: 56312906--56313083 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 99
56312896 GCCGATGCAA
* * *
56312906 TGTCCCAAACATGGTCTTACATTGACTCTCATCTATCGATGTCGATGCCATATCCCAGACAGGTT
1 TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
*** * *
56312971 TTACACTAACTTTCATATATCGAGACCGATGTCG
66 TTACACTAACACGCATATAGCGAGACCAATGTCG
* * * *
56313005 TGTCCCAGACA-GGTCTTACACTGACTCTCATCTATCGGTGTAGATGCCATGTCCTAGACAGGTC
1 TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
56313069 TTACACTAACACGCA
66 TTACACTAACACGCA
56313084 ATAAGCTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
98 59 0.86
99 10 0.14
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (99 bp):
TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
TTACACTAACACGCATATAGCGAGACCAATGTCG
Found at i:56313159 original size:11 final size:11
Alignment explanation
Indices: 56313143--56313171 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
56313133 CGAGGCCGAT
56313143 ACATGTCCCAG
1 ACATGTCCCAG
56313154 ACATGTCCCAG
1 ACATGTCCCAG
56313165 ACATGTC
1 ACATGTC
56313172 TTACACTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (11 bp):
ACATGTCCCAG
Found at i:56314396 original size:43 final size:43
Alignment explanation
Indices: 56314348--56314479 Score: 264
Period size: 43 Copynumber: 3.1 Consensus size: 43
56314338 TGTGGTCCCA
56314348 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
1 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
56314391 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
1 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
56314434 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
1 AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
56314477 AAA
1 AAA
56314480 TTATATAAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (43 bp):
AAACTACTGTTTTGACTAAGCCCAAAATCAGACCGTTACACAC
Found at i:56315469 original size:35 final size:35
Alignment explanation
Indices: 56315430--56315497 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
56315420 ATCTCATGTA
*
56315430 TAATTTGGGAACCATAACCCTAATATTTATAACCT
1 TAATTTGGAAACCATAACCCTAATATTTATAACCT
56315465 TAATTTGGAAACCATAACCCTAATATTTATAAC
1 TAATTTGGAAACCATAACCCTAATATTTATAAC
56315498 ATTAGCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (35 bp):
TAATTTGGAAACCATAACCCTAATATTTATAACCT
Found at i:56315557 original size:17 final size:17
Alignment explanation
Indices: 56315535--56315568 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56315525 TAATTAACCC
*
56315535 ATCATTAATTAGAATTT
1 ATCATTAATTACAATTT
56315552 ATCATTAATTACAATTT
1 ATCATTAATTACAATTT
56315569 GATTATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (17 bp):
ATCATTAATTACAATTT
Found at i:56316923 original size:15 final size:15
Alignment explanation
Indices: 56316903--56316947 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
56316893 TAATTTATTC
*
56316903 TAATATTAAAATTAT
1 TAATATTAAATTTAT
* *
56316918 TAATATTCAATTTTT
1 TAATATTAAATTTAT
*
56316933 TAATTTTAAATTTAT
1 TAATATTAAATTTAT
56316948 CTTTACTCTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATTAAATTTAT
Found at i:56316942 original size:30 final size:30
Alignment explanation
Indices: 56316887--56316947 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
56316877 TCATATATTG
56316887 TTAAATTAATTTATTCTAATATTAAAATTA
1 TTAAATTAATTTATTCTAATATTAAAATTA
* *
56316917 TTAATATTCAATTT-TT-TAATTTTAAATTTA
1 TTAA-ATT-AATTTATTCTAATATTAAAATTA
56316947 T
1 T
56316948 CTTTACTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 17 0.63
31 5 0.19
32 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAAATTAATTTATTCTAATATTAAAATTA
Found at i:56317202 original size:24 final size:24
Alignment explanation
Indices: 56317169--56317215 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
56317159 AAAACAGGTT
56317169 TCTTCCCCCAGTAAAACTCTGCTA
1 TCTTCCCCCAGTAAAACTCTGCTA
* * *
56317193 TCTTCTCCCAGTTAAACTTTGCT
1 TCTTCCCCCAGTAAAACTCTGCT
56317216 CTTTTTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (24 bp):
TCTTCCCCCAGTAAAACTCTGCTA
Found at i:56318252 original size:24 final size:24
Alignment explanation
Indices: 56318225--56318282 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
56318215 CTTCTCTAAT
56318225 TTAAACTCTGCTATCTTCTCCCAG
1 TTAAACTCTGCTATCTTCTCCCAG
* ** * *
56318249 TTAAACTATATTATCTTTTTCCAG
1 TTAAACTCTGCTATCTTCTCCCAG
56318273 TTAAACTCTG
1 TTAAACTCTG
56318283 ATTACTTCAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (24 bp):
TTAAACTCTGCTATCTTCTCCCAG
Found at i:56319906 original size:11 final size:11
Alignment explanation
Indices: 56319892--56319916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56319882 CTCTCCTAGG
56319892 ACACACATTAA
1 ACACACATTAA
56319903 ACACACATTAA
1 ACACACATTAA
56319914 ACA
1 ACA
56319917 TATATATTAG
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:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (11 bp):
ACACACATTAA
Found at i:56320831 original size:52 final size:52
Alignment explanation
Indices: 56320769--56320867 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
56320759 AGCTTGTAAA
* *
56320769 AATCAGATATCAAGTTCCCACTGAGTTAGTTCAGCCTATTTCTATTCTAGAG
1 AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTCTAGAG
* *
56320821 AATCAGATATCAAGTTCCCACCGAGTTGGTTCAACCTATTTTTATTC
1 AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTC
56320868 CAGAATGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTCTAGAG
Found at i:56329503 original size:16 final size:16
Alignment explanation
Indices: 56329466--56329512 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
56329456 ATATTATTAT
56329466 TAAATTAA-TTTT-AA
1 TAAATTAATTTTTCAA
*
56329480 TTAATTAATTTTTCAA
1 TAAATTAATTTTTCAA
56329496 TAAATTAATTTTCTCAA
1 TAAATTAATTTT-TCAA
56329513 CCCAATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 13 0.46
17 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTAATTTTTCAA
Found at i:56330196 original size:36 final size:36
Alignment explanation
Indices: 56330149--56330217 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
56330139 GAATGATACT
56330149 ACATATTGCAGAAATTATATATACCTAACACACCAA
1 ACATATTGCAGAAATTATATATACCTAACACACCAA
*
56330185 ACATATTGCAGAAGTTATATATACCTAACACAC
1 ACATATTGCAGAAATTATATATACCTAACACAC
56330218 TAACTTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (36 bp):
ACATATTGCAGAAATTATATATACCTAACACACCAA
Found at i:56335124 original size:13 final size:13
Alignment explanation
Indices: 56335106--56335130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56335096 CCTGGCACTC
56335106 GCCCATGTCCTTG
1 GCCCATGTCCTTG
56335119 GCCCATGTCCTT
1 GCCCATGTCCTT
56335131 CACATGCCAT
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:0.08, C:0.40, G:0.20, T:0.32
Consensus pattern (13 bp):
GCCCATGTCCTTG
Found at i:56338125 original size:9 final size:9
Alignment explanation
Indices: 56338111--56338138 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
56338101 ATGTGGCGAC
56338111 TAGTCGATT
1 TAGTCGATT
56338120 TAGTCGATT
1 TAGTCGATT
56338129 TAGTCGATT
1 TAGTCGATT
56338138 T
1 T
56338139 GCTTAGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (9 bp):
TAGTCGATT
Found at i:56340872 original size:36 final size:37
Alignment explanation
Indices: 56340800--56340874 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
56340790 TTACAAGCCA
* *
56340800 AAATCATTATAAGTCATATCTCATGGCTACATACAAC
1 AAATCATTATAAGCCATATCACATGGCTACATACAAC
56340837 AAATCATTATAAGCCA-AT-ACATTGGCTA-ATCACAAC
1 AAATCATTATAAGCCATATCACA-TGGCTACAT-ACAAC
56340873 AA
1 AA
56340875 CATCGATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 4 0.12
36 15 0.44
37 15 0.44
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (37 bp):
AAATCATTATAAGCCATATCACATGGCTACATACAAC
Found at i:56352205 original size:30 final size:30
Alignment explanation
Indices: 56352171--56352230 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56352161 ATTTAATACG
56352171 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
* * *
56352201 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
56352231 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:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56358967 original size:30 final size:30
Alignment explanation
Indices: 56358933--56358992 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56358923 ATTTAATACG
56358933 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
56358963 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
56358993 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56360735 original size:21 final size:21
Alignment explanation
Indices: 56360680--56360735 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
56360670 AATAGGGGTC
* *
56360680 ACACGCCCATGTGGCTTTGGG
1 ACACGCCCGTGTGGCTTTAGG
*
56360701 ACACGCCCGCGTGGCTTTAGG
1 ACACGCCCGTGTGGCTTTAGG
*
56360722 ACACGCCTGTGTGG
1 ACACGCCCGTGTGG
56360736 TTAAGCTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.30, G:0.34, T:0.21
Consensus pattern (21 bp):
ACACGCCCGTGTGGCTTTAGG
Found at i:56364099 original size:19 final size:17
Alignment explanation
Indices: 56364071--56364105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
56364061 ATATGGAGAA
56364071 AATGATAAAAATTATTTT
1 AATGAT-AAAATTATTTT
56364089 AATGAATAAAATTATTT
1 AATG-ATAAAATTATTT
56364106 AAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AATGATAAAATTATTTT
Found at i:56364196 original size:7 final size:7
Alignment explanation
Indices: 56364179--56364219 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
56364169 AATTAAGTTA
56364179 TTAATATT
1 TTAA-ATT
56364187 TTAAATT
1 TTAAATT
56364194 TTAAATT
1 TTAAATT
56364201 TTAAATT
1 TTAAATT
56364208 TTAAATT
1 TTAAATT
56364215 TTAAA
1 TTAAA
56364220 ATTATTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 29 0.88
8 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:56364625 original size:30 final size:29
Alignment explanation
Indices: 56364589--56364649 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
56364579 AATTCTTTAA
**
56364589 AAAATTAAATTAAATTAAAATCTTATATAT
1 AAAATTAAACAAAATTAAAAT-TTATATAT
* *
56364619 AAAATTACACAAAATTAAAATTTTTATAT
1 AAAATTAAACAAAATTAAAATTTATATAT
56364648 AA
1 AA
56364650 CATCCCACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATTAAACAAAATTAAAATTTATATAT
Found at i:56364658 original size:29 final size:30
Alignment explanation
Indices: 56364600--56364658 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
56364590 AAATTAAATT
*
56364600 AAATTAAAATCTTATATATAAAATTACACA
1 AAATTAAAATCTTATATATAAAATCACACA
* * *
56364630 AAATTAAAAT-TTTTATATAACATCCCACA
1 AAATTAAAATCTTATATATAAAATCACACA
56364659 TTACATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATTAAAATCTTATATATAAAATCACACA
Found at i:56364875 original size:40 final size:40
Alignment explanation
Indices: 56364830--56364912 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
56364820 GACGTTATTG
*
56364830 CTTGAAAGTATGAAAGACACGTTTAGTATTGTTTCCTTTT
1 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
56364870 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
1 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
56364910 CTT
1 CTT
56364913 CTGTTAGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (40 bp):
CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
Found at i:56367825 original size:21 final size:21
Alignment explanation
Indices: 56367774--56367851 Score: 129
Period size: 22 Copynumber: 3.6 Consensus size: 21
56367764 AAAAATGAAT
56367774 AAATGAATAAATTGTCTATACA
1 AAATGAATAAATTGTCTATA-A
56367796 AAATGAATAAATTGTCTATAA
1 AAATGAATAAATTGTCTATAA
*
56367817 AAATTAATAAATTGTCTATAAA
1 AAATGAATAAATTGTCTAT-AA
56367839 AAATGAATAAATT
1 AAATGAATAAATT
56367852 TGTTAACGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.36
22 34 0.64
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (21 bp):
AAATGAATAAATTGTCTATAA
Found at i:56370142 original size:20 final size:21
Alignment explanation
Indices: 56370104--56370143 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56370094 TTGGAAGGTA
56370104 GATATCACGATACCCAAAGTG
1 GATATCACGATACCCAAAGTG
*
56370125 GATATCGCGATA-CCAAAGT
1 GATATCACGATACCCAAAGT
56370144 AAGTGGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
GATATCACGATACCCAAAGTG
Found at i:56373812 original size:54 final size:54
Alignment explanation
Indices: 56373730--56373839 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
56373720 TGACAAAGTT
56373730 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACAATAGAAAAAAGCTAGA
1 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACAATAGAAAAAAGCTAGA
*
56373784 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
1 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACAATAGAAAAAAGCTAGA
56373838 GG
1 GG
56373840 TTATTTCGGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.36, T:0.17
Consensus pattern (54 bp):
GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACAATAGAAAAAAGCTAGA
Found at i:56374486 original size:15 final size:16
Alignment explanation
Indices: 56374466--56374496 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56374456 TCCATTTGCT
56374466 ACCTT-AAAACTCTAA
1 ACCTTAAAAACTCTAA
56374481 ACCTTAAAAACTCTAA
1 ACCTTAAAAACTCTAA
56374497 TAAACCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
ACCTTAAAAACTCTAA
Found at i:56381388 original size:24 final size:25
Alignment explanation
Indices: 56381342--56381394 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
56381332 TGCTTTAATA
* *
56381342 TTTTTAAAATTAATTATTCAATTAT
1 TTTTTAAAATAAAATATTCAATTAT
*
56381367 TTTTTAAAGTAAAATATT-AATTAT
1 TTTTTAAAATAAAATATTCAATTAT
56381391 TTTT
1 TTTT
56381395 ATTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTTAAAATAAAATATTCAATTAT
Found at i:56386130 original size:52 final size:52
Alignment explanation
Indices: 56386064--56386171 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
56386054 TTCAACTTTT
* *
56386064 AAAAAAATAGCAAATCAGTCTTCCTAATAATTTTTTATTAGAAACATTACTG
1 AAAAAAATAACAAATCAATCTTCCTAATAATTTTTTATTAGAAACATTACTG
56386116 AAAAAAATAACAAATCAATCTTCCTAATAATTTTTTATTAGAAACATTACTG
1 AAAAAAATAACAAATCAATCTTCCTAATAATTTTTTATTAGAAACATTACTG
56386168 AAAA
1 AAAA
56386172 GTAACATGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (52 bp):
AAAAAAATAACAAATCAATCTTCCTAATAATTTTTTATTAGAAACATTACTG
Found at i:56386592 original size:44 final size:45
Alignment explanation
Indices: 56386504--56386608 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
56386494 TGTAATATTG
* *
56386504 TTGTTGTTGTCT-AAATGAAAAATCTAACTTATGTGATAGCTGGTA
1 TTGTTGTTGT-TGAAATGAAAAATCCAACTTATATGATAGCTGGTA
*
56386549 TTGTTGTTGTTGAAATGGAAAA-CCAACTTATATGACT-GCTGGTA
1 TTGTTGTTGTTGAAATGAAAAATCCAACTTATATGA-TAGCTGGTA
**
56386593 TTGAGGTTGTTGAAAT
1 TTGTTGTTGTTGAAAT
56386609 TGATCAATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 33 0.62
45 20 0.38
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (45 bp):
TTGTTGTTGTTGAAATGAAAAATCCAACTTATATGATAGCTGGTA
Found at i:56386695 original size:20 final size:20
Alignment explanation
Indices: 56386672--56386717 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
56386662 TTATTTAATA
56386672 GATTCATTATTGTTTGAA-TC
1 GATTCATTATTGTTT-AACTC
*
56386692 GATTCATTGTTGTTTAACTC
1 GATTCATTATTGTTTAACTC
56386712 GATTCA
1 GATTCA
56386718 GACTCCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (20 bp):
GATTCATTATTGTTTAACTC
Found at i:56387090 original size:16 final size:17
Alignment explanation
Indices: 56387074--56387106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56387064 ACTAAGGATG
56387074 CAATTTTCTATGAATGC
1 CAATTTTCTATGAATGC
*
56387091 CCATTTTCTATGAATG
1 CAATTTTCTATGAATG
56387107 TCCTTCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
CAATTTTCTATGAATGC
Found at i:56412426 original size:36 final size:36
Alignment explanation
Indices: 56412377--56412445 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
56412367 TAGGCCGTGT
*
56412377 GTGACACATGGTTCC-TTCCTATGGGCGTGGGCTTGC
1 GTGACACACGGTTCCTTTCC-ATGGGCGTGGGCTTGC
56412413 GTGACACACGGTTCCTTTCCATGGGCGTGGGCT
1 GTGACACACGGTTCCTTTCCATGGGCGTGGGCT
56412446 ATGGCCGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (36 bp):
GTGACACACGGTTCCTTTCCATGGGCGTGGGCTTGC
Found at i:56416459 original size:140 final size:140
Alignment explanation
Indices: 56416207--56416489 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
56416197 CAAAATCAAA
56416207 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
1 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
56416272 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
66 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
*
56416337 TATGTGTAAT
131 GATGTGTAAT
*
56416347 GTAGTGTCTTCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
1 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
*
56416412 TTGCTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
66 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
56416477 GATGTGTAAT
131 GATGTGTAAT
56416487 GTA
1 GTA
56416490 CTTCCCATCA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (140 bp):
GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
GATGTGTAAT
Found at i:56422477 original size:87 final size:88
Alignment explanation
Indices: 56422356--56422571 Score: 272
Period size: 87 Copynumber: 2.5 Consensus size: 88
56422346 ATCGACCAAT
* **
56422356 GAAAAGGGATAGCTTCGACTATCGGTTATGAAAAGGGATGGAGACAACCATCAACTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGAGACAACCATCAACTATGAAAAGG
* *
56422421 TATGGTGACGACCATCAATT-CG
66 GATGGTGACGACCATCAATTAAG
* * * * * * * *
56422443 GAAAAGGGATAGTTTTGACTATCGACTATCAAAAGGGATAGTGACGACTATCGACTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGAGACAACCATCAACTATGAAAAGG
* *
56422508 GATGGTGACGACCATCGATTAAT
66 GATGGTGACGACCATCAATTAAG
* *
56422531 GAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGG
56422572 TTTTGACCAT
Statistics
Matches: 108, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
87 73 0.68
88 35 0.32
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.22
Consensus pattern (88 bp):
GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGAGACAACCATCAACTATGAAAAGG
GATGGTGACGACCATCAATTAAG
Found at i:56422579 original size:29 final size:29
Alignment explanation
Indices: 56422345--56422583 Score: 181
Period size: 29 Copynumber: 8.2 Consensus size: 29
56422335 TATCGACGAT
* * *
56422345 CATCGACCAATGAAAAGGGATAGCTTCGAC
1 CATCGA-CTATGAAAAGGGATGGTTTCGAC
* ** *** *
56422375 TATCGGTTATGAAAAGGGATGGAGACAAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
* * **
56422404 CATCAACTATGAAAAGGTATGGTGACGAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
* * ** * *
56422433 CATCAATTCGGAAAAGGGATAGTTTTGAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
* * * **
56422462 TATCGACTATCAAAAGGGATAGTGACGAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
* **
56422491 TATCGACTATGAAAAGGGATGGTGACGAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
*
56422520 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGACT-ATGAAAAGGGATGGTTTCGAC
* *
56422550 CATCGAATATGAAAAGGGATGGTTTTGAC
1 CATCGACTATGAAAAGGGATGGTTTCGAC
56422579 CATCG
1 CATCG
56422584 TTTAGCACAC
Statistics
Matches: 167, Mismatches: 41, Indels: 3
0.79 0.19 0.01
Matches are distributed among these distances:
29 137 0.82
30 30 0.18
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (29 bp):
CATCGACTATGAAAAGGGATGGTTTCGAC
Found at i:56423318 original size:38 final size:39
Alignment explanation
Indices: 56423250--56423324 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
56423240 AAATGGAAAG
56423250 TAAGTAAATAAAAAGATATATATAATCTTATAAAAAGTAT
1 TAAGTAAATAAAAAGA-ATATATAATCTTATAAAAAGTAT
56423290 TAAGTAAATAAAAAG-ATATATAATCTTATAAAAAG
1 TAAGTAAATAAAAAGAATATATAATCTTATAAAAAG
56423325 GTTGATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 20 0.57
40 15 0.43
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (39 bp):
TAAGTAAATAAAAAGAATATATAATCTTATAAAAAGTAT
Found at i:56425811 original size:13 final size:13
Alignment explanation
Indices: 56425793--56425817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56425783 CTCAGCAGGG
56425793 ACACGGCCGTGTC
1 ACACGGCCGTGTC
56425806 ACACGGCCGTGT
1 ACACGGCCGTGT
56425818 GACGTGATTG
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:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (13 bp):
ACACGGCCGTGTC
Done.