Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 34 of 297
Found at i:11794517 original size:92 final size:93
Alignment explanation
Indices: 11794348--11794517 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 93
11794338 ACTTGTGTGA
* * *
11794348 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGTT
11794413 TGGGACATGGCATCGACATTGTGACGAGT
65 TGGGACATGGCATCGACATTGTGACGAGT
* * *
11794442 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATGTT
11794505 TGGGACATGGCAT
65 TGGGACATGGCAT
11794518 TGGCACCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 32 0.46
94 36 0.52
95 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTTT
GGGACATGGCATCGACATTGTGACGAGT
Found at i:11797530 original size:46 final size:46
Alignment explanation
Indices: 11797398--11797617 Score: 205
Period size: 46 Copynumber: 4.7 Consensus size: 46
11797388 TATTGTGGGA
* * * * *
11797398 TAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGC
** *
11797444 TAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGC
* *
11797492 TAGTGTAAGAAATGTCTAGGACATGCATCGGCCTCGAGACGTA-AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGC
* * * * *
11797538 CAGTGTAAGACATGTCTGGGACATGCATTGG-CTAAGAGATGATAG-
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGC
11797583 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 T-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
11797618 ACCTTACCCA
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 70 0.49
47 40 0.28
48 29 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGC
Found at i:11797601 original size:93 final size:95
Alignment explanation
Indices: 11797445--11797617 Score: 223
Period size: 93 Copynumber: 1.8 Consensus size: 95
11797435 TATGAGAGCT
*
11797445 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGTGCTAGTGTAAGAAATGTCTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGACGAGTGCTAGTGTAAGAAATGTCTA
11797510 GGACAT-GCATCGGCCTCGAGACGTAAGCC
66 GGACATGGCATCGGCCTCGAGACGTAAGCC
* * *
11797539 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTA-AGAGATGA-TAG-TCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TATAGAGACGAGT-GCT-AGTGTAAGA-AATG
*
11797599 TCTGGGACATGGCATCGGC
62 TCTAGGACATGGCATCGGC
11797618 ACCTTACCCA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
91 2 0.03
92 22 0.32
93 28 0.41
94 17 0.25
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGACGAGTGCTAGTGTAAGAAATGTCTA
GGACATGGCATCGGCCTCGAGACGTAAGCC
Found at i:11798204 original size:24 final size:25
Alignment explanation
Indices: 11798170--11798221 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
11798160 TGTTATGTTC
*
11798170 ATGGATAAGTAAAATGCACAAAT-A
1 ATGGATAAGTAAAATACACAAATGA
* *
11798194 ATGGATGAGTAAGATACACAAATGA
1 ATGGATAAGTAAAATACACAAATGA
11798219 ATG
1 ATG
11798222 TTTTCTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (25 bp):
ATGGATAAGTAAAATACACAAATGA
Found at i:11804996 original size:47 final size:44
Alignment explanation
Indices: 11804930--11805197 Score: 195
Period size: 47 Copynumber: 5.8 Consensus size: 44
11804920 ATTGTGGGCT
* * *
11804930 AGTGTAAGACATGTATGGGACATGCATCAGCTACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACATGA-GAGAGCC
* *
11804976 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-C-ATGA-GAGAGCC
* * *
11805024 AGAGTAAGACATGTCTAGGACATGCATCGGC-CTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGA-G--AGCC
* * *
11805070 AGTGTAAGACATGTCAGGGACATGCATCGGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-AC-ATGA-GAGAGCC
* *
11805116 AGTGTAAGACCATGTCTGGGGCATGGCATC-G-ACATGAGATATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATGAG--A-GAGCC
*
11805163 AGTGTAAGACCATGTCTGGGACACAGCATCGGCAC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCAC
11805198 CTTACCCACG
Statistics
Matches: 177, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 4 0.02
46 60 0.34
47 69 0.39
48 31 0.18
49 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGAGAGCC
Found at i:11805063 original size:46 final size:46
Alignment explanation
Indices: 11804972--11805196 Score: 145
Period size: 46 Copynumber: 4.8 Consensus size: 46
11804962 ACATTATGAG
* *
11804972 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-A
1 AGCCAGAGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGTA
* * * *
11805019 GTGCTAGAGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGTA
1 -AGCCAGAGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGTA
* *
11805066 AGCCAGTGTAAGACATGTC-AGGGACATGCATCGGC-TACGAGATG-A
1 AGCCAGAGTAAGACATGTCTA-GGACATGCATCGGCAT-CGAGACGTA
* * * * * ** *
11805111 TAGTCAGTGTAAGACCATGTCTGGGGCATGGCATCGACAT-GAGATATG
1 -AGCCAGAGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGTA
* * * *
11805159 AGCTAGTGTAAGACCATGTCTGGGACACAGCATCGGCA
1 AGCCAGAGTAAGA-CATGTCTAGGACA-TGCATCGGCA
11805197 CCTTACCCAC
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 62 0.43
47 62 0.43
48 17 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (46 bp):
AGCCAGAGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGTA
Found at i:11805185 original size:140 final size:141
Alignment explanation
Indices: 11804930--11805195 Score: 362
Period size: 140 Copynumber: 1.9 Consensus size: 141
11804920 ATTGTGGGCT
*
11804930 AGTGTAAGACATGTATGGGACATGCATCAGCTACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
11804995 GACATGGCATCGGCATCGAGACGAGTGCTAGAGTAAGACATGTCTAGGACA-TGCATCGGCCTTG
66 GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCTAGGACACAGCATCGGCCTTG
11805059 AGACGTAAGCC
131 AGACGTAAGCC
* * *
11805070 AGTGTAAGACATGTCA-GGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGT-ATGGGACATGCATCAGCTAC-ATGATGAGAGCCAGTGTAAGACCATGTCT
* * * *
11805133 GGGGCATGGCATCGACAT-GAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACACAGCATCGGC
64 GGGACATGGCATCGACATCGAGACGA-GAGCTAGAGTAAGA-CATGTCTAGGACACAGCATCGGC
11805196 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 83 0.75
141 10 0.09
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (141 bp):
AGTGTAAGACATGTATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCTAGGACACAGCATCGGCCTTG
AGACGTAAGCC
Found at i:11814496 original size:17 final size:19
Alignment explanation
Indices: 11814468--11814504 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11814458 TGTAAAACCC
11814468 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
11814486 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
11814504 A
1 A
11814505 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:11823059 original size:24 final size:24
Alignment explanation
Indices: 11823024--11823131 Score: 141
Period size: 24 Copynumber: 4.6 Consensus size: 24
11823014 GAAGTGAAAG
* *
11823024 GCTG-TAA-GGAGAAGATTTGGGA
1 GCTGATAAGGGAGAGGATTTAGGA
11823046 GCTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
*
11823070 GCTGATAAGGGA-AGGGATTTAGAA
1 GCTGATAAGGGAGA-GGATTTAGGA
*
11823094 GTTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
*
11823118 GCTGATTAGGGAGA
1 GCTGATAAGGGAGA
11823132 ATGGTGTTGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
22 4 0.05
23 4 0.05
24 66 0.88
25 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (24 bp):
GCTGATAAGGGAGAGGATTTAGGA
Found at i:11824648 original size:27 final size:26
Alignment explanation
Indices: 11824561--11824661 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
11824551 CCTGGTGCTA
11824561 TGCCACAATTATCTGATT-TGGTGGCAC
1 TGCCAC-ATTATCTG-TTCTGGTGGCAC
* *
11824588 TGCCACATATATCTGTTTTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
11824615 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
** *
11824642 TATCACATTATCTATTCTGG
1 TGCCACATTATCTGTTCTGG
11824662 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.27
27 45 0.70
28 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:11824649 original size:54 final size:52
Alignment explanation
Indices: 11824553--11824654 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
11824543 GGAAGCGTCC
* *
11824553 TGGTGCTATGCCACAATTATCTGATTTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACAT-TATCTGTTT
* *
11824606 TGGTGGCTCTGCCACAATTATCTG-TTCTGGTGACACTATCACATTATCT
1 TGGT-GCTATGCCACAATTATCTGATT-TGGTGACACTACCACATTATCT
11824655 ATTCTGGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 11 0.26
54 32 0.74
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (52 bp):
TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACATTATCTGTTT
Found at i:11835927 original size:46 final size:47
Alignment explanation
Indices: 11835874--11836044 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 47
11835864 ATTGTAAGCT
*
11835874 AGTGTAAGACATGTCTAGGACATGCATCGGCCACAT-A-ATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-ATGAGACGAGAGCC
* * *
11835920 AGTGTAAGACCATGT-TAGGGACATGGCATCGG-CATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTA-GGACAT-GCATCGGCCAATGAGACGAGAGCC
* * *
11835968 AGTGTAAGACATGTCTGGGATATGCATCGGCC--TCGAGACGTA-AGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAAT-GAGACG-AGAGCC
* * *
11836014 AGTGTGAGACATGTATGGGACATGCATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
11836045 TACGAGATGT
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 1 0.01
46 54 0.52
47 26 0.25
48 23 0.22
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCAATGAGACGAGAGCC
Found at i:11837292 original size:77 final size:77
Alignment explanation
Indices: 11837165--11837318 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
11837155 AGTGGGCCTC
*
11837165 TAGAAAGACCAAGCTTAAGTTAAAATCCGGCAATTTTAATTAGTTTTGATTCCATAGGAAGAAGG
1 TAGAAAGACCAAGCTTAAGTTAAAATCCAGCAATTTTAATTAGTTTTGATTCCATAGGAAGAAGG
11837230 GGTTCTGGTTAA
66 GGTTCTGGTTAA
*
11837242 TAGAAAGACCAAGCTTAAGTTAAAATCCAGTAATTTTAATTAGTTTTGATTCCATAGGAAGAAGG
1 TAGAAAGACCAAGCTTAAGTTAAAATCCAGCAATTTTAATTAGTTTTGATTCCATAGGAAGAAGG
11837307 GGTTCTGGTTAA
66 GGTTCTGGTTAA
11837319 CTGGGCTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (77 bp):
TAGAAAGACCAAGCTTAAGTTAAAATCCAGCAATTTTAATTAGTTTTGATTCCATAGGAAGAAGG
GGTTCTGGTTAA
Found at i:11838582 original size:67 final size:67
Alignment explanation
Indices: 11838474--11838606 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
11838464 ACTAGGTCCA
*
11838474 TTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGCATGGCTTAAAGTTT
1 TTTCATGCCTACCCTTAATCCAACTCAATCGAACATTCGTGCCATTTTCGCATGGCTTAAAGTTT
11838539 AG
66 AG
11838541 TTTCATGCCTACCCTTAATCCAACTCAATCGAACATTCGTGCCATTTTCGCATGGCTTAAAGTTT
1 TTTCATGCCTACCCTTAATCCAACTCAATCGAACATTCGTGCCATTTTCGCATGGCTTAAAGTTT
11838606 A
66 A
11838607 CATGCCAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.35
Consensus pattern (67 bp):
TTTCATGCCTACCCTTAATCCAACTCAATCGAACATTCGTGCCATTTTCGCATGGCTTAAAGTTT
AG
Found at i:11839261 original size:27 final size:27
Alignment explanation
Indices: 11839231--11839408 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
11839221 ATATTGAGTC
* * * *
11839231 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
11839258 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11839285 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
11839313 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
11839340 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
11839367 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11839394 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11839409 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:11839370 original size:82 final size:81
Alignment explanation
Indices: 11839252--11839407 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
11839242 TGCTATATAA
* *
11839252 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
11839317 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11839334 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
11839398 CACTTAGTGC
65 CACTTAGTGC
11839408 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11839422 original size:82 final size:83
Alignment explanation
Indices: 11839231--11839422 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
11839221 ATATTGAGTC
* * * * *
11839231 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
11839295 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
11839313 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
11839374 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
11839394 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
11839423 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:11852311 original size:42 final size:41
Alignment explanation
Indices: 11852245--11852365 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 41
11852235 GGGTTACTAC
*
11852245 GATTACGTGTAAGACCATATTTGGGATATGGAATTGATATGA
1 GATTACGTGTAAGACCATA-TTGGGATATGGCATTGATATGA
* * * *
11852287 GACTT-TGTGTAAGACCATAGTTGGGCTATTAGCATCGATATGA
1 GA-TTACGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGA
*
11852330 GATTACATGTAAGACCATATCTGGGATATGGCATTG
1 GATTACGTGTAAGACCATAT-TGGGATATGGCATTG
11852366 GTACAGTAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (41 bp):
GATTACGTGTAAGACCATATTGGGATATGGCATTGATATGA
Found at i:11854006 original size:20 final size:20
Alignment explanation
Indices: 11853981--11854052 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
11853971 CGGGTTCGGG
* *
11853981 ACACGGGTGTGTCCCAAACC
1 ACACGGGCGTGTTCCAAACC
*
11854001 ACACGGGCTTGTTCCAAACC
1 ACACGGGCGTGTTCCAAACC
11854021 ACACGGGCGTGTTCCAAACC
1 ACACGGGCGTGTTCCAAACC
*
11854041 ACTCGGGCGTGT
1 ACACGGGCGTGT
11854053 GACCCTTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.18
Consensus pattern (20 bp):
ACACGGGCGTGTTCCAAACC
Found at i:11867613 original size:24 final size:24
Alignment explanation
Indices: 11867586--11867671 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
11867576 TGTTTCCTCA
11867586 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCTATATAATCTCG
* * * * *
11867610 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCTATATA-ATCTCG
** *
11867635 CACACATAGTG-TCGCATAACCTCG
1 CACACATAGTGCT-ATATAATCTCG
11867659 CACACATAGTGCT
1 CACACATAGTGCT
11867672 GAAATTTCTT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (24 bp):
CACACATAGTGCTATATAATCTCG
Found at i:11867639 original size:49 final size:47
Alignment explanation
Indices: 11867535--11867670 Score: 125
Period size: 49 Copynumber: 2.8 Consensus size: 47
11867525 TTTAAAGGTC
* *
11867535 CGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGTGTTTCCT
1 CGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CT
*
11867584 CACACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-T
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCT
* ** *
11867633 TGCACACATAGTG-TCGCATAACCTCGCACACATAGTGC
1 CGCACACATAGTGCT-ATATAATCTCGCACACATAGTGC
11867671 TGAAATTTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
48 17 0.23
49 47 0.64
50 6 0.08
51 4 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCT
Found at i:11871919 original size:42 final size:42
Alignment explanation
Indices: 11871860--11871981 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
11871850 TTAGGGTTAC
*
11871860 TAAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
1 TAAGATTACATGTAAGACCATATATGGGATATGGCATCGATA
** * * *
11871902 TAAGACTT-CATGTAAGACCATAGCTAGGTTATTGACATCGATA
1 TAAGA-TTACATGTAAGACCATATATGGGATA-TGGCATCGATA
* *
11871945 TGAGATTACATGTGAGACCATATATGGGATATGGCAT
1 TAAGATTACATGTAAGACCATATATGGGATATGGCAT
11871982 TGGTACGGTA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGATTACATGTAAGACCATATATGGGATATGGCATCGATA
Found at i:11882081 original size:40 final size:40
Alignment explanation
Indices: 11882025--11882227 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
11882015 CGGAATTTAA
* * ** *
11882025 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
*
11882065 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11882105 CCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGG-TTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11882144 CCGG-AATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGCAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
11882184 CCGGTTATAGTC-ACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAG-CAAC-TCGCACAAATGCCTTCGGGACTTAGC
11882224 CCGG
1 CCGG
11882228 ACATCATTCG
Statistics
Matches: 138, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 91 0.66
41 14 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11882159 original size:79 final size:81
Alignment explanation
Indices: 11882046--11882228 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
11882036 TACTCGTTCA
* *
11882046 AATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
11882109 ATT-TAGTAAC-TCGCACC
65 -TTATAGTAACTTAGCA-C
* **
11882126 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGT
*
11882189 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
11882205 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11882229 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 5 0.06
79 57 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGT
TATAGTAACTTAGCAC
Found at i:11884996 original size:8 final size:8
Alignment explanation
Indices: 11884954--11884978 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11884944 ATATAGACTA
11884954 AATAAAAT
1 AATAAAAT
11884962 AATAAAAT
1 AATAAAAT
11884970 AATAAAAT
1 AATAAAAT
11884978 A
1 A
11884979 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:11885002 original size:29 final size:31
Alignment explanation
Indices: 11884951--11885019 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
11884941 TATATATAGA
*
11884951 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
11884980 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
11885011 CTAATTAAA
1 CTAATTAAA
11885020 TAGCTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:11886878 original size:37 final size:37
Alignment explanation
Indices: 11886819--11886964 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
11886809 AGCTCAGACG
* *
11886819 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
11886856 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
11886893 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
11886930 TAATCTTCACACCTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
11886965 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:11887223 original size:47 final size:47
Alignment explanation
Indices: 11887171--11887364 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
11887161 CATACATATT
* * * * *
11887171 TCACATTAGCCATTCGGCTTTACCACATATATGTATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
11887218 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
11887265 TCACATTGGCCATTCGGCCTTTTCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
11887312 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
11887359 TCACAT
1 TCACAT
11887365 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:11899732 original size:20 final size:18
Alignment explanation
Indices: 11899695--11899745 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
11899685 CTATAGCAAC
11899695 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
11899712 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
11899732 TTACAACTTTACAA
1 TCACAA-TTTACAA
11899746 AATAACACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:11906231 original size:27 final size:27
Alignment explanation
Indices: 11906199--11906261 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11906189 CTCGATTTAC
**
11906199 AAAATTATTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
11906226 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
11906253 AAAATTACC
1 AAAATTACC
11906262 ATTTTGCCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:11906271 original size:27 final size:27
Alignment explanation
Indices: 11906241--11906304 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
11906231 TACCGAGATA
*
11906241 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
11906268 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
11906295 CCCTTGTGGG
1 CCCTTGTGGG
11906305 CAAGTGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:11906896 original size:25 final size:25
Alignment explanation
Indices: 11906868--11906932 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
11906858 GACTCTGATA
*
11906868 CTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATT
* *
11906893 CTGATTCTGATTCAGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTAATT
11906918 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
11906933 ATTCTCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATT
Found at i:11906899 original size:6 final size:6
Alignment explanation
Indices: 11906890--11906958 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
11906880 CTGTCACCTA
* * *
11906890 ATTCTG ATTCTG ATTCAG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
11906939 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
11906959 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:11908440 original size:20 final size:18
Alignment explanation
Indices: 11908403--11908453 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
11908393 CTATAGCAAC
11908403 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
11908420 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
11908440 TTACAACTTTACAA
1 TCACAA-TTTACAA
11908454 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:11911718 original size:41 final size:41
Alignment explanation
Indices: 11911665--11911743 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
11911655 TTTCCAAATC
*
11911665 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATATCA
*
11911706 AATGAAAAGGTTGAAAAGGATGTTATTAAAAAAGGATA
1 AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATA
11911744 AAAAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATATCA
Found at i:11913038 original size:18 final size:18
Alignment explanation
Indices: 11913011--11913053 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11913001 CCCTGTGATC
*
11913011 TCTG-TTTTCC-AACTTT
1 TCTGTTTTTCCAAAATTT
11913027 TCATGTTTTTCCAAAATTT
1 TC-TGTTTTTCCAAAATTT
11913046 TCTGTTTT
1 TCTGTTTT
11913054 GTTTCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 12 0.52
19 7 0.30
ACGTcount: A:0.16, C:0.19, G:0.07, T:0.58
Consensus pattern (18 bp):
TCTGTTTTTCCAAAATTT
Found at i:11916812 original size:29 final size:29
Alignment explanation
Indices: 11916775--11916851 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
11916765 CACTTGGCCT
*
11916775 AATCTCATTTATATGGCCCATCAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
* * *
11916804 ATTCACATTCATATGGCCCATTAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
*
11916833 AATCACCTTTATATGGCCC
1 AATCACATTTATATGGCCC
11916852 GTTACGCCGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATCAGGCCCA
Found at i:11916864 original size:29 final size:29
Alignment explanation
Indices: 11916782--11916874 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
11916772 CCTAATCTCA
* * *
11916782 TTTATATGGCCCATCAGGCCCAATTCACA
1 TTTATATGGCCCATTAGGCCCAAATCACC
*
11916811 TTCATATGGCCCATTAGGCCCAAATCACC
1 TTTATATGGCCCATTAGGCCCAAATCACC
* * * *
11916840 TTTATATGGCCCGTTACGCCGAAATCATC
1 TTTATATGGCCCATTAGGCCCAAATCACC
11916869 -TTATAT
1 TTTATAT
11916875 TTATGCTCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 6 0.11
29 49 0.89
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTATATGGCCCATTAGGCCCAAATCACC
Found at i:11918729 original size:24 final size:24
Alignment explanation
Indices: 11918702--11918785 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
11918692 TATGACGCCT
*
11918702 TTGTGGCTTATTCTGAAAGTGTCC
1 TTGTGGCATATTCTGAAAGTGTCC
* *
11918726 TTGTAGCATATTCTGAAAGTGTCT
1 TTGTGGCATATTCTGAAAGTGTCC
** * *
11918750 TTGTTACGTATTCTAAAAGTG-CC
1 TTGTGGCATATTCTGAAAGTGTCC
11918773 TTTGTGGCATATT
1 -TTGTGGCATATT
11918786 ATATAAATGC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (24 bp):
TTGTGGCATATTCTGAAAGTGTCC
Found at i:11935668 original size:7 final size:7
Alignment explanation
Indices: 11935658--11935682 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11935648 TTGAGGGGTG
11935658 TGGGGAT
1 TGGGGAT
11935665 TGGGGAT
1 TGGGGAT
11935672 TGGGGAT
1 TGGGGAT
11935679 TGGG
1 TGGG
11935683 TAGCCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.60, T:0.28
Consensus pattern (7 bp):
TGGGGAT
Found at i:11938336 original size:27 final size:27
Alignment explanation
Indices: 11938249--11938338 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
11938239 GGCAAAATGG
* * *
11938249 TAATTTTACCCCACAAGGGTATCT-CA
1 TAATTCTACCCTACAAGGGTATTTCCA
**
11938275 GTAATTCTACCCTAC-AGGGTTATTTCGG
1 -TAATTCTACCCTACAAGGG-TATTTCCA
* *
11938303 TATTTCTACCTTACAAGGGTATTTCCA
1 TAATTCTACCCTACAAGGGTATTTCCA
11938330 TAATTCTAC
1 TAATTCTAC
11938339 AACTTATCCA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.08
27 42 0.84
28 4 0.08
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCCA
Found at i:11945014 original size:27 final size:27
Alignment explanation
Indices: 11944966--11945018 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11944956 GCGAAGCTGC
*
11944966 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
*
11944993 CAGATATTGTGGC-AAGGCCACCAGAT
1 CAGATATTGTGACGAA-GCCACCAGAT
11945019 TGCTGCGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:11945642 original size:26 final size:27
Alignment explanation
Indices: 11945613--11945666 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11945603 TCACACAAGT
* *
11945613 TAGTCATTT-ACGCTCGAGGGGCAAAA
1 TAGTCATTTAACACCCGAGGGGCAAAA
*
11945639 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACCCGAGGGGCAAAA
11945666 T
1 T
11945667 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
TAGTCATTTAACACCCGAGGGGCAAAA
Found at i:11945756 original size:27 final size:27
Alignment explanation
Indices: 11945667--11945757 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
11945657 GGGGCAAAAT
* * *
11945667 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11945694 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
11945721 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
11945748 GGTAATTCTA
1 GGTAATTCTA
11945758 TAACTTATCC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:11946736 original size:27 final size:27
Alignment explanation
Indices: 11946679--11946736 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
11946669 ACCCTTAATC
* * ** *
11946679 GATAAAATGACTATTATGCCCTTGTGT
1 GATAAAATGACTATTAGGCCCCTACGA
*
11946706 GATAAAATGACTGTTAGGCCCCTACGA
1 GATAAAATGACTATTAGGCCCCTACGA
11946733 GATA
1 GATA
11946737 TATGATTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
GATAAAATGACTATTAGGCCCCTACGA
Found at i:11947375 original size:18 final size:19
Alignment explanation
Indices: 11947335--11947375 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
11947325 AACATAGCCC
*
11947335 CTTT-GGATTTTATTTTTA
1 CTTTGGGATTTTAGTTTTA
*
11947353 ATTTGGGATTTTAGTTTT-
1 CTTTGGGATTTTAGTTTTA
11947371 CTTTG
1 CTTTG
11947376 ATTATAACTG
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.15, C:0.05, G:0.17, T:0.63
Consensus pattern (19 bp):
CTTTGGGATTTTAGTTTTA
Found at i:11949015 original size:23 final size:21
Alignment explanation
Indices: 11948986--11949091 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 21
11948976 CTTACCAATT
*
11948986 TAGAGCTTACTGTTTCAGCTCA
1 TAGAGCTTACT-ATTCAGCTCA
* * *
11949008 TTGGAGCTTACCGATTCAGCTTGA
1 -TAGAGCTTA-CTATTCAGC-TCA
11949032 TAGAGCTTACTATTCAGCTCAA
1 TAGAGCTTACTATTCAGCTC-A
*
11949054 TAGAGCTTACCATTTTCAGCTCA
1 TAGAGCTTA-C-TATTCAGCTCA
11949077 GTAGAGCTTACTATT
1 -TAGAGCTTACTATT
11949092 TATTAGCTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 21 0.31
23 25 0.37
24 21 0.31
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TAGAGCTTACTATTCAGCTCA
Found at i:11949049 original size:22 final size:23
Alignment explanation
Indices: 11949011--11949091 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
11949001 CAGCTCATTG
* *
11949011 GAGCTTACCGATTCAGCTTGATA
1 GAGCTTACCTATTCAGCTTAATA
*
11949034 GAGCTTA-CTATTCAGCTCAATA
1 GAGCTTACCTATTCAGCTTAATA
* * *
11949056 GAGCTTACCATTTTCAGCTCAGTA
1 GAGCTTACC-TATTCAGCTTAATA
11949080 GAGCTTA-CTATT
1 GAGCTTACCTATT
11949092 TATTAGCTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 22 0.44
23 9 0.18
24 19 0.38
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (23 bp):
GAGCTTACCTATTCAGCTTAATA
Found at i:11949072 original size:46 final size:45
Alignment explanation
Indices: 11948986--11949091 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 45
11948976 CTTACCAATT
* * * *
11948986 TAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTCAGCT-TG
1 TAGAGCTTACT-ATTCAGCTCAATAGAGCTTACCGATTCAGCTCAG
11949031 ATAGAGCTTACTATTCAGCTCAATAGAGCTTACC-ATTTTCAGCTCAG
1 -TAGAGCTTACTATTCAGCTCAATAGAGCTTACCGA--TTCAGCTCAG
11949078 TAGAGCTTACTATT
1 TAGAGCTTACTATT
11949092 TATTAGCTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.02
45 19 0.36
46 32 0.60
47 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (45 bp):
TAGAGCTTACTATTCAGCTCAATAGAGCTTACCGATTCAGCTCAG
Found at i:11949076 original size:24 final size:24
Alignment explanation
Indices: 11948986--11949092 Score: 91
Period size: 24 Copynumber: 4.6 Consensus size: 24
11948976 CTTACCAATT
*
11948986 TAGAGCTTA-C-TGTTTCAGCTCAT
1 TAGAGCTTACCAT-TTTCAGCTCAA
* **
11949009 TGGAGCTTACCGA--TTCAGCTTGA
1 TAGAGCTTACC-ATTTTCAGCTCAA
*
11949032 TAGAGCTTA-C-TATTCAGCTCAA
1 TAGAGCTTACCATTTTCAGCTCAA
*
11949054 TAGAGCTTACCATTTTCAGCTCAG
1 TAGAGCTTACCATTTTCAGCTCAA
*
11949078 TAGAGCTTACTATTT
1 TAGAGCTTACCATTT
11949093 ATTAGCTCGG
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
22 18 0.27
23 24 0.36
24 25 0.37
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (24 bp):
TAGAGCTTACCATTTTCAGCTCAA
Found at i:11950707 original size:48 final size:48
Alignment explanation
Indices: 11950644--11950739 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
11950634 GATTACGGGT
*
11950644 TAGGGGTGTTACATTTTTTTGCATCAGAGCTAGGTTTAGCCGATTCTA
1 TAGGGGTGTTACATTTTTTTGCATCAGAGCCAGGTTTAGCCGATTCTA
*
11950692 TAGGGGTGTTACATTTTTTTGTATCAGAGCCAGGTTTAGCCGATTCTA
1 TAGGGGTGTTACATTTTTTTGCATCAGAGCCAGGTTTAGCCGATTCTA
11950740 GGACTAACGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (48 bp):
TAGGGGTGTTACATTTTTTTGCATCAGAGCCAGGTTTAGCCGATTCTA
Found at i:11952732 original size:19 final size:19
Alignment explanation
Indices: 11952708--11952745 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11952698 TGGTATTGAG
*
11952708 TTAGTATCGGGGACAACAC
1 TTAGTACCGGGGACAACAC
11952727 TTAGTACCGGGGACAACAC
1 TTAGTACCGGGGACAACAC
11952746 CAATAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (19 bp):
TTAGTACCGGGGACAACAC
Found at i:11957229 original size:26 final size:26
Alignment explanation
Indices: 11957200--11957250 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
11957190 TTCAGTAGAC
11957200 TCAATAGGTAAATTCTTACTAGATAT
1 TCAATAGGTAAATTCTTACTAGATAT
11957226 TCAATAGGTAAATTCTTACTAGATA
1 TCAATAGGTAAATTCTTACTAGATA
11957251 CTAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (26 bp):
TCAATAGGTAAATTCTTACTAGATAT
Found at i:11960972 original size:51 final size:51
Alignment explanation
Indices: 11960893--11961016 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
11960883 CTGATCACAT
* *
11960893 TTATCACTTGTCACTTGTCACTGTTCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
*
11960944 TTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
*
11960995 TTATCACTTGTCACTTATCACT
1 TTATCACTTGTCACTTGTCACT
11961017 TGTCACTTGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
Found at i:11961008 original size:7 final size:7
Alignment explanation
Indices: 11960992--11961030 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
11960982 CTAAAGCAAC
*
11960992 CACTTAT
1 CACTTGT
11960999 CACTTGT
1 CACTTGT
*
11961006 CACTTAT
1 CACTTGT
11961013 CACTTGT
1 CACTTGT
11961020 CACTTGT
1 CACTTGT
11961027 CACT
1 CACT
11961031 GATAAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:11961011 original size:14 final size:14
Alignment explanation
Indices: 11960992--11961030 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
11960982 CTAAAGCAAC
11960992 CACTTATCACTTGT
1 CACTTATCACTTGT
11961006 CACTTATCACTTGT
1 CACTTATCACTTGT
*
11961020 CACTTGTCACT
1 CACTTATCACT
11961031 GATAAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:11961017 original size:65 final size:65
Alignment explanation
Indices: 11960941--11961079 Score: 208
Period size: 65 Copynumber: 2.1 Consensus size: 65
11960931 CTAAAGCTAC
* *
11960941 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAG-CAACCACTTATCACTTG
1 CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGCAGCT-AAGCCAACCACTTATCACTTG
11961005 T
65 T
* * *
11961006 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGCAGCTGAGCCTACCACTTATCACTTGT
1 CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGCAGCTAAGCCAACCACTTATCACTTGT
*
11961071 CACTGATCA
1 CACTTATCA
11961080 GAAGTACTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 2 0.03
65 65 0.97
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (65 bp):
CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGCAGCTAAGCCAACCACTTATCACTTGT
Found at i:11965839 original size:18 final size:18
Alignment explanation
Indices: 11965816--11965858 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11965806 GTTTATTTAT
11965816 ATAACAAAAAAATTTGAA
1 ATAACAAAAAAATTTGAA
11965834 ATAACAAAAAAATTTGAA
1 ATAACAAAAAAATTTGAA
*
11965852 ATTACAA
1 ATAACAA
11965859 CCATCTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAACAAAAAAATTTGAA
Found at i:11979948 original size:44 final size:42
Alignment explanation
Indices: 11979885--11980014 Score: 111
Period size: 44 Copynumber: 3.0 Consensus size: 42
11979875 GTTGGTATTG
* *
11979885 ATCTGAATTATCGTGTAAGACCGTGTCTGTGACACAGGCATCGA
1 ATCTG-ATT-TCGTGTAAGACCATGTCTGAGACACAGGCATCGA
* *
11979929 AT-TGAAATTTACGTGTAAGACCATGTCCGAGACATCA-GCATCGT
1 ATCTG--ATTT-CGTGTAAGACCATGTCTGAGACA-CAGGCATCGA
* * * * *
11979973 ATCTGATTTCATATAAGACCCTGTCTGGGACAGAGGCATCGA
1 ATCTGATTTCGTGTAAGACCATGTCTGAGACACAGGCATCGA
11980015 TACTGAATTA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.34
43 7 0.10
44 34 0.49
45 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
ATCTGATTTCGTGTAAGACCATGTCTGAGACACAGGCATCGA
Found at i:11986345 original size:35 final size:36
Alignment explanation
Indices: 11986306--11986373 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
11986296 TTATAATCAT
* *
11986306 TGTCATATGGTAAGAA-AACATACCCACATATTTAC
1 TGTCACATGGCAAGAATAACATACCCACATATTTAC
* *
11986341 TGTCACATGGCAATAATAACATACCCATATATT
1 TGTCACATGGCAAGAATAACATACCCACATATT
11986374 CTCTTTCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 13 0.46
36 15 0.54
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (36 bp):
TGTCACATGGCAAGAATAACATACCCACATATTTAC
Found at i:11988397 original size:29 final size:29
Alignment explanation
Indices: 11988355--11988529 Score: 244
Period size: 29 Copynumber: 6.0 Consensus size: 29
11988345 TGACGCCCAC
11988355 CGAATATGAAAAGGGATGGTTTCGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
*
11988384 CGAATATGAAAAGGGATGGTGAT-GACCAT
1 CGAATATGAAAAGGGATGGT-TTCGACCAT
** * *
11988413 TAAATATAAAAAAGGATGGTTTCGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* *
11988442 CGAATATGCAAAGGGATGGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* **
11988471 TGAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
11988500 CGAATATGAAAAGGGATGGTTTCGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
11988529 C
1 C
11988530 ATTTAGCACA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
28 1 0.01
29 122 0.98
30 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (29 bp):
CGAATATGAAAAGGGATGGTTTCGACCAT
Found at i:11988506 original size:87 final size:87
Alignment explanation
Indices: 11988355--11988529 Score: 278
Period size: 87 Copynumber: 2.0 Consensus size: 87
11988345 TGACGCCCAC
* *
11988355 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGATGACCATTAAATAT
1 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCAAATAT
11988420 AAAAAAGGATGGTTTCGACCAT
66 AAAAAAGGATGGTTTCGACCAT
* * * *
11988442 CGAATATGCAAAGGGATGGTTTTGACCATTGAATATGAAAAGGGATGGTGACGACCATCGAATAT
1 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCAAATAT
* *
11988507 GAAAAGGGATGGTTTCGACCAT
66 AAAAAAGGATGGTTTCGACCAT
11988529 C
1 C
11988530 ATTTAGCACA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (87 bp):
CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCAAATAT
AAAAAAGGATGGTTTCGACCAT
Found at i:11994362 original size:41 final size:41
Alignment explanation
Indices: 11994305--11994451 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
11994295 GGGTTTAAAA
11994305 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
*
11994346 CCGAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTCATAA-
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
* * * * * * * *
11994386 CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
11994427 CCGAGCTTGGTCTCGAAGGGCTTTT
1 CCGAGCTTGGTCTCGAAGGGCTTTT
11994452 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.35
41 58 0.65
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
Found at i:12004893 original size:12 final size:11
Alignment explanation
Indices: 12004867--12004892 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12004857 AGAAGAGAAT
12004867 AAAATACAAAA
1 AAAATACAAAA
12004878 AAAATACAAAA
1 AAAATACAAAA
12004889 AAAA
1 AAAA
12004893 AACACAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:12008639 original size:29 final size:27
Alignment explanation
Indices: 12008559--12008639 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
12008549 TTTGAAGTAT
12008559 AATCAAAGTTTCAATGTATAATTACATCA
1 AATCAAAG-TTC-ATGTATAATTACATCA
* * *
12008588 AATTAAAGCTCGTGTATCAAATTACAGGTCA
1 AATCAAAGTTCATGTAT--AATTACA--TCA
12008619 AATCAAAGTTCATGTATAATT
1 AATCAAAGTTCATGTATAATT
12008640 TTAATATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 18 0.43
31 17 0.40
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (27 bp):
AATCAAAGTTCATGTATAATTACATCA
Found at i:12029255 original size:27 final size:27
Alignment explanation
Indices: 12029224--12029275 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
12029214 TTGGATTTTT
12029224 TTTTATTTGGGCTGGTTTTAGGTTTGG
1 TTTTATTTGGGCTGGTTTTAGGTTTGG
*
12029251 TTTTATTTGGGCTGGTTTTGGGTTT
1 TTTTATTTGGGCTGGTTTTAGGTTT
12029276 ATTTATGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.06, C:0.04, G:0.33, T:0.58
Consensus pattern (27 bp):
TTTTATTTGGGCTGGTTTTAGGTTTGG
Found at i:12029268 original size:15 final size:15
Alignment explanation
Indices: 12029224--12029269 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12029214 TTGGATTTTT
12029224 TTTTATTTGGGCTGG
1 TTTTATTTGGGCTGG
**
12029239 TTTTA---GGTTTGG
1 TTTTATTTGGGCTGG
12029251 TTTTATTTGGGCTGG
1 TTTTATTTGGGCTGG
12029266 TTTT
1 TTTT
12029270 GGGTTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
12 10 0.42
15 14 0.58
ACGTcount: A:0.07, C:0.04, G:0.30, T:0.59
Consensus pattern (15 bp):
TTTTATTTGGGCTGG
Found at i:12045306 original size:85 final size:85
Alignment explanation
Indices: 12044990--12045295 Score: 603
Period size: 85 Copynumber: 3.6 Consensus size: 85
12044980 GGCCGGCCAT
12044990 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12045055 GTAAGGATTCATAAAATAAA
66 GTAAGGATTCATAAAATAAA
12045075 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12045140 GTAAGGATTCATAAAATAAA
66 GTAAGGATTCATAAAATAAA
12045160 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12045225 GTAAGGATTCATAAAATAAA
66 GTAAGGATTCATAAAATAAA
*
12045245 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAGACATGTTG
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTG
12045296 TGTTGGTGCA
Statistics
Matches: 220, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 220 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTCATAAAATAAA
Found at i:12047667 original size:47 final size:47
Alignment explanation
Indices: 12047589--12048277 Score: 990
Period size: 47 Copynumber: 14.6 Consensus size: 47
12047579 TATTTGAATA
* *
12047589 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATT
1 AATGTGAAA-T-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047638 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047685 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATT
1 AATGTGAAA-T-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047734 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047781 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATT
1 AATGTGAAA-T-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047830 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047877 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTCATG
1 AATGTGAAA-T-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12047926 AATGTGAAATTGTTTATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12047973 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12048019 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12048065 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12048111 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12048157 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
12048204 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
12048251 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAATTGTATATATGTGATAAG
12048278 TCCCGAAGGG
Statistics
Matches: 591, Mismatches: 42, Indels: 16
0.91 0.06 0.02
Matches are distributed among these distances:
46 184 0.31
47 265 0.45
48 7 0.01
49 135 0.23
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:12047701 original size:96 final size:96
Alignment explanation
Indices: 12047589--12048277 Score: 1105
Period size: 96 Copynumber: 7.3 Consensus size: 96
12047579 TATTTGAATA
*
12047589 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
12047654 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12047685 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
12047750 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12047781 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
12047846 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12047877 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTCATGAATGTGAAATTGTTTA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
* * *
12047942 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12047973 AATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
* *
12048035 TATGTGATAAGGCCTAAT-GCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12048065 AATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
* *
12048127 TATGTGATAAGGCCTAAT-GCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12048157 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
* * * * *
12048220 TATGCGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
12048251 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
12048278 TCCCGAAGGG
Statistics
Matches: 572, Mismatches: 17, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
92 138 0.24
93 84 0.15
94 53 0.09
95 1 0.00
96 296 0.52
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:12048497 original size:37 final size:37
Alignment explanation
Indices: 12048396--12048497 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
12048386 CCGAGCTCTA
*
12048396 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
12048433 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
12048470 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
12048498 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:12049527 original size:450 final size:450
Alignment explanation
Indices: 12048687--12049585 Score: 1568
Period size: 450 Copynumber: 2.0 Consensus size: 450
12048677 ATCTATGAGA
*
12048687 TATTCCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTGAAATCATACAATAGATCTA
1 TATTCCTATGATTATGTGACATCAGATCAGTGTGAGAGGTTATGTGAAATCATACAATAGATCTA
*
12048752 TGTCACATGAGCTCACTTTTATGTGAAGGTTTATCTGCCTATTGTATATGATGAGATGTGCATAT
66 TGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATAT
* * *
12048817 TCGGTAAAGGGATGGTATGCCTGAAGGAAGAGGGAAAAAAAATACGAACAACTATGTTATGATTT
131 TCGGAAAAGGGATGGTATGCCCGAAGGAAGAGGGAAAAAAAATACGAACAACTATGTTATAATTT
* *
12048882 GATTGTTATCTGTTGACACTGCTTAAAACTTACTAAGCATTATAATGCTTACTCCGTTTATTTTG
196 GATTGTTATCTGTTGACACTGCTTAAAACTTACTAAGCATTATAATGCTTACTCCGTTTACTCTG
* *
12048947 TTTTCTCTGTTTTATAGATCTCATTGCGAAGCTACAGGCTCGGGGATCGTCAGCAACTAGTCACA
261 TTTCCTCTGTTTTATAGATCTCATTGCGAAGCTACAGGCTCGAGGATCGTCAGCAACTAGTCACA
* * * *
12049012 CTATCACTATCCACTGTTTGGTACTGCTATGTTTTGGATTATCTTATGGCATGTATAAAATAGAC
326 CTATCACTATCCACCGCTTGGTACTGCTATGTTTAGAATTATCTTATGGCATGTATAAAATAGAC
12049077 TAGTGGCGGAAGAATA-TTTTGGTTAATGTATATAAGCCATGCGAAAATGGCATCTTTTC
391 TAGTGGCGGAAGAATATTTTTGGTTAATGTATATAAGCCATGCGAAAATGGCATCTTTTC
* *
12049136 TATTCCTATGATTATGTGACATCAGATCAGTGTGAGAGGTTATGTGAAATCATACGATATATCTA
1 TATTCCTATGATTATGTGACATCAGATCAGTGTGAGAGGTTATGTGAAATCATACAATAGATCTA
*
12049201 TGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCTTATTGTATATGATGAGATGTGCATAT
66 TGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATAT
*
12049266 TCGGAAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAATT
131 TCGGAAAAGGGATGGTATGCCCGAAGGAAGAGGGAAA-AAAAATACGAACAACTATGTTATAATT
*
12049331 TGATTGTTATCTGTTGACACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTCT
195 TGATTGTTATCTGTTGACACTGCTTAAAACTTACTAAGCATTATAATGCTTACTCCGTTTACTCT
12049396 GTTTCCAT-TGTTTTATAGATCTCATTGCGAAGCTACAGGCTCGAGGATCGTCAGCAACTAGTCA
260 GTTTCC-TCTGTTTTATAGATCTCATTGCGAAGCTACAGGCTCGAGGATCGTCAGCAACTAGTCA
* * * *
12049460 CACTATCACTATCCACCGCTTGTTACTGTTATGTTTAGAATTATTTTATGGCATGTATAGAATAG
324 CACTATCACTATCCACCGCTTGGTACTGCTATGTTTAGAATTATCTTATGGCATGTATAAAATAG
12049525 ACTAGTGGCGGAAGAATATTTTTGGTTAATGTATATAAGCCATGCGAAAATGGCATCTTTT
389 ACTAGTGGCGGAAGAATATTTTTGGTTAATGTATATAAGCCATGCGAAAATGGCATCTTTT
12049586 GAATGTTTAC
Statistics
Matches: 425, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
449 159 0.37
450 223 0.52
451 43 0.10
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (450 bp):
TATTCCTATGATTATGTGACATCAGATCAGTGTGAGAGGTTATGTGAAATCATACAATAGATCTA
TGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATAT
TCGGAAAAGGGATGGTATGCCCGAAGGAAGAGGGAAAAAAAATACGAACAACTATGTTATAATTT
GATTGTTATCTGTTGACACTGCTTAAAACTTACTAAGCATTATAATGCTTACTCCGTTTACTCTG
TTTCCTCTGTTTTATAGATCTCATTGCGAAGCTACAGGCTCGAGGATCGTCAGCAACTAGTCACA
CTATCACTATCCACCGCTTGGTACTGCTATGTTTAGAATTATCTTATGGCATGTATAAAATAGAC
TAGTGGCGGAAGAATATTTTTGGTTAATGTATATAAGCCATGCGAAAATGGCATCTTTTC
Found at i:12050448 original size:20 final size:20
Alignment explanation
Indices: 12050423--12050470 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
12050413 CTGCGGGCAT
12050423 GGGCGTGTCCCAAGCCACAC
1 GGGCGTGTCCCAAGCCACAC
12050443 GGGCGTGTCCCAAGCCACAC
1 GGGCGTGTCCCAAGCCACAC
12050463 GGGCGTGT
1 GGGCGTGT
12050471 GTGATCACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.12
Consensus pattern (20 bp):
GGGCGTGTCCCAAGCCACAC
Found at i:12062963 original size:43 final size:43
Alignment explanation
Indices: 12062897--12063041 Score: 131
Period size: 42 Copynumber: 3.4 Consensus size: 43
12062887 AGCTCATACA
*
12062897 ATGCCAACT-TCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGTAATCAAA-ATCG
* *
12062940 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAAT-AAAATATG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGTAATCAAAAT-CG
* * * *
12062982 ATGCCGA-TGTCTCAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGT-AATCA-AAATCG
*
12063026 ATGCCAAC-GACCCAGA
1 ATGCCAACTGTCCCAGA
12063042 TGTTGTCTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 33 0.40
43 30 0.36
44 15 0.18
45 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACGTAATCAAAATCG
Found at i:12062998 original size:42 final size:43
Alignment explanation
Indices: 12062897--12063016 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
12062887 AGCTCATACA
* * *
12062897 ATGCCAACT-TCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATAAAACATCG
*
12062940 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATAAAATAT-G
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATAAAACATCG
* *
12062982 ATGCCGA-TGTCTCAGACATGGTCTTACACGTAAAT
1 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AAAT
12063017 CATAAGTCGA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.45
43 36 0.54
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATAAAACATCG
Found at i:12063600 original size:27 final size:28
Alignment explanation
Indices: 12063552--12063605 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12063542 ATTACATTTA
* *
12063552 TTTCACATTTAGTCCCTCAATTTCTCAT
1 TTTCACATTTAGTCCCTAAATTACTCAT
12063580 TTTCACAATTTAG-CCC-AAATTACTCA
1 TTTCAC-ATTTAGTCCCTAAATTACTCA
12063606 AATTCATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.35
28 9 0.39
29 6 0.26
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.41
Consensus pattern (28 bp):
TTTCACATTTAGTCCCTAAATTACTCAT
Found at i:12064961 original size:16 final size:17
Alignment explanation
Indices: 12064940--12064977 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
12064930 ATGAATCGGC
12064940 AAAAGCCA-AAATGCCG
1 AAAAGCCAGAAATGCCG
12064956 AAAAG-CAGAAATGCCG
1 AAAAGCCAGAAATGCCG
12064972 AAAAGC
1 AAAAGC
12064978 TGAAAGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAGCCAGAAATGCCG
Found at i:12064982 original size:16 final size:16
Alignment explanation
Indices: 12064948--12064982 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12064938 GCAAAAGCCA
12064948 AAATGCCGAAAAGCAG
1 AAATGCCGAAAAGCAG
*
12064964 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCAG
12064980 AAA
1 AAA
12064983 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAATGCCGAAAAGCAG
Found at i:12065303 original size:28 final size:29
Alignment explanation
Indices: 12065192--12065306 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
12065182 GTGAGCATGA
* *
12065192 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
12065220 ATACAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
12065249 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* * *
12065278 ATATGAATATGA-ATGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
12065306 A
1 A
12065307 AATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:12065312 original size:57 final size:58
Alignment explanation
Indices: 12065205--12065315 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
12065195 TGAATGTGAC
* * *
12065205 TGGGCCTAACGGGCCATACAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATACAAATATGATATGGGCCTAATGGGCCAAATACAGGTGATT
* ** *
12065263 TGGGCCTAATGGGCCATATGAATATGA-ATGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATACAAATATGATATGGGCCTAATGGGCCAAATACAGGT
12065316 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATACAAATATGATATGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:12088704 original size:30 final size:30
Alignment explanation
Indices: 12088647--12088704 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12088637 CATGACCATG
* * *
12088647 ACACATGGGCGTGTGGCTTGCCTGTGTGTC
1 ACACACGGGCGTGTGGCTTACCCGTGTGTC
*
12088677 ACACACGGGCGTGTGGTTTACCCGTGTG
1 ACACACGGGCGTGTGGCTTACCCGTGTG
12088705 AAAATGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.36, T:0.28
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCTTACCCGTGTGTC
Found at i:12090555 original size:6 final size:6
Alignment explanation
Indices: 12090533--12090593 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
12090523 ATAAGTCTTC
* **
12090533 AAAAAT AAATA- AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AGTAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
12090580 -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAA
12090594 GGACTCAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 12 0.26
6 35 0.74
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:12095853 original size:40 final size:40
Alignment explanation
Indices: 12095796--12096013 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
12095786 CGGATAATAA
* *
12095796 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
12095836 CTGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
12095876 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTACAATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
12095916 CCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
12095957 -CGGGCTAAGTGCCGAAGGCATTTGGGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
12095996 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
12096014 TACTTGGTTG
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
39 17 0.11
40 132 0.87
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:12125716 original size:40 final size:40
Alignment explanation
Indices: 12125672--12125896 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
12125662 AACCCAATTA
* * ** *
12125672 CCTTCGGGATTTAGCCTGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCTGGAAATAACAACCAGCACGAATG
* * *
12125712 CCTTCGGGACTTAACCTGAAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCTGGAAATAACAACCAGCACGAATG
*
12125752 CCTTCGGGACTTAA-CTCGGAAATAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCT-GGAAATAACAACCAGCACGAATG
* * *
12125792 CCTTCGGGACTTAACCCGGGAATAAGAACCAGCACGAATG
1 CCTTCGGGACTTAACCTGGAAATAACAACCAGCACGAATG
* *
12125832 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCTGGAAATAACAACCAGCACGAATG
* *
12125872 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCTGGAAATAA
12125897 TCCTCAATTG
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 160 0.98
41 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (40 bp):
CCTTCGGGACTTAACCTGGAAATAACAACCAGCACGAATG
Found at i:12126930 original size:45 final size:45
Alignment explanation
Indices: 12126866--12126957 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
12126856 CTGTCCCACA
12126866 TTACTTCAATTATCTCATTATCGGCAATTCTTTTACTTTTATAGT
1 TTACTTCAATTATCTCATTATCGGCAATTCTTTTACTTTTATAGT
*
12126911 TTACTTCAATTATCTCATTATCGGCAATTCTTTTGCTTTTATAGT
1 TTACTTCAATTATCTCATTATCGGCAATTCTTTTACTTTTATAGT
12126956 TT
1 TT
12126958 CTTTTATAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (45 bp):
TTACTTCAATTATCTCATTATCGGCAATTCTTTTACTTTTATAGT
Found at i:12129948 original size:44 final size:42
Alignment explanation
Indices: 12129869--12130024 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 42
12129859 TTCCGATATG
* * *
12129869 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCACATCTAGGACATCGGCATCGTATT
** *
12129910 TGAGATTTACGTGTAAGACCATGTCTAGGACATCGGCATTGTATT
1 T--GATTT-CGTGTAAGACCACATCTAGGACATCGGCATCGTATT
* *
12129955 TGATTTCGTGTAAGACC-CTATCTGGGATAGT-GGCATCGATATT
1 TGATTTCGTGTAAGACCAC-ATCTAGGACA-TCGGCATCG-TATT
* * * * *
12129998 TTATTACATATAAGACCACGTCTAGGA
1 TGATTTCGTGTAAGACCACATCTAGGA
12130025 TGTTGTCATT
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 34 0.38
44 27 0.30
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACATCTAGGACATCGGCATCGTATT
Found at i:12129990 original size:42 final size:40
Alignment explanation
Indices: 12129869--12129994 Score: 112
Period size: 42 Copynumber: 3.0 Consensus size: 40
12129859 TTCCGATATG
*
12129869 TGATTTCGTGTAAGACCAC-ATCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTATCTGGGAAG-TGGCATCGATT
* * * *
12129910 TGAGATTTACGTGTAAGACCATGTCTAGGACA-TCGGCATTGTATT
1 T--GATTT-CGTGTAAGACCCTATCTGGGA-AGT-GGCATCG-ATT
12129955 TGATTTCGTGTAAGACCCTATCTGGGATAGTGGCATCGAT
1 TGATTTCGTGTAAGACCCTATCTGGGA-AGTGGCATCGAT
12129995 ATTTTATTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
41 3 0.04
42 25 0.37
43 12 0.18
44 23 0.34
45 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCCTATCTGGGAAGTGGCATCGATT
Found at i:12134726 original size:123 final size:123
Alignment explanation
Indices: 12134507--12134874 Score: 727
Period size: 123 Copynumber: 3.0 Consensus size: 123
12134497 GTAAGGAAGG
12134507 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
1 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
12134572 TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTCT
66 TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTCT
12134630 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
1 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
12134695 TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTCT
66 TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTCT
12134753 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
1 GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
*
12134818 TAGCATGGGGGAAGCTATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTC
66 TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTC
12134875 CGTTCTAACC
Statistics
Matches: 244, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 244 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (123 bp):
GTTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACTCATCTTTTTCATGGAGGCCGAAAT
TAGCATGGGGGAAGCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATAGTAAGTCT
Found at i:12135264 original size:30 final size:30
Alignment explanation
Indices: 12135218--12135274 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12135208 TTCCCGAGCG
12135218 TAGGCGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGCGCAAAAGTGTAAATATGCAAAAGTT
* * * *
12135248 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGCGCAAAAGTGTAAATATGCAAAA
12135275 TTTTGAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGCGCAAAAGTGTAAATATGCAAAAGTT
Found at i:12136083 original size:64 final size:63
Alignment explanation
Indices: 12135935--12136186 Score: 204
Period size: 68 Copynumber: 3.8 Consensus size: 63
12135925 TACAGATAGT
* ** * * * *
12135935 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
12135999 TATG
61 TA-A
* * * *
12136003 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * *
12136067 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTAAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GT---GTACACCATGTAGACAAGAGAGCTACGAGAT
12136132 AA
62 AA
* * *
12136134 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGC
12136187 CGAACTGTAT
Statistics
Matches: 152, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 27 0.18
65 2 0.01
66 24 0.16
67 33 0.22
68 45 0.30
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:12147341 original size:30 final size:30
Alignment explanation
Indices: 12147305--12147364 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12147295 TTCCCGAGCC
*
12147305 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
12147335 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
12147365 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:12156937 original size:40 final size:40
Alignment explanation
Indices: 12156839--12157101 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
12156829 TCCTCGTTCA
* * * ** *
12156839 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
12156878 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
12156918 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
12156958 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
12156998 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
12157038 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
12157078 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12157102 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:12165129 original size:40 final size:40
Alignment explanation
Indices: 12165085--12165229 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
12165075 GCTACTAGCT
12165085 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* *
12165125 CAAATGCCTTCAGGACTTAGCCTGGTGATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
12165165 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTCACTAGCA
1 CAAATGCCTTCAGGACTTAGCCCG-GTTATAGTAACTCGCA
*
12165205 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGG
12165230 AACTAGTANN
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 94 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:12172839 original size:40 final size:40
Alignment explanation
Indices: 12172795--12172943 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
12172785 GCTACTAGCT
12172795 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
12172835 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
12172875 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
12172915 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
12172944 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 100 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:12172894 original size:80 final size:80
Alignment explanation
Indices: 12172772--12172939 Score: 252
Period size: 80 Copynumber: 2.1 Consensus size: 80
12172762 CCTTCGGAGT
* * *
12172772 TTAG-CCGGATATAGCTACTAGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 TTAGCCCGGATATAGCTACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCA
12172835 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* *
12172851 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 TTAGCCCGGATATAGCT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
12172915 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
12172931 TTAGCCCGG
1 TTAGCCCGG
12172940 TTATCATCCG
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
79 5 0.06
80 75 0.93
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGCTACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:12193570 original size:40 final size:40
Alignment explanation
Indices: 12193540--12193763 Score: 192
Period size: 40 Copynumber: 5.6 Consensus size: 40
12193530 GCTACTCGTT
*
12193540 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
12193580 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
12193620 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
12193659 CAAATGCCTTC-AGATCTTAGTCCGG-AATTAGTATCTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTAACTCGCA
* * ** * *
12193699 CAAATGCCTTC-GGATCTTAGTCCGGATACGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
12193740 CAAA-GCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
12193764 ACATCATTCG
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 30 0.19
40 112 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:12193651 original size:79 final size:80
Alignment explanation
Indices: 12193540--12193711 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 80
12193530 GCTACTCGTT
* *
12193540 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCG
* *
12193604 GATTTAGTAACTCGCA
65 GAATTAGTAACTCACA
* * * **
12193620 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
*
12193683 GAATTAGTATCTCACA
65 GAATTAGTAACTCACA
12193699 CAAATGCCTTCGG
1 CAAATGCCTTCGG
12193712 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.04
79 63 0.80
80 13 0.16
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGG
AATTAGTAACTCACA
Found at i:12205769 original size:18 final size:18
Alignment explanation
Indices: 12205746--12205781 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12205736 CATGAAATGG
12205746 GTGAAATAGAATATTTTT
1 GTGAAATAGAATATTTTT
12205764 GTGAAATAGAATATTTTT
1 GTGAAATAGAATATTTTT
12205782 AAGTTAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
GTGAAATAGAATATTTTT
Found at i:12206164 original size:61 final size:61
Alignment explanation
Indices: 12206095--12206215 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
12206085 GTGAATACAT
*
12206095 TGAAAGGTGATGGAATGAATTCATGATGTGAAAATATGATATGAAATAATGATGCATGAAA
1 TGAAAGGTGATGGAATGAATTCATGATGTGAAAATATGATATGAAACAATGATGCATGAAA
12206156 TGAAAGGTGATGGAATGAATTCATGATGTGAAAATATGATATGAAACAATGATGCATGAA
1 TGAAAGGTGATGGAATGAATTCATGATGTGAAAATATGATATGAAACAATGATGCATGAA
12206216 GTTCAAGAGA
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:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (61 bp):
TGAAAGGTGATGGAATGAATTCATGATGTGAAAATATGATATGAAACAATGATGCATGAAA
Found at i:12210874 original size:30 final size:30
Alignment explanation
Indices: 12210840--12210908 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
12210830 CACGAGCAGA
*
12210840 GACATGGCCGTGTGTCTTAGCTGTGTGGAT
1 GACATGGCCGTGTGTCTCAGCTGTGTGGAT
*
12210870 GACATGGCTGTGTGTCTCAGCTGTGTGGAT
1 GACATGGCCGTGTGTCTCAGCTGTGTGGAT
*
12210900 GACACGGCC
1 GACATGGCC
12210909 TAGCACATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.29
Consensus pattern (30 bp):
GACATGGCCGTGTGTCTCAGCTGTGTGGAT
Found at i:12219588 original size:27 final size:26
Alignment explanation
Indices: 12219540--12219599 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
12219530 GCGAGGCTGC
*
12219540 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAG-TA
* * *
12219567 CAGATATTGTGGCTAGGCCACCAGTA
1 CAGATATTGTGACGAAGCCACCAGTA
12219593 CAGATAT
1 CAGATAT
12219600 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGTA
Found at i:12219692 original size:27 final size:26
Alignment explanation
Indices: 12219645--12219695 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
12219635 CGAGGCTGCC
*
12219645 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
12219671 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
12219696 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:12224963 original size:28 final size:28
Alignment explanation
Indices: 12224932--12224991 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
12224922 GATATTTTGC
* *
12224932 ACACGAAGTGTCATTCTCAATATCTCGT
1 ACACGAACTGCCATTCTCAATATCTCGT
* *
12224960 ACACTAACTGCCATTCTCAATATTTCGT
1 ACACGAACTGCCATTCTCAATATCTCGT
12224988 ACAC
1 ACAC
12224992 TGAGTACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (28 bp):
ACACGAACTGCCATTCTCAATATCTCGT
Found at i:12225001 original size:28 final size:28
Alignment explanation
Indices: 12224943--12225001 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
12224933 CACGAAGTGT
*
12224943 CATTCTCAATATCTCGTACACTAACTGC
1 CATTCTCAATATCTCGTACACTAACTAC
* * *
12224971 CATTCTCAATATTTCGTACACTGAGTAC
1 CATTCTCAATATCTCGTACACTAACTAC
12224999 CAT
1 CAT
12225002 ATTTGATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (28 bp):
CATTCTCAATATCTCGTACACTAACTAC
Found at i:12226633 original size:10 final size:10
Alignment explanation
Indices: 12226615--12226696 Score: 65
Period size: 10 Copynumber: 8.0 Consensus size: 10
12226605 AAATGGAAAA
*
12226615 GAAATGAGCT
1 GAAACGAGCT
12226625 GAAACGAGCT
1 GAAACGAGCT
* *
12226635 AAAATCAAGCT
1 GAAA-CGAGCT
* *
12226646 CAAACGAACT
1 GAAACGAGCT
12226656 GAAACGAGCT
1 GAAACGAGCT
* *
12226666 AAAATCAAGCT
1 GAAA-CGAGCT
* *
12226677 CAAACGAACT
1 GAAACGAGCT
12226687 GAAACGAGCT
1 GAAACGAGCT
12226697 TAAGTGAGCT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
10 39 0.71
11 16 0.29
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:12226661 original size:31 final size:31
Alignment explanation
Indices: 12226623--12226696 Score: 148
Period size: 31 Copynumber: 2.4 Consensus size: 31
12226613 AAGAAATGAG
12226623 CTGAAACGAGCTAAAATCAAGCTCAAACGAA
1 CTGAAACGAGCTAAAATCAAGCTCAAACGAA
12226654 CTGAAACGAGCTAAAATCAAGCTCAAACGAA
1 CTGAAACGAGCTAAAATCAAGCTCAAACGAA
12226685 CTGAAACGAGCT
1 CTGAAACGAGCT
12226697 TAAGTGAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.14
Consensus pattern (31 bp):
CTGAAACGAGCTAAAATCAAGCTCAAACGAA
Found at i:12229390 original size:50 final size:51
Alignment explanation
Indices: 12229313--12229441 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
12229303 GACCATGGCA
* *
12229313 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTCATCAAGGACAAATG
* *
12229364 A-AAGTGATAAGTGATATCTTCGGCTACACTTATCTCATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTCATCAAGGACAAATG
* * *
12229414 ACAACTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
12229442 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTCATCAAGGACAAATG
Found at i:12229457 original size:31 final size:31
Alignment explanation
Indices: 12229419--12229565 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
12229409 AAATGACAAC
12229419 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
12229450 TGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
12229481 TGAAAAGTGGTAGCTCCAGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
12229512 TGAAAAATGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
*
12229543 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
12229566 AAGTGACAAG
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 101 0.97
32 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:12229708 original size:46 final size:42
Alignment explanation
Indices: 12229641--12229796 Score: 129
Period size: 42 Copynumber: 3.6 Consensus size: 42
12229631 TGCTACTGTA
* * *
12229641 TAAGACCATATCTGGAATATGGCATCAGTGAGATATCTAAT-TCGTG
1 TAAGACCATAGCTGG-CTATGGCATCA-T-AGATAT-GAATAT-GTG
*
12229687 TAAGACCATAGCTAGGCTATGGCATC-TATATATGAATATGTG
1 TAAGACCATAGCT-GGCTATGGCATCATAGATATGAATATGTG
* * * *
12229729 TAAGACCATAGCCGGGCTATGGCATCAT-TATGTGAAGATGTG
1 TAAGACCATAG-CTGGCTATGGCATCATAGATATGAATATGTG
* *
12229771 TAAGACCATAGTTGAACTATGGCATC
1 TAAGACCATAGCTG-GCTATGGCATC
12229797 GAGAAAACGA
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 62 0.65
43 8 0.08
44 1 0.01
46 21 0.22
47 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGCTATGGCATCATAGATATGAATATGTG
Found at i:12229747 original size:42 final size:42
Alignment explanation
Indices: 12229684--12229781 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
12229674 TATCTAATTC
* *
12229684 GTGTAAGACCATAGCTAGGCTATGGCATC-TATATATGAATAT
1 GTGTAAGACCATAGCCAGGCTATGGCATCAT-TATATGAAGAT
* *
12229726 GTGTAAGACCATAGCCGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCCAGGCTATGGCATCATTATATGAAGAT
12229768 GTGTAAGACCATAG
1 GTGTAAGACCATAG
12229782 TTGAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCCAGGCTATGGCATCATTATATGAAGAT
Found at i:12229791 original size:42 final size:42
Alignment explanation
Indices: 12229684--12229796 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
12229674 TATCTAATTC
*
12229684 GTGTAAGACCATAGCT-AGGCTATGGCATCTATATATGAATAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCTATATATGAAGAT
* * *
12229726 GTGTAAGACCATAGCCGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCTA-TATATGAAGAT
* *
12229768 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGAGCTATGGCATC
12229797 GAGAAAACGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCTATATATGAAGAT
Found at i:12234584 original size:50 final size:51
Alignment explanation
Indices: 12234507--12234635 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
12234497 GACTATGGCA
*
12234507 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGA-TCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACT-AAGGACAAATG
*
12234558 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACTAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACTAAGGACAAATG
* * *
12234608 ACAACTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
12234636 CTGATTAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACTAAGGACAAATG
Found at i:12234651 original size:31 final size:31
Alignment explanation
Indices: 12234613--12234840 Score: 318
Period size: 31 Copynumber: 7.3 Consensus size: 31
12234603 AAATGACAAC
*
12234613 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
12234644 TGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
12234675 TGAAAAGTGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
*
12234706 TGAAAAATGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
* *
12234737 TGAATAGTGGTAGCTTCGGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
12234768 TGAAAAGTGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
* * *
12234799 TGAATAGTGGTAGCTTCGGCTACAAGTGATAAG
1 TGAAAAGTGGTAGCTTCGGCTAC--CTGATCAG
12234832 TGAAAAGTG
1 TGAAAAGTG
12234841 ATTTCCGTAT
Statistics
Matches: 178, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
30 4 0.02
31 156 0.88
32 4 0.02
33 14 0.08
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:12234710 original size:62 final size:62
Alignment explanation
Indices: 12234613--12234840 Score: 352
Period size: 62 Copynumber: 3.6 Consensus size: 62
12234603 AAATGACAAC
12234613 TGAAAAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGCTTCT-GCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGC-TCTGGCTACCTGATCAG
* *
12234675 TGAAAAGTGGTAGC-TCTGGCTACCTGATCAGTGAAAAATGGTAGCTCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATTAGTGAAAAGTGGTAGCTCTGGCTACCTGATCAG
*
12234737 TGAATAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGCTCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGCTCTGGCTACCTGATCAG
* * *
12234799 TGAATAGTGGTAGCTTCGGCTACAAGTGATAAGTGAAAAGTG
1 TGAAAAGTGGTAGCTTCGGCTAC--CTGATTAGTGAAAAGTG
12234841 ATTTCCGTAT
Statistics
Matches: 154, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
61 5 0.03
62 132 0.86
63 2 0.01
64 15 0.10
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (62 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGCTCTGGCTACCTGATCAG
Found at i:12234718 original size:93 final size:93
Alignment explanation
Indices: 12234613--12234840 Score: 350
Period size: 93 Copynumber: 2.4 Consensus size: 93
12234603 AAATGACAAC
* *
12234613 TGAAAAGTGGTAGCTTCGGCTACCTGATTAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATAAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGA
12234678 AAAGTGGTAGCTCTGGCTACCTGATCAG
66 AAAGTGGTAGCTCTGGCTACCTGATCAG
* * * *
12234706 TGAAAAATGGTAGC-TCTGGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCTACCTGATTAGTG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATAAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTG
12234770 AAAAGTGGTAGCTCTGGCTACCTGATCAG
65 AAAAGTGGTAGCTCTGGCTACCTGATCAG
* *
12234799 TGAATAGTGGTAGCTTCGGCTACAAGTGATAAGTGAAAAGTG
1 TGAAAAGTGGTAGCTTCGGCTAC--CTGATAAGTGAAAAGTG
12234841 ATTTCCGTAT
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
92 2 0.02
93 103 0.85
94 2 0.02
95 14 0.12
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (93 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATAAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGA
AAAGTGGTAGCTCTGGCTACCTGATCAG
Found at i:12234998 original size:42 final size:43
Alignment explanation
Indices: 12234940--12235054 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
12234930 TATCTGATTC
*
12234940 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
12234982 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
12235024 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
12235055 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:12236608 original size:22 final size:22
Alignment explanation
Indices: 12236581--12236635 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
12236571 TCACAACTCT
12236581 TTTTCTTTTCTCTCTCATTTTC-
1 TTTTCTTTT-TCTCTCATTTTCA
* *
12236603 TTTTCTTTTTTTTTCATTTTCA
1 TTTTCTTTTTCTCTCATTTTCA
*
12236625 CTTTCTTTTTC
1 TTTTCTTTTTC
12236636 CACTCTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTTCTCTCATTTTCA
Found at i:12259080 original size:47 final size:47
Alignment explanation
Indices: 12259017--12259489 Score: 703
Period size: 47 Copynumber: 10.1 Consensus size: 47
12259007 CCCTTCGGGA
*
12259017 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* ** * *
12259064 CTTATCACATATATACACCTTCACATCCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
12259111 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
12259158 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* ** * *
12259205 CTTATCACATATATACACCTTCACATCCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
12259252 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
12259299 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* ** * *
12259346 CTTATCACATATATACACCTTCACATCCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* * * *
12259393 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
12259440 CTTGTCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
12259487 CTT
1 CTT
12259490 CATATCTTGT
Statistics
Matches: 380, Mismatches: 46, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 380 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:12259271 original size:141 final size:141
Alignment explanation
Indices: 12259017--12259489 Score: 892
Period size: 141 Copynumber: 3.4 Consensus size: 141
12259007 CCCTTCGGGA
*
12259017 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
12259082 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
12259147 GGCCATTCGGC
131 GGCCATTCGGC
12259158 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
12259223 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
12259288 GGCCATTCGGC
131 GGCCATTCGGC
* *
12259299 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
12259364 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATC
66 CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
*
12259429 GGCCATTAGGC
131 GGCCATTCGGC
*
12259440 CTTGTCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTT
12259490 CATATCTTGT
Statistics
Matches: 324, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 324 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATCCATCACATCAGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
GGCCATTCGGC
Found at i:12260527 original size:13 final size:13
Alignment explanation
Indices: 12260509--12260534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12260499 TATTATTCAC
12260509 TTGACAATCACAT
1 TTGACAATCACAT
12260522 TTGACAATCACAT
1 TTGACAATCACAT
12260535 ATCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTGACAATCACAT
Done.