Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 76 of 221
Found at i:22175641 original size:53 final size:54
Alignment explanation
Indices: 22175584--22175695 Score: 165
Period size: 53 Copynumber: 2.1 Consensus size: 54
22175574 ATAACAATCT
* *
22175584 TTTTACCCTATAAGGGTATTTCGGTC-ATTCTACCCTAT-GGGGTATTTCGGTCA
1 TTTTACCCTATAAGGGTATTTCGGTCAATT-TACACTATGGGGGTATTTCGATCA
* *
22175637 TTTTACCTTATGAGGGTATTTCGGTCAATTTACACTATGGGGGTATTTCGATCA
1 TTTTACCCTATAAGGGTATTTCGGTCAATTTACACTATGGGGGTATTTCGATCA
22175691 TTTTA
1 TTTTA
22175696 TCGTGTGGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 31 0.58
54 22 0.42
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (54 bp):
TTTTACCCTATAAGGGTATTTCGGTCAATTTACACTATGGGGGTATTTCGATCA
Found at i:22175705 original size:26 final size:27
Alignment explanation
Indices: 22175584--22175719 Score: 150
Period size: 27 Copynumber: 5.1 Consensus size: 27
22175574 ATAACAATCT
**
22175584 TTTTACCCTATAAGGGTATTTCGGTCA
1 TTTTACCCTATGGGGGTATTTCGGTCA
*
22175611 TTCTACCCTAT-GGGGTATTTCGGTCA
1 TTTTACCCTATGGGGGTATTTCGGTCA
* *
22175637 TTTTACCTTATGAGGGTATTTCGGTCA
1 TTTTACCCTATGGGGGTATTTCGGTCA
* * *
22175664 ATTTACACTATGGGGGTATTTCGATCA
1 TTTTACCCTATGGGGGTATTTCGGTCA
* * * *
22175691 TTTTATCGTGTGGGGGTA-TTCGATCA
1 TTTTACCCTATGGGGGTATTTCGGTCA
22175717 TTT
1 TTT
22175720 ATTGACCTCT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
26 34 0.37
27 59 0.63
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (27 bp):
TTTTACCCTATGGGGGTATTTCGGTCA
Found at i:22175708 original size:54 final size:53
Alignment explanation
Indices: 22175584--22175718 Score: 157
Period size: 53 Copynumber: 2.5 Consensus size: 53
22175574 ATAACAATCT
* * * *
22175584 TTTTACCCTATAAGGGTATTTCGGTCATTCTACCCTATGGGGTATTTCGGTCA
1 TTTTACCGTATGAGGGTATTTCGGTCATTCTACACTATGGGGTATTTCGATCA
*
22175637 TTTTACCTTATGAGGGTATTTCGGTCAATT-TACACTATGGGGGTATTTCGATCA
1 TTTTACCGTATGAGGGTATTTCGGTC-ATTCTACACTAT-GGGGTATTTCGATCA
* * * *
22175691 TTTTATCGTGTGGGGGTA-TTCGATCATT
1 TTTTACCGTATGAGGGTATTTCGGTCATT
22175719 TATTGACCTC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
52 3 0.04
53 37 0.52
54 31 0.44
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (53 bp):
TTTTACCGTATGAGGGTATTTCGGTCATTCTACACTATGGGGTATTTCGATCA
Found at i:22181435 original size:44 final size:44
Alignment explanation
Indices: 22181367--22181457 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
22181357 TTTTAAACTC
*
22181367 TATCCTTGAATTGTTCTTTTTGTTCATTCTTTTCATTAAGTTTA
1 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
22181411 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
1 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
22181455 TAT
1 TAT
22181458 TGTTTAGATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.58
Consensus pattern (44 bp):
TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
Found at i:22184058 original size:40 final size:40
Alignment explanation
Indices: 22183974--22184198 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
22183964 TTGAATGATG
* * * *
22183974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22184014 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22184054 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22184093 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22184133 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22184174 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22184199 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22184221 original size:119 final size:119
Alignment explanation
Indices: 22183974--22184201 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 119
22183964 TTGAATGATG
* *
22183974 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
22184039 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
66 GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAA
* * * **
22184093 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
22184156 TTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAAC
64 TTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAAC
22184202 GAGTAGCTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 67 0.73
120 22 0.24
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAA
Found at i:22186049 original size:40 final size:40
Alignment explanation
Indices: 22186004--22186312 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
22185994 GCAAACACAT
* *
22186004 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* * *
22186044 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
22186084 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22186124 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22186164 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22186204 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22186244 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
22186284 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCATAGCCCGGATATATC
22186313 CCAATGCTCA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:22194726 original size:40 final size:40
Alignment explanation
Indices: 22194681--22194989 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
22194671 GCAAACACAT
* *
22194681 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* * *
22194721 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
22194761 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22194801 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22194841 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22194881 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
22194921 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
22194961 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCATAGCCCGGATATATC
22194990 CCAATGCTCA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:22204862 original size:16 final size:17
Alignment explanation
Indices: 22204839--22204876 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
22204829 AATAAACAAT
22204839 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
22204854 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
22204871 TAAATT
1 TAAATT
22204877 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:22210697 original size:21 final size:20
Alignment explanation
Indices: 22210667--22210732 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
22210657 CTTAGACCAA
22210667 GTGGGGGTCAACACGCCCGT
1 GTGGGGGTCAACACGCCCGT
***
22210687 GTGGGAGGTCAAC-CGCTAATT
1 GTGGG-GGTCAACACGC-CCGT
* *
22210708 TTCGGGGTCAACACGCCCGT
1 GTGGGGGTCAACACGCCCGT
22210728 GTGGG
1 GTGGG
22210733 AGTAGGCACA
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.20
Consensus pattern (20 bp):
GTGGGGGTCAACACGCCCGT
Found at i:22215030 original size:29 final size:28
Alignment explanation
Indices: 22214998--22215170 Score: 220
Period size: 29 Copynumber: 6.0 Consensus size: 28
22214988 GGCTATCGAT
*
22214998 TATGAAAAGGGATGGTGAGGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
22215026 CTATGAAAAGGGATGGTGACGACCATCAAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
22215056 TATGAAAAGGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTGACGACCATC-AA
* * *
22215085 TATGAAAAGGGATGGTGACAACTATCGAT
1 TATGAAAAGGGATGGTGACGACCATC-AA
**
22215114 TAATGAAAAGGGATGGTTTCGACCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATC-AA
* *
22215144 TATGAAAAGGGACGGTTACGACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
22215171 TTTAGCACAC
Statistics
Matches: 130, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
28 1 0.01
29 103 0.79
30 26 0.20
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:22215139 original size:59 final size:58
Alignment explanation
Indices: 22214990--22215155 Score: 244
Period size: 58 Copynumber: 2.8 Consensus size: 58
22214980 ATAGCTTCGG
* *
22214990 CTATCGATTATGAAAAGGGATGGTGAGGACCATC-AACTATGAAAAGGGATGGTGACGA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACAA
* * *
22215048 CCATCAAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACAA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACAA
**
22215106 CTATCGATTAATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGA
1 CTATCGATT-ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGA
22215156 CGGTTACGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 56 0.58
59 40 0.42
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (58 bp):
CTATCGATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACAA
Found at i:22215153 original size:88 final size:87
Alignment explanation
Indices: 22214992--22215169 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 87
22214982 AGCTTCGGCT
* **
22214992 ATCGATTATGAAAAGGGATGGTGAGGACCATCAACTATGAAAAGGGATGGTGACGACCATCAAAT
1 ATCGAATATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCAAAT
*
22215057 ATGAAAAGGGATGGTGACGACC
66 ATGAAAAGGGACGGTGACGACC
* * * ** *
22215079 ATCGAATATGAAAAGGGATGGTGACAACTATCGATTAATGAAAAGGGATGGTTTCGACCATCGAA
1 ATCGAATATGAAAAGGGATGGTGACAACCATCAACT-ATGAAAAGGGATGGTGACGACCATCAAA
*
22215144 TATGAAAAGGGACGGTTACGACC
65 TATGAAAAGGGACGGTGACGACC
22215167 ATC
1 ATC
22215170 ATTTAGCACA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 30 0.38
88 49 0.62
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCAAAT
ATGAAAAGGGACGGTGACGACC
Found at i:22225508 original size:16 final size:16
Alignment explanation
Indices: 22225489--22225528 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
22225479 AAACATATTT
*
22225489 AAACTAATTTAACTAA
1 AAACTAAATTAACTAA
*
22225505 AAACCAAATTAACTAA
1 AAACTAAATTAACTAA
22225521 ATAACTAA
1 A-AACTAA
22225529 CTAGACCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACTAAATTAACTAA
Found at i:22229074 original size:51 final size:51
Alignment explanation
Indices: 22229019--22229155 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
22229009 TATGGTAACT
*
22229019 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * ** * * **
22229070 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
22229121 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
22229156 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:22231875 original size:51 final size:51
Alignment explanation
Indices: 22231820--22231956 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
22231810 TATGGTAACT
*
22231820 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * ** * * **
22231871 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
22231922 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
22231957 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:22237607 original size:26 final size:24
Alignment explanation
Indices: 22237578--22237628 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
22237568 TGTCCAAACC
*
22237578 AAAACATAATTAAACTAAATTAACTA
1 AAAACAGAATT-AACTAAA-TAACTA
*
22237604 AAAACCGAATTAACTAAATAACTA
1 AAAACAGAATTAACTAAATAACTA
22237628 A
1 A
22237629 CTAGACCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 7 0.30
26 9 0.39
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAACAGAATTAACTAAATAACTA
Found at i:22237608 original size:16 final size:16
Alignment explanation
Indices: 22237589--22237628 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
22237579 AAACATAATT
22237589 AAACTAAATTAACTAA
1 AAACTAAATTAACTAA
**
22237605 AAACCGAATTAACTAA
1 AAACTAAATTAACTAA
22237621 ATAACTAA
1 A-AACTAA
22237629 CTAGACCGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (16 bp):
AAACTAAATTAACTAA
Found at i:22241015 original size:20 final size:20
Alignment explanation
Indices: 22240969--22241015 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
22240959 AGCTCGTTTC
*
22240969 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
22240989 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
22241009 CAGCTCA
1 CAGCTCA
22241016 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:22242926 original size:29 final size:29
Alignment explanation
Indices: 22242884--22242954 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
22242874 TCAACGACCA
22242884 ATGAAAAGGGATAACTTCGGCTATCAAAT
1 ATGAAAAGGGATAACTTCGGCTATCAAAT
* * *
22242913 ATGAAAAGGGATAACTTCGTCTATCGATT
1 ATGAAAAGGGATAACTTCGGCTATCAAAT
*
22242942 ATGAAAAGAGATA
1 ATGAAAAGGGATA
22242955 GCATCTGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAACTTCGGCTATCAAAT
Found at i:22242965 original size:29 final size:28
Alignment explanation
Indices: 22242884--22242975 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
22242874 TCAACGACCA
* *
22242884 ATGAAAAGGGATAACTTCGGCTATCAAAT
1 ATGAAAAGGGATAACTTC-GCTATCGATT
22242913 ATGAAAAGGGATAACTTCGTCTATCGATT
1 ATGAAAAGGGATAACTTCG-CTATCGATT
* * * *
22242942 ATGAAAAGAGATAGCATCTGCTATTGATT
1 ATGAAAAGGGATAACTTC-GCTATCGATT
22242971 ATGAA
1 ATGAA
22242976 TGGTCAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.02
29 53 0.96
30 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (28 bp):
ATGAAAAGGGATAACTTCGCTATCGATT
Found at i:22245227 original size:14 final size:14
Alignment explanation
Indices: 22245208--22245239 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22245198 ATTATGCCAG
22245208 AATTAAAAACACAT
1 AATTAAAAACACAT
22245222 AATT-AAAACACAT
1 AATTAAAAACACAT
22245235 -ATTAA
1 AATTAA
22245240 TGATATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (14 bp):
AATTAAAAACACAT
Found at i:22245314 original size:39 final size:38
Alignment explanation
Indices: 22245218--22245332 Score: 149
Period size: 39 Copynumber: 3.0 Consensus size: 38
22245208 AATTAAAAAC
*
22245218 ACATAATTAAAACACATATTAATGATATTCAAACTAAG
1 ACATAATTAAAACACATATTAATGATGTTCAAACTAAG
*
22245256 ACATAATTAAAAACGCATATTAATGATGTTCAAACTAAG
1 ACATAATT-AAAACACATATTAATGATGTTCAAACTAAG
* * ** *
22245295 ACATAATTAAGGACTCATATTAGCGGTGTTCAAACTAA
1 ACATAATTAA-AACACATATTAATGATGTTCAAACTAA
22245333 AATAACTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.15
39 58 0.85
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (38 bp):
ACATAATTAAAACACATATTAATGATGTTCAAACTAAG
Found at i:22245341 original size:9 final size:9
Alignment explanation
Indices: 22245327--22245352 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22245317 GCGGTGTTCA
22245327 AACTAAAAT
1 AACTAAAAT
22245336 AACTAAAAT
1 AACTAAAAT
22245345 AACTAAAA
1 AACTAAAA
22245353 ATGGATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:22245506 original size:36 final size:36
Alignment explanation
Indices: 22245443--22245515 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
22245433 CACGGAGTGC
* * * *
22245443 CTGCCCAAGCTTAATGAATTAGTCCCGTGATAGCTT
1 CTGCCCAAACTTAATCAATGAGACCCGTGATAGCTT
* * *
22245479 CTGCCCAAACTTGATCAATGAGACCCGTTATGGCTT
1 CTGCCCAAACTTAATCAATGAGACCCGTGATAGCTT
22245515 C
1 C
22245516 CTTGAACTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (36 bp):
CTGCCCAAACTTAATCAATGAGACCCGTGATAGCTT
Found at i:22257774 original size:50 final size:50
Alignment explanation
Indices: 22257605--22257841 Score: 219
Period size: 50 Copynumber: 4.7 Consensus size: 50
22257595 TAATAACATG
* * ** * * *
22257605 CCAAAGCCATGTCCCAGACATGCTCTTACATGGGATGTTTCCTGTAC--TA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTA
* * * ** * * *
22257654 CCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA--CCTCTCATCTCGGTA
* * * * *
22257706 CCCATGCCATGTCTCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA
* *
22257756 CCAACGCCATG-CACCAGACATGATCTTACATGGGACCTCTTATCTCGGTA
1 CCAACGCCATGTC-CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA
22257806 CCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
22257842 TTCATTCCCT
Statistics
Matches: 155, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
49 32 0.21
50 86 0.55
51 6 0.04
52 31 0.20
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA
Found at i:22266670 original size:37 final size:37
Alignment explanation
Indices: 22266620--22266699 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
22266610 CTTATTACGA
* *
22266620 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
22266657 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
22266694 GGTCTT
1 AGTCTT
22266700 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:22266889 original size:47 final size:47
Alignment explanation
Indices: 22266818--22267222 Score: 562
Period size: 47 Copynumber: 8.6 Consensus size: 47
22266808 CCCTTCGGGA
** * *
22266818 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * * *
22266865 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
22266912 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
22266959 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
22267006 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
22267053 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
22267100 CCTATTCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTA-TCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
22267148 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
22267195 CCTATTCACACATATACACT-TTCACATT
1 CTTA-TCACACATATACA-TGTTCACATT
22267223 TATTCAATTA
Statistics
Matches: 327, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 264 0.81
48 61 0.19
49 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:22271538 original size:78 final size:78
Alignment explanation
Indices: 22271409--22271569 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
22271399 ACCATAAAAT
*
22271409 ATCAAAATAAACATATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTG-
1 ATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGC
22271473 TTAGAATAAGCTAA
66 TT-GAATAAGCTAA
22271487 ATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGC
1 ATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGC
*
22271552 TTGAATAAGTTAA
66 TTGAATAAGCTAA
22271565 ATCAA
1 ATCAA
22271570 GTGATCGAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
78 78 0.98
79 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (78 bp):
ATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGC
TTGAATAAGCTAA
Found at i:22272426 original size:29 final size:29
Alignment explanation
Indices: 22272400--22272613 Score: 128
Period size: 29 Copynumber: 7.3 Consensus size: 29
22272390 TCGTAACCGA
*
22272400 CCCTTTTCATATTTGATGGTTGAAACCAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
* * **
22272429 CCCTTTTCATTAATCGATGGTCGTCACCAT
1 CCCTTTTCA-TATTTGATGGTCGAAACCAT
* *
22272459 CCCTTTTCATATTTGATGGTC-ATCACTAT
1 CCCTTTTCATATTTGATGGTCGA-AACCAT
* * * * * *
22272488 CCCTTTTCATAATCGAT-ATCCGTAGCTAT
1 CCCTTTTCATATTTGATGGT-CGAAACCAT
* * * *
22272517 CCCTTTTCATATTCGATAG-CTGAAGCTAT
1 CCCTTTTCATATTTGATGGTC-GAAACCAT
* * **
22272546 CACTTTTCATATTCGATGGTCGTCACCAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
* * * * * *
22272575 CCCTTTTCATAATCGATAGCCGAAGCTAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
22272604 CCCTTTTCAT
1 CCCTTTTCAT
22272614 TGGCCAATGA
Statistics
Matches: 146, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.01
29 119 0.82
30 25 0.17
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (29 bp):
CCCTTTTCATATTTGATGGTCGAAACCAT
Found at i:22272591 original size:58 final size:58
Alignment explanation
Indices: 22272400--22272613 Score: 229
Period size: 58 Copynumber: 3.7 Consensus size: 58
22272390 TCGTAACCGA
* * * * *
22272400 CCCTTTTCATATTTGATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCAT
1 CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCA-TAATCGATGGTCGTCACCAT
* * * * *
22272459 CCCTTTTCATATTTGATGGTCAT-CA-CTATCCCTTTTCATAATCGAT-ATCCGT-AGCTAT
1 CCCTTTTCATATTCGATAG-C-TGAAGCTATCCCTTTTCATAATCGATGGT-CGTCA-CCAT
* *
22272517 CCCTTTTCATATTCGATAGCTGAAGCTATCACTTTTCATATTCGATGGTCGTCACCAT
1 CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATAATCGATGGTCGTCACCAT
* *
22272575 CCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT
1 CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCAT
22272614 TGGCCAATGA
Statistics
Matches: 132, Mismatches: 15, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
56 1 0.01
57 4 0.03
58 92 0.70
59 33 0.25
60 1 0.01
61 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (58 bp):
CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATAATCGATGGTCGTCACCAT
Found at i:22275559 original size:42 final size:42
Alignment explanation
Indices: 22275479--22275560 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
22275469 CGTTTTCTCT
* **
22275479 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACCATGGTCTTACACATATGCACATATTG
*
22275521 ATGCCATAGTCCAGCCATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCCAACCATGGTCTTACACA-TATGCACATAT
22275561 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGTCCAACCATGGTCTTACACATATGCACATATTG
Found at i:22278142 original size:23 final size:22
Alignment explanation
Indices: 22278099--22278142 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
22278089 TTCTAAGCCG
22278099 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
22278122 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
22278143 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:22278253 original size:45 final size:45
Alignment explanation
Indices: 22278189--22278275 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
22278179 TAGATACTCA
* *
22278189 GTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTCCG
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCG
* *
22278234 GTGGAATCAGCACATAGCAACCACCTTCCTAATCAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
22278276 TCAGTTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCG
Found at i:22278344 original size:51 final size:51
Alignment explanation
Indices: 22278282--22278422 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 51
22278272 ATGTTCAGTT
* * * *
22278282 CACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCTGATA
* * * * *
22278333 CACGTAGTAGCCTGCACATAGTATTACACACGTGATCGA-AACTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCTGATA
* *
22278384 CGCATAGTAGCCTGCACATAGTACTACACACATGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
22278423 CACTTTCACT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
50 2 0.03
51 70 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCTGATA
Found at i:22294386 original size:32 final size:32
Alignment explanation
Indices: 22294350--22294410 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
22294340 TTTATACCAC
22294350 TAAACAAGACGGATATACTCCACCAACAATTG
1 TAAACAAGACGGATATACTCCACCAACAATTG
22294382 TAAACAAGACGGATATACTCCACCAACAA
1 TAAACAAGACGGATATACTCCACCAACAA
22294411 ATTAAGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.16
Consensus pattern (32 bp):
TAAACAAGACGGATATACTCCACCAACAATTG
Found at i:22295858 original size:29 final size:29
Alignment explanation
Indices: 22295813--22295869 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
22295803 AGGGGAGAGA
* *
22295813 CTCGAGGCTGTTTAGCTGGTGTGGGTAAC
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
*
22295842 CTCGAGTCTGTTGAGCTGGTGCGGGTAA
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAA
22295870 TTTAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.30
Consensus pattern (29 bp):
CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
Found at i:22316352 original size:6 final size:6
Alignment explanation
Indices: 22316336--22316386 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
22316326 ATATTGTAAG
* * * * *
22316336 TTTCTA TTTTCA TTTTCA TTTCCA TTTCCA TTTCCA TTTCCG TTTCGA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
22316384 TTT
1 TTT
22316387 TTGGAAACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.14, C:0.24, G:0.04, T:0.59
Consensus pattern (6 bp):
TTTCCA
Found at i:22320585 original size:59 final size:60
Alignment explanation
Indices: 22320513--22320632 Score: 215
Period size: 59 Copynumber: 2.0 Consensus size: 60
22320503 TTATTCTCGT
* *
22320513 ACCACGAGCTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATGGAACTA-AAAA
1 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTATAAAA
22320572 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTATAAAA
1 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTATAAAA
22320632 A
1 A
22320633 GTTTTCTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 53 0.91
60 5 0.09
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.17
Consensus pattern (60 bp):
ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTATAAAA
Found at i:22323467 original size:41 final size:41
Alignment explanation
Indices: 22323407--22323489 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
22323397 ATATGGAAGT
*
22323407 ATGTTAGGATTTAGTTTTTGACATGTTCTTCAATAAAAGAA
1 ATGTTAGGATTTAGGTTTTGACATGTTCTTCAATAAAAGAA
*
22323448 ATGTTAGGATTTAGGTTTTGACGTGTTCTTCAATAAAAGAA
1 ATGTTAGGATTTAGGTTTTGACATGTTCTTCAATAAAAGAA
22323489 A
1 A
22323490 GAATTCAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (41 bp):
ATGTTAGGATTTAGGTTTTGACATGTTCTTCAATAAAAGAA
Found at i:22326692 original size:46 final size:44
Alignment explanation
Indices: 22326566--22326699 Score: 162
Period size: 43 Copynumber: 3.0 Consensus size: 44
22326556 GGAGAGATGT
22326566 TAGGATATTAGTATAAGATATTATCTTTTAGCAATTTGATTCCTAA
1 TAGGATATTA-T-TAAGATATTATCTTTTAGCAATTTGATTCCTAA
* * *
22326612 TAGGATATTA-TAAGATATTATCTCTTAGCAATTTGTTTTCTAA
1 TAGGATATTATTAAGATATTATCTTTTAGCAATTTGATTCCTAA
* * * *
22326655 TAGGATATTATTTTAGGATATTATATTTTCGTAATTTGATTCCTA
1 TAGGATATTA--TTAAGATATTATCTTTTAGCAATTTGATTCCTA
22326700 CGTAACTACT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 40 0.53
46 35 0.47
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (44 bp):
TAGGATATTATTAAGATATTATCTTTTAGCAATTTGATTCCTAA
Found at i:22327061 original size:11 final size:9
Alignment explanation
Indices: 22327031--22327056 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22327021 TTCCATGGAA
22327031 TTTTTTAAT
1 TTTTTTAAT
22327040 TTTTTTAAT
1 TTTTTTAAT
22327049 TTTTTTAA
1 TTTTTTAA
22327057 AATTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:22346849 original size:26 final size:26
Alignment explanation
Indices: 22346820--22346898 Score: 158
Period size: 26 Copynumber: 3.0 Consensus size: 26
22346810 CACCTTTATC
22346820 AAATGTTAAATAAATCAACAATTCAT
1 AAATGTTAAATAAATCAACAATTCAT
22346846 AAATGTTAAATAAATCAACAATTCAT
1 AAATGTTAAATAAATCAACAATTCAT
22346872 AAATGTTAAATAAATCAACAATTCAT
1 AAATGTTAAATAAATCAACAATTCAT
22346898 A
1 A
22346899 CTCCAAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (26 bp):
AAATGTTAAATAAATCAACAATTCAT
Found at i:22353292 original size:47 final size:47
Alignment explanation
Indices: 22353238--22353638 Score: 541
Period size: 47 Copynumber: 8.4 Consensus size: 47
22353228 CAGCCAAGAG
* * *
22353238 AGTGTATGTATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
22353285 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
22353334 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
22353385 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
22353432 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
22353479 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
22353526 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
22353573 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
22353620 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
22353639 TCCCGAAAGG
Statistics
Matches: 323, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 239 0.74
49 40 0.12
51 40 0.12
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:22353813 original size:37 final size:37
Alignment explanation
Indices: 22353757--22353835 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22353747 CCGAGCTCTA
* * *
22353757 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22353794 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22353831 AAGAC
1 AAGAC
22353836 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22359380 original size:18 final size:18
Alignment explanation
Indices: 22359335--22359380 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
22359325 GGAGGAATTC
*
22359335 TTTTTCTTTA-GTTTTTAT
1 TTTTTC-TTAGGTGTTTAT
22359353 TTCTTT-TTAGGTGTTTAT
1 TT-TTTCTTAGGTGTTTAT
22359371 TTTTTCTTAG
1 TTTTTCTTAG
22359381 TTAGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.72
Consensus pattern (18 bp):
TTTTTCTTAGGTGTTTAT
Found at i:22365745 original size:26 final size:26
Alignment explanation
Indices: 22365709--22365759 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22365699 TTGGATAAAA
*
22365709 AGGGGTCGCTATGTGAAGATTCCCCG
1 AGGGGTCGCTAAGTGAAGATTCCCCG
* **
22365735 AGGGGTTGCTAAGTGTTGATTCCCC
1 AGGGGTCGCTAAGTGAAGATTCCCC
22365760 AAATTATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGAAGATTCCCCG
Found at i:22365827 original size:42 final size:41
Alignment explanation
Indices: 22365737--22365971 Score: 160
Period size: 42 Copynumber: 5.6 Consensus size: 41
22365727 ATTCCCCGAG
* ** *
22365737 GGGTTGCTAAGTGTTGATTCC-CCAAAT-TATTGATTCTAAA
1 GGGTTGCTAAGTGCTGATTCCACCGTATAT-TTGATTGTAAA
22365777 GGTCGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAA
1 GG--GTTGCTAAGTGCTGATTCCACCGTATATTTGATTGT-AAA
* * * * * *
22365821 GGGTTGCTATGTGCTGATT-CTCCATATCA-CTGAATATAAA
1 GGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTAAA
* *
22365861 GGTGGTTTCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAA
1 -G-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGT-AAA
** * *
22365905 GGGGTTGCTATCTGCTGATTCC-CCGTATCA-CTGAATT-TAAT
1 -GGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTG-ATTGTAAA
*
22365946 GTGGTTGCTAAGTGCTGAATCCACCG
1 G-GGTTGCTAAGTGCTGATTCCACCG
22365972 AGTAACGGAT
Statistics
Matches: 153, Mismatches: 27, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
40 6 0.04
41 31 0.20
42 63 0.41
43 42 0.27
44 11 0.07
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTAAA
Found at i:22365878 original size:84 final size:84
Alignment explanation
Indices: 22365735--22365971 Score: 314
Period size: 84 Copynumber: 2.8 Consensus size: 84
22365725 AGATTCCCCG
* * * * * * *
22365735 AGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGATTCTAAAGGTCGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
22365800 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* *
22365820 A-GGGTTGCTATGTGCTGATTCTCCATATCACTGAATATAAAGGTGGTTTCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
22365884 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * * *
22365904 AGGGGTTGCTATCTGCTGATTCCCCGTATCACTGAATTTAATGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
22365969 CCG
66 CCG
22365972 AGTAACGGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 100 0.75
85 33 0.25
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:22368933 original size:28 final size:28
Alignment explanation
Indices: 22368891--22368969 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 28
22368881 AGGTTATCCC
*
22368891 TTCATAATTCGCCACAAAGGCTTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTTCT
* **
22368919 TTCATATTTCACCACAAA-GAATTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTTCT
* *
22368946 TTCATGTTTCGCCACAAAGACTTT
1 TTCATATTTCGCCACAAAGGCTTT
22368970 CCTTTCTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (28 bp):
TTCATATTTCGCCACAAAGGCTTTTTCT
Found at i:22376926 original size:47 final size:47
Alignment explanation
Indices: 22376875--22376998 Score: 187
Period size: 47 Copynumber: 2.6 Consensus size: 47
22376865 ATAGTCCAAC
22376875 TATGGTCTTACACGGAATCACATATCACACCGATGTC-ATATCCCAGA
1 TATGGTCTTACACGGAATCACATATCACACCGATG-CGATATCCCAGA
* * *
22376922 TATGGTCTTACACAGTAGCACATATCACACCGATGCGATATCCCAGA
1 TATGGTCTTACACGGAATCACATATCACACCGATGCGATATCCCAGA
*
22376969 TATGGTCTTACACGAAAATCACATATCACA
1 TATGGTCTTACACG-GAATCACATATCACA
22376999 TATTGCCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 55 0.81
48 12 0.18
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACGGAATCACATATCACACCGATGCGATATCCCAGA
Found at i:22378291 original size:22 final size:22
Alignment explanation
Indices: 22378258--22378326 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
22378248 TATGCACTAT
* *
22378258 TAAATAGAGAGCACTAAAGTGT
1 TAAACAGAGAGCACTAAAGTGC
* *
22378280 TATACAGAGAGCA-TGAATGTGC
1 TAAACAGAGAGCACT-AAAGTGC
*
22378302 TAAACAGAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
22378324 TAA
1 TAA
22378327 TAATCAAAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:22378344 original size:19 final size:19
Alignment explanation
Indices: 22378320--22378381 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 19
22378310 GAGCACTAAT
22378320 GTGCTAATAATCAAAGAGC
1 GTGCTAATAATCAAAGAGC
* *
22378339 GTGCTAGTAATTAGAGAGCACGAC
1 GTGCTAATAATCA-A-AG-A-G-C
*
22378363 GTGCTAATAATCAGAGAGC
1 GTGCTAATAATCAAAGAGC
22378382 ACTGACGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
21 3 0.09
22 3 0.09
23 1 0.03
24 12 0.36
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
GTGCTAATAATCAAAGAGC
Found at i:22378395 original size:25 final size:25
Alignment explanation
Indices: 22378306--22378455 Score: 170
Period size: 25 Copynumber: 6.3 Consensus size: 25
22378296 ATGTGCTAAA
* *
22378306 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTGACGTGCTAATAAT
*
22378331 CA-A-AG-A--G-CGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTAATAAT
*
22378350 TAGAGAGCAC-GACGTGCTAATAAT
1 CAGAGAGCACTGACGTGCTAATAAT
*
22378374 CAGAGAGCACTGACGTGTTAATAAT
1 CAGAGAGCACTGACGTGCTAATAAT
* *
22378399 CAGAGAGCACTGATGTGCAAATAAT
1 CAGAGAGCACTGACGTGCTAATAAT
* *
22378424 CAGAGAGCACGGACGTGCTAAAAAT
1 CAGAGAGCACTGACGTGCTAATAAT
22378449 CAGAGAG
1 CAGAGAG
22378456 TACGCTAAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
19 11 0.10
20 1 0.01
21 2 0.02
22 2 0.02
23 3 0.03
24 21 0.20
25 65 0.62
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTGACGTGCTAATAAT
Found at i:22383310 original size:6 final size:6
Alignment explanation
Indices: 22383296--22383349 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
22383286 AGGTTTCTCA
* * * *
22383296 AAATGG AAATAG AAATGG AAATGG AAATGA AAATGA AAATGA AAATGAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G
22383345 AAATG
1 AAATG
22383350 ATACATTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:22387567 original size:18 final size:18
Alignment explanation
Indices: 22387553--22387587 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22387543 TTCTTTTTTG
22387553 ATTTCTTTCTCTTTTTCA
1 ATTTCTTTCTCTTTTTCA
22387571 ATTTCTTTCTCTTTTTC
1 ATTTCTTTCTCTTTTTC
22387588 TTCTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTCTTTCTCTTTTTCA
Found at i:22387588 original size:30 final size:29
Alignment explanation
Indices: 22387532--22387635 Score: 74
Period size: 30 Copynumber: 3.6 Consensus size: 29
22387522 CTCACTATCT
* *
22387532 TCTTTCTCAAATTCTTT-TTTGATTTCTTTC
1 TCTTTTTCAATTTCTTTCTTT--TTTCTTTC
22387562 TCTTTTTCAATTTCTTTCTCTTTTTC--T-
1 TCTTTTTCAATTTCTTTCT-TTTTTCTTTC
** *
22387589 TCTTTTTCTTTTTC-TTCTTTTTCTTTTTC
1 TCTTTTTCAATTTCTTTCTTTTT-TCTTTC
*
22387618 TTCTTTTTCAATCTCTTT
1 -TCTTTTTCAATTTCTTT
22387636 TTCGAGTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
25 4 0.07
26 5 0.09
27 12 0.21
28 2 0.03
30 30 0.52
31 3 0.05
32 2 0.03
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.70
Consensus pattern (29 bp):
TCTTTTTCAATTTCTTTCTTTTTTCTTTC
Found at i:22387593 original size:15 final size:15
Alignment explanation
Indices: 22387555--22387623 Score: 93
Period size: 15 Copynumber: 4.4 Consensus size: 15
22387545 CTTTTTTGAT
22387555 TTCTTTCTCTTTTTC
1 TTCTTTCTCTTTTTC
22387570 AATTTCTTTCTCTTTTTC
1 ---TTCTTTCTCTTTTTC
*
22387588 TTCTTTTTCTTTTTC
1 TTCTTTCTCTTTTTC
*
22387603 TTCTTTTTCTTTTTC
1 TTCTTTCTCTTTTTC
22387618 TTCTTT
1 TTCTTT
22387624 TTCAATCTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
15 35 0.70
18 15 0.30
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTTCTCTTTTTC
Found at i:22387594 original size:9 final size:9
Alignment explanation
Indices: 22387576--22387659 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
22387566 TTTCAATTTC
22387576 TTTC-TCTT
1 TTTCTTCTT
22387584 TTTCTTC--
1 TTTCTTCTT
22387591 TTT-TTCTT
1 TTTCTTCTT
22387599 TTTCTTC--
1 TTTCTTCTT
22387606 TTT-TTCTT
1 TTTCTTCTT
22387614 TTTCTTCTT
1 TTTCTTCTT
22387623 TTTCAATCTCTT
1 TTTC--T-TCTT
22387635 TTTCGAGTTCTT
1 TTTC---TTCTT
*
22387647 TTCCTTCTT
1 TTTCTTCTT
22387656 TTTC
1 TTTC
22387660 GAGTTTATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
6 6 0.10
7 6 0.10
8 10 0.16
9 22 0.35
11 1 0.02
12 15 0.24
13 2 0.03
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:22387598 original size:21 final size:21
Alignment explanation
Indices: 22387562--22387619 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
22387552 GATTTCTTTC
**
22387562 TCTTTTTCAATTTCTTTCTCT
1 TCTTTTTCTTTTTCTTTCTCT
*
22387583 T-TTTCTTCTTTTTCTTTTTCT
1 TCTTT-TTCTTTTTCTTTCTCT
22387604 TCTTTTTCTTTTTCTT
1 TCTTTTTCTTTTTCTT
22387620 CTTTTTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (21 bp):
TCTTTTTCTTTTTCTTTCTCT
Found at i:22387634 original size:15 final size:15
Alignment explanation
Indices: 22387573--22387626 Score: 99
Period size: 15 Copynumber: 3.6 Consensus size: 15
22387563 CTTTTTCAAT
*
22387573 TTCTTTCTCTTTTTC
1 TTCTTTTTCTTTTTC
22387588 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
22387603 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
22387618 TTCTTTTTC
1 TTCTTTTTC
22387627 AATCTCTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:22388144 original size:16 final size:18
Alignment explanation
Indices: 22388112--22388145 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22388102 TTATTTACTG
22388112 AAAATAAGAAAAGTTAAA
1 AAAATAAGAAAAGTTAAA
22388130 AAAAT-AGAAAA-TTAAA
1 AAAATAAGAAAAGTTAAA
22388146 TACCTCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAATAAGAAAAGTTAAA
Found at i:22392994 original size:26 final size:26
Alignment explanation
Indices: 22392958--22393023 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
22392948 TCTGACCCAC
* *
22392958 AGCTCATGTGAGCAGGCCCATTTCAT
1 AGCTCGTGTGAGCAGACCCATTTCAT
* * * *
22392984 AGCTTGTGTGAGCATACTCTTTTCAT
1 AGCTCGTGTGAGCAGACCCATTTCAT
22393010 AGCTCGTGTGAGCA
1 AGCTCGTGTGAGCA
22393024 TATATGTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGACCCATTTCAT
Found at i:22395467 original size:22 final size:21
Alignment explanation
Indices: 22395436--22395476 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
22395426 GAACATATAG
22395436 CCACTAATGTTGCGACAACCA
1 CCACTAATGTTGCGACAACCA
22395457 CCACTCAATGTTGCGACAAC
1 CCACT-AATGTTGCGACAAC
22395477 GAACTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.20
Consensus pattern (21 bp):
CCACTAATGTTGCGACAACCA
Found at i:22397005 original size:12 final size:11
Alignment explanation
Indices: 22396986--22397059 Score: 54
Period size: 10 Copynumber: 7.2 Consensus size: 11
22396976 AAATTAAAAC
22396986 AAAA-ATTTAA
1 AAAATATTTAA
*
22396996 AAAAGTATTTTA
1 AAAA-TATTTAA
22397008 AAAATATTT--
1 AAAATATTTAA
*
22397017 TAAA-A-TTAA
1 AAAATATTTAA
22397026 AAAA-ATTTAA
1 AAAATATTTAA
*
22397036 AAAGTATTTTAA
1 AAAATA-TTTAA
22397048 AAAA-ATTTAA
1 AAAATATTTAA
22397058 AA
1 AA
22397060 TTTAAAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 7 0.13
10 18 0.35
11 7 0.13
12 17 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:22397027 original size:17 final size:16
Alignment explanation
Indices: 22397005--22397098 Score: 50
Period size: 22 Copynumber: 5.6 Consensus size: 16
22396995 AAAAAGTATT
*
22397005 TTAAAAATATTTTAAAA
1 TTAAAAA-AATTTAAAA
22397022 TTAAAAAAATTTAAAAAGTA
1 TTAAAAAAATTT--AAA--A
22397042 TTTTAAAAAAATTTAAAA
1 --TTAAAAAAATTTAAAA
* *
22397060 TT-TAAAATTTTAAAA
1 TTAAAAAAATTTAAAA
** *
22397075 --AAAGTATTTTAAAA
1 TTAAAAAAATTTAAAA
22397089 TTAAAAAAAT
1 TTAAAAAAAT
22397099 AAAAATATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
14 10 0.17
15 11 0.19
16 11 0.19
17 7 0.12
18 4 0.07
20 4 0.07
22 12 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:22397040 original size:39 final size:40
Alignment explanation
Indices: 22396968--22397088 Score: 149
Period size: 39 Copynumber: 3.0 Consensus size: 40
22396958 ACCAAAAATT
22396968 TATTTTAAAAATTAAAACAAAAATTTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTTAAAAAAGTATTTTAAAAA
22397012 TATTTTAAAATTAAAAAAATTT-AAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
* * *
22397051 -AATTTAAAATT-TAAAATTTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAATTT-AAAAAAGTATTTTAAAA
22397089 TTAAAAAAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
37 7 0.10
38 10 0.14
39 33 0.46
40 8 0.11
41 2 0.03
43 6 0.08
44 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
Found at i:22399863 original size:10 final size:9
Alignment explanation
Indices: 22399846--22399936 Score: 57
Period size: 9 Copynumber: 9.9 Consensus size: 9
22399836 AAGCATAACA
22399846 ATTATAAAT
1 ATTATAAAT
22399855 ATATATAAAT
1 AT-TATAAAT
*
22399865 AATATTAAAT
1 ATTA-TAAAT
22399875 ATT-TAAAAT
1 ATTAT-AAAT
22399884 ATTA-AAAT
1 ATTATAAAT
22399892 -TGATATAAA-
1 AT--TATAAAT
*
22399901 CTTATTAAA-
1 ATTA-TAAAT
*
22399910 ATTATAAAA
1 ATTATAAAT
22399919 ACTTATAAAT
1 A-TTATAAAT
22399929 ATTATAAA
1 ATTATAAA
22399937 AACATAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
7 1 0.01
8 11 0.16
9 28 0.42
10 27 0.40
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (9 bp):
ATTATAAAT
Found at i:22399922 original size:19 final size:19
Alignment explanation
Indices: 22399883--22400073 Score: 92
Period size: 19 Copynumber: 9.9 Consensus size: 19
22399873 ATATTTAAAA
*
22399883 TATTAAAATTGATATAAACT
1 TATTAAAATT-ATAAAAACT
22399903 TATTAAAATTATAAAAACT
1 TATTAAAATTATAAAAACT
*
22399922 TA-TAAATATTATAAAAACA
1 TATTAAA-ATTATAAAAACT
** *
22399941 TAAAAAAATCTA-AGAAA-T
1 TATTAAAAT-TATAAAAACT
* *
22399959 TATAAAAAATAT-AAAA-T
1 TATTAAAATTATAAAAACT
*
22399976 TATTTAAAATTATAAAAAAACG
1 TA-TTAAAATTAT--AAAAACT
* * * *
22399998 TATGAGAATTTTTTAAAA-T
1 TATTA-AAATTATAAAAACT
* *
22400017 AATATAATATTATAAAAA--
1 TAT-TAAAATTATAAAAACT
*
22400035 TATTAAAATTGATATAAACT
1 TATTAAAATT-ATAAAAACT
*
22400055 TATAAAAATTATTAAAAAC
1 TATTAAAATTA-TAAAAAC
22400074 AAACATAAAA
Statistics
Matches: 129, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
17 14 0.11
18 27 0.21
19 40 0.31
20 35 0.27
21 6 0.05
22 7 0.05
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (19 bp):
TATTAAAATTATAAAAACT
Found at i:22400052 original size:11 final size:10
Alignment explanation
Indices: 22399854--22400071 Score: 83
Period size: 10 Copynumber: 22.9 Consensus size: 10
22399844 CAATTATAAA
22399854 TATATATAAAT
1 TATATA-AAAT
* *
22399865 AATATTAAA-
1 TATATAAAAT
*
22399874 TATTTAAAA-
1 TATATAAAAT
22399883 TAT-TAAAAT
1 TATATAAAAT
*
22399892 TGATATAAACT
1 T-ATATAAAAT
22399903 TAT-TAAAAT
1 TATATAAAAT
22399912 TATA-AAAACT
1 TATATAAAA-T
*
22399922 TATA-AATAT
1 TATATAAAAT
22399931 TATA-AAAA-
1 TATATAAAAT
* * *
22399939 CATAAAAAAA
1 TATATAAAAT
*
22399949 TCTA-AGAAAT
1 TATATA-AAAT
22399959 TATA-AAAA-
1 TATATAAAAT
22399967 -ATATAAAAT
1 TATATAAAAT
*
22399976 TATTTAAAAT
1 TATATAAAAT
* *
22399986 TATAAAAAAA
1 TATATAAAAT
** *
22399996 CGTATGAGAAT
1 TATAT-AAAAT
* *
22400007 TTTTTAAAAT
1 TATATAAAAT
* *
22400017 AATATAATAT
1 TATATAAAAT
22400027 TATA-AAAA-
1 TATATAAAAT
22400035 TAT-TAAAAT
1 TATATAAAAT
*
22400044 TGATATAAACT
1 T-ATATAAAAT
22400055 TATA-AAAAT
1 TATATAAAAT
22400064 TAT-TAAAA
1 TATATAAAA
22400072 ACAAACATAA
Statistics
Matches: 155, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
7 3 0.02
8 19 0.12
9 53 0.34
10 59 0.38
11 21 0.14
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (10 bp):
TATATAAAAT
Found at i:22400057 original size:28 final size:28
Alignment explanation
Indices: 22400010--22400071 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
22400000 TGAGAATTTT
22400010 TTAAAATAATATAATATTATAAAAA-TA
1 TTAAAATAATATAATATTATAAAAATTA
*
22400037 TTAAAATTGATATAA-ACTTATAAAAATTA
1 TTAAAA-TAATATAATA-TTATAAAAATTA
22400066 TTAAAA
1 TTAAAA
22400072 ACAAACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 16 0.52
29 8 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TTAAAATAATATAATATTATAAAAATTA
Found at i:22400352 original size:6 final size:7
Alignment explanation
Indices: 22400331--22400373 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
22400321 CAGTTCAATT
22400331 AAATAAA
1 AAATAAA
22400338 AAATAAA
1 AAATAAA
22400345 AAATAAA
1 AAATAAA
22400352 AACATATTAA
1 AA-ATA--AA
22400362 AAATAGAA
1 AAATA-AA
22400370 AAAT
1 AAAT
22400374 TGGTTCAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 16 0.50
8 9 0.28
9 3 0.09
10 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:22400634 original size:10 final size:10
Alignment explanation
Indices: 22400550--22400731 Score: 68
Period size: 10 Copynumber: 18.7 Consensus size: 10
22400540 TTTTTACAAA
22400550 ATTTTA-AAT
1 ATTTTATAAT
*
22400559 ATTTTACATAT
1 ATTTTATA-AT
*
22400570 ATTCTAT-AT
1 ATTTTATAAT
22400579 -TTTTATAAT
1 ATTTTATAAT
*
22400588 -TTATTAGAAT
1 ATT-TTATAAT
*
22400598 TTTTTATAAT
1 ATTTTATAAT
*
22400608 A-TCTATAAT
1 ATTTTATAAT
22400617 ATTTTTATAAT
1 A-TTTTATAAT
22400628 ATTTTAT-A-
1 ATTTTATAAT
**
22400636 GGTTTAT-AT
1 ATTTTATAAT
* *
22400645 CAATTT-TCAT
1 -ATTTTATAAT
*
22400655 ATTTTAAAAT
1 ATTTTATAAT
*
22400665 ATATTTTTAAT
1 AT-TTTATAAT
22400676 A-TTTAGTAAT
1 ATTTTA-TAAT
*
22400686 -TTATAT-AT
1 ATTTTATAAT
22400694 ATTTT-TAAAT
1 ATTTTAT-AAT
22400704 ATTTT-TAAAT
1 ATTTTAT-AAT
*
22400714 ATTTAATAAT
1 ATTTTATAAT
22400724 AATTTTAT
1 -ATTTTAT
22400732 CAAATCAAAC
Statistics
Matches: 132, Mismatches: 22, Indels: 36
0.69 0.12 0.19
Matches are distributed among these distances:
8 14 0.11
9 33 0.25
10 54 0.41
11 31 0.23
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:22406275 original size:33 final size:33
Alignment explanation
Indices: 22406232--22406294 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
22406222 ACTGAGTTTG
* *
22406232 CCAAATAGGAAGATGATGACCCGCTCACATTTT
1 CCAAACAGGAAGATGATGACCCACTCACATTTT
22406265 CCAAACAGGAAGATGATGACCCACTCACAT
1 CCAAACAGGAAGATGATGACCCACTCACAT
22406295 ATGACGAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (33 bp):
CCAAACAGGAAGATGATGACCCACTCACATTTT
Found at i:22411161 original size:37 final size:37
Alignment explanation
Indices: 22411092--22411277 Score: 227
Period size: 37 Copynumber: 5.1 Consensus size: 37
22411082 AGTACACAAG
* *
22411092 TAATCCAACCGA-AGCACGTCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
*
22411128 TAATCCAACCGATAACACGCCGAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * ** * *
22411165 TAATCCAACTGAT-ACTTCATCGAATGATCATAAGAGC
1 TAATCCAACCGATAAC-ACGCCAAATGCTCATAAGAGC
22411202 TAATCCAACC-ATAAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCGAT-AACACGCCAAATGCTCATAAGAGC
*
22411239 TAATCCAACCG-TAAACACACCAAATGCTCATAAGAGC
1 TAATCCAACCGAT-AACACGCCAAATGCTCATAAGAGC
22411276 TA
1 TA
22411278 TACACCCACC
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
36 16 0.12
37 112 0.86
38 2 0.02
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.19
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:22411270 original size:74 final size:73
Alignment explanation
Indices: 22411092--22411277 Score: 257
Period size: 74 Copynumber: 2.5 Consensus size: 73
22411082 AGTACACAAG
* * *
22411092 TAATCCAACCGAAGCACGTCAAATGCTCATAAGAGCTAATCCAACCGATAACACGCCGAATGCTC
1 TAATCCAACCGAAACACATCAAATGCTCATAAGAGCTAATCCAACCGATAACACGCCAAATGCTC
22411157 ATAAGAGC
66 ATAAGAGC
* * * * *
22411165 TAATCCAACTGATACTTCATCGAATGATCATAAGAGCTAATCCAACC-ATAAACACGCCAAATGC
1 TAATCCAACCGAAAC-ACATCAAATGCTCATAAGAGCTAATCCAACCGAT-AACACGCCAAATGC
22411229 TCATAAGAGC
64 TCATAAGAGC
*
22411239 TAATCCAACCGTAAACACACCAAATGCTCATAAGAGCTA
1 TAATCCAACCG-AAACACATCAAATGCTCATAAGAGCTA
22411278 TACACCCACC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
73 14 0.15
74 79 0.82
75 3 0.03
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.19
Consensus pattern (73 bp):
TAATCCAACCGAAACACATCAAATGCTCATAAGAGCTAATCCAACCGATAACACGCCAAATGCTC
ATAAGAGC
Found at i:22411805 original size:37 final size:38
Alignment explanation
Indices: 22411755--22411916 Score: 215
Period size: 37 Copynumber: 4.4 Consensus size: 38
22411745 ATAACACGTG
* *
22411755 GCTCATAAGAGCTAATCCAATCGAT-AACACGCCAAAT
1 GCTCATAAGAGCTAATCCAACCGATAAACACACCAAAT
* * ** *
22411792 GCTCATAAGAGCTAATGCAACCGAT-ACCTTATCAAAT
1 GCTCATAAGAGCTAATCCAACCGATAAACACACCAAAT
*
22411829 GATCATAAGAGCTAATCCAACC-ATAAACACACCAAAT
1 GCTCATAAGAGCTAATCCAACCGATAAACACACCAAAT
*
22411866 GCTCATAAGAGCTAATCCAACCG-TAAACACGCCAAAT
1 GCTCATAAGAGCTAATCCAACCGATAAACACACCAAAT
22411903 GCTCATAAGAGCTA
1 GCTCATAAGAGCTA
22411917 TACATCCGCC
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
36 2 0.02
37 106 0.98
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.19
Consensus pattern (38 bp):
GCTCATAAGAGCTAATCCAACCGATAAACACACCAAAT
Found at i:22411937 original size:639 final size:636
Alignment explanation
Indices: 22410719--22411937 Score: 1942
Period size: 639 Copynumber: 1.9 Consensus size: 636
22410709 TACCAAATAC
* *
22410719 GGATGGATAATGTGACTTGAGTGCTGATCCGATCGTCCAACCTTCGAAAGCATCTACAAGAACAG
1 GGATGGATAATGTAACTTGAGTGCTGATCCGATCGTCCAACCTTCGAAAGCATCTACAAGAACAA
*
22410784 AAATTAACGCAAGTAAGCTCATTGAGCTTAGTAAGTTTGACGTACAAAAACAATAAATCTTACTG
66 AAATTAACGCAAGTAAGCTCATTAAGCTTAGTAAGTTTGACGTACAAAAACAATAAATCTTACTG
* * *
22410849 AAGTAAATATAAATTAATTCAATAATAACTCAACTACATGTGTTTCATGCCATCCACAATGTCAA
131 AAGTAAATAAAAATTAATTCAATAATAACTCAACTACATGTGTTTCATACCATCCACAAAGTCAA
* * *
22410914 CCGATGAATTGCATAATTCAAATCAAGATTCAAATAATAATCTTTGAGAAAATATATATGTCCAC
196 CCGATAAATTGCATAATTCAAATCAAGATTCAAATAATAATCTCTAAGAAAATATATATGTCCAC
*
22410979 AATAGATTCAATTTTAAATATCATTTAGATGTCAAACCATTCAAAGTCATTATATAAGTTATAGT
261 AATAGATTCAATTTTAAATATCATTTACATGTCAAACCATTCAAAGTCATTATATAAGTTATAGT
* * * *
22411044 ACAATAATTTACGATATGATGAATGGCATATAGATATGAGTACACAAGTAATCCAACCGAAGCAC
326 ACAATAATTTACGATATGATGAACGACATACAGATATGAGTACACAAGTAATCCAACCGAAACAC
* *
22411109 GTCAAATGCTCATAAGAGCTAATCCAACCGATAACACGCCGAATGCTCATAAGAGCTAATCCAAC
391 GT---AGGCTCATAAGAGCTAATCCAACCGATAACACGCCAAATGCTCATAAGAGCTAATCCAAC
* * *
22411174 TGATACTTCATCGAATGATCATAAGAGCTAATCCAACCATAAACACGCCAAATGCTCATAAGAGC
453 CGATACTTCATCAAATGATCATAAGAGCTAATCCAACCATAAACACACCAAATGCTCATAAGAGC
*
22411239 TAATCCAACCGTAAACACACCAAATGCTCATAAGAGCTATACACCCACCCTCATAACACACCAGA
518 TAATCCAACCGTAAACACACCAAATGCTCATAAGAGCTATACACCCACCCGCATAACACACCAGA
22411304 ACAAGATAGTACAACATGAGAGTTCGTAACAAATGTTGAACCTCAGTACACTCA
583 ACAAGATAGTACAACATGAGAGTTCGTAACAAATGTTGAACCTCAGTACACTCA
* *
22411358 GGATGGATAGTGTAACTTGAGTGCTGATCCGATCGTCCAACCTTCGAAAGTATCTAC-AGTAACA
1 GGATGGATAATGTAACTTGAGTGCTGATCCGATCGTCCAACCTTCGAAAGCATCTACAAG-AACA
* * * * *
22411422 AAAATTAACGTAAGTAAGCTTATTAAAGCTTGGTAAGTTTGACGTACAGAAACAATAAATTTTA-
65 AAAATTAACGCAAGTAAGCTCATT-AAGCTTAGTAAGTTTGACGTACAAAAACAATAAATCTTAC
* * * *
22411486 TCGAAGTAAATACAACAATTCATTCAATAATAACTCAACTACTTGTGTTTCCTACCATCTACAAA
129 T-GAAGTAAATA-AA-AATTAATTCAATAATAACTCAACTACATGTGTTTCATACCATCCACAAA
*
22411551 GTCAACCGATAAATTGCATAATTCAAATTAAGATTCAAATAATAATCTCTAAGAAAATATATATG
191 GTCAACCGATAAATTGCATAATTCAAATCAAGATTCAAATAATAATCTCTAAGAAAATATATATG
* *
22411616 TCCACAATAGATTCAATTTTAGATATCATTTACATGTCAAACTATTCAAAGTCATTATATAAGTT
256 TCCACAATAGATTCAATTTTAAATATCATTTACATGTCAAACCATTCAAAGTCATTATATAAGTT
* * *
22411681 ATAGTACAATAATTTACGATTTGATGAACGACTTACAGATATGAGTACACAAGTAATCCAACTGA
321 ATAGTACAATAATTTACGATATGATGAACGACATACAGATATGAGTACACAAGTAATCCAACCGA
* *
22411746 TAACACGT-GGCTCATAAGAGCTAATCCAATCGATAACACGCCAAATGCTCATAAGAGCTAATGC
386 -AACACGTAGGCTCATAAGAGCTAATCCAACCGATAACACGCCAAATGCTCATAAGAGCTAATCC
22411810 AACCGATACCTT-ATCAAATGATCATAAGAGCTAATCCAACCATAAACACACCAAATGCTCATAA
450 AACCGATA-CTTCATCAAATGATCATAAGAGCTAATCCAACCATAAACACACCAAATGCTCATAA
* * *
22411874 GAGCTAATCCAACCGTAAACACGCCAAATGCTCATAAGAGCTATACATCCGCCCGCATAACACA
514 GAGCTAATCCAACCGTAAACACACCAAATGCTCATAAGAGCTATACACCCACCCGCATAACACA
22411938 GTACAATAAG
Statistics
Matches: 531, Mismatches: 42, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
638 2 0.00
639 249 0.47
640 48 0.09
641 1 0.00
642 225 0.42
643 6 0.01
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.26
Consensus pattern (636 bp):
GGATGGATAATGTAACTTGAGTGCTGATCCGATCGTCCAACCTTCGAAAGCATCTACAAGAACAA
AAATTAACGCAAGTAAGCTCATTAAGCTTAGTAAGTTTGACGTACAAAAACAATAAATCTTACTG
AAGTAAATAAAAATTAATTCAATAATAACTCAACTACATGTGTTTCATACCATCCACAAAGTCAA
CCGATAAATTGCATAATTCAAATCAAGATTCAAATAATAATCTCTAAGAAAATATATATGTCCAC
AATAGATTCAATTTTAAATATCATTTACATGTCAAACCATTCAAAGTCATTATATAAGTTATAGT
ACAATAATTTACGATATGATGAACGACATACAGATATGAGTACACAAGTAATCCAACCGAAACAC
GTAGGCTCATAAGAGCTAATCCAACCGATAACACGCCAAATGCTCATAAGAGCTAATCCAACCGA
TACTTCATCAAATGATCATAAGAGCTAATCCAACCATAAACACACCAAATGCTCATAAGAGCTAA
TCCAACCGTAAACACACCAAATGCTCATAAGAGCTATACACCCACCCGCATAACACACCAGAACA
AGATAGTACAACATGAGAGTTCGTAACAAATGTTGAACCTCAGTACACTCA
Found at i:22425564 original size:30 final size:30
Alignment explanation
Indices: 22425468--22425630 Score: 147
Period size: 30 Copynumber: 5.5 Consensus size: 30
22425458 TCATCGACGA
* * *
22425468 ATAAAAAGGAATAGCTTCGGCTATCGAT-T
1 ATAAAAAGGGATGGCTTCGGCTATCAATCT
* * *
22425497 ATGAAAAGGGATGG-TGAT-GACCATCGAA-CT
1 ATAAAAAGGGATGGCT--TCGGCTATC-AATCT
*
22425527 ATGAAAAGGGATGGCTTCGGCTATCAATCT
1 ATAAAAAGGGATGGCTTCGGCTATCAATCT
*
22425557 ATAAAAAGGGATGGCTTTGGCTATCAATCT
1 ATAAAAAGGGATGGCTTCGGCTATCAATCT
* * *
22425587 ATGAAAAGAGATAGCTTCGGCTATCAAAT-T
1 ATAAAAAGGGATGGCTTCGGCTATC-AATCT
*
22425617 ATAAAAAGGAATGG
1 ATAAAAAGGGATGG
22425631 TGACACCATC
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
28 1 0.01
29 19 0.18
30 84 0.78
31 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (30 bp):
ATAAAAAGGGATGGCTTCGGCTATCAATCT
Found at i:22425591 original size:60 final size:59
Alignment explanation
Indices: 22425471--22425657 Score: 218
Period size: 60 Copynumber: 3.2 Consensus size: 59
22425461 TCGACGAATA
* * *
22425471 AAAAGGAATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATCGAACTATG
1 AAAAGGGATAGCTTCGGCTATCAATTATAAAAAGGGATGGTGATGACCATCGAACTATG
* * * *
22425530 AAAAGGGATGGCTTCGGCTATCAATCTATAAAAAGGGATGGCT-TTGGCTATC-AATCTATG
1 AAAAGGGATAGCTTCGGCTATCAAT-TATAAAAAGGGATGG-TGATGACCATCGAA-CTATG
* * * *
22425590 AAAAGAGATAGCTTCGGCTATCAAATTATAAAAAGGAATGGTGA-CACCATCAAACTATG
1 AAAAGGGATAGCTTCGGCTATC-AATTATAAAAAGGGATGGTGATGACCATCGAACTATG
22425649 AAAAGGGAT
1 AAAAGGGAT
22425658 GGTGACGACT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
59 42 0.39
60 61 0.57
61 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (59 bp):
AAAAGGGATAGCTTCGGCTATCAATTATAAAAAGGGATGGTGATGACCATCGAACTATG
Found at i:22425642 original size:29 final size:30
Alignment explanation
Indices: 22425609--22425684 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
22425599 AGCTTCGGCT
*
22425609 ATCAAATTATAAAAAGGAATGGTGAC-ACC
1 ATCAAATTATGAAAAGGAATGGTGACGACC
* * *
22425638 ATCAAACTATGAAAAGGGATGGTGACGACT
1 ATCAAATTATGAAAAGGAATGGTGACGACC
22425668 ATCAAATTATGAAAAGG
1 ATCAAATTATGAAAAGG
22425685 GATAACTTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGAATGGTGACGACC
Found at i:22425679 original size:30 final size:29
Alignment explanation
Indices: 22425494--22425687 Score: 133
Period size: 30 Copynumber: 6.5 Consensus size: 29
22425484 TCGGCTATCG
* * *
22425494 ATTATGAAAAGGGATGGTGATGACCATCGA
1 ATTATGAAAAGGGATGGT-ACGACTATCAA
* * *
22425524 ACTATGAAAAGGGATGGCTTCGGCTATC-A
1 ATTATGAAAAGGGATGG-TACGACTATCAA
* ** *
22425553 ATCTATAAAAAGGGATGGCTTTGGCTATC-A
1 AT-TATGAAAAGGGATGG-TACGACTATCAA
* * * *
22425583 ATCTATGAAAAGAGATAGCTTCGGCTATCAA
1 AT-TATGAAAAGGGAT-GGTACGACTATCAA
* * *
22425614 ATTATAAAAAGGAATGGTGAC-ACCATCAA
1 ATTATGAAAAGGGATGGT-ACGACTATCAA
*
22425643 ACTATGAAAAGGGATGGTGACGACTATCAA
1 ATTATGAAAAGGGATGGT-ACGACTATCAA
22425673 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
22425688 AACTTCGGTT
Statistics
Matches: 134, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
29 28 0.21
30 101 0.75
31 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTACGACTATCAA
Found at i:22425708 original size:119 final size:120
Alignment explanation
Indices: 22425478--22425736 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 120
22425468 ATAAAAAGGA
* * * * *
22425478 ATAGCTTCGGCTATC-GATTATGAAAAGGGATGGTGATGACCATCGAACTATGAAAAGGGATGGC
1 ATAGCTTCGGCTATCAAATTATAAAAAGGAATGGTGATCACCATCAAACTATGAAAAGGGATGGC
* * ** * *
22425542 TTCGGCTATCAATCTATAAAAAGGGATGGCTTTGGCTATCAATCTATGAAAAGAG
66 TACGACTATCAATCTATAAAAAGGGATAACTTCGGCTATCAAACTATGAAAAGAG
22425597 ATAGCTTCGGCTATCAAATTATAAAAAGGAATGGTGA-CACCATCAAACTATGAAAAGGGATGG-
1 ATAGCTTCGGCTATCAAATTATAAAAAGGAATGGTGATCACCATCAAACTATGAAAAGGGATGGC
* * * *
22425660 TGACGACTATCAAAT-TATGAAAAGGGATAACTTCGGTTGT-AGAACTATGAAAAGGG
66 T-ACGACTATC-AATCTATAAAAAGGGATAACTTCGGCTATCA-AACTATGAAAAGAG
* * *
22425716 ATAACTTCAGTTATCAAATTA
1 ATAGCTTCGGCTATCAAATTA
22425737 CGAAAAGGGA
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
118 2 0.02
119 95 0.81
120 21 0.18
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (120 bp):
ATAGCTTCGGCTATCAAATTATAAAAAGGAATGGTGATCACCATCAAACTATGAAAAGGGATGGC
TACGACTATCAATCTATAAAAAGGGATAACTTCGGCTATCAAACTATGAAAAGAG
Found at i:22425742 original size:30 final size:30
Alignment explanation
Indices: 22425667--22425747 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
22425657 TGGTGACGAC
*
22425667 TATCAAATTATGAAAAGGGATAACTTCGGT
1 TATCAAATTATGAAAAGGGATAACTTCAGT
* *
22425697 TGT-AGAACTATGAAAAGGGATAACTTCAGT
1 TATCA-AATTATGAAAAGGGATAACTTCAGT
*
22425727 TATCAAATTACGAAAAGGGAT
1 TATCAAATTATGAAAAGGGAT
22425748 GTGTCAACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (30 bp):
TATCAAATTATGAAAAGGGATAACTTCAGT
Found at i:22430446 original size:44 final size:44
Alignment explanation
Indices: 22430398--22430486 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
22430388 CAGTGCCACC
22430398 ACAACAATGTAGCACTTCTATTGTACTAGTTTTGTTAACTAAAT
1 ACAACAATGTAGCACTTCTATTGTACTAGTTTTGTTAACTAAAT
22430442 ACAACAATGTAGCACTTCTATTGTACTAGTTTTGTTAACTAAAT
1 ACAACAATGTAGCACTTCTATTGTACTAGTTTTGTTAACTAAAT
22430486 A
1 A
22430487 AGCAAATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (44 bp):
ACAACAATGTAGCACTTCTATTGTACTAGTTTTGTTAACTAAAT
Found at i:22437325 original size:101 final size:102
Alignment explanation
Indices: 22437206--22437485 Score: 429
Period size: 101 Copynumber: 2.8 Consensus size: 102
22437196 TCGATACATG
* * * * *** *
22437206 TAGTGGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
* *
22437270 TAGTACTACACACGTGACCAAAGCTTTTCGGTACACA
66 CAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
*
22437307 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT-ACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
22437371 CAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
66 CAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
* *
22437408 TTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
22437473 CAGTACTACACAC
66 CAGTACTACACAC
22437486 ATGTTCATCG
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
101 130 0.80
102 33 0.20
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (102 bp):
TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
CAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
Found at i:22437332 original size:51 final size:51
Alignment explanation
Indices: 22437206--22437485 Score: 268
Period size: 51 Copynumber: 5.5 Consensus size: 51
22437196 TCGATACATG
* * * *
22437206 TAGTGGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACA
22437256 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACA
* * * ** * *
22437307 TAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCAAT-TACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTACACA
* *
22437357 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACA
* * * * * * * *
22437408 TTGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATTGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTACACA
*
22437459 TAGTAGCCTTCACACAGTACTACACAC
1 TAGTAGCCTTCACATAGTACTACACAC
22437486 ATGTTCATCG
Statistics
Matches: 187, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
49 4 0.02
50 71 0.38
51 106 0.57
52 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACA
Found at i:22437463 original size:152 final size:150
Alignment explanation
Indices: 22437205--22437484 Score: 357
Period size: 152 Copynumber: 1.8 Consensus size: 150
22437195 TTCGATACAT
* * * * * *
22437205 GTAGTGGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACA
* **
22437270 TAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTACTACACATG
66 TAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAGTACTACACATG
22437335 TGACCATCATTTATCAATTAC
130 TGACCATCATTTATCAATTAC
*
22437356 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTGTAGCCTTCA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAGTAGCCTTCA
* * * * * *
22437420 CTTAGTACTACACATGTGACC-ATCATTTATTGATTCACGTAGTAGCCTTCACACAGTACTACAC
64 CATAGTACTACACACGTGACCAAAC-TTT-TCGATACACATAGTAGCCTTCACACAGTACTACAC
22437484 A
127 A
22437485 CATGTTCATC
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
150 1 0.01
151 35 0.32
152 70 0.64
153 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (150 bp):
GTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACA
TAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAGTACTACACATGT
GACCATCATTTATCAATTAC
Found at i:22439082 original size:27 final size:26
Alignment explanation
Indices: 22439026--22439109 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 26
22439016 TACAGAACCG
* **
22439026 TTCCTTCAAAGTTCGCCATATGTACAA
1 TTCCTTCAAAGTTCACCATACATAC-A
22439053 TTCCTTCAAAGTTCACCATACATATCA
1 TTCCTTCAAAGTTCACCATACATA-CA
* * *
22439080 TT-CTATCAGAGTTTACCATACCTACCA
1 TTCCT-TCAAAGTTCACCATACATA-CA
22439107 TTC
1 TTC
22439110 TTTAGATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.04
27 44 0.94
28 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (26 bp):
TTCCTTCAAAGTTCACCATACATACA
Found at i:22445359 original size:31 final size:31
Alignment explanation
Indices: 22445312--22445757 Score: 410
Period size: 31 Copynumber: 14.5 Consensus size: 31
22445302 AACTTATCTT
** * *
22445312 CATATACAAACCAATTTCGATAATGTATAAC
1 CATATACAAATTAATTTCAACAATGTATAAC
* * * * *
22445343 CATAGACAAATAAATTTCAGCAATTTACAAC
1 CATATACAAATTAATTTCAACAATGTATAAC
* * *
22445374 CATATACGAATTAA-TTCAGCAACT-TATATC
1 CATATACAAATTAATTTCAACAA-TGTATAAC
22445404 CATATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACAAATT-AATTTCAACAATGTATAAC
* *
22445435 CATATACAAATTAATTTCAGCAATGTATAAT
1 CATATACAAATTAATTTCAACAATGTATAAC
* ** ***
22445466 TATATACAAATTAA-TTCGGCAACT-TATCTT
1 CATATACAAATTAATTTCAACAA-TGTATAAC
* * * *
22445496 TATATACAAATCAAATTCAATAATGTATAAC
1 CATATACAAATTAATTTCAACAATGTATAAC
* * *
22445527 CATATACAAATAAATTTCAGCAATGTACAAC
1 CATATACAAATTAATTTCAACAATGTATAAC
*
22445558 CATATACAAATTAA-TTCAACAACT-TATATC
1 CATATACAAATTAATTTCAACAA-TGTATAAC
*
22445588 CATATAC-AATTCAGTTTCAACAATGTATAAC
1 CATATACAAATT-AATTTCAACAATGTATAAC
* * *
22445619 CATATACAAATAAATTTCAGCAATGTACAAC
1 CATATACAAATTAATTTCAACAATGTATAAC
* *
22445650 CATATACGAATTAA-TTCAACAACT-TATATC
1 CATATACAAATTAATTTCAACAA-TGTATAAC
22445680 CATATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACAAATT-AATTTCAACAATGTATAAC
* *
22445711 CATATACAAATTAATTTCAGCAATGTATAAT
1 CATATACAAATTAATTTCAACAATGTATAAC
* *
22445742 TATATACGAATTAATT
1 CATATACAAATTAATT
22445758 CGACAATATA
Statistics
Matches: 343, Mismatches: 54, Indels: 36
0.79 0.12 0.08
Matches are distributed among these distances:
29 12 0.03
30 88 0.26
31 232 0.68
32 11 0.03
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.32
Consensus pattern (31 bp):
CATATACAAATTAATTTCAACAATGTATAAC
Found at i:22445419 original size:92 final size:92
Alignment explanation
Indices: 22445281--22445758 Score: 677
Period size: 92 Copynumber: 5.2 Consensus size: 92
22445271 AATATATATT
* * * * ** * *
22445281 CATATACGAATCAAATTCGGCAACTTATCTTCATATACAAACCAATTTCGATAATGTATAACCAT
1 CATATACGAAT-TAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCAT
* *
22445346 AGACAAATAAATTTCAGCAATTTACAAC
65 ATACAAATAAATTTCAGCAATGTACAAC
22445374 CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
1 CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
* * *
22445439 TACAAATTAATTTCAGCAATGTATAAT
66 TACAAATAAATTTCAGCAATGTACAAC
* * * * ** * * *
22445466 TATATACAAATTAATTCGGCAACTTATCTTTATATACAAATCAAATTCAATAATGTATAACCATA
1 CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
22445531 TACAAATAAATTTCAGCAATGTACAAC
66 TACAAATAAATTTCAGCAATGTACAAC
* * *
22445558 CATATACAAATTAATTCAACAACTTATATCCATATACAATTCAGTTTCAACAATGTATAACCATA
1 CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
22445623 TACAAATAAATTTCAGCAATGTACAAC
66 TACAAATAAATTTCAGCAATGTACAAC
*
22445650 CATATACGAATTAATTCAACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
1 CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
* * *
22445715 TACAAATTAATTTCAGCAATGTATAAT
66 TACAAATAAATTTCAGCAATGTACAAC
*
22445742 TATATACGAATTAATTC
1 CATATACGAATTAATTC
22445759 GACAATATAT
Statistics
Matches: 344, Mismatches: 41, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
92 333 0.97
93 11 0.03
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.32
Consensus pattern (92 bp):
CATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
TACAAATAAATTTCAGCAATGTACAAC
Found at i:22446527 original size:17 final size:17
Alignment explanation
Indices: 22446505--22446542 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
22446495 GATAACTATG
22446505 TTTATTTACTAATTTAC
1 TTTATTTACTAATTTAC
22446522 TTTATTTACTAATTTAC
1 TTTATTTACTAATTTAC
22446539 TTTA
1 TTTA
22446543 ATGCCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTTACTAATTTAC
Found at i:22447891 original size:3 final size:3
Alignment explanation
Indices: 22447883--22447929 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22447873 TTTGTTTTTG
22447883 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22447930 TCAATTCAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22453803 original size:2 final size:2
Alignment explanation
Indices: 22453796--22453821 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22453786 GATTAAGAAT
22453796 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
22453822 TTAGCGTACC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22454169 original size:11 final size:11
Alignment explanation
Indices: 22454145--22454187 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
22454135 AATTTTTTTA
22454145 AAAATAAAACTTT
1 AAAA-AAAA-TTT
22454158 AAAAAAAATTT
1 AAAAAAAATTT
22454169 AACAAAAATATTT
1 AA-AAAAA-ATTT
22454182 AAAAAA
1 AAAAAA
22454188 TCTGATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 10 0.36
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAAAAATTT
Found at i:22454175 original size:13 final size:12
Alignment explanation
Indices: 22454141--22454187 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
22454131 ACAGAATTTT
22454141 TTTAAAAATAAAA
1 TTTAAAAA-AAAA
22454154 CTTT-AAAAAAAA
1 -TTTAAAAAAAAA
*
22454166 TTTAACAAAAATA
1 TTTAA-AAAAAAA
22454179 TTTAAAAAA
1 TTTAAAAAA
22454188 TCTGATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.10
12 9 0.30
13 15 0.50
14 3 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (12 bp):
TTTAAAAAAAAA
Found at i:22454617 original size:15 final size:15
Alignment explanation
Indices: 22454582--22454611 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22454572 ATAATAAAAA
22454582 TATATTAAATAATTT
1 TATATTAAATAATTT
22454597 TATATT-AATAATTT
1 TATATTAAATAATTT
22454611 T
1 T
22454612 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTAAATAATTT
Found at i:22454789 original size:16 final size:15
Alignment explanation
Indices: 22454757--22454786 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22454747 AATGTTAAAA
22454757 AAAATTATTATATTT
1 AAAATTATTATATTT
*
22454772 AAAATTATTTTATTT
1 AAAATTATTATATTT
22454787 TAATTAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAAATTATTATATTT
Found at i:22454987 original size:21 final size:21
Alignment explanation
Indices: 22454936--22454999 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
22454926 TTAATATTAG
22454936 TATATTTT-ATATTGTTTAAAT
1 TATATTTTAATATT-TTTAAAT
**
22454957 CGTATTTTAATATTTTTAAAT
1 TATATTTTAATATTTTTAAAT
22454978 TATATTTTAATAATATTTTAAA
1 TATATTTTAAT-AT-TTTTAAA
22455000 CAAACATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 22 0.61
22 7 0.19
23 7 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
TATATTTTAATATTTTTAAAT
Found at i:22456872 original size:23 final size:23
Alignment explanation
Indices: 22456846--22456896 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
22456836 AATTAACTTA
*
22456846 AAAATC-AATAAAATAAAATAATT
1 AAAATCTAACAAAATAAAATAA-T
* *
22456869 AAAATCTAACAAAATTAAATTAT
1 AAAATCTAACAAAATAAAATAAT
22456892 AAAAT
1 AAAAT
22456897 AAAATAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATCTAACAAAATAAAATAAT
Found at i:22464189 original size:19 final size:19
Alignment explanation
Indices: 22464156--22464219 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
22464146 AATTTACATG
* *
22464156 CAAACAAAATTCCACTTAT
1 CAAACACAATTCCACTAAT
* *
22464175 CACACACAGTTCCACTAAT
1 CAAACACAATTCCACTAAT
**
22464194 CTGACACAATTCCACTAAT
1 CAAACACAATTCCACTAAT
22464213 CAAACAC
1 CAAACAC
22464220 CATTAACGAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (19 bp):
CAAACACAATTCCACTAAT
Found at i:22465974 original size:43 final size:40
Alignment explanation
Indices: 22465926--22466006 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 40
22465916 AGGGTAAATC
* * *
22465926 CAACAACCCATGTTTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATC-T-TCCT-TTTTAAAATTCTTTTTT
22465969 CAACAACCCAAGATTATCTTCCTTTTTAAAATTCTTTT
1 CAACAACCCAAGATTATCTTCCTTTTTAAAATTCTTTT
22466007 CAAGAGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 14 0.40
41 4 0.11
42 1 0.03
43 16 0.46
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (40 bp):
CAACAACCCAAGATTATCTTCCTTTTTAAAATTCTTTTTT
Found at i:22467257 original size:20 final size:20
Alignment explanation
Indices: 22467229--22467268 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22467219 ATTTTGATGT
*
22467229 GTTAGAATCATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
22467249 GTTAAAATCATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
22467269 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:22469518 original size:33 final size:33
Alignment explanation
Indices: 22469476--22469707 Score: 152
Period size: 33 Copynumber: 6.6 Consensus size: 33
22469466 AATATGAAGG
22469476 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* *
22469509 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--T-CAT-T---GGT
*
22469552 GGTTGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
22469579 GGTTGCTAAGTGCTGATTCCAACGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--T-CAT-T---GGT
* *
22469622 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* *
22469655 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
22469688 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
22469708 ACCATATCTT
Statistics
Matches: 161, Mismatches: 12, Indels: 52
0.72 0.05 0.23
Matches are distributed among these distances:
27 18 0.11
28 3 0.02
29 1 0.01
33 77 0.48
34 3 0.02
35 1 0.01
36 2 0.01
37 4 0.02
38 2 0.01
39 2 0.01
40 1 0.01
41 3 0.02
42 4 0.02
43 40 0.25
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:22469605 original size:70 final size:73
Alignment explanation
Indices: 22469466--22469674 Score: 291
Period size: 70 Copynumber: 2.8 Consensus size: 73
22469456 GAGTACATTG
*
22469466 AATATGAA-GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCA
1 AATATGAAGGGGGTTGCTAAGTGCTGATT-CCC--CTCATAGGTGGTTGCTAAGTGCTGATTCCA
*
22469530 CCGTATCTTTA
63 ACGTATCTTTA
*
22469541 AATATAAAGGGGGTTGCTAAGTGCTGATTCCCC-CA-AGG-GGTTGCTAAGTGCTGATTCCAACG
1 AATATGAAGGGGGTTGCTAAGTGCTGATTCCCCTCATAGGTGGTTGCTAAGTGCTGATTCCAACG
22469603 TATCTTTA
66 TATCTTTA
* *
22469611 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCC
1 AATATGAAGGGGGTTGCTAAGTGCTGATTCCCC---TCATAGGTGGTTGCTAAGTGCTGATTCC
22469675 CCAATTCATT
Statistics
Matches: 121, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
70 62 0.51
71 2 0.02
72 2 0.02
73 1 0.01
74 2 0.02
75 12 0.10
76 40 0.33
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (73 bp):
AATATGAAGGGGGTTGCTAAGTGCTGATTCCCCTCATAGGTGGTTGCTAAGTGCTGATTCCAACG
TATCTTTA
Found at i:22469716 original size:109 final size:103
Alignment explanation
Indices: 22469552--22469779 Score: 314
Period size: 109 Copynumber: 2.2 Consensus size: 103
22469542 ATATAAAGGG
*
22469552 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCAACGTATCTTTAAATGTG
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCAACATATCTTTAAATGTG
** *
22469617 AAGGGGGTTGCTAAGTGCTGATT-CCCCAATTCATTGGT
66 AAAAGGGTTGCTAAGTGCTGATTCCCCCAA-TCACTGGT
* * *
22469655 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTG
1 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-GGTTGCTAAGTGCTGATTCCAACATATCTTTA
*
22469720 AATGTGAAAAGGGTTGCTAAGTGTTGATTCCCCCAATCACTGGT
60 AATGTGAAAAGGGTTGCTAAGTGCTGATTCCCCCAATCACTGGT
22469764 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
22469780 ATCCACCGAT
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
103 22 0.20
107 2 0.02
108 2 0.02
109 78 0.71
110 6 0.05
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (103 bp):
GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCAACATATCTTTAAATGTG
AAAAGGGTTGCTAAGTGCTGATTCCCCCAATCACTGGT
Found at i:22487216 original size:25 final size:25
Alignment explanation
Indices: 22487122--22487208 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
22487112 TCTTGTACAT
* *
22487122 GTATGCTCATATGAGCTGTGAATCG
1 GTATGCTCACATGAGCTGTAAATCG
* * *
22487147 GTATGCTCACTTGAGTTGTAGATCG
1 GTATGCTCACATGAGCTGTAAATCG
* * *
22487172 GTGTGCTCTCACGAGCTGTAAATCG
1 GTATGCTCACATGAGCTGTAAATCG
22487197 GTATGCTCACAT
1 GTATGCTCACAT
22487209 AAGTTGTAGG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (25 bp):
GTATGCTCACATGAGCTGTAAATCG
Found at i:22489910 original size:39 final size:39
Alignment explanation
Indices: 22489854--22490293 Score: 386
Period size: 39 Copynumber: 11.3 Consensus size: 39
22489844 TTTATAATTA
* *
22489854 TACCCCTGATCGTACTTACGAGCCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
* * * *
22489893 TACCCTTTATCGCACTTACGTA-CCCTTGATGTACTTCGG
1 TACCCCTGATCGCACTTACG-AGCCCCTGTTGTACTTCGG
* * * * * * * *
22489932 TACCCCTGATCGTACCTA-TATTCTCGTGTTGCACTTCGA
1 TACCCCTGATCGCACTTACGA-GCCCCTGTTGTACTTCGG
* * * *
22489971 TACCCCTGATTGCACGTAC-ATTCCCTTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGA-GCCCCTGTTGTACTTCGG
* * * *
22490010 TACCCCTGATTGCACTTACGTGCCCGTGATGTACTTCGG
1 TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
* * *
22490049 TACCCTTGATCGCACCTAC-ATGCCCCTGTTGTACTTCGA
1 TACCCCTGATCGCACTTACGA-GCCCCTGTTGTACTTCGG
* * * *
22490088 TACCCCTGATCACAGTTACGTGCCCCTGATGTACTTCGG
1 TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
* * * * *
22490127 TACCCCTAATCGTACCTACGTGCCCCTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
* ** * * *
22490166 TAGCCCTGATTTCACTTACGTGCCACTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
* *
22490205 TACCCCTGATCACACTTAC-ATGCCTCTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGA-GCCCCTGTTGTACTTCGG
* * *
22490244 TACCCCTAATCACACTTACGTGCCCCCTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGAG-CCCCTGTTGTACTTCGG
22490284 TACCCCTGAT
1 TACCCCTGAT
22490294 TGCAATTTTG
Statistics
Matches: 323, Mismatches: 68, Indels: 19
0.79 0.17 0.05
Matches are distributed among these distances:
37 1 0.00
39 296 0.92
40 26 0.08
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACGAGCCCCTGTTGTACTTCGG
Found at i:22489934 original size:19 final size:20
Alignment explanation
Indices: 22489884--22489946 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
22489874 AGCCCCTATT
*
22489884 GTACTTCGGTACCCTTTATC
1 GTACTTCGGTACCCTTGATC
*
22489904 GCACTTAC-GTACCCTTGAT-
1 GTACTT-CGGTACCCTTGATC
*
22489923 GTACTTCGGTACCCCTGATC
1 GTACTTCGGTACCCTTGATC
22489943 GTAC
1 GTAC
22489947 CTATATTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.42
20 19 0.53
21 1 0.03
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (20 bp):
GTACTTCGGTACCCTTGATC
Found at i:22489985 original size:20 final size:20
Alignment explanation
Indices: 22489960--22490097 Score: 81
Period size: 20 Copynumber: 7.0 Consensus size: 20
22489950 TATTCTCGTG
22489960 TTGCACTTCGATACCCCTGA
1 TTGCACTTCGATACCCCTGA
* * *
22489980 TTGCACGTAC-ATTCCCTTG-
1 TTGCAC-TTCGATACCCCTGA
* *
22489999 TTGTACTTCGGTACCCCTGA
1 TTGCACTTCGATACCCCTGA
* *
22490019 TTGCACTTACG-TGCCCGTGA
1 TTGCACTT-CGATACCCCTGA
* * *
22490039 -TGTACTTCGGTACCCTTGA
1 TTGCACTTCGATACCCCTGA
* * *
22490058 TCGCACCTAC-ATGCCCCTG-
1 TTGCA-CTTCGATACCCCTGA
*
22490077 TTGTACTTCGATACCCCTGA
1 TTGCACTTCGATACCCCTGA
22490097 T
1 T
22490098 CACAGTTACG
Statistics
Matches: 85, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
18 7 0.08
19 35 0.41
20 36 0.42
21 7 0.08
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
TTGCACTTCGATACCCCTGA
Found at i:22490058 original size:19 final size:19
Alignment explanation
Indices: 22489993--22490058 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
22489983 CACGTACATT
*
22489993 CCCTTGTTGTACTTCGGTA
1 CCCTTGATGTACTTCGGTA
* * *
22490012 CCCCTGATTGCACTTAC-GTG
1 CCCTTGA-TGTACTT-CGGTA
*
22490032 CCCGTGATGTACTTCGGTA
1 CCCTTGATGTACTTCGGTA
22490051 CCCTTGAT
1 CCCTTGAT
22490059 CGCACCTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 14 0.39
21 1 0.03
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.35
Consensus pattern (19 bp):
CCCTTGATGTACTTCGGTA
Found at i:22490059 original size:117 final size:115
Alignment explanation
Indices: 22489882--22490293 Score: 425
Period size: 117 Copynumber: 3.5 Consensus size: 115
22489872 CGAGCCCCTA
* * * *
22489882 TTGTACTTCGGTACCCTTTATCGCACTTACGTACCCTTGATGTACTTCGGTACCCCTGATCGTAC
1 TTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGTAC
* * * *
22489947 CTATATTCTCGTGTTGCACTTCGATACCCCTGATTGCACGTACATTCCCTTG
66 CTACATGC-CCTGTTGTACTTCGATACCCCTGATT-CACGTACATTCCCTTG
* * * * *
22489999 TTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCGTGATGTACTTCGGTACCCTTGATCGCAC
1 TTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGTAC
* * *
22490064 CTACATGCCCCTGTTGTACTTCGATACCCCTGA-TCACAGTTACGTGCCCCTG
66 CTACATG-CCCTGTTGTACTTCGATACCCCTGATTCAC-G-TACATTCCCTTG
* * * * * * *
22490116 ATGTACTTCGGTACCCCTAATCGTACCTACGTGCCCCTGTTGTACTTTGGTAGCCCTGAT-TTCA
1 TTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGT-A
* * * * * * *
22490180 CTTACGTGCCACTATTGTACTTCGGTACCCCTGATCACACTTACA-TGCCTCTG
65 CCTACATGCC-CTGTTGTACTTCGATACCCCTGAT-TCACGTACATTCCCT-TG
* *
22490233 TTGTACTTCGGTACCCCTAATCACACTTACGTGCCCCCTGTTGTACTTCGGTACCCCTGAT
1 TTGTACTTCGGTACCCCTAATCGCACTTACGTG-CCCCTGATGTACTTCGGTACCCCTGAT
22490294 TGCAATTTTG
Statistics
Matches: 244, Mismatches: 42, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
115 3 0.01
116 6 0.02
117 206 0.84
118 26 0.11
119 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (115 bp):
TTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGTAC
CTACATGCCCTGTTGTACTTCGATACCCCTGATTCACGTACATTCCCTTG
Found at i:22499284 original size:27 final size:28
Alignment explanation
Indices: 22499245--22499308 Score: 121
Period size: 27 Copynumber: 2.3 Consensus size: 28
22499235 TGCTTTCGAC
22499245 AAGTTTCGATCTTATCTGGTAGGTACCA
1 AAGTTTCGATCTTATCTGGTAGGTACCA
22499273 AAGTTT-GATCTTATCTGGTAGGTACCA
1 AAGTTTCGATCTTATCTGGTAGGTACCA
22499300 AAGTTTCGA
1 AAGTTTCGA
22499309 ACAAAAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.77
28 8 0.23
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (28 bp):
AAGTTTCGATCTTATCTGGTAGGTACCA
Found at i:22504972 original size:80 final size:79
Alignment explanation
Indices: 22504835--22505059 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
22504825 TTGAATGATG
* * * * * * * * * *
22504835 TCCGGGCTAAGTCCCGAAGGCTTTGGGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
22504899 TGTCCGAGATACTAAA
64 TGTCCGAGATACTAAA
* * * *
22504915 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* * **
22504980 GTGCGAGTTGTTAAA
65 GTCCGAGATACTAAA
* * *
22504995 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
22505060 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 36 0.30
80 81 0.68
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TCCGAGATACTAAA
Found at i:22505039 original size:39 final size:40
Alignment explanation
Indices: 22504888--22505057 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
22504878 GGACTAAGAT
* * * *
22504888 CCGAAGGCCTTTGTCCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
22504928 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
22504968 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
22505008 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
22505047 CCGAAGGCATT
1 CCGAAGGCATT
22505058 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:22505077 original size:79 final size:80
Alignment explanation
Indices: 22504910--22505092 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
22504900 GTCCGAGATA
* * *
22504910 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
22504975 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
22504990 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
22505054 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
22505069 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
22505093 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:22508112 original size:20 final size:20
Alignment explanation
Indices: 22508087--22508131 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
22508077 GTGTACCGAG
22508087 AGATTCAGAGTTAATTCGAA
1 AGATTCAGAGTTAATTCGAA
22508107 AGATTCAGAGTTAATTCGAA
1 AGATTCAGAGTTAATTCGAA
22508127 AGATT
1 AGATT
22508132 TAGTATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (20 bp):
AGATTCAGAGTTAATTCGAA
Found at i:22516438 original size:75 final size:75
Alignment explanation
Indices: 22516315--22516456 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 75
22516305 TAATTTTCTA
** *
22516315 ATGTCATGAGAAACAAGTTGACAACATGTTTGCAACGTGTTGACTGCTTTTATTAGGATTTTGTA
1 ATGTCATGAGAAACAAGTTGACAACATGTTCACAACGTGTTGACTGCTTCTATTAGGATTTTGTA
22516380 TAAGTTTTTG
66 TAAGTTTTTG
* * *
22516390 ATGTCATGTGAAACAAGTTGACAATATGTTCACAACTTGTTGACTGCTTCTATTAGGATTTTGTA
1 ATGTCATGAGAAACAAGTTGACAACATGTTCACAACGTGTTGACTGCTTCTATTAGGATTTTGTA
22516455 TA
66 TA
22516457 TAAATTACTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (75 bp):
ATGTCATGAGAAACAAGTTGACAACATGTTCACAACGTGTTGACTGCTTCTATTAGGATTTTGTA
TAAGTTTTTG
Found at i:22516842 original size:37 final size:37
Alignment explanation
Indices: 22516634--22517258 Score: 394
Period size: 35 Copynumber: 17.4 Consensus size: 37
22516624 GAGACAAAAA
* **
22516634 TCTATCCCAACC-TTTTT-AAGTTTGCCTTAGACTAG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* *
22516669 TTTA-CCCTAACC-TTTTT-ATGGTTGCCTTAGACGGG
1 TCTATCCC-AACCTTTTTTAAAGGTTGCCTTAGACGGG
* * ** * **
22516704 TTTATGCCAAAATTTTTT--AGGTTGCCTTGGAAAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAG-ACGGG
* * **
22516740 TCTATCCCAACC--TTTT-AAGGTTGCTTTAAACAAG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* *
22516774 TCTATCCCAA-CATTTTT-AAGGTTGTCTTAGACGGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* * * **
22516809 TCGATCCAAACCTTTTTTAAAAGTTGCCTTAGACAATG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-GGG
* * *
22516847 TCTATCCCAACC-TTTTT-AAGGTTACCATAGA-GAAG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACG-GG
* **
22516882 TCTATCCCTACC-TTTTT-AAGGTTG--TTTTA---G
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* * * **
22516912 -CTATCCTAACCTTTTTTGAAGGTTTCCTTAGACAATG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-GGG
* *
22516949 TCTATCCCAA-ATTTTTTAAAAGGTTGCCTTAGACTGG
1 TCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACGGG
* *
22516986 TCTATCCCAACCTTTTTTAAAGGTGGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-GGG
* ** **
22517024 TCTACCCCAA-AATTTTT-AAGGTTGCCTTAGACGAT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* *
22517059 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACATGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-GGG
* ** *
22517097 TCTATCCCTA-CTTTTTTAAAAGGTTATCTTAGACTGG
1 TCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACGGG
22517134 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACGGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
* * * * * *
22517169 TTTATCCTAACCTTTTTCAAAAGTTGGCATT-GACTAGG
1 TCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGAC-GGG
* * *
22517207 TCTATCCCAACCATTTTTAAAGGTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-GGG
*
22517244 TCTTTCCCAACCTTT
1 TCTATCCCAACCTTT
22517259 CAATAAAGGT
Statistics
Matches: 464, Mismatches: 94, Indels: 62
0.75 0.15 0.10
Matches are distributed among these distances:
29 9 0.02
30 6 0.01
31 6 0.01
33 6 0.01
34 20 0.04
35 133 0.29
36 58 0.12
37 127 0.27
38 99 0.21
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACGGG
Found at i:22516863 original size:73 final size:72
Alignment explanation
Indices: 22516634--22517236 Score: 350
Period size: 73 Copynumber: 8.4 Consensus size: 72
22516624 GAGACAAAAA
* * * * * **
22516634 TCTATCCCAACCTTTTTAAGTTTGCCTTAGACTA--GTTTACCCTAACCTTTTT-ATGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGGTCTATCCAAACTTTTTTAAAAGTTGCCT
**
22516696 TAGACGGG
65 TAGACATG
* * ** * * * * * * * *
22516704 TTTATGCCAAAATTTTTTAGGTTGCCTTGGAAAAGGTCTATCCCAAC-CTTTT-AAGGTTGCTTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGGTCTATCCAAACTTTTTTAAAAGTTGCCTT
* *
22516767 AAACAAG
66 AGACATG
* * *
22516774 TCTATCCCAACATTTTTAAGGTTGTCTTAGAC-GGGTCGATCCAAACCTTTTTTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGGTCTATCCAAA-CTTTTTTAAAAGTTGCCT
22516838 TAGACAATG
65 TAGAC-ATG
* * * * ** * *
22516847 TCTATCCCAACCTTTTTAAGGTTACCATAGAGA-AGTCTATCCCTACCTTTTT-AAGGTTG--TT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGGTCTATCCAAACTTTTTTAAAAGTTGCCTT
**
22516908 --TTA-G
66 AGACATG
* * **
22516912 -CTATCCTAACCTTTTTTGAAGGTTTCCTTAGACAATGTCTATCCCAAA-TTTTTTAAAAGGTTG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAGGGTCTAT-CCAAACTTTTTTAAAA-GTTG
22516975 CCTTAGAC-TGG
62 CCTTAGACAT-G
* * * * *
22516986 TCTATCCCAACCTTTTTTAAAGGTGGCCTTAGACAAGGTCTACCCCAAA-ATTTTT-AAGGTTGC
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAGGGTCTA-TCCAAACTTTTTTAAAAGTTGC
22517049 CTTAGACGAT-
63 CTTAGAC-ATG
* * ** **
22517059 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACATGGTCTATCCCTACTTTTTTAAAAGGTTAT
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGACAGGGTCTATCCAAACTTTTTTAAAA-GTTGC
22517124 CTTAGAC-TGG
63 CTTAGACAT-G
* * * *
22517134 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTTTATCCTAACCTTTTTCAAAAGTTGGCA
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGGTCTATCC-AAACTTTTTTAAAAGTT-GCC
*
22517198 TT-GACTAGG
64 TTAGAC-ATG
*
22517207 TCTATCCCAACCATTTTTAAAGGTGGCCTT
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTT
22517237 GACTAGGTCT
Statistics
Matches: 412, Mismatches: 86, Indels: 65
0.73 0.15 0.12
Matches are distributed among these distances:
64 10 0.02
65 6 0.01
66 14 0.03
67 11 0.03
68 5 0.01
69 17 0.04
70 67 0.16
71 21 0.05
72 35 0.08
73 132 0.32
74 17 0.04
75 77 0.19
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (72 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGGTCTATCCAAACTTTTTTAAAAGTTGCCTT
AGACATG
Done.