Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 145 of 161
Found at i:45167957 original size:50 final size:50
Alignment explanation
Indices: 45167882--45168106 Score: 229
Period size: 50 Copynumber: 4.5 Consensus size: 50
45167872 AAAAGTAAAA
* * * *
45167882 AGATTAAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGTAGCGGAAC
1 AGATTGAAGCTACGACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
* * * *
45167932 AGATTGAAGCTACGATGGCGGATCTTACTTTCTTAGTAGTGCAGCGGAAT
1 AGATTGAAGCTACGACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
* *** * * **** *
45167982 AGATTGAAGCTACGACGGCGAATCTGGTTTCCCT-G-ATATAGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTTACTTCCTTAGCA-GT-GCAGCGGAAC
* *
45168032 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCTACGACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
45168082 AGATTGAAGCTACGACGGCGGATCT
1 AGATTGAAGCTACGACGGCGGATCT
45168107 GGTTTCTCCG
Statistics
Matches: 135, Mismatches: 36, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 129 0.96
51 2 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
Found at i:45168060 original size:100 final size:100
Alignment explanation
Indices: 45167932--45168112 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
45167922 GTAGCGGAAC
* * * * * *
45167932 AGATTGAAGCTACGATGGCGGATCTTACTTTCTTAGTAGTGCAGCGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGA
45167997 CGGCGAATCTGGTTTCCCTGATATAGCAATTAAAA
66 CGGCGAATCTGGTTTCCCTGATATAGCAATTAAAA
45168032 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGA
*
45168097 CGGCGGATCTGGTTTC
66 CGGCGAATCTGGTTTC
45168113 TCCGACATTG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGA
CGGCGAATCTGGTTTCCCTGATATAGCAATTAAAA
Found at i:45168125 original size:50 final size:49
Alignment explanation
Indices: 45167918--45168140 Score: 144
Period size: 50 Copynumber: 4.5 Consensus size: 49
45167908 ACTTCCTTAG
* * ** **
45167918 CAGTGTAGCGGAACAGATTGAAGCTACGATGGCGGATCTTACTTT-CTTA
1 CAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATC-TGGTTTCCCGA
* * *
45167967 GTAGTGCAGCGGAATAGATTGAAGCTACGACGGCGAATCTGGTTTCCCTGA
1 -CAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC-GA
* **** * * * *** **
45168018 TA-TAGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTA
1 CAGT-GCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCGA
45168067 GCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCTCCGA
1 -CAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTC-CCGA
* ** *
45168118 CATTGCAGTTGAACAAATTGAAG
1 CAGTGCAGCGGAACAGATTGAAG
45168141 ATTACAGATC
Statistics
Matches: 128, Mismatches: 39, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
49 6 0.05
50 118 0.92
51 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
CAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCGA
Found at i:45168138 original size:100 final size:100
Alignment explanation
Indices: 45167928--45168140 Score: 286
Period size: 100 Copynumber: 2.1 Consensus size: 100
45167918 CAGTGTAGCG
* * * * * * *
45167928 GAACAGATTGAAGCTACGATGGCGGATCTTACTTTCTTAGTAGTGCAGCGGAATAGATTGAAGCT
1 GAACAAATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCT
*
45167993 ACGACGGCGAATCTGGTTTCCCTGATATAGCAATT
66 ACGACGGCGAATCTGGTTTCCCTGACATAGCAATT
*
45168028 -AAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 GAACAA-ATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* * *
45168092 TACGACGGCGGATCTGGTTTCTCC-GACATTGCAGTT
65 TACGACGGCGAATCTGGTTTC-CCTGACATAGCAATT
45168128 GAACAAATTGAAG
1 GAACAAATTGAAG
45168141 ATTACAGATC
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 3 0.03
100 88 0.91
101 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (100 bp):
GAACAAATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCT
ACGACGGCGAATCTGGTTTCCCTGACATAGCAATT
Found at i:45168321 original size:44 final size:46
Alignment explanation
Indices: 45168265--45168362 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 46
45168255 GCAGTGAATC
* *
45168265 GATC-GAAGAAAGCATATATTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGGAAGAAAGCATATATTGTCTTCATATACTGGTCGTGAAGTA
* * *
45168309 GATCGGAA-AAAGCATATCTTGTCTTCCTATACTGGTGGTGAAGTA
1 GATCGGAAGAAAGCATATATTGTCTTCATATACTGGTCGTGAAGTA
45168354 GATC-GAAGA
1 GATCGGAAGA
45168363 TACAAGTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 30 0.65
45 16 0.35
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (46 bp):
GATCGGAAGAAAGCATATATTGTCTTCATATACTGGTCGTGAAGTA
Found at i:45181447 original size:34 final size:35
Alignment explanation
Indices: 45181380--45181450 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
45181370 AAATAAGGTA
* * *
45181380 TTTTTTGAAACCCTAAACTTCAATGGAAGATTGAT
1 TTTTTTAAAACCCTAAACTTCAATCGAACATTGAT
45181415 TTTTTTAAAACCCTAAA-TT-AACTCGAACATTGAT
1 TTTTTTAAAACCCTAAACTTCAA-TCGAACATTGAT
45181449 TT
1 TT
45181451 CTACTTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 14 0.44
35 16 0.50
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (35 bp):
TTTTTTAAAACCCTAAACTTCAATCGAACATTGAT
Found at i:45185951 original size:30 final size:29
Alignment explanation
Indices: 45185902--45185958 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 29
45185892 TCCCTCTTCT
45185902 CTCTCTCTCCCTCTTTTTTCTT-TTTTAC
1 CTCTCTCTCCCTCTTTTTTCTTCTTTTAC
45185930 CTCTCTC-CCCTCTTATGTTTTCTTCTTTT
1 CTCTCTCTCCCTC-T-T-TTTTCTTCTTTT
45185959 GCTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.20
28 8 0.32
29 1 0.04
30 7 0.28
31 4 0.16
ACGTcount: A:0.04, C:0.35, G:0.02, T:0.60
Consensus pattern (29 bp):
CTCTCTCTCCCTCTTTTTTCTTCTTTTAC
Found at i:45187897 original size:150 final size:149
Alignment explanation
Indices: 45187626--45188211 Score: 851
Period size: 150 Copynumber: 3.9 Consensus size: 149
45187616 AGAAGAGAAA
** *
45187626 GCACAGTGAAGAAAATAATGGAAGGAAAACTGATAAAAAGAGTGGAGGACGGACTCCTAGAAGTG
1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGAT-AAAAGAGTGGAGGAAGGACTCCTAGAAGTG
45187691 AGACACAT-GATGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGT
65 AGACACATAG-TGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGT
45187755 GGAAGGTGCCTCCTCCAAATT
129 GGAAGGTGCCTCCTCCAAATT
* * * *
45187776 GCACAGTGAAGAAAATCTTGTAAGGAAAACTGATATAAAGGGTGGGGGAAGGATTCCTAGAAGTG
1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATA-AAAGAGTGGAGGAAGGACTCCTAGAAGTG
** * * *
45187841 AGATGCATAGTGGAATTCCTCACCCTTCTCCGTCCAATGTGATCGGTAGTAGTAGATCCTCAGTG
65 AGACACATAGTGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGTG
* *
45187906 AAAGGTGCCTCCCCCAAATT
130 GAAGGTGCCTCCTCCAAATT
45187926 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAATGAGTGGAGGAAGGACTCCTAGAAGTG
1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAA-GAGTGGAGGAAGGACTCCTAGAAGTG
* * * * *
45187991 AGACACACAGTGGAATTCCCCACTCTTCTCCGTCCAACGTGATGGGGAGTAGTAGATCCTCAGTG
65 AGACACATAGTGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGTG
45188056 GAAGGTG---CCTCCAAATT
130 GAAGGTGCCTCCTCCAAATT
* * * *
45188073 GCACAGTGAAGAAAATCTTGGAAGGAAAACTAATAAGA-AG-GGTGGAAGGACTACTAGAAGTGA
1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAAGAGTGGAGGAAGGACTCCTAGAAGTGA
* * *
45188136 GACATACAGTGGAATTCCACACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGTGG
66 GACACATAGTGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGTGG
*
45188201 AATGTGCCTCC
131 AAGGTGCCTCC
45188212 AGATCGCCTA
Statistics
Matches: 392, Mismatches: 38, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
144 86 0.22
145 2 0.01
147 47 0.12
149 4 0.01
150 252 0.64
151 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (149 bp):
GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAAGAGTGGAGGAAGGACTCCTAGAAGTGA
GACACATAGTGGAATTCCTCACTCTTCTCCATCCAATGTGATGGGTAGTAGTAGATCCTCAGTGG
AAGGTGCCTCCTCCAAATT
Found at i:45189713 original size:24 final size:24
Alignment explanation
Indices: 45189686--45189759 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
45189676 AATAAAGTTA
45189686 TTTACTAAACATATCAAATTTCTG
1 TTTACTAAACATATCAAATTTCTG
* *
45189710 TTTA-TTAA-ATAT--AA--T-TA
1 TTTACTAAACATATCAAATTTCTG
45189727 TTTACTAAACATATCAAATTTCTG
1 TTTACTAAACATATCAAATTTCTG
*
45189751 TTTATTAAA
1 TTTACTAAA
45189760 TATAATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
17 5 0.13
18 4 0.11
19 4 0.11
20 2 0.05
21 2 0.05
22 4 0.11
23 4 0.11
24 13 0.34
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (24 bp):
TTTACTAAACATATCAAATTTCTG
Found at i:45189717 original size:41 final size:41
Alignment explanation
Indices: 45189672--45189784 Score: 210
Period size: 41 Copynumber: 2.8 Consensus size: 41
45189662 GAGATTTTTA
45189672 ATTAAATA-AAGTTATTTACTAAACATATCAAATTTCTGTTT
1 ATTAAATATAA-TTATTTACTAAACATATCAAATTTCTGTTT
45189713 ATTAAATATAATTATTTACTAAACATATCAAATTTCTGTTT
1 ATTAAATATAATTATTTACTAAACATATCAAATTTCTGTTT
45189754 ATTAAATATAATTATTTACTAAACATATCAA
1 ATTAAATATAATTATTTACTAAACATATCAA
45189785 TTTTTTATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
41 69 0.97
42 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (41 bp):
ATTAAATATAATTATTTACTAAACATATCAAATTTCTGTTT
Found at i:45189801 original size:41 final size:41
Alignment explanation
Indices: 45189668--45189801 Score: 198
Period size: 41 Copynumber: 3.2 Consensus size: 41
45189658 AATTGAGATT
45189668 TTTAATTAAATA-AAGTTATTTACTAAACATATCAAATTTCTG
1 TTTAA-TAAATATAA-TTATTTACTAAACATATCAAATTTCTG
*
45189710 TTTATTAAATATAATTATTTACTAAACATATCAAATTTCTG
1 TTTAATAAATATAATTATTTACTAAACATATCAAATTTCTG
* * * *
45189751 TTTATTAAATATAATTATTTACTAAACATATCAATTTTTTA
1 TTTAATAAATATAATTATTTACTAAACATATCAAATTTCTG
45189792 TTTAATAAAT
1 TTTAATAAAT
45189802 CTAGTTGAGA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
41 80 0.93
42 6 0.07
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (41 bp):
TTTAATAAATATAATTATTTACTAAACATATCAAATTTCTG
Found at i:45198341 original size:41 final size:41
Alignment explanation
Indices: 45198296--45198492 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
45198286 ACCGGCTCTT
*
45198296 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
45198337 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
45198378 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
45198419 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
45198460 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
45198493 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:45203012 original size:24 final size:27
Alignment explanation
Indices: 45202958--45203019 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
45202948 AATTTAATAG
* **
45202958 TTAATAATTTTATATATTTTTTATTTA
1 TTAACAATTTTATATATAGTTTATTTA
45202985 TTAA-AATTTTATATATAGTTT-TTT-
1 TTAACAATTTTATATATAGTTTATTTA
45203009 TTAACAATTTT
1 TTAACAATTTT
45203020 TAATGTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.12
25 9 0.28
26 15 0.47
27 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTAACAATTTTATATATAGTTTATTTA
Found at i:45203446 original size:2 final size:2
Alignment explanation
Indices: 45203439--45203478 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
45203429 TAAGAGTTCA
45203439 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45203479 CTTAAGAGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45209393 original size:21 final size:19
Alignment explanation
Indices: 45209354--45209397 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
45209344 TTCAGTATCA
*
45209354 AAAGTGAAAAAGAAAAGAG
1 AAAGTGAAAAAAAAAAGAG
45209373 AAAGTTGAAAAAAAAATAGAG
1 AAAG-TGAAAAAAAAA-AGAG
45209394 AAAG
1 AAAG
45209398 AAGGAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (19 bp):
AAAGTGAAAAAAAAAAGAG
Found at i:45211744 original size:6 final size:6
Alignment explanation
Indices: 45211733--45211757 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45211723 ATTTTTCAGG
45211733 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
45211758 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:45211807 original size:57 final size:56
Alignment explanation
Indices: 45211733--45211913 Score: 239
Period size: 51 Copynumber: 3.3 Consensus size: 56
45211723 ATTTTTCAGG
* *
45211733 TCATTT-TCATTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATT
1 TCATTTCTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATT
* * *
45211788 TCATTTCTC-----CATTTTCATTTTGGAAAAAACCATAATCAATTCCAAATGTTT
1 TCATTTCTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATT
*
45211839 TCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCATAATAATTTCCAAATGATT
1 TCATTTCT-CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATT
45211896 TCAATTTCTCCATTTTCA
1 TC-ATTTCT-CATTTTCA
45211914 CAATTTCTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
51 45 0.41
52 1 0.01
55 6 0.06
56 2 0.02
57 40 0.37
58 15 0.14
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.44
Consensus pattern (56 bp):
TCATTTCTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATT
Found at i:45213403 original size:397 final size:396
Alignment explanation
Indices: 45212656--45213415 Score: 926
Period size: 397 Copynumber: 1.9 Consensus size: 396
45212646 AGTCACATCC
* * * *
45212656 ATGTCTCTATCTTTTAGGAGTCATCCACTTCGATGCCTAAGACGAAACATCTCCCTAATTGGACT
1 ATGTCTCTATCTTCTAGGAGTCATCCACTTCGATGCCCAAGACGAAACATCTCCCCAATTGAACT
** * * * *
45212721 TGATAGACAACATATTAGTCTTTCAATTGGTTTACTCATTTTCGATTAGACTAGGGACATATTTA
66 TGATAGACAACATATTAGTCTTTCAATCAGTTTACTCATTTTAGATCAAACTAAGGACATATTTA
* * * * *
45212786 GGTTCGTCTACTAATATAAGATGTATTTTCGTATTACAATCCGACCATATAATATCACTTAGTAT
131 GGTTCATCTACTAATATAAGATCTATTTTCGTATTACAATCCAACCACATAATACCACTTAGTAT
* **
45212851 TAGTTTAAACATTAAACAACCAGTGAGCAACATTTGCTCCTATTTTACTTTGTGTACAAAAACCA
196 TAGTTTAAACATTAAACAACCAATGAGCAACATTTGCTCCTATTTTACTTTGCATACAAAAACCA
* *
45212916 CATGAGGACATTATACAAAGTATTAATGTAATTCATGAATAATTTTATTAATCAACCTGTTCAAA
261 CATGAGGACAATATACAAAGTATTAATGTAATTCATGAATAATTTTATTAATCAACATGTTCAAA
*
45212981 AAATTTACAAGTGTACATTGACGAAAATACTACACTTAGGGCACCTGATCCAATAGCCGGTCAAT
326 AAA-TTACAAGTGTACATAGACGAAAATACTACACTTAGGGCACCTGATCCAATAGCCGGTCAAT
45213046 CATATCT
390 CATATCT
* *
45213053 ATGTCTCTATCTTCTAGGAGTCATCCGC-TCTGATGCCCAAGA-TAAAGCATCTCCCCAATTGAA
1 ATGTCTCTATCTTCTAGGAGTCATCCACTTC-GATGCCCAAGACGAAA-CATCTCCCCAATTGAA
** * * * * * *
45213116 CTTGATAGATGACATATTAGTCTTTTAATCAGTTTGCTCATTTTATATCAAATTAAGGATATCTT
64 CTTGATAGACAACATATTAGTCTTTCAATCAGTTTACTCATTTTAGATCAAACTAAGGACATATT
* * * * **
45213181 TAGGTTCATCTTCTAATATAA-A-CTATCTTTCTGTATTACGATCTAATCACATAATACCGTTTA
129 TAGGTTCATCTACTAATATAAGATCTAT-TTTC-GTATTACAATCCAACCACATAATACCACTTA
* * * *
45213244 GTATTAG-TTAAACATTAGACAACCAATGAGCTAATATTTGCT-TTCATTTTGCTTTGCATACAA
192 GTATTAGTTTAAACATTAAACAACCAATGAGC-AACATTTGCTCCT-ATTTTACTTTGCATACAA
* * * *
45213307 AAACCA-TTGAGGATAATATACAAAGGATATTAATGTAATTCATGAATAATTTTATT-AGCTAAT
255 AAACCACATGAGGACAATATACAAA-G-TATTAATGTAATTCATGAATAATTTTATTAATC-AAC
* * *
45213370 ATGTTTGAAAAAA-TACAATTGTATATAGACGAAAATACTACACTTA
317 ATG-TTCAAAAAATTACAAGTGTACATAGACGAAAATACTACACTTA
45213416 AGACACTAGA
Statistics
Matches: 305, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
395 3 0.01
396 48 0.16
397 213 0.70
398 33 0.11
399 8 0.03
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (396 bp):
ATGTCTCTATCTTCTAGGAGTCATCCACTTCGATGCCCAAGACGAAACATCTCCCCAATTGAACT
TGATAGACAACATATTAGTCTTTCAATCAGTTTACTCATTTTAGATCAAACTAAGGACATATTTA
GGTTCATCTACTAATATAAGATCTATTTTCGTATTACAATCCAACCACATAATACCACTTAGTAT
TAGTTTAAACATTAAACAACCAATGAGCAACATTTGCTCCTATTTTACTTTGCATACAAAAACCA
CATGAGGACAATATACAAAGTATTAATGTAATTCATGAATAATTTTATTAATCAACATGTTCAAA
AAATTACAAGTGTACATAGACGAAAATACTACACTTAGGGCACCTGATCCAATAGCCGGTCAATC
ATATCT
Found at i:45215864 original size:43 final size:43
Alignment explanation
Indices: 45215762--45215994 Score: 178
Period size: 42 Copynumber: 5.5 Consensus size: 43
45215752 CCATTACTCG
* * **
45215762 GTGGATTCAACACTTAGTAACCACC-TT-A-AATTCAGTGATAC
1 GTGGAATCAACACTTAGCAACCACCTTTCACAA-TCAAAGATAC
* *
45215803 GGGGAATCAACACATAGCAACC-CCTTTCACAATCAAAGATAC
1 GTGGAATCAACACTTAGCAACCACCTTTCACAATCAAAGATAC
* * * * * **
45215845 AGTGAAATCAGCACTTAGCAACCACCTTT-ATATTGAGTGATAC
1 -GTGGAATCAACACTTAGCAACCACCTTTCACAATCAAAGATAC
* *
45215888 GGGGAATCAGCACATT-GCAACC-CCTTTCACAATCAAAGATACC
1 GTGGAATCAACAC-TTAGCAACCACCTTTCACAATCAAAGATA-C
* * *
45215931 GTGGAATCAACACTTAGCAACCACCTTT-AGAGTCAATA-ATTC
1 GTGGAATCAACACTTAGCAACCACCTTTCACAATCAA-AGATAC
* *
45215973 GGGGAATCAGCACTTAGCAACC
1 GTGGAATCAACACTTAGCAACC
45215995 CTTGGGGAAT
Statistics
Matches: 152, Mismatches: 29, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
40 2 0.01
41 25 0.16
42 57 0.38
43 57 0.38
44 11 0.07
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
GTGGAATCAACACTTAGCAACCACCTTTCACAATCAAAGATAC
Found at i:45215914 original size:85 final size:85
Alignment explanation
Indices: 45215768--45215995 Score: 316
Period size: 85 Copynumber: 2.7 Consensus size: 85
45215758 CTCGGTGGAT
* * *
45215768 TCAACACTTAGTAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCA
1 TCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATTGCAACCCCTTTCA
45215832 CAATCAAAGATACAGTGAAA
66 CAATCAAAGATACAGTGAAA
* * *
45215852 TCAGCACTTAGCAACCACCTTTATATTGAGTGATACGGGGAATCAGCACATTGCAACCCCTTTCA
1 TCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATTGCAACCCCTTTCA
* *
45215917 CAATCAAAGATACCGTGGAA
66 CAATCAAAGATACAGTGAAA
* * * * *
45215937 TCAACACTTAGCAACCACCTTTAGAGTCAATAATTCGGGGAATCAGCAC-TTAGCAACCC
1 TCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATT-GCAACCC
45215996 TTGGGGAATC
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 19 0.15
85 108 0.85
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (85 bp):
TCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATTGCAACCCCTTTCA
CAATCAAAGATACAGTGAAA
Found at i:45216010 original size:25 final size:25
Alignment explanation
Indices: 45215973--45216022 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
45215963 TCAATAATTC
45215973 GGGGAATCAGCACTTAGCAACCCTT
1 GGGGAATCAGCACTTAGCAACCCTT
*
45215998 GGGGAATCTGCACTTAGCAACCCTT
1 GGGGAATCAGCACTTAGCAACCCTT
45216023 TTTTATCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (25 bp):
GGGGAATCAGCACTTAGCAACCCTT
Found at i:45224216 original size:126 final size:125
Alignment explanation
Indices: 45223985--45224378 Score: 522
Period size: 126 Copynumber: 3.1 Consensus size: 125
45223975 GCCAAACATG
* * * * *
45223985 AACTACTGTAGAAAAAGAGTGTCCATGTAGAAGCTTTTTTCATCAATTTTGCTGACAGTGAATCC
1 AACTACTGTAGAAAAAGAGCGTCCAAGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATTC
*
45224050 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACAGTCTTCTCAAAATTATTTTTTCA-A
66 TGCTTGAAGCGTTTTTGACACTATTT-TTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* * *
45224110 GAATTATTGTAGAAAAAGAGCGTCCAAGTAGGAGCTCTTTTCATCAATTTTGCTGACAGTGCATT
1 -AACTACTGTAGAAAAAGAGCGTCCAAGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATT
* * *
45224175 CTGCTTGAAGCATTTTTGACACTATTTATTTAGAACCGTCTTTTCAAAATTATTTTTTCAGA
65 CTGCTTGAAGCGTTTTTGACACTATTT-TTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* * * *
45224237 AACTACTATAAAAAAATAGCGTCCACGTAGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATT
1 AACTACTGTAGAAAAAGAGCGTCCAAGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATT
* * * * * *
45224301 CTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAATCATCTTCTCAAAATTAATTTTCCTGA
65 CTGCTTGAAGCGTTTTTGACACTAT-TTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
*
45224363 AAATACTGTAGAAAAA
1 AACTACTGTAGAAAAA
45224379 AAAACAAAAT
Statistics
Matches: 233, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
126 229 0.98
127 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCAAGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATTC
TGCTTGAAGCGTTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
Found at i:45224484 original size:34 final size:33
Alignment explanation
Indices: 45224446--45224550 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 33
45224436 CACAAAATTA
45224446 TTTCTTTTAAAAACTAAACTCTAATTTAATTAAT
1 TTTC-TTTAAAAACTAAACTCTAATTTAATTAAT
*
45224480 TTTC-TTAAAAACTCTAAACCCTAATTTAACTT-A-
1 TTTCTTTAAAAA--CTAAACTCTAATTTAA-TTAAT
* * *
45224513 TTTATTTAAAACCCTTAAAATCTAATTTAATTAAT
1 TTTCTTTAAAA-AC-TAAACTCTAATTTAATTAAT
45224548 TTT
1 TTT
45224551 TAAAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
32 7 0.12
33 6 0.10
34 40 0.69
35 5 0.09
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (33 bp):
TTTCTTTAAAAACTAAACTCTAATTTAATTAAT
Found at i:45224686 original size:42 final size:42
Alignment explanation
Indices: 45224598--45224683 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
45224588 CTTAAACTCT
* *
45224598 AAACCTAAATTATTTTAACAAAACACTAACCCCTACAACCTT
1 AAACCTAAATTATTTTAACAAAACACTAACCCCTAAAACCTA
* *
45224640 AAACCTAAATTGTTTTAACAAAACTCTAA-CCC-AAAACCCTA
1 AAACCTAAATTATTTTAACAAAACACTAACCCCTAAAA-CCTA
45224681 AAA
1 AAA
45224684 ACCCTAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 3 0.08
41 9 0.23
42 27 0.69
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (42 bp):
AAACCTAAATTATTTTAACAAAACACTAACCCCTAAAACCTA
Found at i:45225383 original size:22 final size:22
Alignment explanation
Indices: 45225341--45225383 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45225331 AAAATTTGTG
*
45225341 ATAATTATAATTATAATAATTA
1 ATAATTATAATTATAAAAATTA
45225363 ATAATTATTAATTA-AAAAATT
1 ATAATTA-TAATTATAAAAATT
45225384 GATATACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATTATAATTATAAAAATTA
Found at i:45225513 original size:29 final size:29
Alignment explanation
Indices: 45225453--45225515 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
45225443 AAAAGCCGTT
45225453 TTTTTTTTAAATTTACCGAAATGGGCCGA
1 TTTTTTTTAAATTTACCGAAATGGGCCGA
* *
45225482 TTTTTTTTATTATTTACCGGAATGGGCC-A
1 TTTTTTTTA-AATTTACCGAAATGGGCCGA
45225511 TTTTT
1 TTTTT
45225516 CGCGAAATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (29 bp):
TTTTTTTTAAATTTACCGAAATGGGCCGA
Found at i:45236900 original size:13 final size:13
Alignment explanation
Indices: 45236879--45236913 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
45236869 CCTGGACAAA
*
45236879 ATTTTAGGCCCAT
1 ATTTCAGGCCCAT
45236892 ATTTCAGGCCCAT
1 ATTTCAGGCCCAT
45236905 ATTTCAGGC
1 ATTTCAGGC
45236914 TGGGCTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (13 bp):
ATTTCAGGCCCAT
Found at i:45251911 original size:34 final size:36
Alignment explanation
Indices: 45251873--45251953 Score: 141
Period size: 34 Copynumber: 2.3 Consensus size: 36
45251863 AAAAATAAGT
45251873 AAAATTACAAATAAATTAAT-AAAAAATATTTAG-A
1 AAAATTACAAATAAATTAATAAAAAAATATTTAGAA
45251907 AAAATTACAAATAAATTAATAAAAAAATATTTAGAA
1 AAAATTACAAATAAATTAATAAAAAAATATTTAGAA
45251943 AAAATTA-AAAT
1 AAAATTACAAAT
45251954 TATAAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
34 20 0.44
35 17 0.38
36 8 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (36 bp):
AAAATTACAAATAAATTAATAAAAAAATATTTAGAA
Found at i:45251962 original size:34 final size:35
Alignment explanation
Indices: 45251873--45251963 Score: 125
Period size: 34 Copynumber: 2.7 Consensus size: 35
45251863 AAAAATAAGT
*
45251873 AAAATTACAAATAAATTAAT-AAAAAATATTTAGA
1 AAAATTACAAATAAATAAATAAAAAAATATTTAGA
*
45251907 AAAATTACAAATAAATTAATAAAAAAATATTTAGAA
1 AAAATTACAAATAAATAAATAAAAAAATATTTAG-A
*
45251943 AAAATTA-AAAT-TATAAATAAA
1 AAAATTACAAATAAATAAATAAA
45251964 TTTTAAGTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 28 0.53
35 17 0.32
36 8 0.15
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (35 bp):
AAAATTACAAATAAATAAATAAAAAAATATTTAGA
Found at i:45252124 original size:25 final size:26
Alignment explanation
Indices: 45252093--45252148 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 26
45252083 ATTGCATCGC
*
45252093 ATTTTAAAATATTTTAAAA-A-CAT-A
1 ATTTTTAAA-ATTTTAAAATATCATAA
45252117 ATTTTTAAAATTTTAAAATATCATAA
1 ATTTTTAAAATTTTAAAATATCATAA
45252143 ATTTTT
1 ATTTTT
45252149 TAAGTAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 9 0.32
25 3 0.11
26 7 0.25
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTTTAAAATTTTAAAATATCATAA
Found at i:45252847 original size:108 final size:107
Alignment explanation
Indices: 45252682--45253108 Score: 660
Period size: 110 Copynumber: 4.0 Consensus size: 107
45252672 AAGATATAAG
* * * * ** *
45252682 AGGATATTTGGCTATTTGGTCCATCGAG-AAATTGAAACCCAGCACATTAACGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCG
45252746 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
*
45252788 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
*
45252853 GAATTTCCAAACGCAGAACATTGCCTTATTTTTGAAACTTTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAA-TTTTAAA
* *
45252898 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCGACACATTAGGGCACGTTTTCTA
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
* *
45252963 AAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
*
45253006 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCG
* *
45253071 AATTTCCAAACCCAAAAAATTGCCTTATTTT-AAATTTT
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
45253109 TTTTAAAAAG
Statistics
Matches: 295, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
106 32 0.11
107 61 0.21
108 92 0.31
109 16 0.05
110 94 0.32
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
Found at i:45252945 original size:110 final size:107
Alignment explanation
Indices: 45252682--45253108 Score: 662
Period size: 108 Copynumber: 4.0 Consensus size: 107
45252672 AAGATATAAG
* * * ** *
45252682 AGGATATTTGGCTATTTGGTCCATCGAG-AAATTGAAACCCAGCACATTAACGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
45252746 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
* *
45252788 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
45252853 GAATTTCCAAACGCAGAACATTGCCTTATTTTTGAAACTTTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAA-TTTTAAA
45252898 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCC-GACACATTAGGGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAG-CACATTAGGGCACGTTTTCT
** *
45252962 AAAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
64 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
45253006 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
* *
45253071 AATTTCCAAACCCAAAAAATTGCCTTATTTT-AAATTTT
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
45253109 TTTTAAAAAG
Statistics
Matches: 295, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
106 32 0.11
107 61 0.21
108 93 0.32
109 16 0.05
110 93 0.32
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
Found at i:45253116 original size:218 final size:216
Alignment explanation
Indices: 45252682--45253101 Score: 673
Period size: 218 Copynumber: 1.9 Consensus size: 216
45252672 AAGATATAAG
* * **
45252682 AGGATATTTGGCTATTTGGTCCATCGAGAAATTGAAACCCAGCACATTAACGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCCAACGAGAAATCGAAACCCAGCACATTAACGCACGTTTCCTAAA
*
45252747 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAGGATATTCGGCTATTTGGTCGAA
66 ATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAAAGGATATTCGGCTATTTGGTCGAA
* * *
45252812 CGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAGAACATTGC
131 CGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGAATTTCCAAACCCAAAAAATTGC
45252877 CTTATTTTTGAAACTTTTAAA
196 CTTATTTTTGAAACTTTTAAA
* ** *
45252898 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCC-GACACATTAGGGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTCCAACGAG--AAATCGAAACCCAG-CACATTAACGCACGTTTCCT
*
45252962 AAAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTC
63 AAAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAAAGGATATTCGGCTATTTGGTC
*
45253027 GAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACCCAAAAAAT
128 GAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGAATTTCCAAACCCAAAAAAT
45253091 TGCCTTATTTT
193 TGCCTTATTTT
45253102 AAATTTTTTT
Statistics
Matches: 187, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
216 26 0.14
217 65 0.35
218 96 0.51
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (216 bp):
AGGATATTTGGCTATTTGGTCCAACGAGAAATCGAAACCCAGCACATTAACGCACGTTTCCTAAA
ATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAAAGGATATTCGGCTATTTGGTCGAA
CGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGAATTTCCAAACCCAAAAAATTGC
CTTATTTTTGAAACTTTTAAA
Found at i:45254370 original size:14 final size:13
Alignment explanation
Indices: 45254347--45254382 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
45254337 CTACTCCTGC
45254347 AAAAACAGAAGCA
1 AAAAACAGAAGCA
45254360 AAAAGACAGAAGCA
1 AAAA-ACAGAAGCA
45254374 AAAAACAGA
1 AAAAACAGA
45254383 GGACAATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAACAGAAGCA
Found at i:45255578 original size:17 final size:18
Alignment explanation
Indices: 45255549--45255585 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
45255539 TTTTTTTATT
45255549 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
45255567 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
45255584 TT
1 TT
45255586 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:45258055 original size:44 final size:44
Alignment explanation
Indices: 45257980--45258319 Score: 154
Period size: 44 Copynumber: 7.6 Consensus size: 44
45257970 AATTTGTGAT
* * * * *
45257980 TTCAGTCTGCTCCACCGCAACTT-TGGAGAGATAAGACTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGG-GAGATAAGACTTGTATC
* * * *
45258024 TTCAACCTACTCCACTGCAACTTCAGGGAGATCAG-GTT-TGTC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
* * * * * * *
45258066 AT-GATCTACTCTACTGCAACTTCAGAGAGACAAGATTTAAAATTTATAGC
1 TTCAATCTACTCCACTGCAACTTCAG-G-G---AGA--TAAGACTTGTATC
* * * *
45258116 TTCAATCTATTCCACTGTAACTTTAGGGAAATAAGA-TTCGTTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G-TATC
* * * ** ***
45258161 TTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-CTTGTATC
* * * * * *
45258205 TTCAACCTACTCCACTACTA-TTTAGGGAGATAGGACTTGTTATT
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TATC
* * *
45258249 TTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGACTTGTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
* * * *
45258293 TTCAACCTGCTCCATTGCAATTTCAGG
1 TTCAATCTACTCCACTGCAACTTCAGG
45258320 AAAATAGGAT
Statistics
Matches: 215, Mismatches: 63, Indels: 36
0.68 0.20 0.11
Matches are distributed among these distances:
41 20 0.09
42 4 0.02
43 9 0.04
44 112 0.52
45 37 0.17
46 6 0.03
48 2 0.01
49 3 0.01
50 4 0.02
51 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
Found at i:45268525 original size:16 final size:16
Alignment explanation
Indices: 45268500--45268534 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45268490 CCTTTTAATG
* *
45268500 AAATGTCATGTAGTCA
1 AAATGCCATGCAGTCA
45268516 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
45268532 AAA
1 AAA
45268535 CAAAACAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:45269634 original size:108 final size:107
Alignment explanation
Indices: 45269462--45269903 Score: 643
Period size: 110 Copynumber: 4.1 Consensus size: 107
45269452 AAAATATAAG
* * * *
45269462 AGGATATTTGGCTATTTGGTCCAACGAG-AAATTGAAACCCAACACATTAGGGCACATTTCCTCG
1 AGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
* *
45269526 AATTTCCAAACTCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAA
* * * * *
45269568 AGGATATTCGGCTATTTGGTCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGATCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
*
45269633 GAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTA-TTTT-AAAATTTTAAA
** *
45269678 AGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCGGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGATCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
*
45269743 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAA
45269786 AGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
* * *
45269851 AATTTTCAAACCCAAAACATTACCTTATTTTAAATTTTTTTTAAA
66 AATTTCCAAACGCAAAACATTACCTTATTTTAAA---ATTTTAAA
45269896 AGGATATT
1 AGGATATT
45269904 AAAATGCGTA
Statistics
Matches: 309, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
106 26 0.08
107 65 0.21
108 96 0.31
109 8 0.03
110 114 0.37
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
AATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAA
Found at i:45269903 original size:218 final size:216
Alignment explanation
Indices: 45269462--45269881 Score: 653
Period size: 218 Copynumber: 1.9 Consensus size: 216
45269452 AAAATATAAG
* *
45269462 AGGATATTTGGCTATTTGGTCCAACGAGAAATTGAAACCCAACACATTAGGGCACATTTCCTCGA
1 AGGATATTTGGCTATTTGATCCAACGAGAAATCGAAACCCAACACATTAGGGCACATTTCCTCGA
* * *
45269527 ATTTCCAAACTCAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATTCGGCTATTTGGTCAAA
66 ATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAAAGGATATTCGGCTATTTGATCAAA
* * * *
45269592 CGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGC
131 CGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACCCAAAACATTAC
45269657 CTTATTTTTGAAAATTTTAAA
196 CTTATTTTTGAAAATTTTAAA
* ** * *
45269678 AGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCGGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGATCCAACGAG--AAATCGAAACCCAACACATTAGGGCACATTTCCTC
* * *
45269743 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAAAGGATATTTGGCTATTTGATCG
64 GAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAAAGGATATTCGGCTATTTGATCA
*
45269808 AACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTTCAAACCCAAAACATT
129 AACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACCCAAAACATT
45269872 ACCTTATTTT
194 ACCTTATTTT
45269882 AAATTTTTTT
Statistics
Matches: 184, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
216 26 0.14
217 63 0.34
218 95 0.52
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (216 bp):
AGGATATTTGGCTATTTGATCCAACGAGAAATCGAAACCCAACACATTAGGGCACATTTCCTCGA
ATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTAAAAGGATATTCGGCTATTTGATCAAA
CGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACCCAAAACATTAC
CTTATTTTTGAAAATTTTAAA
Found at i:45302737 original size:24 final size:21
Alignment explanation
Indices: 45302688--45302740 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 21
45302678 ATTTTATCCG
45302688 TCTATTTTATATTAATTTAAT
1 TCTATTTTATATTAATTTAAT
45302709 TCTATTTTATAATTATATTATAAT
1 TCTATTTTAT-ATTA-ATT-TAAT
45302733 TCTATTTT
1 TCTATTTT
45302741 TTTAACTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.34
22 4 0.14
23 3 0.10
24 12 0.41
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
TCTATTTTATATTAATTTAAT
Found at i:45308956 original size:34 final size:35
Alignment explanation
Indices: 45308854--45308959 Score: 196
Period size: 35 Copynumber: 3.1 Consensus size: 35
45308844 TGTTGTGCCA
45308854 TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
1 TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
45308889 TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
1 TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
*
45308924 TTTGTGCTTTTTTAAGTGCTAAGAT-CCATTTTCT
1 TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
45308958 TT
1 TT
45308960 CTGTTTTCTC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
34 10 0.14
35 60 0.86
ACGTcount: A:0.15, C:0.16, G:0.14, T:0.55
Consensus pattern (35 bp):
TTTGTGCTTTTTTAAGTGCTAAGATCCCTTTTTCT
Found at i:45309732 original size:17 final size:18
Alignment explanation
Indices: 45309707--45309740 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45309697 TAGTAACCTG
45309707 CATTCCCTTG-TTATCTC
1 CATTCCCTTGATTATCTC
*
45309724 CATTTCCTTGATTATCT
1 CATTCCCTTGATTATCT
45309741 TAACAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.29, G:0.06, T:0.50
Consensus pattern (18 bp):
CATTCCCTTGATTATCTC
Found at i:45312880 original size:41 final size:41
Alignment explanation
Indices: 45312833--45312913 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
45312823 ATATTTTATT
*
45312833 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATCAGAATAAGGGAATTATTTTCC
45312874 TTATCTTTTAGTAGTTTATCAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATCAGAATAAGGGAATTATTTTC
45312914 ACAATTAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATCAGAATAAGGGAATTATTTTCC
Found at i:45314267 original size:46 final size:46
Alignment explanation
Indices: 45314200--45314291 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
45314190 CGAATGCCAG
45314200 AAATTTTCAACAAGTCTTTGTAAATCGAAAGAAATGGCATTTTTCT
1 AAATTTTCAACAAGTCTTTGTAAATCGAAAGAAATGGCATTTTTCT
45314246 AAATTTTCAACAAGTCTTTGTAAATCGAAAGAAATGGCATTTTTCT
1 AAATTTTCAACAAGTCTTTGTAAATCGAAAGAAATGGCATTTTTCT
45314292 TTTCAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (46 bp):
AAATTTTCAACAAGTCTTTGTAAATCGAAAGAAATGGCATTTTTCT
Found at i:45338463 original size:3 final size:3
Alignment explanation
Indices: 45338452--45338480 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
45338442 ATTATTTTGT
45338452 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45338481 CTTACTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45341345 original size:4 final size:4
Alignment explanation
Indices: 45341336--45341363 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
45341326 TCCAATTTAT
45341336 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
45341364 CGACAACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:45341425 original size:24 final size:25
Alignment explanation
Indices: 45341392--45341438 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
45341382 TTCGGCGTGG
*
45341392 TATTAAGGATTTAATTTTAAAAAAA
1 TATTAAGGATCTAATTTTAAAAAAA
45341417 TATT-AGGATCTAATTTTAAAAA
1 TATTAAGGATCTAATTTTAAAAA
45341439 CTTAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (25 bp):
TATTAAGGATCTAATTTTAAAAAAA
Found at i:45342545 original size:8 final size:8
Alignment explanation
Indices: 45342528--45342557 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
45342518 TAATTAATTT
45342528 TTAAAA-A
1 TTAAAATA
45342535 TTAAAATA
1 TTAAAATA
45342543 TTAAAATA
1 TTAAAATA
45342551 TTAAAAT
1 TTAAAAT
45342558 TTTTATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAAATA
Found at i:45350159 original size:17 final size:18
Alignment explanation
Indices: 45350118--45350159 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
45350108 TTTCTATAAA
45350118 TATATTTTATAAACATTT
1 TATATTTTATAAACATTT
*
45350136 TCA-ATTTT-TAAATATTT
1 T-ATATTTTATAAACATTT
45350153 TATATTT
1 TATATTT
45350160 AAAAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 6 0.29
19 1 0.05
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTTATAAACATTT
Found at i:45352014 original size:17 final size:17
Alignment explanation
Indices: 45351992--45352024 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45351982 ATATTTTTTA
45351992 TTTTTAATAAAATATAC
1 TTTTTAATAAAATATAC
45352009 TTTTTAATAAAATATA
1 TTTTTAATAAAATATA
45352025 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATAAAATATAC
Found at i:45354364 original size:228 final size:228
Alignment explanation
Indices: 45353960--45354409 Score: 695
Period size: 228 Copynumber: 2.0 Consensus size: 228
45353950 GAAAAAACTA
*
45353960 AGAAAACCCCTTAGGACTCTAAAACTTGGGAATAAGAACAATCAATGTGTTATTAAGCTCATTAT
1 AGAAAACCCCTTAGGACTCTAAAACTTGGGAATAAGAACAATCAATGTGTTATTAAGCTCAGTAT
* * *
45354025 CAATAACGCCTCCATTAAATACCATTTTCACCCAATCACAAATAGCTGGGCCCACTGTACCCTAC
66 CAATAACGCCTCCATTAAATACCATTTTCACCCAATAACAAACAGCTGGGCCCACTGTACCCCAC
* * * * * *
45354090 TGTTTCTAGAAGAAGAGGGCATGAAAGTTACTACTGCCCAGAGCTTTTAGAGGAGCCATGTCAAA
131 TGCTCCTAGAAAAAGAGGGCATAAAAGTCACTACTACCCAGAGCTTTTAGAGGAGCCATGTCAAA
45354155 CAAAACCTTTTTAATTTATTCATCAGTAACCAC
196 CAAAACCTTTTTAATTTATTCATCAGTAACCAC
* * *
45354188 AGAAAA-CCCTTCATGACTCTAAAACTTGGGAATAAGAATAATCAATGTGTTATTAAGCTTAGTA
1 AGAAAACCCCTT-AGGACTCTAAAACTTGGGAATAAGAACAATCAATGTGTTATTAAGCTCAGTA
* * *
45354252 TCAATAATGCCTCCATTAAATACCATTTTCACCTAATAACAAACAGCTGGGCCCATTGTACCCCA
65 TCAATAACGCCTCCATTAAATACCATTTTCACCCAATAACAAACAGCTGGGCCCACTGTACCCCA
* * * *
45354317 CTGCTCCTGGAAAAAGAGGGCATAAAAGTCATTACTACCCGGAGCTTTTGGAGGAGCCATGTCAA
130 CTGCTCCTAGAAAAAGAGGGCATAAAAGTCACTACTACCCAGAGCTTTTAGAGGAGCCATGTCAA
*
45354382 ACAAAGCCTTTTTAATTTATTCATCAGT
195 ACAAAACCTTTTTAATTTATTCATCAGT
45354410 GGCCACTCTT
Statistics
Matches: 200, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
227 5 0.03
228 195 0.98
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (228 bp):
AGAAAACCCCTTAGGACTCTAAAACTTGGGAATAAGAACAATCAATGTGTTATTAAGCTCAGTAT
CAATAACGCCTCCATTAAATACCATTTTCACCCAATAACAAACAGCTGGGCCCACTGTACCCCAC
TGCTCCTAGAAAAAGAGGGCATAAAAGTCACTACTACCCAGAGCTTTTAGAGGAGCCATGTCAAA
CAAAACCTTTTTAATTTATTCATCAGTAACCAC
Found at i:45355851 original size:37 final size:37
Alignment explanation
Indices: 45355801--45355876 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
45355791 AGTTTAGAAG
45355801 AGTTAAGCTTCACCACCTCTTCCATAGAATCAGCTAA
1 AGTTAAGCTTCACCACCTCTTCCATAGAATCAGCTAA
*
45355838 AGTTAAGCTTCACCACCTCTTTCATAGAATCAGCTAA
1 AGTTAAGCTTCACCACCTCTTCCATAGAATCAGCTAA
45355875 AG
1 AG
45355877 GAACTCGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (37 bp):
AGTTAAGCTTCACCACCTCTTCCATAGAATCAGCTAA
Found at i:45364110 original size:21 final size:22
Alignment explanation
Indices: 45364086--45364128 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
45364076 ATGTCAGGAT
45364086 GTTGGGGG-TTCTCATCACGAC
1 GTTGGGGGTTTCTCATCACGAC
*
45364107 GTTGGGGGTTTCTCGTCACGAC
1 GTTGGGGGTTTCTCATCACGAC
45364129 ATAACATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (22 bp):
GTTGGGGGTTTCTCATCACGAC
Found at i:45371609 original size:15 final size:15
Alignment explanation
Indices: 45371591--45371628 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
45371581 AACAAAGGAG
45371591 AAAG-AAAGAAAGAAA
1 AAAGAAAAG-AAGAAA
45371606 AAAGAAAAGAAGAAA
1 AAAGAAAAGAAGAAA
45371621 AGAAGAAA
1 A-AAGAAA
45371629 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAGAAA
Found at i:45371618 original size:8 final size:8
Alignment explanation
Indices: 45371595--45371628 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
45371585 AAGGAGAAAG
45371595 AAAGAAAGA
1 AAAG-AAGA
45371604 AAA-AAGA
1 AAAGAAGA
45371611 AAAGAAGA
1 AAAGAAGA
45371619 AAAGAAGA
1 AAAGAAGA
45371627 AA
1 AA
45371629 TTTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 14 0.58
9 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAGAAGA
Found at i:45375828 original size:53 final size:53
Alignment explanation
Indices: 45375744--45375889 Score: 202
Period size: 53 Copynumber: 2.8 Consensus size: 53
45375734 TTTCTTAAAT
* * * *
45375744 TTTCCATATGATGTCATAACCCATCAATTATGGTCTTACATGATATGGTATTC
1 TTTCCATATGATTTCATAACCCACCAGTTATGGTCTTACACGATATGGTATTC
* * *
45375797 TTTCCATATGATTTCATGACCCACCAGTTATGGTCTTACACGATATTGTCTTC
1 TTTCCATATGATTTCATAACCCACCAGTTATGGTCTTACACGATATGGTATTC
* * *
45375850 TTTCCATATGATTCCATAACCAACCAGTTACGGTCTTACA
1 TTTCCATATGATTTCATAACCCACCAGTTATGGTCTTACA
45375890 GAATATAGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 82 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (53 bp):
TTTCCATATGATTTCATAACCCACCAGTTATGGTCTTACACGATATGGTATTC
Found at i:45377508 original size:41 final size:41
Alignment explanation
Indices: 45377463--45377541 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
45377453 CCGTGTGCTC
* ** *
45377463 CACACGACCTGGCACACGGTTGACCACACGTCCGTGTGGCG
1 CACACGACCTGACACACGACTAACCACACGTCCGTGTGGCG
*
45377504 CACACGGCCTGACACACGACTAACCACACGTCCGTGTG
1 CACACGACCTGACACACGACTAACCACACGTCCGTGTG
45377542 ATGTAGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.14
Consensus pattern (41 bp):
CACACGACCTGACACACGACTAACCACACGTCCGTGTGGCG
Found at i:45378114 original size:11 final size:12
Alignment explanation
Indices: 45378098--45378151 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
45378088 AAATCTAAAC
45378098 AGAAAAAAGAA-
1 AGAAAAAAGAAT
45378109 AGAAAAAA-AAT
1 AGAAAAAAGAAT
45378120 A-AAAAAAGAAT
1 AGAAAAAAGAAT
*
45378131 AAAGAAAAAGAA-
1 AGA-AAAAAGAAT
45378143 ATGAAAAAA
1 A-GAAAAAA
45378152 AGAGAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 8 0.22
11 13 0.35
12 7 0.19
13 9 0.24
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (12 bp):
AGAAAAAAGAAT
Found at i:45378139 original size:24 final size:27
Alignment explanation
Indices: 45378107--45378171 Score: 91
Period size: 28 Copynumber: 2.5 Consensus size: 27
45378097 CAGAAAAAAG
45378107 AAAGAAAAA-AAAT-AAAAAA-AGAAT
1 AAAGAAAAAGAAATAAAAAAAGAGAAT
45378131 AAAGAAAAAGAAATGAAAAAAAGAGAAT
1 AAAGAAAAAGAAAT-AAAAAAAGAGAAT
*
45378159 AAAGACAAAGAAA
1 AAAGAAAAAGAAA
45378172 GTGGGAACGT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 9 0.25
25 4 0.11
27 6 0.17
28 17 0.47
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (27 bp):
AAAGAAAAAGAAATAAAAAAAGAGAAT
Found at i:45378140 original size:13 final size:13
Alignment explanation
Indices: 45378107--45378170 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
45378097 CAGAAAAAAG
*
45378107 AAAGAAAAAAAAT
1 AAAGAAAAAGAAT
45378120 -AA-AAAAAGAAT
1 AAAGAAAAAGAAT
45378131 AAAGAAAAAGAAAT
1 AAAGAAAAAG-AAT
45378145 GAAA-AAAAGAGAAT
1 -AAAGAAAA-AGAAT
*
45378159 AAAGACAAAGAA
1 AAAGAAAAAGAA
45378171 AGTGGGAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
11 8 0.19
12 4 0.09
13 13 0.30
14 13 0.30
15 5 0.12
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAGAAAAAGAAT
Found at i:45380603 original size:25 final size:26
Alignment explanation
Indices: 45380547--45380605 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
45380537 TAAATTAATA
* *
45380547 ATTTATATTGAAATATAAATATTTATT
1 ATTTATATAGAAATATAAATA-TTATC
* *
45380574 TTTTATATAGATATATAAATA-TATC
1 ATTTATATAGAAATATAAATATTATC
45380599 ATTTATA
1 ATTTATA
45380606 AAATAAATCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 9 0.33
27 18 0.67
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTTATATAGAAATATAAATATTATC
Found at i:45381068 original size:78 final size:77
Alignment explanation
Indices: 45380925--45381071 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 77
45380915 ATTGCTTTTA
* * * * * *
45380925 TTTTTGCACTCAATTGGGTAATTGAATTTTCAAAATGTATCAAAAATGCTCTCAAATTAAAAAAA
1 TTTTTGCACTCAATTGGGTAATTAAACTTTCAAAATGTATAAAAAAAGCCCTAAAATT-AAAAAA
45380990 AATTAAGCCCCTT
65 AATTAAGCCCCTT
* *
45381003 TTTTTTCACTCAATTGGGTACTTAAACTTTCAAAATGTATAAAAAAAAGCCCTTAAAATTCAAAA
1 TTTTTGCACTCAATTGGGTAATTAAACTTTCAAAATGTAT-AAAAAAAGCCC-TAAAATT-AAAA
45381068 AAAA
63 AAAA
45381072 GCAATTAAGC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 36 0.62
79 8 0.14
80 14 0.24
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (77 bp):
TTTTTGCACTCAATTGGGTAATTAAACTTTCAAAATGTATAAAAAAAGCCCTAAAATTAAAAAAA
ATTAAGCCCCTT
Found at i:45381309 original size:9 final size:9
Alignment explanation
Indices: 45381281--45381349 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
45381271 AAATTTTTTT
*
45381281 AAAATTAGA
1 AAAATTATA
45381290 AAAATTATA
1 AAAATTATA
*
45381299 AAAATTGTA
1 AAAATTATA
*
45381308 AAATTTTATA
1 AAA-ATTATA
*
45381318 AAAATCATA
1 AAAATTATA
*
45381327 AAAA-AATA
1 AAAATTATA
45381335 TAAAATGTATA
1 -AAAAT-TATA
45381346 AAAA
1 AAAA
45381350 AACCCTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 3 0.06
9 31 0.65
10 11 0.23
11 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:45381340 original size:37 final size:36
Alignment explanation
Indices: 45381251--45381340 Score: 85
Period size: 38 Copynumber: 2.4 Consensus size: 36
45381241 AATAAAAAAT
* *
45381251 AAAAAATATAAAGTATATTAAAATTTTTTTAAAATTAG
1 AAAAAATATAAA--ATATTAAAATTTTATAAAAATTAG
*
45381289 AAAAATTATAAAA-ATTGTAAAATTTTATAAAAATCATA-
1 AAAAAATATAAAATA-T-TAAAATTTTATAAAAAT--TAG
45381327 AAAAAATATAAAAT
1 AAAAAATATAAAAT
45381341 GTATAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
35 1 0.02
36 2 0.05
37 15 0.35
38 23 0.53
39 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (36 bp):
AAAAAATATAAAATATTAAAATTTTATAAAAATTAG
Found at i:45381345 original size:28 final size:26
Alignment explanation
Indices: 45381280--45381349 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
45381270 AAAATTTTTT
* * * *
45381280 TAAAATTAGAAAAATTATAAAAATTG
1 TAAAATTATAAAAATCATAAAAAATA
45381306 TAAAATTTTATAAAAATCATAAAAAAATA
1 TAAAA--TTATAAAAATCAT-AAAAAATA
45381335 TAAAATGTATAAAAA
1 TAAAAT-TATAAAAA
45381350 AACCCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 19 0.53
29 11 0.31
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAAATTATAAAAATCATAAAAAATA
Found at i:45382270 original size:5 final size:5
Alignment explanation
Indices: 45382238--45382267 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45382228 TTTTGCCCTC
*
45382238 GCTGT GCTGT GCTGT GCTGT GCTGT TCTGT
1 GCTGT GCTGT GCTGT GCTGT GCTGT GCTGT
45382268 TCTATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.37, T:0.43
Consensus pattern (5 bp):
GCTGT
Found at i:45384041 original size:10 final size:10
Alignment explanation
Indices: 45384026--45384057 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
45384016 GCCTTATGCA
*
45384026 AATTTTTATT
1 AATTTTTGTT
45384036 AATTTTTGTT
1 AATTTTTGTT
45384046 AATTTTTGTT
1 AATTTTTGTT
45384056 AA
1 AA
45384058 AATCAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (10 bp):
AATTTTTGTT
Found at i:45384381 original size:32 final size:32
Alignment explanation
Indices: 45384343--45384406 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
45384333 TATGCAAAAT
* *
45384343 TTTGTTGTTTTTTTTTAAATGAAAAAATTAAA
1 TTTGTTGTTTTGTTTTAAATGAAAAAACTAAA
45384375 TTTGTTGTTTTGTTTTAAATGAAAAAACTAAA
1 TTTGTTGTTTTGTTTTAAATGAAAAAACTAAA
45384407 ATACCCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (32 bp):
TTTGTTGTTTTGTTTTAAATGAAAAAACTAAA
Found at i:45389227 original size:33 final size:35
Alignment explanation
Indices: 45389190--45389286 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
45389180 ATGGTTATAT
45389190 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
45389223 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
45389258 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
45389287 AAAATATTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:45390294 original size:116 final size:117
Alignment explanation
Indices: 45390090--45390302 Score: 367
Period size: 116 Copynumber: 1.8 Consensus size: 117
45390080 GGGGGCTCGA
45390090 ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
1 ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
45390155 TTTCGTCGCTTAACCGAACTTATG-TTTAGGGGTGTCACAAGGGAGGAAGGC
66 TTTCGTCGCTTAACCGAACTTATGTTTTAGGGGTGTCACAAGGGAGGAAGGC
* * *
45390206 ACTTGGGTAAGCAAGGGGGAGAGACTAA-AGCTTAATCGTTAGGTTGTTGCCTATTTCTTACTTA
1 ACTTGGGTAAGCAAGAGGGAGAGACTAACA-CTTAATCATTAGGTTGTTGCCCATTTCTTACTTA
*
45390270 ATTTTGTCGCTTAACCGAACTTATGTTTTAGGG
65 ATTTCGTCGCTTAACCGAACTTATGTTTTAGGG
45390303 TGTTACAGTC
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 1 0.01
116 83 0.91
117 7 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (117 bp):
ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
TTTCGTCGCTTAACCGAACTTATGTTTTAGGGGTGTCACAAGGGAGGAAGGC
Found at i:45392355 original size:39 final size:40
Alignment explanation
Indices: 45392312--45392423 Score: 120
Period size: 38 Copynumber: 2.8 Consensus size: 40
45392302 TCGGATAGTT
* *
45392312 CGAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCCAAC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCCAAC
** ** * * *
45392351 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCCAAC
45392390 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
45392424 CTCAAGGTCG
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 19 0.33
39 18 0.32
40 3 0.05
41 17 0.30
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCCAAC
Found at i:45393844 original size:40 final size:40
Alignment explanation
Indices: 45393782--45393876 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
45393772 CTTTTCTTTC
* *
45393782 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
45393823 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
45393863 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
45393877 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:45393901 original size:8 final size:8
Alignment explanation
Indices: 45393890--45393935 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
45393880 TTTGTCATAT
45393890 ATATAATA
1 ATATAATA
45393898 ATATAATA
1 ATATAATA
*
45393906 ATATGAT-
1 ATATAATA
45393913 ATATTAATA
1 ATA-TAATA
45393922 ATA-ATATA
1 ATATA-ATA
45393930 ATATAA
1 ATATAA
45393936 AAACATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 4 0.12
8 24 0.75
9 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:45395338 original size:200 final size:200
Alignment explanation
Indices: 45394995--45395391 Score: 740
Period size: 200 Copynumber: 2.0 Consensus size: 200
45394985 AAATAAACAT
*
45394995 AATAATCTCGTACTCTCTCAAAAGGAATAATAGAATGGGCCCTACCTTATACGTCCTCACCTACT
1 AATAATCCCGTACTCTCTCAAAAGGAATAATAGAATGGGCCCTACCTTATACGTCCTCACCTACT
*
45395060 CAATGATGACAACTTTTTTATAACAACCTACCATGTCACCACTACTAGACAAGAGGACTTCTCCT
66 CAATGATGACAACTTCTTTATAACAACCTACCATGTCACCACTACTAGACAAGAGGACTTCTCCT
* *
45395125 ATAAATACCTTTTAAGATGATGAGAAAGGGATCTTCTTCCTCATTAGCAACCTTGAGCACTACTC
131 ATAAATACCTTTTAAGACGATGAGAAAGGAATCTTCTTCCTCATTAGCAACCTTGAGCACTACTC
45395190 CTATA
196 CTATA
* *
45395195 AATAATCCCGTACTCTTTCAAAAGGAATAATAGAATGGGCCCTACCTTATATGTCCTCACCTACT
1 AATAATCCCGTACTCTCTCAAAAGGAATAATAGAATGGGCCCTACCTTATACGTCCTCACCTACT
45395260 CAATGATGACAACTTCTTTATAACAACCTACCATGTCACCACTACTAGACAAGAGGACTTCTCCT
66 CAATGATGACAACTTCTTTATAACAACCTACCATGTCACCACTACTAGACAAGAGGACTTCTCCT
45395325 ATAAATACCTTTTAAGACGATGAGAAAGGAATCTTCTTCCTCATTAGCAACCTTGAGCACTACTC
131 ATAAATACCTTTTAAGACGATGAGAAAGGAATCTTCTTCCTCATTAGCAACCTTGAGCACTACTC
45395390 CT
196 CT
45395392 TGCAATCAAC
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 191 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (200 bp):
AATAATCCCGTACTCTCTCAAAAGGAATAATAGAATGGGCCCTACCTTATACGTCCTCACCTACT
CAATGATGACAACTTCTTTATAACAACCTACCATGTCACCACTACTAGACAAGAGGACTTCTCCT
ATAAATACCTTTTAAGACGATGAGAAAGGAATCTTCTTCCTCATTAGCAACCTTGAGCACTACTC
CTATA
Found at i:45396016 original size:11 final size:11
Alignment explanation
Indices: 45396002--45396054 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
45395992 TTAAAAACCA
45396002 TAAAAAATTAT
1 TAAAAAATTAT
*
45396013 TAAAAAATCAT
1 TAAAAAATTAT
*
45396024 GTATAAAAATTGT
1 -TA-AAAAATTAT
*
45396037 TAAGAAATTAAT
1 TAAAAAATT-AT
45396049 TAAAAA
1 TAAAAA
45396055 TCATAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 16 0.48
12 10 0.30
13 7 0.21
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (11 bp):
TAAAAAATTAT
Found at i:45396291 original size:13 final size:13
Alignment explanation
Indices: 45396273--45396298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45396263 AACCCAGCCT
45396273 GGGCAGCTCCCAC
1 GGGCAGCTCCCAC
45396286 GGGCAGCTCCCAC
1 GGGCAGCTCCCAC
45396299 CACAATAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.31, T:0.08
Consensus pattern (13 bp):
GGGCAGCTCCCAC
Found at i:45400589 original size:19 final size:17
Alignment explanation
Indices: 45400565--45400607 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
45400555 CTTTCTATAC
45400565 TTATTTTAAGAATAATTTT
1 TTATTTTAAGAA-AA-TTT
**
45400584 TTATTTTTTGAAAATTT
1 TTATTTTAAGAAAATTT
45400601 TTATTTT
1 TTATTTT
45400608 TGTTGACGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (17 bp):
TTATTTTAAGAAAATTT
Found at i:45406203 original size:3 final size:3
Alignment explanation
Indices: 45406195--45406243 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
45406185 ATCTTCATTC
45406195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45406243 A
1 A
45406244 CCAACCATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45411123 original size:15 final size:15
Alignment explanation
Indices: 45411103--45411136 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45411093 GTCCACACAG
45411103 GTGTAT-GTCTAAGCC
1 GTGTATAGTCT-AGCC
45411118 GTGTATAGTCTAGCC
1 GTGTATAGTCTAGCC
45411133 GTGT
1 GTGT
45411137 GTTCCCTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (15 bp):
GTGTATAGTCTAGCC
Found at i:45418015 original size:44 final size:43
Alignment explanation
Indices: 45417944--45418190 Score: 264
Period size: 44 Copynumber: 5.6 Consensus size: 43
45417934 TTAATCCAAC
* *
45417944 CCACTGCAACTTCAGAGG-TATAGGATTTGTCACTTCAATCTATT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGT-ACTTCAATCTATT
* *
45417988 CCACTGCAACTTCAGCGAGATAAGATTTGTAGCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTCAATCTATT
** * * *
45418032 CCACTATAACTTTAGGGAGATAAGATTTGTAACTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAATCTATT
*
45418076 CCACTGCAACTTCAGGGAGATAAGATTTGTCGCTTCAATCTACTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAATCTA-TT
* * * * **
45418121 -CATTGCAGCTTCAGCGAGATAAGATTTGTAGCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTCAATCTATT
*
45418164 CCACTGTAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
45418191 CGCTATGGTA
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.02
44 163 0.97
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTACTTCAATCTATT
Found at i:45418133 original size:132 final size:132
Alignment explanation
Indices: 45417944--45418190 Score: 381
Period size: 132 Copynumber: 1.9 Consensus size: 132
45417934 TTAATCCAAC
* *
45417944 CCACTGCAACTTCAGAGGTATAGGATTTGTCACTTCAATCTATTCCACTGCAACTTCAGCGAGAT
1 CCACTGCAACTTCAGAGGGATAAGATTTGTCACTTCAATCTATTCCACTGCAACTTCAGCGAGAT
* * *
45418009 AAGATTTGTAGCTTCAATCTGTTCCACTATAACTTTAGGGAGATAAGATTTGTAACTTTAATCTA
66 AAGATTTGTAGCTTCAATATGCTCCACTATAACTTCAGGGAGATAAGATTTGTAACTTTAATCTA
45418074 CT
131 CT
* * *
45418076 CCACTGCAACTTCAG-GGAGATAAGATTTGTCGCTTCAATCTACTT-CATTGCAGCTTCAGCGAG
1 CCACTGCAACTTCAGAGG-GATAAGATTTGTCACTTCAATCTA-TTCCACTGCAACTTCAGCGAG
*
45418139 ATAAGATTTGTAGCTTCAATATGCTCCACTGTAACTTCAGGGAGATAAGATT
64 ATAAGATTTGTAGCTTCAATATGCTCCACTATAACTTCAGGGAGATAAGATT
45418191 CGCTATGGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.02
132 100 0.96
133 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
CCACTGCAACTTCAGAGGGATAAGATTTGTCACTTCAATCTATTCCACTGCAACTTCAGCGAGAT
AAGATTTGTAGCTTCAATATGCTCCACTATAACTTCAGGGAGATAAGATTTGTAACTTTAATCTA
CT
Found at i:45418879 original size:63 final size:63
Alignment explanation
Indices: 45418801--45418924 Score: 239
Period size: 63 Copynumber: 2.0 Consensus size: 63
45418791 AAACGTTGCT
*
45418801 AAAATACACAATGAGTAAGATGAAATTAGGTGCCCCAAATATCGTAGCATAAGCTTTTCTAAA
1 AAAATACACAATGAGTAAGATGAAATTAGGTGCCCCAAATATCGCAGCATAAGCTTTTCTAAA
45418864 AAAATACACAATGAGTAAGATGAAATTAGGTGCCCCAAATATCGCAGCATAAGCTTTTCTA
1 AAAATACACAATGAGTAAGATGAAATTAGGTGCCCCAAATATCGCAGCATAAGCTTTTCTA
45418925 CACTAACTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (63 bp):
AAAATACACAATGAGTAAGATGAAATTAGGTGCCCCAAATATCGCAGCATAAGCTTTTCTAAA
Found at i:45430075 original size:5 final size:5
Alignment explanation
Indices: 45430061--45430099 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
45430051 GAGTAAGGAA
*
45430061 ATAAT ATAAT TTAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
45430100 AAAAGGTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:45432654 original size:26 final size:28
Alignment explanation
Indices: 45432624--45432675 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
45432614 AATATCCTCC
45432624 AATTTAA-AATT-T-TAAAAATTATAAAT
1 AATTTAATAATTGTATAAAAA-TATAAAT
45432650 AATTTAATAATTGTATAAAAATATAA
1 AATTTAATAATTGTATAAAAATATAA
45432676 TACTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 4 0.17
28 6 0.26
29 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
AATTTAATAATTGTATAAAAATATAAAT
Found at i:45438247 original size:24 final size:24
Alignment explanation
Indices: 45438215--45438299 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
45438205 TGAGGATGAG
*
45438215 GAGGAGGGAATGGTCGTGGTGGAT
1 GAGGAGGGAATGGTCGTGGTGGGT
* *
45438239 GAGGAGGG-ATCGGTCGCGGCGGGT
1 GAGGAGGGAAT-GGTCGTGGTGGGT
* *
45438263 GAGGAGGGAATGGTCTTGGTGGGC
1 GAGGAGGGAATGGTCGTGGTGGGT
45438287 GAGGAGGGAATGG
1 GAGGAGGGAATGG
45438300 ACGAGGCTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.04
24 48 0.92
25 2 0.04
ACGTcount: A:0.19, C:0.08, G:0.56, T:0.16
Consensus pattern (24 bp):
GAGGAGGGAATGGTCGTGGTGGGT
Found at i:45442291 original size:42 final size:41
Alignment explanation
Indices: 45442245--45442373 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 41
45442235 TGCTAAACAA
* * *
45442245 AAACCCATAAAGGTTGAACGGAAGCTCATAAGAGTTGAACGG
1 AAACCCATAAAGGTTAAACAGAAGCTCATAAGAGCT-AACGG
* * *
45442287 AAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTAAGCGG
1 AAACCCATAAAGGTTAAACAGAAGCTCATAAGAGCTAA-CGG
* * *
45442329 AAACTCATATAA-GTTAAACAGAAGCTCGTGAGAGCTAAACGG
1 AAACCCATA-AAGGTTAAACAGAAGCTCATAAGAGCT-AACGG
45442371 AAA
1 AAA
45442374 GTAAACACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.03
42 67 0.93
43 3 0.04
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.16
Consensus pattern (41 bp):
AAACCCATAAAGGTTAAACAGAAGCTCATAAGAGCTAACGG
Found at i:45442295 original size:21 final size:22
Alignment explanation
Indices: 45442245--45442301 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
45442235 TGCTAAACAA
45442245 AAACCCATAA-AGGTTGAACGG
1 AAACCCATAAGAGGTTGAACGG
* *
45442266 AAGCTCATAAGA-GTTGAACGG
1 AAACCCATAAGAGGTTGAACGG
45442287 AAACCCATAAG-GGTT
1 AAACCCATAAGAGGTT
45442302 AAATAGAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
AAACCCATAAGAGGTTGAACGG
Found at i:45446734 original size:16 final size:15
Alignment explanation
Indices: 45446697--45446751 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
45446687 AATTACAGGA
*
45446697 ATATATGAATTTTTAAT
1 ATATAT-AA-TTTAAAT
45446714 ATATATATATATTAAACT
1 ATATATA-AT-TTAAA-T
45446732 ATATATAATTTAAAT
1 ATATATAATTTAAAT
45446747 ATATA
1 ATATA
45446752 GTTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 13 0.38
18 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:45446774 original size:12 final size:13
Alignment explanation
Indices: 45446734--45446776 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
45446724 ATTAAACTAT
*
45446734 ATATAATTTAAAT
1 ATATAATTTAAAA
*
45446747 ATATAGTTTAAAA
1 ATATAATTTAAAA
45446760 A-ATTAATTTAAAA
1 ATA-TAATTTAAAA
45446773 ATAT
1 ATAT
45446777 TTGAGGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
ATATAATTTAAAA
Found at i:45453457 original size:13 final size:15
Alignment explanation
Indices: 45453439--45453471 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45453429 TAAAAAATTA
45453439 TTTTTA-AATTT-TT
1 TTTTTACAATTTATT
45453452 TTTTTACAATTTATT
1 TTTTTACAATTTATT
45453467 TTTTT
1 TTTTT
45453472 TCAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 5 0.28
15 7 0.39
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTACAATTTATT
Found at i:45453479 original size:17 final size:17
Alignment explanation
Indices: 45453448--45453481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45453438 ATTTTTAAAT
* *
45453448 TTTTTTTTTACAATTTA
1 TTTTTTTTCAAAATTTA
45453465 TTTTTTTTCAAAATTTA
1 TTTTTTTTCAAAATTTA
45453482 AAATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTTTCAAAATTTA
Found at i:45463446 original size:20 final size:21
Alignment explanation
Indices: 45463408--45463448 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45463398 CAAAATAAAT
45463408 ATTATTTATTAATTTAAATAA
1 ATTATTTATTAATTTAAATAA
*
45463429 ATTATTTTTTAA-TTAAATAA
1 ATTATTTATTAATTTAAATAA
45463449 TTTTCTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTATTAATTTAAATAA
Found at i:45465635 original size:28 final size:28
Alignment explanation
Indices: 45465572--45465694 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
45465562 ATATTAAGTC
*
45465572 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45465599 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
45465627 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45465655 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45465684 CGCACACTTAG
1 CGCACACTTAG
45465695 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45471614 original size:46 final size:46
Alignment explanation
Indices: 45471547--45471808 Score: 433
Period size: 46 Copynumber: 5.8 Consensus size: 46
45471537 GGAAGTGAAG
45471547 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
*
45471593 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGC
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
* *
45471639 TACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGC
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
45471685 TA-ATCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
1 TACA-CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
* *
45471731 TACACTTATTTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGC
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
*
45471776 TACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTG
45471809 ATCATACGTA
Statistics
Matches: 204, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
43 12 0.06
44 5 0.02
45 19 0.09
46 167 0.82
47 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (46 bp):
TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
Found at i:45473202 original size:21 final size:23
Alignment explanation
Indices: 45473171--45473212 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
45473161 GATATAGCTA
45473171 TAAAATGAACAAAT-GGTGAAGT
1 TAAAATGAACAAATGGGTGAAGT
45473193 TAAAA-GAACAAATGGGTGAA
1 TAAAATGAACAAATGGGTGAA
45473213 AAATAAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (23 bp):
TAAAATGAACAAATGGGTGAAGT
Found at i:45478243 original size:23 final size:25
Alignment explanation
Indices: 45478193--45478263 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
45478183 ACTTAAAAAG
45478193 TAAAAAGAAATAATATATAAATAAT
1 TAAAAAGAAATAATATATAAATAAT
*
45478218 TAAAAA-AATATAA-ATATAAAT-GT
1 TAAAAAGAA-ATAATATATAAATAAT
45478241 TAAAAAGTCATAATAATATATAA
1 TAAAAAG--A-AATAATATATAA
45478264 TTTTAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 7 0.18
24 10 0.26
25 10 0.26
26 5 0.13
27 7 0.18
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAAAAGAAATAATATATAAATAAT
Found at i:45478344 original size:34 final size:35
Alignment explanation
Indices: 45478278--45478345 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
45478268 AAATTTTTAT
* *
45478278 AAAAAATGAAAAAATATTTAAATTTTATAAAATTAA
1 AAAAAATGAAAAAATA-TTAAATTGTACAAAATTAA
* *
45478314 AAAAAATTAAAAAATA-TATATTGTACAAAATT
1 AAAAAATGAAAAAATATTAAATTGTACAAAATT
45478346 TTTAATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 13 0.46
36 15 0.54
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (35 bp):
AAAAAATGAAAAAATATTAAATTGTACAAAATTAA
Found at i:45478506 original size:16 final size:16
Alignment explanation
Indices: 45478470--45478510 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
45478460 ATTGAAAATA
45478470 AAAAAATATA-AATTT
1 AAAAAATATATAATTT
* *
45478485 -AGAAATATATATTTT
1 AAAAAATATATAATTT
45478500 AAAAAATATAT
1 AAAAAATATAT
45478511 GGAAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.38
15 4 0.19
16 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAAAATATATAATTT
Found at i:45481962 original size:15 final size:15
Alignment explanation
Indices: 45481942--45481977 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45481932 ATCAAATATA
*
45481942 TATTTTCTATTATTT
1 TATTTTATATTATTT
*
45481957 TATTTTATTTTATTT
1 TATTTTATATTATTT
45481972 TATTTT
1 TATTTT
45481978 TACTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTATATTATTT
Found at i:45481984 original size:6 final size:5
Alignment explanation
Indices: 45481951--45481977 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45481941 ATATTTTCTA
45481951 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
45481978 TACTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:45491602 original size:16 final size:18
Alignment explanation
Indices: 45491577--45491634 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 18
45491567 CTCCCCCATA
45491577 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCCTCAAAACT
45491595 TTTA-TTCCC-CAAAACTT
1 TTTATTTCCCTCAAAAC-T
*
45491612 TTTATTTCCCTCCTAAACT
1 TTTATTTCCCT-CAAAACT
45491631 TTTA
1 TTTA
45491635 CTTCTCACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 9 0.26
17 5 0.15
18 9 0.26
19 5 0.15
20 5 0.15
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATTTCCCTCAAAACT
Found at i:45492261 original size:5 final size:5
Alignment explanation
Indices: 45492251--45492276 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45492241 CTCAAAAATT
45492251 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
45492277 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:45517049 original size:3 final size:3
Alignment explanation
Indices: 45517041--45517189 Score: 298
Period size: 3 Copynumber: 49.7 Consensus size: 3
45517031 TAATTTGCCC
45517041 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45517089 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45517137 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45517185 TTA TT
1 TTA TT
45517190 CTACATTTAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 146 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45528352 original size:3 final size:3
Alignment explanation
Indices: 45528346--45528379 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
45528336 TTGATAAAAA
* *
45528346 AAT AAT ACT AAT AAT AAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45528380 TTAAACTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45530396 original size:22 final size:22
Alignment explanation
Indices: 45530366--45530421 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
45530356 ATTTCCTCTC
45530366 AATTCCTCTCAATTGCCTTCCAA
1 AATT-CTCTCAATTGCCTTCCAA
*
45530389 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTGCCTTCCAA
45530411 AATTCTCTCAA
1 AATTCTCTCAA
45530422 ATCTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTCTCTCAATTGCCTTCCAA
Found at i:45530654 original size:116 final size:116
Alignment explanation
Indices: 45530508--45530841 Score: 623
Period size: 116 Copynumber: 2.9 Consensus size: 116
45530498 AACCTTAACG
45530508 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
45530573 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
45530624 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
45530689 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * * *
45530740 TAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
*
45530805 ATTTTACTAACCATTAATACAATTTTTTGACTAAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
45530842 CAATTTATCA
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 213 1.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:45532752 original size:42 final size:42
Alignment explanation
Indices: 45532607--45533130 Score: 593
Period size: 42 Copynumber: 12.5 Consensus size: 42
45532597 TTTAAACAGA
* * * * *
45532607 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGATTCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATACTGT
* * * *
45532648 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATACTGT
*
45532689 TTCACC-GCACTAAGCCTGCTAGACGTAAAGTCTGATACTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
* *
45532730 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGA-ATTCT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCT-GATACTGT
** *
45532772 TTCACCAACATTAAGCCTGCTAGACGT-AAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
* *
45532813 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGA-ATTCT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCT-GATACTGT
** *
45532855 TTCACCAACATTAAGCCTGCTAGACGT-AAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
45532896 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
45532938 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTATTTCACTG-
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCT-G----A--T-ACTGT
* * * * *
45532987 GTCACCGGTATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
*
45533029 TTCACCGGTATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
*
45533071 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-AATGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
* * *
45533112 TTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTG
45533131 ATAGGCACTG
Statistics
Matches: 422, Mismatches: 42, Indels: 38
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.00
40 29 0.07
41 138 0.33
42 209 0.50
43 5 0.01
44 1 0.00
47 1 0.00
48 1 0.00
49 33 0.08
50 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATACTGT
Found at i:45532818 original size:83 final size:84
Alignment explanation
Indices: 45532620--45533105 Score: 621
Period size: 83 Copynumber: 5.8 Consensus size: 84
45532610 ACTGGCACTT
* * * * * *
45532620 AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACCGGCACTT-AGCCTGCTAGACATATAGTCT
1 AGCCTGCTAGACGTAAAGTCTGATAT-TGTTTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCT
* * *
45532682 -GAAATGTTTCACC-GCACTA
64 GGAATTCTTTCACCAGCATTA
*
45532701 AGCCTGCTAGACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
*
45532766 AATTCTTTCACCAACATTA
66 AATTCTTTCACCAGCATTA
45532785 AGCCTGCTAGACGT-AAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
*
45532849 AATTCTTTCACCAACATTA
66 AATTCTTTCACCAGCATTA
45532868 AGCCTGCTAGACGT-AAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCT-G
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
* * *
45532931 ATACTGTTTCACCGGCATTA
66 A-ATTCTTTCACCAGCATTA
*
45532951 AGCCTGCTAGACGTAAAGTCTGGAATTATT-TCACTGGTCACCGGTATTAAGCCTGCTAGACGTA
1 AGCCTGCTAGACGTAAAGTCT-G-A-TATTGT---T--TCACCGGCATTAAGCCTGCTAGACGTA
* * * *
45533015 AAGTCTGAAATTATTTCACCGGTATTA
58 AAGTCTGGAATTCTTTCACCAGCATTA
*
45533042 AGCCTGCTAGACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
45533106 AAATGTTTCA
Statistics
Matches: 365, Mismatches: 23, Indels: 31
0.87 0.05 0.07
Matches are distributed among these distances:
81 25 0.07
82 30 0.08
83 169 0.46
84 57 0.16
85 1 0.00
86 3 0.01
87 4 0.01
88 3 0.01
89 3 0.01
90 1 0.00
91 68 0.19
92 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG
AATTCTTTCACCAGCATTA
Found at i:45532858 original size:125 final size:127
Alignment explanation
Indices: 45532607--45533105 Score: 633
Period size: 125 Copynumber: 3.9 Consensus size: 127
45532597 TTTAAACAGA
* * * * *
45532607 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCT-G-ATTCAGTACACCGGCACTT-AGCCTGC
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGGAATT-ATTTCACCGGCA-TTAAGCCTGC
* * * * * *
45532668 TAGACATATAGTCTGA-AATGTTTCACC-GCACTAAGCCTGCTAGACGTAAAGTCT-GATACTGT
63 TAGACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGATATTCT
* **
45532730 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTCTTTCACCAACATTAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTATTTCACCGGCATTAAGCCTGCTAG
*
45532795 ACGT-AAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGA-ATTCT
66 ACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGATATTCT
** *
45532855 TTCACCAACATTAAGCCTGCTAGACGT-AAGTCT-GATATTGTTTCACCGGCATTAAGCCTGCTA
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGA-ATTATTTCACCGGCATTAAGCCTGCTA
45532918 GACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTATTTC
65 GACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGG-A-TA-TT-
45532983 ACT
126 -CT
* * * *
45532986 GGTCACCGGTATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGTATTAAGCCTGCTA
1 -TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTATTTCACCGGCATTAAGCCTGCTA
45533051 GACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
65 GACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
45533106 AAATGTTTCA
Statistics
Matches: 331, Mismatches: 27, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
122 2 0.01
123 39 0.12
124 66 0.20
125 106 0.32
126 3 0.01
128 1 0.00
129 2 0.01
131 2 0.01
132 23 0.07
133 86 0.26
134 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (127 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGAATTATTTCACCGGCATTAAGCCTGCTAG
ACGTAAAGTCTGATACTGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGGATATTCT
Found at i:45537519 original size:125 final size:126
Alignment explanation
Indices: 45537297--45537649 Score: 530
Period size: 126 Copynumber: 2.8 Consensus size: 126
45537287 CCCAAACATG
* *
45537297 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
45537362 TAGAAGCAATTTTATATTATTTGCTCAAAAACGTCAAAAAAA-AATTATTTCTTACATGAC
66 TAGAAGCAATTTTATATTATTTGCTCAGAAACGTCAAAAAAACAATTATTTCTTACATGAC
* * * * *
45537422 CTACTGTAGCAAAAGCGCG-CTGACAAGGCCGCAATTTCACAAGTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
45537486 CTAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAACAATTATTTCTTCCGTGAC
65 CTAGAAGCAATTTTATATTATTTGCTCAGAAACGTCAAAAAAACAATTATTTCTTACATGAC
* * *
45537548 CTACTTTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* **
45537613 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCAATTTTATATTATTTGCTCAGAAACGTCAA
45537650 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.00
125 96 0.48
126 104 0.51
127 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCAATTTTATATTATTTGCTCAGAAACGTCAAAAAAACAATTATTTCTTACATGAC
Found at i:45541172 original size:20 final size:20
Alignment explanation
Indices: 45541117--45541193 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
45541107 TTGCACAACT
* **
45541117 ATGCCCCTAAATGCACTCTG
1 ATGCCCCTGAATGCACTCCA
* *
45541137 GTGCCCCTGACA-GCACATTC-
1 ATGCCCCTGA-ATGCAC-TCCA
45541157 ATGCCCCTGAATGCACTCCA
1 ATGCCCCTGAATGCACTCCA
*
45541177 ATGCCCCTGATTGCACT
1 ATGCCCCTGAATGCACT
45541194 TTAGTGCCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
19 3 0.07
20 41 0.89
21 2 0.04
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (20 bp):
ATGCCCCTGAATGCACTCCA
Found at i:45544013 original size:24 final size:25
Alignment explanation
Indices: 45543986--45544033 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
45543976 TTTATCGGGT
* *
45543986 AGCTCCGAAGAGTAC-TTAACAGAA
1 AGCTCCGAAAAGCACTTTAACAGAA
45544010 AGCTCCGAAAAGCACTTTAACAGA
1 AGCTCCGAAAAGCACTTTAACAGA
45544034 GAGCACCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (25 bp):
AGCTCCGAAAAGCACTTTAACAGAA
Found at i:45546924 original size:66 final size:65
Alignment explanation
Indices: 45546811--45546948 Score: 188
Period size: 66 Copynumber: 2.1 Consensus size: 65
45546801 GGTGTTACAG
* * *
45546811 TAAAATTGAAGATTTAACTCATATTCTTTGATTAGATCATTCGAAGTCTCTAAATTTTTCAAATT
1 TAAAATTGAAGATTTAACTCATATTCTTTGATTAGATCATCCCAAGTCACT-AATTTTTCAAATT
*
45546876 T
65 C
* **
45546877 TAAAATTGAAGATTTAGCTCATATTCTCTT-ATTAGATCATCCCAAGTCACTAATTTTTTGAATT
1 TAAAATTGAAGATTTAACTCATATTCT-TTGATTAGATCATCCCAAGTCACTAATTTTTCAAATT
45546941 C
65 C
45546942 TAAAATT
1 TAAAATT
45546949 TTAATCTTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
65 18 0.28
66 44 0.69
67 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (65 bp):
TAAAATTGAAGATTTAACTCATATTCTTTGATTAGATCATCCCAAGTCACTAATTTTTCAAATTC
Found at i:45549105 original size:15 final size:15
Alignment explanation
Indices: 45549085--45549113 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45549075 GTGAAATTCA
45549085 GAACTTAATTTTTCT
1 GAACTTAATTTTTCT
45549100 GAACTTAATTTTTC
1 GAACTTAATTTTTC
45549114 AGTTTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (15 bp):
GAACTTAATTTTTCT
Found at i:45549292 original size:13 final size:12
Alignment explanation
Indices: 45549268--45549398 Score: 51
Period size: 13 Copynumber: 10.5 Consensus size: 12
45549258 AATTATACTA
*
45549268 TAAAAGATTTAT
1 TAAAATATTTAT
45549280 TATAAATATTTA-
1 TA-AAATATTTAT
* *
45549292 TAAATTGTATTAT
1 TAAAATAT-TTAT
*
45549305 TAAAATA-TTAA
1 TAAAATATTTAT
45549316 TATAAATATTT-T
1 TA-AAATATTTAT
*
45549328 T--AATATATAT
1 TAAAATATTTAT
45549338 TAATAATA-TTATT
1 TAA-AATATTTA-T
45549351 TAAAATTATTGTTAAT
1 TAAAA-TA-T-TT-AT
*
45549367 TAAAACTATAATAT
1 TAAAA-TAT-TTAT
45549381 T-AAATAATTTAT
1 TAAAAT-ATTTAT
45549393 TAAAAT
1 TAAAAT
45549399 GATAAATTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
9 6 0.07
10 2 0.02
11 9 0.10
12 22 0.25
13 34 0.38
14 3 0.03
15 2 0.02
16 10 0.11
17 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (12 bp):
TAAAATATTTAT
Found at i:45549296 original size:36 final size:36
Alignment explanation
Indices: 45549255--45549326 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
45549245 TAAAACATTC
*
45549255 ATAAATTATACTATAAAAGAT-TTATTATAAATATTT
1 ATAAATTATACTATAAAA-ATATTAATATAAATATTT
* * *
45549291 ATAAATTGTATTATTAAAATATTAATATAAATATTT
1 ATAAATTATACTATAAAAATATTAATATAAATATTT
45549327 TTAATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (36 bp):
ATAAATTATACTATAAAAATATTAATATAAATATTT
Found at i:45549908 original size:15 final size:16
Alignment explanation
Indices: 45549877--45549910 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45549867 AAAGCATTGG
45549877 TAAACCATTGAAAAAT
1 TAAACCATTGAAAAAT
*
45549893 TAAATCATTG-AAAAT
1 TAAACCATTGAAAAAT
45549908 TAA
1 TAA
45549911 TATTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAACCATTGAAAAAT
Found at i:45555544 original size:789 final size:789
Alignment explanation
Indices: 45554022--45555604 Score: 2887
Period size: 789 Copynumber: 2.0 Consensus size: 789
45554012 AATGCTTCAC
* * *
45554022 AACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGTGTAACCCTTTGCTACTAGTC
1 AACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACCCTTTGCTACCAATC
*
45554087 TAGCATTGTATCGAATTTCATTTTTACCAGAAAATCCTTCCTTCTTTGCATATACCCATTTGCAT
66 TAGCATTGTATCGAATTTCATTTTTACCAAAAAATCCTTCCTTCTTTGCATATACCCATTTGCAT
*
45554152 CCAATTGCCTTCTTTCCCTTGGGCAGTGTCACCAACTCTCAAGTCCTATTTTTATGAAGAGACTG
131 CCAATTGCCTTCTTTCCCTTGGGCAGTGTCACCAACTCCCAAGTCCTATTTTTATGAAGAGACTG
* *
45554217 CATTTCTTCATTCATAACTTGCTTCCACTTTACACCATCAGGGTTACTTATTGCTTTTGTGTAAG
196 CATTTCTTCATTCATAACTTGCTTCCACTTTACACCATCAAGGTTACTTATTGCTTCTGTGTAAG
*
45554282 TAGAAAGAACATCATCATCTGTAATTGGAAGTGCATAGGCCACTATATCATCAAAGCGAGCAGGC
261 TAGAAAGAACATCATCATCTGCAATTGGAAGTGCATAGGCCACTATATCATCAAAGCGAGCAGGC
*
45554347 ATACGAATCTCTCTTCTTGGCCTCCTATATGTAATTGAATCTTGTTGCTGTAGAAGTTCTTGGGT
326 ATACGAATCTCTCTTCTTGGCCCCCTATATGTAATTGAATCTTGTTGCTGTAGAAGTTCTTGGGT
* *
45554412 CGAAACTTCATCATCATTTATTCCTTCAATATTAGTTGGATTATCATTAACCTTTTCAAGCTCCA
391 CGAAACTTCATCATCATTTATTCCTTCAATATTAGCTGGATCATCATTAACCTTTTCAAGCTCCA
* *
45554477 CCTGCTGTAAAGTACTACTGGTTTTGTCATCCTTTTGTGAATCCTTGTACTTTATCATTGTTGAT
456 CCTGCTGCAAAGTACTACTGGTTTTGTCATCCTTTTGTGAATCATTGTACTTTATCATTGTTGAT
*
45554542 TCATCAAAAGTCACATCTCTACTGAAAACAATCTTCCTTGTATCAGGACACCAGATACGGTATCC
521 TCATCAAAAGTCACATCTCTACTGAAAACAATCTTCCTTGTATCAGGACACCAGAGACGGTATCC
*
45554607 TTTTACTCCACCAGTTATACCTACGAATAATGCTTTCTTTGCTCTTGGGTCTAACTTAGATTCTT
586 TTTTACTCCACCAGTTATACCTACGAATAATGCTTTCTCTGCTCTTGGGTCTAACTTAGATTCTT
* *
45554672 TTACATGATAATATGCAGTGCAACCAAAAATATGTAAAGAATCATAATCAGTAGCAGGTTTACCA
651 TTACATGATAATATGCAGTGCAACCAAAAATATGTAAAGAATCATAATCAATAACAGGTTTACCA
* *
45554737 GTCCACATCTCTATAGGAGTTTTTCCATTTATTGCAGCTAATGGTAATCGGTTAATTAGATGGCA
716 GTCCACATCTCCATAGGAGTTTTTCCATTTATTGCAGCTAATGGTAACCGGTTAATTAGATGGCA
45554802 CACATATAT
781 CACATATAT
45554811 AACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACCCTTTGCTACCAATC
1 AACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACCCTTTGCTACCAATC
* *
45554876 TAGCCTTGTATCGAATTTTATTTTTACCAAAAAATCCTTCCTTCTTTGCATATACCCATTTGCAT
66 TAGCATTGTATCGAATTTCATTTTTACCAAAAAATCCTTCCTTCTTTGCATATACCCATTTGCAT
*
45554941 CCAATTGTCTTCTTTCCCTTGGGCAGTGTCACCAACTCCCAAGTCCTATTTTTATGAAGAGACTG
131 CCAATTGCCTTCTTTCCCTTGGGCAGTGTCACCAACTCCCAAGTCCTATTTTTATGAAGAGACTG
*
45555006 TATTTCTTCATTCATAACTTGCTTCCACTTTACACCATCAAGGTTACTTATTGCTTCTGTGTAAG
196 CATTTCTTCATTCATAACTTGCTTCCACTTTACACCATCAAGGTTACTTATTGCTTCTGTGTAAG
*
45555071 TAGAAGGAACATCATCATCTGCAATTGGAAGTGCATAGGCCACTATATCATCAAAGCGAGCAGGC
261 TAGAAAGAACATCATCATCTGCAATTGGAAGTGCATAGGCCACTATATCATCAAAGCGAGCAGGC
*
45555136 TTACGAATCTCTCTTCTTGGCCCCCTATATGTAATTGAATCTTGTTGCTGTAGAAGTTCTTGGGT
326 ATACGAATCTCTCTTCTTGGCCCCCTATATGTAATTGAATCTTGTTGCTGTAGAAGTTCTTGGGT
*
45555201 CGAAACTTCATCATCATTTATTCCTTCAATATTAGCTGGATCATCATTAACCTTTTCAAGCTCTA
391 CGAAACTTCATCATCATTTATTCCTTCAATATTAGCTGGATCATCATTAACCTTTTCAAGCTCCA
* *
45555266 CCTGCTGCAAAGTACTATTGGTTTTGTCATCCTTTTGTGAATCATTGTACTTTATCTTTGTTGAT
456 CCTGCTGCAAAGTACTACTGGTTTTGTCATCCTTTTGTGAATCATTGTACTTTATCATTGTTGAT
45555331 TCATCAAAAGTCACATCTCTACTGAAAACAATCTTCCTTGTATCAGGACACCAGAGACGGTATCC
521 TCATCAAAAGTCACATCTCTACTGAAAACAATCTTCCTTGTATCAGGACACCAGAGACGGTATCC
45555396 TTTTACTCCACCAGTTATACCTACGAATAATGCTTTCTCTGCTCTTGGGTCTAACTTAGATTCTT
586 TTTTACTCCACCAGTTATACCTACGAATAATGCTTTCTCTGCTCTTGGGTCTAACTTAGATTCTT
*
45555461 TTACATGATAATATGCAGTGGAACCAAAAATATGTAAAGAATCATAATCAATAACAGGTTTACCA
651 TTACATGATAATATGCAGTGCAACCAAAAATATGTAAAGAATCATAATCAATAACAGGTTTACCA
*
45555526 GTCCACATCTCCATAGGAGTTTTTCCATTTATTGCAGCTGATGGTAACCGGTTAATTAGATGGCA
716 GTCCACATCTCCATAGGAGTTTTTCCATTTATTGCAGCTAATGGTAACCGGTTAATTAGATGGCA
*
45555591 CGCATATAT
781 CACATATAT
45555600 AACTG
1 AACTG
45555605 CCTCAGCCCA
Statistics
Matches: 763, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
789 763 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (789 bp):
AACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACCCTTTGCTACCAATC
TAGCATTGTATCGAATTTCATTTTTACCAAAAAATCCTTCCTTCTTTGCATATACCCATTTGCAT
CCAATTGCCTTCTTTCCCTTGGGCAGTGTCACCAACTCCCAAGTCCTATTTTTATGAAGAGACTG
CATTTCTTCATTCATAACTTGCTTCCACTTTACACCATCAAGGTTACTTATTGCTTCTGTGTAAG
TAGAAAGAACATCATCATCTGCAATTGGAAGTGCATAGGCCACTATATCATCAAAGCGAGCAGGC
ATACGAATCTCTCTTCTTGGCCCCCTATATGTAATTGAATCTTGTTGCTGTAGAAGTTCTTGGGT
CGAAACTTCATCATCATTTATTCCTTCAATATTAGCTGGATCATCATTAACCTTTTCAAGCTCCA
CCTGCTGCAAAGTACTACTGGTTTTGTCATCCTTTTGTGAATCATTGTACTTTATCATTGTTGAT
TCATCAAAAGTCACATCTCTACTGAAAACAATCTTCCTTGTATCAGGACACCAGAGACGGTATCC
TTTTACTCCACCAGTTATACCTACGAATAATGCTTTCTCTGCTCTTGGGTCTAACTTAGATTCTT
TTACATGATAATATGCAGTGCAACCAAAAATATGTAAAGAATCATAATCAATAACAGGTTTACCA
GTCCACATCTCCATAGGAGTTTTTCCATTTATTGCAGCTAATGGTAACCGGTTAATTAGATGGCA
CACATATAT
Found at i:45562100 original size:12 final size:13
Alignment explanation
Indices: 45562082--45562122 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
45562072 TCTGAATTTT
45562082 TAAATTTAAAATA
1 TAAATTTAAAATA
*
45562095 -AAATTTAAAAAAA
1 TAAATTT-AAAATA
45562108 TAAATTTAAAATA
1 TAAATTTAAAATA
45562121 TA
1 TA
45562123 CAAAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATTTAAAATA
Found at i:45562112 original size:14 final size:15
Alignment explanation
Indices: 45562089--45562118 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45562079 TTTTAAATTT
45562089 AAAATAAAATTTAAA
1 AAAATAAAATTTAAA
45562104 AAAAT-AAATTTAAA
1 AAAATAAAATTTAAA
45562118 A
1 A
45562119 TATACAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATTTAAA
Done.