Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 679 of 770
Found at i:213847824 original size:39 final size:40
Alignment explanation
Indices: 213847781--213847958 Score: 186
Period size: 39 Copynumber: 4.5 Consensus size: 40
213847771 GCTCGATTGT
* *
213847781 CTTCGGGACATAGCCCGG-TTATAGT-ATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
213847820 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCAC-AATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
213847859 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
213847899 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
213847940 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACATAGCCCGGA
213847959 CATCATTCGA
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 54 0.47
40 34 0.30
41 24 0.21
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:213847891 original size:79 final size:80
Alignment explanation
Indices: 213847781--213847957 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 80
213847771 GCTCGATTGT
* * *
213847781 CTTCGGGACATAGCCCGGTTATAGTATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGT
* *
213847845 AAC-TCGCAC-AATGC
65 AACTTAGCACAAAAGC
* * *
213847859 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGT-ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
213847924 CACTTAGCACAAAAGC
65 AACTTAGCACAAAAGC
213847940 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
213847958 ACATCATTCG
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 21 0.25
79 37 0.44
80 6 0.07
81 21 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGTTATAGTACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTA
ACTTAGCACAAAAGC
Found at i:213847915 original size:40 final size:39
Alignment explanation
Indices: 213847808--213847958 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 39
213847798 GTTATAGTAT
*
213847808 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * *
213847848 TCGCAC-AATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
213847887 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
213847927 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
213847959 CATCATTCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 33 0.35
40 36 0.38
41 26 0.27
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:213863119 original size:43 final size:42
Alignment explanation
Indices: 213863055--213863169 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 42
213863045 TATGATTATA
* * *
213863055 TGTAAGCCCATTTCT-AGGACATTGGCATTTTATTGTGATTAT-G
1 TGTAAGACCATGTCTGA-GACATTGGCATTTTA-TATGATT-TCG
* * *
213863098 TGTAATACCATGTTTGAGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGAGACATTGGCAT-TTTATATGATTTCG
* *
213863141 TGTAAGACCCTGTCTGAGACAGTGGCATT
1 TGTAAGACCATGTCTGAGACATTGGCATT
213863170 GATATGTGAT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
42 1 0.02
43 53 0.91
44 4 0.07
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (42 bp):
TGTAAGACCATGTCTGAGACATTGGCATTTTATATGATTTCG
Found at i:213870794 original size:43 final size:42
Alignment explanation
Indices: 213870701--213870825 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 42
213870691 GGTTATCGAG
* * *
213870701 ATATGATTATATGTAAGCCCATGTCT-AGGACATTGGCATTTT
1 ATATGATTATGTGTAAGACCATGTCTGA-GACATTGGCATGTT
* * *
213870743 ATTGTGATTATGTGTAATACCATGTTTGAGACATTGGCATCGTT
1 A-TATGATTATGTGTAAGACCATGTCTGAGACATTGGCAT-GTT
* * * *
213870787 ATATGATTTTGTGTAAGACCCTGTCTGAGATAGTGGCAT
1 ATATGATTATGTGTAAGACCATGTCTGAGACATTGGCAT
213870826 TGATATGTGA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 62 0.93
44 4 0.06
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.38
Consensus pattern (42 bp):
ATATGATTATGTGTAAGACCATGTCTGAGACATTGGCATGTT
Found at i:213874369 original size:40 final size:39
Alignment explanation
Indices: 213874324--213874453 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
213874314 CGGAATACAA
213874324 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
213874364 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
213874404 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
213874444 CCGGATATAA
1 CCGGATATAA
213874454 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:213881528 original size:30 final size:30
Alignment explanation
Indices: 213881473--213881603 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
213881463 ATAGTGAATC
*
213881473 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
213881502 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
213881532 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
213881560 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
213881590 CGCACACTTAGTGC
1 CGCACACTTAGTGC
213881604 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:213881583 original size:58 final size:58
Alignment explanation
Indices: 213881472--213881603 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
213881462 TATAGTGAAT
* * * * *
213881472 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
213881531 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
213881589 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
213881604 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:213889479 original size:30 final size:30
Alignment explanation
Indices: 213889424--213889554 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
213889414 ATAGTGAATC
*
213889424 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
213889453 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
213889483 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
213889511 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
213889541 CGCACACTTAGTGC
1 CGCACACTTAGTGC
213889555 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:213889534 original size:58 final size:58
Alignment explanation
Indices: 213889423--213889554 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
213889413 TATAGTGAAT
* * * * *
213889423 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
213889482 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
213889540 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
213889555 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:213897430 original size:30 final size:30
Alignment explanation
Indices: 213897375--213897505 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
213897365 ATAGTGAATC
*
213897375 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
213897404 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
213897434 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
213897462 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
213897492 CGCACACTTAGTGC
1 CGCACACTTAGTGC
213897506 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:213897485 original size:58 final size:58
Alignment explanation
Indices: 213897374--213897505 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
213897364 TATAGTGAAT
* * * * *
213897374 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
213897433 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
213897491 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
213897506 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:213900104 original size:47 final size:46
Alignment explanation
Indices: 213900050--213900226 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 46
213900040 TGGTTGAGCA
213900050 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
213900097 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T-G
*
213900141 CCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
213900190 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
213900227 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 6 0.05
46 37 0.32
47 58 0.51
48 2 0.02
49 1 0.01
50 5 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:213902773 original size:46 final size:45
Alignment explanation
Indices: 213902671--213902840 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
213902661 GAGATTTGTG
* * * * *
213902671 TGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGA
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* *
213902718 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
* *
213902764 TAGCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
213902809 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGCCAGTGTAAGACATGTCTGGGACATGCATC
213902841 AGCACGGTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
44 28 0.26
45 3 0.03
46 52 0.49
47 12 0.11
48 11 0.10
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:213902832 original size:44 final size:44
Alignment explanation
Indices: 213902720--213902880 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
213902710 TGAGACGAGG
213902720 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-T
* * *
213902765 AGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
* *
213902810 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-G--AGATGT
*
213902856 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
213902881 CGGCATCGAC
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.02
44 31 0.31
45 4 0.04
46 64 0.63
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
Found at i:213906325 original size:45 final size:46
Alignment explanation
Indices: 213906273--213906447 Score: 191
Period size: 45 Copynumber: 3.8 Consensus size: 46
213906263 GGATGGTTTG
213906273 ATCCGAACTCG-TGAGTTGAGTCCGAGTTCACTTATGGATGTGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGCGA
* * * * *
213906318 ATTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGCC
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GC--G-A
*
213906365 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA--TGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGCGA
* *
213906409 ACGCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
213906448 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 49 0.45
46 19 0.17
47 29 0.27
48 3 0.03
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGCGA
Found at i:213912954 original size:40 final size:40
Alignment explanation
Indices: 213912909--213913075 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
213912899 CGGAATATAA
213912909 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
213912949 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
213912989 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
213913029 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
213913068 CCGGATAT
1 CCGGATAT
213913076 TATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:213915386 original size:29 final size:27
Alignment explanation
Indices: 213915352--213915454 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
213915342 TACTTAATCA
*
213915352 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
213915381 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
213915410 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
213915439 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
213915455 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:213920286 original size:20 final size:20
Alignment explanation
Indices: 213920263--213920300 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
213920253 GTCTATATTA
*
213920263 AGATTATATTAAATATATAT
1 AGATTATATTAAAAATATAT
213920283 AGATTATATTAAAAATAT
1 AGATTATATTAAAAATAT
213920301 GGACAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AGATTATATTAAAAATATAT
Found at i:213923880 original size:40 final size:40
Alignment explanation
Indices: 213923823--213923986 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
213923813 TGAATGATAC
* * * *
213923823 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
213923863 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
213923903 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
213923943 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
213923983 CCGG
1 CCGG
213923987 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:213926449 original size:2 final size:2
Alignment explanation
Indices: 213926442--213926473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
213926432 TTGGCTGTCT
213926442 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
213926474 CCTTCGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:213927254 original size:49 final size:49
Alignment explanation
Indices: 213927127--213927392 Score: 450
Period size: 49 Copynumber: 5.5 Consensus size: 49
213927117 CCCTTCGGGA
* *
213927127 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213927174 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213927221 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213927270 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213927319 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
213927368 CTTATCACATATATATACACTTTCA
1 CTTATCACATATATATACACTTTCA
213927393 TGTACAGACT
Statistics
Matches: 207, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 49 0.24
49 157 0.76
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:213928687 original size:2 final size:2
Alignment explanation
Indices: 213928650--213928678 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
213928640 TAAGGCATAC
213928650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
213928679 CCTATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:213929048 original size:2 final size:2
Alignment explanation
Indices: 213929041--213929066 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
213929031 TGCCGAATAC
213929041 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
213929067 CATCATCAAA
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:213929252 original size:2 final size:2
Alignment explanation
Indices: 213929247--213929271 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
213929237 ATATTCGGCA
213929247 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
213929272 ATGACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:213930781 original size:29 final size:29
Alignment explanation
Indices: 213930743--213930845 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
213930733 GGTTGGAGAA
213930743 CTCGCACACACAGTGCCTCATTTACCGAT
1 CTCGCACACACAGTGCCTCATTTACCGAT
* * * * **
213930772 CTCGCTCACATAGTG-CTCGGTTAAGGGAAT
1 CTCGCACACACAGTGCCTC-ATTTACCG-AT
* *
213930802 -TCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCATTTACCGAT
*
213930830 CTCGCACACATAGTGC
1 CTCGCACACACAGTGC
213930846 TCGGTTAAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 5 0.09
29 46 0.82
30 5 0.09
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCATTTACCGAT
Found at i:213930833 original size:58 final size:58
Alignment explanation
Indices: 213930709--213930861 Score: 238
Period size: 58 Copynumber: 2.7 Consensus size: 58
213930699 GTGCCCACTG
* *
213930709 ACCGATCTCGCACACATAGTGCTCGGTT--GGAGAACTCGCACACACAGTGCCTCATTT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAGG-GAATTCGCACACACAGTGCCTCAATT
*
213930766 ACCGATCTCGCTCACATAGTGCTCGGTTAAGGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAGGGAATTCGCACACACAGTGCCTCAATT
* *
213930824 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAGGGAATTC
213930862 ATACGGTAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
57 27 0.31
58 59 0.67
59 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAGGGAATTCGCACACACAGTGCCTCAATT
Found at i:213930959 original size:43 final size:43
Alignment explanation
Indices: 213930905--213931117 Score: 399
Period size: 43 Copynumber: 5.0 Consensus size: 43
213930895 CATCGGCATT
* *
213930905 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
213930948 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
213930991 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
213931034 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
*
213931077 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCA
1 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCA
213931118 TAACTGCTCT
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 167 1.00
ACGTcount: A:0.31, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
Found at i:213931203 original size:40 final size:42
Alignment explanation
Indices: 213931096--213931269 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 42
213931086 AGGCACGAAG
* * * * * *
213931096 GCCCGAATACATATCACCGGCA-TAACTGCTCTTCGGGACCTG
1 GCCCGGATATATATCACCAGCACGAA-TGCTCTTCGGGACTTA
* * * * * *
213931138 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGAGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
213931178 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
213931218 ACCTGGATATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGG--ATATATATCACCAGCACGAATGCTCTTCGGGACTTA
213931262 GCCCGGAT
1 GCCCGGAT
213931270 CATCGTCGAG
Statistics
Matches: 100, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
40 54 0.54
41 3 0.03
42 12 0.12
43 1 0.01
44 30 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:213932453 original size:2 final size:2
Alignment explanation
Indices: 213932446--213932477 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
213932436 TTGGCTGTCT
213932446 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
213932478 CCTTCGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:213933259 original size:49 final size:49
Alignment explanation
Indices: 213933132--213933397 Score: 450
Period size: 49 Copynumber: 5.5 Consensus size: 49
213933122 CCCTTCGGGA
* *
213933132 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213933179 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213933226 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213933275 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
213933324 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
213933373 CTTATCACATATATATACACTTTCA
1 CTTATCACATATATATACACTTTCA
213933398 TGTACAGACT
Statistics
Matches: 207, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 49 0.24
49 157 0.76
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:213934695 original size:2 final size:2
Alignment explanation
Indices: 213934654--213934686 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
213934644 TAAGGCATAC
213934654 AT AT AT AT A- AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
213934687 CCTATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:213935054 original size:2 final size:2
Alignment explanation
Indices: 213935047--213935076 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
213935037 TGCCGAATAC
213935047 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
213935077 CAATCATCAA
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:213943845 original size:39 final size:40
Alignment explanation
Indices: 213943787--213943887 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
213943777 AAATTGAATG
* *
213943787 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
213943826 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
213943866 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
213943888 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:213943880 original size:40 final size:40
Alignment explanation
Indices: 213943787--213943969 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
213943777 AAATTGAATG
* * * * *
213943787 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
213943826 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
213943866 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
213943906 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
213943946 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
213943970 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:213948826 original size:41 final size:41
Alignment explanation
Indices: 213948780--213949005 Score: 310
Period size: 41 Copynumber: 5.5 Consensus size: 41
213948770 CCCATACATA
*
213948780 CCCTGTTTGTACTTCGATACCCCTGAATTGCACATATGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGC
* * **
213948821 CCCTGTTTGTACTTCGGTACCCCTTAATTGCACATACGACC
1 CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGC
* * *
213948862 CCCTATTTGTACTTTGGTACCCCTGAATTGCACGTATGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGC
* * *
213948903 CCCTGTTCT-TACTTCGGTACCCTTGAATTGCACAAATGTAC
1 CCCTGTT-TGTACTTCGGTACCCCTGAATTGCACATATGTGC
* *
213948944 CCCTGTTTGTACTTTGGTACCCCTGAATTGCACAAATGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGC
*
213948985 CCCTGTTTGTACTTTGGTACC
1 CCCTGTTTGTACTTCGGTACC
213949006 ACTGGATGTA
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 160 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (41 bp):
CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGC
Found at i:213948965 original size:20 final size:20
Alignment explanation
Indices: 213948940--213949024 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
213948930 TTGCACAAAT
213948940 GTACCCCTGTTTGTACTTTG
1 GTACCCCTGTTTGTACTTTG
* * **
213948960 GTACCCCTGAATTGCACAAAT-
1 GTACCCCTG-TTTGTAC-TTTG
*
213948981 GTGCCCCTGTTTGTACTTTG
1 GTACCCCTGTTTGTACTTTG
* ** *
213949001 GTACCACTGGATGTACTTTT
1 GTACCCCTGTTTGTACTTTG
213949021 GTAC
1 GTAC
213949025 TTTGTTTAGA
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
19 1 0.02
20 33 0.69
21 13 0.27
22 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (20 bp):
GTACCCCTGTTTGTACTTTG
Found at i:213950996 original size:28 final size:27
Alignment explanation
Indices: 213950956--213951053 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 27
213950946 TCACAAATTG
*
213950956 GCACTAAGTGTGCGGGTTCAATTGTATA
1 GCACTAAGTGTGCGAGTTCAATT-TATA
* **
213950984 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCAATT-TATA
*
213951012 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTC-AAT-TTATA
213951040 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
213951054 GGCTTATTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 55 0.93
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTCAATTTATA
Found at i:213959604 original size:40 final size:40
Alignment explanation
Indices: 213959496--213959705 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
213959486 CGGGATTTAA
* * * * *
213959496 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
213959536 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213959576 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213959616 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213959656 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213959696 CCGGATATAT
1 CCGGATATAT
213959706 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:213969632 original size:39 final size:39
Alignment explanation
Indices: 213969548--213969671 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
213969538 TATGGTAACC
** * *
213969548 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
213969588 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
213969627 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
213969666 CGCACA
1 CGCACA
213969672 TTCATTCACA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 62 0.79
40 16 0.21
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:213977379 original size:40 final size:39
Alignment explanation
Indices: 213977335--213977527 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
213977325 GTTCAAAACA
* * ** * *
213977335 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
213977375 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
213977415 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
213977454 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
213977493 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
213977528 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:213977446 original size:39 final size:39
Alignment explanation
Indices: 213977365--213977527 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
213977355 TATGGTAACC
* *
213977365 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
213977405 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
213977444 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
213977483 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
213977522 CGCACA
1 CGCACA
213977528 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:213983933 original size:40 final size:40
Alignment explanation
Indices: 213983825--213984073 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
213983815 CGGGATTTAA
* * * * *
213983825 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
213983865 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213983905 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213983945 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213983985 CCGGATATATC-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213984024 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213984064 CCGGATATAT
1 CCGGATATAT
213984074 TTCAATGTTC
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 40 0.21
40 151 0.79
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:213984030 original size:79 final size:80
Alignment explanation
Indices: 213983825--213984073 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 80
213983815 CGGGATTTAA
* * * * * * * * * * *
213983825 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
213983889 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
213983905 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
213983970 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
213983985 CCGGATATATC-ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
213984049 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
213984064 CCGGATATAT
1 CCGGATATAT
213984074 TTCAATGTTC
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 79 0.50
80 78 0.50
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
CCTTCGGGTCTTAGC
Found at i:213984039 original size:119 final size:120
Alignment explanation
Indices: 213983825--213984073 Score: 392
Period size: 119 Copynumber: 2.1 Consensus size: 120
213983815 CGGGATTTAA
* * * * * * *
213983825 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATCACTCGCACAAAGG
213983890 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
213983945 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATCACTCGCACAAAGG
213984009 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213984064 CCGGATATAT
1 CCGGATATAT
213984074 TTCAATGTTC
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 76 0.64
120 42 0.36
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (120 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATCACTCGCACAAAGG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:213992167 original size:40 final size:40
Alignment explanation
Indices: 213991992--213992238 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
213991982 CGGGATTTAA
* * * * *
213991992 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
213992032 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992072 CCGGATATATCAACTCGCACGAA-GCCTTCGGGTC-TAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992110 CC-GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992149 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992189 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992229 CCGGATATAT
1 CCGGATATAT
213992239 TTCCAATGTT
Statistics
Matches: 188, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
37 20 0.11
38 17 0.09
39 18 0.10
40 133 0.71
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:213992201 original size:117 final size:120
Alignment explanation
Indices: 213991992--213992238 Score: 358
Period size: 117 Copynumber: 2.1 Consensus size: 120
213991982 CGGGATTTAA
* * * * * * *
213991992 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
213992057 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAA-GCCTTCGGGTC-TAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
213992110 CC-GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGAT-AACTCGCACAAAG
213992173 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
213992229 CCGGATATAT
1 CCGGATATAT
213992239 TTCCAATGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
116 1 0.01
117 87 0.76
118 13 0.11
119 6 0.05
120 7 0.06
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (120 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:213995674 original size:40 final size:39
Alignment explanation
Indices: 213995510--213995682 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
213995500 AAATTGAATG
* *
213995510 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
213995549 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
213995589 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
213995629 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
213995668 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
213995683 TCCGTAGGCC
Statistics
Matches: 105, Mismatches: 23, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 84 0.80
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:214003775 original size:40 final size:39
Alignment explanation
Indices: 214003610--214003793 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
214003600 AAATTGAATG
* * *
214003610 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
214003650 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
214003690 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
214003730 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
214003769 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
214003794 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:214003818 original size:80 final size:81
Alignment explanation
Indices: 214003650--214003838 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
214003640 GCTGGAAATT
* * * *
214003650 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
214003715 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
214003731 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
214003794 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
214003810 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
214003839 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:214008477 original size:40 final size:40
Alignment explanation
Indices: 214008400--214008543 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
214008390 TACTCGAATG
*
214008400 ATATCCGGGCT-AG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
* *
214008440 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
214008480 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
*
214008520 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
214008544 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 71 0.78
41 18 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:214011927 original size:39 final size:39
Alignment explanation
Indices: 214011834--214012015 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 39
214011824 AAATTGAATG
* * * *
214011834 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AGTGTT
* *
214011874 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
*
214011913 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTT
* * * * *
214011953 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GTT
* *
214011993 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
214012016 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 5 0.04
39 43 0.36
40 71 0.59
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:214019888 original size:40 final size:39
Alignment explanation
Indices: 214019720--214019899 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
214019710 AGAAATTGAA
* *
214019720 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
214019760 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
214019800 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
214019840 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
214019880 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
214019900 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:214024155 original size:40 final size:39
Alignment explanation
Indices: 214023987--214024157 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
214023977 AGAAATTGAA
* *
214023987 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
214024027 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
214024067 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
214024107 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
214024147 TGATATCCGGG
1 TGATATCCGGG
214024158 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:214032180 original size:40 final size:39
Alignment explanation
Indices: 214032012--214032182 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
214032002 AGAAATTGAA
* *
214032012 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
214032052 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
214032092 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
214032132 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
214032172 TGATATCCGGG
1 TGATATCCGGG
214032183 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:214034594 original size:3 final size:3
Alignment explanation
Indices: 214034586--214034636 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
214034576 ATGTATATAT
*
214034586 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATTA AT- ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A
214034632 ATA AT
1 ATA AT
214034637 GCTACGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:214036231 original size:84 final size:88
Alignment explanation
Indices: 214036091--214036308 Score: 331
Period size: 84 Copynumber: 2.5 Consensus size: 88
214036081 TTAGGGTTTT
*
214036091 AGATCTGTAAAC-TCAACCTGTTA-CCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGGTCTG
1 AGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTG
214036154 CTCCACTACTGCTT-AGGAGATA
66 CTCCACTACTGCTTAAGGAGATA
* *
214036176 AGATCTG-CAA-TTCAACCTATTACCCTACTGCTTA-GGGTTTAAGGTTCTTCGTCTTCGATCTG
1 AGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTG
* *
214036238 CTCCACTACTGCTTAAGGGGTTA
66 CTCCACTACTGCTTAAGGAGATA
*
214036261 AGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 AGATCTGTAAA-CTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
214036309 CTTGTAAATT
Statistics
Matches: 118, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
84 53 0.45
85 31 0.26
86 2 0.02
88 22 0.19
89 10 0.08
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (88 bp):
AGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTG
CTCCACTACTGCTTAAGGAGATA
Found at i:214036303 original size:44 final size:44
Alignment explanation
Indices: 214036072--214036610 Score: 265
Period size: 44 Copynumber: 12.5 Consensus size: 44
214036062 TGATCTATTT
* * *
214036072 CCCTACTGCTTAGGGTTTTAGATCTGTAAA-C-TCAACCTGTTA
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* ** * * *
214036114 -CCTACTGCTTAGGGGTTTAAGGTTCT-T-CGTCTTCGGTCTGCT-
1 CCCTACTGCTTAGGGG-TTAA-GATCTGTAAATCTTCAGCCTGTTA
* * * * *
214036156 CCACTACTGCTTAGGAGATAAGATCTG-CAA--TTCAACCTATTA
1 CC-CTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * ** * *
214036198 CCCTACTGCTTAGGGTTTAAGGTTCT-T-CGTCTTC-GATCTGCT-
1 CCCTACTGCTTAGGGGTTAA-GATCTGTAAATCTTCAG-CCTGTTA
214036240 CCACTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CC-CTACTGCTT-AGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* *
214036286 CCCTACTGCTTAGGGGTTTAAG-GCTTGTAAAT-TT-AGCTTGTTA
1 CCCTACTGCTTAGGGG-TTAAGATC-TGTAAATCTTCAGCCTGTTA
* ** * * * *
214036329 CCCTACTGCTTAGGGGGTTAA-AGC-CCATCATCTT-TGATCTGTTT
1 CCCTACTGCTTA-GGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTA
214036373 CCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
214036417 CCCTACTGCTTAGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTA
1 CCCTACTGCTTAGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
* ** * * * *
214036459 CCCTACTGCTTAGGGGGTTAA-AGC-CCATCATCTTC-GATCTATTT
1 CCCTACTGCTTA-GGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTA
* * * *
214036503 CCCTACTACTTAGGGGATTAAGATCTG-CAAT-TT-GGTCTGTTA
1 CCCTACTGCTTAGGGG-TTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
214036545 CCCTACTGCTTAGGGGTTTAAGATCT-TATGAA-CATCATCTTGTTA
1 CCCTACTGCTTAGGGG-TTAAGATCTGTA--AATCTTCAGCCTGTTA
214036590 CCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTA-GGGGTTAA
214036611 AGCTTGGTGG
Statistics
Matches: 374, Mismatches: 76, Indels: 91
0.69 0.14 0.17
Matches are distributed among these distances:
41 37 0.10
42 69 0.18
43 93 0.25
44 113 0.30
45 55 0.15
46 7 0.02
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
Found at i:214036388 original size:131 final size:131
Alignment explanation
Indices: 214036195--214036613 Score: 573
Period size: 131 Copynumber: 3.2 Consensus size: 131
214036185 ATTCAACCTA
* * ** * * *
214036195 TTACCCTACTGCTTA-GGGTTTAAGGTTCTTCGTCTTCGATCTG-CTCCACTACTGCTTAAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCC-CTACTGCTT-AGGGG
214036258 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTTAGC
64 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTTAGC
214036323 TTG
129 TTG
*
214036326 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGGTT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
*
214036391 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGTAAATTTGGCTT
66 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTTAGCTT
214036455 G
131 G
* *
214036456 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCTACTACTTAGGGGAT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGG-T
* * * * * *
214036521 TAAGATCTG-CAAT-TT-GGTCTGTTACCCTACTGCTTAGGGGTTTAAGATCTTATGAACA-TCA
65 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGT-AA-ATTTA
*
214036582 TCTTG
127 GCTTG
214036587 TTACCCTACTGCTTAGGGGGTTAAAGC
1 TTACCCTACTGCTTAGGGGGTTAAAGC
214036614 TTGGTGGTTT
Statistics
Matches: 261, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
128 23 0.09
129 7 0.03
130 89 0.34
131 108 0.41
132 31 0.12
133 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (131 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTTAGCTT
G
Found at i:214049246 original size:3 final size:3
Alignment explanation
Indices: 214049238--214049294 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
214049228 ATGTATATAT
*
214049238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATTA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
214049283 ATA ATAA ATA AT
1 ATA AT-A ATA AT
214049295 GCTACGAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:214061043 original size:40 final size:40
Alignment explanation
Indices: 214060960--214061127 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
214060950 AAATTGAATG
* * * ** *
214060960 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
214061000 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
214061040 ATATCCAGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
214061080 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
214061120 ATATCCGG
1 ATATCCGG
214061128 TTATATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.04
40 98 0.94
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:214066345 original size:12 final size:12
Alignment explanation
Indices: 214066330--214066355 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
214066320 GCAACTCGTT
214066330 ATGCAGGACCGA
1 ATGCAGGACCGA
214066342 ATGCAGGACCGA
1 ATGCAGGACCGA
214066354 AT
1 AT
214066356 CCAGCAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.31, T:0.12
Consensus pattern (12 bp):
ATGCAGGACCGA
Found at i:214068207 original size:40 final size:40
Alignment explanation
Indices: 214068099--214068308 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
214068089 CGGGATTTAA
* * * * *
214068099 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
214068139 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214068179 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214068219 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214068259 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214068299 CCGGATATAT
1 CCGGATATAT
214068309 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:214076340 original size:40 final size:40
Alignment explanation
Indices: 214076232--214076400 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
214076222 CGGGATTTAA
* * * * *
214076232 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
214076272 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214076312 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214076352 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
214076392 CCGGATATA
1 CCGGATATA
214076401 ACACGAATGT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 111 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:214080682 original size:30 final size:29
Alignment explanation
Indices: 214080588--214080689 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
214080578 TATAGTGAAT
* * *
214080588 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
214080617 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
214080645 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
214080675 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
214080690 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:214088570 original size:30 final size:29
Alignment explanation
Indices: 214088476--214088577 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
214088466 TATAGTGAAT
* * *
214088476 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
214088505 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
214088533 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
214088563 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
214088578 CAATCTTAGT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:214091653 original size:43 final size:42
Alignment explanation
Indices: 214091602--214091765 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
214091592 CATAGGATTT
214091602 TCGATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGTT-TCGTGTAAGACCACGTCTGGGACATTGGCA
* * * * *
214091645 TCGATATGTGATTTCGAGTAAGATCATGTCTGGGACATCGACA
1 TCGATATGTG-TTTCGTGTAAGACCACGTCTGGGACATTGGCA
* *
214091688 TCG-TAATTGTGATTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGAT-A-TGTGTTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
* * ** *
214091731 TCGACATGTGATTACAAGTAAGACCACATCTGGGA
1 TCGATATGTG-TTTCGTGTAAGACCACGTCTGGGA
214091766 TGTTGGAATT
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.05
43 84 0.88
44 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:214096640 original size:40 final size:40
Alignment explanation
Indices: 214096595--214096724 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
214096585 CGGAATACAA
214096595 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
214096635 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
214096675 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
214096715 CCGGATATAA
1 CCGGATATAA
214096725 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:214096739 original size:40 final size:40
Alignment explanation
Indices: 214096595--214096761 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
214096585 CGGAATACAA
* **
214096595 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
214096635 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
214096675 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
214096715 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
214096754 CCGGATAT
1 CCGGATAT
214096762 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:214104681 original size:40 final size:40
Alignment explanation
Indices: 214104636--214104765 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
214104626 CGGAATACAA
214104636 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
214104676 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
214104716 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
214104756 CCGGATATAA
1 CCGGATATAA
214104766 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:214104780 original size:40 final size:40
Alignment explanation
Indices: 214104636--214104802 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
214104626 CGGAATACAA
* **
214104636 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
214104676 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
214104716 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
214104756 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
214104795 CCGGATAT
1 CCGGATAT
214104803 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:214117256 original size:11 final size:11
Alignment explanation
Indices: 214117240--214117273 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
214117230 ACCTAACCCA
214117240 AAAAAAAAAAC
1 AAAAAAAAAAC
*
214117251 AAAAAAAAAAG
1 AAAAAAAAAAC
214117262 AAAAAGAAAAAC
1 AAAAA-AAAAAC
214117274 TTACCCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:214117287 original size:16 final size:16
Alignment explanation
Indices: 214117268--214117304 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
214117258 AAAGAAAAAG
*
214117268 AAAAACTTACCCCAAA
1 AAAAACTAACCCCAAA
*
214117284 AAAACCTAACCCCAAA
1 AAAAACTAACCCCAAA
214117300 AAAAA
1 AAAAA
214117305 AGAAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.30, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACTAACCCCAAA
Found at i:214119937 original size:12 final size:12
Alignment explanation
Indices: 214119920--214119954 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
214119910 TTCATTTGAA
*
214119920 ATTCATGCATTC
1 ATTCATACATTC
214119932 ATTCATACATTC
1 ATTCATACATTC
214119944 ATTCATACATT
1 ATTCATACATT
214119955 GCATATCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (12 bp):
ATTCATACATTC
Found at i:214125198 original size:68 final size:69
Alignment explanation
Indices: 214125033--214125206 Score: 235
Period size: 70 Copynumber: 2.5 Consensus size: 69
214125023 CTTTTCAAGG
* *
214125033 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTTG
214125098 TTTT
66 TTTT
* * * *
214125102 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTT-
214125166 TGTTTT
64 TGTTTT
** *
214125172 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
214125207 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
68 31 0.33
69 21 0.23
70 41 0.44
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTTG
TTTT
Found at i:214125327 original size:72 final size:71
Alignment explanation
Indices: 214125206--214125646 Score: 315
Period size: 72 Copynumber: 6.1 Consensus size: 71
214125196 GAGTTAAGCC
*
214125206 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
214125270 TGAGGTA
65 TGAGGTA
** * *
214125277 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
214125342 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
214125349 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
214125408 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
214125417 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
214125481 CTGAGGTA
64 CTGAGGTA
* * ** *
214125489 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
214125554 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
214125563 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
214125628 GCTGAGGTA
63 GCTGAGGTA
214125637 TTTTCAATTT
1 TTTTCAATTT
214125647 CGTTTTTCAA
Statistics
Matches: 272, Mismatches: 76, Indels: 41
0.70 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 15 0.06
72 110 0.40
73 16 0.06
74 88 0.32
75 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:214125557 original size:74 final size:73
Alignment explanation
Indices: 214125436--214125647 Score: 250
Period size: 74 Copynumber: 2.9 Consensus size: 73
214125426 CTACTTTTTC
* *
214125436 AAAATCAACTCATATTG-TGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
214125500 TGT-TGTCAAA
65 T-TATGT-AAA
*
214125510 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
***
214125574 TATGTTTT
66 TATGTAAA
** * * * *
214125582 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTATTTTCAATTT
214125647 C
64 C
214125648 GTTTTTCAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
72 33 0.28
73 6 0.05
74 80 0.67
75 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
TATGTAAA
Found at i:214125653 original size:13 final size:14
Alignment explanation
Indices: 214125637--214125670 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
214125627 CGCTGAGGTA
214125637 TTTTCAATTTC-GT
1 TTTTCAATTTCTGT
214125650 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
214125664 CTTTCAA
1 TTTTCAA
214125671 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:214125776 original size:74 final size:77
Alignment explanation
Indices: 214125651--214125812 Score: 240
Period size: 74 Copynumber: 2.1 Consensus size: 77
214125641 CAATTTCGTT
* *
214125651 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
214125715 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
214125727 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
214125790 CACGCCGAGGTAT
65 CACGCCGAGGTAA
214125803 TTTCAATTTC
1 TTTCAATTTC
214125813 CGTTTTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
74 40 0.51
75 3 0.04
76 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:214125812 original size:165 final size:165
Alignment explanation
Indices: 214125490--214126147 Score: 940
Period size: 165 Copynumber: 4.0 Consensus size: 165
214125480 GCTGAGGTAA
* * *
214125490 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *** *
214125553 CGCTGAGGTATTTTCAATTT-T-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAG
65 CGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
*
214125615 CCTCAGGTCACACGCTGAGGTATTTTCAATTT-CGTT
129 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
214125651 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
214125716 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
214125781 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
130 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
214125817 TTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
214125882 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* * *
214125947 TCAGATCACACGTCGAGGTATTTTCAATTTCCATT
131 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
214125982 TTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTCAATTTCTGCCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * ***
214126047 CACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGA
63 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGA
* ** *
214126110 GCCTCAAG--ACACGTTGAGGTATTTTCAATTTCTGTT
128 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
214126146 TT
1 TT
214126148 CAAAAAATCA
Statistics
Matches: 456, Mismatches: 31, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
161 12 0.03
162 2 0.00
163 64 0.14
164 31 0.07
165 220 0.48
166 55 0.12
168 72 0.16
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (165 bp):
TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:214126106 original size:72 final size:73
Alignment explanation
Indices: 214126004--214126509 Score: 413
Period size: 79 Copynumber: 6.5 Consensus size: 73
214125994 CCTTTCAAAA
*
214126004 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
214126069 CTGTTTTC
66 CTGTTTTC
* ** ** *
214126077 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
214126141 CTGTTTTC
66 CTGTTTTC
* * * ** *
214126149 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
214126214 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
214126225 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
214126290 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
214126304 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTC-
* *
214126368 AAATCTATTTTTCAAATTCTGTTTT
61 --A---A--TTTC----TGT-TTTC
* * * ** *
214126393 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAGGTATTTTCAAT
214126458 TTCTGTTTTTTTTC
64 TTCTG----TTTTC
214126472 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
214126510 TTTTTAATTT
Statistics
Matches: 346, Mismatches: 52, Indels: 62
0.75 0.11 0.13
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 21 0.06
76 5 0.01
77 48 0.14
78 3 0.01
79 67 0.19
80 12 0.03
81 29 0.08
82 1 0.00
83 1 0.00
85 4 0.01
86 2 0.01
88 49 0.14
89 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:214126327 original size:79 final size:76
Alignment explanation
Indices: 214126003--214126719 Score: 434
Period size: 88 Copynumber: 9.0 Consensus size: 76
214125993 GCCTTTCAAA
** *
214126003 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
214126066 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
214126077 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
214126138 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
214126149 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
214126213 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
214126225 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
214126290 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
214126304 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
** *
214126368 AAATCTATTTTTC
65 ATTTCT-GTTTTC
* ** * **
214126381 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
214126446 GCTATTTTCAATTTCTGTTTTTTTTC
55 GGTATTTTCAATTTCTG----TTTTC
* * * * * *
214126472 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
214126536 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
214126559 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
214126620 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
214126634 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
214126699 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
214126720 TAATGTCTGT
Statistics
Matches: 505, Mismatches: 82, Indels: 99
0.74 0.12 0.14
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 36 0.07
76 5 0.01
77 65 0.13
78 7 0.01
79 64 0.13
80 7 0.01
81 31 0.06
82 1 0.00
83 3 0.01
84 31 0.06
85 6 0.01
87 17 0.03
88 114 0.23
89 3 0.01
90 13 0.03
91 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:214126527 original size:30 final size:30
Alignment explanation
Indices: 214126491--214126552 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
214126481 CAACTCATAT
214126491 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
214126521 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
214126551 TG
1 TG
214126553 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:214126623 original size:395 final size:382
Alignment explanation
Indices: 214125830--214126595 Score: 847
Period size: 395 Copynumber: 1.9 Consensus size: 382
214125820 CAATTTTTGC
* *
214125830 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
* * **
214125895 CAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
66 CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
** *
214125960 CGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCG
131 CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTC----AAAAAATCAACTCATATTGCG
* * *
214126025 AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCA
192 AGAAGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCA
*
214126090 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAA
257 TATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAA
* * * * *
214126155 TCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAATTTCTAT
322 TCAACTCATATTGCGAGAGGTGAGTTGAACCTT-GCTCA--CGCTCAGCTATTATCAA-TGCTAT
*
214126220 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA--
* * * * * * *
214126285 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTA
62 ATTTCAATTTAT-GTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* * *
214126350 CATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCTG-TTTTC-AAAAATCAACTCATATTGC
126 CACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGC
* * *
214126413 GAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAA
191 GAGAAGTGAGTTGAGCCTCGGCACAC--GCTGAGCTAATTTCAATTTCTG----TTTTC---AAA
** * * *
214126478 ATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG-CGAGAGTTGAGTTGAGTCT
247 ATTCAACTCATATTGCGAGAAATGAGTTGAGC--CTCAA-----GAC-A-AGTTGAGGT-A-T-T
*
214126542 TTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
300 TTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
214126596 CCAGTCACAT
Statistics
Matches: 314, Mismatches: 35, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
389 41 0.13
390 46 0.15
391 20 0.06
392 12 0.04
394 14 0.04
395 82 0.26
398 33 0.11
400 3 0.01
404 1 0.00
405 2 0.01
406 7 0.02
407 1 0.00
408 1 0.00
409 46 0.15
410 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (382 bp):
CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATT
GCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAACCTTGCTCACGCTCAGCTATTATCAATGCTAT
Found at i:214126653 original size:253 final size:247
Alignment explanation
Indices: 214126143--214126720 Score: 758
Period size: 253 Copynumber: 2.3 Consensus size: 247
214126133 TTCAATTTCT
* * *
214126143 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
214126208 TTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
66 TTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* *
214126270 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
131 ACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
* ** * * * **
214126335 TTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCT
195 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
214126388 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
214126452 TTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-
66 TTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAG
* * * * * * *
214126516 ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCG
128 A--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
* *
214126579 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
214126641 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
214126705 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
214126721 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
247 13 0.04
248 30 0.10
249 1 0.00
250 3 0.01
251 2 0.01
252 5 0.02
253 145 0.50
254 5 0.02
255 13 0.04
256 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGT
TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:214127380 original size:11 final size:11
Alignment explanation
Indices: 214127364--214127397 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
214127354 AAACCTAACC
214127364 CAAAAAAAAAA
1 CAAAAAAAAAA
214127375 CAAAAAAAAAA
1 CAAAAAAAAAA
214127386 -AAAAAGAAAAA
1 CAAAAA-AAAAA
214127397 C
1 C
214127398 TACCCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:214127384 original size:16 final size:16
Alignment explanation
Indices: 214127365--214127396 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
214127355 AACCTAACCC
214127365 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
*
214127381 AAAAAAAAAAGAAAAA
1 AAAAAAAAAACAAAAA
214127397 CTACCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:214127410 original size:15 final size:15
Alignment explanation
Indices: 214127392--214127426 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
214127382 AAAAAAAAAG
*
214127392 AAAAACTACCCCAAA
1 AAAAACTAACCCAAA
*
214127407 AAAACCTAACCCAAA
1 AAAAACTAACCCAAA
214127422 AAAAA
1 AAAAA
214127427 AAGAAGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACTAACCCAAA
Found at i:214130624 original size:77 final size:76
Alignment explanation
Indices: 214130338--214131335 Score: 1027
Period size: 70 Copynumber: 13.5 Consensus size: 76
214130328 CAAGTGACAA
*
214130338 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130397 ATTTATGTTTC
66 ATTTATGTTTC
214130408 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130467 ATTTATGTTTC
66 ATTTATGTTTC
*
214130478 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130537 ATTTATGTTTC
66 ATTTATGTTTC
*
214130548 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTC
214130613 AATTTATGTTTC
65 AATTTATGTTTC
*
214130625 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130684 ATTTATGTTTC
66 ATTTATGTTTC
*
214130695 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130754 ATTTATGTTTC
66 ATTTATGTTTC
*
214130765 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTC
214130830 AATTTATGTTTC
65 AATTTATGTTTC
* *
214130842 AAAATCAACTCATATGGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
214130901 ATTTATGTTTC
66 ATTTATGTTTC
** * * *
214130912 AAAAATCAACTC--A-T-----AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA-----
*
214130969 TACTTTCCAATTTCTGTTCATC
60 -A-TTT-CAATTTATGTT--TC
* * * *
214130991 AAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCA
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCA
*
214131055 ATTTCTGTTTTTCAATTTCTGTTCGTC
60 A--------TTTCAATTTATGTT--TC
214131082 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
*
214131146 ---TGT-TTTC
66 ATTTATGTTTC
* *
214131153 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
214131218 ----TGT-TTTC
65 AATTTATGTTTC
** *
214131225 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
214131290 ----TGT-TTTC
65 AATTTATGTTTC
*
214131297 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
214131336 GGTTCACATG
Statistics
Matches: 832, Mismatches: 40, Indels: 109
0.85 0.04 0.11
Matches are distributed among these distances:
63 25 0.03
68 1 0.00
69 2 0.00
70 336 0.40
71 21 0.03
72 133 0.16
73 32 0.04
74 6 0.01
75 3 0.00
76 7 0.01
77 139 0.17
78 4 0.00
79 2 0.00
81 12 0.01
83 1 0.00
84 1 0.00
85 1 0.00
86 18 0.02
88 36 0.04
89 17 0.02
91 32 0.04
92 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
ATTTATGTTTC
Found at i:214130706 original size:217 final size:218
Alignment explanation
Indices: 214130338--214131335 Score: 1259
Period size: 217 Copynumber: 4.5 Consensus size: 218
214130328 CAAGTGACAA
* *
214130338 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
214130396 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
214130461 ATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
214130525 GAGGTAATTTCAATTTATGTTTC
196 GAGGTAATTTCAATTTATGTTTC
214130548 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
214130613 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
214130678 ATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
214130742 GAGGTAATTTCAATTTATGTTTC
196 GAGGTAATTTCAATTTATGTTTC
214130765 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
* *
214130830 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* ** * *
214130895 ATTTCAATTTATGTTTCAAAAATCAACTC--A-T-----AGGTGAGTTGAGCCTCGGGGCACGCT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
*
214130952 GAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCATC
196 GAGG-----T-A------A-TTT-CAATTTATGTT--TC
* * ** * *
214130991 AAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAA
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AAACACGTTGAGGTAATTTCAA
*
214131056 TTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
61 -------TTTTCAATTTATGTT--TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* * *
214131121 GACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAAATCATATTGCGAGAGGTGAGTTGA
117 GACACGTTGAGGTAATTTCAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAA
* *
214131186 GCCTCAAGACACGTTAAGGTAATTTCAATTTCTGTTTTC
181 GCCTCAAGACACGTTGAGGTAATTTCAATTTATG-TTTC
** * *
214131225 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTT
* *
214131289 C----TGT-TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
65 CAATTTATGTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
214131336 GGTTCACATG
Statistics
Matches: 702, Mismatches: 35, Indels: 95
0.84 0.04 0.11
Matches are distributed among these distances:
210 74 0.11
215 5 0.01
216 4 0.01
217 339 0.48
218 13 0.02
222 5 0.01
223 3 0.00
224 10 0.01
226 2 0.00
229 36 0.05
230 19 0.03
231 22 0.03
232 30 0.04
234 2 0.00
235 9 0.01
236 5 0.01
237 1 0.00
238 14 0.02
240 65 0.09
241 15 0.02
243 2 0.00
244 2 0.00
249 25 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (218 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
GAGGTAATTTCAATTTATGTTTC
Found at i:214130711 original size:147 final size:140
Alignment explanation
Indices: 214130338--214130926 Score: 971
Period size: 147 Copynumber: 4.1 Consensus size: 140
214130328 CAAGTGACAA
*
214130338 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
214130403 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
214130468 TTTATGTTTC
131 TTTATGTTTC
*
214130478 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
214130543 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
214130608 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
214130625 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
214130690 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
214130755 TTTATGTTTC
131 TTTATGTTTC
*
214130765 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
* *
214130830 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
214130895 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
214130912 AAAAATCAACTCATA
1 -AAAATCAACTCATA
214130927 GGTGAGTTGA
Statistics
Matches: 422, Mismatches: 12, Indels: 22
0.93 0.03 0.05
Matches are distributed among these distances:
140 183 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 216 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:214130980 original size:147 final size:142
Alignment explanation
Indices: 214130358--214131335 Score: 707
Period size: 147 Copynumber: 6.7 Consensus size: 142
214130348 CACATTGCGA
* *
214130358 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
214130416 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
214130481 ATCAACTCATATT
131 ATCAACTCA-ATT
* * *
214130494 GCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
* *
214130552 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
214130617 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
214130645 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
* *
214130703 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
214130768 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
214130781 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
214130846 TCAACTCATATGGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
214130911 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * *
214130926 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCAT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATTTATGTT--T
* ** *
214130990 CAAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTC
57 C---AAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAAG---ACACGTTGAGG-----T-
*
214131054 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATT
110 AA--------TTTCAATTTATGTT--TCAAAATCAACTCA-ATT
* * *
214131098 GCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-C----TGT-TTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTC-AAA
* * * *
214131157 ATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTCTGTT
61 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATG-T
214131222 TTCAAAATTCAACTCATATT
125 TTCAAAA-TCAACTCA-ATT
* * * * *
214131242 GCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-C----TGT-TTTCAAAA
1 --GAG--GTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTC--AA
* *
214131301 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
60 AATCAACTCATATTGCGAGAGGTGAGTTGACCCTC
214131336 GGTTCACATG
Statistics
Matches: 729, Mismatches: 41, Indels: 131
0.81 0.05 0.15
Matches are distributed among these distances:
140 192 0.26
141 2 0.00
142 5 0.01
143 6 0.01
144 70 0.10
145 41 0.06
146 9 0.01
147 222 0.30
148 11 0.02
149 2 0.00
151 2 0.00
152 35 0.05
153 1 0.00
154 10 0.01
158 9 0.01
159 1 0.00
160 37 0.05
161 2 0.00
162 2 0.00
164 2 0.00
165 2 0.00
168 13 0.02
169 12 0.02
170 5 0.01
171 2 0.00
172 1 0.00
177 33 0.05
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGACCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:214131068 original size:14 final size:14
Alignment explanation
Indices: 214131049--214131077 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
214131039 CGCTGAGGTA
214131049 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
214131063 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
214131077 T
1 T
214131078 CGTCAAAATC
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:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:214131084 original size:91 final size:86
Alignment explanation
Indices: 214130926--214131152 Score: 276
Period size: 91 Copynumber: 2.6 Consensus size: 86
214130916 ATCAACTCAT
** * * * **
214130926 AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCATC
1 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCATC
214130991 AAAAAAATCAACTCATATTGCCAG
66 ---AAAATCAACTCATATTGCCAG
* *
214131015 AGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTC
1 AGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTC
* *
214131079 GTCAAAATCAACTCATATTGCGAG
63 ATCAAAATCAACTCATATTGCCAG
* *
214131103 AGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTC
214131153 AAAAATCAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
86 28 0.23
88 36 0.30
89 17 0.14
91 39 0.32
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (86 bp):
AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCATC
AAAATCAACTCATATTGCCAG
Found at i:214131181 original size:72 final size:72
Alignment explanation
Indices: 214131064--214131413 Score: 454
Period size: 72 Copynumber: 4.7 Consensus size: 72
214131054 AATTTCTGTT
*
214131064 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
214131128 TGAGGTAA
65 TGAGGTAA
*
214131136 TTTCAATTTCTGTTTTCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
214131201 AAGGTAA
66 GAGGTAA
* **
214131208 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
214131273 GAGGTAT
66 GAGGTAA
* *
214131280 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA
* *
214131344 TGCTGAGGT-A
62 CGTTGAGGTAA
*
214131354 TTCTCAATTTCTGTCTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
1 TT-TCAATTTCTGT-TTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
214131414 TTCAGATCAC
Statistics
Matches: 247, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
71 2 0.01
72 150 0.61
73 34 0.14
74 2 0.01
75 21 0.09
76 4 0.02
81 34 0.14
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:214131811 original size:44 final size:45
Alignment explanation
Indices: 214131728--214131826 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
214131718 TGAAGCTGTT
* *
214131728 AATCTTATAT-TTCTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
214131772 AATCTTATATCCT-TGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
214131816 AAGCATATATC
1 AATCTTATATC
214131827 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:214132165 original size:34 final size:34
Alignment explanation
Indices: 214132141--214132207 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
214132131 TTGCCTCTTC
214132141 CCACTCTCCCATGCTGTCTGCCACTAGCACCATT
1 CCACTCTCCCATGCTGTCTGCCACTAGCACCATT
* * *
214132175 CCATTCTCCCATGCTGTCTGCCACCAACACCAT
1 CCACTCTCCCATGCTGTCTGCCACTAGCACCAT
214132208 CACACACCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.19, C:0.45, G:0.10, T:0.25
Consensus pattern (34 bp):
CCACTCTCCCATGCTGTCTGCCACTAGCACCATT
Found at i:214132646 original size:19 final size:20
Alignment explanation
Indices: 214132624--214132662 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
214132614 AAAAAAAAAT
*
214132624 CCAGCAAAAAA-TTCCAGCA
1 CCAGAAAAAAATTTCCAGCA
214132643 CCAGAAAAAAATTTCCAGCA
1 CCAGAAAAAAATTTCCAGCA
214132663 AAAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.49, C:0.28, G:0.10, T:0.13
Consensus pattern (20 bp):
CCAGAAAAAAATTTCCAGCA
Found at i:214132667 original size:17 final size:16
Alignment explanation
Indices: 214132613--214132670 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 16
214132603 AGGGGAAGCA
*
214132613 AAAAAAAAAATCCAGC
1 AAAAAAAAATTCCAGC
214132629 ---AAAAAATTCCAGC
1 AAAAAAAAATTCCAGC
214132642 ACCAGAAAAAAATTTCCAGC
1 A--A-AAAAAAA-TTCCAGC
214132662 AAAAAAAAA
1 AAAAAAAAA
214132671 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
13 12 0.35
17 7 0.21
18 1 0.03
19 6 0.18
20 8 0.24
ACGTcount: A:0.64, C:0.19, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAAAAAAATTCCAGC
Found at i:214132669 original size:19 final size:19
Alignment explanation
Indices: 214132629--214132671 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
214132619 AAAATCCAGC
*
214132629 AAAAAATTCCAGCACCAGAA
1 AAAAAATTCCAGCA-CAAAA
*
214132649 AAAAATTTCCAGCA-AAAA
1 AAAAAATTCCAGCACAAAA
214132667 AAAAA
1 AAAAA
214132672 CCAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAATTCCAGCACAAAA
Found at i:214133576 original size:2 final size:2
Alignment explanation
Indices: 214133496--214133560 Score: 73
Period size: 2 Copynumber: 34.0 Consensus size: 2
214133486 ATCATTTCTA
* * *
214133496 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
214133537 -T AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
214133561 GCCATTAGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
AT
Found at i:214133610 original size:2 final size:2
Alignment explanation
Indices: 214133605--214133635 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
214133595 TAAATACTGT
*
214133605 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
214133636 TTTAAATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:214136547 original size:10 final size:11
Alignment explanation
Indices: 214136532--214136579 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
214136522 TTTTTGATGT
*
214136532 ACATGATTTG-
1 ACATGATATGC
214136542 ACATGATATGC
1 ACATGATATGC
214136553 ACATGATATG-
1 ACATGATATGC
*
214136563 -TATGATATGC
1 ACATGATATGC
214136573 ACATGAT
1 ACATGAT
214136580 GTATTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:214136928 original size:31 final size:31
Alignment explanation
Indices: 214136890--214137002 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 31
214136880 CGTTTACAGT
* *
214136890 AAAGGCTTCAGCCCGGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
214136921 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
**
214136952 AAAGGCTTCGGCCCAGT-A-ATCGTTTAATG-
1 AAAGGCTTCGGCCCAGTGATAT-GAATAATGA
214136981 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
214137003 TTGAGACTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.28
30 8 0.11
31 45 0.61
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:214141139 original size:40 final size:40
Alignment explanation
Indices: 214141102--214141286 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
214141092 GCTACTCGTT
*
214141102 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
214141142 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
214141182 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
214141222 C-AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
214141262 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
214141287 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 34 0.26
40 89 0.68
41 7 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:214149169 original size:40 final size:40
Alignment explanation
Indices: 214149132--214149317 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
214149122 GCTACTCGTT
*
214149132 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
214149172 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
214149212 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
214149252 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
214149293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
214149318 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:214157197 original size:40 final size:40
Alignment explanation
Indices: 214157160--214157345 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
214157150 GCTACTCGTT
*
214157160 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
214157200 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
214157240 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
214157280 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
214157321 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
214157346 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:214173407 original size:24 final size:24
Alignment explanation
Indices: 214173380--214173442 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
214173370 CTTATTATGT
*
214173380 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
214173404 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
214173428 TCGCACACATAGTGC
1 TCGCACACATAGTGC
214173443 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:214173902 original size:2 final size:2
Alignment explanation
Indices: 214173895--214173920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
214173885 CATACTTATG
214173895 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
214173921 CATAACCGAA
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):
TA
Found at i:214177996 original size:24 final size:24
Alignment explanation
Indices: 214177964--214178034 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
214177954 CTGTCAGGAG
214177964 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
214177988 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
214178012 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
214178035 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:214178046 original size:48 final size:48
Alignment explanation
Indices: 214177964--214178057 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 48
214177954 CTGTCAGGAG
** *
214177964 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGTTGATCAAGGGAT
214178012 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGTTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGTTGATCAAGG
214178058 AATAAGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 3 0.08
48 33 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.37, T:0.24
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGTTGATCAAGGGAT
Found at i:214180813 original size:40 final size:39
Alignment explanation
Indices: 214180648--214180840 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 39
214180638 AAATTGAATG
* * *
214180648 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
214180688 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
214180728 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
214180768 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * * * *
214180807 GATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCA
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
214180841 GGTTACCATA
Statistics
Matches: 120, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 3 0.03
40 111 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:214182788 original size:27 final size:26
Alignment explanation
Indices: 214182748--214182859 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
214182738 AGGAAGCGTC
*
214182748 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
214182775 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
214182802 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
214182830 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
214182856 CTGG
1 CTGG
214182860 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 54 0.71
28 15 0.20
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:214189163 original size:24 final size:23
Alignment explanation
Indices: 214189107--214189170 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
214189097 AAAGTCTGTC
*
214189107 AGGAGAGGATTTAGGAGATGATA
1 AGGATAGGATTTAGGAGATGATA
*
214189130 AGGATAGGATTTAGGAGTTGATA
1 AGGATAGGATTTAGGAGATGATA
214189153 AGGGATAGGATTTAGGAG
1 A-GGATAGGATTTAGGAG
214189171 CTAATCAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 22 0.58
24 16 0.42
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (23 bp):
AGGATAGGATTTAGGAGATGATA
Found at i:214190668 original size:54 final size:52
Alignment explanation
Indices: 214190571--214190680 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 52
214190561 AGGAAGCGTC
*
214190571 CTGGTGGCTATGCCACAATTATTGATCTGGTGGCTCTGCCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATTGATCTGGTGACTCTGCCACATTATCTGTT
* * * *
214190623 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTAT-TG-ATCTGGTGACTCTGCCACATTATCTGTT
214190677 CTGG
1 CTGG
214190681 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 19 0.37
53 2 0.04
54 30 0.59
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATTATTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:214190670 original size:27 final size:26
Alignment explanation
Indices: 214190571--214190680 Score: 141
Period size: 26 Copynumber: 4.2 Consensus size: 26
214190561 AGGAAGCGTC
* *
214190571 CTGGTGGCTATGCCACAATTAT-TGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
214190597 CTGGTGGCTCTGCCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
*
214190623 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
214190651 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
214190677 CTGG
1 CTGG
214190681 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.07
26 38 0.51
27 18 0.24
28 14 0.19
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:214194867 original size:29 final size:29
Alignment explanation
Indices: 214194805--214194907 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
214194795 GTGACGAGAT
* * *
214194805 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
214194834 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
214194863 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
214194892 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
214194908 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:214202875 original size:29 final size:29
Alignment explanation
Indices: 214202813--214202915 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
214202803 GTGACGAGAT
* * *
214202813 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
214202842 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
214202871 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
214202900 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
214202916 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:214206640 original size:2 final size:2
Alignment explanation
Indices: 214206633--214206658 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
214206623 TGTGGTTAGA
214206633 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
214206659 GAAGAATAAA
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:214208432 original size:34 final size:33
Alignment explanation
Indices: 214208389--214208460 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
214208379 CGTATCAGTA
* *
214208389 ACAGTTCAGTTTCAGT-TAAGGTCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-AGGCCTTAGCCCATT
*
214208422 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGT-TCAGTATCAGTGTAGGCCTTAGCCCATT
*
214208456 TCAGT
1 ACAGT
214208461 GTCGGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.15
34 27 0.82
35 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTAGGCCTTAGCCCATT
Done.