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 93 of 297
Found at i:33536091 original size:180 final size:180
Alignment explanation
Indices: 33535789--33536149 Score: 668
Period size: 180 Copynumber: 2.0 Consensus size: 180
33535779 TCCGTTTAGT
*
33535789 TATATGAATGCTATACTTCAGTTGAGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGC
1 TATATGAATGCTATACTTCAGTTGAGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAAGGC
*
33535854 TTACTCCGTTCTTTGAATCTTTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTGT
66 TTACTCCGTTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTGT
33535919 CAAAGTCGAAGTCGTCCACACTATCAAAGCCCCTTTTGGTAAACTTTTGG
131 CAAAGTCGAAGTCGTCCACACTATCAAAGCCCCTTTTGGTAAACTTTTGG
33535969 TATATGAATGCTATACTTCAGTTGAGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAAGGC
1 TATATGAATGCTATACTTCAGTTGAGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAAGGC
*
33536034 TTACTCTGTTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTGT
66 TTACTCCGTTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTGT
* * *
33536099 CGAAGTTGAAGTCGTCCACACTATCAAAGCCCCTTTTGGTACACTTTTGG
131 CAAAGTCGAAGTCGTCCACACTATCAAAGCCCCTTTTGGTAAACTTTTGG
33536149 T
1 T
33536150 TGAACTTTGA
Statistics
Matches: 175, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 175 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (180 bp):
TATATGAATGCTATACTTCAGTTGAGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAAGGC
TTACTCCGTTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTGT
CAAAGTCGAAGTCGTCCACACTATCAAAGCCCCTTTTGGTAAACTTTTGG
Found at i:33543641 original size:40 final size:40
Alignment explanation
Indices: 33543542--33543716 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
33543532 CGGATGATAA
* *
33543542 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-TAT
* *
33543582 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* * *
33543621 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* * * *
33543661 CCGGGCTAAGACCCGAAGGC-CTTGTGCAAGT-AGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTATAT
*
33543700 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
33543717 ATTACTTGAG
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
38 15 0.13
39 46 0.40
40 53 0.46
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
Found at i:33543686 original size:79 final size:79
Alignment explanation
Indices: 33543542--33543716 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 79
33543532 CGGATGATAA
* * ** * *
33543542 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACCACATCCGGGCAAGACCCGAAGGCACTTGT
*
33543607 GCGAGTTA-CTATAT
66 GCAAG-TAGCTATAT
* *
33543621 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-CTTG
1 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACCACATCCGGGC-AAGACCCGAAGGCACTTG
*
33543685 TGCAAGTAGTTATAT
65 TGCAAGTAGCTATAT
*
33543700 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
33543717 ATTACTTGAG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 16 0.19
79 55 0.66
80 12 0.14
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACCACATCCGGGCAAGACCCGAAGGCACTTGT
GCAAGTAGCTATAT
Found at i:33564374 original size:93 final size:93
Alignment explanation
Indices: 33564210--33564381 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
33564200 CGCCCATAAG
** * *
33564210 CGAACTCGGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
33564275 ATGAGTTCGGATGCCTAGTTACATCTGA
66 ACGAGTTCGGATGCCTAGTTACATCTGA
*
33564303 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
33564367 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
33564382 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTGA
Found at i:33564397 original size:46 final size:46
Alignment explanation
Indices: 33564203--33564383 Score: 186
Period size: 46 Copynumber: 3.9 Consensus size: 46
33564193 TGTAACCCGC
* * *
33564203 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCGCAT
* * * * *
33564249 CCATGAGTGAACTCGGACTCAACTTAATGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCGCAT
* ** * ***
33564295 ACATCTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
33564342 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
33564384 AATCATCCTA
Statistics
Matches: 105, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 34 0.32
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:33573463 original size:26 final size:26
Alignment explanation
Indices: 33573428--33573503 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
33573418 GCCAACACAC
*
33573428 CAATAACGCAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* * *
33573454 TAATATCGCAACAAAGCTGTCAATAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* *
33573480 CAGTAAT-GCAGCAAAGCTGCCAGT
1 CAAT-ATCGCAACAAAGCTGCCAGT
33573504 CTCAGTATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTGCCAGTAA
Found at i:33575030 original size:16 final size:17
Alignment explanation
Indices: 33575011--33575053 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
33575001 GTATTCGGCC
33575011 AAAGAGAAAAAT-ACCA
1 AAAGAGAAAAATGACCA
33575027 AAAGAGGAAAAATGACCA
1 AAAGA-GAAAAATGACCA
33575045 AAAGA-AAAA
1 AAAGAGAAAA
33575054 TCGAAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAGAGAAAAATGACCA
Found at i:33575053 original size:15 final size:15
Alignment explanation
Indices: 33575009--33575054 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
33574999 GTGTATTCGG
33575009 CCAAAGAGAAAAATA
1 CCAAAGAGAAAAATA
33575024 CCAAAAGAGGAAAAATGA
1 CC-AAAGA-GAAAAAT-A
33575042 CCAAA-AGAAAAAT
1 CCAAAGAGAAAAAT
33575055 CGAAACAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 10 0.36
18 3 0.11
ACGTcount: A:0.65, C:0.13, G:0.15, T:0.07
Consensus pattern (15 bp):
CCAAAGAGAAAAATA
Found at i:33580323 original size:17 final size:16
Alignment explanation
Indices: 33580298--33580332 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
33580288 GATCGAGGTC
33580298 TTCCGACAGTTTTCAGT
1 TTCCGACAGTTTT-AGT
*
33580315 TTCCTACAGTTTTAGT
1 TTCCGACAGTTTTAGT
33580331 TT
1 TT
33580333 ACTCAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (16 bp):
TTCCGACAGTTTTAGT
Found at i:33581283 original size:26 final size:26
Alignment explanation
Indices: 33581219--33581285 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
33581209 AGAAACACAT
*
33581219 CAATAATGCAGCAAAGCTGCCAGTAA
1 CAATAATGCAGCAAAACTGCCAGTAA
*
33581245 TAAT-ATCGCAGCAAAACTGCCAGTAA
1 CAATAAT-GCAGCAAAACTGCCAGTAA
* *
33581271 CAGTAATGTAGCAAA
1 CAATAATGCAGCAAA
33581286 GCTACCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.06
26 30 0.88
27 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (26 bp):
CAATAATGCAGCAAAACTGCCAGTAA
Found at i:33581972 original size:155 final size:155
Alignment explanation
Indices: 33581689--33581996 Score: 490
Period size: 155 Copynumber: 2.0 Consensus size: 155
33581679 TACAGAGCCC
* *
33581689 AGTCCAGCAAATTATCATTTATTGCTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
1 AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
* *
33581754 CACGACCCAATTTGGCCCATCGTGGCCCAAAACGACCCAAACCTATGAGAATGCTCATAGGGCCT
66 CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
33581819 CTACCGTCTAACATCCATGTGTCAT
131 CTACCGTCTAACATCCATGTGTCAT
* * * *
33581844 AGTCCAGCCAATTACCATTTATTATTGAATTTATCCGTGTGGAGCCCACAAGCCCATTTGGCCCA
1 AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
* * * * * *
33581909 CACGACCTATTTTGGCCCATCATGGCCCAGAATGACCCAAACCCGTGAGAATGCTCATGGGGCCT
66 CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
33581974 CTACCGTCTAACATCCATGTGTC
131 CTACCGTCTAACATCCATGTGTC
33581997 GTGGCTCGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 139 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (155 bp):
AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
CTACCGTCTAACATCCATGTGTCAT
Found at i:33583081 original size:24 final size:24
Alignment explanation
Indices: 33583031--33583081 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
33583021 ACCCTCAAAT
** *
33583031 TCCTTGATTTTCTCCCAATATCTC
1 TCCTTGATTCCCTCCCAATATCAC
33583055 TCCTTGATTCCCTCCACAA-ATCAC
1 TCCTTGATTCCCTCC-CAATATCAC
33583079 TCC
1 TCC
33583082 AACATCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (24 bp):
TCCTTGATTCCCTCCCAATATCAC
Found at i:33587491 original size:14 final size:14
Alignment explanation
Indices: 33587455--33587483 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33587445 AGAACCAAAG
33587455 AATATAATTTAACC
1 AATATAATTTAACC
33587469 AATATAATTTAACC
1 AATATAATTTAACC
33587483 A
1 A
33587484 TTTTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AATATAATTTAACC
Found at i:33589281 original size:14 final size:14
Alignment explanation
Indices: 33589262--33589291 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33589252 ATTTAGTCAT
33589262 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
33589276 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
33589290 TT
1 TT
33589292 GGCATGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (14 bp):
TTTGCCACCCAAAA
Found at i:33607821 original size:22 final size:22
Alignment explanation
Indices: 33607793--33607845 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
33607783 CATAAAAGTG
33607793 TGATTTAGTGGAAATTAGGGGC
1 TGATTTAGTGGAAATTAGGGGC
33607815 TGATTTAGTGGAAATTAGGGGC
1 TGATTTAGTGGAAATTAGGGGC
*
33607837 TGATATAGT
1 TGATTTAGT
33607846 TATGAAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (22 bp):
TGATTTAGTGGAAATTAGGGGC
Found at i:33608436 original size:50 final size:50
Alignment explanation
Indices: 33608317--33608751 Score: 390
Period size: 50 Copynumber: 8.6 Consensus size: 50
33608307 ATTGTGAAAA
* *** *
33608317 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* *
33608369 CACGTGTGTAGTACTAAGTGCAGGCAACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * ** * * * *
33608419 CGCATGTGTAGTACTAAGTGTAGGCTACAATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * * * *
33608470 CACGTGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** *
33608520 CACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
33608570 CACATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * *
33608621 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** * * * *
33608671 CACGTGTGTAGTACTAAGTGCACACTACTACGTGTACCAGATTGCTA-TT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
33608720 CGCATGTGTAGTACTAAGTACAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
33608752 CTTACAAGAT
Statistics
Matches: 304, Mismatches: 73, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
49 29 0.10
50 164 0.54
51 72 0.24
52 39 0.13
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:33608597 original size:151 final size:151
Alignment explanation
Indices: 33608321--33608752 Score: 634
Period size: 151 Copynumber: 2.9 Consensus size: 151
33608311 TGAAAACACA
* * * *
33608321 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * * * * *
33608386 GTGCAGGCAACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACAATG
64 GTGCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
33608451 CATACCCGACAACTTCAATCACG
129 CATACCCGACAACTTCAATCACG
* * *
33608474 TGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * *
33608539 GCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTACGAAGTGCAGGCTACTATGCG
66 GCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
33608604 TACCCGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
33608625 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
33608690 GCACA-CTACTACGTGTACCAGATTGCTA-TTCGCATGTGTAGTACTAAGTACAGGCTACTATGC
66 GCA-AGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
33608753 TTACAAGATA
Statistics
Matches: 251, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
150 31 0.12
151 185 0.74
152 1 0.00
153 34 0.14
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCGACAACTTCAATCACG
Found at i:33608699 original size:101 final size:101
Alignment explanation
Indices: 33608519--33608700 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
33608509 GATGGTTAGG
33608519 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
**
33608584 GAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 GAAGTGCACACTACTATGCGTACCCGACAACTTCAA
* * * * *
33608620 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGG-TAGGTCACATGTGTAGTA
*
33608684 CTAAGTGCACACTACTA
65 CGAAGTGCACACTACTA
33608701 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 2 0.03
101 70 0.97
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
GAAGTGCACACTACTATGCGTACCCGACAACTTCAA
Found at i:33608982 original size:16 final size:15
Alignment explanation
Indices: 33608961--33608990 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33608951 GAATGGAGTA
33608961 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
33608977 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
33608991 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:33609886 original size:16 final size:16
Alignment explanation
Indices: 33609865--33609901 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
33609855 CCATGAGATG
33609865 TGGCTCATATTGATTA
1 TGGCTCATATTGATTA
*
33609881 TGGCTCATGTTGATTA
1 TGGCTCATATTGATTA
33609897 TGGCT
1 TGGCT
33609902 TGTAAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (16 bp):
TGGCTCATATTGATTA
Found at i:33615452 original size:50 final size:50
Alignment explanation
Indices: 33615333--33615779 Score: 409
Period size: 50 Copynumber: 8.9 Consensus size: 50
33615323 ATTGTGAAAA
* * *** *
33615333 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
33615385 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * ** * * * *
33615435 CGCATGTGTAGTACTAAGTGCAGGATACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
33615486 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
33615536 CACGTGTGTAGTACTAAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACT-ACGTGTACCAGATAGTTAGGT
* * * * *
33615586 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-AGGT
* * * *
33615637 CACATGTGTAGTACTAAGTGCAGTCTACTACGTGTATCAGATGGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * ** * **
33615687 CATGTGTGTAGTACTAAGTGCATGCTACTACGTGTACTGGATTGTT-TTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
33615736 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCT-TACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG
33615780 CTTCGATTAC
Statistics
Matches: 316, Mismatches: 70, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
49 37 0.12
50 162 0.51
51 78 0.25
52 39 0.12
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:33615615 original size:151 final size:151
Alignment explanation
Indices: 33615333--33615773 Score: 643
Period size: 151 Copynumber: 2.9 Consensus size: 151
33615323 ATTGTGAAAA
* * * *
33615333 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTA
* * *
33615398 CTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGTCGCATGTGTAGTACTAAGTGCAGGATAC
64 CTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
33615463 TATGCATACCCGACAACTTCAAT
129 TATGCATACCCGACAACTTCAAT
* *
33615486 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
33615551 AAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAAGCTACT-ACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
33615615 ATGCGTACCCGATAACTTCAAT
130 ATGCATACCCGACAACTTCAAT
* * *
33615637 CACATGTGTAGTACTAAGTGCAGTCTACTACGTGTATCAGATGGTTTGGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* ** * **
33615702 AAGTGCATGCTACTACGTGTACTGGATTGTT-TTTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
*
33615766 TGCTTACC
131 TGCATACC
33615774 AGATAGCTTC
Statistics
Matches: 261, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
150 39 0.15
151 182 0.70
152 2 0.01
153 38 0.15
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCATACCCGACAACTTCAAT
Found at i:33615645 original size:101 final size:98
Alignment explanation
Indices: 33615333--33615779 Score: 366
Period size: 101 Copynumber: 4.4 Consensus size: 98
33615323 ATTGTGAAAA
* * * *** *
33615333 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTA-CTGTACCAGATAG--TTAGGTCACGTGTGTAGTA
*
33615398 CTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGATA-TTAGGT
* * * * * * *
33615435 CGCATGTGTAGTACTAAGTGCAGGATACTA-TGCATACCCGACAACTTCA-ATCACGTGTGTAGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACTG--TACCAGA-TAGTT-AGGTCACGTGTGTAGT
* * *
33615498 ACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGT
62 ACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTAGGT
* *
33615536 CACGTGTGTAGTACTAAGTGCAAGCTACTAACTGTACCAGATAGTTAGGTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAAGCTACT-ACTGTACCAGATAGTTAGGTCACGTGTGTAGTACT
* * * *
33615601 AAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
65 AAGTGCAGGCTACTACGTGTACCAGAT-A-TT-AGGT
* * * *
33615637 CACATGTGTAGTACTAAGTGC-AGTCTACTACGTGTATCAGATGGTTTGGTCATGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAAG-CTACTAC-TGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* ** ***
33615701 TAAGTGCATGCTACTACGTGTACTGGAT-TGTTTTT
64 TAAGTGCAGGCTACTACGTGTACCAGATAT-TAGGT
* *
33615736 CGCATGTGTAGTACTAAGTGCAGGCTACTA-TGCTTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAAGCTACTACTG--TACCAGATAG
33615780 CTTCGATTAC
Statistics
Matches: 279, Mismatches: 49, Indels: 37
0.76 0.13 0.10
Matches are distributed among these distances:
97 2 0.01
98 1 0.00
99 37 0.13
100 47 0.17
101 157 0.56
102 33 0.12
103 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (98 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACTGTACCAGATAGTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATATTAGGT
Found at i:33620209 original size:27 final size:28
Alignment explanation
Indices: 33620149--33620225 Score: 138
Period size: 27 Copynumber: 2.8 Consensus size: 28
33620139 GCCTAACATA
*
33620149 CCATATGCATGTGATTGGGCCTGATGGG
1 CCATATGAATGTGATTGGGCCTGATGGG
33620177 CCATATGAATGTGATTGGGCC-GATGGG
1 CCATATGAATGTGATTGGGCCTGATGGG
33620204 CCATATGAATGTGATTGGGCCT
1 CCATATGAATGTGATTGGGCCT
33620226 AAAGGGGCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 27 0.57
28 20 0.43
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
CCATATGAATGTGATTGGGCCTGATGGG
Found at i:33621446 original size:17 final size:18
Alignment explanation
Indices: 33621415--33621448 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33621405 TTTGAAGAAG
33621415 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
33621433 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
33621449 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:33622327 original size:54 final size:54
Alignment explanation
Indices: 33622259--33622362 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
33622249 TCCTTACCCA
*
33622259 TGTAGCTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
1 TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
* * ** **
33622313 TGTAACTCTCTGAGTTGCCACACGCGCTTGTGTGTCAGGCTGTGTGCTAG
1 TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAG
33622363 TGTAATATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (54 bp):
TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
Found at i:33623343 original size:46 final size:46
Alignment explanation
Indices: 33623194--33623354 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
33623184 AATGTAAATA
* * *
33623194 GAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
* * * *
33623240 GAGTTGAGTCTGAGTT--CGTA-AGATG-TAACTAGGCATCCGAACTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCGAACTCGTT
*
33623287 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
33623333 GAGTTGAGTCCGAGTTCACTTA
1 GAGTTGAGTCCGAGTTCACTTA
33623355 GGGGCGGGTT
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 47 0.49
47 26 0.27
48 2 0.02
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
Found at i:33630933 original size:93 final size:93
Alignment explanation
Indices: 33630772--33630942 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
33630762 GGATGGTTGA
* * *
33630772 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGACT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
33630837 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
33630865 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
33630930 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33630943 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33630945 original size:46 final size:46
Alignment explanation
Indices: 33630776--33630947 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
33630766 GGTTGAGCAT
* * * *
33630776 CCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
33630822 CCGAACTCGTTGACTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
33630867 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
33630915 CCGAGCTCCTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33630948 GGGGCACGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:33637199 original size:81 final size:81
Alignment explanation
Indices: 33637061--33637252 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 81
33637051 AATTCTCGAT
* * * ***
33637061 ATCTCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
*
33637126 AGCAGAAGTTATCTCG
66 AGCAGAAGCTATCTCG
* ** * *
33637142 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAATCGCACATTGAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
* *
33637207 AGCCGAAGCTATGTCG
66 AGCAGAAGCTATCTCG
* *
33637223 A-ATCGCACACTAAGTGCCACATATAGTTGA
1 ATCTCGCACACTAAGTGCCATATATAGTTGA
33637253 TTTTTCGTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 27 0.28
81 68 0.72
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
AGCAGAAGCTATCTCG
Found at i:33637264 original size:40 final size:40
Alignment explanation
Indices: 33637064--33637248 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
33637054 TCTCGATATC
* * * * * * *
33637064 TCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * * *
33637104 TCGCACACTAAGTGCCATATATAGCAGAAGTTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGA-A
* *
33637145 TCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * *
33637185 TCGCACATTGAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
*
33637225 TCGCACACTAAGTGCCACATATAG
1 TCGCACACTAAGTGCCATATATAG
33637249 TTGATTTTTC
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 88 0.72
41 34 0.28
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
Found at i:33640847 original size:99 final size:99
Alignment explanation
Indices: 33640674--33640871 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 99
33640664 ATGCATTGAG
* *
33640674 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATTGGGCAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
*
33640739 AGAAGATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
* ** * *
33640773 AACAAAGCTTGGTTGAGTCTTCCTTGTACAAAAATGGTGTTTTTGATAGGGAAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
33640838 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
33640872 TTTAATTACC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (99 bp):
AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
Found at i:33642035 original size:19 final size:19
Alignment explanation
Indices: 33642013--33642049 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33642003 ATGAGGGAAT
* *
33642013 TGAGAGATATTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
33642032 TGAGAGAGAGTTGAGATT
1 TGAGAGAGAGTTGAGATT
33642050 AAATTAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (19 bp):
TGAGAGAGAGTTGAGATTG
Found at i:33646638 original size:18 final size:18
Alignment explanation
Indices: 33646615--33646650 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33646605 TTCTCGGGAG
33646615 ATAGTCGATTATCAACTC
1 ATAGTCGATTATCAACTC
**
33646633 ATAGTCTTTTATCAACTC
1 ATAGTCGATTATCAACTC
33646651 TAATCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAGTCGATTATCAACTC
Found at i:33648686 original size:40 final size:40
Alignment explanation
Indices: 33648639--33648842 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
33648629 CGGGCTTTAA
** *
33648639 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
33648679 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33648719 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33648759 CCGGATATAGTAACTTGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33648799 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
33648839 CCGG
1 CCGG
33648843 TTATCATCTG
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 143 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33673054 original size:20 final size:20
Alignment explanation
Indices: 33673029--33673067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33673019 CGTAAAATGA
*
33673029 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33673049 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
33673068 AGGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33673058 original size:34 final size:35
Alignment explanation
Indices: 33673014--33673080 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
33673004 CAGTAAAATA
* *
33673014 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
*
33673048 TTTTCTGTAAAATGATTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
33673081 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:33674454 original size:27 final size:27
Alignment explanation
Indices: 33674424--33674493 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
33674414 AATAATCAAT
*
33674424 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
33674451 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
33674479 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
33674494 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:33677390 original size:27 final size:27
Alignment explanation
Indices: 33677359--33677536 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
33677349 TAAATTGTAC
*
33677359 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
33677386 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
33677412 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
33677440 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
33677468 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
33677495 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
33677522 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33677537 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:33677475 original size:82 final size:81
Alignment explanation
Indices: 33677360--33677515 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
33677350 AAATTGTACA
* * * *
33677360 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33677424 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33677441 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33677506 TGCGAGTTGA
65 TGCGAATTGA
33677516 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33677527 original size:82 final size:81
Alignment explanation
Indices: 33677356--33677536 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
33677346 GATTAAATTG
* * * *
33677356 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33677421 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33677437 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33677501 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33677519 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33677537 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33685433 original size:27 final size:27
Alignment explanation
Indices: 33685402--33685579 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33685392 TAAATTGTAC
*
33685402 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33685429 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33685455 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
33685483 GGCACTAAGAGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
33685511 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33685538 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33685565 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33685580 GACTCGATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33685516 original size:82 final size:81
Alignment explanation
Indices: 33685403--33685558 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33685393 AAATTGTACA
* *
33685403 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGAGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
33685467 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33685484 GCACTAAGAGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGAGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
33685549 TGCGAGTTGA
65 TGCGAATTGA
33685559 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGAGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33694309 original size:14 final size:14
Alignment explanation
Indices: 33694290--33694351 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
33694280 GGTAGGCAAC
*
33694290 TTTTTTTTGCGGTT
1 TTTTTTTTGCGATT
*
33694304 TTTTTTTTGCGCTT
1 TTTTTTTTGCGATT
*
33694318 TTTGCTTTTT-C-TTT
1 TTT--TTTTTGCGATT
*
33694332 TTTTTTTTGCTATT
1 TTTTTTTTGCGATT
33694346 TTTTTT
1 TTTTTT
33694352 AGCTTCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.12
13 1 0.02
14 29 0.71
15 1 0.02
16 5 0.12
ACGTcount: A:0.02, C:0.10, G:0.11, T:0.77
Consensus pattern (14 bp):
TTTTTTTTGCGATT
Found at i:33695734 original size:72 final size:71
Alignment explanation
Indices: 33695652--33695790 Score: 167
Period size: 72 Copynumber: 1.9 Consensus size: 71
33695642 CTTTCCCCCC
* * * **
33695652 AAAAATTTTACTTTCC-CTCAAA-CCACACAACTTTTTTTCCTTTTATTTTTCCCCCAAAAC-TT
1 AAAAAATTTAC-TTCCTCCCAAACCCACAAAACTTTTTTT-C-TTT-TGCTTCCCCCAAAACTTT
33695714 TACTTCTCTT
62 TACTTCTCTT
*
33695724 AAAAAATTTACTTCCTCCCAAACCCTCAAAACTTTTTTTCTTTTGCTTCCCCCAAAACTTTTACT
1 AAAAAATTTACTTCCTCCCAAACCCACAAAACTTTTTTTCTTTTGCTTCCCCCAAAACTTTTACT
33695789 TC
66 TC
33695791 CTCCTAAACC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
70 13 0.22
71 15 0.26
72 16 0.28
73 14 0.24
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.42
Consensus pattern (71 bp):
AAAAAATTTACTTCCTCCCAAACCCACAAAACTTTTTTTCTTTTGCTTCCCCCAAAACTTTTACT
TCTCTT
Found at i:33696830 original size:21 final size:21
Alignment explanation
Indices: 33696806--33696864 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
33696796 TGTCAATTTT
*
33696806 CACATGGGCGTGTGCCTTGGA
1 CACACGGGCGTGTGCCTTGGA
* * * *
33696827 CACACGGCCGTGTTCCTTTGC
1 CACACGGGCGTGTGCCTTGGA
*
33696848 CACACGGGTGTGTGCCT
1 CACACGGGCGTGTGCCT
33696865 CTTTTCACCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.31, G:0.32, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTTGGA
Found at i:33707373 original size:266 final size:265
Alignment explanation
Indices: 33706840--33707633 Score: 1471
Period size: 265 Copynumber: 3.0 Consensus size: 265
33706830 CACAGTGCTC
* * * *
33706840 TTTGCTCCCTTCCGGTCATTCTCCTCTAGTTGGTGGTGTATTTCAACAAAGTTTTTTTTTGTGTG
1 TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGTATTTCAGCTAAGTTTTTTTTTGTGTG
*
33706905 GGATCTCTTTTGTGTTTTTATGAGTGGTTTTTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGG
66 GGATCTCTTTTGTGTTTTTATGAGTGGTTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTT-GG
*
33706970 TATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCAC
130 TATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCC
33707035 TCATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTT
195 TCATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTT
33707100 GTTTTT
260 GTTTTT
33707106 TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGTATTTCAGCTAAGTTTTTTTTTGTGTG
1 TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGTATTTCAGCTAAGTTTTTTTTTGTGTG
33707171 GGATCTCTTTTGTGTTTTTATGAGTGGTTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGT
66 GGATCTCTTTTGTGTTTTTATGAGTGGTTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGT
*
33707236 ATTAGTTAATTTTTTCCGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCCT
131 ATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCCT
33707301 CATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTTG
196 CATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTTG
33707366 TTTTT
261 TTTTT
* * *
33707371 TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGCATTTCGGCTACGTTTTTTTTTGTGTG
1 TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGTATTTCAGCTAAGTTTTTTTTTGTGTG
* *
33707436 GGATCTCTTTTGGGTTTTTATGAGTGGGTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGT
66 GGATCTCTTTTGTGTTTTTATGAGTGGTTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGT
33707501 ATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCCT
131 ATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCCT
33707566 CATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTTG
196 CATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTTG
33707631 TTT
261 TTT
33707634 ATCAAGGCTC
Statistics
Matches: 515, Mismatches: 13, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
265 393 0.76
266 122 0.24
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.44
Consensus pattern (265 bp):
TTTGCTCCCTTCCAGTCATTCTCCTCTAATTGGTGGTGTATTTCAGCTAAGTTTTTTTTTGTGTG
GGATCTCTTTTGTGTTTTTATGAGTGGTTTCTGTTATAATTTTTCCAAGCAGATTTTTTTTTGGT
ATTAGTTAATTTTTTCAGCATTATGTTGAAAGACAAGAAGCTTGTGATTCCAACCAATAATCCCT
CATTGCAAATTAGTCCTGTTAAGCTTGATGGACATAATTACCTTGCTTGGTCAAGGTCCTACTTG
TTTTT
Found at i:33708662 original size:52 final size:49
Alignment explanation
Indices: 33708582--33708679 Score: 142
Period size: 52 Copynumber: 1.9 Consensus size: 49
33708572 CAAAAGTTTA
*
33708582 TTTAACTATACTAGTCCATCTAAAAATAGTGTATGAATAGACATATCAC
1 TTTAACTATACTAGTCCATCTAAAAATAGTGTACGAATAGACATATCAC
* *
33708631 TTTAACTATACTACTTGTTCATCTAAAAATAGTGTGCGAATAGACATAT
1 TTTAACTATACTA---GTCCATCTAAAAATAGTGTACGAATAGACATAT
33708680 GACAGGGTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 13 0.30
52 30 0.70
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (49 bp):
TTTAACTATACTAGTCCATCTAAAAATAGTGTACGAATAGACATATCAC
Found at i:33710347 original size:37 final size:37
Alignment explanation
Indices: 33710305--33710383 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
33710295 TTATTACGAA
* *
33710305 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
* *
33710342 GTCTTACCCGGATAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
33710379 GTCTT
1 GTCTT
33710384 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:33710573 original size:47 final size:47
Alignment explanation
Indices: 33710504--33710615 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 47
33710494 CTTCGGGACT
* * * * *
33710504 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * *
33710551 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
33710598 TATCACATATATACACTT
1 TATCACATATATACACTT
33710616 CCTTGGCTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:33718851 original size:13 final size:13
Alignment explanation
Indices: 33718830--33718906 Score: 66
Period size: 13 Copynumber: 5.9 Consensus size: 13
33718820 AGTTTTTAGT
33718830 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
33718843 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
33718856 TG-TTGTGAAAAAG
1 TGCTTTTG-AAAAG
* *
33718869 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
33718882 TGCTTTTGAGAGG
1 TGCTTTTGAAAAG
*
33718895 TGCTTTTTAAAA
1 TGCTTTTGAAAA
33718907 TTTTGAGTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 4 0.08
13 42 0.84
14 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:33718900 original size:26 final size:26
Alignment explanation
Indices: 33718830--33718901 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
33718820 AGTTTTTAGT
*
33718830 TGCTTTTGAAAAGTGTTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
* *
33718856 TG-TTGTGAAAAAGTACTTTTGAGAAG
1 TGCTTTTG-AAAAGTGCTTTTGAGAAG
* *
33718882 TGCTTTTGAGAGGTGCTTTT
1 TGCTTTTGAAAAGTGCTTTT
33718902 TAAAATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.11
26 29 0.78
27 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.42
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTTTTGAGAAG
Found at i:33721039 original size:72 final size:72
Alignment explanation
Indices: 33720948--33721121 Score: 201
Period size: 71 Copynumber: 2.4 Consensus size: 72
33720938 AAAATCACAT
** * * *
33720948 ATAAACAACTATCGATAAAACTAATTTAGTA-AAAAATAAGTAAAATATAAATTCAATATCTAAA
1 ATAAACAACTATTAATAAAACTAATTTAGCACAAAAATAAGTAAAACAT-AATTCAATATCCAAA
*
33721012 GACCAAAC
65 AACCAAAC
* * *
33721020 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAATTCAATATCCAAA
1 ATAAACAACTATTAATAAAACTA-ATTTAGCACAAAAATAAGTAAAACATAATTCAATATCCAAA
33721083 AACCAAAC
65 AACCAAAC
* * *
33721091 ATAAATAACTGTTAATAAAACTAGTTTAGCA
1 ATAAACAACTATTAATAAAACTAATTTAGCA
33721122 TTGTTGTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
71 46 0.53
72 39 0.45
73 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACTAATTTAGCACAAAAATAAGTAAAACATAATTCAATATCCAAAA
ACCAAAC
Found at i:33721106 original size:71 final size:72
Alignment explanation
Indices: 33720981--33721114 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 72
33720971 ATTTAGTAAA
* * * *
33720981 AAATAAGTAAAATATAAATTCAATATCTAAAGACCAAACATAAACAACTTTTAATAAAACTAGAT
1 AAATAAGTAAAACATAAATTCAATATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
33721046 TACACAT
66 TACACAT
* *
33721053 AAATAAGTAGAACAT-AATTCAATATCCAAAAACCAAACATAAATAACTGTTAATAAAACTAG
1 AAATAAGTAAAACATAAATTCAATATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAG
33721115 TTTAGCATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
71 43 0.77
72 13 0.23
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (72 bp):
AAATAAGTAAAACATAAATTCAATATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
TACACAT
Found at i:33721564 original size:18 final size:18
Alignment explanation
Indices: 33721543--33721608 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
33721533 TCCATCAATT
33721543 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
* *
33721561 TGAACATCACTTGAAATC
1 TGAACATCATTTGAAATG
33721579 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
33721597 TGAACATCATTT
1 TGAACATCATTT
33721609 TTCATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:33722942 original size:23 final size:23
Alignment explanation
Indices: 33722916--33722987 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 23
33722906 ACGCCTCCTC
33722916 CTTTTATCAATTGCTATCTTCTT
1 CTTTTATCAATTGCTATCTTCTT
* * **
33722939 CTTTT-TC-ATT-TTTTCCCCTT
1 CTTTTATCAATTGCTATCTTCTT
*
33722959 CTTTTACCTAATTGCTATCTTCTT
1 CTTTTATC-AATTGCTATCTTCTT
33722983 CTTTT
1 CTTTT
33722988 TCTTTTTGTC
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
22 2 0.06
23 8 0.22
24 11 0.31
ACGTcount: A:0.12, C:0.25, G:0.03, T:0.60
Consensus pattern (23 bp):
CTTTTATCAATTGCTATCTTCTT
Found at i:33722978 original size:44 final size:44
Alignment explanation
Indices: 33722916--33723102 Score: 306
Period size: 44 Copynumber: 4.2 Consensus size: 44
33722906 ACGCCTCCTC
*
33722916 CTTTTATC-AATTGCTATCTTCTTCTTTTTCATTTTT-TCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTC-TTTTTGTCCCCTT
33722959 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
*
33723003 CTTTTACCTAATTGCTATTTTCTTCTTTTTCTTTTTGTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
**
33723047 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTATTTCCCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTT-TTTGTCCCCTT
33723092 CTTTTACCTAA
1 CTTTTACCTAA
33723103 ATCAGATTGC
Statistics
Matches: 136, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
43 12 0.09
44 104 0.76
45 20 0.15
ACGTcount: A:0.11, C:0.27, G:0.03, T:0.58
Consensus pattern (44 bp):
CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
Found at i:33722985 original size:24 final size:24
Alignment explanation
Indices: 33722956--33723075 Score: 85
Period size: 24 Copynumber: 5.3 Consensus size: 24
33722946 ATTTTTTCCC
33722956 CTTCTTTTACCTAATTGCTATCTT
1 CTTCTTTTACCTAATTGCTATCTT
* * * **
33722980 CTTCTTTT-TCT--TT-TTGTCCC
1 CTTCTTTTACCTAATTGCTATCTT
*
33723000 CTTCTTTTACCTAATTGCTATTTT
1 CTTCTTTTACCTAATTGCTATCTT
* * * **
33723024 CTTCTTTT-TCT--TT-TTGTCCC
1 CTTCTTTTACCTAATTGCTATCTT
33723044 CTTCTTTTACCTAATTGCTATCTT
1 CTTCTTTTACCTAATTGCTATCTT
33723068 CTTCTTTT
1 CTTCTTTT
33723076 TCTTATTTCC
Statistics
Matches: 66, Mismatches: 22, Indels: 16
0.63 0.21 0.15
Matches are distributed among these distances:
20 21 0.32
21 8 0.12
23 8 0.12
24 29 0.44
ACGTcount: A:0.10, C:0.26, G:0.04, T:0.60
Consensus pattern (24 bp):
CTTCTTTTACCTAATTGCTATCTT
Found at i:33724446 original size:19 final size:19
Alignment explanation
Indices: 33724408--33724446 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33724398 GTGGTGGAGA
*
33724408 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
*
33724427 AGAGGAACAAAGAACTAGC
1 AGAGGAACAAAGAACCAGC
33724446 A
1 A
33724447 CCAGTAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:33724551 original size:19 final size:19
Alignment explanation
Indices: 33724523--33724564 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
33724513 GAACCAGCAC
33724523 CAGCAAAGGATCAAAGAAG
1 CAGCAAAGGATCAAAGAAG
*
33724542 CAGCAGAGGATCAAAGAAG
1 CAGCAAAGGATCAAAGAAG
33724561 CAGC
1 CAGC
33724565 GATGAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.19, G:0.29, T:0.05
Consensus pattern (19 bp):
CAGCAAAGGATCAAAGAAG
Found at i:33724758 original size:30 final size:30
Alignment explanation
Indices: 33724724--33724785 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
33724714 TTTCACCCAA
*
33724724 AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
1 AAAGCACTTTTAGGTGTAAAAGTGCTTTTC
33724754 AAAGCACTTTTAGGTGTAAAAGTGCTTTTC
1 AAAGCACTTTTAGGTGTAAAAGTGCTTTTC
33724784 AA
1 AA
33724786 CTGGGGCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (30 bp):
AAAGCACTTTTAGGTGTAAAAGTGCTTTTC
Found at i:33724817 original size:42 final size:42
Alignment explanation
Indices: 33724770--33724855 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
33724760 CTTTTAGGTG
33724770 TAAAAGTGCTTTTCAACTGGGGCAAAGAACTGGCCCTAAGTC
1 TAAAAGTGCTTTTCAACTGGGGCAAAGAACTGGCCCTAAGTC
*
33724812 TAAAAGTGCTTTTCAACTGGGGCAAAGAATTGGCCCTAAGTC
1 TAAAAGTGCTTTTCAACTGGGGCAAAGAACTGGCCCTAAGTC
33724854 TA
1 TA
33724856 GCAGGCTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
TAAAAGTGCTTTTCAACTGGGGCAAAGAACTGGCCCTAAGTC
Found at i:33726755 original size:29 final size:28
Alignment explanation
Indices: 33726707--33726766 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
33726697 TGTATCCTGG
33726707 TAAATATAAAAAAAACAACATACTTATT
1 TAAATATAAAAAAAACAACATACTTATT
* *
33726735 TAAATATTAAAAAAAACAACATATTTCTT
1 TAAATA-TAAAAAAAACAACATACTTATT
33726764 TAA
1 TAA
33726767 TTCCACTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAATATAAAAAAAACAACATACTTATT
Found at i:33728509 original size:23 final size:23
Alignment explanation
Indices: 33728482--33728551 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
33728472 CGCAGCACAC
*
33728482 AAAAGAACAAAAAAGGAAGAAAA
1 AAAAGAAGAAAAAAGGAAGAAAA
* * *
33728505 GAAAGGAGAAAAAATAGAA-AAAA
1 AAAAGAAGAAAAAA-GGAAGAAAA
*
33728528 AAAAGAAGAAAAAAGAACAGAAAA
1 AAAAGAAGAAAAAAGGA-AGAAAA
33728552 TAGGACGATG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.78
24 7 0.19
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.01
Consensus pattern (23 bp):
AAAAGAAGAAAAAAGGAAGAAAA
Found at i:33728550 original size:35 final size:35
Alignment explanation
Indices: 33728485--33728551 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
33728475 AGCACACAAA
* * **
33728485 AGAACAAAAAAGGAAGAAAAGAAAGGAGAAAAAAT
1 AGAAAAAAAAAAGAAGAAAAGAAAACAGAAAAAAT
33728520 AGAAAAAAAAAAGAAGAAAA-AAGAACAGAAAA
1 AGAAAAAAAAAAGAAGAAAAGAA-AACAGAAAA
33728552 TAGGACGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 25 0.93
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.01
Consensus pattern (35 bp):
AGAAAAAAAAAAGAAGAAAAGAAAACAGAAAAAAT
Found at i:33729083 original size:18 final size:18
Alignment explanation
Indices: 33729060--33729097 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33729050 TTTGAAAAAG
33729060 AAGAAAAAATAAAATTTC
1 AAGAAAAAATAAAATTTC
**
33729078 AAGAAAAAATTTAATTTC
1 AAGAAAAAATAAAATTTC
33729096 AA
1 AA
33729098 TAATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAGAAAAAATAAAATTTC
Found at i:33733204 original size:13 final size:13
Alignment explanation
Indices: 33733186--33733211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33733176 ACCCCAAATG
33733186 GCACAATGCGAAT
1 GCACAATGCGAAT
33733199 GCACAATGCGAAT
1 GCACAATGCGAAT
33733212 ATCATGCGGG
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:0.23, T:0.15
Consensus pattern (13 bp):
GCACAATGCGAAT
Found at i:33734368 original size:35 final size:36
Alignment explanation
Indices: 33734307--33734385 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 36
33734297 GGGTTCAGAT
33734307 TCAAAAAAAAAAGAGAGAAAAAAATCAAAATCAAAG
1 TCAAAAAAAAAAGAGAGAAAAAAATCAAAATCAAAG
*
33734343 TCAAAACAAAAAA-A-AGAAAAAAATCAAAGTCAAA-
1 TCAAAA-AAAAAAGAGAGAAAAAAATCAAAATCAAAG
*
33734377 ACAAAAAAA
1 TCAAAAAAA
33734386 GAGAAATCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 3 0.08
34 5 0.12
35 19 0.47
36 7 0.17
37 6 0.15
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.08
Consensus pattern (36 bp):
TCAAAAAAAAAAGAGAGAAAAAAATCAAAATCAAAG
Found at i:33734391 original size:30 final size:29
Alignment explanation
Indices: 33734333--33734423 Score: 119
Period size: 30 Copynumber: 3.1 Consensus size: 29
33734323 GAAAAAAATC
33734333 AAAATCAAAGTCAAAACAAAAAAAAGAAA
1 AAAATCAAAGTCAAAACAAAAAAAAGAAA
33734362 AAAATCAAAGTCAAAACAAAAAAAGAGAAA
1 AAAATCAAAGTCAAAACAAAAAAA-AGAAA
** * * *
33734392 TCAATTAAAGTCAAAATAAAAAATATGAAA
1 AAAATCAAAGTCAAAACAAAAAA-AAGAAA
33734422 AA
1 AA
33734424 GAGAAAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 24 0.45
30 28 0.53
31 1 0.02
ACGTcount: A:0.71, C:0.09, G:0.08, T:0.12
Consensus pattern (29 bp):
AAAATCAAAGTCAAAACAAAAAAAAGAAA
Found at i:33736685 original size:87 final size:87
Alignment explanation
Indices: 33736530--33736874 Score: 448
Period size: 87 Copynumber: 4.0 Consensus size: 87
33736520 GTGAAGATAA
*
33736530 AAAATAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* *
33736595 GCATTGACAGCGAAGCAGATCG
66 GCATTAACAGTGAAGCAGATCG
* * ** * * *
33736617 AAAACAAAGCCTTTCCTCCATTGGTTGTAGTAGAGCTGGTTAAAGATAGCAGATTTTGCCTTCTT
1 AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
*
33736682 GCATTAACAGTGAAGTAGATCG
66 GCATTAACAGTGAAGCAGATCG
*
33736704 AAAACAAA-----GCCTCCATCGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* *
33736764 GCGTTAACAGTGAAACAGATCG
66 GCATTAACAGTGAAGCAGATCG
* * * * *
33736786 AAAACAAAGTCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGCCCTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* ** *
33736851 GCGTCGACAATGAAGCAGATCG
66 GCATTAACAGTGAAGCAGATCG
33736873 AA
1 AA
33736875 GATTACAAGT
Statistics
Matches: 222, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
82 71 0.32
87 151 0.68
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
GCATTAACAGTGAAGCAGATCG
Found at i:33736873 original size:169 final size:169
Alignment explanation
Indices: 33736543--33736874 Score: 484
Period size: 169 Copynumber: 2.0 Consensus size: 169
33736533 ATAAAGCCTT
*
33736543 GCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGA
1 GCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGA
* * * * *
33736608 AGCAGATCGAAAACAAAGCCTTTCCTCCATTGGTTGTAGTAGAGCTGGTTAAAGATAGCAGATTT
66 AACAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAGATCT
* * * * *
33736673 TGCCTTCTTGCATTAACAGTGAAGTAGATCGAAAACAAA
131 TGCCCTCCTGCATCAACAATGAAGCAGATCGAAAACAAA
* * *
33736712 GCCTCCATCGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGA
1 GCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGA
* * * *
33736777 AACAGATCGAAAACAAAGTCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCT
66 AACAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAGATCT
* *
33736842 TGCCCTCCTGCGTCGACAATGAAGCAGATCGAA
131 TGCCCTCCTGCATCAACAATGAAGCAGATCGAA
33736875 GATTACAAGT
Statistics
Matches: 143, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
169 143 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (169 bp):
GCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGA
AACAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAGATCT
TGCCCTCCTGCATCAACAATGAAGCAGATCGAAAACAAA
Found at i:33737331 original size:50 final size:50
Alignment explanation
Indices: 33737272--33737435 Score: 159
Period size: 50 Copynumber: 3.3 Consensus size: 50
33737262 GTAGTGGAAC
* * * *
33737272 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCCTCCCAGACATTGCAGTTAAAA
* * * * * * ** *
33737322 AGATTAAAGCTACAAT-AGCGAATTTTACCTCCCAGGCAATGCAGTGGAAT
1 AGATTAAAGCCAC-ATCAGTGAATCTTGCCTCCCAGACATTGCAGTTAAAA
* * * *
33737372 AGATTAAAGCCAAAACAGTGAATCTTGCCTCCCTGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCCTCCCAGACATTGCAGTTAAAA
33737422 AGATTAAAGCCACA
1 AGATTAAAGCCACA
33737436 ATGGCGACTC
Statistics
Matches: 85, Mismatches: 27, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
49 1 0.01
50 82 0.96
51 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCAGTGAATCTTGCCTCCCAGACATTGCAGTTAAAA
Found at i:33738020 original size:23 final size:23
Alignment explanation
Indices: 33737994--33738042 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
33737984 GCAGCACACA
33737994 AAAGAACAAAAAAAG-AAGAAAAG
1 AAAGAACAAAAAAAGCAA-AAAAG
* * *
33738017 AAAGGAGAAAAATAGCAAAAAAG
1 AAAGAACAAAAAAAGCAAAAAAG
33738040 AAA
1 AAA
33738043 AAAGAACAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAGAACAAAAAAAGCAAAAAAG
Found at i:33745766 original size:50 final size:50
Alignment explanation
Indices: 33745668--33745799 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
33745658 TATTGAGGTT
* * * * *
33745668 ATGAGAGGTCCCACGTAAGACCATTTCTGAGACATGGCGTTGGTACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATAGGCACCGAG
* * * * *
33745718 ATTAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGTATAGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATAGGCACCGAG
** *
33745768 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGA
33745800 TACGTCATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATAGGCACCGAG
Found at i:33748434 original size:23 final size:19
Alignment explanation
Indices: 33748411--33748449 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
33748401 TAACCTATAA
33748411 AAATTAATAATAATATTAATT
1 AAATT-ATAAT-ATATTAATT
33748432 AAATTATAATATATTAAT
1 AAATTATAATATATTAAT
33748450 ACTCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTATAATATATTAATT
Found at i:33750095 original size:26 final size:26
Alignment explanation
Indices: 33750059--33750117 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
33750049 ATGAATTTTC
* * *
33750059 TCAAAAATTTAACGTGGTTAAAATCA
1 TCAAAATTTTAACGAGGGTAAAATCA
* *
33750085 TCAAAATTTTACCGAGGGTAAAATCG
1 TCAAAATTTTAACGAGGGTAAAATCA
33750111 TCAAAAT
1 TCAAAAT
33750118 ATTACCTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (26 bp):
TCAAAATTTTAACGAGGGTAAAATCA
Found at i:33750122 original size:26 final size:26
Alignment explanation
Indices: 33750077--33750134 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
33750067 TTAACGTGGT
*
33750077 TAAAATCATCAAAATTTTACCGAGGG
1 TAAAATCATCAAAATATTACCGAGGG
* * *
33750103 TAAAATCGTCAAAATATTACCTAGTG
1 TAAAATCATCAAAATATTACCGAGGG
33750129 TAAAAT
1 TAAAAT
33750135 TGGAGTGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (26 bp):
TAAAATCATCAAAATATTACCGAGGG
Found at i:33754235 original size:14 final size:14
Alignment explanation
Indices: 33754216--33754244 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33754206 TACATTTTGA
33754216 TGGAGTCATATGTT
1 TGGAGTCATATGTT
33754230 TGGAGTCATATGTT
1 TGGAGTCATATGTT
33754244 T
1 T
33754245 AACTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.45
Consensus pattern (14 bp):
TGGAGTCATATGTT
Found at i:33756089 original size:40 final size:40
Alignment explanation
Indices: 33756045--33756124 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
33756035 GACTTTATAA
* * *
33756045 CTTTTATCAACCTCTTTAGCTTCAATTTCGATACTAAAAC
1 CTTTTATCAACCTCCTTAGCTACAATTTCAATACTAAAAC
*
33756085 CTTTTGTCAACCTCCTTAGCTACAATTTCAATACTAAAAC
1 CTTTTATCAACCTCCTTAGCTACAATTTCAATACTAAAAC
33756125 AAAAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (40 bp):
CTTTTATCAACCTCCTTAGCTACAATTTCAATACTAAAAC
Found at i:33759144 original size:37 final size:37
Alignment explanation
Indices: 33759088--33759196 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 37
33759078 TGTACACAAG
* *
33759088 TAATCCAACC-AAAACATGCCAAGTGCTCCA-AAGAGA
1 TAATCCAACCGATAACATGCCAAATGCT-CAGAAGAGA
** *
33759124 TAATCCAATTGATAACATGCCAAATGCTCAGAAGAGT
1 TAATCCAACCGATAACATGCCAAATGCTCAGAAGAGA
* * *
33759161 TAATCCAACCGATAACACGCCAAATGTTCCGAAGAG
1 TAATCCAACCGATAACATGCCAAATGCTCAGAAGAG
33759197 CTATACATCT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
36 10 0.16
37 51 0.84
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCCAAATGCTCAGAAGAGA
Found at i:33768443 original size:20 final size:19
Alignment explanation
Indices: 33768382--33768441 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
33768372 GTCTCTCTCA
33768382 ATAAAAATTTCAAAATAATTT
1 ATAAAAA-TTCAAAAT-ATTT
*
33768403 -TTAAAATTCAAAATATTT
1 ATAAAAATTCAAAATATTT
*
33768421 ATAAAAATTCCAAA-ATTT
1 ATAAAAATTCAAAATATTT
33768439 ATA
1 ATA
33768442 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 11 0.31
19 19 0.54
20 5 0.14
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATTCAAAATATTT
Found at i:33768446 original size:26 final size:26
Alignment explanation
Indices: 33768415--33768464 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33768405 AAAATTCAAA
33768415 ATATTTATAAAAATTCCAAAATTTAT
1 ATATTTATAAAAATTCCAAAATTTAT
* **
33768441 ATATTTTTAAAAATTTTAAAATTT
1 ATATTTATAAAAATTCCAAAATTT
33768465 TTTTGCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATTTATAAAAATTCCAAAATTTAT
Found at i:33769980 original size:9 final size:9
Alignment explanation
Indices: 33769963--33770005 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
33769953 TTTTTCTAAA
*
33769963 CTCTTAACT
1 CTCTCAACT
33769972 CTCTCAACT
1 CTCTCAACT
*
33769981 CTCTCAATT
1 CTCTCAACT
*
33769990 CTCTCAATT
1 CTCTCAACT
33769999 CTCTCAA
1 CTCTCAA
33770006 GTTTTGTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (9 bp):
CTCTCAACT
Found at i:33770237 original size:9 final size:9
Alignment explanation
Indices: 33770223--33770250 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33770213 TTTATTTTTG
33770223 TAAATATTT
1 TAAATATTT
33770232 TAAATATTT
1 TAAATATTT
33770241 TAAATATTT
1 TAAATATTT
33770250 T
1 T
33770251 TTGTCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TAAATATTT
Found at i:33785927 original size:7 final size:7
Alignment explanation
Indices: 33785909--33785951 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
33785899 TTTCAGGTCA
33785909 TTTTCA-
1 TTTTCAT
33785915 TTTTCAT
1 TTTTCAT
33785922 TTTTCAT
1 TTTTCAT
33785929 TTTTCAT
1 TTTTCAT
33785936 TTTTCA-
1 TTTTCAT
33785942 TTTTCAT
1 TTTTCAT
33785949 TTT
1 TTT
33785952 GGAGAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.34
7 23 0.66
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:33785927 original size:13 final size:13
Alignment explanation
Indices: 33785909--33785951 Score: 77
Period size: 13 Copynumber: 3.2 Consensus size: 13
33785899 TTTCAGGTCA
33785909 TTTTCATTTTCAT
1 TTTTCATTTTCAT
33785922 TTTTCATTTTTCAT
1 TTTTCA-TTTTCAT
33785936 TTTTCATTTTCAT
1 TTTTCATTTTCAT
33785949 TTT
1 TTT
33785952 GGAGAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTCAT
Found at i:33785999 original size:57 final size:58
Alignment explanation
Indices: 33785936--33786053 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 58
33785926 CATTTTTCAT
* ** * **
33785936 TTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATTA-TCTTATTTCTCCA
1 TTTTCATTTTAATTTTCAAGAAAACCACAATCATTTCCAAAAGATTCTTATTTCTCCA
** *
33785993 TTTTCATTTTAATTTTCAAGAAAACCTTAATCATTTCCAAAAGATTCTTATTTTTCCA
1 TTTTCATTTTAATTTTCAAGAAAACCACAATCATTTCCAAAAGATTCTTATTTCTCCA
33786051 TTT
1 TTT
33786054 CACCATTTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 36 0.71
58 15 0.29
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (58 bp):
TTTTCATTTTAATTTTCAAGAAAACCACAATCATTTCCAAAAGATTCTTATTTCTCCA
Found at i:33788938 original size:57 final size:58
Alignment explanation
Indices: 33788847--33788964 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 58
33788837 CATTTTTTCT
*
33788847 TTTTCATTTTCATTTTGGAGAAAACTACATTCATTTCCAAATGATTT-C-ATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACTACATTCATTTCAAAATG-TTTCCTATTTCTCCA
**
33788904 TTTTCATTTTCATTTTGGAGAAAACCTTTA-TCATTTCAAAATGTTTCCTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAA-CTACATTCATTTCAAAATGTTTCCTATTTCTCCA
33788962 TTT
1 TTT
33788965 CACCGTTTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
56 3 0.05
57 37 0.67
58 15 0.27
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (58 bp):
TTTTCATTTTCATTTTGGAGAAAACTACATTCATTTCAAAATGTTTCCTATTTCTCCA
Found at i:33797413 original size:27 final size:27
Alignment explanation
Indices: 33797383--33797560 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33797373 ATATTGAGTC
* * * *
33797383 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33797410 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
33797437 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
33797465 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33797492 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33797519 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33797546 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33797561 GTAAAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33797522 original size:82 final size:81
Alignment explanation
Indices: 33797404--33797559 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33797394 TGCTATATAA
* * *
33797404 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
33797469 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33797486 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33797550 CACTTAGTGC
65 CACTTAGTGC
33797560 TGTAAAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33804648 original size:16 final size:16
Alignment explanation
Indices: 33804627--33804664 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
33804617 TACAAAATCA
33804627 ATCAAATATTCATACT
1 ATCAAATATTCATACT
33804643 ATCAAATATTCATACT
1 ATCAAATATTCATACT
33804659 ATCAAA
1 ATCAAA
33804665 CTAGCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (16 bp):
ATCAAATATTCATACT
Found at i:33816111 original size:15 final size:16
Alignment explanation
Indices: 33816091--33816125 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
33816081 AAGCAATTAC
33816091 GACATG-AAAATATAT
1 GACATGAAAAATATAT
33816106 GACATGAAAAAATATAT
1 GACATG-AAAAATATAT
33816123 GAC
1 GAC
33816126 CATGTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.23
Consensus pattern (16 bp):
GACATGAAAAATATAT
Found at i:33820680 original size:16 final size:16
Alignment explanation
Indices: 33820659--33820690 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33820649 AAAATCAGAG
33820659 TTCAATTCAAAACAAC
1 TTCAATTCAAAACAAC
33820675 TTCAATTCAAAACAAC
1 TTCAATTCAAAACAAC
33820691 GAAGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
TTCAATTCAAAACAAC
Found at i:33822209 original size:13 final size:13
Alignment explanation
Indices: 33822193--33822258 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
33822183 TTTAAACCAA
*
33822193 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
33822206 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
* *
33822219 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
33822232 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
33822245 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
33822258 A
1 A
33822259 ATGAAGAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:33826712 original size:5 final size:6
Alignment explanation
Indices: 33826696--33826720 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33826686 GAATGTCGTG
33826696 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
33826721 CAAATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:33827151 original size:21 final size:21
Alignment explanation
Indices: 33827118--33827157 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33827108 TATAGTTTCT
*
33827118 AAAATAATAAAAAAATTTATG
1 AAAAAAATAAAAAAATTTATG
* *
33827139 AAAAAAATTAAAATATTTA
1 AAAAAAATAAAAAAATTTA
33827158 AAACTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAAAAATAAAAAAATTTATG
Found at i:33827429 original size:15 final size:15
Alignment explanation
Indices: 33827409--33827438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33827399 ATAAATTATT
33827409 AAAACATCAAAAATA
1 AAAACATCAAAAATA
*
33827424 AAAACATTAAAAATA
1 AAAACATCAAAAATA
33827439 TATAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAACATCAAAAATA
Found at i:33827918 original size:1 final size:1
Alignment explanation
Indices: 33827914--33828056 Score: 79
Period size: 1 Copynumber: 143.0 Consensus size: 1
33827904 TTTTAATATA
* * * * * * * * * *
33827914 TTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
33827979 ATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
33828044 TATTTTTATTTTT
1 TTTTTTTTTTTTT
33828057 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 46, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 96 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:33827923 original size:6 final size:6
Alignment explanation
Indices: 33827912--33828056 Score: 290
Period size: 6 Copynumber: 24.2 Consensus size: 6
33827902 ATTTTTAATA
33827912 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
33827960 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
33828008 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
33828056 T
1 T
33828057 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 139 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:33828627 original size:14 final size:15
Alignment explanation
Indices: 33828599--33828627 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33828589 TATAAAAGTG
33828599 TTATAAAATATTTAT
1 TTATAAAATATTTAT
33828614 TTATAAAA-ATTTAT
1 TTATAAAATATTTAT
33828628 ATGGAATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATAAAATATTTAT
Found at i:33834570 original size:31 final size:31
Alignment explanation
Indices: 33834500--33834573 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
33834490 GAGTTGGTAC
* * * *
33834500 AATTATACACATGAAACTTTGATTGTGGTTT
1 AATTATATACATGAAACTTTAATTGTGATTG
** *
33834531 AAAAATATACATGAAACTTTAATTTTGATTG
1 AATTATATACATGAAACTTTAATTGTGATTG
33834562 AATTATATACAT
1 AATTATATACAT
33834574 TTAAAGAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (31 bp):
AATTATATACATGAAACTTTAATTGTGATTG
Found at i:33838708 original size:15 final size:15
Alignment explanation
Indices: 33838688--33838717 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33838678 CCCAGTAGGT
33838688 GTAACTTTTTGTAAC
1 GTAACTTTTTGTAAC
33838703 GTAACTTTTTGTAAC
1 GTAACTTTTTGTAAC
33838718 ACCCCTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
GTAACTTTTTGTAAC
Found at i:33839257 original size:63 final size:63
Alignment explanation
Indices: 33839181--33839308 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
33839171 ATGGTCAAGC
*
33839181 CACAAATAACAAAACATATACATGTCACTTACCAAATGTCTATTGAGATATTTGAACCATAAT
1 CACAAATAACAAAACATATACATGTCACTTACCAAATGTCTATTGAGATATTTGAACAATAAT
*
33839244 CACAAATAACAAAACATATACATGTCACTTACCAAATGTCTATTGAGCTATTTGAACAATAAT
1 CACAAATAACAAAACATATACATGTCACTTACCAAATGTCTATTGAGATATTTGAACAATAAT
33839307 CA
1 CA
33839309 AACATACCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.28
Consensus pattern (63 bp):
CACAAATAACAAAACATATACATGTCACTTACCAAATGTCTATTGAGATATTTGAACAATAAT
Found at i:33840281 original size:42 final size:42
Alignment explanation
Indices: 33840185--33840379 Score: 202
Period size: 42 Copynumber: 4.6 Consensus size: 42
33840175 CAATGTCATA
* * * *
33840185 TCCCAGATATGGTCTTACATGCTATCATATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACG-AATCATATAACGATGCCAAT-G
33840229 --CCA-ACTATGGTCTTACACGAATC-TCATAACGATGCCAATG
1 TCCCAGAC-ATGGTCTTACACGAATCAT-ATAACGATGCCAATG
* *
33840269 TCCCAGACATGGTCTTACACGAATC-TCATATCAATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCAT-ATAACGATGCCAATG
* * *
33840311 TCCCAGACATGGTCTTACATGAATCATGTAACGATGTCAATG
1 TCCCAGACATGGTCTTACACGAATCATATAACGATGCCAATG
* *
33840353 TCCCAAACATGATCTTACACGTAATCA
1 TCCCAGACATGGTCTTACACG-AATCA
33840380 CATCAAAGTA
Statistics
Matches: 130, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
40 2 0.02
41 17 0.13
42 103 0.79
43 8 0.06
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCATATAACGATGCCAATG
Found at i:33845928 original size:78 final size:78
Alignment explanation
Indices: 33845799--33845954 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
33845789 AAATAGACTT
33845799 GGTTTAAGCCACATTTCTCACCTTTCACATGCACACCTAAAACACATCATTTTGGCATCAATTTC
1 GGTTTAAGCCACATTTCTCACCTTTCACATGCACACCTAAAACACATCATTTTGGCATCAATTTC
33845864 ACATCTAATAAGC
66 ACATCTAATAAGC
33845877 GGTTTAAGCCACATTTCTCACCTTTCACATGCACACCTAAAACACATCATTTTGGCATCAATTTC
1 GGTTTAAGCCACATTTCTCACCTTTCACATGCACACCTAAAACACATCATTTTGGCATCAATTTC
33845942 ACATCTAATAAGC
66 ACATCTAATAAGC
33845955 AACCAAAAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (78 bp):
GGTTTAAGCCACATTTCTCACCTTTCACATGCACACCTAAAACACATCATTTTGGCATCAATTTC
ACATCTAATAAGC
Found at i:33846661 original size:53 final size:53
Alignment explanation
Indices: 33846591--33846695 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
33846581 GCCTCCGAAA
33846591 CACTATAAACATAGGAAAGAAAAAAAAGTAAGCTATACAACTTAGCAAGCTCT
1 CACTATAAACATAGGAAAGAAAAAAAAGTAAGCTATACAACTTAGCAAGCTCT
*
33846644 CACTATAAACATAGGAAAGAAAAAAAAGTAAGCTATACAACTTAGTAAGCTC
1 CACTATAAACATAGGAAAGAAAAAAAAGTAAGCTATACAACTTAGCAAGCTC
33846696 GTATGATAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.19
Consensus pattern (53 bp):
CACTATAAACATAGGAAAGAAAAAAAAGTAAGCTATACAACTTAGCAAGCTCT
Found at i:33847336 original size:42 final size:42
Alignment explanation
Indices: 33847237--33847424 Score: 186
Period size: 42 Copynumber: 4.5 Consensus size: 42
33847227 CAATGTCATA
* * *
33847237 TCCCAGATATGGTCTTACATGC-TATCATATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACA--CAAATCTTATATCGATGCCAAT-G
* ** *
33847281 --CTAG-CTATGGTCTTACATGAATCTTATATCGATACCAATG
1 TCCCAGAC-ATGGTCTTACACAAATCTTATATCGATGCCAATG
*
33847321 TCCCAGACATAGTCTTACACAAATCTTATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACAAATCTTATATCGATGCCAATG
* ** * *
33847363 TCCCAGGCATGGTCTTACACAAATCACATAACGATGCCAAAG
1 TCCCAGACATGGTCTTACACAAATCTTATATCGATGCCAATG
*
33847405 TCCAAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
33847425 GTAATCACAT
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 17 0.14
42 101 0.84
43 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAATCTTATATCGATGCCAATG
Found at i:33855362 original size:14 final size:14
Alignment explanation
Indices: 33855343--33855370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33855333 CACGTGTTAA
33855343 GAAAGCTTGCCTAG
1 GAAAGCTTGCCTAG
33855357 GAAAGCTTGCCTAG
1 GAAAGCTTGCCTAG
33855371 CTAGACGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
GAAAGCTTGCCTAG
Found at i:33857090 original size:14 final size:14
Alignment explanation
Indices: 33857071--33857100 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33857061 TGGATTTGAT
33857071 GTTGGCTCTATAGG
1 GTTGGCTCTATAGG
33857085 GTTGGCTCTATAGG
1 GTTGGCTCTATAGG
33857099 GT
1 GT
33857101 GCCCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.37, T:0.37
Consensus pattern (14 bp):
GTTGGCTCTATAGG
Found at i:33860847 original size:4 final size:4
Alignment explanation
Indices: 33860838--33860863 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33860828 ATTATTATTA
33860838 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
33860864 GCTTATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:33861598 original size:40 final size:39
Alignment explanation
Indices: 33861535--33861630 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 39
33861525 AAAACATCGG
*
33861535 TAAAAATCGAGCATTAGCGGTGTTTTATGGAAATCGCCAC
1 TAAAAAT-GAGCATTAGCGGTGTTTTATGAAAATCGCCAC
* * *
33861575 TAAAGATGGAGCATTAGCGGTGTTTTTTGAAAATCGCCGC
1 TAAAAAT-GAGCATTAGCGGTGTTTTATGAAAATCGCCAC
33861615 TAAAAATGAGCATTAG
1 TAAAAATGAGCATTAG
33861631 TGACGTTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 9 0.18
40 41 0.82
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (39 bp):
TAAAAATGAGCATTAGCGGTGTTTTATGAAAATCGCCAC
Found at i:33861904 original size:23 final size:26
Alignment explanation
Indices: 33861851--33861905 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
33861841 TCTTCAGAAA
* *
33861851 AAAATAATAGCACGTAGAAATAATTT
1 AAAATAATAACACATAGAAATAATTT
*
33861877 GAAATAA-AACACATAGAAA-AA-TT
1 AAAATAATAACACATAGAAATAATTT
33861900 AAAATA
1 AAAATA
33861906 CTATTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 10 0.40
26 6 0.24
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAATAATAACACATAGAAATAATTT
Found at i:33862185 original size:8 final size:8
Alignment explanation
Indices: 33862164--33862198 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
33862154 TGGGATTTAA
33862164 GGTTTAGG
1 GGTTTAGG
33862172 GG-TTAGG
1 GGTTTAGG
33862179 GGTTTAGG
1 GGTTTAGG
*
33862187 GGTTTAGA
1 GGTTTAGG
33862195 GGTT
1 GGTT
33862199 AATGATTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (8 bp):
GGTTTAGG
Found at i:33862214 original size:22 final size:22
Alignment explanation
Indices: 33862182--33862227 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
33862172 GGTTAGGGGT
* * *
33862182 TTAGGGGTTTAGAGGTTAATGA
1 TTAGGGATTTAGGGTTTAATGA
33862204 TTAGGGATTTAGGGTTTAATGA
1 TTAGGGATTTAGGGTTTAATGA
33862226 TT
1 TT
33862228 TATGGGTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (22 bp):
TTAGGGATTTAGGGTTTAATGA
Found at i:33862297 original size:24 final size:24
Alignment explanation
Indices: 33862257--33862315 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
33862247 TTGGGTTTAG
* *
33862257 ATTAATTAT-TTTTTAATTTATAT
1 ATTAAATATATTTTTAATCTATAT
*
33862280 TTTAAATATATTTTTAATCTATAT
1 ATTAAATATATTTTTAATCTATAT
33862304 ATTAAATA-ATTT
1 ATTAAATATATTT
33862316 CACATATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTAAATATATTTTTAATCTATAT
Found at i:33862516 original size:20 final size:21
Alignment explanation
Indices: 33862491--33862531 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33862481 TTATGGCTTA
*
33862491 GTGA-TTATGGTTTAAGGGTT
1 GTGATTTAAGGTTTAAGGGTT
*
33862511 GTGATTTAAGGTTTAGGGGTT
1 GTGATTTAAGGTTTAAGGGTT
33862532 TAATGATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
GTGATTTAAGGTTTAAGGGTT
Found at i:33862837 original size:9 final size:9
Alignment explanation
Indices: 33862823--33862849 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33862813 AATCTAAACC
33862823 ATTTGATAT
1 ATTTGATAT
33862832 ATTTGATAT
1 ATTTGATAT
33862841 ATTTGATAT
1 ATTTGATAT
33862850 GGATATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
ATTTGATAT
Found at i:33864504 original size:10 final size:10
Alignment explanation
Indices: 33864489--33864519 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33864479 TCGGCCATGC
*
33864489 TTGCTTGACT
1 TTGCTTAACT
33864499 TTGCTTAACT
1 TTGCTTAACT
33864509 TTGCTTAACT
1 TTGCTTAACT
33864519 T
1 T
33864520 ACATTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (10 bp):
TTGCTTAACT
Found at i:33866608 original size:49 final size:43
Alignment explanation
Indices: 33866436--33866708 Score: 357
Period size: 43 Copynumber: 6.3 Consensus size: 43
33866426 AGTGCATGTT
* *
33866436 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
33866479 TTTAGCGGCGTTTGTGGGAAAAGCGCCGTTGAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
33866522 TTTACCGGCGTTTGTGGAAAAAGCGCCGTTGAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
33866565 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
33866608 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * ** * *
33866651 TTTAGTGGCATTTGTGAGAAAAGCGTTGCTAAAAATGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT--AAAGGTCTTGGTC
*
33866696 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
33866709 ATTTATAAAA
Statistics
Matches: 208, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 184 0.88
45 24 0.12
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:33869686 original size:61 final size:59
Alignment explanation
Indices: 33869579--33869694 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 59
33869569 ATCATTTTAA
* * *
33869579 TATTAAATTAATATAATATTTATCAAGATAAAAATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAAAATTAAATTAAATTTAATATTAAATCT
* *
33869638 TATTAAAATAATAGAATATTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATT-TAT-CAAGATAAAAATTAAATTAAATTTAATATTAA
33869695 GATAATCTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 18 0.36
60 2 0.04
61 30 0.60
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Done.