Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 71 of 311
Found at i:22029103 original size:122 final size:119
Alignment explanation
Indices: 22028904--22029126 Score: 306
Period size: 122 Copynumber: 1.8 Consensus size: 119
22028894 CACAATAACA
* *
22028904 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCTAATCTCAATTTAACACAGAATGTA
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTCCTAATCTCAATTTAACACAGAATGTA
*
22028969 TTATAACTAACCT-AGAAATGCAAATTAAATGATAGACATTGGTATGGTAATAGC
66 TGATAACTAACCTAAG-AATGCAAATTAAATGATAGACATTGGTATGGTAATAGC
* * * ** *
22029023 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACA-TGAAA
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGT-TTCCTAAT--CTCAATTTAACACAG-AA
22029087 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
62 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
22029127 AAAATTAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
119 32 0.36
120 7 0.08
121 1 0.01
122 48 0.53
123 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.30
Consensus pattern (119 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTCCTAATCTCAATTTAACACAGAATGTA
TGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGTATGGTAATAGC
Found at i:22041739 original size:13 final size:13
Alignment explanation
Indices: 22041721--22041746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22041711 GTTGTTTATT
22041721 AACTAATTAACTA
1 AACTAATTAACTA
22041734 AACTAATTAACTA
1 AACTAATTAACTA
22041747 GCTAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AACTAATTAACTA
Found at i:22043774 original size:40 final size:40
Alignment explanation
Indices: 22043536--22043760 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
22043526 TTGAATGATG
* * * *
22043536 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22043576 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
22043616 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22043655 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22043695 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22043736 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22043761 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22043782 original size:119 final size:119
Alignment explanation
Indices: 22043536--22043793 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
22043526 TTGAATGATG
* *
22043536 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
22043601 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
22043655 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
22043718 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
22043775 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22043794 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:22053205 original size:38 final size:38
Alignment explanation
Indices: 22053161--22053318 Score: 196
Period size: 38 Copynumber: 4.1 Consensus size: 38
22053151 TTTAAACTCA
*
22053161 GATATAATACCAGCAGTAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCAGTAAGCCTGCGGGATTTAACCCG
*
22053199 GATATAATACCAGCACG-AAGCCTACGGGATTTAACCCG
1 GATATAATACCAGCA-GTAAGCCTGCGGGATTTAACCCG
* *
22053237 AATATAATACCAAC-GTGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCAGT-AAGCCTGCGGGATTTAACCCG
* *
22053275 GATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCAGTA-AGCCTGCGGG-ATTTAA-CCCG
22053315 GATA
1 GATA
22053319 CACATCAAAT
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 88 0.85
39 6 0.06
40 8 0.08
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
GATATAATACCAGCAGTAAGCCTGCGGGATTTAACCCG
Found at i:22053263 original size:76 final size:78
Alignment explanation
Indices: 22053115--22053289 Score: 223
Period size: 76 Copynumber: 2.3 Consensus size: 78
22053105 CAAGGTATAA
* * * * * * * *
22053115 AACCCGAACATAACACCAGCACGAAGCTTATGGGACTTTAAACTCAGATATAATACCAGCAGTAG
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAACAGTAA
22053180 GCCTGCGGGATTT
66 GCCTGCGGGATTT
22053193 AACCCGGATATAATACCAGCACGAAGCCTACGGGA-TTT-AACCC-GAATATAATACCAAC-GTG
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAG-ATATAATACCAACAGT-
22053254 AAGCCTGCGGGATTT
64 AAGCCTGCGGGATTT
*
22053269 AACCCGGATATAATTCCAGCA
1 AACCCGGATATAATACCAGCA
22053290 TATAGCCTGC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
75 3 0.03
76 50 0.58
77 3 0.03
78 30 0.35
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (78 bp):
AACCCGGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAACAGTAA
GCCTGCGGGATTT
Found at i:22057358 original size:21 final size:21
Alignment explanation
Indices: 22057329--22057379 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
22057319 TTTCACGATT
*
22057329 CACATGGCCTGGCCGTTGACC
1 CACATGGCCTGGCCATTGACC
*
22057350 CATATGGCCTGGCCATTGACC
1 CACATGGCCTGGCCATTGACC
22057371 CACATGGCC
1 CACATGGCC
22057380 GTGTGCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.37, G:0.25, T:0.20
Consensus pattern (21 bp):
CACATGGCCTGGCCATTGACC
Found at i:22062069 original size:40 final size:40
Alignment explanation
Indices: 22061975--22062198 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
22061965 TATTCGAATG
*
22061975 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
22062016 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
22062056 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
22062096 ATATCCGGGCTAA-AACCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
22062135 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACA
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
22062175 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
22062199 CTTGCGCAAG
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
39 38 0.24
40 89 0.57
41 29 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:22062154 original size:79 final size:80
Alignment explanation
Indices: 22061975--22062234 Score: 294
Period size: 79 Copynumber: 3.3 Consensus size: 80
22061965 TATTCGAATG
* * * *
22061975 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGAACCGAAGGC
*
22062040 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
22062056 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAA-AACCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAACCGAAGGCA
* *
22062120 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
22062135 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACAACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAACCGAAGGCA
* * * *
22062200 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
22062214 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
22062235 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 15 0.10
79 79 0.52
80 27 0.18
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAACCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:22062188 original size:119 final size:121
Alignment explanation
Indices: 22061975--22062198 Score: 303
Period size: 119 Copynumber: 1.9 Consensus size: 121
22061965 TATTCGAATG
** * *
22061975 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
22062040 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCAACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
22062096 ATATCCGGGCTAA-AACCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
22062158 CATTTATGCTAG-TGACAACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCGAGTTG-CAACATCCGGGCTAAGACCCGAAGGC
22062199 CTTGCGCAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 57 0.63
120 17 0.19
121 13 0.14
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCAACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:22070248 original size:40 final size:40
Alignment explanation
Indices: 22070154--22070377 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
22070144 TATTCGAATG
* *
22070154 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
22070195 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
22070235 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
22070275 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
22070315 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAC-
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
22070354 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22070378 CTTGCGCAAG
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 23 0.14
40 107 0.67
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:22070334 original size:80 final size:79
Alignment explanation
Indices: 22070154--22070413 Score: 292
Period size: 80 Copynumber: 3.3 Consensus size: 79
22070144 TATTCGAATG
* * * *
22070154 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGA-TATATCCGGGCTAAGACCCGAAGGC
*
22070219 ATTCGTGCGAGTTGCT
64 ATTCGTGCGAGTCGCT
* * *
22070235 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-TATATCCGGGCTAAGACCCGAAGGCA
* *
22070300 TTTGTGCTAG-CGACT
65 TTCGTGCGAGTCG-CT
* * * *
22070315 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACACATCCGGGCTAAGACCCGAAGGCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATATCCGGGCTAAGACCCGAAGGCAT
* * * *
22070380 T-GCGCAAGTAGTT
66 TCGTGCGAGTCGCT
*
22070393 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
22070414 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
77 14 0.09
78 12 0.08
79 26 0.17
80 70 0.45
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTCGCT
Found at i:22074098 original size:40 final size:41
Alignment explanation
Indices: 22074004--22074228 Score: 178
Period size: 40 Copynumber: 5.6 Consensus size: 41
22073994 TATTCGAATG
* *
22074004 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGGTGACT
* * * * * *
22074045 ATAACCAGACTAAGATCCAAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACT
* * * *
22074085 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACT
* * * *
22074125 ATATCCGGGCTAA-AACCTGAAGGCATTTGTGCTA-GCGACA
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCGAGGTGACT
* * *
22074165 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTA-GTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGGTGACT
*
22074205 ACATCCGGGCTAAGA-CACGAAGGC
1 ATATCCGGGCTAAGATC-CGAAGGC
22074229 CTTGCGCAAG
Statistics
Matches: 151, Mismatches: 26, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
39 5 0.03
40 115 0.76
41 30 0.20
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACT
Found at i:22074227 original size:80 final size:79
Alignment explanation
Indices: 22074004--22074228 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
22073994 TATTCGAATG
* * * * *
22074004 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGA-CCGAAGGC
* *
22074069 ATTCGTGCGAGTTGCT
64 ATTCGTGCGAGTCGCA
* * * *
22074085 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACC-GAAGGCA
* *
22074150 TTTGTGCTAG-CGACA
65 TTCGTGCGAGTCG-CA
* * *
22074165 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACACGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAC-CGAAGGC
22074229 CTTGCGCAAG
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
79 3 0.02
80 85 0.70
81 33 0.27
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCGAAGGCAT
TCGTGCGAGTCGCA
Found at i:22078754 original size:13 final size:13
Alignment explanation
Indices: 22078736--22078760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22078726 TTTAAGAAAG
22078736 TTTATTTTTATTT
1 TTTATTTTTATTT
22078749 TTTATTTTTATT
1 TTTATTTTTATT
22078761 ATTAATTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:22080507 original size:11 final size:10
Alignment explanation
Indices: 22080481--22080514 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22080471 GGAGAGCACC
*
22080481 AAGAGTCAAA
1 AAGAGCCAAA
22080491 AAGAGCCAAA
1 AAGAGCCAAA
22080501 AATGAGCCAAA
1 AA-GAGCCAAA
22080512 AAG
1 AAG
22080515 GGACAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:22088265 original size:14 final size:15
Alignment explanation
Indices: 22088246--22088276 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22088236 ATTTGACTAG
22088246 TTCTTAATT-ATGTT
1 TTCTTAATTCATGTT
22088260 TTCTTAATTCATGTT
1 TTCTTAATTCATGTT
22088275 TT
1 TT
22088277 GATATTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTCTTAATTCATGTT
Found at i:22090077 original size:34 final size:34
Alignment explanation
Indices: 22090038--22090118 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
22090028 TTAACCCCTC
* *
22090038 TTTCAGTAACAGTAGCAGTCTGGGCCTAAATCCA
1 TTTCAGTAACAGTAGCAGTCTAGGCCTAAACCCA
* * * * *
22090072 TTTCAGTAATAGTGGTAGTCTAGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAGTCTAGGCCTAAACCCA
22090106 TTTCAGT-ACAGTA
1 TTTCAGTAACAGTA
22090119 TGCACATAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTAGGCCTAAACCCA
Found at i:22097915 original size:34 final size:34
Alignment explanation
Indices: 22097850--22097929 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
22097840 TATCCCCTTC
* *
22097850 TTCAGTAACAGTAGCAGACTGGGCCTGAGCCCGT
1 TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
* * ** *
22097884 TTCATTAACAGTGGCAGTTTGGGACTTAGCCCAT
1 TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
22097918 TTCAGT-ACAGTA
1 TTCAGTAACAGTA
22097930 TGCACACAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
Found at i:22098347 original size:20 final size:20
Alignment explanation
Indices: 22098322--22098367 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
22098312 TCAGTGATAA
22098322 TGGGCCTACAACCCATATTC
1 TGGGCCTACAACCCATATTC
22098342 TGGGCCTACAACCCATATTC
1 TGGGCCTACAACCCATATTC
22098362 TGGGCC
1 TGGGCC
22098368 CTTATGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (20 bp):
TGGGCCTACAACCCATATTC
Found at i:22105090 original size:46 final size:46
Alignment explanation
Indices: 22105023--22105143 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
22105013 CTCGTAGTCG
* *
22105023 ATGCATGTCCCAAACATGTCTTACACTGA-CTTA-TGTCTTGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGAGC--ACTGTCTCGAGGCCA
* * *
22105069 ATGCATGTCTCAGACATGTCTTACACT-AGCACTGTCTCGATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGAGCACTGTCTCGAGGCCA
22105114 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTG
22105144 GCTCTCATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.02
45 14 0.22
46 39 0.61
47 10 0.16
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGAGCACTGTCTCGAGGCCA
Found at i:22105583 original size:30 final size:30
Alignment explanation
Indices: 22105526--22105584 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
22105516 AAATTCATAT
*
22105526 CTTTGACAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
*
22105556 CTTTGACAAAATGACCATTTTATCCCTAG
1 CTTTGACAAAATGACCATTTTACCCCTAG
22105585 GCCTGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:22118210 original size:27 final size:26
Alignment explanation
Indices: 22118162--22118212 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
22118152 ATGTTTAAAA
*
22118162 ACTTTTAATTTATTATTTTTATTTTC
1 ACTTTTAATTTATTATTCTTATTTTC
22118188 ACTTTTATATTTATT-TATCTTATTT
1 ACTTTTA-ATTTATTAT-TCTTATTT
22118213 AAGTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (26 bp):
ACTTTTAATTTATTATTCTTATTTTC
Found at i:22126747 original size:55 final size:54
Alignment explanation
Indices: 22126659--22126913 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
22126649 ATTAGGGTTT
* **
22126659 AAGGATCCCATGTAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
22126714 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
22126769 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGC-ATTGGTAAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
22126822 AAGGACACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
22126871 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
22126914 GCACCCGCGT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:22126855 original size:108 final size:111
Alignment explanation
Indices: 22126659--22126866 Score: 325
Period size: 108 Copynumber: 1.9 Consensus size: 111
22126649 ATTAGGGTTT
* *
22126659 AAGGATCCCATGTAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCA
1 AAGGATCCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCA
*
22126724 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
66 TGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
* *
22126770 AAGG-TCCCATGTAATACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCATAAGGCAAGGACACC
1 AAGGATCCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACC
*
22126831 ATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
65 ATGTAAGACCATGTCAAGACATGGCAATGATAAGTT
22126867 TCAAAAGGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
107 3 0.03
108 48 0.53
109 8 0.09
110 27 0.30
111 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (111 bp):
AAGGATCCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCA
TGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
Found at i:22127131 original size:16 final size:16
Alignment explanation
Indices: 22127110--22127140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22127100 ATAAATTTGA
22127110 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
22127126 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
22127141 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:22131269 original size:28 final size:28
Alignment explanation
Indices: 22131180--22131258 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
22131170 TGGGAAGTAG
22131180 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCTTGATGGGCCATATGAATGTGA
* * *
22131208 TTGGGCCTAATAGGCCATATGAATGTGA
1 TTGGGCTTGATGGGCCATATGAATGTGA
*
22131236 TTGGGCTTGATGGGCCATGTGAA
1 TTGGGCTTGATGGGCCATATGAA
22131259 CGACATTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (28 bp):
TTGGGCTTGATGGGCCATATGAATGTGA
Found at i:22131618 original size:27 final size:27
Alignment explanation
Indices: 22131588--22132099 Score: 362
Period size: 27 Copynumber: 19.0 Consensus size: 27
22131578 TAATAAAGAG
22131588 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
22131615 AAATTACGGACAAA-ACTCTCGATTTGTA
1 AAATTAC-TA-AAATACCCTTGATTTGTA
* * * *
22131643 AAATTACCAAAATACCC-TCAATTGTG
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
22131669 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
*** *
22131696 AAATTACTAAAATACCCCCAATTTGTG
1 AAATTACTAAAATACCCTTGATTTGTA
** * *
22131723 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* *
22131750 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* *
22131777 AAATTACTGAAATA-CCTTAATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
22131803 AAATTACCAAAATACCATCTG-TTAGTA
1 AAATTACTAAAATACCCT-TGATTTGTA
* * * *
22131830 AAATTACCAAAATAGCCATGGTTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* *
22131857 AAATTACCAAAATACTCC-TGATTTGTG
1 AAATTACTAAAATAC-CCTTGATTTGTA
* * **
22131884 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* * * *
22131911 AAACTA-TCGAAATACCCTCGACTTGTA
1 AAATTACT-AAAATACCCTTGATTTGTA
* * * *
22131938 AAATTACAAAAATACGCTCGATTTGGA
1 AAATTACTAAAATACCCTTGATTTGTA
* *
22131965 AAATTA-TCGAAATACTCTTGATTTAG-A
1 AAATTACT-AAAATACCCTTGATTT-GTA
* * *
22131992 AAATTA-TAAAAATACCCCTAATTTATA
1 AAATTACT-AAAATACCCTTGATTTGTA
* *
22132019 AAATTACAAAAATACCCTTGACTTT-CA
1 AAATTACTAAAATACCCTTGA-TTTGTA
* * * *
22132046 AAAATAC-AGAAATACCATTGGTTTGCA
1 AAATTACTA-AAATACCCTTGATTTGTA
*
22132073 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
22132100 GATTTACCAA
Statistics
Matches: 387, Mismatches: 79, Indels: 38
0.77 0.16 0.08
Matches are distributed among these distances:
26 53 0.14
27 304 0.79
28 27 0.07
29 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTTGATTTGTA
Found at i:22131727 original size:54 final size:54
Alignment explanation
Indices: 22131588--22132099 Score: 403
Period size: 54 Copynumber: 9.5 Consensus size: 54
22131578 TAATAAAGAG
* * * * *
22131588 AAATTACTAAAATACCCTTGATTTGTAAAATTACGGACAAAACTCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGA-AATACCCTCGATTTGTA
* * *
22131643 AAATTACCAAAATACCCTC-AATTGTGAAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * * *
22131696 AAATTACTAAAATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
** **
22131750 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATA-CCTTAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * ** * *
22131803 AAATTACCAAAATACCATCTG-TTAGTAAAATTACCAAAATAGCCAT-GGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACTGAAATA-CCCTCGATTTGTA
* **
22131857 AAATTACCAAAATACTCCT-GATTTGTGAAATTACTGAAATACCCTCGACATGTA
1 AAATTACCAAAATAC-CCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * ** * *
22131911 AAACTATCGAAATACCCTCGACTTGTAAAATTACAAAAATACGCTCGATTTGGA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * * * *
22131965 AAATTATCGAAATACTCTTGATTTAG-AAAATTA-TAAAAATACCC-CTAATTTATA
1 AAATTACCAAAATACCCTCGATTT-GTAAAATTACT-GAAATACCCTC-GATTTGTA
* * * * * * * * *
22132019 AAATTACAAAAATACCCTTGACTTT-CAAAAATACAGAAATACCATTGGTTTGCA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGATTTGTA
** *
22132073 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
22132100 GATTTACCAA
Statistics
Matches: 365, Mismatches: 76, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
53 86 0.24
54 254 0.70
55 25 0.07
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:22131754 original size:81 final size:81
Alignment explanation
Indices: 22131588--22132099 Score: 400
Period size: 81 Copynumber: 6.3 Consensus size: 81
22131578 TAATAAAGAG
* * * * *
22131588 AAATTACTAAAATACCCTTGATTTGTAAAATTACGGACAAA-ACTCTCGATTTGTAAAATTACCA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTAC--AAAAATACCCTCGATTTGTGAAATTACCG
* *
22131652 AAATACCCTC-AATTGTG
64 AAATACCCTCGATTTGTA
* * * * *
22131669 AAATTATTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCCCAATTTGTGAAATTACCGAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACAAAAATACCCTCGATTTGTGAAATTACCGAA
*
22131734 ACACCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* ** ** * *
22131750 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATA-CCTTAATTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACAAAAATACCCTCGATTTGTGAAATTACCGAA
* *
22131814 ATACCATCTG-TTAGTA
66 ATACCCTC-GATTTGTA
* * * * *
22131830 AAATTACCAAAATAGCCAT-GGTTTGTAAAATTACCAAAATACTCCT-GATTTGTGAAATTACTG
1 AAATTACTAAAATA-CCCTCGATTTGTAAAATTACAAAAATAC-CCTCGATTTGTGAAATTACCG
**
22131893 AAATACCCTCGACATGTA
64 AAATACCCTCGATTTGTA
* * * * *
22131911 AAACTA-TCGAAATACCCTCGACTTGTAAAATTACAAAAATACGCTCGATTTG-GAAAATTATCG
1 AAATTACT-AAAATACCCTCGATTTGTAAAATTACAAAAATACCCTCGATTTGTG-AAATTACCG
* *
22131974 AAATACTCTTGATTTAG-A
64 AAATACCCTCGATTT-GTA
* * * ** * *
22131992 AAATTA-TAAAAATACCC-CTAATTTATAAAATTACAAAAATACCCTTGACTTT-CAAAAATACA
1 AAATTACT-AAAATACCCTC-GATTTGTAAAATTACAAAAATACCCTCGA-TTTGTGAAATTACC
* * * *
22132054 GAAATACCATTGGTTTGCA
63 GAAATACCCTCGATTTGTA
* *
22132073 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
22132100 GATTTACCAA
Statistics
Matches: 344, Mismatches: 69, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
79 3 0.01
80 97 0.28
81 236 0.69
82 8 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACAAAAATACCCTCGATTTGTGAAATTACCGAA
ATACCCTCGATTTGTA
Found at i:22132401 original size:41 final size:41
Alignment explanation
Indices: 22132356--22132477 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 41
22132346 CGGATGAAGA
22132356 AATTGAGGATTGCATGGTTGCTTGACGA-C-TGTGTATCCACC
1 AATTGAGGATTGCATGGTTGCTTGACGATCATG-G-ATCCACC
22132397 AATTGAGGATCT-CATGGTTGCTTGACGATCATGGATCCACC
1 AATTGAGGAT-TGCATGGTTGCTTGACGATCATGGATCCACC
* * * * ** * *
22132438 GATTAAGGATCGCGTGGTTGCTAAAGGATCGTGGATCCAC
1 AATTGAGGATTGCATGGTTGCTTGACGATCATGGATCCAC
22132478 TGGTGGCTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
41 64 0.93
42 3 0.04
43 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
AATTGAGGATTGCATGGTTGCTTGACGATCATGGATCCACC
Found at i:22135812 original size:27 final size:27
Alignment explanation
Indices: 22135782--22136339 Score: 534
Period size: 27 Copynumber: 20.7 Consensus size: 27
22135772 TAATAAAGAG
*
22135782 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
22135809 AAATTACGAAAATACTCC-TGATTTGTA
1 AAATTACCAAAATAC-CCTTGATTTGTA
* *
22135836 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
*
22135862 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* ** *
22135889 AAATTACTAAAATACCCCCGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** * * *
22135916 AAATTACCGGAACACGCTTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
22135943 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
** *
22135970 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
22135997 AAATTACCAAAATACCCTCGGTTAGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
22136024 AAATTACCAAAATACTCATGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
22136051 AAATTACCAAAATACCCATGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** *
22136078 AAATTACCAAAATACCCTTGACCTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * ** *
22136105 AAATTATCGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
22136132 AAATTATCGAAATACCCTAGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
22136159 AAATTACCAAAATACCCCTAATTTGGA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
22136186 AAATTATCGAAATACTCTTGATTTGGA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
22136213 AAATTACAAAAATACCCTT-AATT-TA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
22136238 CAAATCACAAAAATACCCTTGACTTT-TA
1 -AAATTACCAAAATACCCTTGA-TTTGTA
* * *
22136266 AAAATA-CAGAAATACCATTGTTTTGTA
1 AAATTACCA-AAATACCCTTGATTTGTA
* *
22136293 AAATTACCGAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
22136320 GATTTACCAAAACACCCTTG
1 AAATTACCAAAATACCCTTG
22136340 TAGGGTGAAA
Statistics
Matches: 438, Mismatches: 84, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 50 0.11
27 380 0.87
28 7 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:22136623 original size:41 final size:41
Alignment explanation
Indices: 22136578--22136700 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
22136568 AGAAGAAGAA
* *
22136578 ATTGAGGATCGCATGGTTGCTTGACGACTGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
22136619 ATTGAGAATCGCATGGTTGCTTGACGACCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
22136660 ATTAAGGATCACATGGTTGCTAGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
22136701 GTGGCTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:22140334 original size:39 final size:39
Alignment explanation
Indices: 22140291--22140367 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
22140281 TGGGCACAAG
22140291 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
1 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
22140330 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGG
1 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGG
22140368 AATTCACCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.03, G:0.36, T:0.35
Consensus pattern (39 bp):
GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
Found at i:22141929 original size:6 final size:6
Alignment explanation
Indices: 22141891--22142015 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
22141881 ATAAGAAATT
* * * *
22141891 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
22141940 ATTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
22141989 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
22142016 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
5 5 0.06
6 69 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:22141949 original size:31 final size:31
Alignment explanation
Indices: 22141912--22142015 Score: 145
Period size: 31 Copynumber: 3.4 Consensus size: 31
22141902 AATCAAAATG
*
22141912 AGAATCAAAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
22141943 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
* * * *
22141974 AGAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
22142005 AAAATCAGAAT
1 AGAATCAGAAT
22142016 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:22142182 original size:27 final size:28
Alignment explanation
Indices: 22142134--22142217 Score: 89
Period size: 27 Copynumber: 2.9 Consensus size: 28
22142124 GCGAAGCTGC
* *
22142134 CAGATATTGTGACGAAGTCACCAGAT-A
1 CAGATATTGTGGCGAAGCCACCAGATAA
*
22142161 CAGATATTGTGGCTAAGCCACCAGAATAGA
1 CAGATATTGTGGCGAAGCCACCAG-ATA-A
* *
22142191 TATATATATGTGGCGAAGCCACCAGAT
1 CAGATAT-TGTGGCGAAGCCACCAGAT
22142218 TGCAGCGAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
27 21 0.45
28 2 0.04
30 8 0.17
31 16 0.34
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGATATTGTGGCGAAGCCACCAGATAA
Found at i:22142547 original size:27 final size:27
Alignment explanation
Indices: 22142527--22142670 Score: 202
Period size: 27 Copynumber: 5.3 Consensus size: 27
22142517 AGGGGTAAAA
22142527 TGGTAATTTTACAAATCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*
22142554 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
22142581 TGGTAATTTTACAAA-CTAGGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTT
* * *
22142608 TGGTAATTTTGCTAATCAAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
* *
22142635 TGGTAATTTTTCTAATC-GAGGGTATTT
1 TGGTAATTTTACAAATCAG-GGGTATTT
22142662 TGGTAATTT
1 TGGTAATTT
22142671 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.01
27 106 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
TGGTAATTTTACAAATCAGGGGTATTT
Found at i:22146042 original size:28 final size:28
Alignment explanation
Indices: 22146010--22146080 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
22146000 TAAGGCCTTG
22146010 TATAGAGGTTATTTGGGTTTGAAATGAT
1 TATAGAGGTTATTTGGGTTTGAAATGAT
22146038 TATAGAGGTTATTTGGGTTTGAAATGAT
1 TATAGAGGTTATTTGGGTTTGAAATGAT
* *
22146066 TGTAAAGGTTATTTG
1 TATAGAGGTTATTTG
22146081 TATGAGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (28 bp):
TATAGAGGTTATTTGGGTTTGAAATGAT
Found at i:22154581 original size:19 final size:19
Alignment explanation
Indices: 22154557--22154597 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
22154547 AGTAATATCA
*
22154557 ATTGTATTCCACCTTCTTT
1 ATTGTATTACACCTTCTTT
*
22154576 ATTGTATTACATCTTCTTT
1 ATTGTATTACACCTTCTTT
22154595 ATT
1 ATT
22154598 TAGGTATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTGTATTACACCTTCTTT
Found at i:22156389 original size:22 final size:24
Alignment explanation
Indices: 22156359--22156414 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 24
22156349 TATTTTTTAG
*
22156359 AATATAATATTAAAAAT-A-TATA
1 AATAAAATATTAAAAATAATTATA
*
22156381 AATAAAATA--AAATATAATTATA
1 AATAAAATATTAAAAATAATTATA
*
22156403 ACTAAAATATTA
1 AATAAAATATTA
22156415 TTTTACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 20 0.74
24 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AATAAAATATTAAAAATAATTATA
Found at i:22156706 original size:23 final size:24
Alignment explanation
Indices: 22156658--22156709 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
22156648 AATTCTCAAG
*
22156658 ATTAAAAGTATATATAATATTAAAA
1 ATTAAAAG-ATATATAATATAAAAA
22156683 ATTAAAA-ATATATAAT-TAAGAAA
1 ATTAAAAGATATATAATATAA-AAA
22156706 ATTA
1 ATTA
22156710 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
25 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTAAAAGATATATAATATAAAAA
Found at i:22156738 original size:19 final size:19
Alignment explanation
Indices: 22156680--22156738 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
22156670 TATAATATTA
22156680 AAAATTAAAAATATATAAT
1 AAAATTAAAAATATATAAT
* * *
22156699 -TAA-GAAAATTATATTAA-
1 AAAATTAAAAATATA-TAAT
22156716 AAAATTAAAAATATATAAT
1 AAAATTAAAAATATATAAT
22156735 AAAA
1 AAAA
22156739 CTAATTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.27
18 10 0.33
19 12 0.40
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTAAAAATATATAAT
Found at i:22166541 original size:85 final size:86
Alignment explanation
Indices: 22166395--22166615 Score: 311
Period size: 85 Copynumber: 2.6 Consensus size: 86
22166385 TTAGACTTCA
* * * *
22166395 CCATTCATACTATCCTTTCAGAGTTCGTCAATG-ATACCATTGCTTTCCTTTAGAATCTACCACA
1 CCATTCATACTATCCCTTCAGAGTTCGTC-AGGAATACCATTTCTTTCTTTTAGAATCTACCACA
* *
22166459 AAGGTGTTTCTTTCAGAG-TTT
65 AAAGTGTTTCCTTCAGAGTTTT
** *
22166480 CCATTCATACTATCCCTTCAGAGTTCGTCAGGAATACCATTTCTTTCTTTTAGGGTTTACCACAA
1 CCATTCATACTATCCCTTCAGAGTTCGTCAGGAATACCATTTCTTTCTTTTAGAATCTACCACAA
*
22166545 AAGTGTTTCCTTCATAGTTTT
66 AAGTGTTTCCTTCAGAGTTTT
* *
22166566 CCATTCATACTATCCCTTCAGAGTTCGTCAGAAATATCATTTCTTTCTTT
1 CCATTCATACTATCCCTTCAGAGTTCGTCAGGAATACCATTTCTTTCTTT
22166616 CAAGGTCCGC
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 2 0.02
85 69 0.57
86 51 0.42
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (86 bp):
CCATTCATACTATCCCTTCAGAGTTCGTCAGGAATACCATTTCTTTCTTTTAGAATCTACCACAA
AAGTGTTTCCTTCAGAGTTTT
Found at i:22166747 original size:27 final size:27
Alignment explanation
Indices: 22166712--22166777 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
22166702 TTTAACCTAT
22166712 AGGCGTTCCTATTGT-TAGATCGCCACAA
1 AGGC-TTCC-ATTGTCTAGATCGCCACAA
* * *
22166740 AGGCTTCCATTTTCTAGATTGCCATAA
1 AGGCTTCCATTGTCTAGATCGCCACAA
22166767 AGGCTTCCATT
1 AGGCTTCCATT
22166778 TTCAAGCGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 26 0.76
28 4 0.12
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (27 bp):
AGGCTTCCATTGTCTAGATCGCCACAA
Found at i:22166778 original size:27 final size:27
Alignment explanation
Indices: 22166727--22166780 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
22166717 TTCCTATTGT
22166727 TAGATCGCCACAAAGGCTTCCATTTTC
1 TAGATCGCCACAAAGGCTTCCATTTTC
* *
22166754 TAGATTGCCATAAAGGCTTCCATTTTC
1 TAGATCGCCACAAAGGCTTCCATTTTC
22166781 AAGCGTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (27 bp):
TAGATCGCCACAAAGGCTTCCATTTTC
Found at i:22168655 original size:23 final size:24
Alignment explanation
Indices: 22168606--22168659 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
22168596 TCTTGTAATG
*
22168606 GGAAGCTCACACAGAGCCATTTCA
1 GGAAGCTCACAAAGAGCCATTTCA
*
22168630 GGAAGCTCATAAAGAGCC-TTTCA
1 GGAAGCTCACAAAGAGCCATTTCA
22168653 GGAAGCT
1 GGAAGCT
22168660 TACCCGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATTTCA
Found at i:22168740 original size:24 final size:23
Alignment explanation
Indices: 22168677--22168757 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
22168667 GCTATATAAT
22168677 GGGAAGCTCATAAGAGCCATAATC
1 GGGAAGCTCATAAGAGCCAT-ATC
* * * *
22168701 GGAAAGTTCACAAAGAACCATATC
1 GGGAAGCTCA-TAAGAGCCATATC
22168725 GGGAAGCTCATGAAGAGCC-TATC
1 GGGAAGCTCAT-AAGAGCCATATC
**
22168748 AAGAAGCTCA
1 GGGAAGCTCA
22168758 CAAAGAGCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 12 0.27
24 25 0.56
25 8 0.18
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (23 bp):
GGGAAGCTCATAAGAGCCATATC
Found at i:22168763 original size:23 final size:24
Alignment explanation
Indices: 22168708--22168765 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
22168698 ATCGGAAAGT
* **
22168708 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAGCCATATCAAGAAGC
**
22168732 TCATGAAGAGCC-TATCAAGAAGC
1 TCACAAAGAGCCATATCAAGAAGC
22168755 TCACAAAGAGC
1 TCACAAAGAGC
22168766 AATGTAACGA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (24 bp):
TCACAAAGAGCCATATCAAGAAGC
Found at i:22177463 original size:40 final size:40
Alignment explanation
Indices: 22177389--22177599 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
22177379 TCTTCGAGAT
** * *
22177389 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
22177427 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
22177467 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
22177507 TTATCCCGGATATAG-CAACTCGCACAAATGCCTTCAGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
22177547 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
22177587 TTAGCCCGGATAT
1 TTAGCCCGGATAT
22177600 CATTCGAATG
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 123 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:22186699 original size:25 final size:25
Alignment explanation
Indices: 22186671--22186731 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
22186661 GTTGTGAATT
* * *
22186671 GGTATGCTCACTCGAGCTATAGATC
1 GGTATGCTCACGCGAGCTATAAATA
*
22186696 GGTATGCTCTCGCGAGCTATAAATA
1 GGTATGCTCACGCGAGCTATAAATA
*
22186721 GGTATACTCAC
1 GGTATGCTCAC
22186732 ATGATTTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GGTATGCTCACGCGAGCTATAAATA
Found at i:22189254 original size:7 final size:7
Alignment explanation
Indices: 22189244--22189273 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
22189234 ATTCATTGGT
22189244 CATTTAA
1 CATTTAA
22189251 CATTTAA
1 CATTTAA
22189258 CATTTAA
1 CATTTAA
22189265 CATTTAA
1 CATTTAA
22189272 CA
1 CA
22189274 ATTACTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (7 bp):
CATTTAA
Found at i:22190370 original size:18 final size:18
Alignment explanation
Indices: 22190347--22190384 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
22190337 AAAAATCACT
22190347 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
22190365 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
22190384 T
1 T
22190385 TAATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:22201118 original size:24 final size:24
Alignment explanation
Indices: 22201091--22201148 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
22201081 ATAAGAGCCA
22201091 TAATCGGGAAGTTCACAAAGAACC
1 TAATCGGGAAGTTCACAAAGAACC
*
22201115 TAATCAGGAAGTTCACAAAGAACC
1 TAATCGGGAAGTTCACAAAGAACC
22201139 -ATATCGGGAA
1 TA-ATCGGGAA
22201149 TCTCCAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
TAATCGGGAAGTTCACAAAGAACC
Found at i:22201367 original size:24 final size:24
Alignment explanation
Indices: 22201316--22201373 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
22201306 TCCGAAGAGC
*
22201316 TATAACGGGAAGCTCGCTGAACCA
1 TATAACGGGAAGCTCGCAGAACCA
* *
22201340 TATAACGGGAAGCTCG-AGAAGGCT
1 TATAACGGGAAGCTCGCAGAA-CCA
22201364 TATAACGGGA
1 TATAACGGGA
22201374 CACTCATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.17
Consensus pattern (24 bp):
TATAACGGGAAGCTCGCAGAACCA
Found at i:22204205 original size:49 final size:49
Alignment explanation
Indices: 22204142--22204785 Score: 325
Period size: 49 Copynumber: 13.7 Consensus size: 49
22204132 AACACATCAA
* *
22204142 GTCGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * * *
22204191 GTCGATGCCGTGTCCCAGATAGGTTTTACACT-AGCTCTCATCTATC-AG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAG
* **
22204239 TGTCGATGCCATGTCCCAGACATGTCTTATGCTGACTTTCATATATCGAG
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* *** * * *
22204289 GCCGATGTTGTGTCCCAGACAAGTCTTACACTGGC--TC-TTTATC-AG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * *
22204334 TGTCGATGCCATGTCCTAGACAGGTCTTACACTAAATTTCATATATCGAG
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * * * * *
22204384 GCCGATGCCGTGTCCCAGATAGTTCTTACACTGGCTCTT-ATCTA-CCAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGAG
* * *
22204432 TTCCGATGCCATGTCCTAGACAGGTCTTACACTAACTTTCATATATCGA-
1 GT-CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
22204481 --C---G---TGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
22204521 TGTCGATGCCATGTCCCA-AGCAGGTCTTACACTAAC--ACACA-A-CAAG
1 -GTCGATGCCATGTCCCAGA-CAGGTCTTACACTGACTTTCATATATCGAG
* * * * * * *
22204567 CT-GACGGCATGTCCTAGATAGGTCTTACACT-AGCTTGT-ATATCTTGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAG
* * * * * *
22204615 GTCGATG-CATGTCCCAGACATGTCTTACACT-A-GTTC-TCGTCTCAAT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCAT-ATATCGAG
* * * *** *
22204661 TTCGATG-CATGTCCCAGACATGTCTTACACTGGCTGGGATATCTC-AG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* ** * * * * *
22204708 GGC-ATATACATGTCCCAAACATGTCTTACACTGGCTCTCA-ATAT-GTG
1 GTCGAT-GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* *
22204755 GTCGATG-CATGTCCCAAACATGTCTTACACT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACT
22204786 AGCACACATA
Statistics
Matches: 449, Mismatches: 104, Indels: 87
0.70 0.16 0.14
Matches are distributed among these distances:
40 31 0.07
43 3 0.01
44 24 0.05
45 7 0.02
46 98 0.22
47 12 0.03
48 70 0.16
49 195 0.43
50 9 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
Found at i:22204318 original size:98 final size:98
Alignment explanation
Indices: 22204142--22204556 Score: 500
Period size: 98 Copynumber: 4.4 Consensus size: 98
22204132 AACACATCAA
* * * *
22204142 GTCGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
* * *
22204207 AGATAGGTTTTACACTAGCTCTCATCTATCAGT
66 AGATAAGTCTTACACTGGCTCTCATCTATCAGT
* ** * **
22204240 GTCGATGCCATGTCCCAGACATGTCTTATGCTGACTTTCATATATCGAGGCCGATGTTGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
*
22204305 AGACAAGTCTTACACTGGCTCT--T-TATCAGT
66 AGATAAGTCTTACACTGGCTCTCATCTATCAGT
* *
22204335 GTCGATGCCATGTCCTAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
* *
22204400 AGAT-AGTTCTTACACTGGCTCTTATCTACCAGT
66 AGATAAG-TCTTACACTGGCTCTCATCTATCAGT
*
22204433 -TCCGATGCCATGTCCTAGACAGGTCTTACACTAACTTTCATATAT------CGA---CGTGTCC
1 GT-CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCC
* * *
22204488 CAGATAGGTCTTACACTGGCTCTCATTTATCGGT
65 CAGATAAGTCTTACACTGGCTCTCATCTATCAGT
22204522 GTCGATGCCATGTCCCA-AGCAGGTCTTACACTAAC
1 GTCGATGCCATGTCCCAGA-CAGGTCTTACACTAAC
22204557 ACACAACAAG
Statistics
Matches: 280, Mismatches: 29, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
88 1 0.00
89 64 0.23
90 2 0.01
92 3 0.01
94 2 0.01
95 82 0.29
96 1 0.00
97 2 0.01
98 123 0.44
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
AGATAAGTCTTACACTGGCTCTCATCTATCAGT
Found at i:22204447 original size:193 final size:186
Alignment explanation
Indices: 22204142--22204555 Score: 523
Period size: 193 Copynumber: 2.2 Consensus size: 186
22204132 AACACATCAA
* * * * *
22204142 GTCGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
* * **
22204207 AGATAGGTTTTACACTAGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACATGTCTTATGCT
66 AGATAGGTTTTACACTAGCTCTCATCTACCAGTGTCGATGCCATGTCCCAGACAGGTCTTACACT
*
22204272 GACTTTCATATATCGAGGCCGATGTTGTGTCCCAGACAAGTCTTACACTGG-CTC-TTTATCAGT
131 AACTTTCATATATCGA---C------GTGTCCCAGACAAGTCTTACACTGGCCTCATTTATCAGT
*
22204335 GTCGATGCCATGTCCTAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
* * *
22204400 AGATA-GTTCTTACACTGGCTCTTATCTACCAGT-TCCGATGCCATGTCCTAGACAGGTCTTACA
66 AGATAGGTT-TTACACTAGCTCTCATCTACCAGTGT-CGATGCCATGTCCCAGACAGGTCTTACA
* * *
22204463 CTAACTTTCATATATCGACGTGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCGGT
129 CTAACTTTCATATATCGACGTGTCCCAGACAAGTCTTACACTGGC-CTCATTTATCAGT
22204522 GTCGATGCCATGTCCCA-AGCAGGTCTTACACTAA
1 GTCGATGCCATGTCCCAGA-CAGGTCTTACACTAA
22204556 CACACAACAA
Statistics
Matches: 197, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
184 23 0.12
186 4 0.02
187 39 0.20
190 1 0.01
192 4 0.02
193 126 0.64
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (186 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
AGATAGGTTTTACACTAGCTCTCATCTACCAGTGTCGATGCCATGTCCCAGACAGGTCTTACACT
AACTTTCATATATCGACGTGTCCCAGACAAGTCTTACACTGGCCTCATTTATCAGT
Found at i:22204500 original size:89 final size:89
Alignment explanation
Indices: 22204392--22204556 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 89
22204382 AGGCCGATGC
* * *
22204392 CGTGTCCCAGATAGTTCTTACACTGGCTCTTATCTACCAGT-TCCGATGCCATGT-CCTAGACAG
1 CGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTACCAGTGT-CGATGCCATGTCCCAAG-CAG
22204455 GTCTTACACTAACTTTCATATATCGA
64 GTCTTACACTAACTTTCATATATCGA
* * *
22204481 CGTGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCGGTGTCGATGCCATGTCCCAAGCAGGT
1 CGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTACCAGTGTCGATGCCATGTCCCAAGCAGGT
22204546 CTTACACTAAC
66 CTTACACTAAC
22204557 ACACAACAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 63 0.93
90 5 0.07
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.31
Consensus pattern (89 bp):
CGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTACCAGTGTCGATGCCATGTCCCAAGCAGGT
CTTACACTAACTTTCATATATCGA
Found at i:22204519 original size:40 final size:40
Alignment explanation
Indices: 22204443--22204519 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
22204433 TCCGATGCCA
* *
22204443 TGTCCTAGACAGGTCTTACACTAACTTTCATATATCGACG
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCGACG
* ** *
22204483 TGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCG
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCG
22204520 GTGTCGATGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (40 bp):
TGTCCCAGACAGGTCTTACACTAACTCTCATATATCGACG
Found at i:22204640 original size:48 final size:48
Alignment explanation
Indices: 22204573--22204788 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 48
22204563 CAAGCTGACG
* * *
22204573 GCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTTGAGGTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAGGTCGAT
* ** ** **
22204621 GCATGTCCCAGACATGTCTTACACTAG-TTCT-CGTCTCAATTTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAGGTCGAT
* * * * * *
22204667 GCATGTCCCAGACATGTCTTACACTGGCTGGGATATC-TCAGGGCATAT
1 GCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAGGTC-GAT
* * * * * *
22204715 ACATGTCCCAAACATGTCTTACACTGGCTCT-CA-AT-ATGTGGTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTTGAGGTCGAT
*
22204761 GCATGTCCCAAACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
22204789 ACACATATCA
Statistics
Matches: 131, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
46 63 0.48
47 12 0.09
48 56 0.43
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
GCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAGGTCGAT
Found at i:22204703 original size:94 final size:93
Alignment explanation
Indices: 22204573--22204788 Score: 224
Period size: 94 Copynumber: 2.3 Consensus size: 93
22204563 CAAGCTGACG
* * * * * * * * *
22204573 GCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTTGAGGTC-GATGCATGTCCCAGACATG
1 GCATGTCCCAGACATGTCTTACACTAGCTGGGATATC-TCAGGGCAGATACATGTCCCAAACATG
* *
22204637 TCTTACACTAGTTCTCGTCTCA-AT-T-TCGAT
65 TCTTACACT-G-GCTC-TC-AATATGTGTCGAT
* *
22204667 GCATGTCCCAGACATGTCTTACACTGGCTGGGATATCTCAGGGCATATACATGTCCCAAACATGT
1 GCATGTCCCAGACATGTCTTACACTAGCTGGGATATCTCAGGGCAGATACATGTCCCAAACATGT
22204732 CTTACACTGGCTCTCAATATGTGGTCGAT
66 CTTACACTGGCTCTCAATATGT-GTCGAT
*
22204761 GCATGTCCCAAACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
22204789 ACACATATCA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
90 1 0.01
91 4 0.04
92 4 0.04
93 6 0.06
94 87 0.85
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (93 bp):
GCATGTCCCAGACATGTCTTACACTAGCTGGGATATCTCAGGGCAGATACATGTCCCAAACATGT
CTTACACTGGCTCTCAATATGTGTCGAT
Found at i:22210917 original size:27 final size:25
Alignment explanation
Indices: 22210878--22210971 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
22210868 CGTTCCGACC
* * *
22210878 CACAACTCGTGTGAGCAGGCCTATTTT
1 CACAGCTCATGTGAGCA-GCCTA-ATT
**
22210905 CACAGCTCATGTGAGCATTCTAATT
1 CACAGCTCATGTGAGCAGCCTAATT
* ** *
22210930 CACAGCTCATCTGAGCATTCTGATT
1 CACAGCTCATGTGAGCAGCCTAATT
*
22210955 CACAGCTCGTGTGAGCA
1 CACAGCTCATGTGAGCA
22210972 TACATGTACA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 40 0.69
26 3 0.05
27 15 0.26
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (25 bp):
CACAGCTCATGTGAGCAGCCTAATT
Found at i:22210935 original size:25 final size:25
Alignment explanation
Indices: 22210903--22210972 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
22210893 CAGGCCTATT
22210903 TTCACAGCTCATGTGAGCATTCTAA
1 TTCACAGCTCATGTGAGCATTCTAA
* *
22210928 TTCACAGCTCATCTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTAA
*
22210953 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCATGTGAGCAT
22210973 ACATGTACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATTCTAA
Found at i:22212982 original size:17 final size:17
Alignment explanation
Indices: 22212962--22212995 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22212952 GTCTCAATCG
* *
22212962 TGTGTGACACACGGCCA
1 TGTGTAACACACAGCCA
22212979 TGTGTAACACACAGCCA
1 TGTGTAACACACAGCCA
22212996 GGCGAAATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (17 bp):
TGTGTAACACACAGCCA
Found at i:22216241 original size:19 final size:19
Alignment explanation
Indices: 22216219--22216258 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22216209 ATTGTTACGT
*
22216219 GGCCTTGGG-TATGTTACAC
1 GGCC-TGGGCTATGTCACAC
22216238 GGCCTGGGCTATGTCACAC
1 GGCCTGGGCTATGTCACAC
22216257 GG
1 GG
22216259 TCGTGTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (19 bp):
GGCCTGGGCTATGTCACAC
Found at i:22216637 original size:42 final size:42
Alignment explanation
Indices: 22216517--22216643 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
22216507 GATGGGTTAG
*
22216517 GGGTGTTACAGAGATAGGT-TAAAAGTTGTTGATGAAGGTTTATG
1 GGGTGTTA-A-AGAT-GGTATAAAAGTTGTTGATGAAGGTTTATA
* * * **
22216561 GGGTGTTAAATATGGTCTAAAAGCTACT-AGTGAAGGTTTATA
1 GGGTGTTAAAGATGGTATAAAAGTTGTTGA-TGAAGGTTTATA
** *
22216603 GGGTGTTGGAGATGGTATAGAAGTTGTTGATGAAGGTTTAT
1 GGGTGTTAAAGATGGTATAAAAGTTGTTGATGAAGGTTTAT
22216644 GTAACACCCA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.06
42 53 0.79
43 2 0.03
44 8 0.12
ACGTcount: A:0.29, C:0.03, G:0.33, T:0.35
Consensus pattern (42 bp):
GGGTGTTAAAGATGGTATAAAAGTTGTTGATGAAGGTTTATA
Found at i:22218327 original size:28 final size:28
Alignment explanation
Indices: 22218296--22218362 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
22218286 TCTTAATGAC
22218296 AATTTGAAAGTTGGATTAT-TGATTCCAT
1 AATTTGAAAGTTGGATTATAT-ATTCCAT
22218324 AATTTGAAAGTTGGATTATATATTCCAT
1 AATTTGAAAGTTGGATTATATATTCCAT
* *
22218352 ACTCTGAAAGT
1 AATTTGAAAGT
22218363 ATTTGATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (28 bp):
AATTTGAAAGTTGGATTATATATTCCAT
Found at i:22220754 original size:29 final size:29
Alignment explanation
Indices: 22220703--22220759 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
22220693 AAGGAAGAGT
* * * *
22220703 GAAGAAAGGAGGGAGTTTGAAGGTTAAAA
1 GAAGAAAGGAGAGAGTATAAAGGCTAAAA
22220732 GAAGAAAGGAGAGAGTATAAAGGCTAAA
1 GAAGAAAGGAGAGAGTATAAAGGCTAAA
22220760 GGCAGTCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.35, T:0.14
Consensus pattern (29 bp):
GAAGAAAGGAGAGAGTATAAAGGCTAAAA
Found at i:22222866 original size:43 final size:42
Alignment explanation
Indices: 22222805--22222914 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
22222795 CAATGCCAAC
*
22222805 GTCCCAGACGTGATCTTACATGTAATCAAATATCGATACC-ACT
1 GTCCCAGACGTGGTCTTACATGTAATCAAATAT-GATACCTA-T
* *
22222848 GTCCCAGACAG-GGTCTTACATGAAATCAAATATGATGCCTAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATGATACCTAT
* *
22222890 GTCCCAGATGTGGTCTTACACGTAA
1 GTCCCAGACGTGGTCTTACATGTAA
22222915 ATCATAAGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.02
42 26 0.45
43 30 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAATATGATACCTAT
Found at i:22222917 original size:43 final size:42
Alignment explanation
Indices: 22222805--22222954 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 42
22222795 CAATGCCAAC
* * *
22222805 GTCCCAGACGTGATCTTACATGT-AATCAAATATCGATACCACT
1 GTCCCAGATGTGGTCTTACACGTAAATCAAATAT-GATACCA-T
* * *
22222848 GTCCCAGACAG-GGTCTTACATG-AAATCAAATATGATGCCTAT
1 GTCCCAGA-TGTGGTCTTACACGTAAATCAAATATGATACC-AT
*
22222890 GTCCCAGATGTGGTCTTACACGTAAATCATAAGTCA--ATTCCAAT
1 GTCCCAGATGTGGTCTTACACGTAAATCA-AA-T-ATGATACC-AT
*
22222934 GTCCCAGATGTGGGCTTACAC
1 GTCCCAGATGTGGTCTTACAC
22222955 AATAACACAT
Statistics
Matches: 91, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 35 0.38
44 29 0.32
45 1 0.01
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGATGTGGTCTTACACGTAAATCAAATATGATACCAT
Found at i:22235606 original size:46 final size:46
Alignment explanation
Indices: 22235556--22235731 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
22235546 TGGTTGAGCA
22235556 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
22235602 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22235647 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22235695 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22235732 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.06
46 59 0.54
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22235712 original size:93 final size:93
Alignment explanation
Indices: 22235553--22235724 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
22235543 GGATGGTTGA
* *
22235553 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
22235618 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
22235646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
22235710 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
22235725 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22237190 original size:29 final size:29
Alignment explanation
Indices: 22237158--22237250 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
22237148 AATTTGATAA
22237158 TGAAAGTTGAAAGAAGGAAGTAGGGAGCT
1 TGAAAGTTGAAAGAAGGAAGTAGGGAGCT
* ** ** * *
22237187 TGAAGGAAGAGTGAA-GAAATGAGGGAGTT
1 TGAAAGTTGAAAGAAGGAAGT-AGGGAGCT
* * *
22237216 TGAAGGTTGAAAGAAGAAAGCAGGGAGCT
1 TGAAAGTTGAAAGAAGGAAGTAGGGAGCT
22237245 TGAAAG
1 TGAAAG
22237251 CTAAAAGTAG
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
28 4 0.09
29 40 0.87
30 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.39, T:0.16
Consensus pattern (29 bp):
TGAAAGTTGAAAGAAGGAAGTAGGGAGCT
Found at i:22237257 original size:29 final size:29
Alignment explanation
Indices: 22237199--22237257 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
22237189 AAGGAAGAGT
* * * *
22237199 GAAGAAATGAGGGAGTTTGAAGGTTGAAA
1 GAAGAAATGAGGGAGCTTGAAAGCTAAAA
22237228 GAAGAAA-GCAGGGAGCTTGAAAGCTAAAA
1 GAAGAAATG-AGGGAGCTTGAAAGCTAAAA
22237257 G
1 G
22237258 TAGTTATGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.44, C:0.05, G:0.36, T:0.15
Consensus pattern (29 bp):
GAAGAAATGAGGGAGCTTGAAAGCTAAAA
Found at i:22242333 original size:29 final size:29
Alignment explanation
Indices: 22242268--22242352 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
22242258 AATGAAAGTG
*
22242268 GAAAGAAGAAAGTAGGGAGCTTGAAGGAA
1 GAAAGAAGAAAGGAGGGAGCTTGAAGGAA
** * **
22242297 GAGTGAAGAAAGGAGGGAGTTTGAAGGTT
1 GAAAGAAGAAAGGAGGGAGCTTGAAGGAA
* *
22242326 GAAAGAAGAAAAGAGGGAGCATGAAGG
1 GAAAGAAGAAAGGAGGGAGCTTGAAGG
22242353 CTAAAGGTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.45, C:0.02, G:0.41, T:0.12
Consensus pattern (29 bp):
GAAAGAAGAAAGGAGGGAGCTTGAAGGAA
Found at i:22242857 original size:627 final size:631
Alignment explanation
Indices: 22241718--22245482 Score: 2933
Period size: 627 Copynumber: 5.9 Consensus size: 631
22241708 ATTTTTGTAG
* ** * **
22241718 GTGTAATTTTCATTTTTTTTTCATTTTGTCTTATTCTAAATAAAAAAGTAAAACTATATTAGTCC
1 GTGTAATTTTCATATCCTTTTCATTTTGTCTTA-T-T-AAT--AAAA--AAAATTATATTAGTGG
* * * *
22241783 AACGAAGACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATTGTTTTATATT
59 GACTAAAACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATT
* *
22241848 ACTAATCACCATATTTACTCGTATTATTATAGTATTTGAATTCAATTTTTTTGATAAGAGACTTT
124 ACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTT
* ** * * *
22241913 GTTGGAGGTTGCATTATAGGTTATTGTGATCAATTTTAGATGTAATGAATTTGAGACGTGCATGT
189 GTTGGAGGTGGCATTGCAGGTTATTGTGATCAATTTAAGACGT-A--CA--T-A-A--T-C-T-T
* * * * *
22241978 CACTACTATAACACCATATTTCCCCAAAATA-ATGTGTAAAAATTAGCATGGAACAATTAACTAG
242 ---TACTATAATACCATATTTCCCCAAAA-ACA--TGT-AACATTAGCAGGGAACAAATAACCAG
* *
22242042 A-GAGGAAATTAACTACCAAAATA-AGGAACATAATAGGACCATAATACCATGGACTCATAAAGA
300 AGGA-G-AATCAACTACC-AAATAGA-GAACATAATAGGACCATAACACCATGGACTCATAAAGA
* * ** * * * *
22242105 ATTTAAACAACTTTTGACCTAAAGCAGAACGTGCGAGAAGGTAGAGAATCGT-TGTTTAAGCGAT
361 CTTTAAACAGCTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAATC-TCTGTATAAGCGGT
*
22242169 TATAAAAAGGGCTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAGC
425 TATAAAAAGGGCTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAAC
* * * *
22242234 AATGAAAAGGATGAGAAATTTGATAATGAAAGTGGAAAGAAGAAAGTAGGGAGCTTGAAGGAAGA
490 AATGAAAAGGATGAGAAATATGATGATGAAAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGA
22242299 GTGAAGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAAAGAGGGAGCATGAAGGCTAAAGGTAGT
555 GTGAAGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAAAGAGGGAGCATGAAGGCTAAAGGTAGT
22242364 CTTGTGATTTTT
620 CTTGTGATTTTT
22242376 GTGTAATTTTCATATCCTTTTCATTTTGTCTTATT-ATAAAAAAAATTATATTAGTGGGACTAAA
1 GTGTAATTTTCATATCCTTTTCATTTTGTCTTATTAATAAAAAAAATTATATTAGTGGGACTAAA
* * *
22242440 ACCACAATCTAACCATTTTTTATATTGAAAATGCTAACTATTGTTATGGTTTTACATTACTAATC
66 ACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATC
* * * ** *
22242505 ACCATATTTGCTCATATTATTATAATATTTATATTCAATTTTTTCGACAAGAGACTTTGTTGGAG
131 ACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAG
* *
22242570 GTGGCATTGCAGGTTATTTTGATCAATTTAAGACGTACAT-ATCTTTACTATAATACCATATTCC
196 GTGGCATTGCAGGTTATTGTGATCAATTTAAGACGTACATAATCTTTACTATAATACCATATTTC
*
22242634 CCCAAAAACATGT-ACATTAGCAGGGAACAAATAACCAGAGGAGAATCAACTTCCAAATAGAGAA
261 CCCAAAAACATGTAACATTAGCAGGGAACAAATAACCAGAGGAGAATCAACTACCAAATAGAGAA
* * * *
22242698 CATAATAGGAACATAATACCATGGACTCATAAACACTTTAAACAGCTTTTCTCCTAAATCAAAAT
326 CATAATAGGACCATAACACCATGGACTCATAAAGACTTTAAACAGCTTTTCTCCTAAATCAGAAT
* * * *
22242763 GTGCGAG-AGGTAGAGAATCTCTGTATAAGCGGTTATAAAAAGGCCTAACCATTCGAGAGATTCT
391 GTGCGAGAAGGTAGAGAATCTCTGTATAAGCGGTTATAAAAAGGGCTAACCATGCAAGAGTTTCT
* * *
22242827 ATTCAAAATATTTTAGAGTCGAAAATAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAGA
456 ATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAAA
* * * * * **
22242892 GTTGAAGGAAGAAAGGAGGGAGCTTGAA-G--G-CT-----AA--AGGCAGTCTTG-TGATT-TT
521 GTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTGAAGAAAGGAGGGAGT-TTGAAGGTTGAA
* * * **** * * *
22242944 TG-TG--TA-A-TTTTCAT--AGG-T----GTAAT-TTTTAGA-TTCT
585 AGAAGAAAAGAGGGAGCATGAAGGCTAAAGGTAGTCTTGT-GATTTTT
* * * ** ** * *** * * * ****
22242978 -TATAA-TTT--TGT-C--TT-A--TTCT-AAAAAAAAATTTATATT---A-GAG-GGACTAAAA
1 GTGTAATTTTCATATCCTTTTCATTTTGTCTTATTAATAAAAAAAATTATATTAGTGGGACTAAA
* * ** ** * * **
22243027 CCACA-ATATA-ATCGTTTTTTATAT-TGAAAATTCTAACT-GTTGTT-TTCA---TTTTATATT
66 AC-CACA-ATATAACCATTTTT-TATATTGAAA--AT-GCTAACTGTTGTT-ATGGTTTTATATT
* * * * *
22243084 ACTAATCACCAAATTTGCTCGTTTTATTAAACTATTTGGATTCAATTTTTTCGATAAGAGACATT
124 ACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGAC-TT
* * *
22243149 T-TTTGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACGTAATGAAATTGAGATGTACATG
188 TGTTGGAGGTGGCATTGCAGGTTATTGTGATCAATTT-A-A-G--ACG----T-ACA--TA-A--
* * *
22243213 TCTTTATTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAAAG
238 TCTTTACTATAATACCATATTTCCCCAAAAACATGT-AACATTAGCAGGGAACAAATAAC--CAG
* * * * * *
22243278 AGGAGAATAAACTGCCAAATAGGGAACATAATAGGACCATAAAACCATGGACTCAAAAAGATTTT
300 AGGAGAATCAACTACCAAATAGAGAACATAATAGGACCATAACACCATGGACTCATAAAGACTTT
* * *
22243343 AAACAACTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAATCGC--TAT-A---GTTGTAA
365 AAACAGCTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAATCTCTGTATAAGCGGTTATAA
* ** * * *
22243402 AAAGGGTTCCCCACGCAAGAGTCTCTATTCCAAACATTTTAGAGTTC-AAAATAAGTAAACAGTG
430 AAAGGGCTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAG-TCGAAAATAAGTAAACAATG
* * * *
22243466 AAAAGGATGAGAAATATAATGACGAAAGTTCAAGGAAGAAAGTAGGGAGCTTGAAGGAAAAGTGA
494 AAAAGGATGAGAAATATGATGATGAAAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTGA
* * * *
22243531 AGAAATGAGGGAGTTTGAAGGTTGAAAGAAGAAAGGAGGGTGCATGAAGGCTAAAGGCAGTCTTG
559 AGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAAAGAGGGAGCATGAAGGCTAAAGGTAGTCTTG
*
22243596 TAATTTTCGT
624 TGATTTT--T
* * *
22243606 ACGTGTAATTTTCAGATTCC-TGTGATTTTGTCTTATTCTAAATAAAAAAGAAAAATTATATTAG
1 --GTGTAATTTTCATA-TCCTTTTCATTTTGTCTTA-T-T-AAT---AAA-AAAAATTATATTAG
** * * * * *
22243670 TGGGACTAAAACCACGGTTTAACTATTTTCTATATTTAAAATGCTAACTGTTGATATGGTTTTAT
56 TGGGACTAAAACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTAT
22243735 ATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGAC
121 ATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGAC
* * * * *
22243800 TTT-TTTGATGTGGCATTACAGGTTATTGTAATCAATTTGAGACGTAATGAATTTGAGACATACA
186 TTTGTTGGAGGTGGCATTGCAGGTTATTGTGATCAATTT-A-A-G--ACG----T---ACATA-A
* * *
22243864 TGTCTTTATTATAATACCATAATTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACCAG
238 --TCTTTACTATAATACCATATTTCCCCAAAAACATGT-AACATTAGCAGGGAACAAATAACCAG
* * *
22243929 AAAGCAAAATCAACTACCAAATATG-GAACATAATAGGACCATAACACCATGGACTCATAAAGGC
300 --AGGAGAATCAACTACCAAATA-GAGAACATAATAGGACCATAACACCATGGACTCATAAAGAC
* * * * * *
22243993 TTTAAACAGATTTTCTCCTAAATCAAAATGTGCGAGAAGGT-GCATAATCTTTATATAAGGGGTT
362 TTTAAACAGCTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAG-AGAATCTCTGTATAAGCGGTT
* * * **
22244057 ATAAAAAGGGCTGACCATTCAACAGTTTCTATTCCAAACATTTTAGAGTAAAAAATAAGTAAACA
426 ATAAAAAGGGCTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAACA
* * * * * * *
22244122 ATGAAAATGATGAGAAATATGATTATGAGAGTTGAAAGAGGAAATTAGGGAGCTCGAAGGAAGAG
491 ATGAAAAGGATGAGAAATATGATGATGAAAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAG
** * * * * *
22244187 TGTTGAAAGGAGGGAGTTTGAAGGTTGAAAGAA-AAAAGGACGAAGCTTGAAGGCTAAAGGCAAT
556 TGAAGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAAA-GAGGGAGCATGAAGGCTAAAGGTAGT
22244251 CTTGTGATTTTT
620 CTTGTGATTTTT
* * *
22244263 GTATAATTTTCGTAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTTTAAATAAAAAAAAG
1 GTGTAATTTTC---------A----T--ATCCTTTTCATTTTGTCTTA--TT-AAT---------
* * ** * * * *
22244328 AAAGAAAAATTATATTAGTAGGACTTAGGCCATAGTATAACCGTTTTTTATATTGAAAATGTTAA
39 AAA-AAAAATTATATTAGTGGGACTAAAACCACAATATAACCATTTTTTATATTGAAAATGCTAA
* *
22244393 CTGTTGTTATGGTTTTATATTTCTAATCACCATATTTGCTCGTATTATTATAGTATTTGGATTCA
103 CTGTTGTTATGGTTTTATATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCA
* * * * *
22244458 ATTATTTCAATAAGAGATTTTGTTGAAGGTGGCATTGTAGGTTATTGTCATAAATTTGAGGCATA
168 ATTTTTTCGATAAGAGACTTTGTTGGAGGTGGCATTGCAGGTTATTG---------T---G----
* * * * * *
22244523 ATGAATTTGAGACGTACAT-GTCTTTACTATAATACCATATTTCTCCAAGAACGTGTAACATTAG
217 ATCAATTTAAGACGTACATAATCTTTACTATAATACCATATTTCCCCAAAAACATGTAACATTAG
* * * * *
22244587 TAGGGAACAAATAACTCGAGTGGAGAATCAATTGCCAAATATG-GAACATAATAAGACCATAACA
282 CAGGGAACAAATAAC-C-AGAGGAGAATCAACTACCAAATA-GAGAACATAATAGGACCATAACA
* * * ** * *
22244651 CCATTGACTCAT-AAGACTTTAAACAG-TTTTCTCTTAAAGCAGAATGTATGAGAAGGTACAAAA
344 CCATGGACTCATAAAGACTTTAAACAGCTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAA
** * * *
22244714 TCGATGTATAAACGGTTATAAAAAGGGCTGACCATGCAATAGTTTCTATTCCAAACATTTTAGAG
409 TCTCTGTATAAGCGGTTATAAAAAGGGCTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAG
* * * *
22244779 TCGAAAATAAGTAAACAATGAAAAGAATGAGAAACACGATGATGAGAGTTGAAGGAAGAAAGTAG
474 TCGAAAATAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAAAGTTGAAGGAAGAAAGTAG
*
22244844 GGAGCTTGAAGGAAGAGTGAAGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAATGAGGGAGCAT
539 GGAGCTTGAAGGAAGAGTGAAGAAAGGAGGGAGTTTGAAGGTTGAAAGAAGAAAAGAGGGAGCAT
22244909 GAAGGCTAAAGGCT-GTCTTGTGATTTTT
604 GAAGGCTAAAGG-TAGTCTTGTGATTTTT
** * **
22244937 GTGTAATTTTCGTAGTGTAATTTTTAGATTCTTGTGATTTTATCTTATTCTTAAAAAAAATTATA
1 GTGTAATTTTC--A---T-ATCCTT---TTC-----ATTTTGTCTTATTAATAAAAAAAATTATA
* * * *
22245002 TTAGTGGGACTAAAACCACAATAAAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGG-T
52 TTAGTGGGACTAAAACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTT
* * *
22245066 TTATATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTGAATTATTTCGATAAT
117 TTATATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAG
* ** * * * *
22245131 AGACTTTGTTAGAGGTGAAATTGCAGGTTATTGTGATCAATTTGAGACATA-ATGAAT-TTGA-G
182 AGACTTTGTTGGAGGTGGCATTGCAGGTTATTGTGATCAATTTAAGACGTACAT-AATCTTTACT
*** * ** * * ** *
22245193 A-CGGA-CATGTCTTTACTATAATACCA--T-A-ATT--C------CTCA-AA--A-AGCAGAAT
246 ATAATACCATAT-TTCCCCA-AA-AACATGTAACATTAGCAGGGAACAAATAACCAGAGGAGAAT
* *
22245240 CAACTACCAAATATAGAACATAATAGGACCATAACACCATGGGCTCATAAAGACTTTAAACAGCT
308 CAACTACCAAATAGAGAACATAATAGGACCATAACACCATGGACTCATAAAGACTTTAAACAGCT
* * * * * *
22245305 TTTCTCCTAAATCAGAATGTGTGAGAAGGTACAGAATTTTTATATAAGCGGTTATAAAAAGGACT
373 TTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAATCTCTGTATAAGCGGTTATAAAAAGGGCT
*
22245370 AACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTGGAAAATAAGTAAACAATGAAAAGGATG
438 AACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATGAAAAGGATG
*
22245435 AGAAATATGATGAT-AAGAGTTGAAGGAAGAAAGGAGGGAGCTTGAAGG
503 AGAAATATGATGATGAA-AGTTGAAGGAAGAAAGTAGGGAGCTTGAAGG
22245483 CTAAAGGCGT
Statistics
Matches: 2517, Mismatches: 415, Indels: 381
0.76 0.13 0.12
Matches are distributed among these distances:
586 95 0.04
587 22 0.01
588 12 0.00
589 7 0.00
590 2 0.00
591 3 0.00
592 8 0.00
594 1 0.00
595 3 0.00
596 2 0.00
597 1 0.00
598 3 0.00
600 4 0.00
601 109 0.04
602 42 0.02
603 6 0.00
604 23 0.01
605 4 0.00
606 90 0.04
607 14 0.01
608 3 0.00
610 5 0.00
611 4 0.00
612 10 0.00
613 1 0.00
614 2 0.00
615 1 0.00
616 9 0.00
617 4 0.00
618 6 0.00
620 3 0.00
621 1 0.00
623 1 0.00
624 1 0.00
625 51 0.02
626 23 0.01
627 292 0.12
628 72 0.03
629 10 0.00
630 25 0.01
631 8 0.00
632 6 0.00
633 1 0.00
634 25 0.01
635 1 0.00
636 1 0.00
637 2 0.00
638 2 0.00
639 4 0.00
640 9 0.00
641 7 0.00
642 5 0.00
643 19 0.01
644 3 0.00
645 1 0.00
647 3 0.00
648 3 0.00
649 1 0.00
650 169 0.07
651 9 0.00
652 14 0.01
653 226 0.09
654 69 0.03
655 16 0.01
656 2 0.00
657 2 0.00
658 34 0.01
659 259 0.10
660 65 0.03
661 3 0.00
664 1 0.00
665 4 0.00
666 2 0.00
667 1 0.00
668 1 0.00
669 3 0.00
670 22 0.01
671 4 0.00
673 10 0.00
674 231 0.09
675 16 0.01
676 206 0.08
677 53 0.02
678 2 0.00
681 4 0.00
684 1 0.00
686 1 0.00
688 2 0.00
690 1 0.00
691 1 0.00
693 7 0.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (631 bp):
GTGTAATTTTCATATCCTTTTCATTTTGTCTTATTAATAAAAAAAATTATATTAGTGGGACTAAA
ACCACAATATAACCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATC
ACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAG
GTGGCATTGCAGGTTATTGTGATCAATTTAAGACGTACATAATCTTTACTATAATACCATATTTC
CCCAAAAACATGTAACATTAGCAGGGAACAAATAACCAGAGGAGAATCAACTACCAAATAGAGAA
CATAATAGGACCATAACACCATGGACTCATAAAGACTTTAAACAGCTTTTCTCCTAAATCAGAAT
GTGCGAGAAGGTAGAGAATCTCTGTATAAGCGGTTATAAAAAGGGCTAACCATGCAAGAGTTTCT
ATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAAA
GTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTGAAGAAAGGAGGGAGTTTGAAGGTTGAAA
GAAGAAAAGAGGGAGCATGAAGGCTAAAGGTAGTCTTGTGATTTTT
Found at i:22243477 original size:586 final size:573
Alignment explanation
Indices: 22242398--22243522 Score: 1328
Period size: 586 Copynumber: 1.9 Consensus size: 573
22242388 TATCCTTTTC
* *
22242398 ATTTTGTCTTATTATAAAAAAAATTATATTAGTGGGACTAAAACCACAATCTAACCATTTTTTAT
1 ATTTTGTCTTATTATAAAAAAAATTATATTAGAGGGACTAAAACCACAATATAACCATTTTTTAT
** *
22242463 ATTGAAAATGCTAACTATTGTTATGGTTTTACATTACTAATCACCATATTTGCTCATATTATTAT
66 ATTGAAAATGCTAACTATTGTTATCATTTTACATTACTAATCACCAAATTTGCTCATATTATTAT
* *
22242528 AATATTTATATTCAATTTTTTCGACAAGAGACTTTGTTGGAGGTGGCATTGCAGGTTATTTTGAT
131 AATATTTAGATTCAATTTTTTCGACAAGAGACTTTGTTGGAGGTGGCATTGCAGGTTATTGTGAT
22242593 CAATTTAAGACGTACATATCTTTACTATAATACCATATTCCCCCAAAAACATGTACATTAGCAGG
196 CAATTTAAGACGTACATATCTTTACTATAATACCATATTCCCCCAAAAACATGTACATTAGCAGG
* * * *
22242658 GAACAAATAACCAGAGGAGAATCAACTTCCAAATAGAGAACATAATAGGAACATAATACCATGGA
261 GAACAAATAACAAGAGGAGAATAAACTGCCAAATAGAGAACATAATAGGAACATAAAACCATGGA
* * *
22242723 CTCATAAACACTTTAAACAGCTTTTCTCCTAAATCAAAATGTGCGAGAGGTAGAGAATCTCTGTA
326 CTCAAAAACACTTTAAACAACTTTTCTCCTAAATCAAAATGTGCGAGAGGTAGAGAATCGC-GTA
** * *
22242788 TAAGCGGTTATAAAAAGGCCTAACCATTCGAGAGATTCTATTCAAAATATTTTAGAGTCGAAAAT
390 TAA--GGTTATAAAAAGGCCTAACCACGCAAGAGATTCTATTCAAAACATTTTAGAGTCGAAAAT
22242853 AAGTAAACAATGAAAAGGATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGGAGGGAGCTTG
453 AAGTAAAC------AAGGAT-AGAAATATGA-GATGAGAGTTGAAGGAAGAAAGGAGGGAGCTTG
22242918 AAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCATAGGTGTAATTTTTAGATTCTTATA
510 AAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCATAGGTGTAATTTTTAGATTCTTATA
* * *
22242982 ATTTTGTCTTATTCTAAAAAAAAATTTATATTAGAGGGACTAAAACCACAATATAATCGTTTTTT
1 ATTTTGTCTTATTAT-AAAAAAAA-TTATATTAGAGGGACTAAAACCACAATATAACCATTTTTT
* * * * * *
22243047 ATATTGAAAATTCTAACTGTTGTTTTCATTTTATATTACTAATCACCAAATTTGCTCGTTTTATT
64 ATATTGAAAATGCTAACTATTGTTATCATTTTACATTACTAATCACCAAATTTGCTCATATTATT
* * *
22243112 A-AACTATTTGGATTCAATTTTTTCGATAAGAGACATTT-TTTGAGGTGGCATTGCAGGTTATTG
129 ATAA-TATTTAGATTCAATTTTTTCGACAAGAGAC-TTTGTTGGAGGTGGCATTGCAGGTTATTG
* * * *
22243175 TGATCAATTTGAGACGTAATGAAATTGAGATGTACATGTCTTTATTATAATACCATATTTCCCCA
192 TGATCAA--T------T--T---A---AGACGTACATATCTTTACTATAATACCATATTCCCCCA
* *
22243240 AAAACGTGTAAACATTAGCAGGGAACAAATAACAAAAGAGGAGAATAAACTGCCAAATAGGGAAC
241 AAAACATGT--ACATTAGCAGGGAACAAATAAC--AAGAGGAGAATAAACTGCCAAATAGAGAAC
* * * *
22243305 ATAATAGGACCATAAAACCATGGACTCAAAAAGATTTTAAACAACTTTTCTCCTAAATCAGAATG
302 ATAATAGGAACATAAAACCATGGACTCAAAAACACTTTAAACAACTTTTCTCCTAAATCAAAATG
* ** **
22243370 TGCGAGAAGGTAGAGAATCGC-TAT-A-GTTGTAAAAAGGGTTCCCCACGCAAGAG-TCTCTATT
367 TGCGAG-AGGTAGAGAATCGCGTATAAGGTTATAAAAAGGCCTAACCACGCAAGAGAT-TCTATT
* * * *
22243431 CCAAACATTTTAGAGTTC-AAAATAAGTAAACAGTGAAAAGGATGAGAAATATAATGACGAAAGT
430 CAAAACATTTTAGAG-TCGAAAATAAGTAAAC------AAGGAT-AGAAATATGA-GATGAGAGT
* *
22243495 TCAAGGAAGAAAGTAGGGAGCTTGAAGG
486 TGAAGGAAGAAAGGAGGGAGCTTGAAGG
22243523 AAAAGTGAAG
Statistics
Matches: 462, Mismatches: 52, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
584 14 0.03
585 10 0.02
586 150 0.32
587 3 0.01
588 1 0.00
594 1 0.00
596 1 0.00
599 1 0.00
600 1 0.00
601 107 0.23
602 44 0.10
604 23 0.05
605 3 0.01
606 90 0.19
607 13 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (573 bp):
ATTTTGTCTTATTATAAAAAAAATTATATTAGAGGGACTAAAACCACAATATAACCATTTTTTAT
ATTGAAAATGCTAACTATTGTTATCATTTTACATTACTAATCACCAAATTTGCTCATATTATTAT
AATATTTAGATTCAATTTTTTCGACAAGAGACTTTGTTGGAGGTGGCATTGCAGGTTATTGTGAT
CAATTTAAGACGTACATATCTTTACTATAATACCATATTCCCCCAAAAACATGTACATTAGCAGG
GAACAAATAACAAGAGGAGAATAAACTGCCAAATAGAGAACATAATAGGAACATAAAACCATGGA
CTCAAAAACACTTTAAACAACTTTTCTCCTAAATCAAAATGTGCGAGAGGTAGAGAATCGCGTAT
AAGGTTATAAAAAGGCCTAACCACGCAAGAGATTCTATTCAAAACATTTTAGAGTCGAAAATAAG
TAAACAAGGATAGAAATATGAGATGAGAGTTGAAGGAAGAAAGGAGGGAGCTTGAAGGCTAAAGG
CAGTCTTGTGATTTTTGTGTAATTTTCATAGGTGTAATTTTTAGATTCTTATA
Found at i:22243852 original size:16 final size:16
Alignment explanation
Indices: 22243827--22243858 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22243817 ACAGGTTATT
22243827 GTAATCAATTTGAGAC
1 GTAATCAATTTGAGAC
*
22243843 GTAATGAATTTGAGAC
1 GTAATCAATTTGAGAC
22243859 ATACATGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (16 bp):
GTAATCAATTTGAGAC
Found at i:22244894 original size:29 final size:29
Alignment explanation
Indices: 22244826--22244913 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
22244816 GATGATGAGA
* *
22244826 GTTGAAGGAAGAAAGTAGGGAGCTTGAAG
1 GTTGAAAGAAGAAAGGAGGGAGCTTGAAG
** ** *
22244855 GAAGAGTGAAGAAAGGAGGGAGTTTGAAG
1 GTTGAAAGAAGAAAGGAGGGAGCTTGAAG
* *
22244884 GTTGAAAGAAGAAATGAGGGAGCATGAAG
1 GTTGAAAGAAGAAAGGAGGGAGCTTGAAG
22244913 G
1 G
22244914 CTAAAGGCTG
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.41, C:0.02, G:0.42, T:0.15
Consensus pattern (29 bp):
GTTGAAAGAAGAAAGGAGGGAGCTTGAAG
Found at i:22244946 original size:674 final size:658
Alignment explanation
Indices: 22242892--22245482 Score: 2998
Period size: 659 Copynumber: 4.0 Consensus size: 658
22242882 GATGATGAGA
* * *
22242892 GTTGAAGGAAGAAAGGAGGGAGCTTGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCA
1 GTTGAAAGAAGAAAGGAGGGAGCATGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCG
* * * *
22242957 TAGGTGTAATTTTTAGATTCTTATAATTTTGTCTTATTC--TAAAAAAAAATTTATATTAG-AGG
66 TAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTCTATAAAAAAAAAATTATATTAGTA-G
* * * **
22243019 GACTAAAACCACAATATAATCGTTTTTTATATTGAAAAT-TCTAACTGTTGTTTTCATTTTATAT
130 GACTAAAACCACAATATAACCGTTTTTTATATTGAAAATGT-TAACTGTTGATATGGTTTTATAT
* * * * * *
22243083 TACTAATCACCAAATTTGCTCGTTTTATTAAACTATTTGGATTCAATTTTTTCGATAAGAGACAT
194 TACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTATTTCGATAAGAG--AT
* * *
22243148 TTTTTGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACGTAATGAAATTGAGATGTACATG
257 TTTTTGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGACGTACATG
* **
22243213 TCTTTATTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAAAG
322 TCTTTACTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAAC-CGAG
* * * * *
22243278 AGGAGAATAAACTGCCAAATAGGGAACATAATAGGACCATAAAACCATGGACTCAAAAAGATTTT
386 AGGAGAATCAACTGCCAAATATGGAACATAATAGGACCATAACACCATGGACTC-ATAAGACTTT
* * * * *
22243343 AAACAACTTTTCTCCTAAATCAGAATGTGCGAGAAGGTAGAGAATCG-CTAT--A-GTTGTAAAA
450 AAAC-AGTTTTCTCCTAAATCAGAATGTGCGAGAAGGTACAAAATCGTATATAAAGGTTATAAAA
* ** * * * *
22243404 AGGGTTCCCCACGCAAGAGTCTCTATTCCAAACATTTTAGAGTTCAAAATAAGTAAACAGTGAAA
514 AGGGCTGACCATGCAACAGTTTCTATTCCAAACATTTTAGAG-TCAAAATAAGTAAACAATGAAA
* * * * *
22243469 AGGATGAGAAATATAATGACGAAAGTTCAAGGAAGAAAGTAGGGAGCTTGAAGGAAAAGTGAAGA
578 A-GATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTGAAGA
*
22243534 AATGAGGGAGTTTGAAG
642 AAGGAGGGAGTTTGAAG
*
22243551 GTTGAAAGAAGAAAGGAGGGTGCATGAAGGCTAAAGGCAGTC----------T-TGTAATTTTCG
1 GTTGAAAGAAGAAAGGAGGGAGCATGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCG
* *
22243605 TACGTGTAATTTTCAGATTCC-TGTGATTTTGTCTTATTCTAAATAAAAAAGAAAAATTATATTA
66 TAGGTGTAATTTTTAGA-TCCTTGTGATTTTGTCTTATTCT--AT-AAAAA-AAAAATTATATTA
* ** * ** * * *
22243669 GTGGGACTAAAACCACGGTTTAACTATTTTCTATATTTAAAATGCTAACTGTTGATATGGTTTTA
126 GTAGGACTAAAACCACAATATAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGGTTTTA
*
22243734 TATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGA
191 TATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTATTTCGATAAGAGA
* * * * *
22243799 CTTTTTTGATGTGGCATTACAGGTTATTGTAATCAATTTGAGACGTAATGAATTTGAGACATACA
256 -TTTTTTGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGACGTACA
* *
22243864 TGTCTTTATTATAATACCATAATTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACCAG
320 TGTCTTTACTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACC-G
* * * * *
22243929 AAAGCAAAATCAACTACCAAATATGGAACATAATAGGACCATAACACCATGGACTCATAAAGGCT
384 AGAGGAGAATCAACTGCCAAATATGGAACATAATAGGACCATAACACCATGGACTCAT-AAGACT
* * * * *
22243994 TTAAACAGATTTTCTCCTAAATCAAAATGTGCGAGAAGGTGCATAATCTTTATATAAGGGGTTAT
448 TTAAACAG-TTTTCTCCTAAATCAGAATGTGCGAGAAGGTACAAAATC-GTATATAA-AGGTTAT
* *
22244059 AAAAAGGGCTGACCATTCAACAGTTTCTATTCCAAACATTTTAGAGTAAAAAATAAGTAAACAAT
510 AAAAAGGGCTGACCATGCAACAGTTTCTATTCCAAACATTTTAGAGT-CAAAATAAGTAAACAAT
* * * * *
22244124 GAAAATGATGAGAAATATGATTATGAGAGTTGAAAGAGGAAATTAGGGAGCTCGAAGGAAGAGTG
574 GAAAA-GATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTG
**
22244189 TTGAAAGGAGGGAGTTTGAAG
638 AAGAAAGGAGGGAGTTTGAAG
* * * * * *
22244210 GTTGAAAGAAAAAAGGACGAAGCTTGAAGGCTAAAGGCAATCTTGTGATTTTTGTATAATTTTCG
1 GTTGAAAGAAGAAAGGAGGGAGCATGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCG
*
22244275 TAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTTTAAATAAAAAAAAGAAAGAAAAATTA
66 TAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTCT--AT------AA-AAA-AAAAATTA
* ** * * *
22244340 TATTAGTAGGACTTAGGCCATAGTATAACCGTTTTTTATATTGAAAATGTTAACTGTTGTTATGG
121 TATTAGTAGGACTAAAACCACAATATAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGG
* * *
22244405 TTTTATATTTCTAATCACCATATTTGCTCGTATTATTATAGTATTTGGATTCAATTATTTCAATA
186 TTTTATATTACTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTATTTCGATA
* * * *
22244470 AGAGATTTTGTTGAAGGTGGCATTGTAGGTTATTGTCATAAATTTGAGGCATAATGAATTTGAGA
251 AGAGATTTT-TTG-AGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGA
* * *
22244535 CGTACATGTCTTTACTATAATACCATATTTCTCCAAGAACGTGT-AACATTAGTAGGGAACAAAT
314 CGTACATGTCTTTACTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAAT
* * * *
22244599 AACTCGAGTGGAGAATCAATTGCCAAATATGGAACATAATAAGACCATAACACCATTGACTCATA
379 AAC-CGAGAGGAGAATCAACTGCCAAATATGGAACATAATAGGACCATAACACCATGGACTCATA
* * ** *
22244664 AGACTTTAAACAGTTTTCTCTTAAAGCAGAATGTATGAGAAGGTACAAAATCGATGTATAAACGG
443 AGACTTTAAACAGTTTTCTCCTAAATCAGAATGTGCGAGAAGGTACAAAATCG-TATATAAA-GG
*
22244729 TTATAAAAAGGGCTGACCATGCAATAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAA
506 TTATAAAAAGGGCTGACCATGCAACAGTTTCTATTCCAAACATTTTAGAGTC-AAAATAAGTAAA
* *
22244794 CAATGAAAAGAATGAGAAACACGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAG
570 CAATGAAAAG-ATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAG
22244859 AGTGAAGAAAGGAGGGAGTTTGAAG
634 AGTGAAGAAAGGAGGGAGTTTGAAG
* *
22244884 GTTGAAAGAAGAAATGAGGGAGCATGAAGGCTAAAGGCTGTCTTGTGATTTTTGTGTAATTTTCG
1 GTTGAAAGAAGAAAGGAGGGAGCATGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCG
* * *
22244949 TA-GTGTAATTTTTAGATTCTTGTGATTTTATCTTATTCT-T--AAAAAAAATTATATTAGTGGG
66 TAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTCTATAAAAAAAAAATTATATTAGTAGG
*
22245010 ACTAAAACCACAATAAAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGG-TTTATATTA
131 ACTAAAACCACAATATAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGGTTTTATATTA
* *
22245074 CTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTGAATTATTTCGATAATAGACTTTG
196 CTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTATTTCGATAAGAGA-TTT-
* ** *
22245139 TTAGAGGTGAAATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGACGGACATGTC
259 TTTGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGACGTACATGTC
* *
22245204 TTTACTATAATACC--A--T-------AA--T-T---C-----C-----TC--A-AA---A-AGC
324 TTTACTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACCGAGAGG
* * *
22245235 AGAATCAACTACCAAATATAGAACATAATAGGACCATAACACCATGGGCTCATAAAGACTTTAAA
389 AGAATCAACTGCCAAATATGGAACATAATAGGACCATAACACCATGGACTCAT-AAGACTTTAAA
* * ** *
22245300 CAGCTTTTCTCCTAAATCAGAATGTGTGAGAAGGTACAGAATTTTTATATAAGCGGTTATAAAAA
453 CAG-TTTTCTCCTAAATCAGAATGTGCGAGAAGGTACA-AAATCGTATATAA-AGGTTATAAAAA
* * * *
22245365 GGACTAACCATGCAAGAGTTTCTATTCCAAACATTTTAGAGTGGAAAATAAGTAAACAATGAAAA
515 GGGCTGACCATGCAACAGTTTCTATTCCAAACATTTTAGAGT-CAAAATAAGTAAACAATGAAAA
* *
22245430 GGATGAGAAATATGATGATAAGAGTTGAAGGAAGAAAGGAGGGAGCTTGAAGG
579 -GATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGG
22245483 CTAAAGGCGT
Statistics
Matches: 1670, Mismatches: 209, Indels: 138
0.83 0.10 0.07
Matches are distributed among these distances:
625 48 0.03
626 15 0.01
627 155 0.09
628 4 0.00
630 2 0.00
631 1 0.00
633 1 0.00
643 1 0.00
645 1 0.00
646 1 0.00
648 43 0.03
649 3 0.00
652 4 0.00
653 218 0.13
654 120 0.07
655 4 0.00
657 1 0.00
658 1 0.00
659 337 0.20
660 70 0.04
661 4 0.00
669 4 0.00
670 48 0.03
673 35 0.02
674 239 0.14
675 20 0.01
676 206 0.12
677 84 0.05
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (658 bp):
GTTGAAAGAAGAAAGGAGGGAGCATGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCG
TAGGTGTAATTTTTAGATCCTTGTGATTTTGTCTTATTCTATAAAAAAAAAATTATATTAGTAGG
ACTAAAACCACAATATAACCGTTTTTTATATTGAAAATGTTAACTGTTGATATGGTTTTATATTA
CTAATCACCATATTTACTCGTATTATTATAGTATTTGGATTCAATTATTTCGATAAGAGATTTTT
TGAGGTGGCATTGCAGGTTATTGTGATCAATTTGAGACATAATGAATTTGAGACGTACATGTCTT
TACTATAATACCATATTTCCCCAAAAACGTGTAAACATTAGCAGGGAACAAATAACCGAGAGGAG
AATCAACTGCCAAATATGGAACATAATAGGACCATAACACCATGGACTCATAAGACTTTAAACAG
TTTTCTCCTAAATCAGAATGTGCGAGAAGGTACAAAATCGTATATAAAGGTTATAAAAAGGGCTG
ACCATGCAACAGTTTCTATTCCAAACATTTTAGAGTCAAAATAAGTAAACAATGAAAAGATGAGA
AATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGAGTGAAGAAAGGAGGGA
GTTTGAAG
Found at i:22248189 original size:14 final size:15
Alignment explanation
Indices: 22248172--22248202 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22248162 GAATATGATA
22248172 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
22248186 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
22248201 AA
1 AA
22248203 CTAATAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:22248512 original size:17 final size:16
Alignment explanation
Indices: 22248490--22248528 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
22248480 GAGTATAGTA
22248490 AAATATTAAAAATAAAT
1 AAATATTAAAAA-AAAT
*
22248507 AAATATTTAAAAAAAT
1 AAATATTAAAAAAAAT
*
22248523 ATATAT
1 AAATAT
22248529 CAAGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTAAAAAAAAT
Found at i:22250238 original size:28 final size:30
Alignment explanation
Indices: 22250207--22250278 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 30
22250197 TTAAAAAAGC
*
22250207 TTAAGTATCAAATTTAA-AAAAA-TCAAAT
1 TTAAGTATCAAATTTAAGAAAAATTAAAAT
*
22250235 TTAAATATCAAA-TTAAGAAAAATTGTAAAAT
1 TTAAGTATCAAATTTAAGAAAAA-T-TAAAAT
22250266 TTAAGTATCAAAT
1 TTAAGTATCAAAT
22250279 ATTATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.11
28 16 0.44
31 16 0.44
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (30 bp):
TTAAGTATCAAATTTAAGAAAAATTAAAAT
Found at i:22254045 original size:23 final size:22
Alignment explanation
Indices: 22254003--22254046 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22253993 TCTTAATAAT
*
22254003 ATTATTAATTAGTGATATTTAG
1 ATTATTAATTAATGATATTTAG
22254025 ATTATATAATTAAT-ATAATTTA
1 ATTAT-TAATTAATGAT-ATTTA
22254047 CAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTATTAATTAATGATATTTAG
Found at i:22257011 original size:19 final size:19
Alignment explanation
Indices: 22256951--22257011 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
22256941 TTCGAGAGTT
* * *
22256951 ATTAATATTTATTTATAACA
1 ATTATTATTTAATTA-AAAA
* *
22256971 ATTATGA-TTAAATAAAACA
1 ATTATTATTTAATTAAAA-A
22256990 ATTATTATTTAATTAAAAA
1 ATTATTATTTAATTAAAAA
22257009 ATT
1 ATT
22257012 TTAATATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 14 0.44
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTATTATTTAATTAAAAA
Found at i:22271491 original size:19 final size:19
Alignment explanation
Indices: 22271467--22271505 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22271457 CAATGAGTTA
22271467 TGCCAAGGTTGCCTAAGAG
1 TGCCAAGGTTGCCTAAGAG
22271486 TGCCAAGGTTGCCTAAGAG
1 TGCCAAGGTTGCCTAAGAG
22271505 T
1 T
22271506 ATAATTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (19 bp):
TGCCAAGGTTGCCTAAGAG
Found at i:22283718 original size:20 final size:20
Alignment explanation
Indices: 22283693--22283738 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
22283683 TGTGATTCTG
* *
22283693 TTTTATATCCAATTTCCCCA
1 TTTTATAGCCAATTTCACCA
22283713 TTTTATAGCCAATTTCACCA
1 TTTTATAGCCAATTTCACCA
22283733 TTTTAT
1 TTTTAT
22283739 GGATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTTATAGCCAATTTCACCA
Found at i:22287282 original size:101 final size:98
Alignment explanation
Indices: 22287123--22287366 Score: 274
Period size: 101 Copynumber: 2.4 Consensus size: 98
22287113 ATTGTGAATA
* * * * * **
22287123 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACAGTTAAGTCGTATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTGAAGTCACATGTGTAGTACT
22287188 AAGTACAGGCTACTATGCGTACTC-AATGACTTCGAT
66 AAGTACAGGCTACTATGCGTAC-CGAATG--TT-GAT
* * *
22287224 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTGAAGTCACATGTGTAGTACT
* * * *
22287289 AAGTGCAGGCTACTATGTGTACCGGATTGTTGGT
66 AAGTACAGGCTACTATGCGTACC-GAATGTTGAT
* * * *
22287323 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATAG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAG
22287367 CTTCGGCTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 41 0.34
100 3 0.02
101 75 0.61
102 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTGAAGTCACATGTGTAGTACT
AAGTACAGGCTACTATGCGTACCGAATGTTGAT
Found at i:22287293 original size:50 final size:50
Alignment explanation
Indices: 22287123--22287364 Score: 245
Period size: 50 Copynumber: 4.8 Consensus size: 50
22287113 ATTGTGAATA
** * * ** *
22287123 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACAGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
*** * * * * *
22287173 CGTATGTGTAGTACTAAGTACAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TCAGATG-GTTAGGT
* *
22287224 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
* * *
22287274 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGTT-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
* * *
22287323 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
22287365 AGCTTCGGCT
Statistics
Matches: 155, Mismatches: 34, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 40 0.26
50 77 0.50
51 38 0.25
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
Found at i:22291416 original size:9 final size:9
Alignment explanation
Indices: 22291399--22291428 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22291389 GTTGAGGAAT
*
22291399 TGGGGGAGG
1 TGGGAGAGG
22291408 TGGGAGAGG
1 TGGGAGAGG
22291417 TGGGAGAGG
1 TGGGAGAGG
22291426 TGG
1 TGG
22291429 AGTATTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.70, T:0.13
Consensus pattern (9 bp):
TGGGAGAGG
Found at i:22294694 original size:28 final size:28
Alignment explanation
Indices: 22294661--22294725 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
22294651 ACGGGTGACA
22294661 ACACGGGCTTGTCTAGGCCGTGTGAAGT
1 ACACGGGCTTGTCTAGGCCGTGTGAAGT
22294689 ACACGGGCTTGTCTAGGCCGTGTGAAGT
1 ACACGGGCTTGTCTAGGCCGTGTGAAGT
22294717 ACACGGGCT
1 ACACGGGCT
22294726 AAGGACACGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.35, T:0.23
Consensus pattern (28 bp):
ACACGGGCTTGTCTAGGCCGTGTGAAGT
Found at i:22302838 original size:15 final size:16
Alignment explanation
Indices: 22302818--22302847 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22302808 AATCGGTTAT
22302818 TTTTTTGT-TTTGTTC
1 TTTTTTGTGTTTGTTC
22302833 TTTTTTGTGTTTGTT
1 TTTTTTGTGTTTGTT
22302848 AGTTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.80
Consensus pattern (16 bp):
TTTTTTGTGTTTGTTC
Found at i:22312336 original size:24 final size:24
Alignment explanation
Indices: 22312303--22312392 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
22312293 CCCATAGGAG
*
22312303 CCATAATCGGGAAGTTCACAAAGAA
1 CCAT-ATCGGGAAGCTCACAAAGAA
*
22312328 CCATATCGGGAAGCTCATAAAGAGA
1 CCATATCGGGAAGCTCACAAAGA-A
* *
22312353 -C-TATCGGAAAGCTCACAAAGAG
1 CCATATCGGGAAGCTCACAAAGAA
22312375 CCATATAACGGGAAGCTC
1 CCATAT--CGGGAAGCTC
22312393 TGGATAGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 19 0.35
24 21 0.39
25 5 0.09
26 9 0.17
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (24 bp):
CCATATCGGGAAGCTCACAAAGAA
Found at i:22312364 original size:23 final size:23
Alignment explanation
Indices: 22312308--22312374 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
22312298 AGGAGCCATA
* *
22312308 ATCGGGAAGTTCACAAAGA-ACCAT
1 ATCGGAAAGCTCACAAAGAGA-C-T
* *
22312332 ATCGGGAAGCTCATAAAGAGACT
1 ATCGGAAAGCTCACAAAGAGACT
22312355 ATCGGAAAGCTCACAAAGAG
1 ATCGGAAAGCTCACAAAGAG
22312375 CCATATAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 19 0.50
24 18 0.47
25 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (23 bp):
ATCGGAAAGCTCACAAAGAGACT
Found at i:22312496 original size:26 final size:27
Alignment explanation
Indices: 22312435--22312496 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
22312425 AGCACTGTTG
*
22312435 GGAAGCTCACAAAGAGCCAATTTAACA
1 GGAAGCTCACAAAGAGCCAATATAACA
* *
22312462 GGAAGCTCACGAAGAGCC-ATATATCA
1 GGAAGCTCACAAAGAGCCAATATAACA
*
22312488 GGATGCTCA
1 GGAAGCTCA
22312497 TAAAAGCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
GGAAGCTCACAAAGAGCCAATATAACA
Found at i:22314313 original size:39 final size:39
Alignment explanation
Indices: 22314259--22314335 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
22314249 GCCAATATCA
**
22314259 AATTCCTTTCATAAACTTTCTTATCTGAGTCATTTCCAT
1 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCAT
22314298 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCA
1 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCA
22314336 CAAAAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (39 bp):
AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCAT
Found at i:22317838 original size:19 final size:20
Alignment explanation
Indices: 22317795--22317838 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
22317785 ATAGATTTCA
22317795 ATTAAAAATTTAATAAATCG
1 ATTAAAAATTTAATAAATCG
* *
22317815 GTTAAAAA-TTAATAAATTG
1 ATTAAAAATTTAATAAATCG
22317834 ATTAA
1 ATTAA
22317839 TGAGGTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTAAAAATTTAATAAATCG
Found at i:22320126 original size:486 final size:486
Alignment explanation
Indices: 22319214--22320183 Score: 1243
Period size: 486 Copynumber: 2.0 Consensus size: 486
22319204 GATTAGTTAT
*
22319214 GCAATCTGGAACATACTTCTCCAGTATCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
1 GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
* * * * * * *
22319279 ACCTATTATGCATATTCTTTAATGCCTTCTACTCTGTGATCCATGTTTTGCGATATGACGACGTG
66 ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
*
22319344 TAATCGAACTAGCTACAGCTATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
131 TAATCGAACTAGCTACAGATATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
* * * * *
22319409 CATAGGTAGTATTATATTTGCGATCATCTCTGAATTCAATTTTAGATGATCCCGTGAAATACCTG
196 CATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTTGAGATGATCCCGGGAAATACCTG
* *
22319474 CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAATATAGTACAGTCTTGACACAGTA
261 CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAACATAATACAGTCTTGACACAGTA
** * ** * * *
22319539 CCCATGACAACACATGTATGTGAAGCAATAAATCATTTTATGGTTCACAATCTTATCTTCTTCTT
326 CCCACAACAACACACGTATCAGAAGCAATAAATCATTTTATGGTCCACAACCCTATCTTCTTCTT
* * * ** **
22319604 AACATAAGCTGTGATTTTCCATGCACATCAGTTGTCTCGCATTGCACATTTTTCCTTGAACTTAT
391 AACAGAAGCTATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCAAACTTAT
* *
22319669 CAGACTAAGATTTAACAATGTTGAAGTTTAC
456 CAGACTAAGATTTAACAACGTGGAAGTTTAC
* ** * * * *
22319700 GCAATCTGGAACGTACTTCTTTAGTACCTGACACCACTGCCACAAATCATTGTATGGCACATCCC
1 GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
* * * ** * * *
22319765 ACCCATTATGCATCTTCTCTAGTGCTTTATGTTTTGTGATCCACGCTTTGCGGTACGATGACATG
66 ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
*
22319830 TAATCGAACTGGCTAC-GAATATTTGTAATTAAAATTGACAC-AGCAATCCTAGG-ACTCATTTT
131 TAATCGAACTAGCTACAG-ATATTTGTAATTAAAATTGACACAAG-AATCCT-GGTACTCATTTT
** ***
22319892 CACCATAGGTAGTATTATATTTATTATCATCTCCGAATCCAATTTCGA-ATGATTTTGGGAAATA
193 CACCATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTT-GAGATGATCCCGGGAAATA
* * * * *
22319956 CTTGCAATAACACGAGTACGTTAAAGTTAGGAATTCAACACCCAAACATAATACAGTCTTGACAC
257 CCTGCAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAACATAATACAGTCTTGACAC
* *
22320021 AGTACCCACAACAACACACGTATACAG-AGCGATAAA-CTTATTTATGGTCCACAACCCTATCTT
322 AGTACCCACAACAACACACGTAT-CAGAAGCAATAAATCAT-TTTATGGTCCACAACCCTATCTT
* ** *
22320084 CTTCTTAACAGAAG-TCATGATTTTCGATGCACATTTGTTGTCTCACATTGTACATAATTCCTCA
385 CTTCTTAACAGAAGCT-ATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCA
22320148 AACTTATCAGACTAAGATTTAACAACGTGGAAGTTT
449 AACTTATCAGACTAAGATTTAACAACGTGGAAGTTT
22320184 CCCCCGTTCT
Statistics
Matches: 412, Mismatches: 65, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
485 6 0.01
486 402 0.98
487 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (486 bp):
GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
TAATCGAACTAGCTACAGATATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
CATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTTGAGATGATCCCGGGAAATACCTG
CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAACATAATACAGTCTTGACACAGTA
CCCACAACAACACACGTATCAGAAGCAATAAATCATTTTATGGTCCACAACCCTATCTTCTTCTT
AACAGAAGCTATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCAAACTTAT
CAGACTAAGATTTAACAACGTGGAAGTTTAC
Found at i:22322178 original size:15 final size:15
Alignment explanation
Indices: 22322158--22322190 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22322148 TAATTCGAAT
22322158 ATACGATTG-GTGTAA
1 ATACGATTGTG-GTAA
22322173 ATACGATTGTGGTAA
1 ATACGATTGTGGTAA
22322188 ATA
1 ATA
22322191 TCGAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (15 bp):
ATACGATTGTGGTAA
Found at i:22322235 original size:9 final size:9
Alignment explanation
Indices: 22322223--22322265 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
22322213 TTATATCTCA
22322223 AAAAAATAT
1 AAAAAATAT
*
22322232 AAAAAATCT
1 AAAAAATAT
22322241 AAAGAATATAT
1 AAA-AA-ATAT
22322252 AAAAAA-AT
1 AAAAAATAT
22322260 AAAAAA
1 AAAAAA
22322266 AAAACTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.27
9 12 0.40
10 4 0.13
11 6 0.20
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAATAT
Found at i:22327295 original size:129 final size:129
Alignment explanation
Indices: 22327122--22327378 Score: 363
Period size: 129 Copynumber: 2.0 Consensus size: 129
22327112 TAACACCTTT
* * * * * *
22327122 GATCTTGTATGTCATTGATGCCATTCTTGTTATTTATTTCTTGAGCCTTTCTTTTCC-TACATGA
1 GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAGCCTTTC-CTCCCTTACATGA
22327186 TTTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
65 TTTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
* * * *
22327251 GATCTTGCATGCCATTGATGTCATTCTTGCTCTCTATTTGTTGAGTCTTTCCTCCCTTACATGAT
1 GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAGCCTTTCCTCCCTTACATGAT
* * * * *
22327316 TTGGATCTAAAATTTTCCATGGAATTGTTCTAAGAGAAGAAAAATGGAATTGATATTTGAATA
66 TTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATA
22327379 CCTTTGTTCT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
128 3 0.03
129 109 0.97
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (129 bp):
GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAGCCTTTCCTCCCTTACATGAT
TTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
Found at i:22329449 original size:16 final size:17
Alignment explanation
Indices: 22329420--22329454 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22329410 AGAATATTTA
*
22329420 ATAAAAATAGTTTAATC
1 ATAAAAATACTTTAATC
22329437 ATAAAAA-ACTTTAATC
1 ATAAAAATACTTTAATC
22329453 AT
1 AT
22329455 CAAATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAAAAATACTTTAATC
Found at i:22340384 original size:128 final size:130
Alignment explanation
Indices: 22340168--22340418 Score: 287
Period size: 128 Copynumber: 1.9 Consensus size: 130
22340158 AAAATGTGAG
* * *
22340168 TGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACAGAAAATTGCAACCCAGCACGATAGGA
1 TGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACAAAAAATCGAAACCCAGCACGATAGGA
* * * *
22340233 CACGATTCCCCGAATTTCTAAACATCGAAC-ATTGCCTTCGTTTTAAG-GAATTTTCAAAGTACG
66 CACGATTCCCCGAATTCCCAAACATC-AACTATTACCTTCGTTTT-AGTGAATCTTCAAAGTACG
22340296 GA
129 GA
* *** * *
22340298 TGAAATT-TCAAGGAATATTTGCTTA-TTTGGACAAACAAAAAATCGAAACCCAGCACGGTTAGG
1 TGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACAAAAAATCGAAACCCAGCAC-GATAGG
** * *
22340361 -CACGATTCCTTGAGTTCCCAAACATCAACTATTACCTTTGTTTTAGTGAATCTTCAAA
65 ACACGATTCCCCGAATTCCCAAACATCAACTATTACCTTCGTTTTAGTGAATCTTCAAA
22340419 TCAACAATTG
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
127 5 0.05
128 70 0.69
129 19 0.19
130 7 0.07
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (130 bp):
TGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACAAAAAATCGAAACCCAGCACGATAGGA
CACGATTCCCCGAATTCCCAAACATCAACTATTACCTTCGTTTTAGTGAATCTTCAAAGTACGGA
Found at i:22343303 original size:86 final size:87
Alignment explanation
Indices: 22343121--22343349 Score: 239
Period size: 86 Copynumber: 2.6 Consensus size: 87
22343111 TTTCAACCTA
* * *
22343121 CTCCACTACTACTTAGTGAGACAAGA-CTTGTAATTCTCAGCTTGTTACCCTACTGTTTAGGGGG
1 CTCCACTACTACTTAGGGAGACAAGATC-TGTAATT-TCAGCCTGTTACCCTACTGTTTAAGGGG
* * ***
22343185 TTAAGGTTCATTGTCTTTGATCCT
64 TCAAGGCTCACCATCTTTGATCCT
* *
22343209 CTCAACTACTACTTAGGGAGATAAGATCTGTAATTT-AGCCTGTTACCCTACTGTTTAAGGGGTC
1 CTCCACTACTACTTAGGGAGACAAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAAGGGGTC
*
22343273 AAGGCTCACCATTTTTGAT-CT
66 AAGGCTCACCATCTTTGATCCT
* * * * **
22343294 GTTCCACTACAACTTCTGGGAGACAAGATCTGCAATCTTCAGCCCATTACCCTACT
1 -CTCCACTACTACTT-AGGGAGACAAGATCTGTAAT-TTCAGCCTGTTACCCTACT
22343350 ACTTAGGGGG
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
85 2 0.02
86 50 0.43
87 18 0.15
88 32 0.27
89 15 0.13
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (87 bp):
CTCCACTACTACTTAGGGAGACAAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAAGGGGTC
AAGGCTCACCATCTTTGATCCT
Found at i:22343448 original size:44 final size:43
Alignment explanation
Indices: 22343400--22343525 Score: 103
Period size: 44 Copynumber: 2.9 Consensus size: 43
22343390 AAAATCTACA
22343400 GTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAATGTTCACC
1 GTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAA-GTTCACC
* * * * ** * * *
22343444 GTCTT-TGATCTGTT-CCACTACAACTTCAGGGAGACAAGATCTGCA
1 GTCTTCAG-CCTGTTACC-CTACTACTT-AGGGGGTTAAGTTC-ACC
*
22343489 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAG
1 GTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAG
22343526 GCTTACCGTC
Statistics
Matches: 60, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
43 3 0.05
44 29 0.48
45 25 0.42
46 3 0.05
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (43 bp):
GTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGTTCACC
Found at i:22343464 original size:161 final size:163
Alignment explanation
Indices: 22343245--22343873 Score: 541
Period size: 177 Copynumber: 3.7 Consensus size: 163
22343235 TCTGTAATTT
* * * * *
22343245 AGCCTGTTACCCTACTGTTTAAGGGGTCAAGGCTCACCATTTTTGATCTGTTCCACTACAACTTC
1 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGGTTCACCGTATTTGATCTGTTCCACTACAACTTC
* *
22343310 TGGGAGACAAGATCTGCAATCTTCAGCCCATTACCCTACTACTTAGGGG-G-TTGATTTGCTCCA
66 AGGGAGACAAGATCTGCAATCTTCAGCCTATTACCCTACTACTTAGGGGCGTTTGATTTGCTCCA
* *
22343373 CTACTGTTTAGGGAGACAAAATCTACAGTCTTC
131 CTACTCTTTAGGGAGACAAAATCTACAATCTTC
** * *
22343406 AGCCTGTTACCCTACTACTTAGGGGGTTAATGTTCACCGTCTTTGATCTGTTCCACTACAACTTC
1 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGGTTCACCGTATTTGATCTGTTCCACTACAACTTC
*
22343471 AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
66 AGGGAGACAAGATCTGCAATCTTCAGCCTATTACCCTACTACTTA---GG----GG-----CG--
*
22343536 TTTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACAATCTTC
117 TTTGATTTGCTCCACTACTCTTTAGGGAGACAAAATCTACAATCTTC
* * * * * *
22343583 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCTT-GCCGTATTCGATTTGCTCCGCTGCAACTT
1 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGG-TTCACCGTATTTGATCTGTTCCACTACAACTT
** *
22343647 CAGGGAGACAAGATCTATAATCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGCCGT
65 CAGGGAGACAAGATCTGCAATCTTCAGCCTATTACCCTACTACTTA---G-----GG---G-CG-
* * * * * * *
22343712 CTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTC
117 -TTTGATTTGCTCCACTAC-TCTTTAGGGAGACAAAATCTACAATCTTC
* ** * * * * **
22343761 AGCCTGCTACCCTACTACTTAGGAGGTTAAGGCTT-ACCGTCTTCGAT-TTTCTCCACTAC-TGT
1 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGG-TTCACCGTATTTGATCTGT-TCCACTACAACT
* * *
22343823 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGG
64 TCAGGGAGACAAGATCTGCAATCTTCAGCCTATTACCCTACTACTTAGGGG
22343874 GTTAAGGCTT
Statistics
Matches: 391, Mismatches: 50, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
161 99 0.25
164 2 0.01
166 1 0.00
168 2 0.01
169 2 0.01
174 2 0.01
177 205 0.52
178 76 0.19
181 1 0.00
182 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (163 bp):
AGCCTGTTACCCTACTGTTTAGGGGGTTAAGGTTCACCGTATTTGATCTGTTCCACTACAACTTC
AGGGAGACAAGATCTGCAATCTTCAGCCTATTACCCTACTACTTAGGGGCGTTTGATTTGCTCCA
CTACTCTTTAGGGAGACAAAATCTACAATCTTC
Found at i:22343510 original size:89 final size:88
Alignment explanation
Indices: 22343382--22343928 Score: 704
Period size: 89 Copynumber: 6.2 Consensus size: 88
22343372 ACTACTGTTT
* * *
22343382 AGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAATG-TTCACCGT
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT-ACCGT
*
22343446 CTTTGATCTGTTCCACTACAACTTC
65 CTTCGAT-TGTTCCACTACAACTTC
*
22343471 AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
* * * *
22343536 TTTGATTTGCTCCACTAC-TCTTT
66 TTCGA-TTGTTCCACTACAACTTC
** * *
22343559 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCTTGCCGTA
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
* * *
22343624 TTCGATTTGCTCCGCTGCAACTTC
66 TTCGA-TTGTTCCACTACAACTTC
* * * * *
22343648 AGGGAGACAAGATCTATAATCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGCCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
* *
22343713 TTTGATCTGTTCCACTGCAACTTC
66 TTCGAT-TGTTCCACTACAACTTC
* * *
22343737 AGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTACTTAGGAGGTTAAGGCTTACCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
* ** *
22343802 TTCGATTTTCTCCACTAC-TGTTT
66 TTCGATTGT-TCCACTACAACTTC
22343825 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
* * *
22343890 TTCGATTTTCTCCGCTGCAACTTC
66 TTCGATTGT-TCCACTACAACTTC
*
22343914 AAGGAGACAAGATCT
1 AGGGAGACAAGATCT
22343929 GTGAATTAAC
Statistics
Matches: 402, Mismatches: 50, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
88 161 0.40
89 238 0.59
90 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (88 bp):
AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTC
TTCGATTGTTCCACTACAACTTC
Found at i:22343656 original size:177 final size:177
Alignment explanation
Indices: 22343360--22343902 Score: 757
Period size: 177 Copynumber: 3.1 Consensus size: 177
22343350 ACTTAGGGGG
* * *
22343360 TTGATTTGCTCCACTACTGTTTAGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACT
1 TTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
* * * * *
22343425 TAGGGGGTTAATG-TTCACCGTCTTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCA
66 TAGGGGGTTAAGGCTT-ACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACA
22343489 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
130 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
**
22343537 TTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTGTT
1 TTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
* * * * *
22343602 TAGGGGGTTAAGGCTTGCCGTATTCGATTTGCTCCGCTGCAACTTCAGGGAGACAAGATCTATAA
66 TAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAA
* * * *
22343667 TCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGCCGTCT
131 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
* * * * * * *
22343714 TTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTAC
1 TTGATTTGCTCCACTAC-TCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
* * ** *
22343779 TTAGGAGGTTAAGGCTTACCGTCTTCGATTTTCTCCACTAC-TGTTTAGGGAGACAAGATCTACA
65 TTAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACA
22343843 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
130 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
* *
22343891 TCGATTTTCTCC
1 TTGATTTGCTCC
22343903 GCTGCAACTT
Statistics
Matches: 318, Mismatches: 46, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
177 240 0.75
178 78 0.25
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (177 bp):
TTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
TAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAA
TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
Found at i:22343820 original size:44 final size:42
Alignment explanation
Indices: 22343770--22343902 Score: 99
Period size: 44 Copynumber: 3.0 Consensus size: 42
22343760 CAGCCTGCTA
22343770 CCCTACTACTTAGGAGGTTAAGGCTTACCGTCTTCGATTTTCT
1 CCCTACTACTTAGG-GGTTAAGGCTTACCGTCTTCGATTTTCT
** ** * ** * * *
22343813 CCACTACTGTTTAGGGAGACAA-GATCTACAATCTTCAGCCTGTT-A
1 CC-CTACTACTTAGGG-GTTAAGGCT-TACCGTCTTC-G-ATTTTCT
22343858 CCCTACTACTTAGGGGGTTAAGGCTTACCGTCTTCGATTTTCT
1 CCCTACTACTTA-GGGGTTAAGGCTTACCGTCTTCGATTTTCT
22343901 CC
1 CC
22343903 GCTGCAACTT
Statistics
Matches: 62, Mismatches: 20, Indels: 16
0.63 0.20 0.16
Matches are distributed among these distances:
42 3 0.05
43 8 0.13
44 40 0.65
45 8 0.13
46 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (42 bp):
CCCTACTACTTAGGGGTTAAGGCTTACCGTCTTCGATTTTCT
Found at i:22343856 original size:266 final size:266
Alignment explanation
Indices: 22343382--22343928 Score: 898
Period size: 266 Copynumber: 2.1 Consensus size: 266
22343372 ACTACTGTTT
* * * * *
22343382 AGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAATGTTCACCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGTTCACCGTC
*
22343447 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTA
66 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTA
* *
22343512 CTTAGGGGGTTAAGGCTTACCGTCTTTGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACA
131 CTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACA
** *
22343577 ATCTTCAGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCTTGCCGTATTCGATTTGCTCCGCTGC
196 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTATTCGATTTGCTCCGCTGC
22343642 AACTTC
261 AACTTC
* * *
22343648 AGGGAGACAAGATCTATAATCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTT-GCCGT
1 AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGG-TTCACCGT
*
22343712 CTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACT
65 CTTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACT
* *
22343777 ACTTAGGAGGTTAAGGCTTACCGTCTTCGATTTTCTCCACTACTGTTTAGGGAGACAAGATCTAC
130 ACTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTAC
* *
22343842 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCTTCGATTTTCTCCGCTG
195 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTATTCGATTTGCTCCGCTG
22343907 CAACTTC
260 CAACTTC
*
22343914 AAGGAGACAAGATCT
1 AGGGAGACAAGATCT
22343929 GTGAATTAAC
Statistics
Matches: 260, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
266 258 0.99
267 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (266 bp):
AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGTTCACCGTC
TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTA
CTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTCTTTAGGGAGACAAGATCTACA
ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTATTCGATTTGCTCCGCTGC
AACTTC
Found at i:22344098 original size:64 final size:64
Alignment explanation
Indices: 22344007--22344187 Score: 326
Period size: 64 Copynumber: 2.8 Consensus size: 64
22343997 TGCTTTTTCC
*
22344007 AAATAATTAGGATGCTATGATCAAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
22344071 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
* * *
22344135 AAATAATTAGGATGCTATAATCGAAATGAGTCAAATGCTCCTAACTAGATGTG
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
22344188 TTATGAATAT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 113 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (64 bp):
AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
Found at i:22354019 original size:49 final size:49
Alignment explanation
Indices: 22353856--22354053 Score: 191
Period size: 49 Copynumber: 4.0 Consensus size: 49
22353846 GGCTATGATT
*** *
22353856 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
1 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
** * * * * *
22353905 ACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-ATCAGATG
1 A-TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
* * * * *
22353955 GTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATA
1 ATT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
* * *
22354005 ATTGGTTGCATGTGTAGTACTAAGTGCAGGCAACTATATGTACCAGATA
1 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
22354054 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 75 0.62
50 14 0.12
51 31 0.26
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
Found at i:22357234 original size:82 final size:82
Alignment explanation
Indices: 22357133--22357299 Score: 298
Period size: 82 Copynumber: 2.0 Consensus size: 82
22357123 GAACTTCACC
* * *
22357133 CATGGATATGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCTATCAATTCATATCTAGG
1 CATGGATACGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
22357198 GGCACCCAAATAGGGCA
66 GGCACCCAAATAGGGCA
22357215 CATGGATACGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
1 CATGGATACGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
*
22357280 GGTACCCAAATAGGGCA
66 GGCACCCAAATAGGGCA
22357297 CAT
1 CAT
22357300 AATTAGGAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (82 bp):
CATGGATACGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
GGCACCCAAATAGGGCA
Found at i:22357346 original size:25 final size:25
Alignment explanation
Indices: 22357318--22357366 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22357308 AGCACACTCT
22357318 TGAGCCATATATC-AGAATGCTCATG
1 TGAGCCATATATCAAGAA-GCTCATG
*
22357343 TGAGCCATGTATCAAGAAGCTCAT
1 TGAGCCATATATCAAGAAGCTCAT
22357367 CCAGGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGCCATATATCAAGAAGCTCATG
Found at i:22357484 original size:18 final size:18
Alignment explanation
Indices: 22357461--22357498 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22357451 AGCTCTAGAT
22357461 AGCATAACAAGGAGTTCA
1 AGCATAACAAGGAGTTCA
*
22357479 AGCATAACAGGGAGTTCA
1 AGCATAACAAGGAGTTCA
22357497 AG
1 AG
22357499 TGAGCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (18 bp):
AGCATAACAAGGAGTTCA
Found at i:22367082 original size:17 final size:17
Alignment explanation
Indices: 22367057--22367090 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22367047 GGGATGTAAA
*
22367057 TAAGATATTGGTGTTTG
1 TAAGATATTGGAGTTTG
*
22367074 TAAGTTATTGGAGTTTG
1 TAAGATATTGGAGTTTG
22367091 ACTTGAAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (17 bp):
TAAGATATTGGAGTTTG
Found at i:22367419 original size:20 final size:22
Alignment explanation
Indices: 22367391--22367432 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
22367381 ATATTTAAAC
22367391 ATAAAATA-TATTA-ATTTTTT
1 ATAAAATATTATTATATTTTTT
*
22367411 ATAATATATTATTATATTTTTT
1 ATAAAATATTATTATATTTTTT
22367433 TCCCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATAAAATATTATTATATTTTTT
Found at i:22379281 original size:22 final size:18
Alignment explanation
Indices: 22379256--22379307 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 18
22379246 TTATTTTCAA
22379256 AAATATATAAAAATAACTTTAT
1 AAATATATAAAAAT-A--TT-T
* *
22379278 AAATTTATAGAAATATTT
1 AAATATATAAAAATATTT
22379296 AAATATATAAAA
1 AAATATATAAAA
22379308 GCCTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
21 1 0.04
22 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATATAAAAATATTT
Found at i:22379455 original size:35 final size:34
Alignment explanation
Indices: 22379386--22379460 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
22379376 TTTATAAATT
* * * *
22379386 TTTATATTTTTATAAATTTACATGCTTTTTTATA
1 TTTATATATATATAAATTTACAAGCTTTTATATA
*
22379420 TTTATATATATATAAATATTATAAGCTTTTATATA
1 TTTATATATATATAAAT-TTACAAGCTTTTATATA
22379455 TTTATA
1 TTTATA
22379461 AAAATTTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 15 0.43
35 20 0.57
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (34 bp):
TTTATATATATATAAATTTACAAGCTTTTATATA
Done.