Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 55 of 425
Found at i:14965388 original size:21 final size:22
Alignment explanation
Indices: 14965364--14965411 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
14965354 GTAAGGAGTA
14965364 GCACACGGCCATGTGG-CAGAG
1 GCACACGGCCATGTGGACAGAG
* *
14965385 GCACATGTCCATGTGGTACAGAG
1 GCACACGGCCATGTGG-ACAGAG
14965408 GCAC
1 GCAC
14965412 GGCCGTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.25, C:0.27, G:0.33, T:0.15
Consensus pattern (22 bp):
GCACACGGCCATGTGGACAGAG
Found at i:14965507 original size:13 final size:13
Alignment explanation
Indices: 14965489--14965518 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14965479 CCATGTGAAT
14965489 GTGTCACACGCCC
1 GTGTCACACGCCC
14965502 GTGTCACACGCCC
1 GTGTCACACGCCC
14965515 GTGT
1 GTGT
14965519 GGCAATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.40, G:0.27, T:0.20
Consensus pattern (13 bp):
GTGTCACACGCCC
Found at i:14983266 original size:48 final size:48
Alignment explanation
Indices: 14983195--14983321 Score: 186
Period size: 48 Copynumber: 2.6 Consensus size: 48
14983185 TAAAGTACCA
* * *
14983195 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATATCATCTCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCG
14983243 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
*
14983291 ATGCCATGTACCAGACATGGTCTTACACTGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGG
14983322 AATTTACTGT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
48 70 0.96
49 1 0.01
50 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
Found at i:14987132 original size:1 final size:1
Alignment explanation
Indices: 14987126--14987191 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
14987116 CTTCTATTTC
* * * * * * * *
14987126 AAAAAAAAAAAAAAAAAAAGAAAAAAAAGAGAAAAAAAGAAAAAGAAAAAAGAGAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14987191 A
1 A
14987192 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:14987168 original size:25 final size:23
Alignment explanation
Indices: 14987132--14987191 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 23
14987122 TTTCAAAAAA
*
14987132 AAAAAAAAAAAAAGAAAAAAAAGAG
1 AAAAAAAGAAAAAG--AAAAAAGAG
14987157 AAAAAAAGAAAAAGAAAAAAGAG
1 AAAAAAAGAAAAAGAAAAAAGAG
14987180 -AAAAAAGAAAAA
1 AAAAAAAGAAAAA
14987192 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 12 0.35
23 9 0.26
25 13 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAAAAGAAAAAAGAG
Found at i:14987169 original size:32 final size:30
Alignment explanation
Indices: 14987126--14987191 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 30
14987116 CTTCTATTTC
14987126 AAAAAAAAAAAAAAAAAAAGAAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAGAAAAAAAAGA
* *
14987156 GAAAAAAAGAAAAAGAAAAAAGAGAAAAAAGA
1 -AAAAAAA-AAAAAAAAAAAAGAAAAAAAAGA
14987188 AAAA
1 AAAA
14987192 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAAAAAAAAAGAAAAAAAAGA
Found at i:14988415 original size:166 final size:164
Alignment explanation
Indices: 14988139--14988500 Score: 494
Period size: 166 Copynumber: 2.2 Consensus size: 164
14988129 CAAAATTCAG
* *
14988139 CGCCTTAATCCCATAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
* * * *
14988204 GTGGAGTAGATCGAAGACTCACCTTAATCCCCTAAGCAATAGGGTAAC-AAGTTCGCAGATCTTA
66 GTGGAGCAGATCGAAGACCCACCTTAATCCCCTAAGCAATAGGGTAACGAAATTCGCAGATCTCA
* * **
14988268 TCTCCCTAAGCAGTAGCGGAGCAGATCGATGACGACT
131 --TCCCTAAGAAGTAGCAGAGCAGATCGAAAACGA-T
14988305 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
* * * *
14988370 GTGGAGCAGATCGAAGACCCGCCTTAATCCTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACCCACCTTAATCCCCTAAGCAATAGGGTAAC--G--AAATTCGCAGAT
*
14988435 CTCATCCCTAAGAAGTAGCAGAGCAGATCGAAAATGAT
127 CTCATCCCTAAGAAGTAGCAGAGCAGATCGAAAACGAT
*
14988473 GGACCTTAA-CCCCTAAGTAGTAGGGTAA
1 CG-CCTTAATCCCCTAAGTAGTAGGGTAA
14988501 TAGACTAAAG
Statistics
Matches: 174, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
166 106 0.61
168 21 0.12
169 34 0.20
171 13 0.07
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (164 bp):
CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACCCACCTTAATCCCCTAAGCAATAGGGTAACGAAATTCGCAGATCTCA
TCCCTAAGAAGTAGCAGAGCAGATCGAAAACGAT
Found at i:14988434 original size:84 final size:84
Alignment explanation
Indices: 14988139--14988500 Score: 436
Period size: 84 Copynumber: 4.3 Consensus size: 84
14988129 CAAAATTCAG
* *
14988139 CGCCTTAATCCCATAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
14988204 GTGGAGTAGATCGAAGACT
66 GCGGAGCAGATCGAAGACT
* * * *
14988223 CACCTTAATCCCCTAAGCAATAGGGTAAC-----AAGTTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
14988283 GCGGAGCAGATCGATGACGACT
66 GCGGAGCAGATCGA--A-GACT
* *
14988305 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
14988370 GTGGAGCAGATCGAAGACC
66 GCGGAGCAGATCGAAGACT
* * *
14988389 CGCCTTAATCCTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTCA--TCCCTAAGAAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
14988452 GCAGAGCAGATCGAAAATGA-T
66 GCGGAGCAGATCG--AA-GACT
* *
14988473 GGACCTTAA-CCCCTAAGTAGTAGGGTAA
1 CG-CCTTAATCCCCTAAGCAGTAGGGTAA
14988501 TAGACTAAAG
Statistics
Matches: 239, Mismatches: 27, Indels: 24
0.82 0.09 0.08
Matches are distributed among these distances:
79 41 0.17
81 1 0.00
82 53 0.22
84 94 0.39
85 9 0.04
87 41 0.17
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GCGGAGCAGATCGAAGACT
Found at i:14988920 original size:206 final size:206
Alignment explanation
Indices: 14988511--14989089 Score: 928
Period size: 206 Copynumber: 2.8 Consensus size: 206
14988501 TAGACTAAAG
* * * *
14988511 CATAGCAGATCTCACCTTCAGAT-ATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTAACCTTCAGATGA-TTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGT
* * * *
14988575 GCTTACAAGGAGCAAATCGAAGACATA-CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
65 GCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATC
* * *
14988639 TAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATTAAAGTTTGGCGTCTCCATATTCGAC
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGAC
*
14988704 AGAGGGCAGACA
195 AGAAGGCAGACA
*
14988716 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGTAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * *
14988781 CTTACAAGGAGCAAATTGAAGACATAGCTGATTTGGTTTTTGCGTGCTTACGCTAAAGCAAGTCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* * *
14988846 AAGATGATTTGGCATCTCTGTATTGTCTGAGAACAAATCAATGTTTGGCGCCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACA
14988911 GAAGGCAGACA
196 GAAGGCAGACA
* * *
14988922 CATAGTAGATCTAACCTTCAGATGATTAGATTGAAGCAGATCCAAGATGGTTTGGTATCTTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
14988987 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
14989052 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
14989090 TGAAGAAGTA
Statistics
Matches: 343, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 83 0.24
206 260 0.76
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (206 bp):
CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACA
GAAGGCAGACA
Found at i:14989541 original size:18 final size:18
Alignment explanation
Indices: 14989493--14989617 Score: 171
Period size: 18 Copynumber: 6.8 Consensus size: 18
14989483 ATAATCTTCA
14989493 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
14989512 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
14989531 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
14989549 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
* *
14989567 ATGA-TACAATCTTAGGT
1 ATGATTGCAATCTTAGAT
*
14989584 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14989602 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
14989618 AAAGATATGA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.15
18 50 0.53
19 31 0.33
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:14989589 original size:35 final size:35
Alignment explanation
Indices: 14989501--14989617 Score: 171
Period size: 35 Copynumber: 3.2 Consensus size: 35
14989491 CAATGATATG
*
14989501 CAATCTTAGATGTGATATGCAATCTTAGATATGATTG
1 CAATCTTAGATGTGAT-TGCAATCTTAGATATGA-TA
*
14989538 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATGTGATTGCAATCTTAGATATGATA
*
14989573 CAATCTTAGGTGTGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATGTGATTGCAATCTTAGATATG--ATA
14989610 CAATCTTA
1 CAATCTTA
14989618 AAAGATATGA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 31 0.42
36 17 0.23
37 26 0.35
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATGTGATTGCAATCTTAGATATGATA
Found at i:14989593 original size:53 final size:55
Alignment explanation
Indices: 14989493--14989617 Score: 191
Period size: 53 Copynumber: 2.3 Consensus size: 55
14989483 ATAATCTTCA
*
14989493 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATTGCAATCTTAGAT
* *
14989549 ATGAT-TGCAATCTTAGATATGATA-CAATCTTAGGTGTGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
*
14989602 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
14989618 AAAGATATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
53 32 0.50
54 9 0.14
55 18 0.28
56 5 0.08
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (55 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:14993778 original size:24 final size:24
Alignment explanation
Indices: 14993727--14993778 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14993717 AGAATTGGTT
* * **
14993727 GCTTCGTCTACAACCTACATTGTG
1 GCTTCGTCCACAACCTACATGGCA
*
14993751 GCTTTGTCCACAACCTACATGGCA
1 GCTTCGTCCACAACCTACATGGCA
14993775 GCTT
1 GCTT
14993779 GACTGTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (24 bp):
GCTTCGTCCACAACCTACATGGCA
Found at i:14996865 original size:30 final size:30
Alignment explanation
Indices: 14996829--14996891 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
14996819 TTAAGAGTAG
14996829 ATCTAGCATCATTGAGTGGAGTTGCATGCA
1 ATCTAGCATCATTGAGTGGAGTTGCATGCA
14996859 ATCTAGCATCATTGAGTGGAGTTGCATGCA
1 ATCTAGCATCATTGAGTGGAGTTGCATGCA
14996889 ATC
1 ATC
14996892 CTAGAAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (30 bp):
ATCTAGCATCATTGAGTGGAGTTGCATGCA
Found at i:14998775 original size:42 final size:42
Alignment explanation
Indices: 14998712--14998791 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
14998702 AATTTTGGGA
14998712 ACTTAGTGTGCAAAATCGAGATAGCTTTGGATATATATTTGC
1 ACTTAGTGTGCAAAATCGAGATAGCTTTGGATATATATTTGC
* * * *
14998754 ACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATAT
1 ACTTAGTGTGCAAAATCGAGATAGCTTTGGATATATAT
14998792 ATATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (42 bp):
ACTTAGTGTGCAAAATCGAGATAGCTTTGGATATATATTTGC
Found at i:15003645 original size:30 final size:30
Alignment explanation
Indices: 15003609--15003680 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
15003599 CGAGTATGGG
15003609 ACACGACCGTGTAGCCCAACAC-GAGCCAAA
1 ACACGACCGTGTAGCCCAACACAG-GCCAAA
* * *
15003639 ACACGACCGTATGGCCCAACACAGGCCTAA
1 ACACGACCGTGTAGCCCAACACAGGCCAAA
*
15003669 ACAAGACCGTGT
1 ACACGACCGTGT
15003681 CCCCTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.35, G:0.21, T:0.10
Consensus pattern (30 bp):
ACACGACCGTGTAGCCCAACACAGGCCAAA
Found at i:15004564 original size:2 final size:2
Alignment explanation
Indices: 15004557--15004592 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15004547 TAGCCTTAAC
*
15004557 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15004593 GTCTTCTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15005461 original size:25 final size:25
Alignment explanation
Indices: 15005433--15005505 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
15005423 CTGAAGATCA
*
15005433 GTATGCTCTCACGAGCTACAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
* *
15005458 GTATTCTCTCACAAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
* *
15005483 GTATGCTCTTATGAGCTATAAAT
1 GTATGCTCTCACGAGCTATAAAT
15005506 ATGTAACTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATTG
Found at i:15005520 original size:24 final size:25
Alignment explanation
Indices: 15005445--15005520 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
15005435 ATGCTCTCAC
* * * *
15005445 GAGCTACAAATTGGTATTCTCTCAC
1 GAGCTATAAATTGGTATACTCTAAT
* * *
15005470 AAGCTATAAATTGGTATGCTCTTAT
1 GAGCTATAAATTGGTATACTCTAAT
15005495 GAGCTATAAATAT-GTA-ACTCTAAT
1 GAGCTATAAAT-TGGTATACTCTAAT
15005519 GA
1 GA
15005521 CATGCCATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 8 0.19
25 33 0.79
26 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (25 bp):
GAGCTATAAATTGGTATACTCTAAT
Found at i:15007456 original size:13 final size:13
Alignment explanation
Indices: 15007412--15007471 Score: 72
Period size: 12 Copynumber: 4.7 Consensus size: 13
15007402 TACTGATTTT
*
15007412 TTTAGTTATTTTTA
1 TTTA-TTATTTTCA
15007426 -TTATTATTTTCA
1 TTTATTATTTTCA
15007438 -TTATTATTTTCA
1 TTTATTATTTTCA
15007450 TTTATTATTTTC-
1 TTTATTATTTTCA
15007462 TTATATTATT
1 TT-TATTATT
15007472 ACTTAGTCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
12 22 0.51
13 21 0.49
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTATTATTTTCA
Found at i:15007472 original size:16 final size:14
Alignment explanation
Indices: 15007424--15007471 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
15007414 TAGTTATTTT
15007424 TATTATTATTTTC-
1 TATTATTATTTTCA
15007437 -ATTATTATTTTCA
1 TATTATTATTTTCA
*
15007450 T-TTATTATTTTCT
1 TATTATTATTTTCA
15007463 TA-TATTATT
1 TATTATTATT
15007472 ACTTAGTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATTATTTTCA
Found at i:15007608 original size:23 final size:23
Alignment explanation
Indices: 15007582--15007626 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15007572 TTATACTTTC
*
15007582 ATTAT-TTTTTTATTCTTATTTTT
1 ATTATGTTTTTT-TGCTTATTTTT
15007605 ATTATGTTTTTTTGCTTATTTT
1 ATTATGTTTTTTTGCTTATTTT
15007627 ATGTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (23 bp):
ATTATGTTTTTTTGCTTATTTTT
Found at i:15009041 original size:19 final size:21
Alignment explanation
Indices: 15008998--15009041 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
15008988 TGAGCACCAT
*
15008998 TTTTTCTTCTTTGTTTATTTC
1 TTTTTCTTCTTTGTTTAGTTC
*
15009019 TTTTTCTT-TTT-TTTAGTTG
1 TTTTTCTTCTTTGTTTAGTTC
15009038 TTTT
1 TTTT
15009042 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.05, C:0.09, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTCTTCTTTGTTTAGTTC
Found at i:15009326 original size:31 final size:31
Alignment explanation
Indices: 15009288--15009351 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15009278 GCTTATGTCT
15009288 ATTTGTACATTGAAGACAATGTATATCTTAA
1 ATTTGTACATTGAAGACAATGTATATCTTAA
*
15009319 ATTTGTACATTGAAGATAATGTATATCTTAA
1 ATTTGTACATTGAAGACAATGTATATCTTAA
15009350 AT
1 AT
15009352 GTGGGGAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (31 bp):
ATTTGTACATTGAAGACAATGTATATCTTAA
Found at i:15012591 original size:29 final size:29
Alignment explanation
Indices: 15012557--15012621 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
15012547 GTGCTTGGCT
15012557 CCGGCCTCCGTCGAGCCGAGCCTTGGTCC
1 CCGGCCTCCGTCGAGCCGAGCCTTGGTCC
15012586 CCGGCCTCCGTCGAGCCGAGCCTTGGTCC
1 CCGGCCTCCGTCGAGCCGAGCCTTGGTCC
15012615 CCGGCCT
1 CCGGCCT
15012622 TACGCGCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.06, C:0.46, G:0.31, T:0.17
Consensus pattern (29 bp):
CCGGCCTCCGTCGAGCCGAGCCTTGGTCC
Found at i:15014219 original size:119 final size:119
Alignment explanation
Indices: 15014005--15014464 Score: 733
Period size: 119 Copynumber: 3.9 Consensus size: 119
15013995 AACACGTGAA
* * * * ** * * *
15014005 AGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGTACAAGGATACTAAACCATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
* *
15014070 TGCTTCAGCATAAACATCTG-AAGGTGAGATCTGCTATATTTGAGAACATCTGAG
66 TGCTTCAGTATAAACATCTGAAAGCT-AGATCTGCTATATTTGAGAACATCTGAG
* *
15014124 AGCCAAATCTTCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATGATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
*
15014189 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATTTGAG
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
* *
15014243 AGTCAACTCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
15014308 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
*
15014362 AGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
* *
15014427 TGCTTCAGTATAAACATCTAAAAGCTAGATCTACTATA
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
15014465 CTGCGGCCTA
Statistics
Matches: 318, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 314 0.99
120 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (119 bp):
AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
Found at i:15026475 original size:18 final size:20
Alignment explanation
Indices: 15026431--15026477 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
15026421 AGATACATAA
15026431 CATATATAAAAAAAGTAATAT
1 CATA-ATAAAAAAAGTAATAT
*
15026452 -AGAATAAAAAAA-TAA-AT
1 CATAATAAAAAAAGTAATAT
15026469 CATAATAAA
1 CATAATAAA
15026478 TGTTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
18 10 0.43
19 9 0.39
20 2 0.09
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
CATAATAAAAAAAGTAATAT
Found at i:15027884 original size:26 final size:26
Alignment explanation
Indices: 15027855--15027962 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
15027845 TGGTACAAAT
15027855 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
*
15027881 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
15027907 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
15027933 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
15027959 TGAT
1 TGAT
15027963 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 1 0.01
26 76 0.99
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:15029470 original size:26 final size:27
Alignment explanation
Indices: 15029416--15029478 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
15029406 AATTACTATA
* *
15029416 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTATG-ATGCAAAATTACCGTT
15029444 ATACCCCTATG-TGCAAAATTACCGTT
1 ATACCCCTATGATGCAAAATTACCGTT
15029470 ATACCCCTA
1 ATACCCCTA
15029479 GGGTTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 22 0.67
28 11 0.33
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (27 bp):
ATACCCCTATGATGCAAAATTACCGTT
Found at i:15029624 original size:27 final size:26
Alignment explanation
Indices: 15029584--15029724 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
15029574 AGGAAGCGTC
*
15029584 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
15029611 CTGGTGGCTCTGCCACATATATATGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
15029638 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
15029665 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
15029692 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
15029719 CTGGTG
1 CTGGTG
15029725 ACTTCGTTAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:15029666 original size:54 final size:53
Alignment explanation
Indices: 15029584--15029724 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
15029574 AGGAAGCGTC
15029584 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
*
15029638 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
* *
15029692 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
15029725 ACTTCGTTAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
Found at i:15031653 original size:10 final size:11
Alignment explanation
Indices: 15031628--15031652 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15031618 ATTTGGGAGC
15031628 AAAATGAGTGA
1 AAAATGAGTGA
15031639 AAAATGAGTGA
1 AAAATGAGTGA
15031650 AAA
1 AAA
15031653 TCGAGCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:15044882 original size:27 final size:28
Alignment explanation
Indices: 15044852--15044921 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
15044842 ATAGTGAATC
*
15044852 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
15044879 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
15044907 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15044922 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:15044993 original size:42 final size:42
Alignment explanation
Indices: 15044929--15045035 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
15044919 GCTGTACAAT
* *
15044929 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
15044971 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
15045013 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
15045036 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:15052114 original size:27 final size:28
Alignment explanation
Indices: 15052084--15052153 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
15052074 ATAGTGAATC
*
15052084 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
15052111 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
15052139 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15052154 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:15052225 original size:42 final size:42
Alignment explanation
Indices: 15052161--15052267 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
15052151 GCTGTACAAT
* *
15052161 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
15052203 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
15052245 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
15052268 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:15056128 original size:15 final size:15
Alignment explanation
Indices: 15056108--15056146 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
15056098 GCGTGTTTAA
15056108 ACCTTAGGATTGATG
1 ACCTTAGGATTGATG
15056123 ACCTTAGGATTGATG
1 ACCTTAGGATTGATG
*
15056138 ACCCTAGGA
1 ACCTTAGGA
15056147 AGTAATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (15 bp):
ACCTTAGGATTGATG
Found at i:15058005 original size:22 final size:22
Alignment explanation
Indices: 15057953--15058086 Score: 130
Period size: 22 Copynumber: 6.0 Consensus size: 22
15057943 TGAGCTGATG
* * *
15057953 AACAATAAGCTCTATTGAACTGA
1 AACAGTAAGCTCTATCGAGCT-A
*
15057976 AACGGTAAGCTCTATCGAGCTA
1 AACAGTAAGCTCTATCGAGCTA
15057998 AACAGTAAGCTCTATCGAGCTA
1 AACAGTAAGCTCTATCGAGCTA
* *
15058020 AACAGTAAGCTC-ATACGACCTG
1 AACAGTAAGCTCTAT-CGAGCTA
*
15058042 AACAGTAAGCTCCAAT-GAGCTGAA
1 AACAGTAAGCT-CTATCGAGCT--A
15058066 AACAGTAAGCTCT-TACGAGCT
1 AACAGTAAGCTCTAT-CGAGCT
15058087 GATATATCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 55 0.59
23 19 0.20
24 18 0.19
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (22 bp):
AACAGTAAGCTCTATCGAGCTA
Found at i:15058046 original size:44 final size:43
Alignment explanation
Indices: 15057951--15058088 Score: 152
Period size: 44 Copynumber: 3.1 Consensus size: 43
15057941 CCTGAGCTGA
* * *
15057951 TGAACAATAAGCTCTATTGAACTGAAACGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTA-TGAGCTGAAACAGTAAGCTCTA-CGAGC
* *
15057996 TAAACAGTAAGCTCTATCGAGCT-AAACAGTAAGCTCATACGACC
1 TGAACAGTAAGCTCTAT-GAGCTGAAACAGTAAGCTC-TACGAGC
*
15058040 TGAACAGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCT-CTATGAGCTG-AAACAGTAAGCTC-TACGAGC
15058086 TGA
1 TGA
15058089 TATATCGGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
44 34 0.43
45 23 0.29
46 22 0.28
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (43 bp):
TGAACAGTAAGCTCTATGAGCTGAAACAGTAAGCTCTACGAGC
Found at i:15059903 original size:40 final size:40
Alignment explanation
Indices: 15059844--15060051 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
15059834 CAATTGAATG
* * *
15059844 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
15059884 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
15059924 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
15059964 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
15060004 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
15060044 ATATCCGG
1 ATATCCGG
15060052 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:15059982 original size:80 final size:80
Alignment explanation
Indices: 15059845--15060051 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
15059835 AATTGAATGA
* * * * * *
15059845 TATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
15059910 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
15059923 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
15059988 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
15060005 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
15060052 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:15062947 original size:20 final size:20
Alignment explanation
Indices: 15062901--15062950 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15062891 TTTATTTTAT
15062901 TTTTATATTTTTAATTATTAA
1 TTTT-TATTTTTAATTATTAA
** *
15062922 GATTTATTTTTAGTTATTAA
1 TTTTTATTTTTAATTATTAA
15062942 TTTTTATTT
1 TTTTTATTT
15062951 CTTTGTCTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTATTTTTAATTATTAA
Found at i:15068650 original size:16 final size:16
Alignment explanation
Indices: 15068626--15068656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15068616 ATCTTTGCAT
15068626 TTTTATTTTTATTTTC
1 TTTTATTTTTATTTTC
*
15068642 TTTTGTTTTTATTTT
1 TTTTATTTTTATTTT
15068657 TCCTTTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTATTTTC
Found at i:15068663 original size:23 final size:22
Alignment explanation
Indices: 15068625--15068669 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15068615 CATCTTTGCA
*
15068625 TTTTTATTTTTATTTTCTTTTG
1 TTTTTATTTTTATTTTCATTTG
*
15068647 TTTTTATTTTTCCTTTTCATTTG
1 TTTTTATTTTT-ATTTTCATTTG
15068670 CTTGATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTTATTTTCATTTG
Found at i:15069590 original size:30 final size:30
Alignment explanation
Indices: 15069556--15069632 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
15069546 CGGGCTTAGG
15069556 GGTAAAATGGTCATTTTGTGAAAGTCTAAA
1 GGTAAAATGGTCATTTTGTGAAAGTCTAAA
* **
15069586 GGTAAAATGATCATTTTGTGAAAGTCTAGG
1 GGTAAAATGGTCATTTTGTGAAAGTCTAAA
15069616 GGTAAAATGGTCATTTT
1 GGTAAAATGGTCATTTT
15069633 TCCCAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (30 bp):
GGTAAAATGGTCATTTTGTGAAAGTCTAAA
Found at i:15070091 original size:46 final size:45
Alignment explanation
Indices: 15069956--15070217 Score: 221
Period size: 46 Copynumber: 5.6 Consensus size: 45
15069946 TTATTTGTGT
* *
15069956 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GAT-AGA
* * * *
15070002 GCCAGTGTAAGACCAAGTCTAGGACATGGCATCGG-CATTGAGATAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGAT-AGA
* *
15070050 GCTAGTGCAAGACATGTCTGGGACATGCATCGGCCCCGAGAT-GTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAG--A
* *
15070096 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT-GT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAGA
*
15070140 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGATATGTGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-GAGA--T-AGA
* *
15070190 GCTAGTGTAAGGCCATGTCTAGGACATG
1 GCTAGTGTAA-GACATGTCTGGGACATG
15070218 ACGTCAGCCT
Statistics
Matches: 177, Mismatches: 22, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 16 0.09
46 74 0.42
47 26 0.15
48 23 0.13
49 2 0.01
50 22 0.12
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAGA
Found at i:15070199 original size:94 final size:92
Alignment explanation
Indices: 15069959--15070217 Score: 278
Period size: 94 Copynumber: 2.8 Consensus size: 92
15069949 TTTGTGTGCT
* * * * *
15069959 AGTGTAAGACATGTCTGAGACATGCATCGGCCACAT-TATGAGAGCCAGTGTAAGACCAAGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTGAGAGCTAGTGTAAGA-CATGTCTA
* *
15070023 GGACATGGCATCGGC-ATTGAGATAAGAG-C
65 GGACAT-GCATCGGCTA-CGAGAT-AGTGTC
* * *
15070052 TAGTGCAAGACATGTCTGGGACATGCATCGGCCCCGAGATGT-A-AGCTAGTGTAAGACATGTCT
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CCAGATATGTGAGAGCTAGTGTAAGACATGTCT
*
15070115 GGGACATGCATCGGCTACGAGAT-GTGTC
64 AGGACATGCATCGGCTACGAGATAGTGTC
*
15070143 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTAGTGTAAGGCCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATATGTGAGAGCTAGTGTAA-GACATGT
15070208 CTAGGACATG
62 CTAGGACATG
15070218 ACGTCAGCCT
Statistics
Matches: 139, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
90 10 0.07
91 16 0.12
92 27 0.19
93 14 0.10
94 51 0.37
95 19 0.14
96 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTGAGAGCTAGTGTAAGACATGTCTAG
GACATGCATCGGCTACGAGATAGTGTC
Found at i:15078189 original size:21 final size:18
Alignment explanation
Indices: 15078165--15078208 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
15078155 GCCAACCTAG
15078165 TTTAGGGTTTTAGTTAATAGT
1 TTTAGGGTTTTA-TT--TAGT
15078186 TTTAGGGTTTTATTTAGT
1 TTTAGGGTTTTATTTAGT
15078204 TTTAG
1 TTTAG
15078209 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
20 2 0.09
21 12 0.52
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (18 bp):
TTTAGGGTTTTATTTAGT
Found at i:15083630 original size:7 final size:6
Alignment explanation
Indices: 15083589--15083629 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
15083579 ATAATTTAAT
*
15083589 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
15083630 ACATATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:15083630 original size:20 final size:20
Alignment explanation
Indices: 15083592--15083631 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15083582 ATTTAATAAA
**
15083592 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
15083612 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
15083632 ATATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:15083667 original size:9 final size:9
Alignment explanation
Indices: 15083650--15083725 Score: 57
Period size: 9 Copynumber: 8.4 Consensus size: 9
15083640 TTATACAAAC
15083650 AATTCAGTT
1 AATTCAGTT
*
15083659 AATTTAGTT
1 AATTCAGTT
* *
15083668 AATTCGGGT
1 AATTCAGTT
15083677 AATTCGAG-T
1 AATTC-AGTT
* *
15083686 AATTCGGGT
1 AATTCAGTT
*
15083695 AATTCGGTT
1 AATTCAGTT
15083704 AATTC-GATT
1 AATTCAG-TT
*
15083713 AATTCGGTT
1 AATTCAGTT
15083722 AATT
1 AATT
15083726 TTATACTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCAGTT
Found at i:15083679 original size:18 final size:18
Alignment explanation
Indices: 15083658--15083725 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
15083648 ACAATTCAGT
*
15083658 TAATTTAGTTAATTCGGG
1 TAATTCAGTTAATTCGGG
15083676 TAATTCGAG-TAATTCGGG
1 TAATTC-AGTTAATTCGGG
* **
15083694 TAATTCGGTTAATTCGAT
1 TAATTCAGTTAATTCGGG
*
15083712 TAATTCGGTTAATT
1 TAATTCAGTTAATT
15083726 TTATACTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 41 0.93
19 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (18 bp):
TAATTCAGTTAATTCGGG
Found at i:15083688 original size:27 final size:27
Alignment explanation
Indices: 15083665--15083725 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
15083655 AGTTAATTTA
15083665 GTTAATTCGGGTAATTCGAGTAATTCG
1 GTTAATTCGGGTAATTCGAGTAATTCG
* * *
15083692 GGTAATTCGGTTAATTCGATTAATTCG
1 GTTAATTCGGGTAATTCGAGTAATTCG
15083719 GTTAATT
1 GTTAATT
15083726 TTATACTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (27 bp):
GTTAATTCGGGTAATTCGAGTAATTCG
Found at i:15088119 original size:43 final size:43
Alignment explanation
Indices: 15088062--15088166 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
15088052 TAACGAGATG
* *
15088062 TGATTATTTGTAAGACCATGTATGGGACATTGGCATCATTATGT
1 TGATTATGTATAAGACCATGTATGGGACATTGGCATCATTAT-T
* *
15088106 T-ATTATGTATAAGACCATGTTTGGGACATTGGCATCGTTATT
1 TGATTATGTATAAGACCATGTATGGGACATTGGCATCATTATT
* *
15088148 TGATTTTGTGTAAGACCAT
1 TGATTATGTATAAGACCAT
15088167 AGTTAGGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
42 2 0.04
43 51 0.94
44 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (43 bp):
TGATTATGTATAAGACCATGTATGGGACATTGGCATCATTATT
Found at i:15092659 original size:49 final size:46
Alignment explanation
Indices: 15092455--15092715 Score: 226
Period size: 48 Copynumber: 5.6 Consensus size: 46
15092445 TATGTGTCCT
* * *** *
15092455 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGA-GATGAGAGCC
* * * *
15092501 AGTGTAAGACATGTTTGGGACAT-GCATCGACCTCGAGATGTGCAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTGAGATGAG--AGCC
* * * *
15092549 AGTGTAAGAACTGTCTGGGACATGGCATCGACTTGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAGATGAGAGCC
*
15092593 AGTGTAAGACCTGTCTGGGAAATGGCATCGACATTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TTG--AGATGAGAGCC
* *
15092642 AGTGTAAGACCTATCTGGGACATGGCATCGACTT-AGAAGTGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAG-A-TGAGAGCC
* *
15092689 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
15092716 TTCAGCATCA
Statistics
Matches: 178, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
44 32 0.18
45 5 0.03
46 34 0.19
47 23 0.13
48 44 0.25
49 40 0.22
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAGATGAGAGCC
Found at i:15094330 original size:88 final size:95
Alignment explanation
Indices: 15094181--15094431 Score: 249
Period size: 88 Copynumber: 2.7 Consensus size: 95
15094171 GCTAGTGGAA
* * * * *
15094181 GACATGTCTGGGACAT-GCATC-GACCAC-ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 GACATGTCTAGGACATGGCATCAG-CCTCGATGATGATAGCTAGTGTAAGACCATGTCTGGGACA
*
15094243 TGCTAT-CA-GCAT-TGAGACGAG-AGTGTAA-
65 TGCT-TGCACGAATATGAGA-GAGCAGTGTAAG
* *
15094271 GACATGTCTAGGACAT-GCATC-GGCTACGA-GATG-T-GTTAGTGTAAGACCATGTCTGGGACA
1 GACATGTCTAGGACATGGCATCAGCCT-CGATGATGATAGCTAGTGTAAGACCATGTCTGGGACA
*
15094331 TGGCTTCGGCACGAATATGTGAGAGCTAGTGTAAG
65 T-GCTT--GCACGAATATGAGAGAGC-AGTGTAAG
*
15094366 GACATGTCTGGGACATGGCATCAGCCTCGATGATGATAGCTAGTGTAAGACCATGTCTGGGACAT
1 GACATGTCTAGGACATGGCATCAGCCTCGATGATGATAGCTAGTGTAAGACCATGTCTGGGACAT
15094431 G
66 G
15094432 GCATCGGCAC
Statistics
Matches: 133, Mismatches: 12, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
88 26 0.20
89 4 0.03
90 25 0.19
91 3 0.02
92 6 0.05
93 4 0.03
94 7 0.05
95 15 0.11
96 8 0.06
97 7 0.05
98 2 0.02
99 26 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (95 bp):
GACATGTCTAGGACATGGCATCAGCCTCGATGATGATAGCTAGTGTAAGACCATGTCTGGGACAT
GCTTGCACGAATATGAGAGAGCAGTGTAAG
Found at i:15094372 original size:50 final size:48
Alignment explanation
Indices: 15094171--15094441 Score: 232
Period size: 49 Copynumber: 5.8 Consensus size: 48
15094161 GTTATTGTAG
* * *
15094171 GCTAGTGGAAGA-CATGTCTGGGACAT-GCATCGACCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCACGATGATGAGA
* * *
15094217 GCCAGTGTAAGACCATGTCTGGGACAT-GCTATCAGCA--TTGA-GACGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCACGATGATGA-GA
* *
15094263 G--AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGA-GAT--GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATGATGAGA
* *
15094305 GTTAGTGTAAGACCATGTCTGGGACATGGCTTCGGCACGAAT-ATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATGA--TGAGA
* * *
15094355 GCTAGTGTAAGGA-CATGTCTGGGACATGGCATCAGCCTCGATGATGATA
1 GCTAGTGTAA-GACCATGTCTGGGACATGGCATC-GGCACGATGATGAGA
15094404 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
15094442 CTTATCCCAT
Statistics
Matches: 184, Mismatches: 20, Indels: 40
0.75 0.08 0.16
Matches are distributed among these distances:
42 7 0.04
43 16 0.09
44 20 0.11
45 18 0.10
46 24 0.13
47 18 0.10
48 9 0.05
49 34 0.18
50 31 0.17
51 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATGATGAGA
Found at i:15094426 original size:99 final size:96
Alignment explanation
Indices: 15094171--15094441 Score: 296
Period size: 99 Copynumber: 2.9 Consensus size: 96
15094161 GTTATTGTAG
* * * * *
15094171 GCTAGTGGAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGATGATGATAGCTAGTGTAAGACCATGT
*
15094235 CTGGGACAT-GCTAT---CA-GCATTGAGACGA
65 CTGGGACATGGCT-TCGGCACGAATTGAGACGA
* * *
15094263 G--AGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATG-T-GTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCT-CGATGATGATAGCTAGTGTAAGACCATGT
*
15094323 CTGGGACATGGCTTCGGCACGAATATGTGA-GA
65 CTGGGACATGGCTTCGGCACGAAT-TGAGACGA
15094355 GCTAGTGTAAGGACATGTCTGGGACATGGCATCAGCCTCGATGATGATAGCTAGTGTAAGACCAT
1 GCTAGTGTAA-GACATGTCTGGGACAT-GCATC-GCCTCGATGATGATAGCTAGTGTAAGACCAT
*
15094420 GTCTGGGACATGGCATCGGCAC
63 GTCTGGGACATGGCTTCGGCAC
15094442 CTTATCCCAT
Statistics
Matches: 149, Mismatches: 14, Indels: 25
0.79 0.07 0.13
Matches are distributed among these distances:
88 26 0.17
89 4 0.03
90 31 0.21
91 3 0.02
92 7 0.05
93 4 0.03
94 7 0.05
95 15 0.10
96 8 0.05
97 7 0.05
98 1 0.01
99 36 0.24
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCGATGATGATAGCTAGTGTAAGACCATGTC
TGGGACATGGCTTCGGCACGAATTGAGACGA
Found at i:15100191 original size:31 final size:32
Alignment explanation
Indices: 15100153--15100217 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
15100143 CTCGAAAACA
*
15100153 TAAAAACCATT-AAAAGGGACAAAATTACACT
1 TAAAAACCATTAAAAAGAGACAAAATTACACT
15100184 TAAAAACCATTAAAAAGAGACAAAATTACACT
1 TAAAAACCATTAAAAAGAGACAAAATTACACT
15100216 TA
1 TA
15100218 CATGCAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.57, C:0.15, G:0.08, T:0.20
Consensus pattern (32 bp):
TAAAAACCATTAAAAAGAGACAAAATTACACT
Found at i:15103535 original size:2 final size:2
Alignment explanation
Indices: 15103528--15103552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15103518 GCTTTATAGG
15103528 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15103553 AAAGTATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15107636 original size:27 final size:26
Alignment explanation
Indices: 15107582--15107648 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
15107572 AGCATGGTTG
* *
15107582 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTATGACAAAGCCA
* *
15107608 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGA-ACAGATATTATGACAAAGCCA
15107635 CCAGAATC-GATATT
1 CCAGAA-CAGATATT
15107649 TGTGGCGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTATGACAAAGCCA
Found at i:15107687 original size:28 final size:27
Alignment explanation
Indices: 15107616--15107689 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
15107606 CACCAGATAC
* * *
15107616 AGATA-TTATGGCAGAGCCACCAGAAT
1 AGATATTTGTGGCATAGCCACCAAAAT
* *
15107642 CGATATTTGTGGCGTAGCCACCAAAAAT
1 AGATATTTGTGGCATAGCCACC-AAAAT
* *
15107670 AGATGTTTTTGGCATAGCCA
1 AGATATTTGTGGCATAGCCA
15107690 TCAGAAAGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 4 0.11
27 13 0.35
28 20 0.54
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
AGATATTTGTGGCATAGCCACCAAAAT
Found at i:15115763 original size:27 final size:26
Alignment explanation
Indices: 15115723--15115838 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
15115713 CAGCATGGCT
* *
15115723 ACCAGAATAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
*
15115749 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* * *
15115776 ACCAGAATAGAAATTTGTGGC-GTAGCC
1 ACCAGAACAGATA-TTGTGACAG-AGCC
* * * *
15115803 ACCAGAAATAGATGTTTGTGGCATAGCC
1 ACCAG-AACAGAT-ATTGTGACAGAGCC
15115831 ACCAGAAC
1 ACCAGAAC
15115839 GCTTCCTCCC
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 12 0.16
27 41 0.55
28 22 0.29
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:15115821 original size:28 final size:28
Alignment explanation
Indices: 15115763--15115837 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
15115753 GATACAGATA
15115763 TTGTGGCAG-AGCCACCAG-AATAGAAAT
1 TTGTGGC-GTAGCCACCAGAAATAGAAAT
**
15115790 TTGTGGCGTAGCCACCAGAAATAGATGT
1 TTGTGGCGTAGCCACCAGAAATAGAAAT
*
15115818 TTGTGGCATAGCCACCAGAA
1 TTGTGGCGTAGCCACCAGAA
15115838 CGCTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 16 0.37
28 26 0.60
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (28 bp):
TTGTGGCGTAGCCACCAGAAATAGAAAT
Found at i:15117973 original size:29 final size:28
Alignment explanation
Indices: 15117915--15117973 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
15117905 TTATACAGTC
* * * *
15117915 AAAACACAGAAATTCTAAAATTCATTAA
1 AAAACACAGAAATCCCAAAAATCATGAA
*
15117943 AAAATCACAGAAATCCCAAAAATCCTGAA
1 AAAA-CACAGAAATCCCAAAAATCATGAA
15117972 AA
1 AA
15117974 TTAGGGCGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (28 bp):
AAAACACAGAAATCCCAAAAATCATGAA
Found at i:15124720 original size:2 final size:2
Alignment explanation
Indices: 15124713--15124745 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15124703 GCTTTATAGG
15124713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15124746 AAAGTATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15132600 original size:45 final size:45
Alignment explanation
Indices: 15132550--15132637 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
15132540 ATTTGAGTAA
15132550 GAAATACTGCATACACGTAATATTTATGACACAACATCTGCATAT
1 GAAATACTGCATACACGTAATATTTATGACACAACATCTGCATAT
**
15132595 GAAATACTGCATACACGTAATATTTATGACACGGCATCTGCAT
1 GAAATACTGCATACACGTAATATTTATGACACAACATCTGCAT
15132638 GGGGTTGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (45 bp):
GAAATACTGCATACACGTAATATTTATGACACAACATCTGCATAT
Found at i:15135767 original size:43 final size:43
Alignment explanation
Indices: 15135680--15135772 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
15135670 TAGCTCATAA
* * * * *
15135680 ATGCC-ATATCCCAGATATGGTCTTACATATTATCACATATCG
1 ATGCCAATAGCCCAGATATGGTCTTACAGATAATCAAATAACG
*
15135722 ATGCCAATAGCCCAGCTATGGTCTTACACGA-AATCAAATAACG
1 ATGCCAATAGCCCAGATATGGTCTTACA-GATAATCAAATAACG
15135765 ATGCCAAT
1 ATGCCAAT
15135773 TACACGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 5 0.12
43 37 0.86
44 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATAGCCCAGATATGGTCTTACAGATAATCAAATAACG
Found at i:15135783 original size:27 final size:27
Alignment explanation
Indices: 15135745--15135799 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15135735 AGCTATGGTC
15135745 TTACACGAAATCAAATAACGATGCCAA
1 TTACACGAAATCAAATAACGATGCCAA
* * *
15135772 TTACACGTAATCACATAATGATGCCAA
1 TTACACGAAATCAAATAACGATGCCAA
15135799 T
1 T
15135800 GTCCCAGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.24
Consensus pattern (27 bp):
TTACACGAAATCAAATAACGATGCCAA
Found at i:15137165 original size:2 final size:2
Alignment explanation
Indices: 15137158--15137186 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15137148 GATTTCTATG
15137158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15137187 CACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15141585 original size:16 final size:17
Alignment explanation
Indices: 15141566--15141600 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15141556 ATTGTTACAG
15141566 ATGCAAATTTTT-TTAA
1 ATGCAAATTTTTATTAA
*
15141582 ATGCAATTTTTTATTAA
1 ATGCAAATTTTTATTAA
15141599 AT
1 AT
15141601 TTGTATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
ATGCAAATTTTTATTAA
Found at i:15145781 original size:28 final size:28
Alignment explanation
Indices: 15145739--15145811 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
15145729 GCCCCTTTAG
*
15145739 GCCCAATCTCATTCATATGGCCCATCAA
1 GCCCAATCACATTCATATGGCCCATCAA
* *
15145767 GCCCAATCACTTTCATATGGCCCGTCAA
1 GCCCAATCACATTCATATGGCCCATCAA
15145795 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
15145812 GTCATGGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.36, G:0.11, T:0.25
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAA
Found at i:15148514 original size:13 final size:13
Alignment explanation
Indices: 15148496--15148520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15148486 TGAAGATGAC
15148496 ATAAAATAAGATG
1 ATAAAATAAGATG
15148509 ATAAAATAAGAT
1 ATAAAATAAGAT
15148521 TATATTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATAAAATAAGATG
Found at i:15154121 original size:2 final size:2
Alignment explanation
Indices: 15154114--15154158 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15154104 TGATTAATGC
15154114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15154156 TA T
1 TA T
15154159 TTGCATTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15160919 original size:71 final size:71
Alignment explanation
Indices: 15160813--15160975 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
15160803 GAGATGTATC
15160813 CCATGTAGACAAGAGAGC-ACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15160877 AGGACA
66 AGGACA
15160883 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15160948 AGGACA
66 AGGACA
*
15160954 CCATCTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15160976 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 18 0.20
71 73 0.80
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15164700 original size:41 final size:40
Alignment explanation
Indices: 15164573--15164717 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
15164563 CTCGCACAAG
* * * *
15164573 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
15164613 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
15164653 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
15164694 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
15164718 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:15166973 original size:49 final size:49
Alignment explanation
Indices: 15166913--15167121 Score: 332
Period size: 49 Copynumber: 4.3 Consensus size: 49
15166903 GTATGAGATA
15166913 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
15166962 TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
15167011 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * *
15167060 TATATATGTGATAAGGCCTAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
15167107 TATAAATGTGATAAG
1 TATATATGTGATAAG
15167122 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 17 0.11
49 133 0.89
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:15169406 original size:2 final size:2
Alignment explanation
Indices: 15169399--15169426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15169389 ATGTGCAAAC
15169399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15169427 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15170554 original size:17 final size:17
Alignment explanation
Indices: 15170532--15170569 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
15170522 CATTAGCCAG
*
15170532 TGTGTGACACATAATCA
1 TGTGTGACACACAATCA
15170549 TGTGTGACACACAATCA
1 TGTGTGACACACAATCA
15170566 TGTG
1 TGTG
15170570 CCAAACTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
TGTGTGACACACAATCA
Found at i:15175107 original size:27 final size:27
Alignment explanation
Indices: 15175069--15175127 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
15175059 ATTTGGTAAC
15175069 ACTGAACAAGCCTCAAGTTGATAAGAT
1 ACTGAACAAGCCTCAAGTTGATAAGAT
15175096 ACTGAACAAGCCTCAAGTTGATAAGAT
1 ACTGAACAAGCCTCAAGTTGATAAGAT
15175123 -CTGAA
1 ACTGAA
15175128 AACAAGGGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
ACTGAACAAGCCTCAAGTTGATAAGAT
Found at i:15180267 original size:14 final size:14
Alignment explanation
Indices: 15180248--15180277 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15180238 AGTAAATCAT
15180248 AATAAACAACATAA
1 AATAAACAACATAA
15180262 AATAAACAACATAA
1 AATAAACAACATAA
15180276 AA
1 AA
15180278 CAACAAAAAA
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:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
AATAAACAACATAA
Found at i:15185804 original size:40 final size:40
Alignment explanation
Indices: 15185759--15185888 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
15185749 CGGAATACAA
15185759 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
15185799 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
15185839 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
15185879 CCGGATATAA
1 CCGGATATAA
15185889 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:15185903 original size:40 final size:40
Alignment explanation
Indices: 15185759--15185922 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
15185749 CGGAATACAA
* **
15185759 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
15185799 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
15185839 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
15185879 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
15185919 CCGG
1 CCGG
15185923 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:15193833 original size:40 final size:40
Alignment explanation
Indices: 15193788--15193916 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
15193778 CGGAATACAA
15193788 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
15193828 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
15193868 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
15193907 CCGGATATAA
1 CCGGATATAA
15193917 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 11 0.15
40 64 0.85
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:15196698 original size:39 final size:37
Alignment explanation
Indices: 15196593--15196700 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 37
15196583 TATACCGACG
*
15196593 TGCACGAATGCCTCTCGGGTCTTAGCCCGGATGAATAC
1 TGCACGAATGCCT-TCGGGTCTTAGCCCGGATGAACAC
* *
15196631 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGCCAC
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGA-ACAC
*
15196669 TAGCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 T-GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
15196701 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
37 19 0.30
38 18 0.29
39 26 0.41
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (37 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATGAACAC
Found at i:15201825 original size:40 final size:40
Alignment explanation
Indices: 15201780--15201909 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
15201770 CGGAATACAA
15201780 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
15201820 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
15201860 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
15201900 CCGGATATAA
1 CCGGATATAA
15201910 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:15201924 original size:40 final size:40
Alignment explanation
Indices: 15201780--15201943 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
15201770 CGGAATACAA
* **
15201780 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
15201820 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
15201860 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
15201900 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
15201940 CCGG
1 CCGG
15201944 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:15209860 original size:40 final size:40
Alignment explanation
Indices: 15209815--15209944 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
15209805 CGGAATACAA
15209815 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
15209855 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
15209895 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
15209935 CCGGATATAA
1 CCGGATATAA
15209945 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:15209959 original size:40 final size:40
Alignment explanation
Indices: 15209815--15209978 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
15209805 CGGAATACAA
* **
15209815 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
15209855 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
15209895 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
15209935 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
15209975 CCGG
1 CCGG
15209979 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:15212814 original size:12 final size:12
Alignment explanation
Indices: 15212797--15212832 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15212787 GCCACTTCTT
*
15212797 AAATATTTATAA
1 AAATATTTACAA
15212809 AAATATTTACAA
1 AAATATTTACAA
15212821 AAATATTTACAA
1 AAATATTTACAA
15212833 CTCAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATTTACAA
Found at i:15222195 original size:24 final size:24
Alignment explanation
Indices: 15222144--15222332 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
15222134 GCTTTATCAT
*
15222144 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
15222169 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15222193 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
15222216 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
15222240 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
15222264 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15222287 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15222310 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
15222333 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 68 0.44
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:15222219 original size:23 final size:23
Alignment explanation
Indices: 15222165--15222331 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
15222155 CCTAGCCTCT
*
15222165 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
15222188 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
15222212 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
15222235 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
15222259 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
15222283 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
15222306 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
15222329 TTT
1 TTT
15222332 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:15222219 original size:47 final size:47
Alignment explanation
Indices: 15222165--15222332 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
15222155 CCTAGCCTCT
*
15222165 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
15222212 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
15222259 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
15222306 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
15222333 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.19
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:15222244 original size:71 final size:71
Alignment explanation
Indices: 15222144--15222332 Score: 310
Period size: 71 Copynumber: 2.7 Consensus size: 71
15222134 GCTTTATCAT
* *
15222144 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
15222208 GCCCTTTA
64 GCCCTTTA
* *
15222216 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
15222281 CCTTTA
66 CCTTTA
15222287 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
15222333 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
70 26 0.23
71 73 0.66
72 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:15222404 original size:9 final size:9
Alignment explanation
Indices: 15222390--15222446 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
15222380 ATCTCATGTG
15222390 CATATCATA
1 CATATCATA
*
15222399 CATATCATGTG
1 CATATCA--TA
15222410 CATATCATA
1 CATATCATA
* *
15222419 CATGTCATGTG
1 CATATCA--TA
15222430 CATATCATA
1 CATATCATA
15222439 CATATCAT
1 CATATCAT
15222447 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:15222406 original size:20 final size:20
Alignment explanation
Indices: 15222378--15222448 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
15222368 GCATTTATGA
*
15222378 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
15222398 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
15222418 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
15222438 ACATATCATGT
1 ACATATCATGT
15222449 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:15222413 original size:11 final size:11
Alignment explanation
Indices: 15222383--15222437 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
15222373 TATGAACATC
15222383 TCATGTGCATA
1 TCATGTGCATA
*
15222394 TCA--TACATA
1 TCATGTGCATA
15222403 TCATGTGCATA
1 TCATGTGCATA
* *
15222414 TCA--TACATG
1 TCATGTGCATA
15222423 TCATGTGCATA
1 TCATGTGCATA
15222434 TCAT
1 TCAT
15222438 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:15222513 original size:25 final size:25
Alignment explanation
Indices: 15222485--15222532 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15222475 ATATATAAAC
* *
15222485 CCTAGGGGTATAATGGTCATTTTGA
1 CCTAGGGGCAAAATGGTCATTTTGA
15222510 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
15222533 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTGA
Found at i:15223787 original size:27 final size:27
Alignment explanation
Indices: 15223767--15224298 Score: 579
Period size: 27 Copynumber: 19.7 Consensus size: 27
15223757 AGGGTATTTT
*
15223767 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15223794 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15223821 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15223848 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15223875 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15223902 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
15223929 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * * *
15223956 GGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
15223983 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
15224010 GGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
15224037 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15224064 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15224091 ATTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15224118 AATAATTCTGTAAA-CTGAGGATAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
15224145 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
15224172 GGTAATTTTACAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15224199 GGTAATTCTATAAATCGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
15224226 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15224253 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
15224280 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
15224299 AGTACTTTGG
Statistics
Matches: 437, Mismatches: 58, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 429 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:15224313 original size:54 final size:54
Alignment explanation
Indices: 15223768--15224298 Score: 638
Period size: 54 Copynumber: 9.8 Consensus size: 54
15223758 GGGTATTTTA
* * * *
15223768 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
15223822 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
15223876 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
15223930 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
15223984 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
15224038 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * ** *
15224092 TTAATTTTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
* ** *
15224146 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * ** *
15224200 GTAATTCTATAAATCGAAGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
15224254 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAG
15224299 AGTACTTTGG
Statistics
Matches: 408, Mismatches: 62, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
53 3 0.01
54 403 0.99
55 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:15224319 original size:81 final size:81
Alignment explanation
Indices: 15223768--15224298 Score: 656
Period size: 81 Copynumber: 6.6 Consensus size: 81
15223758 GGGTATTTTA
* * *
15223768 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
15223833 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * *
15223849 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
* *
15223914 AATCGGGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * ** *
15223930 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTGT
1 GTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
15223994 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * **
15224011 GTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
15224076 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * ** * *
15224092 TTAATTTTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGATAAAACGGTAATTCTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTAT
15224156 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
** * * * * *
15224173 GTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
15224238 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* *
15224254 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAG
15224299 AGTACTTTGG
Statistics
Matches: 388, Mismatches: 55, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
80 3 0.01
81 382 0.98
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:15225254 original size:12 final size:13
Alignment explanation
Indices: 15225226--15225252 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15225216 ATAATAAAGG
15225226 TTAAGTTAAAATT
1 TTAAGTTAAAATT
15225239 TTAAGTTAAAATT
1 TTAAGTTAAAATT
15225252 T
1 T
15225253 AATAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAAGTTAAAATT
Found at i:15225826 original size:2 final size:2
Alignment explanation
Indices: 15225819--15225853 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15225809 ATTTATCTAT
15225819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15225854 CAAGGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15228375 original size:54 final size:54
Alignment explanation
Indices: 15228271--15228426 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 54
15228261 AGAATACTTT
* ** * *
15228271 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCC
* * * * * *
15228324 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAA-TACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCCC
*** * *
15228378 AGTTTACAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTA
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACCAAAGTA
15228427 TCCTCGAATT
Statistics
Matches: 80, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
53 22 0.28
54 55 0.69
55 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCC
Found at i:15228441 original size:27 final size:27
Alignment explanation
Indices: 15228279--15228501 Score: 125
Period size: 27 Copynumber: 8.3 Consensus size: 27
15228269 TTAGTTTACC
* * * *
15228279 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTCAAATACCCTCGATTTATA
* *
15228305 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTCAAA-TACCCTCGATTTATA
* * *
15228332 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTATA
* *
15228359 AAATTACTGAAATACCCTC-AGTTTACA
1 AAATTACTCAAATACCCTCGA-TTTATA
* * ** *
15228386 AAATTATTGAAATACCCTCGACATGTA
1 AAATTACTCAAATACCCTCGATTTATA
* *
15228413 AAATTA-TCAAAGTATCCTCGAATTATAA
1 AAATTACTCAAA-TACCCTCGATTTAT-A
** *
15228441 AAATTACT-ATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTATA
** *
15228468 AAATTACT-ATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTATA
*
15228495 GAATTAC
1 AAATTAC
15228502 CGTTTTACCC
Statistics
Matches: 158, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 17 0.11
27 113 0.72
28 24 0.15
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTATA
Found at i:15228507 original size:27 final size:27
Alignment explanation
Indices: 15228440--15228538 Score: 153
Period size: 27 Copynumber: 3.7 Consensus size: 27
15228430 TCGAATTATA
*
15228440 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
*
15228467 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
* * *
15228494 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
15228521 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
15228539 CTAGGGTGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAATTACCATTTTACCCTCGATTTAC
Found at i:15228887 original size:67 final size:67
Alignment explanation
Indices: 15228760--15228892 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 67
15228750 AAGCGTTCTG
* * *
15228760 GCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAATATC
1 GCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACCTAGCCACAATATC
15228825 TA
66 TA
* * * * *
15228827 GCAGCCTCGCTGCAATCTGGTGGCTTCGCCATATATATCTTTTCTAGTGGCCTAGCCACAATATC
1 GCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACCTAGCCACAATATC
15228892 T
66 T
15228893 GTATCTGGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (67 bp):
GCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACCTAGCCACAATATC
TA
Found at i:15229073 original size:31 final size:31
Alignment explanation
Indices: 15229038--15229114 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
15229028 TTGCATTCAT
* *
15229038 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
15229069 ATTCTGGTTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
15229100 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
15229115 ATAGTTCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:15229079 original size:6 final size:6
Alignment explanation
Indices: 15229038--15229114 Score: 68
Period size: 6 Copynumber: 12.5 Consensus size: 6
15229028 TTGCATTCAT
* * *
15229038 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG GTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
15229087 -TCACCTG ATTCTG ATTCTG ATTCTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATT
15229115 ATAGTTCTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:15231151 original size:27 final size:27
Alignment explanation
Indices: 15231053--15231222 Score: 132
Period size: 27 Copynumber: 6.3 Consensus size: 27
15231043 TTAGTTTACC
* * *
15231053 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
15231079 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* *
15231106 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
15231133 AAATTACTGAAATACCCTC-AGTTTGCA
1 AAATTACTCAAATACCCTCGA-TTTGTA
* * **
15231160 AAATTATTGAAATACCCTCGACATGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
15231187 AAATTA-TCAAAGTACCCTCGAATTATAA
1 AAATTACTCAAA-TACCCTCGATTTGT-A
15231215 AAATTACT
1 AAATTACT
15231223 ATTTTACCCT
Statistics
Matches: 115, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.03
26 17 0.15
27 82 0.71
28 12 0.10
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:15231163 original size:54 final size:55
Alignment explanation
Indices: 15231045--15231205 Score: 150
Period size: 54 Copynumber: 3.0 Consensus size: 55
15231035 AGAATACTTT
* ** * * *
15231045 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTAC-CAAAGTACCCCC
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACTCAAAGTACCCTC
* * * * *
15231098 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAA-TACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACTCAAAGTACCCTC
* *** *
15231152 AGTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTA-TCAAAGTACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACTCAAAGTACCCTC
15231206 GAATTATAAA
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
53 23 0.27
54 59 0.69
55 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (55 bp):
AGTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTACTCAAAGTACCCTC
Found at i:15231251 original size:27 final size:27
Alignment explanation
Indices: 15231199--15231339 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 27
15231189 ATTATCAAAG
15231199 TACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCG-ATT-TACAAAATTACTATTT
*
15231227 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
15231254 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
15231281 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
15231308 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
15231335 TACCC
1 TACCC
15231340 CTAGGGTGTT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 2 0.02
27 92 0.90
28 8 0.08
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:15231289 original size:54 final size:54
Alignment explanation
Indices: 15231199--15231339 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
15231189 ATTATCAAAG
*
15231199 TACCCTCGAATTATA-AAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTC-AATT-TACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* *
15231254 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
*
15231308 TACCCTCAATTTACAAAATTACCATTTTACCC
1 TACCCTCAATTTACAAAATTACTATTTTACCC
15231340 CTAGGGTGTT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 2 0.03
54 71 0.89
55 7 0.09
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:15231620 original size:27 final size:26
Alignment explanation
Indices: 15231576--15231626 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
15231566 CTCGCTGCAA
*
15231576 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
15231603 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
15231627 GGCAGCCTCG
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:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:15231879 original size:6 final size:6
Alignment explanation
Indices: 15231848--15231935 Score: 81
Period size: 6 Copynumber: 14.3 Consensus size: 6
15231838 TTGCATTCAC
* *
15231848 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
15231896 ATCACTTG ATTCTG ATTCTG ATTCTG ATTATA ATTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
15231936 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 5 0.08
8 3 0.05
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15231883 original size:31 final size:31
Alignment explanation
Indices: 15231848--15231924 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
15231838 TTGCATTCAC
* * *
15231848 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* *
15231879 ATTCTGATTCTGATTCTATCACTTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
15231910 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
15231925 ATAATTCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:15234349 original size:38 final size:38
Alignment explanation
Indices: 15234288--15234465 Score: 173
Period size: 38 Copynumber: 4.6 Consensus size: 38
15234278 ATTTGATGTG
*
15234288 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGAATTA
*
15234328 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
* * * * *
15234366 TATCCAGGTTAAATCCAGCAGGCTTCGTGCTTGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* *
15234404 TATCCGGGTTAAATCCCGTAGGCTT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGAATTA
* *
15234442 TATCCGAGCTTAAAGTCCCACAGG
1 TATCCG-GGTTAAA-TCCCGCAGG
15234466 TTTTGTGCTG
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.02
38 88 0.75
39 13 0.11
40 15 0.13
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:15236989 original size:29 final size:29
Alignment explanation
Indices: 15236956--15237020 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
15236946 GTGACGAGAT
15236956 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15236985 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
15237014 CGGCACT
1 TGGCACT
15237021 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:15245017 original size:29 final size:29
Alignment explanation
Indices: 15244984--15245048 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
15244974 GTGACGAGAT
15244984 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15245013 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
15245042 CGGCACT
1 TGGCACT
15245049 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:15250881 original size:50 final size:49
Alignment explanation
Indices: 15250763--15250892 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 49
15250753 CCGGTACGCA
* * **
15250763 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACG
* *
15250812 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATCTAATACACG
15250862 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
15250893 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACG
Done.