Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 227 of 313
Found at i:69851451 original size:21 final size:21
Alignment explanation
Indices: 69851427--69851472 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
69851417 AAAAAACAAG
*
69851427 AAAATAGCGACAAAACAGTAA
1 AAAATAGCAACAAAACAGTAA
** *
69851448 AAAATATTAAGAAAACAGTAA
1 AAAATAGCAACAAAACAGTAA
69851469 AAAA
1 AAAA
69851473 ATAACAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAATAGCAACAAAACAGTAA
Found at i:69859543 original size:12 final size:13
Alignment explanation
Indices: 69859519--69859547 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
69859509 AGGCTATAAC
69859519 TATTGCATTTATT
1 TATTGCATTTATT
69859532 TATTGC-TTTATT
1 TATTGCATTTATT
69859544 TATT
1 TATT
69859548 CGTGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:69864900 original size:379 final size:379
Alignment explanation
Indices: 69864195--69864953 Score: 1329
Period size: 379 Copynumber: 2.0 Consensus size: 379
69864185 AGTGGGAGAT
* * * *
69864195 TGTTAGAGTTTGCCTAAAGATCAATCATGAGATGGTTGTAATAACATACTTGATTTATCATGTTT
1 TGTTAGAATATGCCCAAAGATCAATCATGAAATGGTTGTAATAACATACTTGATTTATCATGTTT
*
69864260 ATTAATATAAGGCGTTACCATTATTATTTCAGTTTCTTTTTTGTGTGTATAAATAAACTATTTTA
66 ATTAATATAAGGCGTTACCATTATTATTTCAGTTTCTTTTCTGTGTGTATAAATAAACTATTTTA
* * * *
69864325 CAATAATGTCCTGAGAATAATATGATTATTCTTAAAAGGTCCTTAGTCAAGTATTATTGTTGGCT
131 CAATAATGTCCTAAGAATAATATGATTATTCTTAAAAGATCCTTAGTAAAGTATTATTGTTGGAT
*
69864390 AGGACAACAATAATGCATTAAGACTAACATGTAGTTGATTGATGATAAAGAGTTGTCATTGATAT
196 AGGACAACAATAATGCATTAAGACTAACATGTAGTTGATTGATGATAAAGAGTTGCCATTGATAT
*
69864455 GGAATGTCAAAATCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTTATG
261 GGAATGTCAAAATCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATG
69864520 AGTATGTTTCTTGGATTATCATGTAATTGTCACAACATTACTCATAGTAATTAA
326 AGTATGTTTCTTGGATTATCATGTAATTGTCACAACATTACTCATAGTAATTAA
69864574 TGTTAGAATATGCCCAAAGATCAATCATGAAATGGTTGTAATAACATACTTGATTTATCATGTTT
1 TGTTAGAATATGCCCAAAGATCAATCATGAAATGGTTGTAATAACATACTTGATTTATCATGTTT
* * *
69864639 ATTAATATAAGGTGTTACCATTATTATTTCAGTTTCTTTTCTGTGTTTGTAAATAAACTATTTTA
66 ATTAATATAAGGCGTTACCATTATTATTTCAGTTTCTTTTCTGTGTGTATAAATAAACTATTTTA
*
69864704 TAATAATGTCCTAAGAATAATATGATTATTCTTAAAAGATCCTTAGTAAAGTATTATTGTTGGAT
131 CAATAATGTCCTAAGAATAATATGATTATTCTTAAAAGATCCTTAGTAAAGTATTATTGTTGGAT
*
69864769 AGGACAACGATAATGCATTAAGACTAACATGTAGTTGATTGATGATAAAGAGTTGCCATTGATAT
196 AGGACAACAATAATGCATTAAGACTAACATGTAGTTGATTGATGATAAAGAGTTGCCATTGATAT
* *
69864834 GGAATGTCAGAATCGATGCATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATG
261 GGAATGTCAAAATCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATG
* * *
69864899 AGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAGTGATTAA
326 AGTATGTTTCTTGGATTATCATGTAATTGTCACAACATTACTCATAGTAATTAA
69864953 T
1 T
69864954 ATGTATATGA
Statistics
Matches: 359, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
379 359 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (379 bp):
TGTTAGAATATGCCCAAAGATCAATCATGAAATGGTTGTAATAACATACTTGATTTATCATGTTT
ATTAATATAAGGCGTTACCATTATTATTTCAGTTTCTTTTCTGTGTGTATAAATAAACTATTTTA
CAATAATGTCCTAAGAATAATATGATTATTCTTAAAAGATCCTTAGTAAAGTATTATTGTTGGAT
AGGACAACAATAATGCATTAAGACTAACATGTAGTTGATTGATGATAAAGAGTTGCCATTGATAT
GGAATGTCAAAATCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATG
AGTATGTTTCTTGGATTATCATGTAATTGTCACAACATTACTCATAGTAATTAA
Found at i:69865571 original size:17 final size:17
Alignment explanation
Indices: 69865535--69865577 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
69865525 GTGTCGCTTG
*
69865535 AATTAAATTAATTCTAT
1 AATTAAATTAATTCGAT
* *
69865552 AATTAATTTAATTCGGT
1 AATTAAATTAATTCGAT
*
69865569 AATCAAATT
1 AATTAAATT
69865578 TCCAACACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (17 bp):
AATTAAATTAATTCGAT
Found at i:69867962 original size:27 final size:27
Alignment explanation
Indices: 69867931--69868108 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69867921 TAAATTGTAC
69867931 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69867958 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69867984 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69868012 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69868040 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69868067 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69868094 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69868109 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69868045 original size:82 final size:81
Alignment explanation
Indices: 69867932--69868087 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69867922 AAATTGTACA
* *
69867932 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69867996 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69868013 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
69868078 TGCGAGTTGA
65 TGCGAATTGA
69868088 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69868099 original size:82 final size:81
Alignment explanation
Indices: 69867928--69868108 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
69867918 GATTAAATTG
* *
69867928 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
69867993 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69868009 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
69868073 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
69868091 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69868109 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69875704 original size:12 final size:12
Alignment explanation
Indices: 69875687--69875713 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
69875677 ATTCCGAAGT
69875687 ATATATATATAC
1 ATATATATATAC
69875699 ATATATATATAC
1 ATATATATATAC
69875711 ATA
1 ATA
69875714 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:69876223 original size:27 final size:27
Alignment explanation
Indices: 69876192--69876369 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
69876182 TAAATTGTAC
69876192 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69876219 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69876245 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69876273 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69876301 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
69876328 AGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69876355 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69876370 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69876306 original size:82 final size:81
Alignment explanation
Indices: 69876193--69876348 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69876183 AAATTGTACA
* *
69876193 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69876257 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69876274 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
69876339 TGCGAGTTGA
65 TGCGAATTGA
69876349 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69894553 original size:26 final size:26
Alignment explanation
Indices: 69894501--69894553 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
69894491 CACCAATATC
* *
69894501 GCAGCATAGCTGCCAATAGTAATAAT
1 GCAGCAGAGCTGCCAATAGTAAGAAT
* * *
69894527 GCAGCAGAGCTGCTAGTAGTTAGAAT
1 GCAGCAGAGCTGCCAATAGTAAGAAT
69894553 G
1 G
69894554 ACTAAGAGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (26 bp):
GCAGCAGAGCTGCCAATAGTAAGAAT
Found at i:69894676 original size:32 final size:32
Alignment explanation
Indices: 69894603--69894836 Score: 208
Period size: 32 Copynumber: 7.4 Consensus size: 32
69894593 GAATGGCTAC
* * * *
69894603 AAGCCATAAGT-ACAGTAATGTGATTGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
69894634 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
69894666 CAGCCATCAGTAAC-GTAACATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
69894697 AAGCCATCAGTAGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
69894729 CAA-CTATTAGTAACAGTGAA-ATGATCGACACA
1 -AAGCCATCAGTAACAGT-AATATGATCGGCACA
* * *
69894761 CAA-CCATCAATAACGGTAATATGATCGGTACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** * *
69894793 AAACCATCAGTAATGGTATTATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
69894825 AAGCCATCAGTA
1 AAGCCATCAGTA
69894837 GCATCACAGT
Statistics
Matches: 164, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
31 41 0.25
32 120 0.73
33 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:69894704 original size:63 final size:62
Alignment explanation
Indices: 69894633--69894839 Score: 236
Period size: 64 Copynumber: 3.3 Consensus size: 62
69894623 TGATTGGCAT
* *
69894633 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGTAACATGATCGGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGTAA-ATGATCGACAC
* * *
69894696 AAAGCCATCAGTAGCAGTGATATGATTGGCACACAACTATTAGTAACAGTGAAATGATCGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAAC-GT-AAATGATCGACAC
* * * * * * * *
69894760 ACAA-CCATCAATAACGGTAATATGATCGGTACAAAACCATCAGTAATGGTATTATGATCGACAC
1 A-AAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAA-CGTA-AATGATCGACAC
69894824 AAAGCCATCAGTAGCA
1 AAAGCCATCAGTAGCA
69894840 TCACAGTAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
63 46 0.39
64 69 0.58
65 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (62 bp):
AAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGTAAATGATCGACAC
Found at i:69895039 original size:24 final size:23
Alignment explanation
Indices: 69895012--69895065 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
69895002 GCTCAGAATT
* *
69895012 AGTCATTCAAATCACAGACAAATC
1 AGTCATT-AAACCACAGACAAAAC
*
69895036 AGTCATTTAACCACAGACAAAAC
1 AGTCATTAAACCACAGACAAAAC
*
69895059 AATCATT
1 AGTCATT
69895066 TGATCTTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (23 bp):
AGTCATTAAACCACAGACAAAAC
Found at i:69895144 original size:27 final size:26
Alignment explanation
Indices: 69895087--69895260 Score: 190
Period size: 27 Copynumber: 6.6 Consensus size: 26
69895077 GGAAAAAATA
* *
69895087 GTCA-TTTACCC-ACCAGGGCATTACA
1 GTCATTTTACCCTA-CAGGGTATTACG
*
69895112 GTCATTTTACCCTAGAGGGGTATTACG
1 GTCATTTTACCCTACA-GGGTATTACG
* * *
69895139 GTCATTTTACACTATAGGGCATTACG
1 GTCATTTTACCCTACAGGGTATTACG
* * *
69895165 ATTATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTA-CAGGGTATTACG
*
69895192 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGTATTACG
* *
69895219 TTCATTTTACCCTACAGGGTATTATG
1 GTCATTTTACCCTACAGGGTATTACG
69895245 GTCATTTTACCCTACA
1 GTCATTTTACCCTACA
69895261 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
26 52 0.42
27 69 0.55
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGTATTACG
Found at i:69895158 original size:53 final size:53
Alignment explanation
Indices: 69895101--69895260 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 53
69895091 TTTACCCACC
* *
69895101 AGGGCATTAC-AGTCATTTTACCCTAGAGGGGTATTACGGTCATTTTACACTA-T
1 AGGGCATTACGA-TCATTTTACCCTACA-GGGTATTACGGTCATTTTACACTACA
* * *
69895154 AGGGCATTACGATTATTTTACCCTATAAGGGTATTACGGTCATTTTACCCTACA
1 AGGGCATTACGATCATTTTACCCTA-CAGGGTATTACGGTCATTTTACACTACA
* * *
69895208 AGGGCATTACGTTCATTTTACCCTACAGGGTATTATGGTCATTTTACCCTACA
1 AGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACACTACA
69895261 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
53 71 0.74
54 25 0.26
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (53 bp):
AGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACACTACA
Found at i:69895202 original size:80 final size:80
Alignment explanation
Indices: 69895101--69895258 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 80
69895091 TTTACCCACC
* * * *
69895101 AGGGCATTACAGTCATTTTACCCTAGAGGGGTATTACGGTCATTTTACACTATAGGGCATTACGA
1 AGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACACTACAGGGCATTACGA
*
69895166 TTATTTTACCCTATA
66 TCATTTTACCCTATA
* * * * * * *
69895181 AGGGTATTACGGTCATTTTACCCTACAAGGGCATTACGTTCATTTTACCCTACAGGGTATTATGG
1 AGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACACTACAGGGCATTACGA
69895246 TCATTTTACCCTA
66 TCATTTTACCCTA
69895259 CANNNNNNNN
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (80 bp):
AGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACACTACAGGGCATTACGA
TCATTTTACCCTATA
Found at i:69895339 original size:27 final size:27
Alignment explanation
Indices: 69895309--69895464 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
69895299 CATTACAGTT
* * * *
69895309 ATTTTTCCCTATAGGGGTATTATGATA
1 ATTTTACCCTACAGGGGTATTACGATC
* * * *
69895336 ATTTTACCCTACAAGGGTATTATGGTT
1 ATTTTACCCTACAGGGGTATTACGATC
* * *
69895363 ATTTTACCCTAAAGGGGCATTACGATT
1 ATTTTACCCTACAGGGGTATTACGATC
* * *
69895390 ATTTTATCCTGCAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGATC
* * *
69895417 ATTTTACCATATAGGGGCATTAC-AGTC
1 ATTTTACCCTACAGGGGTATTACGA-TC
69895444 ATTTTACCCTACAGGGGTATT
1 ATTTTACCCTACAGGGGTATT
69895465 TTAGTCCAGA
Statistics
Matches: 103, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTACGATC
Found at i:69895373 original size:54 final size:53
Alignment explanation
Indices: 69895300--69895464 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 53
69895290 CTACACGAGC
* * * *
69895300 ATTACAGTTATTTTTCCCTATAGGGGTATTATGATAATTTTACCCTACAAGGGT
1 ATTACGGTTATTTTACCCTATAGGGGCATTA-GATAATTTTACCCTACAGGGGT
* * * * *
69895354 ATTATGGTTATTTTACCCTAAAGGGGCATTACGATTATTTTATCCTGCAGGGGT
1 ATTACGGTTATTTTACCCTATAGGGGCATTA-GATAATTTTACCCTACAGGGGT
* * * *
69895408 ATTACGGTCATTTTACCATATAGGGGCATTACAGTCATTTTACCCTACAGGGGT
1 ATTACGGTTATTTTACCCTATAGGGGCATTAGA-TAATTTTACCCTACAGGGGT
69895462 ATT
1 ATT
69895465 TTAGTCCAGA
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 91 0.99
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (53 bp):
ATTACGGTTATTTTACCCTATAGGGGCATTAGATAATTTTACCCTACAGGGGT
Found at i:69904788 original size:79 final size:82
Alignment explanation
Indices: 69904677--69904861 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 82
69904667 GCTACTCGTT
* *
69904677 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
69904740 GGACT-TAGTAAC-TCGCA
65 GGA-TATAGTAACTTAGCA
* **
69904757 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
69904820 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
69904837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69904862 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 4 0.04
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:69904861 original size:40 final size:40
Alignment explanation
Indices: 69904658--69904861 Score: 231
Period size: 40 Copynumber: 5.1 Consensus size: 40
69904648 CGGAATTTAA
** *
69904658 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69904698 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
69904738 CCGGACT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGA-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69904777 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69904817 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69904857 CCGGA
1 CCGGA
69904862 CATCATTCAA
Statistics
Matches: 141, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 93 0.66
41 13 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69908577 original size:26 final size:26
Alignment explanation
Indices: 69908548--69908611 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
69908538 TATACATGGT
*
69908548 TGCTCACACGAGTCATGAAATGAGTA
1 TGCTCACACGAGTCATGAAATGAGCA
** * *
69908574 TGCTCACACGAGTTGTGAAATGGGCC
1 TGCTCACACGAGTCATGAAATGAGCA
69908600 TGCTCACACGAG
1 TGCTCACACGAG
69908612 CTATGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (26 bp):
TGCTCACACGAGTCATGAAATGAGCA
Found at i:69913008 original size:15 final size:15
Alignment explanation
Indices: 69912988--69913058 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
69912978 CCTTATATAC
* *
69912988 TGAAACTTTAGATTG
1 TGAAACTATAGATTA
* *
69913003 TGAAACTATAGACTG
1 TGAAACTATAGATTA
*
69913018 TGAAACTTTAGATTA
1 TGAAACTATAGATTA
*
69913033 TGAAGTCTATAGATTA
1 TGAA-ACTATAGATTA
69913049 TGAAACTATA
1 TGAAACTATA
69913059 TTGAAATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 34 0.72
16 13 0.28
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.35
Consensus pattern (15 bp):
TGAAACTATAGATTA
Found at i:69913024 original size:30 final size:31
Alignment explanation
Indices: 69912988--69913055 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
69912978 CCTTATATAC
* *
69912988 TGAAACTTTAGATTGTGAA-ACTATAGACTG
1 TGAAACTTTAGATTATGAAGACTATAGACTA
* *
69913018 TGAAACTTTAGATTATGAAGTCTATAGATTA
1 TGAAACTTTAGATTATGAAGACTATAGACTA
69913049 TGAAACT
1 TGAAACT
69913056 ATATTGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (31 bp):
TGAAACTTTAGATTATGAAGACTATAGACTA
Found at i:69923197 original size:34 final size:34
Alignment explanation
Indices: 69923154--69923221 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
69923144 CCCCTTACCG
*
69923154 TTTATTGATCAGATGTTGGACAGGTTAGTAGGGA
1 TTTATTGATCAGATGTTGGACAGGTTAGAAGGGA
*
69923188 TTTATTGATCAGATGTTGGATAGGTTAGAAGGGA
1 TTTATTGATCAGATGTTGGACAGGTTAGAAGGGA
69923222 AAGCTTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.35
Consensus pattern (34 bp):
TTTATTGATCAGATGTTGGACAGGTTAGAAGGGA
Found at i:69927960 original size:45 final size:45
Alignment explanation
Indices: 69927909--69927994 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
69927899 GCATCACTTT
* *
69927909 GTTTTCTCCATCATGCTATTGATTAGAAAGGTGAGTCTAGGAAAG
1 GTTTTCTCCATCATACTATTGATTAGAAAGGTGAGCCTAGGAAAG
*
69927954 GTTTTCTCCATCGTACTATTGATTAGAAAGGTGAGCCTAGG
1 GTTTTCTCCATCATACTATTGATTAGAAAGGTGAGCCTAGG
69927995 CAAAAGTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GTTTTCTCCATCATACTATTGATTAGAAAGGTGAGCCTAGGAAAG
Found at i:69929407 original size:13 final size:13
Alignment explanation
Indices: 69929389--69929413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69929379 AATTATCTTT
69929389 ATTGTTTTATTCA
1 ATTGTTTTATTCA
69929402 ATTGTTTTATTC
1 ATTGTTTTATTC
69929414 TTTAAAATGT
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTGTTTTATTCA
Found at i:69931894 original size:5 final size:5
Alignment explanation
Indices: 69931884--69931916 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
69931874 TTAGATTTTG
*
69931884 TTTCT TTTCT TCTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
69931917 TGGCTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:69933544 original size:25 final size:25
Alignment explanation
Indices: 69933516--69933565 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
69933506 TCCTTTTCAC
69933516 TTTCCTTCCCTACCAACCCTACCAA
1 TTTCCTTCCCTACCAACCCTACCAA
69933541 TTTCCTTCCCTACCAACCCTACCAA
1 TTTCCTTCCCTACCAACCCTACCAA
69933566 GTATACTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (25 bp):
TTTCCTTCCCTACCAACCCTACCAA
Found at i:69934052 original size:41 final size:41
Alignment explanation
Indices: 69933987--69934066 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
69933977 AGTACTGTCT
*
69933987 ACTTAACATAAAAAATTCAGCATCAAAGCTTAGGGTACCCC
1 ACTTAACATAAAAAATTCAACATCAAAGCTTAGGGTACCCC
*
69934028 ACTTGACATAAAAAATTCAACATCAAAGCTTAGGGTACC
1 ACTTAACATAAAAAATTCAACATCAAAGCTTAGGGTACC
69934067 TCTTTCCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (41 bp):
ACTTAACATAAAAAATTCAACATCAAAGCTTAGGGTACCCC
Found at i:69935586 original size:18 final size:18
Alignment explanation
Indices: 69935563--69935600 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69935553 AAAGCACCAC
*
69935563 CACCAAAGCCACCATAAT
1 CACCAAAGCCACCAAAAT
*
69935581 CACCAAATCCACCAAAAT
1 CACCAAAGCCACCAAAAT
69935599 CA
1 CA
69935601 TCATGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.39, G:0.03, T:0.11
Consensus pattern (18 bp):
CACCAAAGCCACCAAAAT
Found at i:69937460 original size:30 final size:30
Alignment explanation
Indices: 69937426--69937506 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
69937416 TATTACCATA
*
69937426 TTCTATTTTGGTCACTGAACTTTTCATTGT
1 TTCTATTTTGGTCACTGAACTTTTCATTAT
69937456 TTCTATTTTGGTCACTGAACTTTTCATTAT
1 TTCTATTTTGGTCACTGAACTTTTCATTAT
69937486 TTCTATTTTGGTCACTGAACT
1 TTCTATTTTGGTCACTGAACT
69937507 CTTTAAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (30 bp):
TTCTATTTTGGTCACTGAACTTTTCATTAT
Found at i:69938314 original size:39 final size:41
Alignment explanation
Indices: 69938250--69938327 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
69938240 GGTCCCAAAA
*
69938250 ATATTATTTTAGAACATTTTTAAAA-TTTTAACTTTTTTAT
1 ATATTATTTTAGAACATTTTTAAAATTTTTAAATTTTTTAT
*
69938290 ATATT-TTTTAGAA-TTTTTTGAAAATTTTTAAATTTTTT
1 ATATTATTTTAGAACATTTTT-AAAATTTTTAAATTTTTT
69938328 TAAAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 5 0.15
39 12 0.35
40 17 0.50
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (41 bp):
ATATTATTTTAGAACATTTTTAAAATTTTTAAATTTTTTAT
Found at i:69938317 original size:19 final size:19
Alignment explanation
Indices: 69938294--69938332 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
69938284 TTTTATATAT
69938294 TTTTTAGAATTTTTTGAAAA
1 TTTTTA-AATTTTTTGAAAA
*
69938314 TTTTTAAATTTTTTTAAAA
1 TTTTTAAATTTTTTGAAAA
69938333 AATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAAATTTTTTGAAAA
Found at i:69938327 original size:9 final size:9
Alignment explanation
Indices: 69938266--69938327 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
69938256 TTTTAGAACA
69938266 TTTTTAAA-
1 TTTTTAAAT
* *
69938274 ATTTTAACT
1 TTTTTAAAT
69938283 TTTTTATATAT
1 TTTTTA-A-AT
69938294 TTTTTAGAAT
1 TTTTTA-AAT
*
69938304 TTTTTGAAAA
1 TTTTT-AAAT
69938314 TTTTTAAAT
1 TTTTTAAAT
69938323 TTTTT
1 TTTTT
69938328 TAAAAAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
8 6 0.14
9 13 0.30
10 15 0.35
11 9 0.21
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:69938333 original size:20 final size:20
Alignment explanation
Indices: 69938256--69938333 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
69938246 AAAAATATTA
*
69938256 TTTTAGAACATTTTT-AAAA-
1 TTTTAGAA-TTTTTTAAAAAT
* * *
69938275 TTTTA-ACTTTTTTATATATT
1 TTTTAGAATTTTTTA-AAAAT
*
69938295 TTTTAGAATTTTTTGAAAAT
1 TTTTAGAATTTTTTAAAAAT
69938315 TTTTA-AATTTTTTTAAAAA
1 TTTTAGAA-TTTTTTAAAAA
69938334 ATATATAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
17 5 0.11
18 1 0.02
19 9 0.20
20 23 0.51
21 7 0.16
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTAGAATTTTTTAAAAAT
Found at i:69938373 original size:19 final size:20
Alignment explanation
Indices: 69938344--69938393 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
69938334 ATATATAAAT
*
69938344 TTTGAAATTTTTATAAA-TAA
1 TTTG-AATTTTTAAAAATTAA
*
69938364 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAA
69938383 TTTGAATTTTT
1 TTTGAATTTTT
69938394 TGTAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.31
19 10 0.38
20 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAA
Found at i:69938557 original size:24 final size:24
Alignment explanation
Indices: 69938530--69938585 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
69938520 CAAACTCAAA
69938530 ACTCGAATCGAATTATTCGAGTTG
1 ACTCGAATCGAATTATTCGAGTTG
69938554 ACTCGAATCGAATTATTCGAGTTG
1 ACTCGAATCGAATTATTCGAGTTG
69938578 ACTCGAAT
1 ACTCGAAT
69938586 AATTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (24 bp):
ACTCGAATCGAATTATTCGAGTTG
Found at i:69941561 original size:27 final size:26
Alignment explanation
Indices: 69941531--69941656 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
69941521 AAATTGTACA
69941531 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
69941558 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
69941585 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
69941612 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
69941640 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
69941657 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:69941595 original size:54 final size:54
Alignment explanation
Indices: 69941530--69941656 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
69941520 TAAATTGTAC
* **
69941530 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
69941583 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
69941639 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
69941657 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:69946408 original size:46 final size:46
Alignment explanation
Indices: 69946358--69946533 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
69946348 TGGTTGAGCA
69946358 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69946404 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
69946449 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69946497 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69946534 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 65 0.59
47 29 0.26
48 3 0.03
50 2 0.02
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:69946514 original size:93 final size:93
Alignment explanation
Indices: 69946355--69946525 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
69946345 GGATGGTTGA
* * *
69946355 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
69946420 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* *
69946448 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
69946513 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
69946526 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:69950873 original size:19 final size:20
Alignment explanation
Indices: 69950811--69950918 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
69950801 TCTATAAACT
69950811 GTAATTCATTCA-TAT-AACTA
1 GTAATTCA-TCACTATCAAC-A
*
69950831 GTAGTTCATC-CGTAT-AACCA
1 GTAATTCATCAC-TATCAA-CA
*
69950851 GTAATTCATCACTAT-ATCA
1 GTAATTCATCACTATCAACA
* **
69950870 GTAATTTATCTGTATCAACA
1 GTAATTCATCACTATCAACA
*
69950890 GTAATTCATTCA-TTTCAACA
1 GTAATTCA-TCACTATCAACA
69950910 GTAATTCAT
1 GTAATTCAT
69950919 ATAATCAGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
19 17 0.24
20 51 0.71
21 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
GTAATTCATCACTATCAACA
Found at i:69951126 original size:22 final size:22
Alignment explanation
Indices: 69951072--69951176 Score: 68
Period size: 23 Copynumber: 4.6 Consensus size: 22
69951062 TGAGCTGATA
* * * *
69951072 AACAGTAAGATCTATTAATCTCA
1 AACAGTAAGCTCTATTGAGCT-G
*
69951095 AACGGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
69951117 AACAGTAAGCTC-ATACGAGCTG
1 AACAGTAAGCTCTAT-TGAGCTG
** * *
69951139 AATTGGTAAGCTCCAATGAGCTG
1 AA-CAGTAAGCTCTATTGAGCTG
69951162 AAAACAGTAAGCTCT
1 --AACAGTAAGCTCT
69951177 TACGAGCTGA
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
21 2 0.03
22 19 0.30
23 31 0.49
24 9 0.14
25 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:69951147 original size:45 final size:49
Alignment explanation
Indices: 69951097--69951201 Score: 146
Period size: 47 Copynumber: 2.2 Consensus size: 49
69951087 TAATCTCAAA
* *
69951097 CGGTAAGCTCTATTGAGCTG-AACAGTAAGCTCATACGAGCTGA-AT-T
1 CGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCATACGAGCTGATATAT
*
69951143 -GGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTACGAGCTGATATAT
1 CGGTAAGCTCCAATGAGCTG-AAACAGTAAGCTCATACGAGCTGATATAT
69951192 CGGTAAGCTC
1 CGGTAAGCTC
69951202 ATACGAGCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 17 0.33
47 22 0.43
48 2 0.04
49 1 0.02
50 9 0.18
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (49 bp):
CGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCATACGAGCTGATATAT
Found at i:69951200 original size:26 final size:25
Alignment explanation
Indices: 69951121--69951211 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 25
69951111 GAGCTGAACA
69951121 GTAAGCTCATACGAGCTGAAT-T-G
1 GTAAGCTCATACGAGCTGAATATCG
* * *
69951144 GTAAGCTCCA-ATGAGCTGAA-AACA
1 GTAAGCT-CATACGAGCTGAATATCG
*
69951168 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCATACGAGCTGA-ATATCG
69951194 GTAAGCTCATACGAGCTG
1 GTAAGCTCATACGAGCTG
69951212 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 17 0.31
24 17 0.31
25 1 0.02
26 19 0.35
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATATCG
Found at i:69957525 original size:61 final size:61
Alignment explanation
Indices: 69957446--69957566 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
69957436 TACCATGTAG
69957446 TTCACATAACATTATGGCAATTCATTTTTATTCGAATAAACTGTAATTCATTTATATAACA
1 TTCACATAACATTATGGCAATTCATTTTTATTCGAATAAACTGTAATTCATTTATATAACA
*
69957507 TTCAGATAACATTATGGCAATTCATTTTTATTCGAATAAACTGTAATTCATTTATATAAC
1 TTCACATAACATTATGGCAATTCATTTTTATTCGAATAAACTGTAATTCATTTATATAAC
69957567 TAGTAGTTCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (61 bp):
TTCACATAACATTATGGCAATTCATTTTTATTCGAATAAACTGTAATTCATTTATATAACA
Found at i:69957576 original size:20 final size:20
Alignment explanation
Indices: 69957549--69957656 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
69957539 CGAATAAACT
* *
69957549 GTAATTCATTTATATAACTA
1 GTAATTCATTCATATAACCA
* *
69957569 GTAGTTCATTCGTATAACCA
1 GTAATTCATTCATATAACCA
*
69957589 GTAATTCA-TCA-ATATATCA
1 GTAATTCATTCATATA-ACCA
* * *
69957608 GTAATTTATCCGTATCAA-CA
1 GTAATTCATTCATAT-AACCA
*
69957628 GTAATTCATTCATTTCAA-CA
1 GTAATTCATTCATAT-AACCA
69957648 GTAATTCAT
1 GTAATTCAT
69957657 ATAATCGGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.04
19 12 0.17
20 51 0.73
21 3 0.04
22 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (20 bp):
GTAATTCATTCATATAACCA
Found at i:69957844 original size:23 final size:22
Alignment explanation
Indices: 69957808--69957914 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 22
69957798 CCTGAGCTGA
* *
69957808 TAAACAGTAAGCTCTATTGAGC
1 TAAATAGTAAGCTCTATCGAGC
*
69957830 TCAAATTGTAAGCTCTATCGAGC
1 T-AAATAGTAAGCTCTATCGAGC
*
69957853 TAAACAGTAAGCTC-ATACGAGC
1 TAAATAGTAAGCTCTAT-CGAGC
* *
69957875 TAAATCGGTAAGCTCCAAT-GAGC
1 TAAAT-AGTAAGCT-CTATCGAGC
69957898 TAAAAATAGTAAGCTCT
1 T--AAATAGTAAGCTCT
69957915 TACGAGTTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.03
22 21 0.30
23 32 0.46
24 8 0.12
25 6 0.09
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
TAAATAGTAAGCTCTATCGAGC
Found at i:69957865 original size:22 final size:22
Alignment explanation
Indices: 69957808--69957889 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
69957798 CCTGAGCTGA
*
69957808 TAAACAGTAAGCTCTATTGAGC
1 TAAACAGTAAGCTCTATCGAGC
**
69957830 TCAAATTGTAAGCTCTATCGAGC
1 T-AAACAGTAAGCTCTATCGAGC
69957853 TAAACAGTAAGCTC-ATACGAGC
1 TAAACAGTAAGCTCTAT-CGAGC
*
69957875 TAAATCGGTAAGCTC
1 TAAA-CAGTAAGCTC
69957890 CAATGAGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.04
22 21 0.41
23 28 0.55
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (22 bp):
TAAACAGTAAGCTCTATCGAGC
Found at i:69957875 original size:45 final size:44
Alignment explanation
Indices: 69957808--69957939 Score: 115
Period size: 45 Copynumber: 2.8 Consensus size: 44
69957798 CCTGAGCTGA
* * *
69957808 TAAACAGTAAGCTCTATTGAGCTCAAAT-TGTAAGCT-CTATCGAGC
1 TAAACAGTAAGCTCTA-CGAGCT-AAATCGGTAAGCTCCAAT-GAGC
69957853 TAAACAGTAAGCTCATACGAGCTAAATCGGTAAGCTCCAATGAGC
1 TAAACAGTAAGCTC-TACGAGCTAAATCGGTAAGCTCCAATGAGC
* *
69957898 TAAAAATAGTAAGCTCTTACGAGTTGATATATCGGTAAGCTC
1 T--AAACAGTAAGCTC-TACGAGCT-A-A-ATCGGTAAGCTC
69957940 ATACGAGTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
44 4 0.05
45 31 0.42
46 5 0.07
47 19 0.26
48 1 0.01
49 1 0.01
50 12 0.16
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
TAAACAGTAAGCTCTACGAGCTAAATCGGTAAGCTCCAATGAGC
Found at i:69961826 original size:50 final size:50
Alignment explanation
Indices: 69961768--69961867 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
69961758 AGCATTTCTA
69961768 TTATCGTTCCTTATTTTAATCCCATTGAACTTCTCGGAATCTCGATAGAT
1 TTATCGTTCCTTATTTTAATCCCATTGAACTTCTCGGAATCTCGATAGAT
69961818 TTATCGTTCCTTATTTTAATCCCATTGAACTTCTCGGAATCTCGATAGAT
1 TTATCGTTCCTTATTTTAATCCCATTGAACTTCTCGGAATCTCGATAGAT
69961868 ATCTCATTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (50 bp):
TTATCGTTCCTTATTTTAATCCCATTGAACTTCTCGGAATCTCGATAGAT
Found at i:69965486 original size:50 final size:50
Alignment explanation
Indices: 69965427--69965525 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
69965417 TGACGATCTG
*
69965427 TGGCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCC
1 TGGCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCAGCATCC
69965477 TGGCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCAGCATC
1 TGGCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCAGCATC
69965526 TCTAATCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.40
Consensus pattern (50 bp):
TGGCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCAGCATCC
Found at i:69974003 original size:16 final size:16
Alignment explanation
Indices: 69973982--69974051 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
69973972 TTTGGTTCGC
* *
69973982 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* * *
69973998 TGTATTGGATTAAAGG
1 TGTAATGGAATAGAGG
69974014 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
69974030 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
69974046 TGTAAT
1 TGTAAT
69974052 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:69974135 original size:39 final size:43
Alignment explanation
Indices: 69974030--69974139 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
69974020 GGAATAGAGG
69974030 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
69974075 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
69974115 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
69974140 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:69983626 original size:9 final size:9
Alignment explanation
Indices: 69983608--69983644 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
69983598 TGAGTTTTTG
69983608 AATTCGAAT
1 AATTCGAAT
*
69983617 AATTCAAAT
1 AATTCGAAT
69983626 AATTCGAAT
1 AATTCGAAT
69983635 AATTCGAAT
1 AATTCGAAT
69983644 A
1 A
69983645 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:69983766 original size:30 final size:31
Alignment explanation
Indices: 69983700--69983766 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
69983690 TTTTACTTTT
* *
69983700 CTCCCAAAATTTTTACTCCCTCCCACTTTAC
1 CTCCCAAAACTTTTACTCCCTCCCACTTCAC
*
69983731 C-CCCAAAACTTTTACTCCCCTCCC-C-TCCC
1 CTCCCAAAACTTTTACT-CCCTCCCACTTCAC
69983760 CTCCCAA
1 CTCCCAA
69983767 CCCCCCAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 3 0.10
30 20 0.65
31 8 0.26
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.28
Consensus pattern (31 bp):
CTCCCAAAACTTTTACTCCCTCCCACTTCAC
Found at i:69984539 original size:200 final size:200
Alignment explanation
Indices: 69984196--69984595 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
69984186 TATTAAAATT
69984196 AAATTATTAATTATGGCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTT
1 AAATTATTAATTATGGCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTT
69984261 TAAAAAAAATAAATTTTATTAAAAAATCATATTTTTATATTTAATATATTTTTAATTCCAAAATA
66 TAAAAAAAATAAATTTTATTAAAAAATCATATTTTTATATTTAATATATTTTTAATTCCAAAATA
69984326 CATAGTGGCAAGAATCTGAAGATAATTAAAACAACTAAGCAAGCAGATAAGCTAACCAATATATA
131 CATAGTGGCAAGAATCTGAAGATAATTAAAACAACTAAGCAAGCAGATAAGCTAACCAATATATA
69984391 AAAAA
196 AAAAA
69984396 AAATTATTAATTATGGCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTT
1 AAATTATTAATTATGGCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTT
69984461 TAAAAAAAATAAATTTTATTAAAAAATCATATTTTTATATTTAATATATTTTTAATTCCAAAATA
66 TAAAAAAAATAAATTTTATTAAAAAATCATATTTTTATATTTAATATATTTTTAATTCCAAAATA
69984526 CATAGTGGCAAGAATCTGAAGATAATTAAAACAACTAAGCAAGCAGATAAGCTAACCAATATATA
131 CATAGTGGCAAGAATCTGAAGATAATTAAAACAACTAAGCAAGCAGATAAGCTAACCAATATATA
69984591 AAAAA
196 AAAAA
69984596 TTAATAAATA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (200 bp):
AAATTATTAATTATGGCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTT
TAAAAAAAATAAATTTTATTAAAAAATCATATTTTTATATTTAATATATTTTTAATTCCAAAATA
CATAGTGGCAAGAATCTGAAGATAATTAAAACAACTAAGCAAGCAGATAAGCTAACCAATATATA
AAAAA
Found at i:69984735 original size:5 final size:5
Alignment explanation
Indices: 69984725--69984775 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
69984715 GAACAAATAT
69984725 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG
69984775 A
1 A
69984776 ATTCCATCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:69985450 original size:5 final size:5
Alignment explanation
Indices: 69985440--69985470 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
69985430 TTTTCTACAC
69985440 TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
69985471 AAGTTATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:69987146 original size:13 final size:13
Alignment explanation
Indices: 69987128--69987165 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
69987118 AGTTCTTTAT
69987128 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
69987141 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
69987154 TGCTGTTGAAAA
1 TGCTTTTGAAAA
69987166 ATTTGAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:69990871 original size:24 final size:24
Alignment explanation
Indices: 69990839--69990887 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69990829 AAGGCATGTT
69990839 CCTAAAAAAACATTTAAATAAAGG
1 CCTAAAAAAACATTTAAATAAAGG
69990863 CCTAAAAAAACATTTAAATAAAGG
1 CCTAAAAAAACATTTAAATAAAGG
69990887 C
1 C
69990888 AATGTGTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.20
Consensus pattern (24 bp):
CCTAAAAAAACATTTAAATAAAGG
Found at i:69992422 original size:45 final size:45
Alignment explanation
Indices: 69992370--69992503 Score: 164
Period size: 45 Copynumber: 2.9 Consensus size: 45
69992360 TCATACCAAA
69992370 AACGAGTAAGACCATAGTCGAAAAACGTTATGGCATCATGAATT-T
1 AACGAGTAAGACCATAG-CGAAAAACGTTATGGCATCATGAATTGT
* * * *
69992415 AATGAGTAAGACCATAACTGAAAGACGTTATGGTATCATG-ATTGT
1 AACGAGTAAGACCATAGC-GAAAAACGTTATGGCATCATGAATTGT
* *
69992460 AACGAGTAAGACCATAGCTAAAAGACTTTAATGGCATCATGAAT
1 AACGAGTAAGACCATAGCGAAAA-ACGTT-ATGGCATCATGAAT
69992504 CGGACGAATA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 7 0.09
45 55 0.74
46 10 0.14
47 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.25
Consensus pattern (45 bp):
AACGAGTAAGACCATAGCGAAAAACGTTATGGCATCATGAATTGT
Found at i:70000824 original size:125 final size:125
Alignment explanation
Indices: 70000602--70000847 Score: 456
Period size: 125 Copynumber: 2.0 Consensus size: 125
70000592 CAGTAATTCT
* *
70000602 TCAACTTGCCTTTGTAATTCCTTTGTCTCCTCAGGATTGAATTTATAGGCTGGTCGATTTGGTAT
1 TCAACTTGCCTTTGCAATTCCTTTGTCTCCTCAGGATTGAATCTATAGGCTGGTCGATTTGGTAT
70000667 TGAAGCTTCGGGTACTAAGTCAATTTGATGCTCTATCCCTTGTAATGGTGGTAAACGTCC
66 TGAAGCTTCGGGTACTAAGTCAATTTGATGCTCTATCCCTTGTAATGGTGGTAAACGTCC
* *
70000727 TCAACTTGCCTTTGCAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGATTTGGTAT
1 TCAACTTGCCTTTGCAATTCCTTTGTCTCCTCAGGATTGAATCTATAGGCTGGTCGATTTGGTAT
70000792 TGAAGCTTCGGGTACTAAGTCAATTTGATGCTCTATCCCTTGTAATGGTGGTAAAC
66 TGAAGCTTCGGGTACTAAGTCAATTTGATGCTCTATCCCTTGTAATGGTGGTAAAC
70000848 CTTTAGGGGC
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 117 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (125 bp):
TCAACTTGCCTTTGCAATTCCTTTGTCTCCTCAGGATTGAATCTATAGGCTGGTCGATTTGGTAT
TGAAGCTTCGGGTACTAAGTCAATTTGATGCTCTATCCCTTGTAATGGTGGTAAACGTCC
Found at i:70010171 original size:15 final size:16
Alignment explanation
Indices: 70010144--70010173 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70010134 AATAACAATT
70010144 AATATATATTATATAA
1 AATATATATTATATAA
70010160 AATATA-ATTATATA
1 AATATATATTATATA
70010174 TTAGTTGTTA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:70017707 original size:17 final size:17
Alignment explanation
Indices: 70017685--70017717 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
70017675 TTGATTATCG
70017685 AATTAAATTAATTCAAT
1 AATTAAATTAATTCAAT
*
70017702 AATTAATTTAATTCAA
1 AATTAAATTAATTCAA
70017718 GCGACCCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTAAATTAATTCAAT
Found at i:70036029 original size:51 final size:51
Alignment explanation
Indices: 70035892--70036182 Score: 277
Period size: 51 Copynumber: 5.7 Consensus size: 51
70035882 ACTTTTATCA
* * *
70035892 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATC--AAGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
*
70035941 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACT-TGACCAAAACTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACA-TGTGACCAAAACTT
* * **
70035993 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
* * * ** *
70036043 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
* * * * ***
70036095 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCGTCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
* * * * *
70036145 CATCGATTCACGTAGTAGCCTCCACACAGTACTACACA
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACA
70036183 CATGTTCATC
Statistics
Matches: 194, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.01
50 43 0.22
51 141 0.73
52 8 0.04
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
Found at i:70036087 original size:102 final size:102
Alignment explanation
Indices: 70035892--70036186 Score: 439
Period size: 102 Copynumber: 2.9 Consensus size: 102
70035882 ACTTTTATCA
* * * * *** *
70035892 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTA-CGGTTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
* *
70035956 TAGCCTTCACATAGTACTACACACTTGACCAAAACTT
66 TAGCCTTCACACAGTACTACACACATGACCAAAACTT
70035993 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
70036058 TAGCCTTCACACAGTACTACACACATGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACATGACCAAAACTT
* * * *
70036095 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCGTCATTCATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
70036160 TAGCCTCCACACAGTACTACACACATG
66 TAGCCTTCACACAGTACTACACACATG
70036187 TTCATCGATA
Statistics
Matches: 177, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 45 0.25
102 132 0.75
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACATGACCAAAACTT
Found at i:70036178 original size:153 final size:152
Alignment explanation
Indices: 70035893--70036182 Score: 343
Period size: 153 Copynumber: 1.9 Consensus size: 152
70035883 CTTTTATCAT
* ** * * * *
70035893 TCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
* * * **
70035958 GCCTTCACATAGTACTACACACTTGACCAAAACTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACTTGACCAAAACTTATCGATACACATAGTAGCCTCCACACAGTA
70036023 CTACACATGTGACCATCATTTA
131 CTACACATGTGACCATCATTTA
* *
70036045 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACC-AAG-TTCTACGGTACACATAG
* *** * *
70036109 TAGCCTTCACTTAGTACTACACA-TGTGACCGTCA-TTCATCGATTCACGTAGTAGCCTCCACAC
64 TAGCCTTCACATAGTACTACACACT-TGACCAAAACTT-ATCGATACACATAGTAGCCTCCACAC
70036172 AGTACTACACA
127 AGTACTACACA
70036183 CATGTTCATC
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
152 41 0.36
153 70 0.61
154 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (152 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACTTGACCAAAACTTATCGATACACATAGTAGCCTCCACACAGTA
CTACACATGTGACCATCATTTA
Found at i:70038936 original size:149 final size:149
Alignment explanation
Indices: 70038666--70038965 Score: 600
Period size: 149 Copynumber: 2.0 Consensus size: 149
70038656 TAGCTCCGAC
70038666 AAGCTTCCAACCCGAACGAGCTTCTGATTCACTATAAAACACAAAAAATAACACATAATAAACAT
1 AAGCTTCCAACCCGAACGAGCTTCTGATTCACTATAAAACACAAAAAATAACACATAATAAACAT
70038731 TTAAGCTTAGTAAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATATAATAGGTAAGTA
66 TTAAGCTTAGTAAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATATAATAGGTAAGTA
70038796 AACAAGAATATCCCAATAG
131 AACAAGAATATCCCAATAG
70038815 AAGCTTCCAACCCGAACGAGCTTCTGATTCACTATAAAACACAAAAAATAACACATAATAAACAT
1 AAGCTTCCAACCCGAACGAGCTTCTGATTCACTATAAAACACAAAAAATAACACATAATAAACAT
70038880 TTAAGCTTAGTAAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATATAATAGGTAAGTA
66 TTAAGCTTAGTAAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATATAATAGGTAAGTA
70038945 AACAAGAATATCCCAATAG
131 AACAAGAATATCCCAATAG
70038964 AA
1 AA
70038966 TTTGGCCAAA
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.27
Consensus pattern (149 bp):
AAGCTTCCAACCCGAACGAGCTTCTGATTCACTATAAAACACAAAAAATAACACATAATAAACAT
TTAAGCTTAGTAAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATATAATAGGTAAGTA
AACAAGAATATCCCAATAG
Found at i:70039322 original size:25 final size:24
Alignment explanation
Indices: 70039283--70039367 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
70039273 TCATGTACAT
70039283 GTATGCTCA-TACGAGCTGTGAATCG
1 GTATGCTCACT-CGAGCTGT-AATCG
*
70039308 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACTCGAGCTGTA-ATCG
* * * *
70039333 GTATGCTCTCACGAGTTATAACTCG
1 GTATGCTCACTCGAGCTGTAA-TCG
70039358 GTATGCTCAC
1 GTATGCTCAC
70039368 ATGAGCTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (24 bp):
GTATGCTCACTCGAGCTGTAATCG
Found at i:70049878 original size:28 final size:28
Alignment explanation
Indices: 70049838--70049991 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
70049828 TAAATTGTAC
70049838 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
70049866 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
70049894 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
70049922 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
70049950 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
70049977 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70049992 GACTTAATAT
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 24 0.19
28 100 0.81
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:70050005 original size:56 final size:56
Alignment explanation
Indices: 70049813--70049991 Score: 279
Period size: 56 Copynumber: 3.2 Consensus size: 56
70049803 GAGATTGGCG
* * * *
70049813 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
70049870 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
70049926 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
70049981 CTGAGTGTGCG
1 CTAAGTGTGCG
70049992 GACTTAATAT
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 23 0.20
56 76 0.67
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:70055682 original size:252 final size:252
Alignment explanation
Indices: 70055238--70055728 Score: 745
Period size: 252 Copynumber: 1.9 Consensus size: 252
70055228 ACATTGAACA
* * * *
70055238 TACCATGTTTAATAACATTTGATTCTTTCTCTCTTCCACATCATTCTATTGTGGAGTGCCTAGTG
1 TACCATGTCTAATAACATTTGATTCCTTCTCTCTTCCACACCATTCTATTGTGGAGTGCCCAGTG
* *
70055303 CAGTCAACTGGGATAGAATCCGATTCTCTATGAGGTACCCTAAAAACTAATTAGATCAATATTCC
66 CAATCAACTGGGATAGAATCCGATTCTCTATGAGGTACCCTAAAAACTAATTAGATAAATATTCC
* *
70055368 CCACCTCAACCAGACCGAAGTATCTTTATGGGTAAACCTAGTTGTTTTTCCATTTCTGCACAAAA
131 CCACCTCAACCAGACCGAAGTATCTTTATGGGTAAACCTAGTTGTTTCTCAATTTCTGCACAAAA
*
70055433 CTTTTTGAACTAATCAG-AGGTTTCACTATTGTAGTGCATAAGGTTTAACATCAAACG
196 CTTTTAGAACTAAT-AGAAGGTTTCACTATTGTAGTGCATAAGGTTTAACATCAAACG
**
70055490 TACCATGTCTAATAACATTTGATTCCTTCTCTCTTCCATGCCATTCTATTGTGGAGTGCCCAGTG
1 TACCATGTCTAATAACATTTGATTCCTTCTCTCTTCCACACCATTCTATTGTGGAGTGCCCAGTG
* *
70055555 CAATCAACTGGGATAGAATCAC-ATTCTCTATGAGGTATCCTAAGAACTAATTAGATAAATATTC
66 CAATCAACTGGGATAGAATC-CGATTCTCTATGAGGTACCCTAAAAACTAATTAGATAAATATTC
* * * *
70055619 CCCACCTCGACCAGACTGAAGTGTCTTTATGGTTAAACCTAGTTGTTTCTCAACTTT-TGCACAA
130 CCCACCTCAACCAGACCGAAGTATCTTTATGGGTAAACCTAGTTGTTTCTCAA-TTTCTGCACAA
* * * *
70055683 AACTTTTAGAACTTATTGAAGGTTTCACTCTTGTGGTGCATAAGGT
194 AACTTTTAGAACTAATAGAAGGTTTCACTATTGTAGTGCATAAGGT
70055729 ATACATACTT
Statistics
Matches: 215, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
251 1 0.00
252 210 0.98
253 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (252 bp):
TACCATGTCTAATAACATTTGATTCCTTCTCTCTTCCACACCATTCTATTGTGGAGTGCCCAGTG
CAATCAACTGGGATAGAATCCGATTCTCTATGAGGTACCCTAAAAACTAATTAGATAAATATTCC
CCACCTCAACCAGACCGAAGTATCTTTATGGGTAAACCTAGTTGTTTCTCAATTTCTGCACAAAA
CTTTTAGAACTAATAGAAGGTTTCACTATTGTAGTGCATAAGGTTTAACATCAAACG
Found at i:70062050 original size:6 final size:6
Alignment explanation
Indices: 70062039--70062090 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
70062029 AAGATTGCAA
* * * *
70062039 ATTTCC ATTTCC ATTTCC ATTTTC ATTTTC ATTTTC ATTTTC ATTTCC
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC
70062087 ATTT
1 ATTT
70062091 TTGGAAGCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (6 bp):
ATTTCC
Found at i:70062091 original size:18 final size:18
Alignment explanation
Indices: 70062039--70062091 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
70062029 AAGATTGCAA
* *
70062039 ATTTCCATTTCCATTTCC
1 ATTTTCATTTCCATTTTC
*
70062057 ATTTTCATTTTCATTTTC
1 ATTTTCATTTCCATTTTC
70062075 ATTTTCATTTCCATTTT
1 ATTTTCATTTCCATTTT
70062092 TGGAAGCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTCATTTCCATTTTC
Found at i:70077361 original size:27 final size:27
Alignment explanation
Indices: 70077342--70077598 Score: 372
Period size: 27 Copynumber: 9.6 Consensus size: 27
70077332 GGGTATAACA
*
70077342 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
70077369 GTCATTTTACCCTAT-GGGATATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
**
70077395 GTCATTTTACCCTATGGGGGTATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
70077422 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
70077449 ATCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
70077476 GTCATTTTACCCTATGAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
70077503 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
70077530 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
70077557 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
70077584 ATCATTTTACCCTAT
1 GTCATTTTACCCTAT
70077599 TTTAGGGTAT
Statistics
Matches: 209, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 23 0.11
27 186 0.89
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:70084012 original size:17 final size:18
Alignment explanation
Indices: 70083992--70084026 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
70083982 TAAGTCCTTT
70083992 TTTATTTTTATTT-TTTA
1 TTTATTTTTATTTATTTA
70084009 TTTATTTTTATTTATTTA
1 TTTATTTTTATTTATTTA
70084027 AGTTCTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTTTATTTATTTA
Found at i:70104741 original size:57 final size:58
Alignment explanation
Indices: 70104678--70104802 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
70104668 TTCGCATTCA
*
70104678 TTTCCATTTCCATTTCCATTTTGGAGAAAACC-AAATTCATTTCAAAATGA-TTTC-ATT
1 TTTCCATTTCCATTTCCAATTTGGAGAAAACCTAAA-TCATTTCAAAAT-ATTTTCAATT
* * * *
70104735 TTTCCATTTTCATTTTCAATTTGGAGAAAACCTTAATCATTTCCAAATATTTTCAATT
1 TTTCCATTTCCATTTCCAATTTGGAGAAAACCTAAATCATTTCAAAATATTTTCAATT
*
70104793 TCTCCATTTC
1 TTTCCATTTC
70104803 TATTCATTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
56 1 0.02
57 44 0.76
58 13 0.22
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.45
Consensus pattern (58 bp):
TTTCCATTTCCATTTCCAATTTGGAGAAAACCTAAATCATTTCAAAATATTTTCAATT
Found at i:70107202 original size:6 final size:6
Alignment explanation
Indices: 70107191--70107215 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
70107181 GACCACCTTA
70107191 GGGATG GGGATG GGGATG GGGATG G
1 GGGATG GGGATG GGGATG GGGATG G
70107216 TTGTGGCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGGATG
Found at i:70112677 original size:60 final size:60
Alignment explanation
Indices: 70112580--70112701 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
70112570 GAGTAAGCTT
*
70112580 TTATAAAGCTTAGTAAGTTCATCAATTAAATAGTAAATCTTACTAAATTACGCATAATAA
1 TTATAAAGCTTAGTAAGTTCATCAATTAAATACTAAATCTTACTAAATTACGCATAATAA
*
70112640 TTATAAAGCTTAGTAAGTTCATCGATTAAATACTAAATCTTACTAAATTACGCATAATAA
1 TTATAAAGCTTAGTAAGTTCATCAATTAAATACTAAATCTTACTAAATTACGCATAATAA
70112700 TT
1 TT
70112702 CGATTAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (60 bp):
TTATAAAGCTTAGTAAGTTCATCAATTAAATACTAAATCTTACTAAATTACGCATAATAA
Found at i:70112957 original size:35 final size:34
Alignment explanation
Indices: 70112918--70113033 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 34
70112908 CACACGGTTA
* * *
70112918 ACCATCCAACACACCAGATACTCATAAGAGTCAGT
1 ACCATCCAGCACACCAGTTGCTCATAAGAG-CAGT
*
70112953 ACCATCCAGCACACCAGTTGCTCATAAGAGCCATT
1 ACCATCCAGCACACCAGTTGCTCATAAGAG-CAGT
*
70112988 ACCATCTAGCACACCAGTTGCTCATAAGAGCAAGT
1 ACCATCCAGCACACCAGTTGCTCATAAGAGC-AGT
70113023 ACCATCCAGCA
1 ACCATCCAGCA
70113034 TAACAATTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 1 0.01
35 71 0.99
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (34 bp):
ACCATCCAGCACACCAGTTGCTCATAAGAGCAGT
Found at i:70114639 original size:31 final size:29
Alignment explanation
Indices: 70114570--70114640 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
70114560 TCCCAGGTTG
* *
70114570 CATTTTAGTCACTTATGTTTCAAATGTTA
1 CATTTTAGTCACTTACGTTTCAAATGTAA
* **
70114599 CGTTTTAGTCACTTACGTTATCATGTTGTAA
1 CATTTTAGTCACTTACGTT-TCA-AATGTAA
70114630 CATTTTAGTCA
1 CATTTTAGTCA
70114641 TTGAGCCGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.50
30 3 0.09
31 14 0.41
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (29 bp):
CATTTTAGTCACTTACGTTTCAAATGTAA
Found at i:70118789 original size:23 final size:24
Alignment explanation
Indices: 70118744--70118790 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
70118734 AAAAAGTTAA
*
70118744 CAAAAAGATAAAAATTAAATAATT
1 CAAAAAGATAAAAATAAAATAATT
70118768 CAAAAAG-TAAAAA-AAAATTAATT
1 CAAAAAGATAAAAATAAAA-TAATT
70118791 TTAAGCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 11 0.52
24 7 0.33
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
CAAAAAGATAAAAATAAAATAATT
Found at i:70127200 original size:19 final size:19
Alignment explanation
Indices: 70127176--70127216 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
70127166 TATTTTAAAG
*
70127176 TTATTTAAGTAGATAGATC
1 TTATTTAAGTAGATAAATC
**
70127195 TTATTTGGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
70127214 TTA
1 TTA
70127217 GAATAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:70135445 original size:20 final size:21
Alignment explanation
Indices: 70135410--70135457 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
70135400 AGACTTAGAA
70135410 AATATAAAAATAAAATACTTT
1 AATATAAAAATAAAATACTTT
* **
70135431 AATATAAAACT-AAATTTTTT
1 AATATAAAAATAAAATACTTT
70135451 AATATAA
1 AATATAA
70135458 TTTAATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAAAAATAAAATACTTT
Found at i:70135531 original size:58 final size:57
Alignment explanation
Indices: 70135469--70135594 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 57
70135459 TTAATATAAA
* *
70135469 AATAATTATATTAAAAATATTATTAAATTATATATTTTTATTTTTATTAAATTATATTAAT
1 AATAATTATATT-AAAATATAATTAAATTATATA-TTGT-TTTTTATTAAATTATATT-AT
* *
70135530 AATAATTATATTAAAATATAATTAAATTATTTATTGTTTTTTATTAAATTAT-TTTT
1 AATAATTATATTAAAATATAATTAAATTATATATTGTTTTTTATTAAATTATATTAT
*
70135586 GATAATTAT
1 AATAATTAT
70135595 CCTATTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
56 9 0.15
57 2 0.03
58 15 0.25
59 3 0.05
60 19 0.32
61 12 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (57 bp):
AATAATTATATTAAAATATAATTAAATTATATATTGTTTTTTATTAAATTATATTAT
Found at i:70135542 original size:61 final size:58
Alignment explanation
Indices: 70135469--70135581 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 58
70135459 TTAATATAAA
* *
70135469 AATAATTATATTAAAAATATTATTAAATTATATATTTTTATTTTTATTAAATTATATTAAT
1 AATAATTATATT-AAAATATAATTAAATTATATA-TTGT-TTTTTATTAAATTATATTAAT
*
70135530 AATAATTATATTAAAATATAATTAAATTATTTATTGTTTTTTATTAAATTAT
1 AATAATTATATTAAAATATAATTAAATTATATATTGTTTTTTATTAAATTAT
70135582 TTTTGATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 15 0.31
59 3 0.06
60 19 0.39
61 12 0.24
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (58 bp):
AATAATTATATTAAAATATAATTAAATTATATATTGTTTTTTATTAAATTATATTAAT
Found at i:70135552 original size:16 final size:15
Alignment explanation
Indices: 70135518--70135558 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
70135508 ATTTTTATTA
*
70135518 AATTATATTAATAAT
1 AATTATATTAAAAAT
70135533 AATTATATTAAAATAT
1 AATTATATTAAAA-AT
*
70135549 AATTAAATTA
1 AATTATATTA
70135559 TTTATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATATTAAAAAT
Found at i:70135563 original size:25 final size:25
Alignment explanation
Indices: 70135489--70135563 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
70135479 TTAAAAATAT
* * * *
70135489 TATTAAATTATA-TATTTTTATTTT
1 TATTAAAATATATTAATATTATTTA
* * *
70135513 TATTAAATTATATTAATAATAATTA
1 TATTAAAATATATTAATATTATTTA
70135538 TATTAAAATATAATTAA-ATTATTTA
1 TATTAAAATAT-ATTAATATTATTTA
70135563 T
1 T
70135564 TGTTTTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 12 0.29
25 24 0.59
26 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTAAAATATATTAATATTATTTA
Found at i:70136395 original size:23 final size:23
Alignment explanation
Indices: 70136368--70136443 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
70136358 AGTGTTATTG
*
70136368 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
70136391 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
70136414 AACAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
70136437 ATCAGTG
1 ATCAGTG
70136444 TTGCGCTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:70138479 original size:24 final size:24
Alignment explanation
Indices: 70138443--70138488 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
70138433 CAACTAGTTC
70138443 AAAGCAAATAAATTATTAAAAATCA
1 AAAGCAAATAAA-TATTAAAAATCA
*
70138468 AAAGTAAA-AAATATTAAAAAT
1 AAAGCAAATAAATATTAAAAAT
70138489 GATACAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 7 0.35
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAGCAAATAAATATTAAAAATCA
Found at i:70139989 original size:25 final size:25
Alignment explanation
Indices: 70139959--70140007 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
70139949 CTGTACAGTA
70139959 AAAATTTAATCTATGCTTAATAGTG
1 AAAATTTAATCTATGCTTAATAGTG
70139984 AAAATTTAATCTATGCTTAATAGT
1 AAAATTTAATCTATGCTTAATAGT
70140008 TGTCCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (25 bp):
AAAATTTAATCTATGCTTAATAGTG
Found at i:70140161 original size:15 final size:15
Alignment explanation
Indices: 70140141--70140188 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
70140131 AATTTAGTCT
70140141 TTTTAATTTTTTTAA
1 TTTTAATTTTTTTAA
70140156 TTTTAATTTTTTTAA
1 TTTTAATTTTTTTAA
*
70140171 TTTTAATTTTTTAAA
1 TTTTAATTTTTTTAA
70140186 TTT
1 TTT
70140189 CAAAATTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTAATTTTTTTAA
Found at i:70152840 original size:33 final size:33
Alignment explanation
Indices: 70152817--70152887 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
70152807 CCTCCAGCAT
70152817 ACCAATGCTCAGAAGAGCTAATCCAACCAACAC
1 ACCAATGCTCAGAAGAGCTAATCCAACCAACAC
* * *
70152850 ACCAGTGCTCATAAGAGCTAGTCCAACCAACAC
1 ACCAATGCTCAGAAGAGCTAATCCAACCAACAC
70152883 ACCAA
1 ACCAA
70152888 ATAAAGAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.34, G:0.13, T:0.13
Consensus pattern (33 bp):
ACCAATGCTCAGAAGAGCTAATCCAACCAACAC
Found at i:70154473 original size:119 final size:120
Alignment explanation
Indices: 70154224--70154481 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 120
70154214 GCTACTCGTT
* * * *
70154224 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
70154288 GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
65 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
70154344 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
70154408 A-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
70154464 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
70154482 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.03
119 62 0.51
120 54 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:70154488 original size:40 final size:40
Alignment explanation
Indices: 70154205--70154488 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
70154195 CGGAATTTAA
** * *
70154205 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
70154245 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70154285 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70154325 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
70154365 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70154404 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
70154444 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70154484 CCGGA
1 CCGGA
70154489 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 171 0.79
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70157203 original size:23 final size:23
Alignment explanation
Indices: 70157177--70157220 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
70157167 CTTAAACACA
70157177 AACA-TATACTTATATACTCAACT
1 AACATTATACTTATA-ACTCAACT
70157200 AACATTATACTTATAACTCAA
1 AACATTATACTTATAACTCAA
70157221 TTTACAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (23 bp):
AACATTATACTTATAACTCAACT
Found at i:70165901 original size:104 final size:104
Alignment explanation
Indices: 70165717--70165936 Score: 313
Period size: 104 Copynumber: 2.1 Consensus size: 104
70165707 ATTTTGTCAA
** *
70165717 ATTA-TATATATTTTATTTAAGAATGTATTGGCTTTTTTGACACGAAGTGGAATGACAACCCAAG
1 ATTATTAT-TATTTTATTTAAGAATGTATTGGCCCTTTTGACACAAAGTGGAATGACAACCCAAG
**
70165781 CACCCCACCCTTGTTACTCAGCCCAACACACT-CTGAATTT
65 CACCCCACCCCAGTTACTCAGCCCAACACACTCCT-AATTT
* *
70165821 ATTATTATTATTTTGTTTAAGAATGTATTGGCCCTTTTGACGCAAAGTGGAATGACAACCCAAGC
1 ATTATTATTATTTTATTTAAGAATGTATTGGCCCTTTTGACACAAAGTGGAATGACAACCCAAGC
* *
70165886 ACTCCACCCCAGTTACTTAGCCCAACACACTCCTAATTT
66 ACCCCACCCCAGTTACTCAGCCCAACACACTCCTAATTT
70165925 ATT-TT-TTATTTT
1 ATTATTATTATTTT
70165937 TATCCATAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
102 7 0.07
103 2 0.02
104 91 0.87
105 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (104 bp):
ATTATTATTATTTTATTTAAGAATGTATTGGCCCTTTTGACACAAAGTGGAATGACAACCCAAGC
ACCCCACCCCAGTTACTCAGCCCAACACACTCCTAATTT
Found at i:70170148 original size:49 final size:48
Alignment explanation
Indices: 70170095--70170189 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
70170085 AATGGAATGA
70170095 AATTTTATTGGAGAA-GAAAAGAAACAAAAAGGCTAAGAGCCTTAGGGAG
1 AATTTTATTGGA-AAGGAAAAGAAAC-AAAAGGCTAAGAGCCTTAGGGAG
* *
70170144 AATTTTATTGGAAAGGAAATGAAACAAAAGGCTAAGAGCTTTAGGG
1 AATTTTATTGGAAAGGAAAAGAAACAAAAGGCTAAGAGCCTTAGGG
70170190 GGAAAGAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 22 0.51
49 21 0.49
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.21
Consensus pattern (48 bp):
AATTTTATTGGAAAGGAAAAGAAACAAAAGGCTAAGAGCCTTAGGGAG
Found at i:70172249 original size:23 final size:23
Alignment explanation
Indices: 70172222--70172300 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
70172212 GTATGTTTAT
* *
70172222 TTATTTATTTTAAACTGTTATTA
1 TTATTTATTTTAAGCTCTTATTA
* *
70172245 TTATTTATTTTAAGTTTTTATATA
1 TTATTTATTTTAAGCTCTTAT-TA
* *
70172269 TTGTTTATTTGAAGC-CTT-TTA
1 TTATTTATTTTAAGCTCTTATTA
70172290 TTATTTATTTT
1 TTATTTATTTT
70172301 TGAATTGTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 11 0.24
22 1 0.02
23 20 0.43
24 14 0.30
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (23 bp):
TTATTTATTTTAAGCTCTTATTA
Found at i:70172343 original size:17 final size:17
Alignment explanation
Indices: 70172317--70172350 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70172307 GTTCTTATAA
*
70172317 ATTATTTACTTTAAATT
1 ATTATCTACTTTAAATT
70172334 ATTATCTACTTTAAATT
1 ATTATCTACTTTAAATT
70172351 GTTTTGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATCTACTTTAAATT
Found at i:70176304 original size:35 final size:35
Alignment explanation
Indices: 70176246--70176397 Score: 171
Period size: 35 Copynumber: 4.3 Consensus size: 35
70176236 AATCCAACCA
* * *
70176246 AAACACACCAAATGCTTACAAGAGCCAATCCATTCG
1 AAACACACC-AATGCTCATAAGAGCTAATCCATTCG
* * *
70176282 AAACACACCAATGCTCAAAAGAGTTAATCCCTTCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATTCG
***
70176317 AAACACACCAATGCTCATAAGAGCTAATCCCCCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATTCG
* * *
70176352 AAACACACCGATGCTCATAAGAGCTAGTCCA-ACTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATTC-G
70176387 AAACACACCAA
1 AAACACACCAA
70176398 AACAGAGAGT
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 91 0.90
36 9 0.09
ACGTcount: A:0.41, C:0.32, G:0.12, T:0.16
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATTCG
Found at i:70178731 original size:27 final size:27
Alignment explanation
Indices: 70178698--70178989 Score: 324
Period size: 27 Copynumber: 10.9 Consensus size: 27
70178688 ACATGTTAGG
*
70178698 AAAGGAAGCCTTTGTGGCTAAATCT-A
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
*
70178724 AAAGGGAAGCCTTTGTGGCTAACTCTAA
1 AAA-GGAAGCCTTTGTGGCTAACTCTGA
* *
70178752 AAAGGAAGCTTTTATGGCTAACAT-TGA
1 AAAGGAAGCCTTTGTGGCTAAC-TCTGA
** * *
70178779 AAATTAAGCCTTTATGACTAACTCTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
*
70178806 AAAGGAAGCCTTTGTGGCGAACTCTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* * *
70178833 AATGGAAGCCTTTGTGGCGAACACTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
70178860 AAAGGAAGCCTTTGTGGCTAACTCT-A
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
*
70178886 AAAGGAAGCATTTGTGGCTAACTCT-A
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* * *
70178912 AACATGAAGCCTTTGTGGCT-ATTTTGA
1 AA-AGGAAGCCTTTGTGGCTAACTCTGA
* * *
70178939 AAAGGAAGCCTTTGTAGCGAACACTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* * *
70178966 AAAGGGAGCCATTGTGGCGAACTC
1 AAAGGAAGCCTTTGTGGCTAACTC
70178990 CAAAGGAATA
Statistics
Matches: 226, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
26 49 0.22
27 172 0.76
28 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGGCTAACTCTGA
Found at i:70179057 original size:27 final size:27
Alignment explanation
Indices: 70179027--70179106 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
70179017 TGATATGATA
*
70179027 GCCTTTATGGTGCAATATGAAAGGAAC
1 GCCTTTATGGCGCAATATGAAAGGAAC
* *
70179054 GCCTTTGTGGCGCAATATGAAAGAAAC
1 GCCTTTATGGCGCAATATGAAAGGAAC
*
70179081 GACTTTATGGCGCAA-AGTGAAAGGAA
1 GCCTTTATGGCGCAATA-TGAAAGGAA
70179107 TGCTTGAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (27 bp):
GCCTTTATGGCGCAATATGAAAGGAAC
Found at i:70182973 original size:50 final size:50
Alignment explanation
Indices: 70182918--70183091 Score: 222
Period size: 50 Copynumber: 3.5 Consensus size: 50
70182908 CATTGAGATT
*
70182918 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAG
* *
70182968 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAG
** * * * * * * *
70183018 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAG
**
70183068 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
70183092 ATTTGAGATA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 110 1.00
ACGTcount: A:0.28, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAG
Found at i:70183099 original size:50 final size:50
Alignment explanation
Indices: 70182929--70183161 Score: 204
Period size: 50 Copynumber: 4.7 Consensus size: 50
70182919 TGAGAGGTCT
* * * * * **
70182929 CATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGAGACATGGCATTGGCACCAAGATGAGAACTCC
* * * **
70182979 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGAGACATGGCATTGGCACCAAGATGAGAACTCC
** * *
70183029 CCCGTAAGACCATGTCTGAGACATGGCATGGGCACCAATATGAGAACTCC
1 CATGTAAGACCATGTCTGAGACATGGCATTGGCACCAAGATGAGAACTCC
* * * * *
70183079 CATGTAAGACCATATTTGAGATATGGCATTGGCA--ATACAAGA-AACATCC
1 CATGTAAGACCATGTCTGAGACATGGCATTGGCACCA-AGATGAGAAC-TCC
* *
70183128 CATGTAAGACCATGTCT-AGGACATGACTTTGGCA
1 CATGTAAGACCATGTCTGA-GACATGGCATTGGCA
70183162 TGTTATTATC
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 5 0.03
49 34 0.22
50 117 0.75
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGAGACATGGCATTGGCACCAAGATGAGAACTCC
Found at i:70183105 original size:100 final size:100
Alignment explanation
Indices: 70182918--70183112 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 100
70182908 CATTGAGATT
* * * * * * **
70182918 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATAGCGTTGCCACCGAGATGAGAGGTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGAGACATAGCATGGCCACCAAGATGAGAACTCCCATG
* * *
70182983 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
66 TAAGACCATATCTGAGACATGGCATTGGCACCGAG
* * * *
70183018 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCAATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGAGACATAGCATGGCCACCAAGATGAGAACTCCCATG
* *
70183083 TAAGACCATATTTGAGATATGGCATTGGCA
66 TAAGACCATATCTGAGACATGGCATTGGCA
70183113 ATACAAGAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGAGACATAGCATGGCCACCAAGATGAGAACTCCCATG
TAAGACCATATCTGAGACATGGCATTGGCACCGAG
Found at i:70187187 original size:435 final size:435
Alignment explanation
Indices: 70186377--70187682 Score: 2405
Period size: 435 Copynumber: 3.0 Consensus size: 435
70186367 GCACATTGTC
* *
70186377 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGAAAACCACCTAG
1 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTGTTGAGTGGAAACCACCTAG
*
70186442 GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGTTGGTTATTACAGACGGTTTGTAAAGGGAT
66 GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGCTGGTTATTACAGACGGTTTGTAAAGGGAT
* *
70186507 TTTCAATGATAGTTACCCCATTGACAAGATTGTTCCAGAAAGATATAAAGTTTTAATGGACTGAG
131 TTTCCATGATAGTTACCCCATTGACAAGATTGTTCCAGAAAGATATCAAGTTTTAATGGACTGAG
* *
70186572 AAGTGTCAGCTGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAACTCCTGTTTTAGTACAGCT
196 AAGTGTCAGCAGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTGTTTTAGTACAGCT
* *
70186637 AGAACCGGGTAAAGAATTTGTGATTTATAGTAATGCATCCTTGAATGGATTGGGTTGTGTACTTA
261 AGAACCGGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
70186702 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
326 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
*
70186767 ACACATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
391 ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
70186812 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTGTTGAGTGGAAACCACCTAG
1 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTGTTGAGTGGAAACCACCTAG
*
70186877 GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGCTGGTTATTACAGACGGCTTGTAAAGGGAT
66 GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGCTGGTTATTACAGACGGTTTGTAAAGGGAT
* *
70186942 TTTCCATGATAGTTACCCCATTGAAAAGATTGTTCCAGAAAGATATCAAGTTTTAATAGACTGAG
131 TTTCCATGATAGTTACCCCATTGACAAGATTGTTCCAGAAAGATATCAAGTTTTAATGGACTGAG
70187007 AAGTGTCAGCAGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTGTTTTAGTACAGCT
196 AAGTGTCAGCAGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTGTTTTAGTACAGCT
**
70187072 AGAACTAGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
261 AGAACCGGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
70187137 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
326 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
70187202 ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
391 ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
*
70187247 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTATTGAGTGGAAACCACCTAG
1 TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTGTTGAGTGGAAACCACCTAG
* *
70187312 GAATGTATCAGAGGTTAGAAATTTTCTTGGATTAGCTGGTTATTACAGACGGTTTGTAAAGGAAT
66 GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGCTGGTTATTACAGACGGTTTGTAAAGGGAT
* *
70187377 TTTCCATGATAGTTACCCCATTGACAATATTTTTCCAGAAAGATATCAAGTTTTAATGGACTGAG
131 TTTCCATGATAGTTACCCCATTGACAAGATTGTTCCAGAAAGATATCAAGTTTTAATGGACTGAG
* * *
70187442 AAGTGTTAGCAAAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTATTTTAGTACAGCT
196 AAGTGTCAGCAGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTGTTTTAGTACAGCT
70187507 AGAACCGGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
261 AGAACCGGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
70187572 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
326 TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
70187637 ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
391 ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
70187682 T
1 T
70187683 GGAGACATCA
Statistics
Matches: 843, Mismatches: 28, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
435 843 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (435 bp):
TCAGGTGATGGTATTAAAGTTGATCCGAGTAAAATTTTAGCAATTGTTGAGTGGAAACCACCTAG
GAATGTATCAGAGGTTAGAAGTTTTCTTGGATTAGCTGGTTATTACAGACGGTTTGTAAAGGGAT
TTTCCATGATAGTTACCCCATTGACAAGATTGTTCCAGAAAGATATCAAGTTTTAATGGACTGAG
AAGTGTCAGCAGAGTTTTGACAAGTTAAAGGCATTGTTCACTCAAGCTCCTGTTTTAGTACAGCT
AGAACCGGGTAAAGAATTTGTGATTTACAGTAATGCATCCTTGAATGGATTGGGTTGTGTAATTA
TGTAGGAAGGTAAAGTAATAGCATATGCTTCCGTACAGTTAAAGCTACATGAGAAAAACTACCCG
ACGCATGATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATT
Found at i:70198412 original size:56 final size:52
Alignment explanation
Indices: 70198318--70198519 Score: 184
Period size: 50 Copynumber: 3.9 Consensus size: 52
70198308 TGACATTTGG
* *
70198318 GTTATGAGA--TCCCATGTAAGACCATGT-TTGGAATATGGCATTGGCATCATTGA
1 GTTATGAGAGGTCCCATGTAAGACCATGTCTTGG-ACATGGCATTGGCA-C--CGA
*
70198371 GATTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGA
1 G-TTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGCACCGA
** * *
70198424 G--ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GTTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGCACCGA
** * * ** *
70198474 --TATGAGAACTCCCATGCAAGACCATATCAGGGATATGGCATTGGCA
1 GTTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGCA
70198520 GTACAAGAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
50 80 0.63
53 4 0.03
54 8 0.06
55 1 0.01
56 30 0.24
57 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (52 bp):
GTTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGCACCGA
Found at i:70198432 original size:50 final size:50
Alignment explanation
Indices: 70198375--70198568 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
70198365 CATTGAGATT
* * *
70198375 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
70198425 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * * *
70198475 ATGAGAACTCCCATGCAAGACCATATCAGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
70198524 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
70198569 TGTTATTATC
Statistics
Matches: 118, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.31
50 80 0.68
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:70198904 original size:14 final size:15
Alignment explanation
Indices: 70198868--70198911 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
70198858 AATTTTGTTA
70198868 TTTACTTTCCTTTATG
1 TTTAC-TTCCTTTATG
*
70198884 CTTACTTCCTTTAT-
1 TTTACTTCCTTTATG
*
70198898 TTTACTTCATTTAT
1 TTTACTTCCTTTAT
70198912 AGTATTGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTACTTCCTTTATG
Found at i:70212771 original size:20 final size:20
Alignment explanation
Indices: 70212748--70212785 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70212738 ATATTGATAC
*
70212748 TAGGGTATCGATATTTTCAA
1 TAGGGTACCGATATTTTCAA
70212768 TAGGGTACCGATATTTTC
1 TAGGGTACCGATATTTTC
70212786 GTTAAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (20 bp):
TAGGGTACCGATATTTTCAA
Found at i:70217446 original size:39 final size:39
Alignment explanation
Indices: 70217346--70217495 Score: 142
Period size: 39 Copynumber: 3.8 Consensus size: 39
70217336 AGCGGCGCTT
** *
70217346 TTAGCGGCGATTGGACAACAAACGCCGCTAAAAATTAAGCA
1 TTAGCGGCGATTTTACAA-AAACGCCGCTAAATA-TAAGCA
* * * *
70217387 TTAGCGGCGATTTAAAAAAAACGCCGCTAAATATCAGTA
1 TTAGCGGCGATTTTACAAAAACGCCGCTAAATATAAGCA
* * *
70217426 TTACCGGCGCTTTTACAAAAACGCCGCT-AATAATGAGCA
1 TTAGCGGCGATTTTACAAAAACGCCGCTAAAT-ATAAGCA
* *
70217465 TTAGCGGCGTTTCTTA-AAAAGCGCCGCTAAA
1 TTAGCGGCGATT-TTACAAAAACGCCGCTAAA
70217496 AACCTAAACC
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.03
39 54 0.59
40 19 0.21
41 15 0.16
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGATTTTACAAAAACGCCGCTAAATATAAGCA
Found at i:70217787 original size:114 final size:114
Alignment explanation
Indices: 70217465--70217791 Score: 415
Period size: 113 Copynumber: 2.9 Consensus size: 114
70217455 ATAATGAGCA
* * * *
70217465 TTAGCGGCGTTTCTTAAAAAGCGCCGCTAAAAACCTAAACCAAACGACGTCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
* * * *
70217530 TCGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAAG-TAATTCTCAGGGCT
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGC-CGCTAATGCTCAAGGCT
* * *
70217579 TTAGCAGCGTTTCTTAAAAAGCGCCGCAAAAGACCTAAGCCCAACGACATC-ATTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
* * * *
70217643 TCGAGGCTTTGGTGGCGTTTTCGGGAAAGCGCCGCTAATGCTCAATGTT
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
* * * * *
70217692 TTAGCGGCATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
** * *
70217757 GGGAGGCTTTAGTGGCGTTTTTGTAAAAGCGCCGC
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGC
70217792 AAAAAGCCTA
Statistics
Matches: 182, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
112 1 0.01
113 95 0.52
114 86 0.47
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (114 bp):
TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
Found at i:70217810 original size:73 final size:72
Alignment explanation
Indices: 70217691--70217828 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
70217681 TGCTCAATGT
*
70217691 TTTAGCGGCATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
1 TTTAGCGGCATTTTTTAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCG-TTTTCTTAGTT
70217756 TGGGAGGC
65 TGGGAGGC
* * * * *
70217764 TTTAGTGGCGTTTTTGT-AAAAGCGCCGCAAAAAGCCTAAGCCCAACGACATCGTTTTCTTAGTT
1 TTTAGCGGCATTTTT-TAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTCTTAGTT
70217828 T
65 T
70217829 TCGAGTCTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 12 0.21
73 45 0.78
74 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (72 bp):
TTTAGCGGCATTTTTTAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTCTTAGTTT
GGGAGGC
Found at i:70217852 original size:73 final size:73
Alignment explanation
Indices: 70217691--70217852 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
70217681 TGCTCAATGT
* * *
70217691 TTTAGCGGC-ATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGT
1 TTTAGTGGCGATTTTGT-AAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGT
*
70217755 TTGGGAGGC
65 TTGCGAGGC
* * * *
70217764 TTTAGTGGCGTTTTTGTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACATCG-TTTTCTTAGTT
1 TTTAGTGGCGATTTTGTAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
* *
70217828 TTCGAGTC
66 TGCGAGGC
* *
70217836 TTTGGTTGGGGATTTTG
1 TTTAG-TGGCGATTTTG
70217853 CGGCGTTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
72 20 0.27
73 49 0.66
74 5 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (73 bp):
TTTAGTGGCGATTTTGTAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
TGCGAGGC
Found at i:70218293 original size:7 final size:7
Alignment explanation
Indices: 70218260--70218433 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
70218250 TGCAAATTAT
70218260 GGGTTTA
1 GGGTTTA
* *
70218267 GTGATTA
1 GGGTTTA
*
70218274 TGGTTTA
1 GGGTTTA
**
70218281 CAGTTTA
1 GGGTTTA
70218288 GGGTTTA
1 GGGTTTA
* *
70218295 CGAG-TTG
1 -GGGTTTA
70218302 GGGTTTA
1 GGGTTTA
*
70218309 AGGTTTA
1 GGGTTTA
70218316 CGGG-TT-
1 -GGGTTTA
* *
70218322 GGGGTTG
1 GGGTTTA
70218329 GGGTTTA
1 GGGTTTA
*
70218336 AGGTTTA
1 GGGTTTA
*
70218343 CGGG-TTG
1 -GGGTTTA
*
70218350 GGGTTCA
1 GGGTTTA
*
70218357 GGGTCTA
1 GGGTTTA
*
70218364 -GG-CTA
1 GGGTTTA
70218369 -GGTTTA
1 GGGTTTA
*
70218375 GGGATTA
1 GGGTTTA
* *
70218382 TGATTT-
1 GGGTTTA
70218388 GGGTTTA
1 GGGTTTA
70218395 GGGTTTAA
1 GGGTTT-A
70218403 GGGATTTAA
1 GGG-TTT-A
70218412 GGG-TTA
1 GGGTTTA
*
70218418 TGTGTTTA
1 -GGGTTTA
70218426 GGGTTTA
1 GGGTTTA
70218433 G
1 G
70218434 ATTGATTAGT
Statistics
Matches: 120, Mismatches: 33, Indels: 28
0.66 0.18 0.15
Matches are distributed among these distances:
5 8 0.07
6 16 0.13
7 75 0.62
8 13 0.11
9 8 0.07
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:70218307 original size:21 final size:21
Alignment explanation
Indices: 70218283--70218335 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
70218273 ATGGTTTACA
70218283 GTTTAGGGTTTACGAGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
* *
70218304 GTTTAAGGTTTACGGGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
*
70218325 G-TTGGGGTTTA
1 GTTTAGGGTTTA
70218336 AGGTTTACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.13, C:0.04, G:0.43, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTACGAGTTGGG
Found at i:70218335 original size:27 final size:27
Alignment explanation
Indices: 70218298--70218354 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
70218288 GGGTTTACGA
70218298 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
70218325 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
70218352 GTT
1 GTT
70218355 CAGGGTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.11, C:0.04, G:0.47, T:0.39
Consensus pattern (27 bp):
GTTGGGGTTTAAGGTTTACGGGTTGGG
Done.