Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 289 of 427
Found at i:83092198 original size:88 final size:83
Alignment explanation
Indices: 83091718--83092553 Score: 604
Period size: 84 Copynumber: 9.9 Consensus size: 83
83091708 TTAAGTCTTT
* * * * * *
83091718 GTTTGGAAACAAAACAATACTGAATAAAATCTTGTTAAACGGCGAGAATAAATCCTGAAACAGAT
1 GTTTGGAAACAAAATAAAAATGAATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAGAT
83091783 TTTATTTAATTTAATTCT-
65 TTTATTTAATTTAATTCTC
* * * *
83091801 GATTTAGAAACAAAAT-AAAATCAAATAAAATCTTGTTAAACGACAGGAATAAATCCCGAAATAG
1 G-TTTGGAAACAAAATAAAAAT-GAATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAG
*
83091865 ATTTTATTTAATTTAATTCTA
63 ATTTTATTTAATTTAATTCTC
* * * * * ** *
83091886 ATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAATGGCAGGAATAAATCCTAAAACAAAT
1 GTTTGGAAACAAAATAAAAATGAATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAGAT
* *
83091951 TTAATTTAATTTAATTCTA
65 TTTATTTAATTTAATTCTC
* * ** *
83091970 ATTTGGAAACAAAAT-AAAATCGAATAAAATTTTGTTAAACGACGGGAATAAATCTCG-AACAGA
1 GTTTGGAAACAAAATAAAAAT-GAATAAAA-TCTGTTAAACGACAAGAATAAATCCCGAAACAGA
83092033 TTTTATTTAATTTTAATTTCTC
64 TTTTATTTAA-TTTAA-TTCTC
* * * *
83092055 GTTTTGGCAACAAAATCAAAATGTAATAAAATATGTTGAATA-G-CGAGAATAAATCCCGAAACA
1 G-TTTGGAAACAAAATAAAAATG-AATAAAATCTGTT-AA-ACGACAAGAATAAATCCCGAAACA
*
83092118 TATTTTATTTAACTTTAATTTCTC
62 GATTTTATTTAA-TTTAA-TTCTC
* *
83092142 GTTTGGAAATAAAATAGAAAAAATGAATAAAATCTGTTGAACGACAAGAATAAATCCCGAAACAG
1 GTTTGGAAACAAAAT---AAAAATGAATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAG
*
83092207 ATTTTATTTTAATTTTAATACTC
63 ATTTTA-TTTAA-TTTAATTCTC
* * * * * * * *
83092230 GTTTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAACAACAGGAATAAATCTCGAAACAA
1 G-TTTGGAAACAAAAT-AAAAAT-GAATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAG
*
83092295 ATTTTATTTTAATTCTAATTCTT
63 ATTTTA-TTTAATT-TAATTCTC
* * * * * *
83092318 GTTTAGAAATAGAATAAAAAATGGAATAAAAT-TCGTTGAACGGCAAGAATAAATCCCGAAGCAG
1 GTTTGGAAACAAAAT-AAAAAT-GAATAAAATCT-GTTAAACGACAAGAATAAATCCCGAAACAG
* *
83092382 ATTTTA-TTCA-TT--TT-TA
63 ATTTTATTTAATTTAATTCTC
* * **** *
83092398 ATTTGGAAA-AAAAT-----TGAATAAAATCTATTAAACGGTTGGAATAAATCCCAAAACAGATT
1 GTTTGGAAACAAAATAAAAATGAATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATT
*
83092457 TTATTTAATTTTAATAT-TT
66 TTATTTAA-TTTAAT-TCTC
* * * * * *
83092476 GATTGGAAATAAAA-AATAAA-GAATAAAATCTTTTGAGCTAC-AGAAAGTAATAT--CGAAACA
1 GTTTGGAAACAAAATAA-AAATGAATAAAATCTGTTAAACGACAAG-AA-TAA-ATCCCGAAACA
83092536 GATTTTATTTTAATTTAA
62 GATTTTA-TTTAATTTAA
83092554 AAAATTATTT
Statistics
Matches: 619, Mismatches: 92, Indels: 84
0.78 0.12 0.11
Matches are distributed among these distances:
72 38 0.06
73 5 0.01
75 2 0.00
77 1 0.00
78 9 0.01
79 8 0.01
80 8 0.01
81 2 0.00
82 1 0.00
83 58 0.09
84 192 0.31
85 14 0.02
86 45 0.07
87 108 0.17
88 98 0.16
89 30 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (83 bp):
GTTTGGAAACAAAATAAAAATGAATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATT
TTATTTAATTTAATTCTC
Found at i:83094004 original size:19 final size:22
Alignment explanation
Indices: 83093964--83094006 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
83093954 TAATTAGGAT
83093964 ATATATGAATGTGTTGGTAATA
1 ATATATGAATGTGTTGGTAATA
83093986 ATATATGAAT-T-TT-GTAATA
1 ATATATGAATGTGTTGGTAATA
83094005 AT
1 AT
83094007 TTTATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 1 0.05
22 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (22 bp):
ATATATGAATGTGTTGGTAATA
Found at i:83095744 original size:12 final size:12
Alignment explanation
Indices: 83095729--83095764 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
83095719 GTGAAGTGTA
83095729 GCGTGATTTGGG
1 GCGTGATTTGGG
**
83095741 GCGTGAGCTGGG
1 GCGTGATTTGGG
83095753 GCGTGATTTGGG
1 GCGTGATTTGGG
83095765 CCAGCGCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.08, C:0.11, G:0.53, T:0.28
Consensus pattern (12 bp):
GCGTGATTTGGG
Found at i:83097913 original size:44 final size:44
Alignment explanation
Indices: 83097846--83097956 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
83097836 TCACATTTAT
* * *
83097846 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTAATCAGATAAGTGTAGATAAAGCTAC
* *
83097890 CACTTATCACTTGTCACTAATCAGATAAGTGTAGATGAGGCTAC
1 CACTTATCACTTGTCACTAATCAGATAAGTGTAGATAAAGCTAC
* *
83097934 CACTTATCACTTATCATTAATCA
1 CACTTATCACTTGTCACTAATCA
83097957 AAAGTACTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTAATCAGATAAGTGTAGATAAAGCTAC
Found at i:83100703 original size:25 final size:25
Alignment explanation
Indices: 83100664--83100733 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
83100654 GCTATGATTG
*
83100664 GTAAGCTCTTCTTGAGCTGATGGACA
1 GTAAGCTC-TATTGAGCTGATGGACA
*
83100690 GTAAGCTCTATTGAGCTGATGGATA
1 GTAAGCTCTATTGAGCTGATGGACA
83100715 GTAAGCTCTATTGAGCTGA
1 GTAAGCTCTATTGAGCTGA
83100734 AATGGCAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 34 0.81
26 8 0.19
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (25 bp):
GTAAGCTCTATTGAGCTGATGGACA
Found at i:83100747 original size:23 final size:23
Alignment explanation
Indices: 83100692--83100757 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
83100682 GATGGACAGT
* *
83100692 AAGCTCTATTGAGCTGATGGATAGT
1 AAGCTCTATTGAGCTGA--AATAGC
*
83100717 AAGCTCTATTGAGCTGAAATGGC
1 AAGCTCTATTGAGCTGAAATAGC
*
83100740 AAGCTCTATTGAGATGAA
1 AAGCTCTATTGAGCTGAA
83100758 TAATAAGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 20 0.54
25 17 0.46
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (23 bp):
AAGCTCTATTGAGCTGAAATAGC
Found at i:83100779 original size:22 final size:22
Alignment explanation
Indices: 83100740--83100814 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
83100730 CTGAAATGGC
*
83100740 AAGCTCTATTGAGATGAATAAT
1 AAGCTCTATCGAGATGAATAAT
* * *
83100762 AAGCTTTATCGAGTTGAATAGT
1 AAGCTCTATCGAGATGAATAAT
*
83100784 AAGCTC-ATACGAGCTGAA-ACGAT
1 AAGCTCTAT-CGAGATGAATA--AT
83100807 AAGCTCTA
1 AAGCTCTA
83100815 ATAAGCTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 31 0.74
23 7 0.17
24 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (22 bp):
AAGCTCTATCGAGATGAATAAT
Found at i:83100845 original size:24 final size:23
Alignment explanation
Indices: 83100781--83100845 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
83100771 CGAGTTGAAT
* *
83100781 AGTAAGCTCATACGAGCTGAAAC
1 AGTAAGCTCTTACGAGCTAAAAC
* **
83100804 -GATAAGCTCTAATAAGCTAAAAAC
1 AG-TAAGCTCTTACGAGCT-AAAAC
83100828 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCTTACGAGCT
83100846 GATATATCGG
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
22 1 0.03
23 12 0.39
24 17 0.55
25 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (23 bp):
AGTAAGCTCTTACGAGCTAAAAC
Found at i:83109473 original size:54 final size:54
Alignment explanation
Indices: 83109389--83109491 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
83109379 TGAGACAAGC
83109389 ATAGATTCTTAGCATATATCATATAAATATATATATATATATCTAATCAGTTTT
1 ATAGATTCTTAGCATATATCATATAAATATATATATATATATCTAATCAGTTTT
* *
83109443 ATAGATTCTTAGCATATGTCATATATATATATATATATATATCTAATCA
1 ATAGATTCTTAGCATATATCATATAAATATATATATATATATCTAATCA
83109492 ATCCATAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.44
Consensus pattern (54 bp):
ATAGATTCTTAGCATATATCATATAAATATATATATATATATCTAATCAGTTTT
Found at i:83119045 original size:27 final size:25
Alignment explanation
Indices: 83118986--83119035 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
83118976 TACAAAATGA
*
83118986 AAGGATTTAACCCAAGCCACACATT
1 AAGGATTTAAACCAAGCCACACATT
83119011 AAGGATTTAAACCAAGCCACACATT
1 AAGGATTTAAACCAAGCCACACATT
83119036 TGGCTAATTT
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:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (25 bp):
AAGGATTTAAACCAAGCCACACATT
Found at i:83119575 original size:46 final size:46
Alignment explanation
Indices: 83119499--83119669 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 46
83119489 TGGGTAGGAT
* *
83119499 GCCGATGCCATATCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCGGACAT-GTCTTACACTGACTTA-CATCTCG-AG
* *
83119547 GCCGATGCATGTCCCGGACATGTCTTACACTGGCTTACTTCTCGAG
1 GCCGATGCATGTCCCGGACATGTCTTACACTGACTTACATCTCGAG
* *
83119593 GCCGATGCATGTCCCGGACATGTCTTACACTAGCAC-T-CGTCTCGAT
1 GCCGATGCATGTCCCGGACATGTCTTACACT-G-ACTTACATCTCGAG
**
83119639 GCCGATGCCATGTCCCAAACATGATCTTACA
1 GCCGATG-CATGTCCCGGACATG-TCTTACA
83119670 TAGACTCTCA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
45 1 0.01
46 63 0.58
47 29 0.27
48 15 0.14
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCGGACATGTCTTACACTGACTTACATCTCGAG
Found at i:83125164 original size:21 final size:22
Alignment explanation
Indices: 83125138--83125178 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
83125128 CACTTGACAT
83125138 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
83125159 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
83125179 ACCAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:83125350 original size:28 final size:29
Alignment explanation
Indices: 83125300--83125355 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
83125290 CAGGGATTTC
* *
83125300 CACACGGCCTGGCACACGCCCGTTTCCTT
1 CACACGGCCTGGCACACACCCGTGTCCTT
83125329 CACACGGCCAT-G-ACACACCCGTGTCCT
1 CACACGGCC-TGGCACACACCCGTGTCCT
83125356 AGCCCGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 10 0.42
30 1 0.04
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.18
Consensus pattern (29 bp):
CACACGGCCTGGCACACACCCGTGTCCTT
Found at i:83126461 original size:46 final size:47
Alignment explanation
Indices: 83126381--83126496 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 47
83126371 GTAGCTGCAT
* * *
83126381 CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGGCTGAT-G
1 CATGTCCCAGACATATCTTACACTGGCTTACGTCTCGAGGCCGATGG
* *
83126427 CATGTCCCGGACATATCTTACACTAGGAC-T-CGTCTCGATGCCGATGG
1 CATGTCCCAGACATATCTTACACT-GG-CTTACGTCTCGAGGCCGATGG
*
83126474 CATATCCCAGACATAATCTTACA
1 CATGTCCCAGACAT-ATCTTACA
83126497 TAGCTCTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 34 0.58
47 16 0.27
48 9 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATATCTTACACTGGCTTACGTCTCGAGGCCGATGG
Found at i:83127907 original size:25 final size:25
Alignment explanation
Indices: 83127879--83127930 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
83127869 GATGCTCTCG
83127879 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
83127904 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
83127929 TA
1 TA
83127931 TATTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (25 bp):
TACATAACCTATACAAGCTTCATAA
Found at i:83131366 original size:27 final size:27
Alignment explanation
Indices: 83131336--83131401 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 27
83131326 TCAAATCCAC
83131336 TACAAATGATGAAAGAGAATCAA-ATGA
1 TACAAATGATGAAAGAGAATCAAGA-GA
83131363 TACAAATGATGAAAGAGAATCAAGAGA
1 TACAAATGATGAAAGAGAATCAAGAGA
83131390 TA-AAATGGATGA
1 TACAAAT-GATGA
83131402 GGATAAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 4 0.11
27 32 0.86
28 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (27 bp):
TACAAATGATGAAAGAGAATCAAGAGA
Found at i:83134280 original size:21 final size:21
Alignment explanation
Indices: 83134232--83134285 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
83134222 GAATAAAGAA
*
83134232 TTAAATCAAATTCAAAATAAC
1 TTAAATTAAATTCAAAATAAC
83134253 TTAAATTAAATTCAAAATAAC
1 TTAAATTAAATTCAAAATAAC
83134274 TTAAATTGAAAT
1 TTAAATT-AAAT
83134286 ACTTTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAATTAAATTCAAAATAAC
Found at i:83146909 original size:29 final size:31
Alignment explanation
Indices: 83146850--83146912 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
83146840 CTCCTTCTAG
83146850 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
1 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
* *
83146881 ATCTCTTCTAAAC-CA-AAAATGGAGCAAAA
1 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
83146910 ATC
1 ATC
83146913 CCTCCTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.53
30 1 0.03
31 13 0.43
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.21
Consensus pattern (31 bp):
ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
Found at i:83153480 original size:40 final size:39
Alignment explanation
Indices: 83153302--83153480 Score: 137
Period size: 40 Copynumber: 4.5 Consensus size: 39
83153292 TCGTTCAAAT
** * * *
83153302 GCCTTCGGGACGAAGCCCGGTTATAGCAACTTGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA-GAAA
* * * *
83153342 GCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAGAAA
* * * * *
83153381 GCCTTCGGGA-TTAGCCCGGATTTATTAACTCGTACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA-GAAA
* * * * *
83153420 GCCTT-TGGATCCTAGTCCGGATATAGTCACTTAGCAAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAGAAA
83153460 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
83153481 CATCATTCGA
Statistics
Matches: 106, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
38 22 0.21
39 19 0.18
40 60 0.57
41 5 0.05
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAGAAA
Found at i:83153862 original size:29 final size:31
Alignment explanation
Indices: 83153803--83153865 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
83153793 CTCCTTCTAG
83153803 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
1 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
* *
83153834 ATCTCTTCTAAAC-CA-AAAATGGAGCAAAA
1 ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
83153863 ATC
1 ATC
83153866 CCTCCTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.53
30 1 0.03
31 13 0.43
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.21
Consensus pattern (31 bp):
ATCTCTTCTAAACAAAGAAAATGAAGCAAAA
Found at i:83164889 original size:13 final size:13
Alignment explanation
Indices: 83164871--83164900 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
83164861 TTTAAGCTAA
83164871 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
83164884 ACTTCTCAAAGGC
1 ACTTCTCAAAAGC
83164897 ACTT
1 ACTT
83164901 TTTCACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:83171232 original size:14 final size:14
Alignment explanation
Indices: 83171213--83171245 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
83171203 TGGGGTATAA
83171213 GTTAATGTAAGTAT
1 GTTAATGTAAGTAT
*
83171227 GTTAATGTAATTAT
1 GTTAATGTAAGTAT
83171241 GTTAA
1 GTTAA
83171246 GTCTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (14 bp):
GTTAATGTAAGTAT
Found at i:83179844 original size:69 final size:69
Alignment explanation
Indices: 83179626--83180113 Score: 385
Period size: 69 Copynumber: 7.1 Consensus size: 69
83179616 CAAACATTGT
* * * * * ** * * * *
83179626 TTTTATAGCTGGGAGGTTT-ATGCTCGCTAACTATTTCAGAAGTTGTGGCTTTTTGCCTACAAAC
1 TTTTACAGCTGGGAGCTTTGCT-CTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAAC
83179690 CTTGA
65 CTTGA
* * * * * * * ** *
83179695 TTTTATAGTTGGGAGATTTGCTATCACTAACT-GTTTGGAGGTTGCAATTCTTCGCCTGTGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACC
83179759 TTGA
66 TTGA
* * ** *
83179763 TTTTATAACTGGGATTTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTTGCCTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACC
*
83179828 TTAA
66 TTGA
* * * **
83179832 TTTTACCGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACC
83179897 TT-A
66 TTGA
** * * * * * *
83179900 TTTTTACAGCTGGGAGCTTTGCTCTTTCTAACT-GTTTCGAAGGTTGC-GACCCTTCACCTACAA
1 -TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAG-AGGTTGCAG-CTCTTCGCCTGCGA
*
83179963 AGCTTGA
63 ACCTTGA
* * * * * *
83179970 TTTTACAGCTGGGTGCTTTGCTCTCGCTAACTGTTTTGGAGGTTACAACTCTTCACCTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACC
83180035 TTGA
66 TTGA
* ** * * * * *
83180039 TTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGG-TACGGGCTCTTCGCCTGTGAAC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGC-AGCTCTTCGCCTGCGAAC
*
83180103 CTAGA
65 CTTGA
83180108 TTTTAC
1 TTTTAC
83180114 CAAAAACAGT
Statistics
Matches: 334, Mismatches: 76, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
68 58 0.17
69 270 0.81
70 6 0.02
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACC
TTGA
Found at i:83179944 original size:138 final size:139
Alignment explanation
Indices: 83179625--83180081 Score: 455
Period size: 138 Copynumber: 3.3 Consensus size: 139
83179615 GCAAACATTG
* * * * * * **
83179625 TTTTTATAGCTGGGAGGTTTATGCTC--GCTAACTATTTCAGAAGTTGTGGCTTTTTGCCTACAA
1 TTTTTACAGCTGGGA-ATTT-TGCTCTTGCTAACTATTTGAGAGGTTGCGACCCTTTGCCTACAA
* * * * * *
83179688 ACCTTGATTTTATAGTTGGGAGATTTGCTATCACTAACTG-TTTGGAGGTTGCAATTCTTCGCCT
64 ACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCAACTCTTCGCCT
*
83179752 GTGAACCTTGA
129 GCGAACCTTGA
* * * * * *
83179763 TTTTATA-A-CTGGGATTTTTGCTCTCGCTAACTATTTTAGAGGTTGC-AGCTCTTTGCCTGCGA
1 TTTT-TACAGCTGGGAATTTTGCTCTTGCTAACTATTTGAGAGGTTGCGA-CCCTTTGCCTACAA
* * ***
83179825 ACCTTAATTTTACCGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCT
64 ACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCAACTCTTCGCCT
83179890 GCGAACCTT-A
129 GCGAACCTTGA
** * * **
83179900 TTTTTACAGCTGGGAGCTTTGCTCTTTCTAACTGTTTCGA-AGGTTGCGACCCTTCACCTACAAA
1 TTTTTACAGCTGGGAATTTTGCTCTTGCTAACTATTT-GAGAGGTTGCGACCCTTTGCCTACAAA
* * * *
83179964 GCTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTGTTTTGGAGGTTACAACTCTTCACCTG
65 CCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCAACTCTTCGCCTG
83180029 CGAACCTTGA
130 CGAACCTTGA
* * *
83180039 -TTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGGT
1 TTTTTACAGCTGGGAATTTTGCTCTTGCTAACTATTTGAGAGGT
83180082 ACGGGCTCTT
Statistics
Matches: 261, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
135 5 0.02
136 5 0.02
137 75 0.29
138 171 0.66
139 5 0.02
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (139 bp):
TTTTTACAGCTGGGAATTTTGCTCTTGCTAACTATTTGAGAGGTTGCGACCCTTTGCCTACAAAC
CTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCAACTCTTCGCCTGC
GAACCTTGA
Found at i:83190638 original size:10 final size:10
Alignment explanation
Indices: 83190623--83190668 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
83190613 CTCAGCCACC
83190623 ATCTTTATTT
1 ATCTTTATTT
*
83190633 ATCTTTAATT
1 ATCTTTATTT
83190643 ATCTTTATTT
1 ATCTTTATTT
83190653 AT-TTGTATTT
1 ATCTT-TATTT
83190663 ATCTTT
1 ATCTTT
83190669 TAGAGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (10 bp):
ATCTTTATTT
Found at i:83199090 original size:122 final size:123
Alignment explanation
Indices: 83198882--83199124 Score: 301
Period size: 122 Copynumber: 2.0 Consensus size: 123
83198872 AATAGCGTGT
* * * * * *
83198882 TTTTGTTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCTAAACGCCACTAAAAA
1 TTTTGGTCCAAACGCCACTAAAAACTAAGAAATAACGGCATTTCTGGTCCAAACGCCACTAAAAA
* * ** *
83198947 CTGAGCTATAGGGGCACTTTTGGTCCAAACGCCGCTAAAAA-TTGAGCTATAACGGCGC
66 CTAAGCAATAGCAGCACTTTTGGTACAAACGCCGC-AAAAAGTTGAGCTATAACGGCGC
* *
83199005 TTTTGGTCCAAACGCCACTAAAAACTAAGAAATAACGGTATTT-TTGTCCAAACGCCACTAAAAA
1 TTTTGGTCCAAACGCCACTAAAAACTAAGAAATAACGGCATTTCTGGTCCAAACGCCACTAAAAA
** * * *
83199069 CTAAGCAATAGCAGCGTTTTTGTTACAAACGCCGCAAAAAGTTGATCTATAGCGGC
66 CTAAGCAATAGCAGCACTTTTGGTACAAACGCCGCAAAAAGTTGAGCTATAACGGC
83199125 ATTTTTTTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
121 5 0.05
122 59 0.58
123 37 0.37
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (123 bp):
TTTTGGTCCAAACGCCACTAAAAACTAAGAAATAACGGCATTTCTGGTCCAAACGCCACTAAAAA
CTAAGCAATAGCAGCACTTTTGGTACAAACGCCGCAAAAAGTTGAGCTATAACGGCGC
Found at i:83199108 original size:40 final size:41
Alignment explanation
Indices: 83198856--83199101 Score: 273
Period size: 41 Copynumber: 6.1 Consensus size: 41
83198846 GCAACAAAAA
* *
83198856 GCCA-TAAAAACTGAGCAATAGC-GTGTTTTTGTTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* *
83198895 GCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCTAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * **
83198936 GCCACTAAAAACTGAGCTATAGGGGCACTTTTGGTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * * * *
83198977 GCCGCTAAAAATTGAGCTATAACGGCGCTTTTGGTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * * **
83199018 GCCACTAAAAACTAAGAAATAACGGTATTTTT-GTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * * *
83199058 GCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTACAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
83199099 GCC
1 GCC
83199102 GCAAAAAGTT
Statistics
Matches: 174, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 4 0.02
40 53 0.30
41 117 0.67
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (41 bp):
GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
Found at i:83199121 original size:41 final size:41
Alignment explanation
Indices: 83199076--83199155 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 41
83199066 AAACTAAGCA
*
83199076 ATAGCAGCGTTTTTGTTA-CAAACGCCGCAAAAAGTTGATCT
1 ATAGCAGCATTTTT-TTACCAAACGCCGCAAAAAGTTGATCT
*
83199117 ATAGCGGCATTTTTTTATCCAAACGCCGCAAAAAGTTGA
1 ATAGCAGCATTTTTTTA-CCAAACGCCGCAAAAAGTTGA
83199156 GCAGGCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 3 0.09
41 12 0.34
42 20 0.57
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
ATAGCAGCATTTTTTTACCAAACGCCGCAAAAAGTTGATCT
Found at i:83199676 original size:15 final size:15
Alignment explanation
Indices: 83199656--83199689 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
83199646 TTAAGGTCTC
* *
83199656 TGGTTTAGGTTTTTA
1 TGGTTTAGGATTTAA
83199671 TGGTTTAGGATTTAA
1 TGGTTTAGGATTTAA
83199686 TGGT
1 TGGT
83199690 CATCATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (15 bp):
TGGTTTAGGATTTAA
Found at i:83199998 original size:22 final size:21
Alignment explanation
Indices: 83199967--83200017 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
83199957 GAGTATTGGA
* *
83199967 TTTAGGGTTTAGTTTATAGGG
1 TTTAGGGTTTAGTCTATAAGG
83199988 TTTAAGGGTTTAGTCTATAAGG
1 TTT-AGGGTTTAGTCTATAAGG
83200010 TTTAGGGT
1 TTTAGGGT
83200018 ATTGGGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGTCTATAAGG
Found at i:83200077 original size:21 final size:21
Alignment explanation
Indices: 83200005--83200069 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
83199995 GTTTAGTCTA
*
83200005 TAAGGTTTAGGGTATTGGGTT
1 TAAGATTTAGGGTATTGGGTT
**
83200026 TAAGATTTAGTCTATAT-GGTT
1 TAAGATTTAGGGTAT-TGGGTT
83200047 TAAGATTTAGGGTATTGGGTT
1 TAAGATTTAGGGTATTGGGTT
83200068 TA
1 TA
83200070 GGGATTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.45
Consensus pattern (21 bp):
TAAGATTTAGGGTATTGGGTT
Found at i:83200534 original size:93 final size:93
Alignment explanation
Indices: 83200418--83200599 Score: 240
Period size: 93 Copynumber: 2.0 Consensus size: 93
83200408 CGCTTATTAA
* * *
83200418 AAAATGCCTCTAAAATTATGAGAAATTGAATGAAAATGGCGTCGTTTTAAGTGGCGGGGTAGT-G
1 AAAATGCCGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGT-GTAG
* * *
83200482 GAATTAGTGGCGTTAGGTTATAAACGCCG
65 GAATTAGCGACGCTAGGTTATAAACGCCG
* * * * * *
83200511 AAAATGGCGCTAAAAATATGAGAAATTGAATTAAAATTATGTTGTTTTAAGTGGCGGGGTTTAGG
1 AAAATGCCGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTGTAGG
83200576 AATTAGCGACGCTAGGTTATAAAC
66 AATTAGCGACGCTAGGTTATAAAC
83200600 ACCGCAATAG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
92 1 0.01
93 75 0.99
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (93 bp):
AAAATGCCGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTGTAGG
AATTAGCGACGCTAGGTTATAAACGCCG
Found at i:83201108 original size:16 final size:16
Alignment explanation
Indices: 83201083--83201117 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
83201073 GAAATGCAAA
*
83201083 TTTCTATTGTTAAGGC
1 TTTCTATTGTTAAGCC
*
83201099 TTTCTGTTGTTAAGCC
1 TTTCTATTGTTAAGCC
83201115 TTT
1 TTT
83201118 GATTTGTTTA
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:0.14, C:0.14, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCTATTGTTAAGCC
Found at i:83202411 original size:23 final size:24
Alignment explanation
Indices: 83202384--83202436 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
83202374 CTATGTTATA
83202384 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
***
83202408 -TATTTTGTTTTTAAAATTAATATT
1 ATA-TTTGTAACTAAAATTAATATT
83202432 ATATT
1 ATATT
83202437 ATAAAACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.08
24 20 0.83
25 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:83203377 original size:19 final size:19
Alignment explanation
Indices: 83203349--83203387 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
83203339 AAATAAATTT
83203349 AATTCATAAAAATATATATA
1 AATTCATAAAAATAT-TATA
*
83203369 AATTC-TAAACATATTATA
1 AATTCATAAAAATATTATA
83203387 A
1 A
83203388 CCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCATAAAAATATTATA
Found at i:83203512 original size:9 final size:9
Alignment explanation
Indices: 83203494--83203667 Score: 183
Period size: 9 Copynumber: 19.6 Consensus size: 9
83203484 GTTTAAATTT
83203494 CATAACTTA
1 CATAACTTA
*
83203503 CATAATTTA
1 CATAACTTA
83203512 CATAACTTA
1 CATAACTTA
83203521 CATAA--TA
1 CATAACTTA
* *
83203528 TATAA-ATA
1 CATAACTTA
* * *
83203536 TATATCATA
1 CATAACTTA
83203545 TCATAACTTA
1 -CATAACTTA
*
83203555 CATAACTCA
1 CATAACTTA
* *
83203564 CACAACATA
1 CATAACTTA
83203573 CATAACTTA
1 CATAACTTA
*
83203582 CATAACTCA
1 CATAACTTA
* *
83203591 CATACCTCA
1 CATAACTTA
83203600 CATAACTTA
1 CATAACTTA
*
83203609 CATAACTCA
1 CATAACTTA
83203618 CATAACTTA
1 CATAACTTA
*
83203627 CATAATTTA
1 CATAACTTA
*
83203636 CATAACTCA
1 CATAACTTA
83203645 CATAACTTA
1 CATAACTTA
83203654 CATAACTTA
1 CATAACTTA
83203663 CATAA
1 CATAA
83203668 TACATAAATA
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
7 6 0.04
8 6 0.04
9 121 0.87
10 6 0.04
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:83203524 original size:27 final size:27
Alignment explanation
Indices: 83203494--83203674 Score: 210
Period size: 27 Copynumber: 6.9 Consensus size: 27
83203484 GTTTAAATTT
* *
83203494 CATAACTTACATAATTTACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
* * * * *
83203521 CATAA--TATATAAAT-ATATATCATA
1 CATAACTTACATAACTCACATAACTTA
* *
83203545 TCATAACTTACATAACTCACACAACATA
1 -CATAACTTACATAACTCACATAACTTA
* *
83203573 CATAACTTACATAACTCACATACCTCA
1 CATAACTTACATAACTCACATAACTTA
83203600 CATAACTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
*
83203627 CATAATTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
83203654 CATAACTTACATAA-T-ACATAA
1 CATAACTTACATAACTCACATAA
83203675 ATAGATATCA
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
24 7 0.05
25 18 0.14
26 1 0.01
27 99 0.75
28 7 0.05
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
CATAACTTACATAACTCACATAACTTA
Found at i:83203693 original size:31 final size:31
Alignment explanation
Indices: 83203655--83203718 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
83203645 CATAACTTAC
83203655 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
83203686 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
83203717 AT
1 AT
83203719 CATATCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (31 bp):
ATAACTTACATAATACATAAATAGATATCAT
Found at i:83203720 original size:5 final size:5
Alignment explanation
Indices: 83203710--83203757 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
83203700 ACATAAATAG
83203710 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
83203758 ATTTACATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:83207134 original size:47 final size:45
Alignment explanation
Indices: 83206928--83207198 Score: 226
Period size: 47 Copynumber: 5.8 Consensus size: 45
83206918 ATGGGTTATA
* *
83206928 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACGC
1 TTGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACT--CAT-CTC
* * * *
83206978 GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTC
1 TTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC
* * * *
83207021 TTAGCCGATGCGTGTCCCAGACAAGTCTTACTCTGGCTATCTC-TGTC
1 TT-GCCGATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATCTC
** *
83207068 GAGGCCGATGCATGGCCCAGACATGTCTTACACTGGCACTCATCTC
1 -TTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC
* *
83207114 TATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAC-C
1 T-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTC
* * *
83207162 GTGGCCAAAGCATGTCCCAGACATGTCTTACACTGGC
1 -TTGCCGATGCATGTCCCAGACATGTCTTACACTGGC
83207199 GCACAAATCA
Statistics
Matches: 179, Mismatches: 30, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.17
45 4 0.02
46 23 0.13
47 59 0.33
48 36 0.20
49 16 0.09
50 7 0.04
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (45 bp):
TTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC
Found at i:83207181 original size:94 final size:91
Alignment explanation
Indices: 83206928--83207198 Score: 316
Period size: 94 Copynumber: 2.9 Consensus size: 91
83206918 ATGGGTTATA
*
83206928 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACGCGT-GCTGATGCATGT
1 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATAC-CGTGGCCGATGCATGT
*
83206992 CCCAGACATGTCTTACACTAGCACAACTC
63 CCCAGACATGTCTTACACTGGCACAACTC
* * * ** * *
83207021 TTAGCCGATG-CGTGTCCCAGACA-AGTCTTACTCTGGCTATCTC-TGTCGAGGCCGATGCATGG
1 TT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATACCGTGGCCGATGCATGT
*
83207083 CCCAGACATGTCTTACACTGGCACTCATCTC
63 CCCAGACATGTCTTACACTGGCA--CAACTC
* * *
83207114 TATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATACCGTGGCCAAAGCATGTCC
1 T-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCGTGGCCGATGCATGTCC
83207179 CAGACATGTCTTACACTGGC
65 CAGACATGTCTTACACTGGC
83207199 GCACAAATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
90 2 0.01
91 33 0.22
92 13 0.09
93 31 0.21
94 58 0.39
95 11 0.07
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (91 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCGTGGCCGATGCATGTCCC
AGACATGTCTTACACTGGCACAACTC
Found at i:83220022 original size:176 final size:176
Alignment explanation
Indices: 83219774--83220427 Score: 748
Period size: 180 Copynumber: 3.7 Consensus size: 176
83219764 CAGTCTACAG
* * * * * *
83219774 TCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCCATTTTTAACCTGCTCTCTTGCCATCTCAAA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATTTTCAACCTGCTCTCTTGCTACCTCAGA
* *
83219839 GAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGGATTCACCATTCTCG
66 GAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCATTCTCG
* *
83219904 ATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCCCAT
131 ATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTCAA
* * * *
83219950 TCTGCTTCCTTGCTACCTCAGGAAAATAAAACT-CATTCTTCAACCTGCTCTCTTACTACGTCAG
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATT-TTCAACCTGCTCTCTTGCTACCTCAG
* *
83220014 AGAAATAAGACTTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAA-ATAAGATTCACCA-TC
65 AGAAATAAGGC-TAGTGGTAAAATCTGCTCCATTGCCGATACAT-GAAGATAAGATTCACCATTC
*
83220077 TGCAAAGATCTGCTCCGCTGCAA-TCTCAGGGAGATAAAATCTTCAATTTTCAA
128 T-C---GATCTGCTCCGCTGCAACT-TCAGGGAGATAAAATCTTCAATTCTCAA
*
83220130 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATCTTTCAACTTGCTCTCTTGCTACCTCAG
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAT-TTTCAACCTGCTCTCTTGCTACCTCAG
* * * * * * *
83220194 AGAGATAAGGCCAATAGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCCT
65 AGAAATAAGGCTAGT-GGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCATTCT
* ** * * * * **
83220259 CAATCTGCTCCGCAACTACCT-AGGGAAATAAGATCTGT-AA-TCTTCGG
129 CGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCT-TCAATTC-TCAA
*
83220306 TCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCTCTTGCTACCTCAG
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAC-ATTTTCAACCTGCTCTCTTGCTACCTCAG
* * * * * *
83220371 AGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGTAGATAAGATT
65 AGAAATAAGG-CTAGTGG-TAAAATCTGCTCCATTGCCGATACATGAAGATAAGATT
83220428 TGCGTCCTCC
Statistics
Matches: 409, Mismatches: 50, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
175 5 0.01
176 112 0.27
177 96 0.23
178 41 0.10
179 4 0.01
180 148 0.36
181 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (176 bp):
TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATTTTCAACCTGCTCTCTTGCTACCTCAGA
GAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCATTCTCG
ATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTCAA
Found at i:83220150 original size:45 final size:43
Alignment explanation
Indices: 83220101--83220201 Score: 109
Period size: 43 Copynumber: 2.3 Consensus size: 43
83220091 CCGCTGCAAT
83220101 CTCAGGGAGATAAAATCTTCAAT-TTTCAA-TCTGCT-TCCTTGCTAC
1 CTCAGGGAGATAAAA-C-TC-ATCTTTCAACT-TGCTCT-CTTGCTAC
* *
83220146 CTCAGGAAGATAAGACTCATCTTTCAACTTGCTCTCTTGCTAC
1 CTCAGGGAGATAAAACTCATCTTTCAACTTGCTCTCTTGCTAC
*
83220189 CTCAGAGAGATAA
1 CTCAGGGAGATAA
83220202 GGCCAATAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.04
43 31 0.63
44 3 0.06
45 13 0.27
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (43 bp):
CTCAGGGAGATAAAACTCATCTTTCAACTTGCTCTCTTGCTAC
Found at i:83220586 original size:147 final size:147
Alignment explanation
Indices: 83220297--83220717 Score: 567
Period size: 147 Copynumber: 2.9 Consensus size: 147
83220287 TAAGATCTGT
* *
83220297 AATCTTCGGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCTCTTG
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATTTTCAACCTGCTCTCTTG
* *
83220362 CTACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGTAGATAAGAT
65 CTACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAAAT
* *
83220427 TTGCGTCCTCCAATCTTC
130 TCGCCTCCTCCAATCTTC
* * ** *
83220445 AATCTTTAGTCTGCTTTCTTGCTACCTCAAAAAGGTAAGACTCAATTTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATTTTCAACCTGCTCTCTTGC
** *
83220510 TACCTCAGAGAGATAAGGTCTTGAGGCTTAAA-CTTGCTCCATTGCCGGTACATGGATATAAAAT
66 TACCTCAGAGAGATAAGGTCTTGAGGCTTAAATC-TGCTCCATTGCCAATACATGGAGATAAAAT
*
83220574 TCGCCTCTTCCAATCTTC
130 TCGCCTCCTCCAATCTTC
* * *
83220592 AATCTTCAGTCTGCTTCCTTGCTACCCCAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTTG
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-TCAATTTTCAACCTGCTCTCTTG
* ** * * * * *
83220657 CTTCCTCAGAGAGATAAGG-CCAGTGGCTAAAATCTACCCCATTGCCAATACGTGGAGATAA
65 CTACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAA
83220718 GATTAGCCAT
Statistics
Matches: 236, Mismatches: 34, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
146 1 0.00
147 160 0.68
148 75 0.32
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (147 bp):
AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATTTTCAACCTGCTCTCTTGC
TACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAAATT
CGCCTCCTCCAATCTTC
Found at i:83220938 original size:45 final size:44
Alignment explanation
Indices: 83220889--83220991 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 44
83220879 GCCGATATAT
* * *
83220889 GGAGATAAGA-TTCACCATCTTC-GATCTACTCCACTGCAACTTCAG
1 GGAGATAAGACTTCA--ATCTTCAG-TCTACTCCACTACAACCTAAG
83220934 GGAGATAAGATCTTCAATCTTCAGTCTACTCCACTACAACCTAAG
1 GGAGATAAGA-CTTCAATCTTCAGTCTACTCCACTACAACCTAAG
*
83220979 GGAAATAAGACTT
1 GGAGATAAGACTT
83220992 GTTATGATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
44 3 0.06
45 43 0.84
46 1 0.02
47 4 0.08
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
GGAGATAAGACTTCAATCTTCAGTCTACTCCACTACAACCTAAG
Found at i:83221495 original size:13 final size:13
Alignment explanation
Indices: 83221459--83221500 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
83221449 TGATTCTTTC
83221459 TTTCTTTTTTTTGA
1 TTTCTTTTTTTT-A
*
83221473 TTTTTTTTTTTTA
1 TTTCTTTTTTTTA
*
83221486 TTTCTCTTTTTTA
1 TTTCTTTTTTTTA
83221499 TT
1 TT
83221501 CTGATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTTA
Found at i:83222184 original size:10 final size:10
Alignment explanation
Indices: 83222165--83222200 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
83222155 ATTAGCAACC
*
83222165 TTTTTCTTTT
1 TTTTTGTTTT
83222175 TTTTTGTTTTT
1 TTTTTG-TTTT
83222186 TTTTTGTTTT
1 TTTTTGTTTT
83222196 TTTTT
1 TTTTT
83222201 TTGGAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.92
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:83222203 original size:12 final size:11
Alignment explanation
Indices: 83222171--83222201 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
83222161 AACCTTTTTC
83222171 TTTTTTTTTGT
1 TTTTTTTTTGT
83222182 TTTTTTTTTGT
1 TTTTTTTTTGT
83222193 TTTTTTTTT
1 TTTTTTTTT
83222202 TGGAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:83233975 original size:13 final size:14
Alignment explanation
Indices: 83233959--83233987 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
83233949 TTTTAAATAT
83233959 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
83233972 TTATAATGGTTTAA
1 TTATAATGGTTTAA
83233986 TT
1 TT
83233988 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:83234406 original size:21 final size:21
Alignment explanation
Indices: 83234362--83234406 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83234352 ACTTAGAGTG
* * *
83234362 GAGGTAGCAGCGAGGGAAGCA
1 GAGGTAACAACGAGGGAAACA
*
83234383 GAGGTAACAACGAGGGAAATA
1 GAGGTAACAACGAGGGAAACA
83234404 GAG
1 GAG
83234407 CAGAGCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.42, T:0.07
Consensus pattern (21 bp):
GAGGTAACAACGAGGGAAACA
Found at i:83234790 original size:43 final size:43
Alignment explanation
Indices: 83234716--83234934 Score: 294
Period size: 43 Copynumber: 5.1 Consensus size: 43
83234706 CAACGGTACT
* * *
83234716 TTTAGCTGCGTTTGTGACAAAAAGCGCCGCTAAAGGACATGTTC
1 TTTAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGGTCATGTTC
* * ** * *
83234760 TTCAGCGGTGTTTGTGGTGAAAGCGTCGCTAAAGGTCATGTTT
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
83234803 TTTAGCAGCGTTTGTGGCAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
83234846 TTTAGCGGCGTTTGTGGCAAAAGCGTCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
83234889 TTTAGCGTCGTTTGTGGCAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
83234932 TTT
1 TTT
83234935 GGTGGCATTT
Statistics
Matches: 151, Mismatches: 24, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
43 138 0.91
44 13 0.09
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:83235958 original size:99 final size:100
Alignment explanation
Indices: 83235787--83235967 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 100
83235777 TTTAGGAATG
* * * * * **
83235787 TGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGAT
1 TGTTGGGCTGAATAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGATTCAAT
*
83235852 ATGTTCTTAAG-AAAAATATAATATATTAAGTGTA
66 ATATTCTTAAGCAAAAATATAATATATTAAGTGTA
*
83235886 TGTTGGGCTGAATAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATTAAAAGATTCAAT
1 TGTTGGGCTGAATAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGATTCAAT
83235951 ATATTCTTAAGCAAAAA
66 ATATTCTTAAGCAAAAA
83235968 GAAAAAGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 67 0.93
100 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (100 bp):
TGTTGGGCTGAATAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGATTCAAT
ATATTCTTAAGCAAAAATATAATATATTAAGTGTA
Found at i:83236621 original size:10 final size:10
Alignment explanation
Indices: 83236606--83236654 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
83236596 AATTTTAACT
83236606 TTTATCTTTA
1 TTTATCTTTA
83236616 TTTATCTTTA
1 TTTATCTTTA
*
83236626 ATTATCTTTA
1 TTTATCTTTA
83236636 TTTAT-TTGTA
1 TTTATCTT-TA
83236646 TTTATCTTT
1 TTTATCTTT
83236655 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:83241057 original size:3 final size:3
Alignment explanation
Indices: 83241049--83241078 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
83241039 GAGGTAATAG
83241049 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
83241079 TACATTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:83242010 original size:23 final size:23
Alignment explanation
Indices: 83241955--83242011 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
83241945 TTATAAGTTT
83241955 AAATTTA-ATTTTTAAGAATTTA
1 AAATTTATATTTTTAAGAATTTA
** * * *
83241977 AGTTTTCTATTTTTTAGATTTTA
1 AAATTTATATTTTTAAGAATTTA
83242000 AAATTTATATTT
1 AAATTTATATTT
83242012 AATTATTTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
AAATTTATATTTTTAAGAATTTA
Found at i:83242906 original size:30 final size:30
Alignment explanation
Indices: 83242872--83242933 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
83242862 TCTTATTTTA
83242872 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
83242902 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
83242932 TT
1 TT
83242934 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:83243070 original size:11 final size:11
Alignment explanation
Indices: 83243056--83243086 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
83243046 TATATATATT
83243056 TAAAAATTATA
1 TAAAAATTATA
*
83243067 TAAAAATAATA
1 TAAAAATTATA
83243078 TAAAAATTA
1 TAAAAATTA
83243087 ATACGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:83251357 original size:16 final size:16
Alignment explanation
Indices: 83251336--83251369 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
83251326 CAAATATGAG
83251336 TAGATACTCTAGTAAT
1 TAGATACTCTAGTAAT
83251352 TAGATACTCTAGTAAT
1 TAGATACTCTAGTAAT
83251368 TA
1 TA
83251370 ATTTCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
TAGATACTCTAGTAAT
Found at i:83251763 original size:27 final size:27
Alignment explanation
Indices: 83251727--83251783 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
83251717 TGAATCATTG
* *
83251727 GGAATTAATTAAGTT-TCTATTCTTTTT
1 GGAATGAATTAA-TTCTCTATTATTTTT
*
83251754 GGAATGAATTGATTCTCTATTATTTTT
1 GGAATGAATTAATTCTCTATTATTTTT
83251781 GGA
1 GGA
83251784 TTGATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (27 bp):
GGAATGAATTAATTCTCTATTATTTTT
Found at i:83254441 original size:21 final size:21
Alignment explanation
Indices: 83254417--83254462 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
83254407 GAGACATGAC
83254417 ACACACTC-GTGTAGAAGGGCA
1 ACAC-CTCTGTGTAGAAGGGCA
*
83254438 ACACGTCTGTGTAGAAGGGCA
1 ACACCTCTGTGTAGAAGGGCA
83254459 ACAC
1 ACAC
83254463 GCCCTTGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.24, G:0.28, T:0.15
Consensus pattern (21 bp):
ACACCTCTGTGTAGAAGGGCA
Found at i:83254491 original size:19 final size:20
Alignment explanation
Indices: 83254467--83254506 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
83254457 CAACACGCCC
83254467 TTGTGGCCATTTCAA-ATGG
1 TTGTGGCCATTTCAACATGG
83254486 TTGTGGCCATTTCAACATGG
1 TTGTGGCCATTTCAACATGG
83254506 T
1 T
83254507 CGTGTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
TTGTGGCCATTTCAACATGG
Found at i:83258528 original size:17 final size:18
Alignment explanation
Indices: 83258508--83258552 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
83258498 TTACTTTAGC
83258508 CATTTTTATTTTT-ATTT
1 CATTTTTATTTTTGATTT
*
83258525 CA-TTTTATTTTTGTTTT
1 CATTTTTATTTTTGATTT
*
83258542 AATTTTTATTT
1 CATTTTTATTT
83258553 ACTAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
CATTTTTATTTTTGATTT
Found at i:83267037 original size:18 final size:18
Alignment explanation
Indices: 83267016--83267081 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
83267006 CCATTTATCA
83267016 TTTATTTTTAATTTTAAT
1 TTTATTTTTAATTTTAAT
* **
83267034 TTTACTTTCTTATTTTTCTT
1 TTTA-TTT-TTAATTTTAAT
* *
83267054 TTTATTTCT-ATTTTTAT
1 TTTATTTTTAATTTTAAT
83267071 GTTTATTTTTA
1 -TTTATTTTTA
83267082 TGTTTTTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
17 5 0.14
18 13 0.36
19 6 0.17
20 12 0.33
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTATTTTTAATTTTAAT
Found at i:83267055 original size:19 final size:18
Alignment explanation
Indices: 83267033--83267078 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
83267023 TTAATTTTAA
83267033 TTTTACTTTCTTATTTTTCT
1 TTTTA-TTTC-TATTTTTCT
*
83267053 TTTTATTTCTATTTTTAT
1 TTTTATTTCTATTTTTCT
*
83267071 GTTTATTT
1 TTTTATTT
83267079 TTATGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 4 0.17
20 5 0.21
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTCTATTTTTCT
Found at i:83267060 original size:12 final size:12
Alignment explanation
Indices: 83267016--83267087 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
83267006 CCATTTATCA
*
83267016 TTTATTTTTAAT
1 TTTATTTTTATT
*
83267028 TTTAATTTTACTT
1 TTTATTTTTA-TT
*
83267041 TCTTATTTTTCTT
1 T-TTATTTTTATT
*
83267054 TTTATTTCTATT
1 TTTATTTTTATT
*
83267066 TTTATGTTTATT
1 TTTATTTTTATT
83267078 TTTATGTTTT
1 TTTAT-TTTT
83267088 TAGACTTCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
12 33 0.69
13 8 0.17
14 7 0.15
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:83283321 original size:123 final size:128
Alignment explanation
Indices: 83283189--83283432 Score: 320
Period size: 134 Copynumber: 1.9 Consensus size: 128
83283179 TAAAACTTAA
*
83283189 AAACCCTCTC-TT-TTTTT-TTCA-A-GTTCACTTAGTGCAAAATAAACAAGAAAATCTCAAGGA
1 AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
*
83283249 TCGCCACATGAATGTGTGAACCATAGTGTTAATCAGGAGCTT-AGGATTTTTAAAAAATAATAG
66 TCGCCACATGAATGTGTGAACCATAGCGTTAATCAGGAGCTTGA-GATTTTTAAAAAATAATAG
* *
83283312 AAACCCTCTCTTTATTTTTCAAGTTCACTTATCTTTCACTTAGCGCAAAATAAACGAGAAAATCT
1 AAACCCTCTCTTTATTTTT--A-TTCA--TA-CGTTCACTTAGCGCAAAATAAACAAGAAAATCT
* * *
83283377 CAGGGATCGCCACATGTATGTGTGAACCATTGCGTTAATCAGGAGCTTGAGATTTT
60 CAAGGATCGCCACATGAATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTT
83283433 ATCTTAAGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
123 10 0.10
124 2 0.02
125 5 0.05
129 4 0.04
132 1 0.01
134 79 0.77
135 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (128 bp):
AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
TCGCCACATGAATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTTTAAAAAATAATAG
Found at i:83289064 original size:26 final size:29
Alignment explanation
Indices: 83289011--83289066 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
83289001 ATGTTTCCAT
* *
83289011 TGATGAATCTTGTGATTTTTGATGTTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
83289040 TGATGAAT-TTG-GAATGTTGAT-TTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
83289066 T
1 T
83289067 TTAAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 8 0.32
28 3 0.12
29 8 0.32
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (29 bp):
TGATGAATCTTGTGAATGTTGATGTTATA
Found at i:83291920 original size:24 final size:24
Alignment explanation
Indices: 83291888--83291936 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
83291878 AAGATATGAA
83291888 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
83291912 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
83291936 A
1 A
83291937 CTGTAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (24 bp):
ATGTTCAAAATTCTATTTGTTTGT
Found at i:83293535 original size:20 final size:21
Alignment explanation
Indices: 83293491--83293547 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
83293481 ACACCACACT
* *
83293491 AGAGGCATCATAAATGCATAAC
1 AGAGGCACCA-AAGTGCATAAC
*
83293513 AGAGGCACCGAAGTGCA-AAC
1 AGAGGCACCAAAGTGCATAAC
83293533 AGAGGCACCAAAGTG
1 AGAGGCACCAAAGTG
83293548 AAATCCCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 17 0.55
21 6 0.19
22 8 0.26
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (21 bp):
AGAGGCACCAAAGTGCATAAC
Found at i:83301119 original size:46 final size:47
Alignment explanation
Indices: 83301063--83301177 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 47
83301053 GACGAGGGCT
*
83301063 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-TATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTTA-CATGAGCC
* * * *
83301109 AGTGTAAGACATGTCTGGGACATGCGTCAGCCACGGTTACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTTACATGAGCC
*
83301156 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
83301178 CGGCATCGAC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 35 0.57
47 26 0.43
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTTACATGAGCC
Found at i:83306155 original size:46 final size:45
Alignment explanation
Indices: 83305997--83306158 Score: 157
Period size: 46 Copynumber: 3.5 Consensus size: 45
83305987 GGGTGTTACA
* * * * *
83305997 GGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATAAACTC
1 GGACTCAACTCAACGAGTTCGGACATTTGCATCCAT-AATGAACTC
* * * * *
83306043 AGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCACGAACTC
1 GGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAATGAACTC
83306090 GGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTC
1 GGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA-TGAACTC
*
83306136 GGACTCAACTCAACAAGTTCGGA
1 GGACTCAACTCAACGAGTTCGGA
83306159 TGCTGAACCA
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 48 0.52
47 28 0.30
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
GGACTCAACTCAACGAGTTCGGACATTTGCATCCATAATGAACTC
Found at i:83308586 original size:29 final size:28
Alignment explanation
Indices: 83308549--83308632 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
83308539 GATAACAAGA
*
83308549 AAACCGAATAAAGAAATCCAAGATAGAG
1 AAACCGAATAAAGAAATCCAAGATAAAG
*
83308577 AAACCTGAATAAATAAATCC-AGAATAAAG
1 AAACC-GAATAAAGAAATCCAAG-ATAAAG
* * *
83308606 AGATCCAGGATAAAGAAACCCAAGATA
1 A-AACC-GAATAAAGAAATCCAAGATA
83308633 CGATACTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.16
29 19 0.42
30 17 0.38
31 2 0.04
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (28 bp):
AAACCGAATAAAGAAATCCAAGATAAAG
Found at i:83308603 original size:15 final size:15
Alignment explanation
Indices: 83308545--83308623 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
83308535 CAAAGATAAC
*
83308545 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
83308559 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
83308574 GAGAAA-CCTGAATA
1 AAGAAATCCAGAATA
*
83308588 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
83308603 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
83308618 AAGAAA
1 AAGAAA
83308624 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.35
15 33 0.65
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:83308632 original size:15 final size:15
Alignment explanation
Indices: 83308556--83308632 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
83308546 AGAAAACCGA
83308556 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
83308571 ATAGAGAAA-CC-TG
1 ATAAAGAAATCCAAG
*
83308584 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
83308599 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
83308615 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
83308630 ATA
1 ATA
83308633 CGATACTATG
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
13 1 0.02
14 9 0.19
15 37 0.77
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83311725 original size:46 final size:46
Alignment explanation
Indices: 83311556--83311728 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
83311546 AACCCGTCCC
* * * *
83311556 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTC-GGACATTTGCATCCA
* * * *
83311602 TAAATGAACTCGGACTCAACTCAACAAGTTTGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-ATTTGCATCCA
* *
83311650 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
*
83311695 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
83311729 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
Found at i:83311730 original size:93 final size:93
Alignment explanation
Indices: 83311561--83311731 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
83311551 GTCCCTAAGT
* *
83311561 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
83311626 CAAGTTTGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * *
83311654 GAACTCGGACTCAACTCAACAAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
83311718 ACGAGTTCGGATGC
65 ACAAGTTCGGATGC
83311732 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83315239 original size:48 final size:48
Alignment explanation
Indices: 83315162--83315390 Score: 209
Period size: 48 Copynumber: 4.9 Consensus size: 48
83315152 TACATGGTAG
* * * * *
83315162 GATGCAAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** **
83315210 GAGGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
83315258 AACGCTAATGCCATGTCCCAGACATTGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
83315306 GATACCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
83315349 GATTCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
83315391 TACATAACCT
Statistics
Matches: 139, Mismatches: 35, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.73
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:83328434 original size:13 final size:14
Alignment explanation
Indices: 83328416--83328446 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
83328406 CTCTGGATTT
83328416 AAAAAAT-AAAATA
1 AAAAAATAAAAATA
83328429 AAAAAATAAAAATA
1 AAAAAATAAAAATA
83328443 AAAA
1 AAAA
83328447 GAGAGGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:83330442 original size:29 final size:29
Alignment explanation
Indices: 83330400--83330459 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
83330390 AAAGCTATAC
83330400 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
83330429 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
83330458 TT
1 TT
83330460 CATATTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (29 bp):
TTAGTTTACAATTTCTTTAAATTTCTTAT
Found at i:83330531 original size:20 final size:21
Alignment explanation
Indices: 83330496--83330547 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
83330486 ACACACTTAT
83330496 ATTAT-TTATATTTTTT-AAA
1 ATTATATTATATTTTTTAAAA
83330515 ATTATATTAT-TTATTTTACAAA
1 ATTATATTATATT-TTTTA-AAA
83330537 ATTATTATTAT
1 ATTA-TATTAT
83330548 GATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
22 7 0.25
23 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATTATATTTTTTAAAA
Found at i:83330537 original size:22 final size:23
Alignment explanation
Indices: 83330492--83330547 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
83330482 CATTACACAC
**
83330492 TTATATTATTTATATTTTTTAAAA
1 TTATATTA-TTATATTTTACAAAA
83330516 TTATATTATT-TATTTTACAAAA
1 TTATATTATTATATTTTACAAAA
83330538 TTATTATTAT
1 TTA-TATTAT
83330548 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.45
23 8 0.28
24 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTATTATATTTTACAAAA
Found at i:83331448 original size:14 final size:15
Alignment explanation
Indices: 83331431--83331459 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83331421 CTTTTTTTTC
83331431 ATAAAT-TTTTATAA
1 ATAAATATTTTATAA
83331445 ATAAATATTTTATAA
1 ATAAATATTTTATAA
83331460 TACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTATAA
Found at i:83341848 original size:25 final size:25
Alignment explanation
Indices: 83341811--83341858 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
83341801 TTGTAAATAA
83341811 GAAAAATATCTTTA-AAAATTTTTT
1 GAAAAATATCTTTAGAAAATTTTTT
* *
83341835 GAAATAATTTCTTTAGAGAATTTT
1 GAAA-AATATCTTTAGAAAATTTT
83341859 CTCTCTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 9 0.45
26 7 0.35
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (25 bp):
GAAAAATATCTTTAGAAAATTTTTT
Found at i:83342115 original size:17 final size:17
Alignment explanation
Indices: 83342080--83342118 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
83342070 TCAAGACAAG
**
83342080 TATTAAATTAATTTTAA
1 TATTAAATTAATTAAAA
*
83342097 TATTAAATTTATTAAAA
1 TATTAAATTAATTAAAA
83342114 TATTA
1 TATTA
83342119 TTATTTTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAAATTAATTAAAA
Found at i:83345368 original size:43 final size:43
Alignment explanation
Indices: 83345315--83345457 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
83345305 GCGCCGCAAA
* * *
83345315 AAACACCGCTAAAGACCATGACCTTTAGTGGCACTTTTCTTGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCTCGC
*
83345358 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCTCGC
* * * * * *
83345401 AAACGCCGTTATATAACA-GACCTTTAGCGGCACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCTCGC
* *
83345443 AAACTCCACTAAAGA
1 AAACGCCGCTAAAGA
83345458 ATATAAACTT
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 31 0.37
43 53 0.63
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCTCGC
Found at i:83345490 original size:20 final size:20
Alignment explanation
Indices: 83345467--83345504 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83345457 AATATAAACT
83345467 TTAAAAAATATATATTTTAA
1 TTAAAAAATATATATTTTAA
* *
83345487 TTAAATAATATTTATTTT
1 TTAAAAAATATATATTTT
83345505 CTATGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAAAATATATATTTTAA
Found at i:83348237 original size:27 final size:22
Alignment explanation
Indices: 83348198--83348264 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
83348188 AATCAAGGAG
83348198 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
83348220 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
83348242 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
83348264 T
1 T
83348265 CACAATTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACATAAACTCAACTCAAAA
Found at i:83349826 original size:8 final size:8
Alignment explanation
Indices: 83349815--83349897 Score: 66
Period size: 7 Copynumber: 10.4 Consensus size: 8
83349805 TAAGTTTTTT
83349815 ATTTTTAA
1 ATTTTTAA
83349823 ATTTTTAA
1 ATTTTTAA
*
83349831 ATTTTT-T
1 ATTTTTAA
*
83349838 ATTTTT-T
1 ATTTTTAA
*
83349845 ATTTTT-T
1 ATTTTTAA
83349852 ATTTTTAA
1 ATTTTTAA
83349860 A-TTTTAA
1 ATTTTTAA
*
83349867 TTTTTTTGAA
1 -ATTTTT-AA
83349877 GATTTTTATA
1 -ATTTTTA-A
83349887 ATTTTTAA
1 ATTTTTAA
83349895 ATT
1 ATT
83349898 AACATATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
7 26 0.40
8 19 0.29
9 12 0.18
10 8 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
ATTTTTAA
Found at i:83349850 original size:23 final size:23
Alignment explanation
Indices: 83349798--83349897 Score: 78
Period size: 23 Copynumber: 4.2 Consensus size: 23
83349788 ATTAAATATC
* *
83349798 AAATTTCTAAGTTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
83349821 AAATTTTTAAATTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
* * * *
83349844 -TATTTTT-TATTTTTAAATTTT
1 AAATTTTTAAATTTTTTATTTTT
*
83349865 AATTTTTTTGAAGATTTTTATAATTTTT
1 AA-ATTTTT-AA-ATTTTT-T-ATTTTT
83349893 AAATT
1 AAATT
83349898 AACATATAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.19
22 6 0.10
23 26 0.45
26 6 0.10
27 2 0.03
28 7 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (23 bp):
AAATTTTTAAATTTTTTATTTTT
Found at i:83350375 original size:14 final size:15
Alignment explanation
Indices: 83350358--83350417 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 15
83350348 AAATTTATTT
83350358 TTTA-GATTTTAGGG
1 TTTATGATTTTAGGG
* * *
83350372 TTTATAATTTAAGAG
1 TTTATGATTTTAGGG
*
83350387 TTTATGA-TTTATGG
1 TTTATGATTTTAGGG
*
83350401 TTTAT-AGTTTAGGG
1 TTTATGATTTTAGGG
83350415 TTT
1 TTT
83350418 GGGATTTACG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 1 0.03
14 22 0.61
15 13 0.36
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (15 bp):
TTTATGATTTTAGGG
Found at i:83351337 original size:102 final size:102
Alignment explanation
Indices: 83351156--83351339 Score: 244
Period size: 102 Copynumber: 1.8 Consensus size: 102
83351146 TTTAGATCTA
* * *
83351156 TAGCGGCGTTTTTAAAAAAGCGCCGCTAAAACTCAACCTATTGCGGCGTTTTCCACAAAGCGCCG
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
83351221 CTAATGCCACTGAAGCTTAATGTTCTGCTTAATCTTT
66 CTAATGCCACTGAAGCTTAATGTTCTGCTTAATCTTT
*** ** * *
83351258 TAGCGGCGTTTTCAAAAAAGCGCCGCTAATGGTTGACATATAGCGGCGTTTT-TATGAAAGCGCC
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCA-CAAAGCGCC
* *
83351322 TCTAATGCCATTGAAGCT
65 GCTAATGCCACTGAAGCT
83351340 CAAAATAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
101 1 0.01
102 68 0.99
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (102 bp):
TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
CTAATGCCACTGAAGCTTAATGTTCTGCTTAATCTTT
Found at i:83351483 original size:12 final size:12
Alignment explanation
Indices: 83351466--83351493 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83351456 TTTTCTATTC
83351466 AAACGCCGCTAA
1 AAACGCCGCTAA
83351478 AAACGCCGCTAA
1 AAACGCCGCTAA
83351490 AAAC
1 AAAC
83351494 CTGTTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:83352283 original size:2 final size:2
Alignment explanation
Indices: 83352278--83352329 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
83352268 ATATGAAGAC
83352278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83352320 AT AT -T AT AT A
1 AT AT AT AT AT A
83352330 ACAAAATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83360105 original size:21 final size:22
Alignment explanation
Indices: 83360087--83360128 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
83360077 TTCTATTTTC
83360087 AATAAAAAT-ATTAAAATTTAT
1 AATAAAAATAATTAAAATTTAT
*
83360108 AATAAAACTAATTAAAATTTA
1 AATAAAAATAATTAAAATTTA
83360129 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAATAATTAAAATTTAT
Found at i:83360292 original size:2 final size:2
Alignment explanation
Indices: 83360285--83360320 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
83360275 ATAGAGTCTT
83360285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83360321 ATGCATTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83367403 original size:20 final size:20
Alignment explanation
Indices: 83367360--83367408 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
83367350 AGGACCCAAT
* *
83367360 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATA
**
83367380 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
83367400 AAATAAAAT
1 AAATCAAAT
83367409 AAGATAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:83369322 original size:15 final size:15
Alignment explanation
Indices: 83369300--83369331 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
83369290 AAAGCTGTAG
83369300 AATTAAAAAT-ACTA
1 AATTAAAAATGACTA
83369314 AATTAAAAATGACTA
1 AATTAAAAATGACTA
83369329 AAT
1 AAT
83369332 GGCTTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTAAAAATGACTA
Found at i:83373274 original size:12 final size:12
Alignment explanation
Indices: 83373259--83373286 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83373249 TAGTTATTAT
83373259 TATAATATAATA
1 TATAATATAATA
83373271 TATAATATAATA
1 TATAATATAATA
83373283 TATA
1 TATA
83373287 TTTTATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAATA
Found at i:83393284 original size:31 final size:31
Alignment explanation
Indices: 83393212--83393285 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
83393202 ACGGCCAAGG
*
83393212 ACACTCGTATGGTTCACCCGTGTAGGCCCAC
1 ACACTCGTGTGGTTCACCCGTGTAGGCCCAC
* * *
83393243 ACACTCGTGTGGTTCACCTGTGTGGGCCTAC
1 ACACTCGTGTGGTTCACCCGTGTAGGCCCAC
*
83393274 ACACTTGTGTGG
1 ACACTCGTGTGG
83393286 CCCACACGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (31 bp):
ACACTCGTGTGGTTCACCCGTGTAGGCCCAC
Found at i:83395003 original size:31 final size:31
Alignment explanation
Indices: 83394965--83395027 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
83394955 TTCATCCAGG
* *
83394965 TAAGCCTTGTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATCCTTCAACTT
83394996 TAAGCCTTCTTTTTCTTCCATCCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATCCTTCAACTT
83395027 T
1 T
83395028 TTCCATCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.05, T:0.51
Consensus pattern (31 bp):
TAAGCCTTCTTTTTCTTCCATCCTTCAACTT
Found at i:83399100 original size:21 final size:21
Alignment explanation
Indices: 83399076--83399135 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
83399066 GAGTAATCTG
83399076 TCCCTCCACCGAATATTCGCT
1 TCCCTCCACCGAATATTCGCT
** *
83399097 TCCCTCCGTCGAATATTTGCT
1 TCCCTCCACCGAATATTCGCT
83399118 TCCCTCCACCGAATATTC
1 TCCCTCCACCGAATATTC
83399136 ACTTAATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.40, G:0.10, T:0.32
Consensus pattern (21 bp):
TCCCTCCACCGAATATTCGCT
Found at i:83399178 original size:18 final size:18
Alignment explanation
Indices: 83399155--83399215 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
83399145 CCTCTTTTAA
83399155 ATGTAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
* *
83399173 ATGTAAAAATAATTTAA-A-
1 ATGT-AAATTTA-TTAATAT
*
83399191 ATATAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
83399209 ATGTAAA
1 ATGTAAA
83399216 AATAACTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 13 0.39
19 6 0.18
20 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
ATGTAAATTTATTAATAT
Found at i:83399336 original size:19 final size:19
Alignment explanation
Indices: 83399291--83399328 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
83399281 CATCCAAACA
83399291 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
83399310 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
83399329 TCCAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:83401118 original size:19 final size:19
Alignment explanation
Indices: 83401094--83401131 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
83401084 CGAATAGAAG
*
83401094 GTTGAATTGAGTTTTAAAT
1 GTTGAATTGAATTTTAAAT
83401113 GTTGAATTGAATTTTAAAT
1 GTTGAATTGAATTTTAAAT
83401132 AAGTGTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (19 bp):
GTTGAATTGAATTTTAAAT
Found at i:83405650 original size:11 final size:11
Alignment explanation
Indices: 83405634--83405662 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
83405624 TGCGTTTTGA
83405634 AAAAGTTATGG
1 AAAAGTTATGG
83405645 AAAAGTTATGG
1 AAAAGTTATGG
83405656 AAAAGTT
1 AAAAGTT
83405663 GTGAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (11 bp):
AAAAGTTATGG
Found at i:83413622 original size:17 final size:18
Alignment explanation
Indices: 83413589--83413622 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83413579 GTGTGGTTCA
83413589 CCCGTGTAGCTCCACACG
1 CCCGTGTAGCTCCACACG
*
83413607 CCCGTGTGGC-CCACAC
1 CCCGTGTAGCTCCACAC
83413623 AACTCAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.47, G:0.24, T:0.15
Consensus pattern (18 bp):
CCCGTGTAGCTCCACACG
Found at i:83414997 original size:11 final size:11
Alignment explanation
Indices: 83414983--83415023 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
83414973 TATTTTCTCC
83414983 CTATTTTGCTA
1 CTATTTTGCTA
*
83414994 CTATTTTACTA
1 CTATTTTGCTA
* *
83415005 TTATTTTTCTA
1 CTATTTTGCTA
83415016 CTATTTTG
1 CTATTTTG
83415024 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:83417086 original size:17 final size:16
Alignment explanation
Indices: 83417041--83417091 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
83417031 TAAAATTTGA
83417041 ATTTAA-TTTCTAATTT
1 ATTTAATTTTC-AATTT
*
83417057 AATTTTATTTTCAATTT
1 -ATTTAATTTTCAATTT
83417074 ATTTAATTGTTC-ATTT
1 ATTTAATT-TTCAATTT
83417090 AT
1 AT
83417092 GCTATCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.43
17 13 0.43
18 4 0.13
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTAATTTTCAATTT
Found at i:83418434 original size:14 final size:14
Alignment explanation
Indices: 83418415--83418443 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83418405 ACCCCAGAGG
83418415 TGATATAATCCATA
1 TGATATAATCCATA
83418429 TGATATAATCCATA
1 TGATATAATCCATA
83418443 T
1 T
83418444 TCAAACACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
TGATATAATCCATA
Found at i:83423511 original size:49 final size:49
Alignment explanation
Indices: 83423450--83423545 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
83423440 CTCCGAATGC
*
83423450 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAGACACTATGT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
* *
83423499 CGAGCCTGGTCTTAATTTTGAGGTTTACCTGAAAAGTTAAACACTAT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTAT
83423546 TGGGGGGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (49 bp):
CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
Found at i:83426733 original size:18 final size:18
Alignment explanation
Indices: 83426702--83426750 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
83426692 GAAATATTGT
* *
83426702 AATTAGATTATTTCATGAA
1 AATT-GATTGTTTCATAAA
83426721 AATTGATTGTTTCATAAA
1 AATTGATTGTTTCATAAA
83426739 AATTGATTGTTT
1 AATTGATTGTTT
83426751 ACTTTGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (18 bp):
AATTGATTGTTTCATAAA
Found at i:83428481 original size:17 final size:17
Alignment explanation
Indices: 83428453--83428493 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
83428443 CTATTTACAA
83428453 AATTTGAATTTGATTTCT
1 AATTT-AATTTGATTTCT
83428471 AATTTAATTTGATTTCT
1 AATTTAATTTGATTTCT
*
83428488 GATTTA
1 AATTTA
83428494 TTTAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (17 bp):
AATTTAATTTGATTTCT
Found at i:83429841 original size:19 final size:19
Alignment explanation
Indices: 83429799--83429849 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
83429789 TATTATATAT
* *
83429799 ATAATTAACTTAATTAAAC
1 ATAATTAAATTAATAAAAC
*
83429818 ATAATTAAATTAATAAAAT
1 ATAATTAAATTAATAAAAC
*
83429837 TTAATTTAAATTA
1 ATAA-TTAAATTA
83429850 TGTCATTAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTAAATTAATAAAAC
Found at i:83433912 original size:63 final size:63
Alignment explanation
Indices: 83433822--83433950 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
83433812 AATATAGCTC
* * * * *
83433822 TTTGACTTTCTTTCTTTACAAGATATCTTTCTTGT-TCATTTTCGAAGTTGTTTTCTTCTTGGT
1 TTTGACTTTCTTTATTTACAAGATATCTCTCTTGTCT-ATTTTAGAAGTTATTGTCTTCTTGGT
* * *
83433885 TTTGAGTTTTTTTATTTGCAAGATATCTCTCTTGTCTATTTTAGAAGTTATTGTCTTCTTGGT
1 TTTGACTTTCTTTATTTACAAGATATCTCTCTTGTCTATTTTAGAAGTTATTGTCTTCTTGGT
83433948 TTT
1 TTT
83433951 CTTCTTGAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 56 0.98
64 1 0.02
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.57
Consensus pattern (63 bp):
TTTGACTTTCTTTATTTACAAGATATCTCTCTTGTCTATTTTAGAAGTTATTGTCTTCTTGGT
Found at i:83437218 original size:15 final size:16
Alignment explanation
Indices: 83437200--83437237 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
83437190 CCCTCTTTAG
83437200 AATTTTATG-ATTTTT
1 AATTTTATGAATTTTT
*
83437215 AATTTTTTGATATTTTT
1 AATTTTATGA-ATTTTT
83437232 AATTTT
1 AATTTT
83437238 TTTGAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
17 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
AATTTTATGAATTTTT
Found at i:83437743 original size:17 final size:16
Alignment explanation
Indices: 83437714--83437754 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
83437704 TGTAAATACA
*
83437714 TAAATA-AATATAATT
1 TAAATATAATATAATG
83437729 TAAATATAATAATAATG
1 TAAATATAAT-ATAATG
83437746 TAAAT-TAAT
1 TAAATATAAT
83437755 TTATTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 7 0.30
17 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAATATAATATAATG
Found at i:83442037 original size:2 final size:2
Alignment explanation
Indices: 83442030--83442055 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83442020 CAATGTATTA
83442030 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
83442056 GCAATGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83444511 original size:17 final size:18
Alignment explanation
Indices: 83444484--83444529 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
83444474 GTATTAAAAT
83444484 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
83444500 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
83444517 TATATATATTATA
1 TATATATATTATA
83444530 TGCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:83449806 original size:2 final size:2
Alignment explanation
Indices: 83449801--83449830 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
83449791 TTTTTTAAAC
83449801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83449831 TTAACTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83462592 original size:126 final size:125
Alignment explanation
Indices: 83462380--83462659 Score: 330
Period size: 126 Copynumber: 2.2 Consensus size: 125
83462370 GTTCGAGGGG
* * * *
83462380 TCGTGCCCAATCGTGCTGAGTTTCGATTTTTCGTTCAACTAAAATACGAAATATCCTTTGGAATT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCAACTAAAATACGAAATATCCTTTGGAAAT
** * * * * * *
83462445 TTTGTCCATGCTTTTTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGGGAGA
66 TTCATCCATGCTTTTTAAAATTAAAATGAGGCAATATTTCATATTT-GGAAATTCGAGAAA
* * * *
83462506 TCGTGCCCAATCGTGCTGGGTTTTGATTTTCCATTCGACTAAAGTAC-AGAATATCCTTTTGAAA
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCAACTAAAATACGA-AATATCCTTTGGAAA
* * * *
83462570 TTTCATCCGTG-TTTTCTCAAATTAAAATGAGGCAATGTTTCATATTTGGAAATTCGATAAA
65 TTTCATCCATGCTTTT-TAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGAGAAA
*
83462631 TCGTGCCCAATCGTGCTAGGTTTCGATTT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTT
83462660 ACCGTTTGGG
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
125 40 0.31
126 90 0.69
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (125 bp):
TCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCAACTAAAATACGAAATATCCTTTGGAAAT
TTCATCCATGCTTTTTAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGAGAAA
Done.