Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 163 of 345
Found at i:55895729 original size:12 final size:12
Alignment explanation
Indices: 55895709--55895745 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
55895699 AAATTAAACT
*
55895709 TATTAAATCAAA
1 TATTCAATCAAA
55895721 TATTCAATCAAA
1 TATTCAATCAAA
*
55895733 TATTCAGTCAAA
1 TATTCAATCAAA
55895745 T
1 T
55895746 TCATCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (12 bp):
TATTCAATCAAA
Found at i:55899326 original size:37 final size:37
Alignment explanation
Indices: 55899276--55899354 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55899266 TTATTACGAA
* * *
55899276 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55899313 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55899350 GTCTT
1 GTCTT
55899355 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55899551 original size:47 final size:47
Alignment explanation
Indices: 55899473--55899879 Score: 706
Period size: 47 Copynumber: 8.6 Consensus size: 47
55899463 CCCTTCGGGA
* * * * * *
55899473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55899520 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899567 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899614 CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
55899663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899710 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899757 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899806 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55899853 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
55899880 ACCAACCCTT
Statistics
Matches: 346, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 252 0.73
49 94 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55899670 original size:96 final size:94
Alignment explanation
Indices: 55899473--55899879 Score: 706
Period size: 96 Copynumber: 4.3 Consensus size: 94
55899463 CCCTTCGGGA
* * * * * * * *
55899473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55899538 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
55899567 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA--TATAC
55899632 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
55899663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55899728 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
55899757 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55899822 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
55899853 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
55899880 ACCAACCCTT
Statistics
Matches: 301, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
94 113 0.38
96 188 0.62
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:55899739 original size:143 final size:143
Alignment explanation
Indices: 55899473--55899879 Score: 728
Period size: 143 Copynumber: 2.9 Consensus size: 143
55899463 CCCTTCGGGA
* * * * * * *
55899473 CTTATCAC--ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55899536 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
55899601 TCGGCCATTAGGC
131 TCGGCCATTAGGC
55899614 CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55899679 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
55899744 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
55899757 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55899822 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
55899880 ACCAACCCTT
Statistics
Matches: 256, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
141 8 0.03
143 248 0.97
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:55900195 original size:40 final size:40
Alignment explanation
Indices: 55900106--55900204 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
55900096 GCTACTCGTT
* * * *
55900106 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* *
55900146 CAAATGCCTTCGGGACTTAACCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAAC-TAGCA
55900187 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
55900205 GCCCAGACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 44 0.85
41 8 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:55904913 original size:3 final size:3
Alignment explanation
Indices: 55904905--55904932 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
55904895 AGATATTTAC
55904905 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
55904933 ATTTTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:55908275 original size:50 final size:50
Alignment explanation
Indices: 55908221--55908372 Score: 219
Period size: 50 Copynumber: 3.2 Consensus size: 50
55908211 TACATGAATT
*
55908221 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
55908271 ATTCCTGTCTCCAAAGCCATATATATATCTAATAT-GGC-TACATGGCT-
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
* *
55908318 ATTCCTGTCTCCAAAGCC----ATATATCTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
*
55908364 ATTTCTGTC
1 ATTCCTGTC
55908373 CTGTCCTGTC
Statistics
Matches: 95, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
43 12 0.13
44 2 0.02
45 9 0.09
46 8 0.08
47 18 0.19
48 9 0.09
49 3 0.03
50 34 0.36
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
Found at i:55912659 original size:50 final size:50
Alignment explanation
Indices: 55912605--55912809 Score: 337
Period size: 50 Copynumber: 4.2 Consensus size: 50
55912595 TACATGAATT
*
55912605 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
55912655 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
*
55912705 ATTCCTATCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
* *
55912755 ATTCCTGTCTCCAAAGCC----ATATATCTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
*
55912801 ATTTCTGTC
1 ATTCCTGTC
55912810 CTGTCCTGTC
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
46 34 0.23
50 115 0.77
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (50 bp):
ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
Found at i:55930195 original size:22 final size:22
Alignment explanation
Indices: 55930152--55930195 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55930142 AAAAATAATC
**
55930152 AAAATTAATCAAAATTTGACAT
1 AAAATTAATCAAAATTCAACAT
*
55930174 AAAATTAATTAAAATTCAACAT
1 AAAATTAATCAAAATTCAACAT
55930196 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAATTAATCAAAATTCAACAT
Found at i:55931733 original size:30 final size:30
Alignment explanation
Indices: 55931699--55931755 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
55931689 ATGAATTGGA
55931699 AGCTTTGGCACTAAGTGTGCGATTTAACCT
1 AGCTTTGGCACTAAGTGTGCGATTTAACCT
55931729 AGCTTTGGCACTAAGTGTGCGATTTAA
1 AGCTTTGGCACTAAGTGTGCGATTTAA
55931756 GGTCTCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACCT
Found at i:55937833 original size:30 final size:29
Alignment explanation
Indices: 55937799--55937863 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 29
55937789 ATGAATCGGA
55937799 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
55937829 AGCTTTGGCACTAAGTGTGTGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
55937858 AGCTTT
1 AGCTTT
55937864 AGCTACTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:55940344 original size:49 final size:49
Alignment explanation
Indices: 55940265--55940359 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
55940255 TAGGACTATC
* * *
55940265 TTATTCTATCATCTCAAGTTGCCTGACAACAGTGAATTTTAGTATTCAT
1 TTATTCTATCATCCCAAATTGCCTGACAACAATGAATTTTAGTATTCAT
* **
55940314 TTATTCTATCATCCCAAATTTCCT-ACCAACAATGGTTTTTAGTATT
1 TTATTCTATCATCCCAAATTGCCTGA-CAACAATGAATTTTAGTATT
55940360 TTCCCACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.03
49 38 0.97
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (49 bp):
TTATTCTATCATCCCAAATTGCCTGACAACAATGAATTTTAGTATTCAT
Found at i:55941629 original size:16 final size:16
Alignment explanation
Indices: 55941608--55941640 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55941598 CAGGGTCTGT
55941608 TTCTTATTCTCCATCA
1 TTCTTATTCTCCATCA
55941624 TTCTTATTCTCCATCA
1 TTCTTATTCTCCATCA
55941640 T
1 T
55941641 CTAGTACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (16 bp):
TTCTTATTCTCCATCA
Found at i:55964851 original size:48 final size:48
Alignment explanation
Indices: 55964787--55965055 Score: 285
Period size: 48 Copynumber: 5.6 Consensus size: 48
55964777 GAATTTGTTA
* * * *
55964787 ATGCCATGTCTCAGACATGGTCTTACATTGACTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGGCCG
* * * *
55964835 ATTCCATGTCCTAGACATGGTCTTACAC-CAGCTCTCATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATCGAGGCCG
* * ** *
55964883 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGGCCG
* * **
55964931 ATGCCATGTCCCAGACATGGTCTTACACTAGGA--CACATATCAATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACT--GACTCTCATATCGAGGCCG
* * *
55964979 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCAT-ATCGAGGCCG
*
55965027 ATGTCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
55965056 AGCACACATA
Statistics
Matches: 183, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 178 0.97
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGGCCG
Found at i:55964951 original size:96 final size:96
Alignment explanation
Indices: 55964787--55965068 Score: 350
Period size: 96 Copynumber: 2.9 Consensus size: 96
55964777 GAATTTGTTA
* * * ** * * *
55964787 ATGCCATGT-CTCAGACATGGTCTTACATTGACTCACATGTCGAGGCCGATTCCATGTCCTAGAC
1 ATGCCATGTCCT-AGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTCCCAGAC
* * * * *
55964851 ATGGTCTTACACCAGCTCTCATGTCGAGGCCG
65 ATGGTCTTACACCAGCACACATATCAAGACCG
*
55964883 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTCCCAGACA
* * *
55964948 TGGTCTTACACTAGGACACATATCAATACCG
66 TGGTCTTACACCAGCACACATATCAAGACCG
* * * *
55964979 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTCATGTCCCAGACA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTCCCAGACA
*
55965044 TGGTCTTACACTAGCACACATATCA
66 TGGTCTTACACCAGCACACATATCA
55965069 CCCAAATGTC
Statistics
Matches: 163, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 161 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACCAGCACACATATCAAGACCG
Found at i:55965047 original size:144 final size:143
Alignment explanation
Indices: 55964787--55965055 Score: 353
Period size: 144 Copynumber: 1.9 Consensus size: 143
55964777 GAATTTGTTA
* * * * * * * *
55964787 ATGCCATGTCTCAGACATGGTCTTACATTGACTCACATGTCGAGGCCGATTCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAC-CACATATCAAGACCGATGCCATGTCCCAAACA
* *
55964852 TGGTCTTACACCAGCTCTCATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC
65 TGGTCTTACACCAGCTCTCATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
55964917 TCATAAGGTGGCCG
130 TCATAAGGTGGCCG
*
55964931 ATGCCATGTCCCAGACATGGTCTTACACTAGGA-CACATATCAATACCGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACA-T-GGACCACATATCAAGACCGATGCCATGTCCCAAAC
** * *
55964995 ATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGTCATGTCCCAGACATGGTCTTACACT
64 ATGGTCTTACACCAGCTCTCAT-ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACT
55965056 AGCACACATA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
144 103 0.96
145 2 0.02
146 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGACCACATATCAAGACCGATGCCATGTCCCAAACAT
GGTCTTACACCAGCTCTCATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
CATAAGGTGGCCG
Found at i:55972608 original size:48 final size:48
Alignment explanation
Indices: 55972545--55972770 Score: 233
Period size: 48 Copynumber: 4.7 Consensus size: 48
55972535 GTGAATTTTT
* * *
55972545 CGATGCCCTATCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGC
* * * *
55972593 CGATGCCGTGCCCCAGACATGGTCTTACACTAGCTCTTATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGC
* * *
55972641 CGATGCCATGTCCTAGACACGGTCTTACACTAGCTCTCA--T-AAGGTGTT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAA-G-G-C
* ***** *
55972689 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGC
* *
55972737 CGATACCATGTCCTAGACATGGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
55972771 ATACATATCA
Statistics
Matches: 150, Mismatches: 22, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 1 0.01
48 144 0.96
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGC
Found at i:55972709 original size:96 final size:96
Alignment explanation
Indices: 55972593--55972770 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
55972583 ATGTCAAGGC
* * ** *
55972593 CGATGCCGTGCCCCAGACATGGTCTTACACTAGCTCTTATGTCGAGGCCGATGCCATGTCCTAGA
1 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAACGAGGCCGATACCATGTCCTAGA
55972658 CACGGTCTTACACTAGCTCTCATAAGGTGTT
66 CACGGTCTTACACTAGCTCTCATAAGGTGTT
* * * * *
55972689 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATACCATGTCCTAGA
1 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAACGAGGCCGATACCATGTCCTAGA
*
55972754 CATGGTCTTACACTAGC
66 CACGGTCTTACACTAGC
55972771 ATACATATCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (96 bp):
CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAACGAGGCCGATACCATGTCCTAGA
CACGGTCTTACACTAGCTCTCATAAGGTGTT
Found at i:55991440 original size:38 final size:38
Alignment explanation
Indices: 55991391--55991469 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
55991381 TATTTGATAG
55991391 TGAATGACTTTTCATGAAGGAAGATGTAATGGTTACAA
1 TGAATGACTTTTCATGAAGGAAGATGTAATGGTTACAA
*
55991429 TGAATGACTTTTCATGAAGGAATATGTAATGGTTACAA
1 TGAATGACTTTTCATGAAGGAAGATGTAATGGTTACAA
55991467 TGA
1 TGA
55991470 GAGGATCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (38 bp):
TGAATGACTTTTCATGAAGGAAGATGTAATGGTTACAA
Found at i:55996915 original size:52 final size:52
Alignment explanation
Indices: 55996831--55996940 Score: 125
Period size: 52 Copynumber: 2.1 Consensus size: 52
55996821 AGGGTTTGCT
* ** *
55996831 AAGAGAGTTTCAGTAAAGAGTTCTACTGAGATTC-AGCAAAGTAGTGTACACA
1 AAGAGAGTTTCAGCAAAGAGTTCTACCAAGATTCGA-CAAAGCAGTGTACACA
* * *
55996883 AAGAGAGTTTCAGCAAGGAGTTC-ACCCAAGATTCGACAAAGCAGTGTACGCC
1 AAGAGAGTTTCAGCAAAGAGTTCTA-CCAAGATTCGACAAAGCAGTGTACACA
55996935 AAGAGA
1 AAGAGA
55996941 ACATCAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
51 1 0.02
52 47 0.96
53 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (52 bp):
AAGAGAGTTTCAGCAAAGAGTTCTACCAAGATTCGACAAAGCAGTGTACACA
Found at i:55998653 original size:29 final size:29
Alignment explanation
Indices: 55998593--55998683 Score: 139
Period size: 29 Copynumber: 3.2 Consensus size: 29
55998583 TACATACATG
* *
55998593 CATATGGCGCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
*
55998621 CATATTGCCCATTAGGCCCAAATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
*
55998650 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
55998679 CATAT
1 CATAT
55998684 ACATGCTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 16 0.28
29 41 0.72
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:55998906 original size:8 final size:8
Alignment explanation
Indices: 55998893--55998922 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
55998883 GTAGCCAAAC
55998893 TTTTGGCT
1 TTTTGGCT
*
55998901 TTTTGGCA
1 TTTTGGCT
55998909 TTTTGGCT
1 TTTTGGCT
55998917 TTTTGG
1 TTTTGG
55998923 GATTTGCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.10, G:0.27, T:0.60
Consensus pattern (8 bp):
TTTTGGCT
Found at i:55998914 original size:16 final size:16
Alignment explanation
Indices: 55998893--55998927 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55998883 GTAGCCAAAC
55998893 TTTTGGCTTTTTGGCA
1 TTTTGGCTTTTTGGCA
*
55998909 TTTTGGCTTTTTGGGA
1 TTTTGGCTTTTTGGCA
55998925 TTT
1 TTT
55998928 GCCGATCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.09, G:0.26, T:0.60
Consensus pattern (16 bp):
TTTTGGCTTTTTGGCA
Found at i:56000078 original size:28 final size:28
Alignment explanation
Indices: 56000044--56000100 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
56000034 TAATTTCCTT
56000044 CACTCCTAAGTTCGAACTCAAACCTTAA
1 CACTCCTAAGTTCGAACTCAAACCTTAA
56000072 CACTCCTAAGTTCGAACTCAAACCTTAA
1 CACTCCTAAGTTCGAACTCAAACCTTAA
56000100 C
1 C
56000101 CAAGACTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.33, G:0.07, T:0.25
Consensus pattern (28 bp):
CACTCCTAAGTTCGAACTCAAACCTTAA
Found at i:56003090 original size:57 final size:59
Alignment explanation
Indices: 56003029--56003148 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 59
56003019 CCCTTACAGA
*
56003029 GCCCAAACAAGTCCACA-T-ACATGCATATGGCCCACTAGGCCC-AATCTCATTCATATG
1 GCCCAAACAAGTCCA-AGTCACATGCATATGGCCCACTAGGCCCAAATCACATTCATATG
** * * * * *
56003086 GCCC-ATTAGGTCCAAGTCTCATTCGTATGGCCCATTAGGCCCAAATCACATTCATATG
1 GCCCAAACAAGTCCAAGTCACATGCATATGGCCCACTAGGCCCAAATCACATTCATATG
56003144 GCCCA
1 GCCCA
56003149 TTAGTCCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
55 1 0.02
56 8 0.16
57 24 0.47
58 18 0.35
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (59 bp):
GCCCAAACAAGTCCAAGTCACATGCATATGGCCCACTAGGCCCAAATCACATTCATATG
Found at i:56003115 original size:29 final size:28
Alignment explanation
Indices: 56003052--56003168 Score: 153
Period size: 29 Copynumber: 4.1 Consensus size: 28
56003042 CACATACATG
*
56003052 CATATGGCCCACTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
56003080 CATATGGCCCATTAGGTCCAAGTCTCATT
1 CATATGGCCCATTAGGCCCAA-TCTCATT
* *
56003109 CGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCC-AATCTCATT
* *
56003138 CATATGGCCCATTAGTCCCAAATCACATT
1 CATATGGCCCATTAGGCCC-AATCTCATT
56003167 CA
1 CA
56003169 AATACATGCT
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 19 0.24
29 59 0.74
30 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCTCATT
Found at i:56004992 original size:22 final size:21
Alignment explanation
Indices: 56004967--56005008 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56004957 AGTAAAATTT
56004967 TCTATAAAATCTATTTTCAAGC
1 TCTA-AAAATCTATTTTCAAGC
* *
56004989 TCTAAGACTCTATTTTCAAG
1 TCTAAAAATCTATTTTCAAG
56005009 TTATGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (21 bp):
TCTAAAAATCTATTTTCAAGC
Found at i:56009376 original size:50 final size:52
Alignment explanation
Indices: 56009299--56009430 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 52
56009289 ATGTGTTCTA
* * * *
56009299 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCAT
*
56009350 CA-TAAATTATGAT-ATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCAT
1 CATTAAATTAAG-TCATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCAT
*
56009401 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
56009431 ATTTGCTCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
50 32 0.46
51 15 0.21
52 23 0.33
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (52 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCAT
Found at i:56022851 original size:15 final size:15
Alignment explanation
Indices: 56022797--56022876 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
56022787 CAAAAATAAC
*
56022797 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
56022811 AATAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56022826 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56022841 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
56022856 AAGAGATCCA-AGATA
1 AAGAAATCCAGA-ATA
56022871 AAGAAA
1 AAGAAA
56022877 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56022881 original size:15 final size:15
Alignment explanation
Indices: 56022808--56022885 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56022798 AGAAAACCGA
*
56022808 ATAAATAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56022823 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56022837 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
56022852 AATAAAGAGATCCAAG
1 -ATAAAGAAATCCAAG
*
56022868 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56022883 ATA
1 ATA
56022886 TGATACTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.85
16 4 0.08
ACGTcount: A:0.58, C:0.15, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56025940 original size:93 final size:93
Alignment explanation
Indices: 56025812--56025982 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56025802 GCCCATAAGT
* ***
56025812 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56025877 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
56025905 GAACTTGGACTCAACTCAACGAGTTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56025970 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56025983 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56025979 original size:46 final size:45
Alignment explanation
Indices: 56025804--56025979 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
56025794 TGTAACCCGC
* **
56025804 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGAATTCGCAT
*
56025850 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** * *
56025896 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGAAATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-AATTCGCAT
*
56025943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56025980 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 65 0.60
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:56027496 original size:29 final size:29
Alignment explanation
Indices: 56027463--56027562 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
56027453 GAATGTGACA
*
56027463 GGGCCTAACGGGCCATATAAATATGATTT
1 GGGCCTAATGGGCCATATAAATATGATTT
* *
56027492 GGGCCTAAT-GGCCATATATAA-GTGGTTT
1 GGGCCTAATGGGCCATATA-AATATGATTT
* *
56027520 GGGCCTAATTGGCCATATGAATATGA-TT
1 GGGCCTAATGGGCCATATAAATATGATTT
*
56027548 GGGCTTAATGGGCCA
1 GGGCCTAATGGGCCA
56027563 AATACAGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
GGGCCTAATGGGCCATATAAATATGATTT
Found at i:56032726 original size:51 final size:52
Alignment explanation
Indices: 56032670--56032770 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
56032660 CCTCTTCCCT
* * *
56032670 AAAAGCCGAAAACCCTT-TTGTT-TTCTTTCTTTTCTTTCTGTCGATTTCTCC
1 AAAAGCCGAAAACCCTTGTTCTTCTT-TTTATTTTCCTTCTGTCGATTTCTCC
* *
56032721 AAAAGCTGAAAACCCTTGTTCTTCTTTTTATTTTCCTTGTGTCGATTTCT
1 AAAAGCCGAAAACCCTTGTTCTTCTTTTTATTTTCCTTCTGTCGATTTCT
56032771 TTGTTTCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 16 0.37
52 25 0.58
53 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.48
Consensus pattern (52 bp):
AAAAGCCGAAAACCCTTGTTCTTCTTTTTATTTTCCTTCTGTCGATTTCTCC
Found at i:56033393 original size:24 final size:24
Alignment explanation
Indices: 56033344--56033394 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
56033334 ATGAATCGAC
* *
56033344 AAAAGCTGAAATGCCGAAATGCCA
1 AAAAGCTGAAATGCCGAAAAGACA
*
56033368 AAAAGCTGAAATGCTGAAAAGACA
1 AAAAGCTGAAATGCCGAAAAGACA
56033392 AAA
1 AAA
56033395 GTATGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.20, T:0.12
Consensus pattern (24 bp):
AAAAGCTGAAATGCCGAAAAGACA
Found at i:56033659 original size:29 final size:29
Alignment explanation
Indices: 56033627--56033715 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
56033617 TCGGCCCAAC
56033627 GGGCCATATAAATGTGATTTGGGCCTAAT
1 GGGCCATATAAATGTGATTTGGGCCTAAT
* *
56033656 GGGCCATA-AACAGGTGGTTTGGGCCTAAT
1 GGGCCATATAA-ATGTGATTTGGGCCTAAT
* * * *
56033685 TGGCCATATGAATATGA-TTGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCCTAAT
56033713 GGG
1 GGG
56033716 AAAGATGCAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 14 0.29
29 34 0.69
30 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGGCCTAAT
Found at i:56036659 original size:27 final size:26
Alignment explanation
Indices: 56036615--56036666 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56036605 GGACTACCGA
*
56036615 TTTACCCCTAGAGGGTAAAATGACTAT
1 TTTACCCCTAGAGCGT-AAATGACTAT
* *
56036642 TTTACCCCTCGTGCGTAAATGACTA
1 TTTACCCCTAGAGCGTAAATGACTA
56036667 ACTTGTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (26 bp):
TTTACCCCTAGAGCGTAAATGACTAT
Found at i:56037308 original size:27 final size:26
Alignment explanation
Indices: 56037264--56037315 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56037254 CTCACTGCAA
*
56037264 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
56037291 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
56037316 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:56037391 original size:27 final size:26
Alignment explanation
Indices: 56037353--56037412 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56037343 CCACATATAT
*
56037353 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
56037379 ATATTTGTATCTGGTGACTTTGCCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
56037406 ATATCTG
1 ATATCTG
56037413 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:56044483 original size:46 final size:48
Alignment explanation
Indices: 56044405--56044578 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 48
56044395 CATATCTTAA
56044405 GCCGATGCCATATCCCAAACATGGTCTTACACTGACTATCGTCTCGTA-
1 GCCGATGCCATATCCCAAACATGGTCTTACACTGACTATCGTCTCG-AG
* * * *
56044453 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTAACGTCTCGAG
1 GCCGATGCCATATCCCAAACATGGTCTTACACTGACTATCGTCTCGAG
* ** * *
56044499 GCCGTTG-CATATCCCAAACAT-GTCTTACACT-AGCCCTCGTCTCAAT
1 GCCGATGCCATATCCCAAACATGGTCTTACACTGA-CTATCGTCTCGAG
* **
56044545 GCCGATGCCATGTCCCTGACATGGTCTTACACTG
1 GCCGATGCCATATCCCAAACATGGTCTTACACTG
56044579 GCTCTCATAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 63 0.61
47 23 0.22
48 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATATCCCAAACATGGTCTTACACTGACTATCGTCTCGAG
Found at i:56044614 original size:94 final size:91
Alignment explanation
Indices: 56044405--56044626 Score: 236
Period size: 94 Copynumber: 2.4 Consensus size: 91
56044395 CATATCTTAA
* *
56044405 GCCGATGCCATATCCCAAACATGGTCTTACACT-GACTATCGTCTCGTAGCCGATGCATGTCCCA
1 GCCGATG-CATATCCCAAACAT-GTCTTACACTAG-CCATCGTCTCATAGCCGATGCATGTCCCA
*
56044469 GACATGTCTTACACTGGCTAACGTCTCGAG
63 GACATGTCTTACACTGGCT-ACGTCTAGAG
* * *
56044499 GCCGTTGCATATCCCAAACATGTCTTACACTAGCCCTCGTCTCA-ATGCCGATGCCATGTCCCTG
1 GCCGATGCATATCCCAAACATGTCTTACACTAGCCATCGTCTCATA-GCCGATG-CATGTCCCAG
*
56044563 ACATGGTCTTACACTGGCT-C-TCATAATATG
64 ACAT-GTCTTACACTGGCTACGTC-T-AGA-G
* * *
56044593 GTCGATGCATATCCCAGACATGTCTTATACTAGC
1 GCCGATGCATATCCCAAACATGTCTTACACTAGC
56044627 TCACACACAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
91 3 0.03
92 27 0.25
93 29 0.26
94 51 0.46
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (91 bp):
GCCGATGCATATCCCAAACATGTCTTACACTAGCCATCGTCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTACGTCTAGAG
Found at i:56057383 original size:50 final size:50
Alignment explanation
Indices: 56057257--56057541 Score: 272
Period size: 50 Copynumber: 5.7 Consensus size: 50
56057247 TAACTGAAGT
* * * *
56057257 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAA
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
* *
56057306 AATCTGATACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
* * * * *
56057356 CATCTGATACACGTAGTAGACTGCACTTAGTACTACACACGTGA-TTGAAGT
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-C
* * * ** *
56057407 TGTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
* * * *
56057457 TATCTGGTACACGTAGTATCCTGAACTTAGTACTACACACGTG-CCTAAAAC
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AAC
* * * * *
56057508 CATCTTAAACACATAG-CGCCTGCACATAGTACTA
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTA
56057542 TACATGTGTT
Statistics
Matches: 190, Mismatches: 40, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
49 45 0.24
50 93 0.49
51 51 0.27
52 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
Found at i:56057523 original size:101 final size:99
Alignment explanation
Indices: 56057257--56057549 Score: 311
Period size: 101 Copynumber: 2.9 Consensus size: 99
56057247 TAACTGAAGT
* * *
56057257 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAAAATCTGATACACATA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-CCTAAAAATCTGATACACATA
* *
56057321 GTAGCCTACACTTAGTACTACACACGTGACCTAAC
65 GTAGCCTGCACTTAGTACTACACATGTGACCTAAC
* * * ** *** * * **
56057356 CATCTGATACACGTAGTAGACTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCT-AA-AAATCTGATACACAT
56057421 AGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
64 AGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
* * * *
56057457 TATCTGGTACACGTAGTATCCTGAACTTAGTACTACACACGTGCCTAAAACCATCTTAAACACAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCTAAAA--ATCTGATACACAT
* * *
56057522 AG-CGCCTGCACATAGTACTATACATGTG
64 AGTAGCCTGCACTTAGTACTACACATGTG
56057550 TTCTCACAAT
Statistics
Matches: 153, Mismatches: 36, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
99 37 0.24
100 27 0.18
101 89 0.58
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (99 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCTAAAAATCTGATACACATAG
TAGCCTGCACTTAGTACTACACATGTGACCTAAC
Found at i:56060193 original size:50 final size:50
Alignment explanation
Indices: 56060074--56060270 Score: 234
Period size: 50 Copynumber: 3.9 Consensus size: 50
56060064 TAGCCGAAGC
* * * * *
56060074 TATCTGGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * *
56060123 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * *
56060173 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * *
56060224 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
56060271 CACAATAGCT
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 38 0.31
50 46 0.37
51 40 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:56060255 original size:101 final size:99
Alignment explanation
Indices: 56060075--56060270 Score: 266
Period size: 101 Copynumber: 2.0 Consensus size: 99
56060065 AGCCGAAGCT
* * * * *
56060075 ATCTGGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTAATACACACGCGACCAATTATCAGGTACACATAGT
*
56060140 AGCCTACACTTAGTACTACACACGTGACCTAACC
66 AGCCTACACTTAGTACTACACACATGACCTAACC
* * * * *
56060174 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTAATACACACGCGA-CCAA-TTATCAGGTACACATA
*
56060239 GTAGCCTGCACTTAGTACTACACACATGACCT
64 GTAGCCTACACTTAGTACTACACACATGACCT
56060271 CACAATAGCT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 37 0.45
100 3 0.04
101 43 0.52
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTAATACACACGCGACCAATTATCAGGTACACATAGT
AGCCTACACTTAGTACTACACACATGACCTAACC
Found at i:56070260 original size:21 final size:19
Alignment explanation
Indices: 56070222--56070260 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
56070212 CTGTAATTTG
*
56070222 AAAATTTTCTATGTTTTCC
1 AAAATTTTCTAAGTTTTCC
56070241 AAAATTTTTCCTAAGTTTTC
1 AAAA-TTTT-CTAAGTTTTC
56070261 AGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (19 bp):
AAAATTTTCTAAGTTTTCC
Found at i:56072849 original size:39 final size:39
Alignment explanation
Indices: 56072735--56072859 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
56072725 TAAAAACATG
* * * * *
56072735 TATTAAAGATGTCCAAACTATGACATAATTAAAAAATCC
1 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCT
*
56072774 TATTAATGATGTTTAAATTATGACATAATTAAAAACTCT
1 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCT
56072813 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCAT
1 TATTAATGATGTTCAAATTATGACATAATTAAAAACTC-T
56072853 GTATTAA
1 -TATTAA
56072860 CAAAGAAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 70 0.91
40 1 0.01
41 6 0.08
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (39 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAAACTCT
Found at i:56073049 original size:38 final size:39
Alignment explanation
Indices: 56072962--56073051 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
56072952 AAAAATCCAT
* *
56072962 TTATGATATAATTAAAAACTCTTATTAATGATGTTCAAA
1 TTATGACATAATTAAAAACTCATATTAATGATGTTCAAA
56073001 TTATGACATAATTAAAAACTCATATTAATGATGTT-AAA
1 TTATGACATAATTAAAAACTCATATTAATGATGTTCAAA
56073039 TTATGACATAATT
1 TTATGACATAATT
56073052 TGTAACACCC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 16 0.33
39 33 0.67
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (39 bp):
TTATGACATAATTAAAAACTCATATTAATGATGTTCAAA
Found at i:56075556 original size:27 final size:26
Alignment explanation
Indices: 56075539--56075608 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
56075529 ATATTAAGTC
56075539 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
56075566 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
56075594 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56075609 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:56075602 original size:28 final size:28
Alignment explanation
Indices: 56075539--56075636 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
56075529 ATATTAAGTC
*
56075539 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56075566 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56075594 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56075623 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56075637 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56083675 original size:28 final size:28
Alignment explanation
Indices: 56083612--56083709 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
56083602 ATATTAAGTC
*
56083612 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56083639 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56083667 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
56083696 CACACACTTAGTGC
1 CGCACACTTAGTGC
56083710 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56085931 original size:14 final size:14
Alignment explanation
Indices: 56085912--56085939 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56085902 CGACTTTAAC
56085912 ACATATTTATATAT
1 ACATATTTATATAT
56085926 ACATATTTATATAT
1 ACATATTTATATAT
56085940 TTATCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ACATATTTATATAT
Found at i:56089590 original size:40 final size:39
Alignment explanation
Indices: 56089401--56089583 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
56089391 GAATGATGTC
* * * *
56089401 CGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* *
56089440 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTT
1 -CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-AT
*
56089481 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-T
* * *
56089520 CAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
56089560 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
56089584 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 76 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56089605 original size:79 final size:78
Alignment explanation
Indices: 56089433--56089606 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 78
56089423 GTGCTAAGTG
* **
56089433 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
56089498 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* * *
56089512 ACTAAATTCAGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATA-TCCGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGA
*
56089575 AGGCATTTGAACGAG-T
62 AGGCATTGGAACGAGTT
56089591 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
56089607 ATTCCAAAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
78 3 0.04
79 51 0.65
80 25 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTT
Found at i:56098633 original size:22 final size:21
Alignment explanation
Indices: 56098580--56098633 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
56098570 TGGCCTGCAG
**
56098580 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGACCA
* * *
56098601 CACAGGTGTGTCCCTTGGACCA
1 CACGGGCGTGTCCC-AGGACCA
56098623 CACGGGCGTGT
1 CACGGGCGTGT
56098634 GAGCCCTGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCAGGACCA
Found at i:56103398 original size:43 final size:42
Alignment explanation
Indices: 56103351--56103449 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
56103341 TTCTAGACGT
* *
56103351 GGTCTTACATGTAATCAAACATTGATGCC-ACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAACA-CGATGCCGA-TGTCCCAAACAG
* * * *
56103394 GGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACAT
1 GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG
*
56103436 GATCTTACATGTAA
1 GGTCTTACATGTAA
56103450 AACAGAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG
Found at i:56103473 original size:44 final size:41
Alignment explanation
Indices: 56103374--56103474 Score: 96
Period size: 42 Copynumber: 2.3 Consensus size: 41
56103364 ATCAAACATT
* * *
56103374 GATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAGATAC
1 GATGCCAC-GTCCCAAACAGGATCTTACATGAAAACAGATAC
* *
56103416 GATGCCGATGTCCCAAACATGATCTTACATGTAAAACAGA-AGTC
1 GATGCC-ACGTCCCAAACAGGATCTTACATG-AAAACAGATA--C
56103460 GATGCCAACGTCCCA
1 GATGCC-ACGTCCCA
56103475 GACGTGGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.54
43 8 0.17
44 14 0.29
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
GATGCCACGTCCCAAACAGGATCTTACATGAAAACAGATAC
Found at i:56110565 original size:17 final size:17
Alignment explanation
Indices: 56110543--56110576 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56110533 CAAAAAAAGT
56110543 AGAAATTGAATCAGAGA
1 AGAAATTGAATCAGAGA
56110560 AGAAATTGAATCAGAGA
1 AGAAATTGAATCAGAGA
56110577 CTGAATGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (17 bp):
AGAAATTGAATCAGAGA
Found at i:56118507 original size:42 final size:42
Alignment explanation
Indices: 56118407--56118520 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
56118397 AACATATACA
* *
56118407 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATTG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAACATTG
* *
56118450 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-TG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAACATTG
*
56118492 ATGCTGATGTCCCAGACATGGTCTTACAC
1 ATGC-CATGTCCCAGACATGGTCTTACAC
56118521 ATAAAACAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAACATTG
Found at i:56119678 original size:13 final size:13
Alignment explanation
Indices: 56119660--56119694 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
56119650 ACAAACGATT
56119660 AAATTTTCATACG
1 AAATTTTCATACG
56119673 AAATTTTCATACG
1 AAATTTTCATACG
56119686 AAATTTTCA
1 AAATTTTCA
56119695 CACATACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:56136831 original size:43 final size:42
Alignment explanation
Indices: 56136768--56136930 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
56136758 GGAAAGCTCG
*
56136768 TACAATGCCAAC-GTCCCAAACATGGTCTTACATGTAATCAAA
1 TACAATGCC-ACTGTCCCAAACATGGTCTTACACGTAATCAAA
* *
56136810 TACCAATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCACTGTCCCAAACATGGTCTTACACGTAATCAAA
** *
56136853 TATGATGCTGA-TGTCCCAAACATGGTCTTACACGTAAATCATAA
1 TACAATGC-CACTGTCCCAAACATGGTCTTACACGT-AATCA-AA
* * * *
56136897 GT-CGATGCCAATGTCCTAGACATGGTCTTACACG
1 -TACAATGCCACTGTCCCAAACATGGTCTTACACG
56136931 AAAACACATA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
42 30 0.29
43 43 0.42
44 28 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCACTGTCCCAAACATGGTCTTACACGTAATCAAA
Found at i:56137955 original size:45 final size:45
Alignment explanation
Indices: 56137870--56138000 Score: 196
Period size: 45 Copynumber: 3.0 Consensus size: 45
56137860 CCGAATTCAT
*
56137870 TCACCGGCATT-TCGCCTGCTAGGCTTC-AA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGC-TCAAAGGCCCGAATAGTATC
*
56137913 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
56137958 TCACGGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
56138001 CTGAGCGATA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
43 12 0.15
44 14 0.17
45 55 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:56141783 original size:21 final size:20
Alignment explanation
Indices: 56141759--56141800 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
56141749 AAACTTGTAT
*
56141759 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACA-TCAAA
*
56141780 ATCTATCATCAAACATCAAA
1 ATCTATCAACAAACATCAAA
56141800 A
1 A
56141801 CACACATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (20 bp):
ATCTATCAACAAACATCAAA
Found at i:56144705 original size:71 final size:71
Alignment explanation
Indices: 56144589--56144730 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
56144579 AATTGGTAAA
*
56144589 ATGGCTTGTATATTTTAAGTGTGGCATGTATAGCAATATACTCACTTTGTGTAAATGATCATATG
1 ATGGCTTGTATATTTTAAGTGTGCCATGTATAGCAATATACTCACTTTGTGTAAATGATCATATG
56144654 ATATGG
66 ATATGG
56144660 ATGGCTTGTATATTTTAAGTGTGCCATGTATAGCAATATACTCACTTTGTGTAAATGATCATATG
1 ATGGCTTGTATATTTTAAGTGTGCCATGTATAGCAATATACTCACTTTGTGTAAATGATCATATG
56144725 ATATGG
66 ATATGG
56144731 TTATGGTTTG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (71 bp):
ATGGCTTGTATATTTTAAGTGTGCCATGTATAGCAATATACTCACTTTGTGTAAATGATCATATG
ATATGG
Found at i:56145448 original size:13 final size:13
Alignment explanation
Indices: 56145430--56145454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56145420 CCAAGCACAT
56145430 GCCCATGTCCTTG
1 GCCCATGTCCTTG
56145443 GCCCATGTCCTT
1 GCCCATGTCCTT
56145455 CACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.20, T:0.32
Consensus pattern (13 bp):
GCCCATGTCCTTG
Found at i:56150531 original size:20 final size:20
Alignment explanation
Indices: 56150506--56150548 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
56150496 ACTACTTGAC
56150506 ACTTTGACTATCTCCTCTGG
1 ACTTTGACTATCTCCTCTGG
56150526 ACTTTGACTATCTCCTCTGG
1 ACTTTGACTATCTCCTCTGG
56150546 ACT
1 ACT
56150549 CCAAGTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40
Consensus pattern (20 bp):
ACTTTGACTATCTCCTCTGG
Found at i:56152463 original size:48 final size:48
Alignment explanation
Indices: 56152380--56152604 Score: 261
Period size: 48 Copynumber: 4.7 Consensus size: 48
56152370 TGTGTAACCA
* * * * * * *
56152380 TGTAAGACCATATCTGGGATATGGAATCGGTATTGTTATGTGATCCCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG
* * * * *
56152428 TATAAGACCATGTTTGGGACATGGCATCAGCATTGTTTCGTGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG
**
56152476 TGTAAGACCATGTCTAAGACATGGCATCGGCATTGTTACGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG
* ** * *
56152524 TGTAAAACCATGTCTGAAACATGGCATCTGCATTGTTACCTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG
* *
56152572 TGTAATACCATGTCTGGGACATGGCATCTGCAT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT
56152605 GAGGCATCGT
Statistics
Matches: 150, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG
Found at i:56154519 original size:20 final size:18
Alignment explanation
Indices: 56154494--56154537 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
56154484 CAGGTGGGGG
56154494 ACACGGACGTGTCCTGAGCC
1 ACACGGACGTGT-CTGA-CC
* *
56154514 ACACGGGCGTGTGTGACC
1 ACACGGACGTGTCTGACC
56154532 ACACGG
1 ACACGG
56154538 CCTGCCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14
Consensus pattern (18 bp):
ACACGGACGTGTCTGACC
Found at i:56156651 original size:93 final size:93
Alignment explanation
Indices: 56156492--56156663 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56156482 CGCCCATAAG
* *
56156492 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56156557 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
56156585 CGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56156650 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56156664 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56156660 original size:46 final size:46
Alignment explanation
Indices: 56156485--56156660 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
56156475 TGTAACCCGC
* * *
56156485 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56156531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
56156581 -C-TCA-CGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56156624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56156661 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56161206 original size:190 final size:191
Alignment explanation
Indices: 56160883--56161353 Score: 845
Period size: 190 Copynumber: 2.5 Consensus size: 191
56160873 CAAGATAAAT
* *
56160883 ATATGTATATGTGGTAAATCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATGAGATATGTATATGTGGTAA
*
56160948 AGCCGAATGGCTAATGTGAAATATATGTGTGATATGTGTATGTGGTAAAGCCGAATGGCGAATGT
66 AGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGT
56161013 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA-TGAG
131 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATAGTGAG
*
56161073 ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATAAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATGAGATATGTATATGTGGTAA
* *
56161138 AGCCGAATGGCTAATGTGATATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGT
*
56161203 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
131 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA-GTGAG
*
56161265 ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATGAGATATGTATATGTGGTAA
*
56161330 AGCCGAATGGCTAGTGTGAAATAT
66 AGCCGAATGGCTAATGTGAAATAT
56161354 GTAGGCGATG
Statistics
Matches: 268, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 180 0.67
192 88 0.33
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (191 bp):
ATATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGT
GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATAGTGAG
Found at i:56161356 original size:48 final size:48
Alignment explanation
Indices: 56160883--56161353 Score: 770
Period size: 48 Copynumber: 9.9 Consensus size: 48
56160873 CAAGATAAAT
* *
56160883 ATATGTATATGTGGTAAATCCGAATGGCGAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
56160931 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
56160979 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
56161027 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
56161073 ATATGTATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGAG
* * *
56161121 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
56161169 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
56161217 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
56161265 ATATGTATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGAG
*
56161313 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
56161354 GTAGGCGATG
Statistics
Matches: 393, Mismatches: 24, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
45 1 0.00
46 42 0.11
47 5 0.01
48 343 0.87
49 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:56161556 original size:37 final size:37
Alignment explanation
Indices: 56161506--56161580 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
56161496 AATATATTCC
* * *
56161506 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATAACTACGTATGGAGATTTCGTCT
*
56161543 GGGTAAGACCCGATAACTTCGTATGGAGATTTCGTCT
1 GGGTAAGACCCGATAACTACGTATGGAGATTTCGTCT
56161580 G
1 G
56161581 AGCTAAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (37 bp):
GGGTAAGACCCGATAACTACGTATGGAGATTTCGTCT
Found at i:56164903 original size:15 final size:16
Alignment explanation
Indices: 56164883--56164912 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56164873 CCTTGTATTG
56164883 GTACC-AATTGGGTGT
1 GTACCAAATTGGGTGT
56164898 GTACCAAATTGGGTG
1 GTACCAAATTGGGTG
56164913 GCAAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.30
Consensus pattern (16 bp):
GTACCAAATTGGGTGT
Found at i:56167026 original size:25 final size:25
Alignment explanation
Indices: 56166993--56167041 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
56166983 ATGTGAAAGG
*
56166993 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
56167018 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
56167042 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:56167046 original size:100 final size:102
Alignment explanation
Indices: 56166811--56167168 Score: 546
Period size: 103 Copynumber: 3.5 Consensus size: 102
56166801 TTGTATATAA
* * *
56166811 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGATGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-AT--ACCATATCT
*
56166875 TTGAAATTTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
63 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
56166916 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATACCATATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACCATATCTTTG
56166981 AAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
56167017 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATAT-CCATTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACCA---TATCT
*
56167080 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
63 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
56167119 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGA
56167169 GATCCACCAA
Statistics
Matches: 239, Mismatches: 8, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
99 3 0.01
100 51 0.21
101 30 0.13
102 43 0.18
103 64 0.27
105 47 0.20
106 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACCATATCTTTG
AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:56174316 original size:102 final size:103
Alignment explanation
Indices: 56174139--56174499 Score: 553
Period size: 102 Copynumber: 3.6 Consensus size: 103
56174129 TGTATATAAA
** *
56174139 AGGGGTTGCTGTGTGCTGATTCCCCGATT-A-TGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT--TCCACCATATCT
56174201 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
56174241 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATTCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATTCCACCATATCTTT
56174305 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
56174343 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGA-T--ATCCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATTCCA-CCATATCTT
*
56174404 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
56174442 AGGGGTTGCTAAGTG-TGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGA-TTCCACCA
56174500 ATAACGGTTA
Statistics
Matches: 243, Mismatches: 6, Indels: 20
0.90 0.02 0.07
Matches are distributed among these distances:
98 10 0.04
99 68 0.28
100 16 0.07
101 26 0.11
102 81 0.33
103 41 0.17
104 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATTCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:56181712 original size:100 final size:101
Alignment explanation
Indices: 56181385--56181737 Score: 509
Period size: 102 Copynumber: 3.5 Consensus size: 101
56181375 GTTGTATATA
* *
56181385 AGGGGTTGCTATGTGCTGATTCCCCGATTCAATTGGT-GTGCTATGTGCG-TGATCCACCATA-C
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTC-ATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
*
56181447 TTTGAATTGAAAAGGGCGGTTGCTATGTGCTGATTCCCCG
63 TTTGAAATGAAAAGGG-GGTTGCTATGTGCTGATTCCCCG
* **
56181487 AGGGGTTGCTAAGTGCTGATTCCCGGTTCATT-GTGGTGCTAAGTGCGATATTTACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
*
56181551 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* ***
56181589 AGGGGTTGCTAAGTGCTGATTCCCGGTTCATTGGTGGTGCTAAGTGCGAT-TCCATTGTATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
56181653 GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
56181689 AGGGGTTGCTAAGTGCTGATTCCCGATTCAGTGGTGGTGCTAAGTGCGA
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGA
56181738 GATCACAATA
Statistics
Matches: 230, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
99 2 0.01
100 74 0.32
101 59 0.26
102 78 0.34
103 17 0.07
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:56189731 original size:40 final size:40
Alignment explanation
Indices: 56189657--56189840 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
56189647 GCTACTCGTT
*
56189657 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56189696 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
56189736 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
56189775 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56189816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56189841 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 44 0.35
40 67 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56189756 original size:79 final size:79
Alignment explanation
Indices: 56189659--56189840 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
56189649 TACTCGTTCA
* * *
56189659 AATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
56189722 TTTAGTAAC-TCGCACC
64 TATAGTAACTTAGCA-C
**
56189738 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
56189803 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
56189817 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
56189841 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 70 0.79
80 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:56197813 original size:79 final size:81
Alignment explanation
Indices: 56197704--56197886 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
56197694 TACTCGTTCA
* *
56197704 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
56197767 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
56197784 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
56197847 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
56197863 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56197887 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56197886 original size:40 final size:40
Alignment explanation
Indices: 56197683--56197886 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
56197673 CGGAATTTAA
** *
56197683 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56197723 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56197763 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56197802 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56197842 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56197882 CCGGA
1 CCGGA
56197887 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56207620 original size:43 final size:42
Alignment explanation
Indices: 56207559--56207672 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
56207549 GGAATTTAGA
*
56207559 AATCCGAGCTTGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGTG-G
* * * *
56207602 AATCCGAACTTGTTGAGTGATCCAAGTTTGTGATCTATGTGG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGTGG
* * *
56207644 CATCC-AAGCTAGTTGAGAGGTCCGAGTTC
1 AATCCGAA-CTTGTTGAGTGGTCCGAGTTC
56207673 ATTATGGATG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.03
42 21 0.36
43 36 0.61
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (42 bp):
AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGTGG
Found at i:56211946 original size:24 final size:24
Alignment explanation
Indices: 56211882--56211939 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
56211872 ATACATGCCA
56211882 TTATACCAAAAGTAGTTTTGCTAT
1 TTATACCAAAAGTAGTTTTGCTAT
56211906 TTATACCAAAAGTAGTTTTGCTAT
1 TTATACCAAAAGTAGTTTTGCTAT
56211930 TTATACCAAA
1 TTATACCAAA
56211940 GTGAGTTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (24 bp):
TTATACCAAAAGTAGTTTTGCTAT
Found at i:56220254 original size:37 final size:37
Alignment explanation
Indices: 56220204--56220282 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56220194 TTATTACGAA
* *
56220204 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
56220241 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
56220278 GTCTT
1 GTCTT
56220283 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:56220479 original size:47 final size:47
Alignment explanation
Indices: 56220401--56220701 Score: 503
Period size: 47 Copynumber: 6.4 Consensus size: 47
56220391 CCCTTCGAGA
* * * * * * *
56220401 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56220448 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56220495 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56220542 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56220589 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56220636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56220683 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56220702 GTCTTGGCTG
Statistics
Matches: 239, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 239 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56228106 original size:48 final size:48
Alignment explanation
Indices: 56228051--56228333 Score: 266
Period size: 48 Copynumber: 5.9 Consensus size: 48
56228041 GGTGAATTGT
* * * * *
56228051 CGATGCTATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
* * * * * *
56228099 CGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTC-ATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-GGC
* ** * *
56228147 TGATGCCATGTCCCAGACACAGTCTTACACTGGCTCTCATGAT-GTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGC
* * * *
56228195 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACAAC-ATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-GGC
* * * * *
56228243 CAATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
* * *
56228291 CGATGCCATGTCCCAGATATGGTCTTACACTGGCACACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
56228334 ACCCAAATGT
Statistics
Matches: 185, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 2 0.01
48 182 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
Found at i:56228322 original size:96 final size:96
Alignment explanation
Indices: 56228053--56228324 Score: 341
Period size: 96 Copynumber: 2.8 Consensus size: 96
56228043 TGAATTGTCG
* * * * * *
56228053 ATGCTATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCTATGTCCTAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACA
* * * **
56228118 TGGTCTTACACTAGCTCTCGTCTCATTGCTG
66 TGGTCTTACACTGGCTCTCGACACATTGCCA
* * ** * *
56228149 ATGCCATGTCCCAGACACAGTCTTACACTGGCTCTCATGAT-GTGGTCGATGCCATATCCCAGAC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTGGCCGATGCCATGTCCCAGAC
56228213 ATGGTCTTACACTGGCTCTC-ACAACATTGCCA
65 ATGGTCTTACACTGGCTCTCGAC-ACATTGCCA
* *
56228245 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGATGCCATGTCCCAGATA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACA
56228310 TGGTCTTACACTGGC
66 TGGTCTTACACTGGC
56228325 ACACATATCA
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 3 0.02
96 144 0.97
97 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCGACACATTGCCA
Found at i:56236453 original size:40 final size:40
Alignment explanation
Indices: 56236369--56236593 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
56236359 TTGAATGATG
* * * *
56236369 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56236409 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56236449 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56236488 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56236528 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56236569 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56236594 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56236615 original size:119 final size:119
Alignment explanation
Indices: 56236369--56236626 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
56236359 TTGAATGATG
* *
56236369 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
56236434 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
56236488 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
56236551 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
56236608 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56236627 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:56241713 original size:48 final size:48
Alignment explanation
Indices: 56241658--56241887 Score: 189
Period size: 48 Copynumber: 4.8 Consensus size: 48
56241648 AGGGTGAATT
* *
56241658 GCCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* ** * * * * *
56241706 GCCGATGCCATGTCCCAGACATGGTCTTACTTTAGCTCTCGTCTC-ATT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGA-G
* * * * * *
56241754 GTCGATGCCATGTCCCAGACACGGTCTTACACTGGCCCTCATGAT-GTG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATG-TCGAG
* * * * * *
56241802 GCCGATGCCATGTTCTAAACATGGTCTTACACTAGCGT-ACATATCAAT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGC-TCACATGTCGAG
*
56241850 GCCGATGCCATG-TCCTAGACATGGTCTTATACTGGCTC
1 GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTC
56241888 TCACAATATC
Statistics
Matches: 139, Mismatches: 36, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
47 5 0.04
48 133 0.96
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:56241824 original size:96 final size:96
Alignment explanation
Indices: 56241655--56241890 Score: 269
Period size: 96 Copynumber: 2.5 Consensus size: 96
56241645 AAAAGGGTGA
* * * *
56241655 ATTGCCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCCGATGCCATGTC
* ** * * *
56241720 CCAGACATGGTCTTACTTTAGC-TCTCGTCTC
66 CCAAACATGGTCTTACACTAGCGT-ACATATC
* * * *
56241751 ATTGTCGATGCCATGTCCCAGACACGGTCTTACACTGGCCCTCATGAT-GTGGCCGATGCCATGT
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATG-TCGAGGCCGATGCCATGT
* *
56241815 TCTAAACATGGTCTTACACTAGCGTACATATC
65 CCCAAACATGGTCTTACACTAGCGTACATATC
* * *
56241847 AATGCCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCA
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
56241891 CAATATCGCC
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
96 114 0.98
97 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCCGATGCCATGTC
CCAAACATGGTCTTACACTAGCGTACATATC
Found at i:56241907 original size:31 final size:31
Alignment explanation
Indices: 56241869--56241929 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
56241859 ATGTCCTAGA
* * *
56241869 CATGGTCTTATACTGGCTCTCACAATATCGC
1 CATGGTCTTACACTAGCTCTCACAACATCGC
56241900 CATGGTCTTACACTAGCTCTCACAACATCG
1 CATGGTCTTACACTAGCTCTCACAACATCG
56241930 TCGATGCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.30
Consensus pattern (31 bp):
CATGGTCTTACACTAGCTCTCACAACATCGC
Found at i:56241998 original size:46 final size:48
Alignment explanation
Indices: 56241900--56242007 Score: 139
Period size: 46 Copynumber: 2.3 Consensus size: 48
56241890 ACAATATCGC
* *
56241900 CATGGTCTTACACTAGCTCTCACAACATCGTCGATGCCATGTTCCAAA
1 CATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTCCCAAA
** * * *
56241948 CATGGTCTTACACTAGCTCT-A-GTCATGGCCGATGTCATGTCCCAGA
1 CATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTCCCAAA
56241994 CATGGTCTTACACT
1 CATGGTCTTACACT
56242008 GGTACACATA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 32 0.60
47 1 0.02
48 20 0.38
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTCCCAAA
Found at i:56242143 original size:17 final size:19
Alignment explanation
Indices: 56242121--56242155 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
56242111 ATTCAACCAT
56242121 ATTATACA-A-AATAAATC
1 ATTATACACATAATAAATC
56242138 ATTATACACATAATAAAT
1 ATTATACACATAATAAAT
56242156 ATAAAGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTATACACATAATAAATC
Found at i:56244480 original size:53 final size:54
Alignment explanation
Indices: 56244412--56244618 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
56244402 TTCCTTTTTA
* * * *
56244412 AACTTACCATTGCCATGTCTTGATATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
56244465 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
56244519 TAGTTTATCAATGCCATG-TTTAGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
56244574 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56244619 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56253095 original size:21 final size:20
Alignment explanation
Indices: 56253055--56253095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
56253045 GTAAACATGA
* *
56253055 AATTTGTTTCAAAAAGGGTT
1 AATTTGTTTAAAAAAAGGTT
56253075 AATTTGTTTTAAAAAAAGGTT
1 AATTTG-TTTAAAAAAAGGTT
56253096 TTGAAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (20 bp):
AATTTGTTTAAAAAAAGGTT
Found at i:56257466 original size:47 final size:47
Alignment explanation
Indices: 56257396--56257789 Score: 599
Period size: 47 Copynumber: 8.4 Consensus size: 47
56257386 CCCTTCGGGA
* * *
56257396 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * *
56257443 CTTATCACATATATGCACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56257490 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56257537 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56257584 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56257631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56257678 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56257725 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56257772 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56257790 CTTGTACATC
Statistics
Matches: 318, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 318 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56267483 original size:22 final size:21
Alignment explanation
Indices: 56267451--56267496 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
56267441 TTCATTTTTT
56267451 TTTATTTTTAAGTTTTTTATA
1 TTTATTTTTAAGTTTTTTATA
*
56267472 TTTACTTTTTAAGTTTTTTTTA
1 TTTA-TTTTTAAGTTTTTTATA
56267494 TTT
1 TTT
56267497 GTCATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTATTTTTAAGTTTTTTATA
Found at i:56267504 original size:22 final size:22
Alignment explanation
Indices: 56267445--56267496 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
56267435 TACTTTTTCA
*
56267445 TTTTTT-TTTA-TTTTTAAGTT
1 TTTTTTATTTACTATTTAAGTT
* *
56267465 TTTTATATTTACTTTTTAAGTT
1 TTTTTTATTTACTATTTAAGTT
56267487 TTTTTTATTT
1 TTTTTTATTT
56267497 GTCATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.18
21 4 0.14
22 19 0.68
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTTATTTACTATTTAAGTT
Found at i:56267511 original size:24 final size:24
Alignment explanation
Indices: 56267484--56267538 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
56267474 TACTTTTTAA
* *
56267484 GTTTTTTTTATTTGTCATTTATTT
1 GTTTTATTTATTTGTCATTTATTG
**
56267508 GTTTTATTTATTTGTTTTTTATTG
1 GTTTTATTTATTTGTCATTTATTG
56267532 GTTTTAT
1 GTTTTAT
56267539 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.75
Consensus pattern (24 bp):
GTTTTATTTATTTGTCATTTATTG
Found at i:56267561 original size:20 final size:20
Alignment explanation
Indices: 56267533--56267659 Score: 98
Period size: 22 Copynumber: 6.2 Consensus size: 20
56267523 TTTTTATTGG
*
56267533 TTTTATAAAATTTTAAATGTA
1 TTTT-TAAAATTTTAAATATA
* * *
56267554 TATTTAAATGTTTTATAATATT
1 TTTTTAAA-ATTTTA-AATATA
56267576 TTTTTAAAATTTTAAATATA
1 TTTTTAAAATTTTAAATATA
56267596 TTTTT-AAA-TTTAAATATTA
1 TTTTTAAAATTTTAAATA-TA
* *
56267615 TTTTTTAAATTCTTAATATTATT
1 TTTTTAAAATT-TTAA-A-TATA
* *
56267638 TTTTTAATATTATAAA-ATA
1 TTTTTAAAATTTTAAATATA
56267657 TTT
1 TTT
56267660 AAAATATATT
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
18 8 0.09
19 15 0.17
20 17 0.20
21 15 0.17
22 18 0.21
23 11 0.13
24 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTAAAATTTTAAATATA
Found at i:56267616 original size:19 final size:19
Alignment explanation
Indices: 56267565--56267640 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 19
56267555 ATTTAAATGT
56267565 TTTATAATATT-TTTTTAAAA
1 TTTA-AATATTATTTTT-AAA
56267585 TTTTAAATA-TATTTTTAAA
1 -TTTAAATATTATTTTTAAA
56267604 TTTAAATATTATTTTTTAAA
1 TTTAAATATTA-TTTTTAAA
*
56267624 TTCTTAATATTATTTTT
1 TT-TAAATATTATTTTT
56267641 TTAATATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
18 8 0.16
19 6 0.12
20 24 0.48
21 12 0.24
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAAATATTATTTTTAAA
Found at i:56267620 original size:21 final size:21
Alignment explanation
Indices: 56267566--56267658 Score: 88
Period size: 19 Copynumber: 4.5 Consensus size: 21
56267556 TTTAAATGTT
*
56267566 TTAT-AATATT-TTTTTAAAA
1 TTATAAATATTATTTTTTAAA
*
56267585 TTTTAAATA-TA-TTTTTAAA
1 TTATAAATATTATTTTTTAAA
56267604 TT-TAAATATTATTTTTTAAA
1 TTATAAATATTATTTTTTAAA
* *
56267624 TTCTTAATATTATTTTTTTAATA
1 TTATAAATATTA-TTTTTTAA-A
56267647 TTATAAAATATT
1 TTAT-AAATATT
56267659 TAAAATATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
18 6 0.10
19 15 0.25
20 14 0.23
21 8 0.13
22 8 0.13
23 4 0.07
24 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAATATTATTTTTTAAA
Found at i:56267620 original size:42 final size:42
Alignment explanation
Indices: 56267533--56267638 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
56267523 TTTTTATTGG
* **
56267533 TTTTATAAAATTTTAAATGTATATTTAAATGTTTTATAATAT
1 TTTTATAAAATTTTAAATATATATTTAAATGTTAAATAATAT
* * *
56267575 TTTTTTAAAATTTTAAATATATTTTTAAAT-TTAAATATTAT
1 TTTTATAAAATTTTAAATATATATTTAAATGTTAAATAATAT
56267616 TTTT-T-AAATTCTT-AATAT-TATTT
1 TTTTATAAAATT-TTAAATATATATTT
56267639 TTTTAATATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.07
39 10 0.18
40 3 0.05
41 12 0.21
42 27 0.48
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (42 bp):
TTTTATAAAATTTTAAATATATATTTAAATGTTAAATAATAT
Found at i:56267659 original size:21 final size:19
Alignment explanation
Indices: 56267565--56267659 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 19
56267555 ATTTAAATGT
*
56267565 TTTATAATATTTTTTTAAAA
1 TTTAAAATATTTTTTT-AAA
* *
56267585 TTTTAAATATATTTTTAAA
1 TTTAAAATATTTTTTTAAA
56267604 TTT-AAATATTATTTTTTAAA
1 TTTAAAATA-T-TTTTTTAAA
*
56267624 TTCTTAATATTATTTTTTTAATA
1 -T-TTAA-AATATTTTTTTAA-A
56267647 TTATAAAATATTT
1 TT-TAAAATATTT
56267660 AAAATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
18 5 0.08
19 7 0.11
20 21 0.34
21 8 0.13
22 14 0.23
23 3 0.05
24 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAAATATTTTTTTAAA
Found at i:56267758 original size:20 final size:20
Alignment explanation
Indices: 56267717--56267778 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 20
56267707 TTTATAATAC
*
56267717 TTTAAATGTATATTTTAAAATT
1 TTTAAATATATATTTT-AAA-T
56267739 TTTAAATATATATTTT-AAT
1 TTTAAATATATATTTTAAAT
56267758 TTTAAATATA-ATTTTTAAAT
1 TTTAAATATATA-TTTTAAAT
56267778 T
1 T
56267779 ATTTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.41
20 6 0.16
22 15 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAAATATATATTTTAAAT
Found at i:56267773 original size:13 final size:13
Alignment explanation
Indices: 56267757--56267816 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
56267747 TATATTTTAA
56267757 TTTTAAATATAAT
1 TTTTAAATATAAT
*
56267770 TTTTAAAT-TATT
1 TTTTAAATATAAT
*
56267782 TTTTAAATAATGATT
1 TTTTAAAT-AT-AAT
* *
56267797 TTTTAAAAATTAT
1 TTTTAAATATAAT
56267810 TTTTAAA
1 TTTTAAA
56267817 GATATTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 11 0.28
13 16 0.40
14 3 0.08
15 10 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TTTTAAATATAAT
Found at i:56267775 original size:19 final size:19
Alignment explanation
Indices: 56267717--56267772 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 19
56267707 TTTATAATAC
*
56267717 TTTAAATGTATATTTTAAAATT
1 TTTAAATATATATTTT--AA-T
56267739 TTTAAATATATATTTTAAT
1 TTTAAATATATATTTTAAT
56267758 TTTAAATATA-ATTTT
1 TTTAAATATATATTTT
56267773 TAAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 5 0.15
19 11 0.33
20 2 0.06
22 15 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAAATATATATTTTAAT
Found at i:56267799 original size:15 final size:14
Alignment explanation
Indices: 56267774--56267813 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
56267764 TATAATTTTT
*
56267774 AAATTATTTTTTAA
1 AAATGATTTTTTAA
56267788 ATAATGATTTTTTAA
1 A-AATGATTTTTTAA
*
56267803 AAATTATTTTT
1 AAATGATTTTT
56267814 AAAGATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
AAATGATTTTTTAA
Found at i:56267822 original size:12 final size:13
Alignment explanation
Indices: 56267757--56267816 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 13
56267747 TATATTTTAA
* *
56267757 TTTTAAATATAAT
1 TTTTAAAAATTAT
56267770 TTTT--AAATTATT
1 TTTTAAAAATTA-T
*
56267782 TTTTAAATAATGATT
1 TTTTAAA-AATTA-T
56267797 TTTTAAAAATTAT
1 TTTTAAAAATTAT
56267810 TTTTAAA
1 TTTTAAA
56267817 GATATTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 4 0.10
12 5 0.13
13 12 0.31
14 5 0.13
15 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TTTTAAAAATTAT
Found at i:56267976 original size:13 final size:14
Alignment explanation
Indices: 56267960--56267988 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
56267950 TATAAAATTT
56267960 ATATATATTA-AAA
1 ATATATATTAGAAA
56267973 ATATATATTAGAAA
1 ATATATATTAGAAA
56267987 AT
1 AT
56267989 TAAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATTAGAAA
Found at i:56268212 original size:15 final size:14
Alignment explanation
Indices: 56268181--56268223 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
56268171 AAGTAAGTTA
56268181 TTTATAGTTTTTAT
1 TTTATAGTTTTTAT
*
56268195 TTTATATTTTTATAT
1 TTTATAGTTTT-TAT
*
56268210 TTTATAGTTATTAT
1 TTTATAGTTTTTAT
56268224 AATATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
TTTATAGTTTTTAT
Found at i:56270946 original size:42 final size:42
Alignment explanation
Indices: 56270899--56270979 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
56270889 ACTATGTTTG
* *
56270899 GCACTTAGTGTACG-TTTTGAGATAGCTTCGGCTATATATATA
1 GCACTTAGTGTACGAGTTGGA-ATAGCTTCGGCTATATATATA
*
56270941 GCACTTAGTGTGCGAGTTGGAATAGCTTCGGCTATATAT
1 GCACTTAGTGTACGAGTTGGAATAGCTTCGGCTATATAT
56270980 GGCACTAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
GCACTTAGTGTACGAGTTGGAATAGCTTCGGCTATATATATA
Found at i:56271955 original size:9 final size:9
Alignment explanation
Indices: 56271941--56271973 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
56271931 GTTAAACGAA
56271941 TCGAGTTAT
1 TCGAGTTAT
*
56271950 TCGAGTTAA
1 TCGAGTTAT
56271959 TCGAGTTAT
1 TCGAGTTAT
56271968 TCGAGT
1 TCGAGT
56271974 CAACTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56271962 original size:18 final size:18
Alignment explanation
Indices: 56271939--56271973 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56271929 GAGTTAAACG
56271939 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
56271957 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
56271974 CAACTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:56272043 original size:9 final size:9
Alignment explanation
Indices: 56272026--56272062 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56272016 TGAGTTTTTG
56272026 AATTCGAAT
1 AATTCGAAT
*
56272035 AACTCGAAT
1 AATTCGAAT
56272044 AATTCGAAT
1 AATTCGAAT
56272053 AATTCGAAT
1 AATTCGAAT
56272062 A
1 A
56272063 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56272742 original size:18 final size:18
Alignment explanation
Indices: 56272700--56272745 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
56272690 GGTATCAATT
* *
56272700 TCACATTTTATCTTTAAAA
1 TCACATTTT-TATTAAAAA
56272719 T-A-ATTTTTATTAAAAA
1 TCACATTTTTATTAAAAA
56272735 TCACATTTTTA
1 TCACATTTTTA
56272746 CATCTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TCACATTTTTATTAAAAA
Found at i:56273095 original size:5 final size:5
Alignment explanation
Indices: 56273085--56273110 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56273075 CTCAGAAATT
56273085 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
56273111 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Done.