Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 151 of 213
Found at i:45221172 original size:51 final size:50
Alignment explanation
Indices: 45221095--45221199 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 50
45221085 ATGCTGGTTT
* *
45221095 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAAAAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAAAAAA
* *
45221146 TGATACCCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAAAAAA
45221196 TGAT
1 TGAT
45221200 TTATAGCTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 15 0.30
51 35 0.70
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAAAAAA
Found at i:45221852 original size:227 final size:227
Alignment explanation
Indices: 45221457--45221908 Score: 823
Period size: 227 Copynumber: 2.0 Consensus size: 227
45221447 TAGCCGATTG
* *
45221457 GATCCTTTGCTGTCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCATAACTCAGTGTGAAGA
1 GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
* * *
45221522 TGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGGGCCAATCCCAAG
66 TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
*
45221587 GGGAAGAAGGGCTAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
131 GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
45221652 CCACCTTCGGCCCTATTTGTCAAGAATCGATA
196 CCACCTTCGGCCCTATTTGTCAAGAATCGATA
*
45221684 GATCCTTTGCTATCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
1 GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
*
45221749 TGATTGAGTAGCCGTTCACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
66 TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
*
45221814 GGGAAGAAGGGCCGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
131 GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
45221879 CCACCTTCGGCCCTATTTGTCAAGAATCGA
196 CCACCTTCGGCCCTATTTGTCAAGAATCGA
45221909 CAATGCTGGA
Statistics
Matches: 216, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
227 216 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (227 bp):
GATCCTTTGCTATCTATTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAAGA
TGATTGAGTAGCCGTACACTAACAGCTATAAGAGGCTACTATAGGTGGTGGGAGCCAATCCCAAG
GGGAAGAAGGGCCAAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCTAA
CCACCTTCGGCCCTATTTGTCAAGAATCGATA
Found at i:45233568 original size:20 final size:21
Alignment explanation
Indices: 45233531--45233569 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45233521 GGAACTAAAA
*
45233531 TAAAAAAATATAATATTAGAT
1 TAAAAAAATATAAAATTAGAT
*
45233552 TAAAATAATA-AAAATTAG
1 TAAAAAAATATAAAATTAG
45233570 GCATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAAAAATATAAAATTAGAT
Found at i:45234146 original size:25 final size:26
Alignment explanation
Indices: 45234105--45234163 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
45234095 TACATTAATT
* *
45234105 AGAGTTTAAGTGTGAAATTAAAAA-A
1 AGAGTTTAAGAGTGAAACTAAAAACA
45234130 AGAGTTTAAGAAG-GAAACTAAAAACA
1 AGAGTTTAAG-AGTGAAACTAAAAACA
45234156 A-AGTTTAA
1 AGAGTTTAA
45234164 CTGGGAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (26 bp):
AGAGTTTAAGAGTGAAACTAAAAACA
Found at i:45236092 original size:25 final size:25
Alignment explanation
Indices: 45236064--45236120 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
45236054 CATTGATCAG
*
45236064 AGTTTAAGTGTGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACTAAAAACAA
*
45236089 AGTTTGAGTGAGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACTAAAAACAA
45236114 AGTTTAA
1 AGTTTAA
45236121 TTGGGAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.25
Consensus pattern (25 bp):
AGTTTAAGTGAGAAACTAAAAACAA
Found at i:45236289 original size:13 final size:13
Alignment explanation
Indices: 45236268--45236298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45236258 GATAATTAAC
*
45236268 AGAACTATAAAAA
1 AGAATTATAAAAA
45236281 AGAATTATAAAAA
1 AGAATTATAAAAA
45236294 AGAAT
1 AGAAT
45236299 AAGACGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (13 bp):
AGAATTATAAAAA
Found at i:45238880 original size:25 final size:25
Alignment explanation
Indices: 45238852--45238905 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
45238842 ACAGCTTGGG
**
45238852 AGAGAATACTGATTTATAGCTCGTA
1 AGAGAATACCAATTTATAGCTCGTA
* *
45238877 AGAGCATACCAATTTATATCTCGTA
1 AGAGAATACCAATTTATAGCTCGTA
45238902 AGAG
1 AGAG
45238906 CATATCGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (25 bp):
AGAGAATACCAATTTATAGCTCGTA
Found at i:45238924 original size:25 final size:25
Alignment explanation
Indices: 45238869--45238924 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
45238859 ACTGATTTAT
* *
45238869 AGCTCGTAAGAGCATACCAATTTAT
1 AGCTCGTAAGAGCATACCAATCTAC
* * *
45238894 ATCTCGTAAGAGCATATCGATCTAC
1 AGCTCGTAAGAGCATACCAATCTAC
45238919 AGCTCG
1 AGCTCG
45238925 AATAAGTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (25 bp):
AGCTCGTAAGAGCATACCAATCTAC
Found at i:45241616 original size:18 final size:18
Alignment explanation
Indices: 45241595--45241629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45241585 GAAAATTGGG
*
45241595 AAAATGAAAAAAAAAAGA
1 AAAAAGAAAAAAAAAAGA
*
45241613 AAAAAGATAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
45241630 GGATATTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAGA
Found at i:45242785 original size:30 final size:28
Alignment explanation
Indices: 45242749--45242825 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
45242739 AACCCCCTTT
* *
45242749 AGGCGAACCTTTGTATGTGCGAACCTCTAC
1 AGGCGAACCCTTGTATGTG-AAACC-CTAC
* *
45242779 AGGCGAAACCCCTTGCATGTGAAACCCTAT
1 AGGCG-AA-CCCTTGTATGTGAAACCCTAC
45242809 AGGCGAACCCTTGTATG
1 AGGCGAACCCTTGTATG
45242826 CGGCCCCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 9 0.22
29 2 0.05
30 13 0.32
31 6 0.15
32 10 0.25
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (28 bp):
AGGCGAACCCTTGTATGTGAAACCCTAC
Found at i:45245402 original size:14 final size:14
Alignment explanation
Indices: 45245383--45245409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45245373 TATTATAATA
45245383 AATTAAAGAAAAAT
1 AATTAAAGAAAAAT
45245397 AATTAAAGAAAAA
1 AATTAAAGAAAAA
45245410 AAGAAGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AATTAAAGAAAAAT
Found at i:45246670 original size:27 final size:27
Alignment explanation
Indices: 45246632--45246697 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
45246622 ATGATTATGT
45246632 GAAATGATTATA-AGAATTGGTTATATA
1 GAAATGATTATATAGAA-TGGTTATATA
45246659 GAAATAGA-TATATAGAATGGTTATAT-
1 GAAAT-GATTATATAGAATGGTTATATA
45246685 G-AATCGATTATAT
1 GAAAT-GATTATAT
45246698 GGAAATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 5 0.14
26 6 0.17
27 18 0.51
28 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (27 bp):
GAAATGATTATATAGAATGGTTATATA
Found at i:45246695 original size:13 final size:13
Alignment explanation
Indices: 45246614--45246736 Score: 92
Period size: 13 Copynumber: 9.4 Consensus size: 13
45246604 TTGAAATCGC
45246614 TATATGAAATGAT
1 TATATGAAATGAT
*
45246627 TATGTGAAATGAT
1 TATATGAAATGAT
* * *
45246640 TATAAGAATTGGT
1 TATATGAAATGAT
45246653 TATATAGAAATAGA-
1 TATAT-GAAAT-GAT
*
45246667 TATAT-AGAATGGT
1 TATATGA-AATGAT
45246680 TATATG-AATCGAT
1 TATATGAAAT-GAT
*
45246693 TATATGGAAATAAT
1 TATAT-GAAATGAT
* *
45246707 TATATTAAGTG-T
1 TATATGAAATGAT
*
45246719 TATATGAAATGTT
1 TATATGAAATGAT
45246732 TATAT
1 TATAT
45246737 TCATAAATAT
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
12 15 0.18
13 49 0.58
14 17 0.20
15 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:45259698 original size:22 final size:22
Alignment explanation
Indices: 45259667--45259709 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45259657 TGGGGGTAGA
*
45259667 CTCTAAATCAATATCTGATATG
1 CTCTAAATCAATACCTGATATG
* *
45259689 CTCTACATCAGTACCTGATAT
1 CTCTAAATCAATACCTGATAT
45259710 ACTTTGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (22 bp):
CTCTAAATCAATACCTGATATG
Found at i:45276884 original size:25 final size:25
Alignment explanation
Indices: 45276856--45276925 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
45276846 CAGGCCCATT
*
45276856 TTCACAGCTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTAA
**
45276881 TTCACAGCTCATGTGAGCATTCTAA
1 TTCACAGCTTGTGTGAGCATTCTAA
*
45276906 TTCACCGCTTGTGTGAGCAT
1 TTCACAGCTTGTGTGAGCAT
45276926 ACATGTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TTCACAGCTTGTGTGAGCATTCTAA
Found at i:45283213 original size:14 final size:16
Alignment explanation
Indices: 45283190--45283221 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45283180 GTCTGTTTGA
45283190 TTTCCAGTAAAAT-AT
1 TTTCCAGTAAAATGAT
45283205 TTTCC-GTAAAATGAT
1 TTTCCAGTAAAATGAT
45283220 TT
1 TT
45283222 CTGGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTCCAGTAAAATGAT
Found at i:45283244 original size:20 final size:20
Alignment explanation
Indices: 45283219--45283258 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45283209 CGTAAAATGA
*
45283219 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45283239 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45283259 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45283248 original size:34 final size:35
Alignment explanation
Indices: 45283204--45283270 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45283194 CAGTAAAATA
*
45283204 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
45283238 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
45283271 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:45283274 original size:14 final size:15
Alignment explanation
Indices: 45283198--45283274 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45283188 GATTTCCAGT
* *
45283198 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
45283212 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
45283226 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
45283246 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
45283261 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
45283275 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:45284352 original size:40 final size:40
Alignment explanation
Indices: 45284297--45284394 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
45284287 AGGTTCTGTT
* * *
45284297 TCTAGCAGGTTTATTGTCACTGAAATTTTCAAATTTAATG
1 TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
* *
45284337 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
* *
45284377 TCTAGTAGGCTTAATGCC
1 TCTAGCAGGCTTATTGCC
45284395 GGTGTCCTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
Found at i:45285371 original size:52 final size:52
Alignment explanation
Indices: 45285290--45285393 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
45285280 AGTTAATGAG
*
45285290 GAAGTAGGAATGAGTGTTTTATCTTAAACTATTTGATCTTAGATGAACAAGT
1 GAAGTAGGAATGAGTGTTTTATCTCAAACTATTTGATCTTAGATGAACAAGT
45285342 GAAGTAGGAATGAGTGTTTTATCTCAAACTATTTGATCTTAGATGAACAAGT
1 GAAGTAGGAATGAGTGTTTTATCTCAAACTATTTGATCTTAGATGAACAAGT
45285394 TGAATCTGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (52 bp):
GAAGTAGGAATGAGTGTTTTATCTCAAACTATTTGATCTTAGATGAACAAGT
Found at i:45287476 original size:27 final size:27
Alignment explanation
Indices: 45287419--45287498 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
45287409 AATTGAACTA
*
45287419 ATCATTCAT-CCTTCATGGGATAATA-T
1 ATCATTCATCCCTT-AAGGGATAATATT
*
45287445 GTCATTCATCCCTTAAGGGATAATATT
1 ATCATTCATCCCTTAAGGGATAATATT
* *
45287472 ATCA-TCTATCCCTTGATGGATAATATT
1 ATCATTC-ATCCCTTAAGGGATAATATT
45287499 TCACATTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 20 0.43
27 26 0.57
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (27 bp):
ATCATTCATCCCTTAAGGGATAATATT
Found at i:45288832 original size:26 final size:26
Alignment explanation
Indices: 45288781--45288833 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45288771 CATTAGGGTG
*
45288781 TAGCAGGCTTTGTACCGGTGTATATT
1 TAGCAGGCTTTGTACCGATGTATATT
* * *
45288807 TAGCAGGCTTTGTGCTGATGTTTATT
1 TAGCAGGCTTTGTACCGATGTATATT
45288833 T
1 T
45288834 TGTAGGCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (26 bp):
TAGCAGGCTTTGTACCGATGTATATT
Found at i:45289846 original size:12 final size:12
Alignment explanation
Indices: 45289829--45289853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45289819 GGTGTTCAGT
45289829 CGGTTAACCGAC
1 CGGTTAACCGAC
45289841 CGGTTAACCGAC
1 CGGTTAACCGAC
45289853 C
1 C
45289854 CGAAATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45290028 original size:9 final size:9
Alignment explanation
Indices: 45290014--45290067 Score: 72
Period size: 9 Copynumber: 5.6 Consensus size: 9
45290004 TTTGGTTAAA
45290014 AATTACCCG
1 AATTACCCG
45290023 AATTACCCG
1 AATTACCCG
45290032 AATTACCCG
1 AATTACCCG
45290041 AAAATTACCCG
1 --AATTACCCG
45290052 AAAATTACCCG
1 --AATTACCCG
45290063 AATTA
1 AATTA
45290068 AATCACTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
9 23 0.53
11 20 0.47
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:45290048 original size:11 final size:11
Alignment explanation
Indices: 45290012--45290064 Score: 78
Period size: 11 Copynumber: 5.2 Consensus size: 11
45290002 TTTTTGGTTA
45290012 AAAATTACCCG
1 AAAATTACCCG
45290023 --AATTACCCG
1 AAAATTACCCG
45290032 --AATTACCCG
1 AAAATTACCCG
45290041 AAAATTACCCG
1 AAAATTACCCG
45290052 AAAATTACCCG
1 AAAATTACCCG
45290063 AA
1 AA
45290065 TTAAATCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
9 18 0.45
11 22 0.55
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.19
Consensus pattern (11 bp):
AAAATTACCCG
Found at i:45290133 original size:17 final size:17
Alignment explanation
Indices: 45290111--45290208 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
45290101 TTTAAATTGC
45290111 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
45290128 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
45290148 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
** * *
45290165 TACATAAGTCTTGAATTAAC
1 TACATAA-T-TAAAAAT-AT
*
45290185 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
45290202 TACATAA
1 TACATAA
45290209 GTCTTGAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 23 0.41
18 8 0.14
19 9 0.16
20 16 0.29
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:45290214 original size:37 final size:38
Alignment explanation
Indices: 45290072--45290229 Score: 227
Period size: 37 Copynumber: 4.3 Consensus size: 38
45290062 GAATTAAATC
* * *
45290072 ACTACATAATTAAAAGCATTACATAAATCTTTAAATT-
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
* * *
45290109 GCTACATAATTAAAAATATTACATAAGTCTTTGAA-TC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
45290146 ACTACATAATTAAAAACATTACATAAGTC-TTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
45290183 ACTACATAATTAAAAACATTACATAAGTC-TTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
45290220 AC-ACATAATT
1 ACTACATAATT
45290230 GACATGTAAG
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
36 14 0.13
37 97 0.87
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (38 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
Found at i:45294240 original size:6 final size:6
Alignment explanation
Indices: 45294229--45294265 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
45294219 TGTGAGTGAC
* *
45294229 AGAGTG AGAGTG AGAGTG AGAGTG AAAGTG AAAGTG A
1 AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG A
45294266 AATTGTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.43, T:0.16
Consensus pattern (6 bp):
AGAGTG
Found at i:45294275 original size:8 final size:8
Alignment explanation
Indices: 45294262--45294293 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
45294252 GAAAGTGAAA
45294262 GTGAAATT
1 GTGAAATT
45294270 GTGAAATT
1 GTGAAATT
45294278 GTGAAATT
1 GTGAAATT
45294286 GTGAAATT
1 GTGAAATT
45294294 AGGGAGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (8 bp):
GTGAAATT
Found at i:45294466 original size:16 final size:16
Alignment explanation
Indices: 45294445--45294484 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
45294435 GGTGTTGTGA
45294445 AAATTGGGCTGGAATT
1 AAATTGGGCTGGAATT
**
45294461 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGAATT
45294477 AAATTGGG
1 AAATTGGG
45294485 AGGGAATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.33
Consensus pattern (16 bp):
AAATTGGGCTGGAATT
Found at i:45298864 original size:12 final size:12
Alignment explanation
Indices: 45298847--45298871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45298837 GGTGTTCATT
45298847 CGGTTAACCGAC
1 CGGTTAACCGAC
45298859 CGGTTAACCGAC
1 CGGTTAACCGAC
45298871 C
1 C
45298872 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45299045 original size:9 final size:9
Alignment explanation
Indices: 45299031--45299100 Score: 122
Period size: 9 Copynumber: 7.8 Consensus size: 9
45299021 TTTGGTTAAA
45299031 AATTACCCG
1 AATTACCCG
45299040 AATTACCCG
1 AATTACCCG
45299049 AATTACCCG
1 AATTACCCG
45299058 AATTACCCG
1 AATTACCCG
45299067 AATTACCCG
1 AATTACCCG
*
45299076 AATTAACCG
1 AATTACCCG
*
45299085 AATTAACCG
1 AATTACCCG
45299094 AATTACC
1 AATTACC
45299101 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:45306349 original size:3 final size:3
Alignment explanation
Indices: 45306341--45306365 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45306331 AGTTATCACT
45306341 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
45306366 AAAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:45307742 original size:9 final size:9
Alignment explanation
Indices: 45307728--45307764 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45307718 TATAGTTTGA
45307728 TATTCGAAT
1 TATTCGAAT
45307737 TATTCGAAT
1 TATTCGAAT
*
45307746 TATTCGAGT
1 TATTCGAAT
45307755 TATTCGAAT
1 TATTCGAAT
45307764 T
1 T
45307765 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45308024 original size:16 final size:16
Alignment explanation
Indices: 45307995--45308030 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45307985 ATCTAAATAA
45307995 TCAA-ATTCAATCTAT
1 TCAATATTCAATCTAT
*
45308010 TCAATATTCATTCTAT
1 TCAATATTCAATCTAT
45308026 TCAAT
1 TCAAT
45308031 TCAGTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TCAATATTCAATCTAT
Found at i:45311464 original size:22 final size:21
Alignment explanation
Indices: 45311426--45311466 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
45311416 ATAAATGCTG
*
45311426 TTTTATATTATTATTTTTATA
1 TTTTATATTACTATTTTTATA
*
45311447 TTTTATAATTACTCTTTTTA
1 TTTTAT-ATTACTATTTTTA
45311467 AAATTGTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATATTACTATTTTTATA
Found at i:45313595 original size:17 final size:17
Alignment explanation
Indices: 45313570--45313604 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45313560 TTGGTTAAAA
* *
45313570 ATTACCCGAATTACCCG
1 ATTAACCGAATTAACCG
45313587 ATTAACCGAATTAACCG
1 ATTAACCGAATTAACCG
45313604 A
1 A
45313605 AAATTACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTAACCG
Found at i:45314930 original size:34 final size:34
Alignment explanation
Indices: 45314881--45315125 Score: 187
Period size: 34 Copynumber: 7.2 Consensus size: 34
45314871 AAATACATGT
* *
45314881 TAAGCAAGTTTATTGCTACTGTATTGATTTATTA
1 TAAGCATGTTAATTGCTACTGTATTGATTTATTA
*
45314915 TAAGCATGTTAATTGCTACTGTATTGACTTGA-TA
1 TAAGCATGTTAATTGCTACTGTATTGA-TTTATTA
* * * * *
45314949 TAAACATATTTATTGCTA-TCGTAATGATCTATTA
1 TAAGCATGTTAATTGCTACT-GTATTGATTTATTA
* *
45314983 TAAGCATGTTAATTGCTACTGTAGTGACTTGA-TA
1 TAAGCATGTTAATTGCTACTGTATTGA-TTTATTA
* * * * * *
45315017 TAAACATATTTATTGCTACCGTAATGATCTATTA
1 TAAGCATGTTAATTGCTACTGTATTGATTTATTA
* * * * *
45315051 TAAGCATG-AATATTTCTATTGTATCGATTTGTTA
1 TAAGCATGTTA-ATTGCTACTGTATTGATTTATTA
* * *
45315085 TAAGCATGTT-ATTGCTA-TCGTATTAATCTGTTA
1 TAAGCATGTTAATTGCTACT-GTATTGATTTATTA
45315118 TAAGCATG
1 TAAGCATG
45315126 ACATGTTGCA
Statistics
Matches: 164, Mismatches: 38, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
32 1 0.01
33 30 0.18
34 127 0.77
35 6 0.04
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (34 bp):
TAAGCATGTTAATTGCTACTGTATTGATTTATTA
Found at i:45314982 original size:68 final size:68
Alignment explanation
Indices: 45314889--45315125 Score: 300
Period size: 68 Copynumber: 3.5 Consensus size: 68
45314879 GTTAAGCAAG
* *
45314889 TTTATTGCTA-CTGTATTGATTTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAA
1 TTTATTGCTATC-GTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAA
45314953 CATA
65 CATA
*
45314957 TTTATTGCTATCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTAGTGACTTGATATAAAC
1 TTTATTGCTATCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
45315022 ATA
66 ATA
* * * * * * * *
45315025 TTTATTGCTACCGTAATGATCTATTATAAGCATG-AATATTTCTATTGTATCGATTTGTTATAAG
1 TTTATTGCTATCGTAATGATCTATTATAAGCATGTTA-ATTGCTACTGTATTGACTTGATATAAA
45315089 CAT-
65 CATA
* * * *
45315092 GTTATTGCTATCGTATTAATCTGTTATAAGCATG
1 TTTATTGCTATCGTAATGATCTATTATAAGCATG
45315126 ACATGTTGCA
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
67 30 0.20
68 119 0.79
69 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (68 bp):
TTTATTGCTATCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
ATA
Found at i:45315211 original size:21 final size:22
Alignment explanation
Indices: 45315187--45315241 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
45315177 GTTTATCAGG
45315187 AACG-ACTAGTGGTTCATCCAC
1 AACGTACTAGTGGTTCATCCAC
*
45315208 AACGTATTTCAGTGGTTCATCCAC
1 AACGTA-CT-AGTGGTTCATCCAC
45315232 AACGTACTAG
1 AACGTACTAG
45315242 CAGCTTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 3 0.10
23 2 0.07
24 20 0.69
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (22 bp):
AACGTACTAGTGGTTCATCCAC
Found at i:45316845 original size:238 final size:238
Alignment explanation
Indices: 45316427--45316903 Score: 882
Period size: 238 Copynumber: 2.0 Consensus size: 238
45316417 CATGTCACAC
* *
45316427 TTGAATTTATTACTCGTTTCAACTTACATAATTTCCATGAATCAACATATCAAGATATTGATATA
1 TTGAATTTATTACTCATTTCAACTTACATAATTTCCATGAATCAACATATCAAGATATTGAAATA
*
45316492 TATATATACATTTCATGATACATATCATTCTTTTACTGTGTCTTCATATGCATATATCATCCAAG
66 TATATATACATTTCATGATACATATCATTCTTTTACTGTGTCTTCATATACATATATCATCCAAG
* *
45316557 ACAACTCCTTATAACTTACCATTCGAAGAGCGACTTACGGATATGAGTACATCTTTTTCAGAAGC
131 ACAACTCCTTATAACTTACCATTAGAAGAACGACTTACGGATATGAGTACATCTTTTTCAGAAGC
*
45316622 CTGAAGGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCA
196 CTGAAGGTTGAACAGAAACTCATGAGAGCTAAACAGAAACCCA
45316665 TTGAATTTATTACTCATTTCAACTTACATAATTTCCATGAATCAACATATCAAGATATTGAAATA
1 TTGAATTTATTACTCATTTCAACTTACATAATTTCCATGAATCAACATATCAAGATATTGAAATA
*
45316730 TATATATACATTTCATGATACATATCATTCTTTTACTGTTTCTTCATATACATATATCATCCAAG
66 TATATATACATTTCATGATACATATCATTCTTTTACTGTGTCTTCATATACATATATCATCCAAG
45316795 ACAACTCCTTATAACTTACCATTAGAAGAACGACTTACGGATATGAGTACATCTTTTTCAGAAGC
131 ACAACTCCTTATAACTTACCATTAGAAGAACGACTTACGGATATGAGTACATCTTTTTCAGAAGC
*
45316860 CTGAAGGTTGAACAGAAATTCATGAGAGCTAAACAGAAACCCA
196 CTGAAGGTTGAACAGAAACTCATGAGAGCTAAACAGAAACCCA
45316903 T
1 T
45316904 AAGGGTTGAA
Statistics
Matches: 231, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
238 231 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (238 bp):
TTGAATTTATTACTCATTTCAACTTACATAATTTCCATGAATCAACATATCAAGATATTGAAATA
TATATATACATTTCATGATACATATCATTCTTTTACTGTGTCTTCATATACATATATCATCCAAG
ACAACTCCTTATAACTTACCATTAGAAGAACGACTTACGGATATGAGTACATCTTTTTCAGAAGC
CTGAAGGTTGAACAGAAACTCATGAGAGCTAAACAGAAACCCA
Found at i:45316962 original size:42 final size:42
Alignment explanation
Indices: 45316884--45316963 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
45316874 GAAATTCATG
* * *
45316884 AGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTCGTA
1 AGAGCTAAACAGAAACCCAGAAGGGTTAAACAGAAGCTCGTA
* * * *
45316926 AGAGCTGAACGGAAACTCAGAAGGGTTAAATAGAAGCT
1 AGAGCTAAACAGAAACCCAGAAGGGTTAAACAGAAGCT
45316964 TAATAGAGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.28, T:0.15
Consensus pattern (42 bp):
AGAGCTAAACAGAAACCCAGAAGGGTTAAACAGAAGCTCGTA
Found at i:45320708 original size:15 final size:15
Alignment explanation
Indices: 45320685--45320714 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45320675 CTTTATTTAA
*
45320685 TTTAGTCCTAAAACC
1 TTTAATCCTAAAACC
45320700 TTTAATCCTAAAACC
1 TTTAATCCTAAAACC
45320715 CGAAATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (15 bp):
TTTAATCCTAAAACC
Found at i:45329224 original size:13 final size:13
Alignment explanation
Indices: 45329206--45329230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45329196 TGGCAAAAAG
45329206 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
45329219 AAAAAGAAAAGA
1 AAAAAGAAAAGA
45329231 TGGTAAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:45338801 original size:42 final size:43
Alignment explanation
Indices: 45338644--45338823 Score: 134
Period size: 43 Copynumber: 4.1 Consensus size: 43
45338634 TGGGCTATGA
* * * * * *
45338644 CATCGATATATGATACTTTGTGTAGGACCATATCTGGGATA-TGG
1 CATCGATATATG--AGTTCGTGTAAGACCATGTTTGGGACATTGG
* * * * *
45338688 CATCGATATATGTAATTACGTGTAAGACTATGTCTGGAACATTGA
1 CATCGATATATG-AGTT-CGTGTAAGACCATGTTTGGGACATTGG
* ** *
45338733 CATCGTTATGCGATTTCGTGTAAGACCATGTTTGGGACATTGG
1 CATCGATATATGAGTTCGTGTAAGACCATGTTTGGGACATTGG
*
45338776 CATCGATATATG-GTTCGTATAAGACCATAG-TTGGG-CTATTGG
1 CATCGATATATGAGTTCGTGTAAGACCAT-GTTTGGGAC-ATTGG
45338818 CATCGA
1 CATCGA
45338824 CATGTGATAA
Statistics
Matches: 111, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 30 0.27
43 37 0.33
44 32 0.29
45 11 0.10
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
CATCGATATATGAGTTCGTGTAAGACCATGTTTGGGACATTGG
Found at i:45343274 original size:16 final size:16
Alignment explanation
Indices: 45343253--45343283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45343243 ACGGACCGGT
*
45343253 TGAACCGAGCTATATA
1 TGAACCAAGCTATATA
45343269 TGAACCAAGCTATAT
1 TGAACCAAGCTATAT
45343284 TTTTTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (16 bp):
TGAACCAAGCTATATA
Found at i:45354250 original size:20 final size:21
Alignment explanation
Indices: 45354205--45354250 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
45354195 TCGGACACCC
*
45354205 AAAAAAAGATTTAAAATTATT
1 AAAAAAAGATTTAAAACTATT
*
45354226 TAAAAAA-ATTTCAAAACT-TT
1 AAAAAAAGATTT-AAAACTATT
45354246 AAAAA
1 AAAAA
45354251 TTAATTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAAAGATTTAAAACTATT
Found at i:45358763 original size:54 final size:54
Alignment explanation
Indices: 45358705--45358812 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
45358695 CTTGCACAGA
*
45358705 AAGATTGGTAAGTCCATTAGGAGGTGGTACGGAGTGCAGACAGGTTAGAAGCTG
1 AAGATTGGTAAGTCCATTAGGAGGTGGTACGGAGTACAGACAGGTTAGAAGCTG
*
45358759 AAGATTGGTAAGTCCATTAGGAGGTGGTACGGAGTACAGACAGGTTGGAAGCTG
1 AAGATTGGTAAGTCCATTAGGAGGTGGTACGGAGTACAGACAGGTTAGAAGCTG
45358813 CTGCAAGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.11, G:0.37, T:0.22
Consensus pattern (54 bp):
AAGATTGGTAAGTCCATTAGGAGGTGGTACGGAGTACAGACAGGTTAGAAGCTG
Found at i:45359103 original size:7 final size:7
Alignment explanation
Indices: 45359093--45359124 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45359083 ATAATTTAAT
*
45359093 TTTAGGG
1 TTTAGGA
45359100 TTTAGGA
1 TTTAGGA
45359107 TTTAGGA
1 TTTAGGA
45359114 TTTAGGA
1 TTTAGGA
45359121 TTTA
1 TTTA
45359125 ATAATTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (7 bp):
TTTAGGA
Found at i:45359152 original size:14 final size:14
Alignment explanation
Indices: 45359100--45359160 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
45359090 AATTTTAGGG
**
45359100 TTTAGGATTTAGGA
1 TTTAGGATTTAATA
45359114 TTTAGGATTTAATA
1 TTTAGGATTTAATA
* *
45359128 ATTAAGATTTAATA
1 TTTAGGATTTAATA
* *
45359142 TTTAGGGTTTAAAA
1 TTTAGGATTTAATA
45359156 TTTAG
1 TTTAG
45359161 CCTTAATATG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
TTTAGGATTTAATA
Found at i:45359460 original size:16 final size:18
Alignment explanation
Indices: 45359428--45359467 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
45359418 ATTTTATCCC
45359428 TAAATATATATTAAAATT
1 TAAATATATATTAAAATT
45359446 TAAA-ATATA-TAAAATT
1 TAAATATATATTAAAATT
45359462 TAAATA
1 TAAATA
45359468 AATTCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATATATATTAAAATT
Found at i:45361413 original size:3 final size:3
Alignment explanation
Indices: 45361405--45361453 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
45361395 TCTGTATCTT
* *
45361405 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45361453 T
1 T
45361454 GTCACGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:45361835 original size:14 final size:14
Alignment explanation
Indices: 45361816--45361849 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
45361806 AACTATCGGA
45361816 GTTTAAAAACAATT
1 GTTTAAAAACAATT
45361830 GTTT-AAAACAATT
1 GTTTAAAAACAATT
45361843 GCTTTAA
1 G-TTTAA
45361850 TTTCTGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 7 0.39
15 1 0.06
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (14 bp):
GTTTAAAAACAATT
Found at i:45362889 original size:34 final size:33
Alignment explanation
Indices: 45362779--45363023 Score: 183
Period size: 34 Copynumber: 7.2 Consensus size: 33
45362769 TGCAACATGT
* *
45362779 CATGCTTATAACAGATTAATAC-GATAGCAAT-AA
1 CATGCTTATAATA-ATCAATACAG-TAGCAATAAA
* * * * **
45362812 CATGCTTATAACAAATCGATACAATAGAAATATT
1 CATGCTTATAA-TAATCAATACAGTAGCAATAAA
* *
45362846 CATGCTTATAATAGATCATTACGGTAGCAATAAA
1 CATGCTTATAATA-ATCAATACAGTAGCAATAAA
* * * *
45362880 TATGTTTAT-ATCAAGTCACTACAGTAGCAATTAA
1 CATGCTTATAAT-AA-TCAATACAGTAGCAATAAA
* **
45362914 CATGCTTATAATAGATCATTATGGTAGCAATAAA
1 CATGCTTATAATA-ATCAATACAGTAGCAATAAA
* * *
45362948 TATGTTTAT-ATCAAGTCAATACAGTAGCAATTAA
1 CATGCTTATAAT-AA-TCAATACAGTAGCAATAAA
45362982 CATGCTTATAATAAATCAATACAGTAGCAATAAA
1 CATGCTTATAAT-AATCAATACAGTAGCAATAAA
*
45363016 CTTGCTTA
1 CATGCTTA
45363024 ACATGTATTT
Statistics
Matches: 164, Mismatches: 37, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
33 30 0.18
34 127 0.77
35 7 0.04
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (33 bp):
CATGCTTATAATAATCAATACAGTAGCAATAAA
Found at i:45362923 original size:68 final size:68
Alignment explanation
Indices: 45362779--45363015 Score: 298
Period size: 68 Copynumber: 3.5 Consensus size: 68
45362769 TGCAACATGT
* * * * * * * * * * *
45362779 CATGCTTATAACAGATTAATACGATAGCAAT-AACATGCTTATAACAAATCGATACAATAG-AAA
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
*
45362842 TATT
66 TA-A
*
45362846 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCACTACAGTAGCAAT
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
45362911 TAA
66 TAA
*
45362914 CATGCTTATAATAGATCATTATGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
45362979 TAA
66 TAA
* * *
45362982 CATGCTTATAATAAATCAATACAGTAGCAATAAA
1 CATGCTTATAATAGATCATTACGGTAGCAATAAA
45363016 CTTGCTTAAC
Statistics
Matches: 149, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
67 27 0.18
68 118 0.79
69 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (68 bp):
CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
TAA
Found at i:45364302 original size:17 final size:17
Alignment explanation
Indices: 45364277--45364311 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45364267 TGGGTAATTT
* *
45364277 TCGGTTAATTCGGTTAA
1 TCGGGTAATTCGGGTAA
45364294 TCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAA
45364311 T
1 T
45364312 TTTTAACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (17 bp):
TCGGGTAATTCGGGTAA
Found at i:45366429 original size:22 final size:21
Alignment explanation
Indices: 45366395--45366435 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
45366385 TGACAATTTT
*
45366395 TAAAAAGAGTAATTATAAAATA
1 TAAAAAGAATAA-TATAAAATA
*
45366417 TAAAAATAATAATATAAAA
1 TAAAAAGAATAATATAAAA
45366436 CAGCATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAGAATAATATAAAATA
Found at i:45369855 original size:16 final size:16
Alignment explanation
Indices: 45369834--45369869 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45369824 TTTGGACTGA
45369834 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
45369850 ATTGAATAGATTGAAT
1 ATTGAATAGAATGAAT
45369866 -TTGA
1 ATTGA
45369870 TTATTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:45370117 original size:9 final size:9
Alignment explanation
Indices: 45370100--45370136 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45370090 TGAGTTTTCG
45370100 AATTCGAAT
1 AATTCGAAT
*
45370109 AACTCGAAT
1 AATTCGAAT
45370118 AATTCGAAT
1 AATTCGAAT
45370127 AATTCGAAT
1 AATTCGAAT
45370136 A
1 A
45370137 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45376402 original size:38 final size:38
Alignment explanation
Indices: 45376320--45376404 Score: 154
Period size: 38 Copynumber: 2.2 Consensus size: 38
45376310 CATGTATTCA
45376320 AATATA-AGTATAATATTATTGGTCTTCAAAAATAATAT
1 AATATAGA-TATAATATTATTGGTCTTCAAAAATAATAT
45376358 AATATAGATATAATATTATTGGTCTTCAAAAATAATAT
1 AATATAGATATAATATTATTGGTCTTCAAAAATAATAT
45376396 AATATAGAT
1 AATATAGAT
45376405 TAACATAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 45 0.98
39 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (38 bp):
AATATAGATATAATATTATTGGTCTTCAAAAATAATAT
Found at i:45376523 original size:13 final size:14
Alignment explanation
Indices: 45376494--45376526 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45376484 AATGGGACTG
45376494 ATTAAAACAATTCA
1 ATTAAAACAATTCA
*
45376508 ATTAAAA-AATTTA
1 ATTAAAACAATTCA
45376521 ATTAAA
1 ATTAAA
45376527 TATTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTAAAACAATTCA
Found at i:45376592 original size:16 final size:17
Alignment explanation
Indices: 45376571--45376619 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
45376561 ATTAAAAAAT
45376571 TATTAAAAATTTATA-A
1 TATTAAAAATTTATAGA
*
45376587 TATTAAAAATATTAAAAGA
1 TATTAAAAAT-TT-ATAGA
*
45376606 TAATAAAAATTTAT
1 TATTAAAAATTTAT
45376620 TTAAATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.37
17 3 0.11
18 4 0.15
19 10 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TATTAAAAATTTATAGA
Found at i:45376597 original size:9 final size:9
Alignment explanation
Indices: 45376565--45376615 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
45376555 AATTCAATTA
45376565 AAAAATTATT
1 AAAAA-TATT
45376575 AAAAAT-TT
1 AAAAATATT
*
45376583 -ATAATATT
1 AAAAATATT
45376591 AAAAATATT
1 AAAAATATT
*
45376600 AAAAGATAAT
1 AAAA-ATATT
45376610 AAAAAT
1 AAAAAT
45376616 TTATTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 4 0.11
8 4 0.11
9 14 0.40
10 13 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:45381346 original size:5 final size:5
Alignment explanation
Indices: 45381329--45381403 Score: 80
Period size: 5 Copynumber: 15.0 Consensus size: 5
45381319 TTCTATACAA
* * * *
45381329 ATCAT ATCTT ATCAT ATCAT GA-CAT ATCAT GTCAT GTCAT ATCAA ATCAT
1 ATCAT ATCAT ATCAT ATCAT -ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT
* *
45381379 AGCAT ATCAT ATCAT ATCAA ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
45381404 TTCCTACCCC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
4 1 0.02
5 56 0.97
6 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (5 bp):
ATCAT
Found at i:45381653 original size:14 final size:14
Alignment explanation
Indices: 45381626--45381661 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
45381616 AAACACATGC
45381626 ATATCATA-ATCAT
1 ATATCATACATCAT
45381639 ATATCATACATCAT
1 ATATCATACATCAT
*
45381653 ACATCATAC
1 ATATCATAC
45381662 TTATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATCATACATCAT
Found at i:45383591 original size:29 final size:30
Alignment explanation
Indices: 45383530--45383610 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
45383520 ATTGGACTTG
*
45383530 AATTTTAAAATATAAAAAGTAGAGAGACTA
1 AATTTTAAAATATAAAAAGTAGAAAGACTA
* *
45383560 AATTTCTAAAA-ATAAAAA-TATAAAGATTA
1 AATTT-TAAAATATAAAAAGTAGAAAGACTA
*
45383589 AATTTTAAAATGTTAAAAAGTA
1 AATTTTAAAAT-ATAAAAAGTA
45383611 TAGGGACTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 5 0.12
29 13 0.30
30 18 0.42
31 7 0.16
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (30 bp):
AATTTTAAAATATAAAAAGTAGAAAGACTA
Found at i:45384781 original size:25 final size:25
Alignment explanation
Indices: 45384747--45384797 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45384737 TTAAAATTTT
*
45384747 ACCGGGCCCCGAAAAACTTAGTCCC
1 ACCGGGCCCCAAAAAACTTAGTCCC
45384772 ACCGGGCCCCAAAAAACTTAGTCCC
1 ACCGGGCCCCAAAAAACTTAGTCCC
45384797 A
1 A
45384798 AGATCTACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.39, G:0.18, T:0.12
Consensus pattern (25 bp):
ACCGGGCCCCAAAAAACTTAGTCCC
Found at i:45385155 original size:5 final size:5
Alignment explanation
Indices: 45385139--45385193 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
45385129 AGTGAGACTT
* * *
45385139 TTAAA TTAAAA TTAAA TTAAA --AAA -CAAA TCAAA TCAAA TTAAA TTAAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
45385187 TTAAA TT
1 TTAAA TT
45385194 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
3 3 0.07
4 3 0.07
5 35 0.76
6 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (5 bp):
TTAAA
Found at i:45390880 original size:3 final size:3
Alignment explanation
Indices: 45390872--45390896 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45390862 CTCACAGAAG
45390872 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
45390897 GTTGTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:45390915 original size:15 final size:15
Alignment explanation
Indices: 45390897--45390926 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45390887 GATGATGATG
45390897 GTTGTTATTGTTATT
1 GTTGTTATTGTTATT
45390912 GTTGTTATTGTTATT
1 GTTGTTATTGTTATT
45390927 ATTTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (15 bp):
GTTGTTATTGTTATT
Found at i:45390928 original size:3 final size:3
Alignment explanation
Indices: 45390901--45390966 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
45390891 ATGATGGTTG
* * * * * *
45390901 TTA TTG TTA TTG TTG TTA TTG TTA TTA TTT TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45390949 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
45390967 CCTGAACATG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45395965 original size:12 final size:12
Alignment explanation
Indices: 45395948--45395976 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45395938 GATCAAAGTA
45395948 AAGGAAATGAAG
1 AAGGAAATGAAG
45395960 AAGGAAATGAAG
1 AAGGAAATGAAG
45395972 AAGGA
1 AAGGA
45395977 CGATTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (12 bp):
AAGGAAATGAAG
Found at i:45404516 original size:51 final size:52
Alignment explanation
Indices: 45404383--45404522 Score: 178
Period size: 51 Copynumber: 2.7 Consensus size: 52
45404373 GATGAACATG
* * *
45404383 TGTGTAGTACTGTGTGAAGGCTACTACATGAATC-AATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAAATGATGGTCACA
* * * * *
45404434 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAA-AAGCT-TTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAA-ATGATGGTCACA
45404485 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT
45404523 GATAAAAGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 73 0.96
52 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (52 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAAATGATGGTCACA
Found at i:45404543 original size:51 final size:50
Alignment explanation
Indices: 45404377--45404553 Score: 140
Period size: 51 Copynumber: 3.4 Consensus size: 50
45404367 GGTATCGATG
* * * *
45404377 AACATGTGTGTAGTACTGTGTGAAGGCTACTACATGAATC-AATAAATGATGGT
1 AACATG-G-GTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-GAT-ATGGT
* * * * * * *
45404430 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
1 AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCG-AATGATATGGT
* * * **
45404481 CACTTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAAAGT
1 AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGAT-ATGGT
*
45404532 AACATGGGTAGTACTGTGTGAA
1 AACATGGGTAGTACTATGTGAA
45404554 AAACCCCAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
50 4 0.04
51 86 0.88
52 1 0.01
53 7 0.07
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (50 bp):
AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATATGGT
Found at i:45404781 original size:37 final size:38
Alignment explanation
Indices: 45404712--45404784 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
45404702 ATGTGTGGAA
** **
45404712 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGAGACTTGAAAATGAAAAAGTGAATT
*
45404750 TTGAATTGAATAGAGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGAGACTTGAAAATGAAAAAGTGAA
45404785 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (38 bp):
TTGAATTGAATAGAGACTTGAAAATGAAAAAGTGAATT
Found at i:45407047 original size:42 final size:42
Alignment explanation
Indices: 45406988--45407071 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
45406978 ACGAGTTAGA
45406988 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
45407030 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
45407072 TCAATCTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (42 bp):
ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
Found at i:45414281 original size:25 final size:25
Alignment explanation
Indices: 45414252--45414316 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
45414242 GACATACCAT
45414252 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
45414277 AGCTCGCATGAGCTTCCTGTTATTT
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
45414302 TGCTCGTATGAGCTT
1 AGCTCGCATGAGCTT
45414317 ACTAATTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGTTATTC
Found at i:45416432 original size:15 final size:15
Alignment explanation
Indices: 45416412--45416442 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45416402 AGTATGCATA
45416412 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
45416427 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
45416442 T
1 T
45416443 GAGCATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TCAATAAATTAAGTC
Found at i:45417049 original size:20 final size:18
Alignment explanation
Indices: 45417002--45417050 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
45416992 CAAGATAAAC
45417002 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45417019 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
45417039 ATTAAATTAATA
1 ATTAAATTAATA
45417051 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45419046 original size:12 final size:12
Alignment explanation
Indices: 45419029--45419055 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45419019 TTCGTGAATT
45419029 AAAAAAAAAGAG
1 AAAAAAAAAGAG
45419041 AAAAAAAAAGAG
1 AAAAAAAAAGAG
45419053 AAA
1 AAA
45419056 GTGTTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:45421148 original size:19 final size:19
Alignment explanation
Indices: 45421104--45421148 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
45421094 ATGAAAACTC
45421104 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATGAGA
*
45421124 AGAAGAAAGAAAAATTGA-A
1 AAAAGAAAGAAAAA-TGAGA
45421143 AAAAGA
1 AAAAGA
45421149 GAGTGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAGA
Found at i:45428589 original size:171 final size:171
Alignment explanation
Indices: 45428299--45428616 Score: 503
Period size: 171 Copynumber: 1.9 Consensus size: 171
45428289 GAATACCACC
*
45428299 TTTTTTCCTTTATATGCTTATAAACACAAGGTTCATCAACGTTTGGCTCAAATCCAAAAGTCTCG
1 TTTTGTCCTTTATATGCTTATAAACACAAGGTTCATCAACGTTTGGCTCAAATCCAAAAGTCTCG
* * *
45428364 AGTGTTTGATCAATTTTTTTATTCAATGAGCGAGACGCCTGCTTAAGTCCATAAATGGATCTTAG
66 AGTGTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTAG
45428429 CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAAAAA
131 CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAAAAA
* * * * * *
45428470 TTTTGTCCTTTATATGCTTATAAACACAAGGTTCATCAATGTTTTGTTCATATCTAAAAGTCTTG
1 TTTTGTCCTTTATATGCTTATAAACACAAGGTTCATCAACGTTTGGCTCAAATCCAAAAGTCTCG
* * *
45428535 A-TCGTTTGATCAAATCTTTTATTCCATGAGCGTGATGCCTGCTTAAGACCATAAATGGATCTTA
66 AGT-GTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTA
45428599 GCAGTTTGCAAACTTTCT
130 GCAGTTTGCAAACTTTCT
45428617 GCACTTTTCC
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 1 0.01
171 132 0.99
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (171 bp):
TTTTGTCCTTTATATGCTTATAAACACAAGGTTCATCAACGTTTGGCTCAAATCCAAAAGTCTCG
AGTGTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTAG
CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAAAAA
Found at i:45428890 original size:15 final size:15
Alignment explanation
Indices: 45428870--45428898 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45428860 TCCTTTCCTC
45428870 ATGGGTTTAATCCCT
1 ATGGGTTTAATCCCT
45428885 ATGGGTTTAATCCC
1 ATGGGTTTAATCCC
45428899 AATCGATAAG
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:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (15 bp):
ATGGGTTTAATCCCT
Found at i:45431765 original size:57 final size:57
Alignment explanation
Indices: 45431677--45431792 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
45431667 TTGAGTGTAT
45431677 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
1 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
45431734 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
1 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
45431791 AA
1 AA
45431793 TCTCTCTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (57 bp):
AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
Found at i:45433346 original size:39 final size:39
Alignment explanation
Indices: 45433292--45433371 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
45433282 CAACTTTCTA
45433292 TTGAATTCAAGTGTATGTAAATAATGACCCA-AGACTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAGAG-CTCTC
*
45433331 TTGAATTCCAGTGTATGTAAATAATGACCCAGAGCTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAGAGCTCTC
45433370 TT
1 TT
45433372 TATATAGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (39 bp):
TTGAATTCAAGTGTATGTAAATAATGACCCAGAGCTCTC
Found at i:45433530 original size:62 final size:59
Alignment explanation
Indices: 45433424--45433540 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
45433414 ATCACTTTAA
* * *
45433424 TATTAAATTAATATAATATTTACCAAGATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAAATAATATAATATTTACCAAGATAAACATTAAATTAAATTTAATATTAAATTT
*
45433483 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA-C--CAAGATAAACATTAAATTAAATTTAATATTAA
45433541 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
60 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATATAATATTTACCAAGATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:45433566 original size:20 final size:18
Alignment explanation
Indices: 45433519--45433625 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 18
45433509 CAAGATAAAC
45433519 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45433536 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
45433556 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
45433575 ATTTAGATAAATA-TTAA-
1 A-TTAAATTAATATTTAAT
*
45433592 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
45433612 ATTAAAATAATATT
1 ATTAAATTAATATT
45433626 ATTTCTGGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
16 4 0.06
17 14 0.21
18 6 0.09
19 14 0.21
20 30 0.44
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45433613 original size:37 final size:37
Alignment explanation
Indices: 45433511--45433614 Score: 89
Period size: 37 Copynumber: 3.0 Consensus size: 37
45433501 TTTATCTACA
* *
45433511 AGATAAACATTAAATTAAATTTAATATT-AA-GA--T
1 AGATAAATATTAAATTAAATTTAATATTAAACTATTT
* * *
45433544 A-ATCACT-TTAATATTAAA-TTAATA-AAATACTATTT
1 AGATAAATATTAA-ATTAAATTTAATATTAA-ACTATTT
45433579 AGATAAATATTAAATTAAATTTAATATTAAACTATT
1 AGATAAATATTAAATTAAATTTAATATTAAACTATT
45433615 AAAATAATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
31 11 0.21
32 10 0.19
33 2 0.04
35 2 0.04
36 10 0.19
37 16 0.30
38 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (37 bp):
AGATAAATATTAAATTAAATTTAATATTAAACTATTT
Found at i:45442364 original size:19 final size:18
Alignment explanation
Indices: 45442338--45442381 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45442328 ATGCTTTAGG
*
45442338 TTAATTAATTATA-TTTAA
1 TTAATTAAGTA-AGTTTAA
45442356 TTAAGTTAAGTAAGTTTAA
1 TTAA-TTAAGTAAGTTTAA
45442375 TTAATTA
1 TTAATTA
45442382 TTTATCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TTAATTAAGTAAGTTTAA
Found at i:45445535 original size:22 final size:23
Alignment explanation
Indices: 45445484--45445536 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
45445474 TTTTTATACA
* *
45445484 ATTATAATTATAATTTTAGTTAT
1 ATTATAATTAAAATTTTAATTAT
*
45445507 ATT-TAATTAAAATTTTAATTGT
1 ATTATAATTAAAATTTTAATTAT
45445529 -TTATAATT
1 ATTATAATT
45445537 CAGTACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTATAATTAAAATTTTAATTAT
Found at i:45448097 original size:17 final size:18
Alignment explanation
Indices: 45448075--45448109 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45448065 TTTTTTATAA
*
45448075 TATTTTTTAATA-ACTTT
1 TATTTTATAATAGACTTT
45448092 TATTTTATAATAGACTTT
1 TATTTTATAATAGACTTT
45448110 CAAAAGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTTTATAATAGACTTT
Found at i:45455812 original size:40 final size:39
Alignment explanation
Indices: 45455728--45455912 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
45455718 TCGAATGATG
* * *
45455728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
45455768 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
45455808 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
45455847 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
45455888 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
45455913 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 37 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45455864 original size:79 final size:81
Alignment explanation
Indices: 45455728--45455912 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
45455718 TCGAATGATG
*
45455728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
45455792 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
45455807 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
45455869 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
45455887 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45455913 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:45455934 original size:79 final size:77
Alignment explanation
Indices: 45455729--45455945 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
45455719 CGAATGATGT
** * * *
45455729 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
45455793 GTGCGAGATACTAATT
62 GTGCGAGATACTAATA
** *
45455809 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGT-CCGAAGGCATTTGT
*
45455874 GCGAGTTACT-ATAA
64 GCGAGATACTAAT-A
* * *
45455888 CCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTT-AAGTCCGAAGG
45455946 TACGTGATTT
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 69 0.58
80 46 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGTCCGAAGGCATTTGTGC
GAGATACTAATA
Found at i:45463802 original size:39 final size:39
Alignment explanation
Indices: 45463702--45463885 Score: 180
Period size: 39 Copynumber: 4.7 Consensus size: 39
45463692 TCGAATGATG
* * * *
45463702 TCCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTAATA-A
* *
45463742 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAATAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTAATAA
* *
45463781 TTCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAAT-AA
*
45463821 TCCGGGTTAAGTCCCGAAGGCATTTGT-CGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--ATAA
*
45463861 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45463886 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
39 62 0.51
40 50 0.41
41 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATAA
Found at i:45463838 original size:79 final size:79
Alignment explanation
Indices: 45463703--45463885 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 79
45463693 CGAATGATGT
* *
45463703 CCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
45463767 GTGCGAGATA-ATAA
66 GT-CGAGATACATAA
* * * **
45463781 TTCTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
45463843 TTTGTCGAGTTACTATAA
63 TTTGTCGAGATAC-ATAA
*
45463861 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45463886 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 15 0.17
79 53 0.60
80 20 0.23
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTCGAGATACATAA
Found at i:45471955 original size:44 final size:44
Alignment explanation
Indices: 45471834--45472122 Score: 145
Period size: 44 Copynumber: 6.3 Consensus size: 44
45471824 TCCCTAAGCA
* *** * *
45471834 ACAGCGGAGCAGATCGAAGCCAGAAACCTTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAAATAAAAATCTTATCTCCCTGAGATT
** ** *
45471878 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAAATAAAAATCTTATCTCCCTGAGATT
* * * * *
45471922 ATAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCT-AAAGTT
1 ACAGCGGAGCAGATTGAAAATAAAA-ATCTTATCTCCCTGAGA-TT
* ** *
45471966 ACAGTGGAGTAGATCGCATCAGATTGAAACCAAAAATCTTATCTCCCTGATATT
1 ACA---GCG--GA--G---CAGATTGAAAATAAAAATCTTATCTCCCTGAGATT
** ** *
45472020 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAAATAAAAATCTTATCTCCCTGAGATT
* * * * *
45472064 ACAGTGGAACGGATT-AAAATAAAGGATCTTATCTCTCTGA-AGTT
1 ACAGCGGAGCAGATTGAAAATAAA-AATCTTATCTCCCTGAGA-TT
*
45472108 ACAGCGGAGTAGATT
1 ACAGCGGAGCAGATT
45472123 ACATCAGATT
Statistics
Matches: 186, Mismatches: 43, Indels: 32
0.71 0.16 0.12
Matches are distributed among these distances:
43 12 0.06
44 133 0.72
47 3 0.02
49 4 0.02
51 3 0.02
54 22 0.12
55 9 0.05
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
ACAGCGGAGCAGATTGAAAATAAAAATCTTATCTCCCTGAGATT
Found at i:45472099 original size:142 final size:142
Alignment explanation
Indices: 45471843--45472170 Score: 512
Period size: 142 Copynumber: 2.3 Consensus size: 142
45471833 AACAGCGGAG
* *
45471843 CAGATCGAAGCCAGAAACCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
45471908 ATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTGG
66 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
*
45471973 AGTAGATCGCAT
131 AGTAGATCACAT
* * *
45471985 CAGATTGAAACCAAAAATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
45472050 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGG
66 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
*
45472115 AGTAGATTACAT
131 AGTAGATCACAT
* * * *
45472127 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
45472171 TGGATTAAAA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
142 167 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
AGTAGATCACAT
Found at i:45472123 original size:44 final size:44
Alignment explanation
Indices: 45472075--45472392 Score: 153
Period size: 44 Copynumber: 6.8 Consensus size: 44
45472065 CAGTGGAACG
45472075 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTA
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTA
* * * * *
45472119 GATTACATCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTG
1 GATTA-A--A-A-T-AA---AG-GATCTTATCTCTCTGAAG-TTACAGCGGAGTA
*
45472173 GATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGCGGAGTA
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTA
* * * * * *
45472217 GATCGTATCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCA
1 GAT--TA--A-AAT-AA---AG-GATCTTATCTCTCTGAAG-TTACAGCGGAGTA
* * *
45472271 GATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAACGGAGCA
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTA
** * * **
45472315 GATTGAAGCT--AGTAATCCTATCTC-CTTG-AGATTACAAAGGAGTA
1 GATT-AAAATAAAG-GATCTTATCTCTC-TGAAG-TTACAGCGGAGTA
* *
45472359 GATTAAGATAAAGGATTTTATCTCTCTGAAGTTA
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
45472393 TAGTAGAGTA
Statistics
Matches: 208, Mismatches: 34, Indels: 64
0.68 0.11 0.21
Matches are distributed among these distances:
43 9 0.04
44 96 0.46
45 17 0.08
46 2 0.01
47 1 0.00
48 6 0.03
49 6 0.03
50 6 0.03
51 1 0.00
52 2 0.01
53 9 0.04
54 53 0.25
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (44 bp):
GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTA
Found at i:45472142 original size:98 final size:95
Alignment explanation
Indices: 45472029--45472392 Score: 508
Period size: 98 Copynumber: 3.8 Consensus size: 95
45472019 TACAGCGGAG
* *
45472029 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
45472094 ATCTCTCTGAAGTTACAGCGGAGTAGATTACAT
66 ATCTCTCTGAAGTTACAGCGGAGTAGA-T--AT
** *
45472127 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
45472192 ATCTCTCTGAAGTTACAGCGGAGTAGATCGTAT
66 ATCTCTCTGAAGTTACAGCGGAGTAGA---TAT
*
45472225 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
45472290 ATCTCTCTGAAGTTACAAC-G-G-AG----
66 ATCTCTCTGAAGTTACAGCGGAGTAGATAT
* ** * * *
45472313 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAAAGGAGTAGATTAAGATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
45472378 ATCTCTCTGAAGTTA
66 ATCTCTCTGAAGTTA
45472393 TAGTAGAGTA
Statistics
Matches: 248, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
88 73 0.29
95 2 0.01
96 1 0.00
97 1 0.00
98 170 0.69
100 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (95 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGCGGAGTAGATAT
Found at i:45472334 original size:88 final size:88
Alignment explanation
Indices: 45472225--45472392 Score: 275
Period size: 88 Copynumber: 1.9 Consensus size: 88
45472215 TAGATCGTAT
**
45472225 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA-AGTAAAGGATCT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAAAGGAGCAGATTAAGA-TAAAGGATCT
45472289 TATCTCTCTGAAGTTACAACGGAG
65 TATCTCTCTGAAGTTACAACGGAG
* * *
45472313 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAAAGGAGTAGATTAAGATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAAAGGAGCAGATTAAGATAAAGGATCTT
45472378 ATCTCTCTGAAGTTA
66 ATCTCTCTGAAGTTA
45472393 TAGTAGAGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
88 73 0.99
89 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (88 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAAAGGAGCAGATTAAGATAAAGGATCTT
ATCTCTCTGAAGTTACAACGGAG
Found at i:45472359 original size:240 final size:239
Alignment explanation
Indices: 45471887--45472363 Score: 588
Period size: 240 Copynumber: 2.0 Consensus size: 239
45471877 TACAGCGGAG
*
45471887 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAAGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
* * *
45471952 ATCTCTCTAAAGTTACAGTGGAGTAGATCGCATCAGATTGAAACCAAAAATCTTATCTCCCTGAT
66 ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAATCCTATCTCCCTGAG
* ** *
45472017 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAA
131 ATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAACGGAACAGATTAAA
* * **
45472082 ATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATTACAT
196 AT-AAGAATCCTATCTCTCTGAAGTTACAAAGGAGTAGATTACAT
* * *
45472127 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
* * * * **
45472192 ATCTCTCTGAAGTTACAGCGGAGTAGATCGTATCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
66 ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAATCCTATCTCCCTGAG
* * * * *
45472257 ATTACAGTGGAGCAGATTAAAG-TAAAG-GATCTTATCTCTCTGA-AGTTACAACGGAGCAGATT
131 ATTACAGCGGAGCAGATTAAAGCT--AGTAATCCTATCTCCCTGAGA-TTACAACGGAACAGATT
**
45472319 GAAGCT-AGTAATCCTATCTC-CTTG-AGATTACAAAGGAGTAGATTA
193 -AAAATAAG-AATCCTATCTCTC-TGAAG-TTACAAAGGAGTAGATTA
45472364 AGATAAAGGA
Statistics
Matches: 202, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
239 7 0.03
240 190 0.94
241 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (239 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAATCCTATCTCCCTGAG
ATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAACGGAACAGATTAAA
ATAAGAATCCTATCTCTCTGAAGTTACAAAGGAGTAGATTACAT
Found at i:45474006 original size:25 final size:28
Alignment explanation
Indices: 45473966--45474024 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
45473956 TAATATTAAT
45473966 TTATTATTATTTGTT-ATTTTC-ATTA-
1 TTATTATTATTTGTTAATTTTCGATTAC
45473991 TTATTA-TATTTGGTTACATTTTCGATTAC
1 TTATTATTATTT-GTTA-ATTTTCGATTAC
45474020 TTATT
1 TTATT
45474025 CTTAAATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.17
25 9 0.31
27 6 0.21
28 4 0.14
29 5 0.17
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.63
Consensus pattern (28 bp):
TTATTATTATTTGTTAATTTTCGATTAC
Found at i:45474103 original size:17 final size:18
Alignment explanation
Indices: 45474081--45474115 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45474071 TTTTTTATAA
*
45474081 TATTTTTTAATA-ACTTT
1 TATTTTATAATAGACTTT
45474098 TATTTTATAATAGACTTT
1 TATTTTATAATAGACTTT
45474116 CAAAAGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTTTATAATAGACTTT
Found at i:45476347 original size:22 final size:22
Alignment explanation
Indices: 45476304--45476346 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45476294 TAAAATGCAG
**
45476304 GTACCGATATTTTGGGAAAAAT
1 GTACCGATATTTTAAGAAAAAT
45476326 GTACCGATATTTGTAAGAAAA
1 GTACCGATATTT-TAAGAAAA
45476347 TCGGTACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (22 bp):
GTACCGATATTTTAAGAAAAAT
Found at i:45478088 original size:18 final size:18
Alignment explanation
Indices: 45478046--45478088 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45478036 GCCCATTCCG
*
45478046 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
45478064 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
45478082 AAGTATG
1 AAGTATG
45478089 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:45478593 original size:28 final size:28
Alignment explanation
Indices: 45478556--45478709 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
45478546 TAAATTGTAC
*
45478556 AGCACTAAGTGTGCAAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
45478584 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
45478612 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
45478640 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45478668 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45478695 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45478710 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:45480485 original size:43 final size:43
Alignment explanation
Indices: 45480424--45480507 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
45480414 AATATAAGAA
45480424 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
1 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
* *
45480467 AGGCATACACTTGGAACATAGGATAGGGGTTTAGGTTATTC
1 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTC
45480508 CTAAGCTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (43 bp):
AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
Found at i:45484844 original size:18 final size:19
Alignment explanation
Indices: 45484810--45484845 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45484800 AATTTGGATT
*
45484810 AATTTAATAGTTTTAATTA
1 AATTTAATAGTTATAATTA
45484829 AATTTAAT-GTTATAATT
1 AATTTAATAGTTATAATT
45484846 TGTGTGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
AATTTAATAGTTATAATTA
Found at i:45487339 original size:21 final size:22
Alignment explanation
Indices: 45487286--45487341 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
45487276 GTGTCATAGT
* *
45487286 CACACGGTCGTGTGCCTACTTT
1 CACACGGGCGTGTGCCTACTTC
45487308 CACACGGGCGTGTGCCT-CTTC
1 CACACGGGCGTGTGCCTACTTC
* *
45487329 CATATGGGCGTGT
1 CACACGGGCGTGT
45487342 TGACCCCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.12, C:0.30, G:0.29, T:0.29
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTACTTC
Found at i:45490855 original size:24 final size:22
Alignment explanation
Indices: 45490819--45490863 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45490809 ACGAGCTGTC
45490819 CACACGGCTATGTGTGCCTCCTTT
1 CACACGGCTA--TGTGCCTCCTTT
45490843 CACACGAGC-ATGTGCCTCCTT
1 CACACG-GCTATGTGCCTCCTT
45490864 CATATGTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
24 7 0.35
25 2 0.10
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.29
Consensus pattern (22 bp):
CACACGGCTATGTGCCTCCTTT
Found at i:45491655 original size:12 final size:11
Alignment explanation
Indices: 45491647--45491677 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45491637 GCTTCTTACA
45491647 TTTTCTCTTAG
1 TTTTCTCTTAG
*
45491658 TTTTCCCTTAG
1 TTTTCTCTTAG
45491669 TTTTCTCTT
1 TTTTCTCTT
45491678 TCAGGTACTC
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:0.06, C:0.23, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTCTCTTAG
Found at i:45494440 original size:25 final size:25
Alignment explanation
Indices: 45494412--45494465 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
45494402 TGCTTACTCA
*
45494412 AGCTATAGATCAATATGCTCTCACG
1 AGCTATAAATCAATATGCTCTCACG
** *
45494437 AGCTATAAATCGGTATGCTCTTACG
1 AGCTATAAATCAATATGCTCTCACG
45494462 AGCT
1 AGCT
45494466 GTGGGTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
AGCTATAAATCAATATGCTCTCACG
Found at i:45496715 original size:16 final size:16
Alignment explanation
Indices: 45496694--45496736 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
45496684 CTGAGTTTAG
45496694 TTTTGTTTGATGGAAT
1 TTTTGTTTGATGGAAT
* *
45496710 TTTTGTTT-TTTGAAT
1 TTTTGTTTGATGGAAT
45496725 TTTTGGTTTGAT
1 TTTT-GTTTGAT
45496737 TTGTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 9 0.41
16 12 0.55
17 1 0.05
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.65
Consensus pattern (16 bp):
TTTTGTTTGATGGAAT
Found at i:45501203 original size:18 final size:19
Alignment explanation
Indices: 45501180--45501218 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
45501170 ATTAATTTTG
45501180 ATCAAGTAAATT-AAATTA
1 ATCAAGTAAATTAAAATTA
*
45501198 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
45501217 AT
1 AT
45501219 ATCATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:45503903 original size:45 final size:44
Alignment explanation
Indices: 45503805--45504104 Score: 170
Period size: 45 Copynumber: 6.7 Consensus size: 44
45503795 AGGAAATGAT
* *
45503805 TAAGACCATAGTTGAAAGACACTATGTCACTATACCG-GAAA-TAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAC-ATA-CGAAAAACT-AA
* * *
45503850 TAAAACCATAGTTGAAAGACACTATGGCACCATACCAAAAACTAG
1 TAAGACCATAGTTGAAAGACACTATGGCA-CATACGAAAAACTAA
* *** ** * * *
45503895 TAAGACCATAGCTGAAAGATGTTAT-G-ACATCACGATTCTATCGAG
1 TAAGACCATAGTTGAAAGACACTATGGCACAT-ACGA--AAAACTAA
* *
45503940 TAAGACCATAGCTGAAAGACACTAT-G-ACATCACGAATCAAACGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACAT-ACGAA--AAACTAA
*
45503985 TAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAA-TGAA
1 TAAGACCATAGTTGAAAGACACTATGGC-ACA-TACGAAAAACT-AA
* * * *
45504031 TAAGACCGTGGTTGAAAGACATTATGGCATCA-AGTCG-AGAA-TAAA
1 TAAGACCATAGTTGAAAGACACTATGGCA-CATA--CGAAAAACT-AA
* *
45504076 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
45504105 TCCTCCAATT
Statistics
Matches: 206, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.01
43 4 0.02
44 3 0.01
45 151 0.73
46 37 0.18
48 8 0.04
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGGCACATACGAAAAACTAA
Found at i:45504049 original size:46 final size:46
Alignment explanation
Indices: 45503940--45504106 Score: 178
Period size: 45 Copynumber: 3.7 Consensus size: 46
45503930 TTCTATCGAG
* * * * *
45503940 TAAGACCATAGCTGAAAGACACTATGACATCACGA--ATCAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGA-AAAATGAA
* *
45503985 TAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
* * * * * *
45504031 TAAGACCGTGGTTGAAAGACATTATGGCATCAAGTCG-AGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
*
45504076 TAAGACCATGGTTGAAAGACACCATGGCATC
1 TAAGACCATGGTTGAAAGACACTATGGCATC
45504107 CTCCAATTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 66 0.63
46 37 0.36
47 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
Found at i:45504330 original size:41 final size:41
Alignment explanation
Indices: 45504271--45504387 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 41
45504261 TGATGTTGTG
* * * *
45504271 GTGTATTGTATCAAGCTTTGTGCCTAGCAGGCTTTATGCCA
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
* * * * *
45504312 GTGTATTATATCAGGCTTTATGCATAGTAGGCTTCGTGTCG
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
* * *
45504353 GTGTGTCATATCAGGCTTTGAGCCTAGTAGGCTTC
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTC
45504388 GTGTCGGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (41 bp):
GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
Found at i:45504388 original size:41 final size:41
Alignment explanation
Indices: 45504319--45504397 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
45504309 CCAGTGTATT
45504319 ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
1 ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
*
45504360 ATATCAGGCTTTGA-GCCTAGTAGGCTTCGTGTCGGTGT
1 ATATCAGGCTTT-ATGCATAGTAGGCTTCGTGTCGGTGT
45504398 ATTGTACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.35
Consensus pattern (41 bp):
ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
Done.