Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 144 of 325
Found at i:46466031 original size:16 final size:16
Alignment explanation
Indices: 46466010--46466040 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46466000 ATAAATTTGA
46466010 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
46466026 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
46466041 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:46467155 original size:55 final size:54
Alignment explanation
Indices: 46467050--46467250 Score: 205
Period size: 55 Copynumber: 3.7 Consensus size: 54
46467040 GGGTTTAAGA
* * * *
46467050 ATACCATGTAAGAACATGCCAAGGCATGGTAATTGGTAAGGTTTCT--AAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGG-CATTGATAA-G-TTCTAGAAGGCAAGG
*
46467105 ATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTAGAAGGCAAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTAGAAGGC-AAGG
* * * *
46467161 -TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATG-AGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA-GAAGGCAAGG
* * *
46467213 ATACCATGTAAGACCATGTCGAGACATGGCAATGATAA
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGATAA
46467251 TTTCAAAAGG
Statistics
Matches: 123, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 6 0.05
53 38 0.31
54 9 0.07
55 66 0.54
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTAGAAGGCAAGG
Found at i:46467249 original size:108 final size:110
Alignment explanation
Indices: 46467053--46467250 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
46467043 TTTAAGAATA
46467053 CCATGTAAGAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
46467118 CCATGTCAAGACATGGCATTGATAAGTTACTAGAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
* * * *
46467163 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATGAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
46467225 ACCATGTCGAGACATGGCAATGATAA
65 ACCATGTCAAGACATGGCAATGATAA
46467251 TTTCAAAAGG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
Found at i:46467513 original size:16 final size:16
Alignment explanation
Indices: 46467492--46467522 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46467482 ATAAATTTGA
46467492 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
46467508 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
46467523 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:46468637 original size:55 final size:54
Alignment explanation
Indices: 46468578--46468737 Score: 200
Period size: 55 Copynumber: 3.0 Consensus size: 54
46468568 TAAGGTTTCT
46468578 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-ACTAG
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA-T-G
* * * * *
46468633 AAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATG
1 AAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATG
* * *
46468687 -AGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGATAATTTCA
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
46468738 AAAGGATACC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.04
53 38 0.43
54 1 0.01
55 41 0.46
56 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATG
Found at i:46468731 original size:108 final size:110
Alignment explanation
Indices: 46468535--46468732 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
46468525 TTTAAGAATA
46468535 CCATGTAAGAACATCCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGAACATCCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
46468600 CCATGTCAAGACATGGCATTGATAAGTTACTAGAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
* * * * *
46468645 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATGAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATCCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
46468707 ACCATGTCGAGACATGGCAATGATAA
65 ACCATGTCAAGACATGGCAATGATAA
46468733 TTTCAAAAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATCCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
Found at i:46468995 original size:16 final size:16
Alignment explanation
Indices: 46468974--46469004 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46468964 ATAAATTTGA
46468974 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
46468990 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
46469005 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:46473629 original size:23 final size:23
Alignment explanation
Indices: 46473591--46473649 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
46473581 TGGGGTTTTG
46473591 GGCC-AGGCC-ATGTGATCCATAC
1 GGCCAAGGCCAAT-TGATCCATAC
46473613 GGCCAAGGCCAATTGATCCATAC
1 GGCCAAGGCCAATTGATCCATAC
*
46473636 AGCCAAGGCCAATT
1 GGCCAAGGCCAATT
46473650 TGGGCCGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 4 0.12
23 28 0.82
24 2 0.06
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.17
Consensus pattern (23 bp):
GGCCAAGGCCAATTGATCCATAC
Found at i:46476534 original size:39 final size:40
Alignment explanation
Indices: 46476473--46476580 Score: 157
Period size: 39 Copynumber: 2.7 Consensus size: 40
46476463 TATTCGGATG
* *
46476473 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
46476513 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
46476552 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
46476581 AACAAGTAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 35 0.58
40 25 0.42
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:46476602 original size:39 final size:40
Alignment explanation
Indices: 46476479--46476613 Score: 145
Period size: 39 Copynumber: 3.4 Consensus size: 40
46476469 GATGATAACT
*
46476479 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCC
* *
46476519 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC
**
46476558 GGGCTAAGTCCCGAAGGCATTTGAACAAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCC
* *
46476598 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
46476614 TACTTGGTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
39 48 0.59
40 34 0.41
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCC
Found at i:46483697 original size:79 final size:80
Alignment explanation
Indices: 46483566--46483713 Score: 246
Period size: 79 Copynumber: 1.9 Consensus size: 80
46483556 TATTCGGATG
* *
46483566 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
46483630 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
46483645 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
46483709 ATTTG
65 ATTTG
46483714 AGCAAGTAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 2 0.03
79 48 0.75
80 14 0.22
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:46483727 original size:40 final size:40
Alignment explanation
Indices: 46483566--46483713 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
46483556 TATTCGGATG
* *
46483566 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46483606 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
46483645 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
46483685 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
46483714 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
39 35 0.35
40 66 0.65
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46483744 original size:79 final size:79
Alignment explanation
Indices: 46483574--46483746 Score: 190
Period size: 79 Copynumber: 2.2 Consensus size: 79
46483564 TGATAACCGG
* * * * *
46483574 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCAA
**
46483639 GTTACTATAACCGG
66 GTTACTATAACCAA
* *
46483653 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
1 GCTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAGC
*
46483717 AAG-TAGCTAT-ATCAA
64 AAGTTA-CTATAACCAA
* *
46483732 GTTAAATTCCGAAGG
1 GCTAAATCCCGAAGG
46483747 TACTTGGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 2 0.03
79 56 0.70
80 22 0.28
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCAA
GTTACTATAACCAA
Found at i:46488870 original size:33 final size:33
Alignment explanation
Indices: 46488823--46488887 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
46488813 TGTTTCTGAG
*
46488823 ATTGTATCTGAATGGGCTAAGGCCCAAATTGAT
1 ATTGTATCTAAATGGGCTAAGGCCCAAATTGAT
46488856 ATTGTATCTAAATGGGCTAAGGCCCAAATTGA
1 ATTGTATCTAAATGGGCTAAGGCCCAAATTGA
46488888 CTCTGTAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (33 bp):
ATTGTATCTAAATGGGCTAAGGCCCAAATTGAT
Found at i:46490413 original size:24 final size:25
Alignment explanation
Indices: 46490364--46490413 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
46490354 ACCCTTCTCA
*
46490364 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTGTTC
*
46490389 TCTCTTCA-TTCATTTC-CATTGTTC
1 TCTCTTCACTTC-TCTCTCATTGTTC
46490413 T
1 T
46490414 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.10, C:0.32, G:0.02, T:0.56
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTGTTC
Found at i:46499082 original size:6 final size:6
Alignment explanation
Indices: 46499066--46499108 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
46499056 CCCAAAAGAA
* *
46499066 AATTTT CATTTT AATTTT AATTTT -ATTTCC AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTTT AATTTT A
46499109 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:46500561 original size:19 final size:19
Alignment explanation
Indices: 46500539--46500578 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46500529 ATCTTATCTC
46500539 ATTCA-TTCCATTTAGATTA
1 ATTCATTTCCATTTAG-TTA
*
46500558 ATTCATTTGCATTTAGTTA
1 ATTCATTTCCATTTAGTTA
46500577 AT
1 AT
46500579 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTCATTTCCATTTAGTTA
Found at i:46504725 original size:23 final size:23
Alignment explanation
Indices: 46504694--46504737 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
46504684 AGTTTAATTA
*
46504694 ATTTTGGGTTAGGGTTTTTTAGG
1 ATTTAGGGTTAGGGTTTTTTAGG
*
46504717 ATTTAGGGTTATGGTTTTTTA
1 ATTTAGGGTTAGGGTTTTTTA
46504738 ATGATAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (23 bp):
ATTTAGGGTTAGGGTTTTTTAGG
Found at i:46504901 original size:19 final size:19
Alignment explanation
Indices: 46504851--46504940 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
46504841 AGTTTAGGGT
46504851 ATTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
46504870 ATT-AGG--GATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
46504886 ATTAAGGCTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
46504905 ATTTAAGGTTAATTGATTAA
1 A-TTAAGGTTAATTGATTAA
* *
46504925 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
46504941 ACATAATGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
16 12 0.19
17 3 0.05
18 3 0.05
19 27 0.44
20 17 0.27
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (19 bp):
ATTAAGGTTAATTGATTAA
Found at i:46504937 original size:39 final size:35
Alignment explanation
Indices: 46504851--46504940 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 35
46504841 AGTTTAGGGT
*
46504851 ATTAAGGTTAATTGATTAAATTAGGGATTGATTAA
1 ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
*
46504886 ATTAAGGCTAATTGATTAAATTTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAAA-TT-AGG--AATTGATTAA
* *
46504925 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
46504941 ACATAATGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 19 0.41
36 2 0.04
37 3 0.07
39 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (35 bp):
ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
Found at i:46505693 original size:126 final size:126
Alignment explanation
Indices: 46505467--46505721 Score: 386
Period size: 126 Copynumber: 2.0 Consensus size: 126
46505457 TTTCTACAAG
* *
46505467 AATAATTTTGAGTAGACGTTTTAGAATAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTTAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
* *
46505532 AGCAAAATTTCTAAAAAAAGCTCCCACGTAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
66 AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
* * *
46505593 AATAATTCTGAGTAGACGTTTCT-GAACAAATAGTGTGGAAAACGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTT-TAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTAT
* ** * *
46505657 CAACAAAATTTCTGAAAAAAGCTCCCACATTTACGCTCTTTTGCTACAGTGGTTCGTAGAAA
65 CAACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
46505719 AAT
1 AAT
46505722 GAGGCTATAA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 115 0.99
127 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTTAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
Found at i:46508761 original size:17 final size:17
Alignment explanation
Indices: 46508739--46508773 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46508729 AGGAAAAGGA
*
46508739 AACATATAAGGGTTAGG
1 AACATATAAGGGCTAGG
46508756 AACATATAAGGGCTAGG
1 AACATATAAGGGCTAGG
46508773 A
1 A
46508774 TACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (17 bp):
AACATATAAGGGCTAGG
Found at i:46509381 original size:7 final size:7
Alignment explanation
Indices: 46509371--46509396 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46509361 CATAATACAT
46509371 AATACTA
1 AATACTA
46509378 AATACTA
1 AATACTA
46509385 AATACTA
1 AATACTA
46509392 AATAC
1 AATAC
46509397 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:46510511 original size:49 final size:47
Alignment explanation
Indices: 46510373--46510506 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 47
46510363 ATGCAAACAT
* **
46510373 CATAAATGAA-AAAAAATCAAGCAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAATAAAATATCAAATAGTATTGAAA-TTTAATTATAATTG
*
46510420 CATAAATGAATAAAATATCAAATAGTGTTTGCAAATTTAATTA-AATTTG
1 CATAAATGAATAAAATATCAAATAGT-ATTG-AAATTTAATTATAA-TTG
* **
46510469 CATAAATTAA-AAAATATTGAATAGTATTGAAAATTTAA
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTAA
46510507 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
47 21 0.28
48 27 0.36
49 23 0.31
50 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (47 bp):
CATAAATGAATAAAATATCAAATAGTATTGAAATTTAATTATAATTG
Found at i:46510656 original size:11 final size:11
Alignment explanation
Indices: 46510640--46510715 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 11
46510630 ATTTAAACAA
46510640 AGAATTTTGAT
1 AGAATTTTGAT
*
46510651 AGAATTTTGAG
1 AGAATTTTGAT
* **
46510662 AAAATTTCAAT
1 AGAATTTTGAT
46510673 -GAATTTTGAT
1 AGAATTTTGAT
* *
46510683 AGATTTTTGAAG
1 AGAATTTTG-AT
* *
46510695 AGAATATTGAA
1 AGAATTTTGAT
*
46510706 AGAATATTGA
1 AGAATTTTGA
46510716 GAATTATGAG
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
10 7 0.14
11 35 0.70
12 8 0.16
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.38
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:46512031 original size:23 final size:24
Alignment explanation
Indices: 46512005--46512051 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
46511995 ATATTAAACC
*
46512005 TTAAAATTAACAAA-AAAA-AAAAG
1 TTAAAAGTAA-AAATAAAATAAAAG
46512028 TTAAAAGTAAAAATAAAATAAAAG
1 TTAAAAGTAAAAATAAAATAAAAG
46512052 ACAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 13 0.62
24 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
TTAAAAGTAAAAATAAAATAAAAG
Found at i:46512306 original size:30 final size:31
Alignment explanation
Indices: 46512237--46512302 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
46512227 AAGGTTATAA
* *
46512237 TAAATTTTAAATTTTGTTATTTTCTGTATATT
1 TAAAATTT-AATTTTGTTATTTTATGTATATT
* *
46512269 TAGAATTTAATTTT-TTATTTTATTTA-ATT
1 TAAAATTTAATTTTGTTATTTTATGTATATT
46512298 TAAAA
1 TAAAA
46512303 ATTTCAGTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 7 0.24
30 10 0.34
31 6 0.21
32 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (31 bp):
TAAAATTTAATTTTGTTATTTTATGTATATT
Found at i:46516085 original size:12 final size:12
Alignment explanation
Indices: 46516036--46516087 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
46516026 TGGTATTTGA
46516036 TTTTTTTATATATT
1 TTTTTTTA-AT-TT
46516050 TTTTTTTAATTT
1 TTTTTTTAATTT
** *
46516062 TGTACTTAAATTT
1 T-TTTTTTAATTT
46516075 TTTTTTTAATTT
1 TTTTTTTAATTT
46516087 T
1 T
46516088 ATATATCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 12 0.39
13 11 0.35
14 8 0.26
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTTTAATTT
Found at i:46522442 original size:30 final size:30
Alignment explanation
Indices: 46522367--46522492 Score: 144
Period size: 30 Copynumber: 4.0 Consensus size: 30
46522357 AAATATTGAA
* *
46522367 TCTTCCGAAGCTCCTGAACGAGATATCAAG
1 TCTTCCCAAGCTCCTGAACGAGATATCGAG
*
46522397 TTTTCTCAATCCCAAGCTCCTGAACGCGATATCGAG
1 ---TCT---TCCCAAGCTCCTGAACGAGATATCGAG
46522433 TCTTCCCAAGCTCCTGAACGAGATATCGAG
1 TCTTCCCAAGCTCCTGAACGAGATATCGAG
* * *
46522463 TCTTCTCAAGTTCTTGAACGAGATATCGAG
1 TCTTCCCAAGCTCCTGAACGAGATATCGAG
46522493 AATTATAATG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
30 53 0.64
33 6 0.07
36 24 0.29
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (30 bp):
TCTTCCCAAGCTCCTGAACGAGATATCGAG
Found at i:46526059 original size:6 final size:6
Alignment explanation
Indices: 46526048--46526077 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
46526038 TTCAACCTTT
46526048 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
46526078 TTAGTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:46526224 original size:35 final size:35
Alignment explanation
Indices: 46526172--46526251 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
46526162 GAAAAAAAAT
* *
46526172 TTGCCTTAAATGTGTCTATCCCAA-CCTTTTGAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTT-AAGG
* *
46526207 TTGCCTTAGATGGGTCTATTCTAACCCTTTTAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
46526242 TTGCCTTAGA
1 TTGCCTTAGA
46526252 ACCTATCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (35 bp):
TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
Found at i:46526271 original size:35 final size:35
Alignment explanation
Indices: 46526186--46526272 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
46526176 CTTAAATGTG
** *
46526186 TCTATCCCAACCTTTTGAAGGTTGCCTTAGATGGG
1 TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
* * *
46526221 TCTATTCTAACCCTTTT-AAGGTTGCCTTAGAACCTA
1 TCTATCCCAA-CCTTTTGAAGGTTGCCTTAG-ACCGA
46526257 TCTATCCCAACCTTTT
1 TCTATCCCAACCTTTT
46526273 TAACGTCACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 27 0.64
36 15 0.36
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (35 bp):
TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
Found at i:46527810 original size:18 final size:18
Alignment explanation
Indices: 46527778--46527827 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
46527768 TTCTTTTACA
*
46527778 ATTTTTATGATTTTTTAAT
1 ATTTTTAT-ATTTTTCAAT
*
46527797 ATTTTTACTATTTTTCATT
1 ATTTTTA-TATTTTTCAAT
46527816 ATTTTTATATTT
1 ATTTTTATATTT
46527828 AAAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTATATTTTTCAAT
Found at i:46527822 original size:28 final size:27
Alignment explanation
Indices: 46527721--46527827 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 27
46527711 TTATAATTCA
* *
46527721 ATTTTTAT-ATTTTTATATGTTTATATATT
1 ATTTTTATAATTTTTA-ATATTT-T-TACT
* *
46527750 ATTTTTAATAATTTATAAT-TCTTTTACA
1 ATTTTT-ATAATTTTTAATAT-TTTTACT
*
46527778 ATTTTTATGATTTTTTAATATTTTTACT
1 ATTTTTAT-AATTTTTAATATTTTTACT
*
46527806 ATTTTTCATTATTTTT-ATATTT
1 ATTTTT-ATAATTTTTAATATTT
46527828 AAAAAATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
27 8 0.12
28 33 0.52
29 11 0.17
30 6 0.09
31 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTATAATTTTTAATATTTTTACT
Found at i:46535175 original size:3 final size:3
Alignment explanation
Indices: 46535169--46535218 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
46535159 AATAATAATA
46535169 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46535217 AT
1 AT
46535219 ATTTTCATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46536180 original size:116 final size:116
Alignment explanation
Indices: 46536043--46536475 Score: 440
Period size: 116 Copynumber: 3.8 Consensus size: 116
46536033 GTTCTGTTCA
* *
46536043 TGTTTTCTGTTTCCAGTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGA-GTTTTC
*
46536108 GGG-TTTCCATTTCATTTCTTTCAAGTGTCTGGTCTTTATAATG-TCCGATCG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * ** * *** * *
46536159 TATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTCCATGGGTTGAAAGGAGTGACTTTTCC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTT-C
* * *
46536224 GGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTATAA-GTTCCGTTG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
* * *
46536274 TTGTTTTCTGTTT-C----CATT-T-CATTTTGCATTTTTCATCCACTAAATGGAGTGAGTTTTT
1 -TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAG-TTTT
* * * * * * *
46536332 TGGGTTTTCTAGTTCATTGCTTTCAAATGTCTGCTCTTTGT-ATGTTCTGTTCG
64 CGGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * *
46536385 TGTTTTCTGATTCCATTTCATTGTACATTTTGCATTTTCTATTCATTGAATGGAGTGAGTTTTTG
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
*
46536450 GGTTTTCCAATTCATTGCTTTCAAGT
66 GGTTTTCCATTTCATTGCTTTCAAGT
46536476 ACTCTTCATA
Statistics
Matches: 254, Mismatches: 49, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
109 27 0.11
110 50 0.20
111 7 0.03
115 12 0.05
116 129 0.51
117 29 0.11
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (116 bp):
TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
GGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
Found at i:46536442 original size:226 final size:225
Alignment explanation
Indices: 46536068--46536475 Score: 498
Period size: 226 Copynumber: 1.8 Consensus size: 225
46536058 GTTCATTGTA
* * * * *
46536068 CATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTCGGGTTTCCATTTCATTTCTTTCAAG
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
* * * * *
46536133 TGTCTGGTCTTTATAATGTCCGATCGTATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTC
66 TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
** *
46536198 CATGGGTTGAAAGGAGTGACTTTTCCGGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTA
131 CATGCATTGAAAGGAGTGACTTTT-CGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTA
46536262 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
195 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
* * * *
46536293 CATTTTGCATTTTTCATCCACTAAATGGAGTGA-GTTTTTTGGGTTTTCTAGTTCATTGCTTTCA
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATG-TTTTCGGG-TTTCCAGTTCATTGCTTTCA
* * * * * *
46536357 AATGTCTGCTCTTTGT-ATGTTCTGTTCGTGTTTTCTGATTCCATTTCATTGTACATTTTGCATT
64 AATGTCTGCTCTTTATAATG-TCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATT
* * * * * *
46536421 TTCTATTCATTGAATGGAGTGAGTTTTTGGGTTTTCCAATTCATTGCTTTCAAGT
128 TTCCATGCATTGAAAGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGT
46536476 ACTCTTCATA
Statistics
Matches: 150, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
224 1 0.01
225 42 0.28
226 107 0.71
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (225 bp):
CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
CATGCATTGAAAGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTAT
AAGTTCCGTTGTTGTTTTCTGTTTCCATTT
Found at i:46542432 original size:21 final size:20
Alignment explanation
Indices: 46542394--46542437 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
46542384 ATTTACCTTG
** *
46542394 TTCAGATTGTTGAGGTTCTGT
1 TTCAGATTGCCGAAGTTCT-T
46542415 TTCAGATTGCCGAAGTTCTT
1 TTCAGATTGCCGAAGTTCTT
46542435 TTC
1 TTC
46542438 CAGGATCCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (20 bp):
TTCAGATTGCCGAAGTTCTT
Found at i:46543676 original size:31 final size:31
Alignment explanation
Indices: 46543636--46543705 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
46543626 AGACTATTTG
46543636 GTACCTGAGTTTCG-CATTAATGTTCAATTAA
1 GTACCTGAGTTT-GACATTAATGTTCAATTAA
* * * **
46543667 GTACTTGAGTTTGACTTTAATTTTCAATTTG
1 GTACCTGAGTTTGACATTAATGTTCAATTAA
46543698 GTACCTGA
1 GTACCTGA
46543706 CCTTCCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (31 bp):
GTACCTGAGTTTGACATTAATGTTCAATTAA
Found at i:46545821 original size:21 final size:21
Alignment explanation
Indices: 46545797--46545838 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46545787 ATGAATTAAA
*
46545797 TTTATTCGTATAGATCCTGTC
1 TTTATTCGTATAGATCATGTC
46545818 TTTATTCGTATAGATCATGTC
1 TTTATTCGTATAGATCATGTC
46545839 AGACCTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTATTCGTATAGATCATGTC
Found at i:46546142 original size:25 final size:24
Alignment explanation
Indices: 46546090--46546177 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 24
46546080 TTACCGATTG
* * * *
46546090 CAGCTCTTATAAGCTTACCGTTACT
1 CAGCTCGTATGAGCTTACTGTT-TT
46546115 CAGCTCGTATGAGCTTACTGTTGTT
1 CAGCTCGTATGAGCTTACTGTT-TT
* *
46546140 CAGCTTAG-AGGAGCTTACTGTTTAT
1 CAGC-TCGTATGAGCTTACTGTTT-T
46546165 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
46546178 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 39 0.76
26 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGTTTT
Found at i:46546741 original size:14 final size:14
Alignment explanation
Indices: 46546718--46546759 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
46546708 TTTTCAAGAC
*
46546718 AGATTAACGCATAT
1 AGATTCACGCATAT
46546732 AGATTCACGCATAT
1 AGATTCACGCATAT
46546746 AGATTCACGCATAT
1 AGATTCACGCATAT
46546760 TTATAAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (14 bp):
AGATTCACGCATAT
Found at i:46551279 original size:11 final size:11
Alignment explanation
Indices: 46551263--46551287 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46551253 ACATGATTAA
46551263 ATTCAACAACT
1 ATTCAACAACT
46551274 ATTCAACAACT
1 ATTCAACAACT
46551285 ATT
1 ATT
46551288 TGATTCTAGC
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTCAACAACT
Found at i:46552569 original size:13 final size:14
Alignment explanation
Indices: 46552536--46552570 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
46552526 ATAATTAAAC
46552536 ATAAAATAAATGAA
1 ATAAAATAAATGAA
*
46552550 ATGAAATAAA-GAA
1 ATAAAATAAATGAA
46552563 ATAAAATA
1 ATAAAATA
46552571 GAAAAAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
ATAAAATAAATGAA
Found at i:46557092 original size:35 final size:35
Alignment explanation
Indices: 46557046--46557212 Score: 255
Period size: 35 Copynumber: 4.8 Consensus size: 35
46557036 GATTTTCCTC
46557046 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
*
46557081 ATGGAAAATACCATACCTACGTTTCACAACTCGGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * *
46557116 ATGGAAAATACCATACCTACGTATCATAGCTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * * *
46557151 ATGGAAAATACCATACCTACGTATCATAGCTCAAT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
46557186 ATGG-AAATACCATACCTACGTTTCACA
1 ATGGAAAATACCATACCTACGTTTCACA
46557213 TTTTTCCATG
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 21 0.17
35 103 0.83
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCACAACTCAGT
Found at i:46558737 original size:16 final size:16
Alignment explanation
Indices: 46558713--46558747 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
46558703 TGAATTACTG
*
46558713 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
46558729 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
46558745 ATT
1 ATT
46558748 CACCCCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46573674 original size:37 final size:37
Alignment explanation
Indices: 46573633--46573706 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
46573623 CTCCACCAAA
46573633 AATGCATGAATTAAACAGCCATGGATGAAACTACTTT
1 AATGCATGAATTAAACAGCCATGGATGAAACTACTTT
46573670 AATGCATGAATTAAACAGCCATGGATGAAACTACTTT
1 AATGCATGAATTAAACAGCCATGGATGAAACTACTTT
46573707 CGTCCAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (37 bp):
AATGCATGAATTAAACAGCCATGGATGAAACTACTTT
Found at i:46576730 original size:39 final size:40
Alignment explanation
Indices: 46576672--46576851 Score: 105
Period size: 40 Copynumber: 4.5 Consensus size: 40
46576662 AATCAAGCAT
* * *
46576672 CTTCGGGT-TT-AGCCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
*** *
46576709 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* * ** * * *
46576749 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* ** * ** * * *
46576789 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAACCAC-TAGCATAAAGGC
* *
46576830 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAACCCGGATAT
46576852 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
37 8 0.07
38 2 0.02
39 16 0.14
40 63 0.53
41 29 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
Found at i:46576834 original size:41 final size:40
Alignment explanation
Indices: 46576707--46576851 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
46576697 CTCGCACAAG
* * * * *
46576707 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46576747 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46576787 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46576828 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46576852 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46584751 original size:39 final size:40
Alignment explanation
Indices: 46584706--46584873 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
46584696 CGGGGTTTAG
* * *
46584706 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
46584745 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
46584785 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
46584825 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
46584866 CCGGATAT
1 CCGGATAT
46584874 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:46584856 original size:41 final size:40
Alignment explanation
Indices: 46584729--46584873 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
46584719 CTCGCACAAG
* * * * *
46584729 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46584769 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46584809 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46584850 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46584874 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46589882 original size:52 final size:53
Alignment explanation
Indices: 46589774--46589912 Score: 190
Period size: 52 Copynumber: 2.6 Consensus size: 53
46589764 CTTAATTTTC
* * * * *
46589774 CCATGTGATGCCATAACCCACCAATTATGGTCTTATACGATATGGTCTTCTTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
* *
46589827 CCATGTGATGCCATAA-CCATCAGTTACGGTTTTATACAATATGATCTTATTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
* *
46589879 CCATATGATGTCATAACCCACCAGTTACGGTCTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTT
46589913 GCACGATATG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 43 0.58
53 31 0.42
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (53 bp):
CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
Found at i:46594995 original size:41 final size:41
Alignment explanation
Indices: 46594847--46595135 Score: 264
Period size: 41 Copynumber: 7.0 Consensus size: 41
46594837 TATCTGATAG
* ** *
46594847 AATACACCAGCACAAAGCCTGCTAGGCTTAAGGCCTG-ATAC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAAT-C
* ** * * *
46594888 AATACATC-GACAAGAAGCTTGCTAGGCTCAAGGCCTG-ATAC
1 AATACACCAG-CACTAAGCCTGCTAGGCACAAAGCCTGAAT-C
* * * *
46594929 AATATACC-GACACGAAGCCTACTAGGCACAAAGCTTGAATC
1 AATACACCAG-CACTAAGCCTGCTAGGCACAAAGCCTGAATC
* ** *
46594970 AATACACCAGTACTAAGTTTGCTAGGCACAAAACCTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
46595011 AATAACACC-GACACTAAGCCTGCTAGGCACAAAGCCTGAATC
1 AAT-ACACCAG-CACTAAGCCTGCTAGGCACAAAGCCTGAATC
* * * *
46595053 AATGCACCAACACTAAGTCTGCTAGACACAAAGCCTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
** *
46595094 AATACACCAGCACTAAGCCTATTAGGCACAAAGCTTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
46595135 A
1 A
46595136 TTATTTCCAA
Statistics
Matches: 206, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.00
41 167 0.81
42 38 0.18
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (41 bp):
AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
Found at i:46595044 original size:83 final size:82
Alignment explanation
Indices: 46594928--46595135 Score: 292
Period size: 83 Copynumber: 2.5 Consensus size: 82
46594918 AGGCCTGATA
* * ** *
46594928 CAATATACCGACACGAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAGTACTAAGTTTGCT
1 CAATACACCGACACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGCT
*
46594993 AGGCACAAAACCTGAAT
66 AGACACAAAACCTGAAT
* * *
46595010 CAATAACACCGACACTAAGCCTGCTAGGCACAAAGCCTGAATCAATGCACCAACACTAAGTCTGC
1 CAAT-ACACCGACACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGC
*
46595075 TAGACACAAAGCCTGAAT
65 TAGACACAAAACCTGAAT
*
46595093 CAATACACC-AGCACTAAGCCTATTAGGCACAAAGCTTGAATCA
1 CAATACACCGA-CACTAAGCCTACTAGGCACAAAGCTTGAATCA
46595136 TTATTTCCAA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 38 0.34
83 72 0.65
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (82 bp):
CAATACACCGACACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGCT
AGACACAAAACCTGAAT
Found at i:46597635 original size:43 final size:42
Alignment explanation
Indices: 46597515--46597636 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 42
46597505 ATCTCATACA
*
46597515 ATGCCAACGTCCAAGACATGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ACGTCCAAGACGTGGTCTTACA-GTAAATCAAATATTG
* **
46597558 ATGCCACTGTCCTAGACAG-GGTCTTACAAAAAATCAAATA-TG
1 ATGCCAC-GTCCAAGAC-GTGGTCTTACAGTAAATCAAATATTG
* *
46597600 ATGTCATCGTCCCAGACGTGGTCTTACACGTAAATCA
1 ATGCCA-CGTCCAAGACGTGGTCTTACA-GTAAATCA
46597637 TAAGCCGATG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 26 0.40
43 38 0.58
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCACGTCCAAGACGTGGTCTTACAGTAAATCAAATATTG
Found at i:46598915 original size:21 final size:21
Alignment explanation
Indices: 46598889--46598930 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46598879 TTCCGACTAG
*
46598889 GGTCTAAGCTAGACTGTTACA
1 GGTCTAAGCCAGACTGTTACA
*
46598910 GGTCTAAGCCGGACTGTTACA
1 GGTCTAAGCCAGACTGTTACA
46598931 ATAAAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
GGTCTAAGCCAGACTGTTACA
Found at i:46600980 original size:15 final size:15
Alignment explanation
Indices: 46600962--46600992 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46600952 TTATTCATGT
46600962 TAATCTTGACTTGGA
1 TAATCTTGACTTGGA
46600977 TAATCTTGACTTGGA
1 TAATCTTGACTTGGA
46600992 T
1 T
46600993 TGCCCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (15 bp):
TAATCTTGACTTGGA
Found at i:46603526 original size:3 final size:3
Alignment explanation
Indices: 46603518--46603549 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
46603508 TGTATATATA
46603518 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46603550 AAAGCCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:46604070 original size:22 final size:22
Alignment explanation
Indices: 46604043--46604085 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46604033 CTACTTGAAC
46604043 TTTTAAAATGTATCAAAAAAAT
1 TTTTAAAATGTATCAAAAAAAT
* * *
46604065 TTTTAAACTTTTTCAAAAAAA
1 TTTTAAAATGTATCAAAAAAA
46604086 ATTAAACCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTAAAATGTATCAAAAAAAT
Found at i:46604089 original size:89 final size:88
Alignment explanation
Indices: 46603984--46604147 Score: 199
Period size: 88 Copynumber: 1.9 Consensus size: 88
46603974 ACCCTCAATT
** * * * *
46603984 TTTTTCAAAAGCAATTAAGGCCCCT-TTTTTTTTTTTAACATTCAATT-GGCTACTTGAA-CTTT
1 TTTTTCAAAAAAAATTAA-ACCCCTACTTTTTTTTTT-ACAATCAATTAAG-TACTT-AAGCTTT
*
46604046 TAAAATGTATCAAAAAAATTTTTAAAC
62 CAAAATGTATCAAAAAAATTTTTAAAC
*
46604073 TTTTTCAAAAAAAATTAAACCTCTACTTTTTTTTTTACAATCAATTAAGTACTTAAGCTTTCAAA
1 TTTTTCAAAAAAAATTAAACCCCTACTTTTTTTTTTACAATCAATTAAGTACTTAAGCTTTCAAA
46604138 ATGTATCAAA
66 ATGTATCAAA
46604148 TTTTTTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
87 2 0.03
88 35 0.55
89 27 0.42
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (88 bp):
TTTTTCAAAAAAAATTAAACCCCTACTTTTTTTTTTACAATCAATTAAGTACTTAAGCTTTCAAA
ATGTATCAAAAAAATTTTTAAAC
Found at i:46604660 original size:20 final size:21
Alignment explanation
Indices: 46604637--46604676 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46604627 AAAATTATAT
46604637 TTTAAT-TTCTAAAAAAAATA
1 TTTAATATTCTAAAAAAAATA
*
46604657 TTTAATATTTTAAAAAAAAT
1 TTTAATATTCTAAAAAAAAT
46604677 GATAAAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAATATTCTAAAAAAAATA
Found at i:46604769 original size:20 final size:20
Alignment explanation
Indices: 46604737--46604778 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
46604727 AGATTGTAAG
46604737 AAAGAAAAGATTAATA-TTAA
1 AAAGAAAAGATT-ATAGTTAA
46604757 AAAGAATAA-ATTATAGTTAA
1 AAAGAA-AAGATTATAGTTAA
46604777 AA
1 AA
46604779 GATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.15
20 15 0.75
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAGAAAAGATTATAGTTAA
Found at i:46607079 original size:22 final size:22
Alignment explanation
Indices: 46607054--46607095 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46607044 CACAATTTTT
46607054 TATTTCATTA-TAATAAAAATTA
1 TATTT-ATTATTAATAAAAATTA
*
46607076 TATTTTTTATTAATAAAAAT
1 TATTTATTATTAATAAAAAT
46607096 ATAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTATTATTAATAAAAATTA
Found at i:46608048 original size:117 final size:119
Alignment explanation
Indices: 46607836--46608080 Score: 352
Period size: 117 Copynumber: 2.1 Consensus size: 119
46607826 TTTGGAAACA
* * * * *
46607836 AGGGTCACACGGCTGTATGGTCAGGCTGTGTGACATAGCCCAAACCGTGTGAGCATTCAAAGTAT
1 AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
*
46607901 GGGACACACGGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
66 GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
* *
46607955 TGGGTCACACGGCTATAT-GCCAAGCCT-TGTGACATAGCCCAAACCATGTGAGCATTCGAAGCA
1 AGGGTCACACGGCTATATGGCC-AGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCA
* * *
46608018 T-GGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCTAGTGTGGGTATTCCAAAT
65 TGGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
*
46608072 AGGGCCACA
1 AGGGTCACA
46608081 TGGTCGTGTC
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
117 56 0.50
118 36 0.32
119 20 0.18
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (119 bp):
AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
Found at i:46608742 original size:22 final size:22
Alignment explanation
Indices: 46608687--46608742 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
46608677 GTTTTGGACT
* * *
46608687 TAATTTTTATTATATATGAGCTC
1 TAATTATT-TTATTTATCAGCTC
*
46608710 -AA-TATTGTATTTATCAGCTC
1 TAATTATTTTATTTATCAGCTC
46608730 TAATTATTTTATT
1 TAATTATTTTATT
46608743 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (22 bp):
TAATTATTTTATTTATCAGCTC
Found at i:46613204 original size:14 final size:14
Alignment explanation
Indices: 46613185--46613220 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
46613175 AAAGTAATAG
46613185 CCATAATCATTGTT
1 CCATAATCATTGTT
46613199 CCATAATCATTGTT
1 CCATAATCATTGTT
*
46613213 CCACAATC
1 CCATAATC
46613221 TTCTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (14 bp):
CCATAATCATTGTT
Found at i:46620266 original size:24 final size:24
Alignment explanation
Indices: 46620234--46620280 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
46620224 CACTTAAGAC
46620234 AGAAAAATAATA-TAATGAATAATA
1 AGAAAAATAATATTAAT-AATAATA
*
46620258 AGAACAATAATATTAATAATAAT
1 AGAAAAATAATATTAATAATAAT
46620281 GTAATAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (24 bp):
AGAAAAATAATATTAATAATAATA
Found at i:46624527 original size:14 final size:14
Alignment explanation
Indices: 46624508--46624546 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
46624498 TTAAAGCAAG
*
46624508 AATTAAGAATACAT
1 AATTAAGAACACAT
46624522 AATTAAGAACACAT
1 AATTAAGAACACAT
46624536 AATTAAGAACA
1 AATTAAGAACA
46624547 AGTCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:46627827 original size:29 final size:29
Alignment explanation
Indices: 46627765--46627827 Score: 67
Period size: 29 Copynumber: 2.1 Consensus size: 29
46627755 CCCTTCTTTT
46627765 TTTTTAATTAAAATTAAAAACTCCAATAG-
1 TTTTTAATTAAAATTAAAAAC-CCAATAGA
* *
46627794 TTTTTTATTAATAATTTAAAA-CCAATCAGA
1 TTTTTAATTAA-AATTAAAAACCCAAT-AGA
46627824 TTTT
1 TTTT
46627828 ACTAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 5 0.17
29 12 0.41
30 12 0.41
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTAATTAAAATTAAAAACCCAATAGA
Found at i:46629885 original size:46 final size:48
Alignment explanation
Indices: 46629781--46629900 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
46629771 TGTCTTCGAC
** * *
46629781 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* *
46629829 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
46629875 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
46629901 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 35 0.55
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:46651562 original size:6 final size:6
Alignment explanation
Indices: 46651551--46651575 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46651541 TTATTGACCT
46651551 GTTGTG GTTGTG GTTGTG GTTGTG G
1 GTTGTG GTTGTG GTTGTG GTTGTG G
46651576 GATAATAGAG
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:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (6 bp):
GTTGTG
Found at i:46653815 original size:26 final size:26
Alignment explanation
Indices: 46653786--46653837 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46653776 CTTTGGTAAG
*
46653786 TTGCATTCACTCCTCTGGTCTTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
46653812 TTGCATTCACTCCTCTGGTCGTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
46653838 CAGTGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.08, C:0.35, G:0.21, T:0.37
Consensus pattern (26 bp):
TTGCATTCACTCCTCTGGTCGTGGCC
Found at i:46655777 original size:15 final size:16
Alignment explanation
Indices: 46655757--46655793 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
46655747 AAAAATATAA
46655757 AAAAATTA-ATATTTT
1 AAAAATTATATATTTT
46655772 AAAAA-TATATATTTT
1 AAAAATTATATATTTT
46655787 AAAAATT
1 AAAAATT
46655794 TAAGACGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAAATTATATATTTT
Found at i:46656159 original size:21 final size:21
Alignment explanation
Indices: 46656133--46656193 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
46656123 AAAAAAATCA
46656133 TTATATGATTTTTATAAAATT
1 TTATATGATTTTTATAAAATT
* * *
46656154 TTATATG-TTTTTGTATCATTT
1 TTATATGATTTTTATA-AAATT
*
46656175 TTATAATTATTTTTATAAA
1 TTAT-ATGATTTTTATAAA
46656194 TATTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 3 0.10
23 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATGATTTTTATAAAATT
Found at i:46658496 original size:25 final size:25
Alignment explanation
Indices: 46658468--46658529 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
46658458 TAAGCTATTC
46658468 CAAGCTAAATAACAAAAAGCTCATG
1 CAAGCTAAATAACAAAAAGCTCATG
** **
46658493 CAAGCTGTATAACGGAAAGCTCATG
1 CAAGCTAAATAACAAAAAGCTCATG
*
46658518 CGAGCTAAATAA
1 CAAGCTAAATAA
46658530 TGAGAAGATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
CAAGCTAAATAACAAAAAGCTCATG
Found at i:46658542 original size:50 final size:50
Alignment explanation
Indices: 46658470--46658566 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
46658460 AGCTATTCCA
*
46658470 AGCTAAATAACAAAAAGCTCATGCAAGCTGTA-TAACGGAAAGCTCATGCG
1 AGCTAAATAACAAAAAGATCATGCAAGCTG-AGTAACGGAAAGCTCATGCG
** * * * *
46658520 AGCTAAATAATGAGAAGATCATGCGAGCTGAGTATCGGGAAGCTCAT
1 AGCTAAATAACAAAAAGATCATGCAAGCTGAGTAACGGAAAGCTCAT
46658567 AAGAGCTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (50 bp):
AGCTAAATAACAAAAAGATCATGCAAGCTGAGTAACGGAAAGCTCATGCG
Found at i:46660587 original size:20 final size:20
Alignment explanation
Indices: 46660562--46660619 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
46660552 AAAAAATTTA
46660562 AATTTTTATATTTTTATAAT
1 AATTTTTATATTTTTATAAT
*
46660582 AA-TTTTATTTTATTTATAA-
1 AATTTTTATATT-TTTATAAT
* *
46660601 AATTTTGA-CTTTTTATAAT
1 AATTTTTATATTTTTATAAT
46660620 TTTTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.22
19 12 0.38
20 13 0.41
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTTTTATATTTTTATAAT
Found at i:46660617 original size:18 final size:19
Alignment explanation
Indices: 46660565--46660619 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
46660555 AAATTTAAAT
*
46660565 TTTTATATTTTTATAATAA
1 TTTTATCTTTTTATAATAA
*
46660584 TTTTATTTTATTTATAA-AA
1 TTTTATCTT-TTTATAATAA
46660603 TTTTGA-CTTTTTATAAT
1 TTTT-ATCTTTTTATAAT
46660620 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 7 0.23
19 16 0.52
20 8 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATCTTTTTATAATAA
Found at i:46660652 original size:18 final size:17
Alignment explanation
Indices: 46660631--46660667 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
46660621 TTTAAATTTT
46660631 TTATAATTTCAAAAAAAA
1 TTAT-ATTTCAAAAAAAA
*
46660649 TTATTTTTCAAAAAAAA
1 TTATATTTCAAAAAAAA
46660666 TT
1 TT
46660668 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATATTTCAAAAAAAA
Found at i:46660659 original size:17 final size:18
Alignment explanation
Indices: 46660637--46660674 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
46660627 TTTTTTATAA
46660637 TTTCAAAAAAAATT-ATT
1 TTTCAAAAAAAATTGATT
46660654 TTTCAAAAAAAATTGATT
1 TTTCAAAAAAAATTGATT
46660672 TTT
1 TTT
46660675 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TTTCAAAAAAAATTGATT
Found at i:46668892 original size:12 final size:12
Alignment explanation
Indices: 46668875--46668899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46668865 AACGACACAC
46668875 GCCCATGTGCTA
1 GCCCATGTGCTA
46668887 GCCCATGTGCTA
1 GCCCATGTGCTA
46668899 G
1 G
46668900 GCCGTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (12 bp):
GCCCATGTGCTA
Found at i:46671096 original size:38 final size:40
Alignment explanation
Indices: 46671054--46671135 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 40
46671044 TTTAAACTCA
* *
46671054 GATATAATACTAGCAGTA-GGCCTGCGGG-ATTTAA-CCCG
1 GATATAATACCAGCA-TATAGCCTGCGGGTATTTAAGCCCG
* *
46671092 GATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCATATAGCCTGCGGGTATTTAAGCCCG
46671132 GATA
1 GATA
46671136 CACATCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.05
38 22 0.59
39 5 0.14
40 8 0.22
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (40 bp):
GATATAATACCAGCATATAGCCTGCGGGTATTTAAGCCCG
Found at i:46674450 original size:9 final size:9
Alignment explanation
Indices: 46674436--46674511 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
46674426 ATAAGTATAA
46674436 AATTAACCG
1 AATTAACCG
*
46674445 AATTAATCG
1 AATTAACCG
46674454 AATTAACCG
1 AATTAACCG
*
46674463 AATTACCCG
1 AATTAACCG
* *
46674472 AATTACCCA
1 AATTAACCG
46674481 AATTAACCG
1 AATTAACCG
46674490 AATTAACCG
1 AATTAACCG
*
46674499 AATCAACCG
1 AATTAACCG
46674508 AATT
1 AATT
46674512 TTTTGTATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:46675530 original size:40 final size:40
Alignment explanation
Indices: 46675483--46675804 Score: 337
Period size: 40 Copynumber: 8.1 Consensus size: 40
46675473 ACACACTAGG
* * *
46675483 CAGAAGCTCATAAGAGCTAATCCAGCCAAAACACACCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * *
46675523 CAAAAGCTCATAAGAGTTTATCCAACCGAAAA-ACGCAAAA
1 CAGAAGCTCATAAGAGCTGATCCAACC-AAAACACGCCAAA
* *
46675563 CAGAAGCTCATAAGAGCCGATCCAA-TAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCA-AAACACGCCAAA
* * * * *
46675603 CAGAAGCTCATAAGAGCCGATCCAATCGAAATATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * * * *
46675643 AAGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * *
46675683 CAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
*
46675723 CAGAAGCTCATAAGAGCTTG-TCTAA-CAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGC-TGATCCAACCA-AAACACGCCAAA
* * *
46675763 CAGAAGCTCATAAGAGTTGATCCAACCGAAACATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
46675803 CA
1 CA
46675805 AAGAGTATAA
Statistics
Matches: 236, Mismatches: 38, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 222 0.94
41 7 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (40 bp):
CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
Found at i:46675794 original size:80 final size:80
Alignment explanation
Indices: 46675483--46675804 Score: 405
Period size: 80 Copynumber: 4.0 Consensus size: 80
46675473 ACACACTAGG
* * * *
46675483 CAGAAGCTCATAAGAGCTAATCCAGCCA-AAACACACCAAACAAAAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTGATCCA-ACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
* *
46675547 ACCGAAAAACGCAAAA
65 ACCGAAACACGCCAAA
* * * **
46675563 CAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAACAGAAGCTCATAAGAGCCGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
* * *
46675628 TCGAAATATGCCAAA
66 CCGAAACACGCCAAA
* * * * *
46675643 AAGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAACAGAAGCTCATAAGAGTTGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
*
46675708 CCGAAACACGCTAAA
66 CCGAAACACGCCAAA
* *
46675723 CAGAAGCTCATAAGAGCTTG-TCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
1 CAGAAGCTCATAAGAGC-TGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
*
46675787 ACCGAAACATGCCAAA
65 ACCGAAACACGCCAAA
46675803 CA
1 CA
46675805 AAGAGTATAA
Statistics
Matches: 204, Mismatches: 36, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
79 1 0.00
80 201 0.99
81 2 0.01
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (80 bp):
CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
CCGAAACACGCCAAA
Found at i:46675804 original size:120 final size:120
Alignment explanation
Indices: 46675483--46675804 Score: 375
Period size: 120 Copynumber: 2.7 Consensus size: 120
46675473 ACACACTAGG
* * * * *
46675483 CAGAAGCTCATAAGAGCTAATCCAGCCA-AAACACACCAAACAAAAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTAGTCCA-ACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
* * * *
46675547 ACCGAAAAACGCAAAACAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAA
65 ACCGAAACATGCCAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* * * * *
46675603 CAGAAGCTCATAAGAGC-CGATCCAATC-GAAATATGCCAAAAAGAAGCTCATAAGAGCTGATCC
1 CAGAAGCTCATAAGAGCTAG-TCCAA-CAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCC
* ** * *
46675666 AGCCGAAAC-T-CACTAAACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
64 AACCGAAACATGC-C-AAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* *
46675723 CAGAAGCTCATAAGAGCTTGTCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAA
1 CAGAAGCTCATAAGAGCTAGTCCAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAA
46675788 CCGAAACATGCCAAACA
66 CCGAAACATGCCAAACA
46675805 AAGAGTATAA
Statistics
Matches: 167, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
118 1 0.01
119 1 0.01
120 161 0.96
121 3 0.02
122 1 0.01
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (120 bp):
CAGAAGCTCATAAGAGCTAGTCCAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAA
CCGAAACATGCCAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
Found at i:46691261 original size:40 final size:38
Alignment explanation
Indices: 46691181--46691359 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 38
46691171 ATGATGTCCG
* * * *
46691181 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCC
* *
46691220 GGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAATTCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
46691260 GGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAAATCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
46691297 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
46691337 GGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGT-CCGAAGGCATTTG
46691360 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
37 18 0.15
38 15 0.12
39 16 0.13
40 62 0.52
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:46691315 original size:77 final size:80
Alignment explanation
Indices: 46691178--46691357 Score: 217
Period size: 77 Copynumber: 2.3 Consensus size: 80
46691168 CAAATGATGT
* *
46691178 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
* *
46691243 TGTGAGTTACTA-ATT
66 TGCGAGTTACTATA-A
* * * **
46691258 CC-GGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
46691319 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
*
46691335 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46691358 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
76 1 0.01
77 42 0.49
78 22 0.26
79 19 0.22
80 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:46691391 original size:79 final size:77
Alignment explanation
Indices: 46691229--46691392 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 77
46691219 CGGACTAAGA
* *
46691229 TCCGAAGGCATTTGTGTGAGTTACTAATTCCGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
*
46691294 TCCGGGTTAAGT
66 TCCGGGTTAAAT
* *
46691306 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT-TGAACGAG-TA
1 TCCGAAGGCATTTGTGCGAGTTACTAAT-ACC-GGCTAAG-CCCGAAGGCATTGTG--CGAGTTA
*
46691368 GCTATATCC-GGTTAAAT
61 -CTAAATCCGGGTTAAAT
46691385 TCCGAAGG
1 TCCGAAGG
46691393 TACGTGATTC
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
76 2 0.03
77 25 0.34
78 8 0.11
79 28 0.38
80 11 0.15
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (77 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
TCCGGGTTAAAT
Found at i:46701642 original size:22 final size:22
Alignment explanation
Indices: 46701616--46701672 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
46701606 GAATTATTAG
46701616 GTTTAATTCGGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
46701638 GTTTAATTCTGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
46701660 GTTTAATTTGGTA
1 GTTTAATTCGGTA
46701673 GACTTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.53
Consensus pattern (22 bp):
GTTTAATTCGGTAAGTCTTATT
Found at i:46703639 original size:12 final size:12
Alignment explanation
Indices: 46703622--46703651 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46703612 GCAAATGAAT
*
46703622 CATTTTCGTTTC
1 CATTTTCATTTC
46703634 CATTTTCATTTC
1 CATTTTCATTTC
46703646 CATTTT
1 CATTTT
46703652 TGGTAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:46707278 original size:46 final size:46
Alignment explanation
Indices: 46707225--46707399 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
46707215 CACATAAGTG
46707225 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
46707271 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
46707321 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
46707364 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
46707400 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 63 0.57
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:46707392 original size:93 final size:93
Alignment explanation
Indices: 46707233--46707404 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46707223 TGCCATAAGT
* *
46707233 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
46707298 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
46707326 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
46707391 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
46707405 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:46711389 original size:43 final size:42
Alignment explanation
Indices: 46711276--46711390 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
46711266 CATGTGTTAT
* *
46711276 CATGTAAGACCATGTCTAGGACGTTGGCATCATATTTGATTT
1 CATGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTA
* * * *
46711318 CGTGTATGACC-CTCTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTAGGAC-GTTGGCATC-ATATTTGATTA
46711361 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CATGTAAGACCACGTCTAGGACGTTGGCAT
46711391 TGTATGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
42 24 0.41
43 33 0.57
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTA
Found at i:46712189 original size:24 final size:23
Alignment explanation
Indices: 46712145--46712189 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
46712135 TTATGGAATG
*
46712145 ACATGAATTGGTATGTGTTATGA
1 ACATGAATTGGTATGTATTATGA
46712168 ACATGAGATTGGT-TGATATTAT
1 ACATGA-ATTGGTATG-TATTAT
46712190 CATAGTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
ACATGAATTGGTATGTATTATGA
Found at i:46716070 original size:25 final size:25
Alignment explanation
Indices: 46716042--46716090 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
46716032 AGTAATTGTG
46716042 TTTTAAATGCTTTATTATTACATTA
1 TTTTAAATGCTTTATTATTACATTA
46716067 TTTTAAATGCTTTATTATTACATT
1 TTTTAAATGCTTTATTATTACATT
46716091 CTTGATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTAAATGCTTTATTATTACATTA
Found at i:46717327 original size:15 final size:16
Alignment explanation
Indices: 46717309--46717346 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
46717299 TCAGCAGTGT
*
46717309 GTGACAT-ACGGCCAG
1 GTGACATAACAGCCAG
46717324 GTGACATACACAGCCAG
1 GTGACATA-ACAGCCAG
46717341 GTGACA
1 GTGACA
46717347 CGGCCGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.13
Consensus pattern (16 bp):
GTGACATAACAGCCAG
Found at i:46726765 original size:42 final size:42
Alignment explanation
Indices: 46726683--46726777 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
46726673 TCAAGTTAAG
* ***
46726683 GAGTTACACGGCCTAGCACACGGGCGTGTAGGGCAGCTCAGA
1 GAGTTACACGGCCTAGCACACGGGCATGTAACCCAGCTCAGA
* * *
46726725 GAGTTACACGGTCTGGCACACGGGCATGTAACCCTA-CTCAGT
1 GAGTTACACGGCCTAGCACACGGGCATGTAACCC-AGCTCAGA
46726767 GAGTTACACGG
1 GAGTTACACGG
46726778 GTGAGGACAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (42 bp):
GAGTTACACGGCCTAGCACACGGGCATGTAACCCAGCTCAGA
Found at i:46728663 original size:14 final size:14
Alignment explanation
Indices: 46728644--46728670 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46728634 GATTTTGAAT
46728644 AATGTAAGTAATGG
1 AATGTAAGTAATGG
46728658 AATGTAAGTAATG
1 AATGTAAGTAATG
46728671 TTATGCATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AATGTAAGTAATGG
Found at i:46730152 original size:38 final size:38
Alignment explanation
Indices: 46730121--46730246 Score: 200
Period size: 38 Copynumber: 3.3 Consensus size: 38
46730111 AGGCTATATC
* *
46730121 CTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTG
1 CTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCATG
*
46730159 CTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTG
1 CTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCATG
*
46730197 CTGGTATTATATCCTGGTTAAATCCCGCAGGCTT-AGTG
1 CTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCA-TG
46730235 CTGGTATTATAT
1 CTGGTATTATAT
46730247 TCGAGCTTAA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (38 bp):
CTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCATG
Found at i:46732660 original size:40 final size:41
Alignment explanation
Indices: 46732571--46732717 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
46732561 CGCTGACTCA
* *
46732571 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
46732612 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
46732652 AAAAGCCCTTCGAGACCAAGCTCGGATTTTGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46732693 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
46732718 TTTTAAACCC
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.36
41 58 0.64
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:46732718 original size:81 final size:81
Alignment explanation
Indices: 46732571--46732719 Score: 217
Period size: 81 Copynumber: 1.8 Consensus size: 81
46732561 CGCTGACTCA
* * * * * *
46732571 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCCGAAGGCCCTTCGAAACTAGGTTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
46732636 GTTATGACACTGGCTC
66 GTTATGACACTGGCTC
* * *
46732652 AAAAGCCCTTCGAGACCAAGCTCGGATTTTGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
46732717 GTT
66 GTT
46732720 TTAAACCCTG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (81 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
GTTATGACACTGGCTC
Found at i:46740297 original size:41 final size:41
Alignment explanation
Indices: 46740184--46740371 Score: 270
Period size: 41 Copynumber: 4.6 Consensus size: 41
46740174 CGCTGACTCA
* * *
46740184 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
46740225 GAAGGCCCTTCAAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46740265 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
46740306 AAAAGCCCTTCGAGACCAAGCTCGGATTTTGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46740347 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
46740372 TTTTAAACCC
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 31 0.24
41 97 0.76
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:46742245 original size:28 final size:29
Alignment explanation
Indices: 46742203--46742288 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 29
46742193 TACCTATATA
* *
46742203 TATATGGCCCATTAGG-CCTATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
46742231 TATATGGCCCGTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * * *
46742260 CATATGG--AAATAGACCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
46742287 TA
1 TA
46742289 CATTCATGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 17 0.35
28 15 0.31
29 16 0.33
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:46742266 original size:29 final size:28
Alignment explanation
Indices: 46742204--46742266 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
46742194 ACCTATATAT
* * *
46742204 ATATGGCCCATTAGGCCTATTCACATTT
1 ATATGGCCCATTAGGCCAAATCACATTC
*
46742232 ATATGGCCCGTTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGG-CCAAATCACATTC
46742261 ATATGG
1 ATATGG
46742267 AAATAGACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCAAATCACATTC
Found at i:46743785 original size:16 final size:16
Alignment explanation
Indices: 46743764--46743795 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46743754 AAATTTGAGA
46743764 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
46743780 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
46743796 GCGTTACATT
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:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:46751215 original size:84 final size:83
Alignment explanation
Indices: 46751022--46751719 Score: 475
Period size: 84 Copynumber: 8.1 Consensus size: 83
46751012 AATTATATCA
* * * * ** **
46751022 AAATAAAATC-TATTAAACGACAGGAATAAATCGCGAAACAGA-ATTATTTGATTGCATTCTTGT
1 AAATAAAATCTTGTTAAACGACGGGAATAAATC-CGAAACAGATTTTATTTAATTTAATTCTAAT
* *
46751085 TTGGAAACAAAACAATAT-
65 TTGGAAACAAAATAAAATC
* * * * *
46751103 AAAAAAAATCTGGTTAAACAACAGGAATAAATCTCGAAACTGATTTTATTTAATTTAATTCTAAT
1 AAATAAAATCTTGTTAAACGACGGGAATAAATC-CGAAACAGATTTTATTTAATTTAATTCTAAT
*
46751168 TTAGAAACAAAATAAAATC
65 TTGGAAACAAAATAAAATC
* * *
46751187 AAATAAAATCTTGTTAAACGGCGGGAATATATCTTGAAACAGATTTTATTTAATTTAATTCTAAT
1 AAATAAAATCTTGTTAAACGACGGGAATAAATC-CGAAACAGATTTTATTTAATTTAATTCTAAT
46751252 TTGGAAACAAAATAAAATC
65 TTGGAAACAAAATAAAATC
* *
46751271 AAATAAAATCTTGTTAAACGATGGGAATAAATCCTGGAACAGATTTTATTTAATTTTAATTTCTC
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCC-GAAACAGATTTTATTTAA-TTTAA-TTCT-
*
46751336 ATTATTGGAAACAAAATAAAATC
62 AAT-TTGGAAACAAAATAAAATC
*
46751359 AAATAAAATCTTGTTAAAC-AGCGGGAATAAATCCCAGAACAGATTTTATTTAATTTTAATTTCT
1 AAATAAAATCTTGTTAAACGA-CGGGAATAAATCCGA-AACAGATTTTATTTAA-TTTAA-TTCT
** * *
46751423 CGTTTTTAGAAAAAAAATCAAAAT-
62 --AATTTGGAAACAAAAT-AAAATC
* * *
46751447 ATAAT-AAATC-TGTTGAACAGA-TGGAATAAATCCAGAAATAGATTTTATTTTAATTTTAATAC
1 A-AATAAAATCTTGTTAAAC-GACGGGAATAAATCC-GAAACAGATTTTA-TTTAA-TTTAAT--
* * *
46751509 TCGT-TTTTGGAAATAAAATCAAAATTG
59 TC-TAATTTGGAAACAAAAT-AAAA-TC
* * * * * * * * * * *
46751536 GAATAAAGTC-CGTTGAACAACAGAAATAAGTCCCGAAACAGATTTCATTTTTATTTTAATACTC
1 AAATAAAATCTTGTTAAACGACGGGAATAAAT-CCGAAACAGATTT--TATTTAATTTAATTCT-
* * *
46751600 ATTTTTGGAAATAAAATTAAAATTG
62 A-ATTTGGAAACAAAA-TAAAA-TC
* * * * * **
46751625 GAATAAAATC-TATTGAACGGCGGGAATAAATCCTAAAACAGATTTTATTTAACTTTAATTTCCC
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCC-GAAACAGATTTTATTTAA-TTTAA-TTCTA
* *
46751689 ATTTGGAAATAATAA-AAAATG
63 ATTTGGAAACAA-AATAAAATC
*
46751710 GAATAAAATC
1 AAATAAAATC
46751720 CGTTGAACGG
Statistics
Matches: 513, Mismatches: 69, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
81 9 0.02
82 27 0.05
83 30 0.06
84 122 0.24
85 17 0.03
86 9 0.02
87 67 0.13
88 120 0.23
89 103 0.20
90 8 0.02
91 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (83 bp):
AAATAAAATCTTGTTAAACGACGGGAATAAATCCGAAACAGATTTTATTTAATTTAATTCTAATT
TGGAAACAAAATAAAATC
Found at i:46751374 original size:88 final size:87
Alignment explanation
Indices: 46751022--46751769 Score: 542
Period size: 88 Copynumber: 8.7 Consensus size: 87
46751012 AATTATATCA
* * * * **
46751022 AAATAAAATC-TATTAAACGACAGGAATAAATCGC-GAAACAGA-ATTATTTGA-TTGCATTCT-
1 AAATAAAATCTTGTTAAACGACGGGAATAAATC-CTGAAACAGATTTTATTTAATTTTAATTCTC
* * *
46751082 -TGTTTGGAAACAAAACAATAT-
65 ATTTTTGGAAACAAAATAAAATC
* * * * *
46751103 AAAAAAAATCTGGTTAAACAACAGGAATAAAT-CTCGAAACTGATTTTATTTAA-TTTAATTCT-
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCCT-GAAACAGATTTTATTTAATTTTAATTCTC
* *
46751165 A-ATTTAGAAACAAAATAAAATC
65 ATTTTTGGAAACAAAATAAAATC
* * *
46751187 AAATAAAATCTTGTTAAACGGCGGGAATATATCTTGAAACAGATTTTATTTAA-TTTAATTCT-A
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCTCA
*
46751250 -ATTTGGAAACAAAATAAAATC
66 TTTTTGGAAACAAAATAAAATC
* *
46751271 AAATAAAATCTTGTTAAACGATGGGAATAAATCCTGGAACAGATTTTATTTAATTTTAATTTCTC
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAA-TTCTC
*
46751336 ATTATTGGAAACAAAATAAAATC
65 ATTTTTGGAAACAAAATAAAATC
*
46751359 AAATAAAATCTTGTTAAAC-AGCGGGAATAAATCC-CAGAACAGATTTTATTTAATTTTAATTTC
1 AAATAAAATCTTGTTAAACGA-CGGGAATAAATCCTGA-AACAGATTTTATTTAATTTTAA-TTC
* * *
46751422 TCGTTTTTAGAAAAAAAATCAAAAT-
63 TCATTTTTGGAAACAAAAT-AAAATC
* * * * *
46751447 ATAAT-AAATC-TGTTGAACAGA-TGGAATAAATCCAGAAATAGATTTTATTTTAATTTTAATAC
1 A-AATAAAATCTTGTTAAAC-GACGGGAATAAATCCTGAAACAGATTTTA-TTTAATTTTAATTC
* * *
46751509 TCGTTTTTGGAAATAAAATCAAAATTG
63 TCATTTTTGGAAACAAAAT-AAAA-TC
* * * * * * * * * * * *
46751536 GAATAAAGTC-CGTTGAACAACAGAAATAAGTCCCGAAACAGATTTCATTTTTATTTTAATACTC
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTA-TTTAATTTTAATTCTC
* *
46751600 ATTTTTGGAAATAAAATTAAAATTG
65 ATTTTTGGAAACAAAA-TAAAA-TC
* * * * * * *
46751625 GAATAAAATC-TATTGAACGGCGGGAATAAATCCTAAAACAGATTTTATTTAACTTTAATTTCCC
1 AAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAA-TTCTC
* *
46751689 A--TTTGGAAATAATAA-AAAATG
65 ATTTTTGGAAACAA-AATAAAATC
* * * * ** ** *
46751710 GAATAAAATC-CGTTGAACGGA-GGAAATAAATCCCAAAATGGATTTTATTTACTTTTAATT
1 AAATAAAATCTTGTTAAAC-GACGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATT
46751770 TGGAAAAAAA
Statistics
Matches: 561, Mismatches: 79, Indels: 51
0.81 0.11 0.07
Matches are distributed among these distances:
80 1 0.00
81 9 0.02
82 25 0.04
83 30 0.05
84 123 0.22
85 55 0.10
86 9 0.02
87 65 0.12
88 125 0.22
89 118 0.21
90 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (87 bp):
AAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCTCA
TTTTTGGAAACAAAATAAAATC
Found at i:46751586 original size:89 final size:88
Alignment explanation
Indices: 46751296--46751768 Score: 339
Period size: 89 Copynumber: 5.4 Consensus size: 88
46751286 AAACGATGGG
* * * * * *
46751296 AATAAATCCTGGAACAGATTTTA-TTTAATTTTAATTTCTCATTATTGGAAACAAAAT-AAAA-T
1 AATAAATCCAGAAACAGATTTTATTTTAATTTTAA-TACTCGTTTTTGGAAATAAAATCAAAATT
** * * ** *
46751358 CAAATAAAATCTTGTTAAACAGCGGG
65 GGAAT-AAATC-CGTTGAACAGAAGA
* * *
46751384 AATAAATCCCAG-AACAGATTTTA-TTTAATTTTAATTTCTCGTTTTTAGAAAAAAAATCAAAAT
1 AATAAAT-CCAGAAACAGATTTTATTTTAATTTTAA-TACTCGTTTTTGGAAATAAAATCAAAAT
* * *
46751447 AT--AATAAATCTGTTGAACAGATGG
64 -TGGAATAAATCCGTTGAACAGAAGA
*
46751471 AATAAATCCAGAAATAGATTTTATTTTAATTTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
1 AATAAATCCAGAAACAGATTTTATTTTAATTTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
46751536 GAATAAAGTCCGTTGAACA-ACAGA
66 GAATAAA-TCCGTTGAACAGA-AGA
* * * * * *
46751560 AATAAGTCCCGAAACAGATTTCATTTTTATTTTAATACTCATTTTTGGAAATAAAATTAAAATTG
1 AATAAATCCAGAAACAGATTTTATTTTAATTTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
** * ** *
46751625 GAATAAAATCTATTGAACGGCGGG
66 GAAT-AAATCCGTTGAACAGAAGA
* * ***
46751649 AATAAATCCTA-AAACAGATTTTA-TTTAACTTTAAT-TTCCCATTTGGAAATAATAA--AAAA-
1 AATAAATCC-AGAAACAGATTTTATTTTAATTTTAATACTCGTTTTTGGAAATAA-AATCAAAAT
* *
46751708 TGGAATAAAATCCGTTGAACGGAGGA
64 TGGAAT-AAATCCGTTGAACAGAAGA
** *
46751734 AATAAATCCCA-AAATGGATTTTA-TTTACTTTTAAT
1 AATAAAT-CCAGAAACAGATTTTATTTTAATTTTAAT
46751769 TTGGAAAAAA
Statistics
Matches: 325, Mismatches: 45, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
85 50 0.15
86 11 0.03
87 66 0.20
88 83 0.26
89 111 0.34
90 3 0.01
91 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (88 bp):
AATAAATCCAGAAACAGATTTTATTTTAATTTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
GAATAAATCCGTTGAACAGAAGA
Found at i:46752548 original size:20 final size:20
Alignment explanation
Indices: 46752523--46752569 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46752513 GGGGCAATTG
*
46752523 AATCAATTTGGTTAAAATCA
1 AATCAATTTGATTAAAATCA
* *
46752543 AATCAAATTGATTAGAATCA
1 AATCAATTTGATTAAAATCA
46752563 AAT-AATT
1 AATCAATT
46752570 CAAGATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (20 bp):
AATCAATTTGATTAAAATCA
Found at i:46756074 original size:24 final size:24
Alignment explanation
Indices: 46756046--46756092 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46756036 CAGATTGTGA
46756046 TATTTATAATAATAAACTCTTTAT
1 TATTTATAATAATAAACTCTTTAT
46756070 TATTTATAATAATAAACTCTTTA
1 TATTTATAATAATAAACTCTTTA
46756093 CCACTCGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTATAATAATAAACTCTTTAT
Found at i:46756356 original size:33 final size:33
Alignment explanation
Indices: 46756319--46756384 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
46756309 CGTAGGTTGG
46756319 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
1 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
46756352 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
1 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
46756385 CACATCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (33 bp):
AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
Found at i:46757023 original size:3 final size:3
Alignment explanation
Indices: 46757011--46757064 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
46757001 GTTTGAAAAA
* *
46757011 AAG AAA AAG AAG AAG AAG AAG -AG AAG TAGG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG
*
46757055 AAG GAG AAG A
1 AAG AAG AAG A
46757065 GGGAAAATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:46757954 original size:20 final size:20
Alignment explanation
Indices: 46757916--46757953 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46757906 TGTTTCACAT
46757916 TCATATAACTAATATTTTTA
1 TCATATAACTAATATTTTTA
46757936 TCAT-TAACATAAT-TTTTT
1 TCATATAAC-TAATATTTTT
46757954 TTAACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TCATATAACTAATATTTTTA
Found at i:46758466 original size:18 final size:18
Alignment explanation
Indices: 46758443--46758483 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46758433 TACTTTTCTC
46758443 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
46758461 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
46758479 TTTCT
1 TTTCT
46758484 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:46758646 original size:39 final size:38
Alignment explanation
Indices: 46758592--46758685 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
46758582 ACCAATATGG
*
46758592 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAGTTGA
1 CACCCAGTACCTCATCGGAT-ATTCGAAGTAATAGTTGA
* * * *
46758631 CACCCAGTATCTCATCGGCCTAGTCGAAGTAA-AGTTGG
1 CACCCAGTACCTCATCGG-ATATTCGAAGTAATAGTTGA
* *
46758669 TACCTAGTACCTCATCG
1 CACCCAGTACCTCATCG
46758686 AATCTATCCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 19 0.41
39 26 0.57
40 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
CACCCAGTACCTCATCGGATATTCGAAGTAATAGTTGA
Found at i:46759742 original size:25 final size:25
Alignment explanation
Indices: 46759687--46759732 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46759677 ACTTTCTTTC
46759687 TTTC-TTT-TTTTACTTCTTTTACG
1 TTTCATTTGTTTTACTTCTTTTACG
*
46759710 TTTCATTTGTTTTATTTCTTTTA
1 TTTCATTTGTTTTACTTCTTTTA
46759733 TGTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 3 0.15
25 13 0.65
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTCATTTGTTTTACTTCTTTTACG
Found at i:46761271 original size:42 final size:43
Alignment explanation
Indices: 46761152--46761289 Score: 224
Period size: 43 Copynumber: 3.2 Consensus size: 43
46761142 AAAAAAAAAC
*
46761152 TCATTGCATGCATATTAAAAAATAGTGAACAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
46761195 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
46761238 TCATTGCATACATATTAAAAAA-AGTCAATAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
46761280 TCACTGCATG
1 TCATTGCATG
46761290 TGATCAGCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 26 0.30
43 62 0.70
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:46762953 original size:15 final size:15
Alignment explanation
Indices: 46762928--46762976 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
46762918 TCAGATGCAT
46762928 CACTATCACTACCAGA
1 CACT-TCACTACCAGA
46762944 CACTTCACTACCAGA
1 CACTTCACTACCAGA
* *
46762959 TACATCACTACCAGA
1 CACTTCACTACCAGA
46762974 CAC
1 CAC
46762977 GTTTTCTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.37, C:0.39, G:0.06, T:0.18
Consensus pattern (15 bp):
CACTTCACTACCAGA
Found at i:46763332 original size:62 final size:62
Alignment explanation
Indices: 46763261--46763431 Score: 297
Period size: 62 Copynumber: 2.8 Consensus size: 62
46763251 TAGGAGCTTG
*
46763261 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATGCATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGCATAATTTAATGGCA
* * *
46763323 GATACAAACAATGGTAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGCATAATTTAATGGCA
*
46763385 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATG
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG
46763432 ACATTCATAC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 102 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (62 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGCATAATTTAATGGCA
Done.