Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 163 of 311
Found at i:55707223 original size:28 final size:28
Alignment explanation
Indices: 55707155--55707336 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
55707145 CATGAGATTG
* * * *
55707155 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
55707184 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55707212 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55707240 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55707268 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55707296 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55707323 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55707337 GACTTAATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.16
28 104 0.71
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55709677 original size:20 final size:20
Alignment explanation
Indices: 55709651--55709708 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
55709641 TGCCCATGGG
*
55709651 CAGGCCACACGAGCATGTTC
1 CAGGCCACACGGGCATGTTC
* * *
55709671 TAGGCCACATGGGCGTGTTC
1 CAGGCCACACGGGCATGTTC
*
55709691 CAAGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
55709709 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:55710595 original size:30 final size:31
Alignment explanation
Indices: 55710571--55710629 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
55710561 GTAAATACTC
55710571 AAAATTTGAGAGG-CTAA-AGTGTAAATATGA
1 AAAATTTGA-AGGACTAATAGTGTAAATATGA
55710601 AAAATTTGAAGGACTAATAGTGTAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
55710630 TTTAAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 3 0.11
30 13 0.48
31 11 0.41
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:55710888 original size:13 final size:13
Alignment explanation
Indices: 55710867--55710904 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
55710857 TTACTTTATT
*
55710867 AATAATTTAATAA
1 AATATTTTAATAA
55710880 AATATTTTAATAA
1 AATATTTTAATAA
*
55710893 GATATTTTAATA
1 AATATTTTAATA
55710905 TTTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
AATATTTTAATAA
Found at i:55714264 original size:27 final size:27
Alignment explanation
Indices: 55714234--55714428 Score: 259
Period size: 27 Copynumber: 7.3 Consensus size: 27
55714224 CTAAAATGCT
*
55714234 CTCGATTTGTAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
* *
55714261 CTCGATTTATAGAATTACCGTTTCACC
1 CTCGATTTATAGAATTACCATTTTACC
* * *
55714288 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
55714315 CTCGA-TTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
*
55714341 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
* *
55714368 CTCGATTTACAAAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
* * *
55714395 CTC-ACTTTACAAAATTACCGTTTTACC
1 CTCGA-TTTATAGAATTACCATTTTACC
55714422 CTCGATT
1 CTCGATT
55714429 GTGAAATTAC
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
26 24 0.16
27 128 0.84
28 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCATTTTACC
Found at i:55714438 original size:80 final size:80
Alignment explanation
Indices: 55714246--55714428 Score: 260
Period size: 80 Copynumber: 2.3 Consensus size: 80
55714236 CGATTTGTAG
* * ** *
55714246 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTGTAAAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTT
* *
55714311 TACCCTCGATTATAG
66 TACCCTCGATTACAA
*
55714326 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTT
55714391 TACCCTC-ACTTTACAA
66 TACCCTCGA--TTACAA
*
55714407 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
55714429 GTGAAATTAC
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.72
81 25 0.27
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTT
TACCCTCGATTACAA
Found at i:55714438 original size:107 final size:107
Alignment explanation
Indices: 55714234--55714428 Score: 302
Period size: 107 Copynumber: 1.8 Consensus size: 107
55714224 CTAAAATGCT
** * * * **
55714234 CTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTGTA
1 CTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACA
55714299 AAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTACC
66 AAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTACC
*
55714341 CTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-ACTTTAC
1 CTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGA-TTTAC
55714405 AAAATTACCGTTTTACCCTCGATT
65 AAAATTACCGTTTTACCCTCGATT
55714429 GTGAAATTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 1 0.01
107 78 0.99
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (107 bp):
CTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACA
AAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTACC
Found at i:55714462 original size:107 final size:107
Alignment explanation
Indices: 55714243--55714467 Score: 260
Period size: 107 Copynumber: 2.1 Consensus size: 107
55714233 TCTCGATTTG
* * * **
55714243 TAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTGTAAAATTACCG
1 TAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAATTACCG
** * **
55714308 TTTTACCCTCGATTATAGAATTACCATTTTACCCTCGATTTA
66 TTTTACCCTCGATTATAGAATTACCAAATAACCCTCGATGGA
* *
55714350 CAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-ACTTTACAAAATTACC
1 TAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGA-TTTACAAAATTACC
* *
55714414 GTTTTACCCTCGATTGT-GAAATTACTGAAATAACCCT-G-TAGGA
65 GTTTTACCCTCGATTATAG-AATTAC-CAAATAACCCTCGAT-GGA
55714457 TAGAATTACCA
1 TAGAATTACCA
55714468 AAATACCCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
106 3 0.03
107 89 0.90
108 7 0.07
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (107 bp):
TAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAATTACCG
TTTTACCCTCGATTATAGAATTACCAAATAACCCTCGATGGA
Found at i:55714490 original size:27 final size:27
Alignment explanation
Indices: 55714460--55714637 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
55714450 TGTAGGATAG
55714460 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * * *
55714487 AATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
55714514 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
55714541 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * **
55714568 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCCTAGTTTGTAA
* * * *
55714595 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
55714622 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
55714638 TTGTAGGATG
Statistics
Matches: 122, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:55714492 original size:54 final size:54
Alignment explanation
Indices: 55714427--55714555 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
55714417 TTACCCTCGA
* *
55714427 TTGTGAAATTACTGAAATAACC-CT-GTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACTGAAAT-ACCACTGGTAGG-TGA-AATTACCAAAATACCCCTAAT
** * *
55714481 TTGTAAAATTACTGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACTGAAATACCACTGGTAGGTGAAATTACCAAAATACCCCTAAT
**
55714535 TTGTAAAATTACCAAAATACC
1 TTGTAAAATTACTGAAATACC
55714556 CCTAATTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
53 3 0.05
54 57 0.89
55 4 0.06
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCACTGGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:55714525 original size:81 final size:80
Alignment explanation
Indices: 55714427--55714590 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 80
55714417 TTACCCTCGA
* * * **
55714427 TTGTGAAATTACTGAAATAACCCTGT-A-GGATAGAATTACCAAAATACCCCTAGTTTGTAAAAT
1 TTGTGAAATTACCGAAAT-ACCCT-TAATGG-TAAAATTACCAAAATACCCCTAATTTACAAAAT
55714490 TACT-GAAATACCACTGGT
63 TA-TAGAAATACCACTGGT
*
55714508 TTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTACCGAAATACCCTTAA-TGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
*
55714573 TAGAAATACCATTGGT
65 TAGAAATACCACTGGT
55714589 TT
1 TT
55714591 ACAAAATTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
79 1 0.01
80 7 0.10
81 63 0.88
82 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (80 bp):
TTGTGAAATTACCGAAATACCCTTAATGGTAAAATTACCAAAATACCCCTAATTTACAAAATTAT
AGAAATACCACTGGT
Found at i:55714571 original size:54 final size:54
Alignment explanation
Indices: 55714460--55714610 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 54
55714450 TGTAGGATAG
* * * * ** ***
55714460 AATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTACAA
* *
55714514 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTACAA
** * * **
55714568 AATTATAGAAATACCATTGGTTTACAAAATTACTAAAATACCC
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACTAAAATACCC
55714611 TTGGTTTGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTACAA
Found at i:55714598 original size:81 final size:81
Alignment explanation
Indices: 55714460--55714637 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
55714450 TGTAGGATAG
* ** *** *
55714460 AATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTACAAAATTACTGAAATACCACTGGTTTACAAAATTACCAAAA
55714525 TACCCTTAATTTGTAA
66 TACCCTTAATTTGTAA
* *
55714541 AATTACCAAAATACCCCTAATTTACAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAA
1 AATTACCAAAATACCCCTAATTTACAAAATTACT-GAAATACCACTGGTTTACAAAATTACCAAA
** *
55714605 ATACCCTTGGTTTGTAG
65 ATACCCTTAATTTGTAA
* *
55714622 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
55714638 TTGTAGGATG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 81 0.99
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTACAAAATTACTGAAATACCACTGGTTTACAAAATTACCAAAA
TACCCTTAATTTGTAA
Found at i:55714701 original size:27 final size:27
Alignment explanation
Indices: 55714658--55714731 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
55714648 AAATGACTAA
* *
55714658 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCAT
*
55714685 AA-AGCCCCTGTAGGGTAAAATGACCAT
1 AATA-CCCCTGTAGGGTAAAAAGACCAT
* *
55714712 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
55714732 TGAAGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCAT
Found at i:55714732 original size:27 final size:27
Alignment explanation
Indices: 55714671--55714734 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
55714661 ACCCCTAATA
* *
55714671 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* *
55714698 GGTAAAATGACCATAATA-CCCTTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
55714725 GGTAAAATGA
1 GGTAAAATGA
55714735 AGAATATGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:55715582 original size:25 final size:25
Alignment explanation
Indices: 55715544--55715613 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55715534 AGGAAGTGCT
* *
55715544 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
55715569 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
55715594 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCTAGTT
55715614 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:55715626 original size:24 final size:24
Alignment explanation
Indices: 55715543--55715638 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
55715533 GAGGAAGTGC
*
55715543 TAAAAGGGCTATGCCCTAGTTTACC
1 TAAAAGGGCTATGCCCTAGTTTA-T
* * *
55715568 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCTAGTTTAT
* *
55715592 CAAAAAGGGCTTTGCCCTAG-TTAT
1 -TAAAAGGGCTATGCCCTAGTTTAT
*
55715616 TAAAAGAGGCTAGGCCTCTAGTT
1 TAAAAG-GGCTATGCC-CTAGTT
55715639 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCTAGTTTAT
Found at i:55715884 original size:31 final size:31
Alignment explanation
Indices: 55715833--55715915 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
55715823 CACTTACAAT
*
55715833 AAAGGCTTCGG-CGAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55715863 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
**
55715894 AATTGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55715916 TCGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 15 0.32
31 32 0.68
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55717184 original size:27 final size:27
Alignment explanation
Indices: 55717154--55717347 Score: 255
Period size: 27 Copynumber: 7.2 Consensus size: 27
55717144 TACTAAAATG
*
55717154 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
55717181 CCCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
55717208 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
55717235 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
55717262 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
55717289 CCCTTGATTTAAAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
55717316 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
55717343 CCCTC
1 CCCTC
55717348 AATTGTGAAA
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:55717271 original size:81 final size:81
Alignment explanation
Indices: 55717154--55717347 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 81
55717144 TACTAAAATG
* * *
55717154 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTA
*
55717219 CAAAATTACCATTTTA
66 AAAAATTACCATTTTA
* **
55717235 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTA
55717300 AAAAATTACCATTTTA
66 AAAAATTACCATTTTA
* * *
55717316 CCCTC-AGTTTACAAAATTACCGTTTTACCCTC
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTC
55717348 AATTGTGAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 101 0.99
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTA
AAAAATTACCATTTTA
Found at i:55717373 original size:27 final size:26
Alignment explanation
Indices: 55717343--55717485 Score: 108
Period size: 27 Copynumber: 5.3 Consensus size: 26
55717333 TACCGTTTTA
* *
55717343 CCCTCAATTGTGAAATTACTAAAATAC
1 CCCT-AATTGTAAAATTACCAAAATAC
* * *
55717370 CCCT-GTAGGATAGAATTACCAAAATAC
1 CCCTAAT-TG-TAAAATTACCAAAATAC
* *
55717397 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTA-ATTGTAAAATTACCAAAATAC
* ** * *
55717424 CACTGGTTTGTGAAATTACCGAAATAC
1 CCCT-AATTGTAAAATTACCAAAATAC
*
55717451 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTAA-TTGTAAAATTACCAAAATAC
55717478 CCCTAATT
1 CCCTAATT
55717486 TACAAAATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 85 0.93
28 1 0.01
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
CCCTAATTGTAAAATTACCAAAATAC
Found at i:55717424 original size:54 final size:54
Alignment explanation
Indices: 55717350--55717481 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 54
55717340 TTACCCTCAA
* * *
55717350 TTGTGAAATTACTAAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCCTAAT
* * ** * *
55717404 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
55717458 TTGTAAAATTACCAAAATACCCCT
1 TTGTAAAATTACCAAAATACCCCT
55717482 AATTTACAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 61 0.94
55 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:55717486 original size:27 final size:27
Alignment explanation
Indices: 55717383--55717506 Score: 140
Period size: 27 Copynumber: 4.6 Consensus size: 27
55717373 TGTAGGATAG
*
55717383 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
55717410 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
55717437 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
55717464 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
55717491 AATTATAAAAATACCC
1 AATTACCAAAATACCC
55717507 TTGACTTTCT
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:55717494 original size:54 final size:54
Alignment explanation
Indices: 55717383--55717584 Score: 172
Period size: 54 Copynumber: 3.7 Consensus size: 54
55717373 TGTAGGATAG
* * ***
55717383 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * **
55717437 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
** * * * *
55717491 AATTATAAAAATACCCTTGACTTTCTGAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTT-AGTTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
** * * * *
55717547 AATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
55717585 CAACCTTGTA
Statistics
Matches: 114, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
54 67 0.59
55 11 0.10
56 36 0.32
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:55717557 original size:27 final size:27
Alignment explanation
Indices: 55717484--55717569 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
55717474 ATACCCCTAA
* * *
55717484 TTTACAAAATTATAAAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
55717512 TTT-CTGAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
55717540 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
55717567 TTT
1 TTT
55717570 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 20 0.40
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:55717684 original size:27 final size:27
Alignment explanation
Indices: 55717622--55717687 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
55717612 TACCCCTAAT
* *
55717622 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCATAAAGCCCCTGTA
*
55717649 AGGTAAAATGACCATAATA-CCCTTGTA
1 AGGTAAAATGACCATAA-AGCCCCTGTA
*
55717676 TGGTAAAATGAC
1 AGGTAAAATGAC
55717688 GAATATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCATAAAGCCCCTGTA
Found at i:55717698 original size:27 final size:27
Alignment explanation
Indices: 55717622--55717699 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
55717612 TACCCCTAAT
* ** * *
55717622 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACAATAATGCCCTTGTA
* *
55717649 AGGTAAAATGACCATAATACCCTTGTA
1 AGGTAAAATGACAATAATGCCCTTGTA
*
55717676 TGGTAAAATGACGAAT-ATGCCCTT
1 AGGTAAAATGAC-AATAATGCCCTT
55717700 ATGTTCCGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AGGTAAAATGACAATAATGCCCTTGTA
Found at i:55718457 original size:16 final size:16
Alignment explanation
Indices: 55718436--55718466 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55718426 CAAATATGGG
*
55718436 CATGACATTTTGCATA
1 CATGACATGTTGCATA
55718452 CATGACATGTTGCAT
1 CATGACATGTTGCAT
55718467 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:55718535 original size:25 final size:25
Alignment explanation
Indices: 55718497--55718566 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
55718487 AGGAAGTGCT
* *
55718497 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
55718522 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
55718547 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55718567 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:55718579 original size:24 final size:24
Alignment explanation
Indices: 55718496--55718591 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
55718486 GAGGAAGTGC
*
55718496 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
55718521 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
55718545 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
55718569 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
55718592 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:55718590 original size:50 final size:50
Alignment explanation
Indices: 55718497--55718591 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
55718487 AGGAAGTGCT
**
55718497 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
55718547 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
55718592 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:55719492 original size:26 final size:26
Alignment explanation
Indices: 55719463--55719579 Score: 86
Period size: 26 Copynumber: 4.7 Consensus size: 26
55719453 GGGTGTTACA
* * *
55719463 CTCTTTGTGAGCATCCTGTTTAAAGG
1 CTCTTTGTGAGCTTCCTGATTAAAAG
*
55719489 CTCTTCT-TGAGCTTCCTAATTAAAAG
1 CTCTT-TGTGAGCTTCCTGATTAAAAG
*
55719515 TTCTTTGTGAGCTTCCTG----AAAG
1 CTCTTTGTGAGCTTCCTGATTAAAAG
* * *
55719537 TCTCTTTTTGAGCTTCTTGATT-TAAG
1 -CTCTTTGTGAGCTTCCTGATTAAAAG
*
55719563 CTC-TTATGAGCTTCCTG
1 CTCTTTGTGAGCTTCCTG
55719580 TTATTGCTCG
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
22 4 0.05
23 15 0.21
24 12 0.16
25 4 0.05
26 37 0.51
27 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.43
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGATTAAAAG
Found at i:55726693 original size:23 final size:24
Alignment explanation
Indices: 55726635--55726694 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
55726625 GAGTCATGAT
*
55726635 CGGTAAGCTCCTCCTGAGCTGATGAA
1 CGGTAAGCT-CTACTGAGCTGA-GAA
* *
55726661 CAGTAAGCTCTATTGAGCTGA-AA
1 CGGTAAGCTCTACTGAGCTGAGAA
55726684 CGGTAAGCTCT
1 CGGTAAGCTCT
55726695 GAAAACCTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 12 0.40
25 10 0.33
26 8 0.27
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (24 bp):
CGGTAAGCTCTACTGAGCTGAGAA
Found at i:55726726 original size:22 final size:21
Alignment explanation
Indices: 55726657--55726736 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 21
55726647 CCTGAGCTGA
*
55726657 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTA-AGAGC
* * *
55726679 TGAAACGGTAAGCTCTGAAAACC
1 TG-AACAGTAAGCTCT-AAGAGC
*
55726702 TGAACAGTAAGCTCATACGAGC
1 TGAACAGTAAGCTC-TAAGAGC
55726724 TGAGAACAGTAAG
1 T--GAACAGTAAG
55726737 TTCTTACATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
22 17 0.38
23 17 0.38
24 11 0.24
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (21 bp):
TGAACAGTAAGCTCTAAGAGC
Found at i:55730304 original size:93 final size:93
Alignment explanation
Indices: 55730196--55730367 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55730186 CGCCCATAAG
* *
55730196 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55730261 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55730289 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55730354 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55730368 TCAACCATCT
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:55730364 original size:46 final size:46
Alignment explanation
Indices: 55730189--55730364 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55730179 TGTAACCCGC
* * *
55730189 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
55730235 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55730285 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55730328 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55730365 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:55737814 original size:93 final size:93
Alignment explanation
Indices: 55737706--55737877 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55737696 CGCCCATAAG
* *
55737706 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55737771 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55737799 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55737864 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55737878 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:55737874 original size:46 final size:46
Alignment explanation
Indices: 55737699--55737874 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55737689 TGTAACCCGC
* * *
55737699 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
55737745 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55737795 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55737838 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55737875 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:55745549 original size:49 final size:48
Alignment explanation
Indices: 55745393--55745565 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 48
55745383 GCCCATAAGC
* * *
55745393 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA-TAA-GT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATTAACGT
* * * *
55745439 GAACTCGGACTCAACTCAATGAGTTCGG--ATGC-CTTTACCATTCTCACG-
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-AT-CCA-T-TAACGT
*
55745487 AAACTCGGAACTCAACTCAACGAGTTCGGACATTCGCAATCCATTAACGT
1 GAACTCGG-ACTCAACTCAACGAGTTCGGACATTCGC-ATCCATTAACGT
55745537 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
55745566 TGCTTCAACC
Statistics
Matches: 103, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 26 0.25
48 9 0.09
49 45 0.44
50 8 0.08
51 6 0.06
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (48 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATTAACGT
Found at i:55745567 original size:98 final size:94
Alignment explanation
Indices: 55745394--55745568 Score: 278
Period size: 98 Copynumber: 1.8 Consensus size: 94
55745384 CCCATAAGCG
* * *
55745394 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55745459 GAGTTCGGATGCCTTTACCATTCTCACGA
66 GAGTTCGGATGCCTTTACCATTCTCACGA
*
55745488 AACTCGGAACTCAACTCAACGAGTTCGGACATTCGCAATCCATTAACGTGAACTCGGACTCAACT
1 AACTCGG-ACTCAACTCAACGAGCTCGGACATTCGC-ATCCA-TAA-GTGAACTCGGACTCAACT
55745553 CAACGAGTTCGGATGC
62 CAACGAGTTCGGATGC
55745569 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
94 7 0.10
95 25 0.34
96 5 0.07
97 3 0.04
98 33 0.45
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (94 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTTTACCATTCTCACGA
Found at i:55755975 original size:47 final size:47
Alignment explanation
Indices: 55755765--55756583 Score: 1302
Period size: 47 Copynumber: 18.0 Consensus size: 47
55755755 TATAATGATA
* *
55755765 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TAAA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55755811 GCCTAATGGCCGATGT-A-GAAT-TG-AAGTGTATATATGTGAT-A-
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55755852 GCCTAAT-GCCGATGTGATGAATGT-AAA-TGTATATATGTGATAA-
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
55755895 GCCTAAT-GCCGATGTGATGAATG-GAAAGT-TATATATATGTATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAG
55755940 GCCTAATGGCCGATGTGATGAATGTGAAAG-GTATATATGTG--AAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55755984 G-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT--TAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756028 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756074 G-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756120 GCCTAATGGCCGATGTGATGAATGTGAAA---TATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756164 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756211 GCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756257 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756304 GCCTAATGGCCGA--TGATGAATGTGAAAGTGTATATATGTGAT-AG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756348 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756395 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756441 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* *
55756488 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAG
* * * * * *
55756537 GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756584 TCCCGAAGGG
Statistics
Matches: 730, Mismatches: 13, Indels: 59
0.91 0.02 0.07
Matches are distributed among these distances:
40 8 0.01
41 8 0.01
42 33 0.05
43 70 0.10
44 86 0.12
45 120 0.16
46 155 0.21
47 210 0.29
49 40 0.05
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
Found at i:55756271 original size:93 final size:94
Alignment explanation
Indices: 55755765--55756583 Score: 1302
Period size: 93 Copynumber: 9.0 Consensus size: 94
55755755 TATAATGATA
* *
55755765 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TAAAGCCTAATGGCCGATGT-A
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55755828 -GAAT-TG-AAGTGTATATATGTGAT-A-
66 TGAATGTGAAAGTGTATATATGTGATAAG
55755852 GCCTAAT-GCCGATGTGATGAATGT-AAA-TGTATATATGTGATAA-GCCTAAT-GCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
*
55755912 TGAATG-GAAAGT-TATATATATGTATAAG
66 TGAATGTGAAAGTGTATATATGTG-ATAAG
55755940 GCCTAATGGCCGATGTGATGAATGTGAAAG-GTATATATGTG--AAGG-CTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756001 TGAATGTGAAAGTGTATATATGT--TAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
55756028 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-G-CTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756091 TGAATGTGAAAGTGTATATATGTGATAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
55756120 GCCTAATGGCCGATGTGATGAATGTGAAA---TATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756182 TGAATGTGAAAGTGTATATATGTGATAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
55756211 GCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756275 TGAATGTGAAAGTGTATATATGTGATAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
55756304 GCCTAATGGCCGA--TGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756366 TGAATGTGAAAGTGTATATATGTGATAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
55756395 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756459 TGAATGTGAAAGTGTATATATGTGATAAG
66 TGAATGTGAAAGTGTATATATGTGATAAG
* * * * * *
55756488 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
* *
55756553 GATGGATGTGAAAGTGTATAAATGTGATAAG
64 GATGAATGTGAAAGTGTATATATGTGATAAG
55756584 TCCCGAAGGG
Statistics
Matches: 690, Mismatches: 11, Indels: 53
0.92 0.01 0.07
Matches are distributed among these distances:
83 8 0.01
84 19 0.03
85 20 0.03
86 23 0.03
87 8 0.01
88 48 0.07
89 59 0.09
90 82 0.12
91 124 0.18
92 62 0.09
93 179 0.26
94 5 0.01
95 11 0.02
96 42 0.06
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (94 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAG
Found at i:55756297 original size:184 final size:185
Alignment explanation
Indices: 55755765--55756583 Score: 1263
Period size: 184 Copynumber: 4.5 Consensus size: 185
55755755 TATAATGATA
* *
55755765 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TAAAGCCTAATGGCCGATGT-A
1 GCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGA
55755828 -GAAT-TG-AAGTGTATATATGTGAT-A-GCCTAAT-GCCGATGTGATGAATGT-AAA-TGTATA
64 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
55755885 TATGTGATAAGCCTAAT-GCCGATGTGATGAATG-GAAAGT-TATATATATGTATAAG
129 TATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAG
55755940 GCCTAATGGCCGATGTGATGAATGTGAAAGGTATATATGTG--AAGG-CTAATGGCCGATGTGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAA-GTATATATGTGATAAGGCCTAATGGCCGATGTGAT
55756002 GAATGTGAAAGTGTATATATGT--TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
65 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55756065 ATGTGATAAG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
130 ATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756120 GCCTAATGGCCGATGTGATGAATGTGAAA-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55756184 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
55756248 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
131 TGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55756304 GCCTAATGGCCGA--TGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGA
55756366 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
55756431 TATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
129 TATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * * *
55756488 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGT
1 GCCTAATGGCCGATGTGATGAATGTGAAA--G--TATATATGTGATAAGGCCTAATGGCCGATGT
* *
55756553 GATGGATGTGAAAGTGTATAAATGTGATAAG
62 GATGAATGTGAAAGTGTATATATGTGATAAG
55756584 TCCCGAAGGG
Statistics
Matches: 603, Mismatches: 13, Indels: 42
0.92 0.02 0.06
Matches are distributed among these distances:
172 14 0.02
173 4 0.01
174 15 0.02
175 32 0.05
176 21 0.03
177 17 0.03
178 18 0.03
179 33 0.05
180 44 0.07
181 48 0.08
182 52 0.09
183 12 0.02
184 174 0.29
185 49 0.08
186 17 0.03
188 11 0.02
189 42 0.07
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (185 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
Found at i:55756757 original size:36 final size:36
Alignment explanation
Indices: 55756702--55756778 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
55756692 CCGAGCTCTA
* *
55756702 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCC-GGT
*
55756738 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
55756774 AAGAC
1 AAGAC
55756779 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
Found at i:55758660 original size:41 final size:41
Alignment explanation
Indices: 55758615--55758707 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
55758605 GTTGGTTTCA
55758615 GCACTAAGTGTGCGGCAA-AAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTG-GGCAATAAGTGTTCACGGTTGTGAGATTG
55758656 GCACTAAGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
55758697 GCACTAAGTGT
1 GCACTAAGTGT
55758708 CGGGTTGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (41 bp):
GCACTAAGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:55758728 original size:27 final size:29
Alignment explanation
Indices: 55758695--55758771 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 29
55758685 GTTGTGAGAT
*
55758695 TGGCACTAAGTGT-CGGGTTGAAA-TGCA
1 TGGCACTAAGTGTGCGGGTTGAAAGTACA
*
55758722 TGGCACTAAGTGTGCGAGTT-AAAGTACA
1 TGGCACTAAGTGTGCGGGTTGAAAGTACA
55758750 T-GCACTAAGTGTGCGTGGTTGA
1 TGGCACTAAGTGTGCG-GGTTGA
55758772 TTATTAAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 30 0.70
28 12 0.28
29 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGGGTTGAAAGTACA
Found at i:55759199 original size:40 final size:40
Alignment explanation
Indices: 55759143--55759297 Score: 193
Period size: 40 Copynumber: 3.9 Consensus size: 40
55759133 CCGGCTAAAA
*
55759143 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTTT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
55759183 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * * * * *
55759223 CCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
55759263 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
55759298 CGTGTATTCG
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:55762663 original size:47 final size:47
Alignment explanation
Indices: 55762556--55763036 Score: 802
Period size: 47 Copynumber: 10.1 Consensus size: 47
55762546 GAAATGATAG
55762556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
55762605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55762652 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55762699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
55762748 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55762795 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55762842 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
55762891 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55762937 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
55762986 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55763033 TAAG
1 TAAG
55763037 TCCCGAAGGG
Statistics
Matches: 413, Mismatches: 12, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
46 12 0.03
47 233 0.56
48 34 0.08
49 134 0.32
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55762741 original size:96 final size:95
Alignment explanation
Indices: 55762556--55763036 Score: 815
Period size: 96 Copynumber: 5.0 Consensus size: 95
55762546 GAAATGATAG
55762556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
55762621 ATGTGATGAATGTGAAAGTGTATATATGTGA
65 ATGTGATGAATGTGAAAGTGTATATATGTGA
55762652 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
55762716 TGTGATGAATGTGAAAGTGTATATATATGTGA
66 TGTGATGAATGTGAAAGTG--TATATATGTGA
55762748 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
55762812 TGTGATGAATGTGAAAGTGTATATATGTGA
66 TGTGATGAATGTGAAAGTGTATATATGTGA
55762842 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
55762906 ATGTGATGAATGTGAAAGTGTATATATGTGA
65 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
55762937 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
* * *
55763002 ACGTGATGGATGTGAAAGTGTATAAATGTGA
65 ATGTGATGAATGTGAAAGTGTATATATGTGA
55763033 TAAG
1 TAAG
55763037 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 9, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
94 94 0.25
95 93 0.25
96 184 0.50
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (95 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55762814 original size:143 final size:143
Alignment explanation
Indices: 55762556--55763036 Score: 851
Period size: 143 Copynumber: 3.4 Consensus size: 143
55762546 GAAATGATAG
55762556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
55762621 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
55762686 TGTATATATGTGA
131 TGTATATATGTGA
55762699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
55762764 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
55762829 TGTATATATGTGA
131 TGTATATATGTGA
55762842 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
55762906 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
55762971 TGTATATATATGTGA
131 TG--TATATATGTGA
* * * * * * *
55762986 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
55763037 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
142 87 0.27
143 196 0.60
144 44 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:55763210 original size:37 final size:37
Alignment explanation
Indices: 55763154--55763232 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55763144 CCGAGCTCTA
* * *
55763154 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55763191 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55763228 AAGAC
1 AAGAC
55763233 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55767817 original size:27 final size:27
Alignment explanation
Indices: 55767765--55767870 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
55767755 CATGGCTGCT
* * *
55767765 AGAACAGATAA-TGTGACAGGGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
55767791 AAAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
55767818 AGAACAGAT-ATATGTGGTAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
** *
55767845 AGATTAGATAATTGTGGCATAGCCAC
1 AGAACAGATAATTGTGGCAGAGCCAC
55767871 TAGCACGCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.18
27 53 0.79
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:55769058 original size:16 final size:16
Alignment explanation
Indices: 55769033--55769065 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55769023 CCAAAAGAAA
55769033 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
55769049 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
55769065 A
1 A
55769066 GAATTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:55770573 original size:32 final size:33
Alignment explanation
Indices: 55770532--55770598 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 33
55770522 CAACATGTCC
55770532 TCCAGAATCTGAATAACCCTTTCC-ACTGACCA
1 TCCAGAATCTGAATAACCCTTTCCTACTGACCA
55770564 TCCAGAATCTGAATAACCCTTTCCTACTGACCA
1 TCCAGAATCTGAATAACCCTTTCCTACTGACCA
55770597 TC
1 TC
55770599 AGTTGGGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.27
Consensus pattern (33 bp):
TCCAGAATCTGAATAACCCTTTCCTACTGACCA
Found at i:55775673 original size:27 final size:27
Alignment explanation
Indices: 55775638--55775721 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
55775628 GTGACAGGGT
55775638 CACCAGAACAGATAATAGTGGCAAAGC
1 CACCAGAACAGATAATAGTGGCAAAGC
55775665 CACCAGAACAGAT-ATATGTGGCAGAA-C
1 CACCAGAACAGATAATA-GTGGCA-AAGC
* * *
55775692 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATAGTGGCAAAGC
55775719 CAC
1 CAC
55775722 TAGGACGCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.08
27 42 0.84
28 4 0.08
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (27 bp):
CACCAGAACAGATAATAGTGGCAAAGC
Found at i:55781074 original size:29 final size:29
Alignment explanation
Indices: 55781008--55781066 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
55780998 TGGCCCATCT
*
55781008 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* *
55781037 TATTCATATGGCCCATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
55781066 C
1 C
55781067 CTTTATATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAAATCA
Found at i:55783203 original size:39 final size:39
Alignment explanation
Indices: 55783128--55783280 Score: 162
Period size: 39 Copynumber: 3.9 Consensus size: 39
55783118 AAATTCAATC
* * * * *
55783128 ACCAACACAAAGCCTACGAGACTTTAAGCCCGGATATGGT
1 ACCAGCACGAAGCCTACG-GACCTTAAGTCCGGATATAGT
* *
55783168 ACCAGTACGAAGCCTACGGACCTTAAGTCCAGATATAGT
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
* * * * *
55783207 ACAAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
* * *
55783246 TCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATA
55783281 CAATTCTAGC
Statistics
Matches: 95, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 80 0.84
40 15 0.16
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (39 bp):
ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
Found at i:55783258 original size:78 final size:79
Alignment explanation
Indices: 55783149--55783325 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 79
55783139 GCCTACGAGA
*** * * * * *
55783149 CTTTAAGCCCGGATATGGTACCAGTACGAAGCCTACGGACCTTAAGTCCAGATATAGTACAAGCA
1 CTTTAAGCCCGGATACAATTCCAGCATGAAGCCTACGGACCTTAAGTCCAGATACAATACAAGCA
*
55783214 CGAAGCCTGCGGAT
66 AGAAGCCTGCGGAT
* * * * *
55783228 C-TTAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCA
1 CTTTAAGCCCGGATACAATTCCAGCATGAAGCCTACGGACCTTAAGTCCAGATACAATACAAGCA
*
55783292 AGAAGCCTGCGGGT
66 AGAAGCCTGCGGAT
*
55783306 CTTTAAGCCCGGATATAATT
1 CTTTAAGCCCGGATACAATT
55783326 TTAGCATATA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 63 0.79
79 17 0.21
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (79 bp):
CTTTAAGCCCGGATACAATTCCAGCATGAAGCCTACGGACCTTAAGTCCAGATACAATACAAGCA
AGAAGCCTGCGGAT
Found at i:55783281 original size:39 final size:39
Alignment explanation
Indices: 55783176--55783303 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
55783166 GTACCAGTAC
* * * * * *
55783176 GAAGCCTACGGACCTTAAGTCCAGATATAGTACAAGCAC
1 GAAGCCTGCGGACCTTAAGTCCGGATACAATTCAAGCAA
* * *
55783215 GAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCAT
1 GAAGCCTGCGGACCTTAAGTCCGGATACAATTCAAGCAA
*
55783254 GAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAA
1 GAAGCCTGCGGACCTTAAGTCCGGATACAATTCAAGCAA
55783293 GAAGCCTGCGG
1 GAAGCCTGCGG
55783304 GTCTTTAAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (39 bp):
GAAGCCTGCGGACCTTAAGTCCGGATACAATTCAAGCAA
Found at i:55783331 original size:40 final size:40
Alignment explanation
Indices: 55783210--55783362 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 40
55783200 ATATAGTACA
* * * *
55783210 AGCACGAAGCCTGCGGATC-TTAAGTCCGGATACAATTCC
1 AGCAAGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCT
* * * *
55783249 AGCATGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCT
1 AGCAAGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCT
* *
55783288 AGCAAGAAGCCTGCGGGTCTTTAAGCCCGGATATAATTTT
1 AGCAAGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCT
* *
55783328 AGCATA-TAGCCTGTGGGTCTTTAAGCCCGGATACA
1 AGCA-AGAAGCCTGCGGGTCTTTAAGCCCGGATACA
55783363 CATCAAATAT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.02
39 45 0.46
40 50 0.51
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (40 bp):
AGCAAGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCT
Found at i:55785319 original size:53 final size:53
Alignment explanation
Indices: 55785261--55785367 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
55785251 AAAATCACCA
*
55785261 AGGCCAAATATCAAAGAGCCCTTTTGTTCTACCTTCGATTTTGAGCTTGTTCC
1 AGGCCAAATATCAAAGAGCCCTTTTGTTCTACCTTCGATTTTGAGCTTGCTCC
55785314 AGGCCAAATATCAAAGAGCCCTTTTGTTCTACCTTCGATTTTGAGCTTGCTCC
1 AGGCCAAATATCAAAGAGCCCTTTTGTTCTACCTTCGATTTTGAGCTTGCTCC
55785367 A
1 A
55785368 TTGCCGAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AGGCCAAATATCAAAGAGCCCTTTTGTTCTACCTTCGATTTTGAGCTTGCTCC
Found at i:55786544 original size:29 final size:29
Alignment explanation
Indices: 55786511--55786568 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
55786501 ATCTTCACGC
55786511 CACTTCCAACCTTCTAGAAGGCCAAAATT
1 CACTTCCAACCTTCTAGAAGGCCAAAATT
55786540 CACTTCCAACCTTCTAGAAGGCCAAAATT
1 CACTTCCAACCTTCTAGAAGGCCAAAATT
55786569 AAACTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (29 bp):
CACTTCCAACCTTCTAGAAGGCCAAAATT
Found at i:55793068 original size:29 final size:28
Alignment explanation
Indices: 55792989--55793075 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
55792979 ACCCATACAT
*
55792989 ACATGCATATGGCCCACTT-GGCCC-ATC
1 ACATTCATATGGCCCA-TTAGGCCCAATC
* * * *
55793016 TCATTCATATGGCCTATCAAGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TC
55793045 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
55793074 AC
1 AC
55793076 CTTTATCTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.02
27 17 0.36
28 1 0.02
29 26 0.55
30 2 0.04
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:55797950 original size:26 final size:26
Alignment explanation
Indices: 55797915--55798039 Score: 134
Period size: 26 Copynumber: 5.0 Consensus size: 26
55797905 AGAGCTTTTA
*
55797915 ATTAATGGCTCTTCGTGAGCTTCCTG
1 ATTAAAGGCTCTTCGTGAGCTTCCTG
55797941 ATTAAAGGCTCTTCGTGAGCTTCCTG
1 ATTAAAGGCTCTTCGTGAGCTTCCTG
* * * * *
55797967 ATTAAAAGTTTTTTGTGAACTTCCT-
1 ATTAAAGGCTCTTCGTGAGCTTCCTG
*
55797992 A--AAAGGCTCTTTGTGAGCTTCCTG
1 ATTAAAGGCTCTTCGTGAGCTTCCTG
* *
55798016 ATT-TAGGCTCTT-ATGAGCTTCCTG
1 ATTAAAGGCTCTTCGTGAGCTTCCTG
55798040 TTATTGCTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
23 18 0.21
24 12 0.14
25 9 0.11
26 45 0.54
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (26 bp):
ATTAAAGGCTCTTCGTGAGCTTCCTG
Found at i:55812115 original size:24 final size:24
Alignment explanation
Indices: 55812042--55812119 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
55812032 GGACTCACCA
* *
55812042 CAGCTCGTATGAGCTTACCAATATGT
1 CAGCTCGTAAGAGCTTACC-AT-TTT
* *
55812068 CAGCTCGTAAGAGTTTACTATTTT
1 CAGCTCGTAAGAGCTTACCATTTT
* *
55812092 CAGCTCGTCAGAGCTTACCGTTTT
1 CAGCTCGTAAGAGCTTACCATTTT
55812116 -AGCT
1 CAGCT
55812120 TAATAGAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 4 0.09
24 22 0.50
25 2 0.05
26 16 0.36
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCATTTT
Found at i:55835624 original size:29 final size:29
Alignment explanation
Indices: 55835557--55835681 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
55835547 AAGTCTGCAT
* *
55835557 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
55835585 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
55835614 ACATTCGTATGGCCCATTAGGCGCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * * *
55835643 AAATTCATACGACCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
55835672 GCATTCATAT
1 ACATTCATAT
55835682 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 21 0.26
29 60 0.74
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:55842355 original size:18 final size:18
Alignment explanation
Indices: 55842332--55842367 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
55842322 GTTTAAATGG
*
55842332 TTAGTTTGAGAAAGAGGA
1 TTAGTTTGAGAAAAAGGA
55842350 TTAGTTTGAGAAAAAGGA
1 TTAGTTTGAGAAAAAGGA
55842368 CTAAATCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.28
Consensus pattern (18 bp):
TTAGTTTGAGAAAAAGGA
Found at i:55842969 original size:19 final size:19
Alignment explanation
Indices: 55842945--55842999 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
55842935 TATGTGTTCA
*
55842945 GATGAATTACTGTTATATG
1 GATGAATTACTATTATATG
* *
55842964 GATGAAGTACTATTTAAATG
1 GATGAATTACTA-TTATATG
*
55842984 GATGAGTTACTATTAT
1 GATGAATTACTATTAT
55843000 CTAATGGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (19 bp):
GATGAATTACTATTATATG
Found at i:55850138 original size:27 final size:27
Alignment explanation
Indices: 55850108--55850318 Score: 251
Period size: 27 Copynumber: 7.8 Consensus size: 27
55850098 ATTACCAAAG
* *
55850108 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55850135 TACCCTCGATTTACATAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55850162 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55850189 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
55850216 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
55850243 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55850270 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
55850297 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
55850319 TAAAATACCC
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:55850408 original size:54 final size:52
Alignment explanation
Indices: 55850311--55850518 Score: 211
Period size: 54 Copynumber: 3.9 Consensus size: 52
55850301 CTCGATTTAC
* * * *
55850311 AAAATTACTAAAATACCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTAC-AAAATACCCTAATTTGTAAAATTACCAAAATACCCTTAGTTTGT
*
55850364 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACA-AAATACCCT-AATTTGTAAAATTACCAAAATACCCTTAGTTTGT
** * * * *
55850418 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACC-CTAATTTGTAAAATTACCAAAATACCCTTAGTTTGT
** *
55850472 AAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGAAATACCCTT
1 AAAATTA-CAAAATA-CCCTAATTTGTAAAATTACCA-AAATACCCTT
55850519 GACTTTCTAA
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 18 0.14
54 104 0.81
55 6 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (52 bp):
AAAATTACAAAATACCCTAATTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:55850442 original size:81 final size:81
Alignment explanation
Indices: 55850297--55850544 Score: 299
Period size: 81 Copynumber: 3.0 Consensus size: 81
55850287 ATTACTGTTT
* ** * *
55850297 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTACTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
55850361 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
55850377 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* *
55850441 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
*
55850458 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAAT-T-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTA-AAA-TTACCA-AAATACCCTTG
* * *
55850520 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
55850541 TACC
1 TACC
55850545 ATTGGTTTAC
Statistics
Matches: 146, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.01
80 32 0.22
81 93 0.64
82 5 0.03
83 14 0.10
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:55850496 original size:27 final size:27
Alignment explanation
Indices: 55850311--55850492 Score: 210
Period size: 27 Copynumber: 6.8 Consensus size: 27
55850301 CTCGATTTAC
* *
55850311 AAAATTACTAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
55850337 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
55850364 AAAATTA-CAGAAATA-CCCTCAATTTGT
1 AAAATTACCA-AAATACCCCT-AGTTTGT
55850391 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
55850418 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
55850445 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
55850472 AAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
55850493 ATTTACAAAG
Statistics
Matches: 132, Mismatches: 17, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
26 22 0.17
27 100 0.76
28 10 0.08
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:55850567 original size:27 final size:27
Alignment explanation
Indices: 55850528--55850579 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
55850518 TGACTTTCTA
55850528 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
55850555 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
55850580 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:55850656 original size:27 final size:27
Alignment explanation
Indices: 55850624--55850720 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
55850614 GACTAAAATA
* *
55850624 CCCCTATTA-GGTAAAAAGATCGTAAGG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
*
55850651 CCCCTATAGGGTAAAGAGACCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
* **
55850678 CCCCTGTAGGGTAAAGTGACCGTAATA-
1 CCCCTATAGGGTAAAAAGACCGTAA-AG
* *
55850705 CCCCTGTATGGTAAAA
1 CCCCTATAGGGTAAAA
55850721 TGACGAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 2 0.03
27 58 0.95
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:55851445 original size:8 final size:8
Alignment explanation
Indices: 55851434--55851461 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
55851424 TTAAAGCAAT
55851434 AAATGCCG
1 AAATGCCG
55851442 AAATGCCG
1 AAATGCCG
55851450 AAATGCCG
1 AAATGCCG
55851458 AAAT
1 AAAT
55851462 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:55851914 original size:25 final size:24
Alignment explanation
Indices: 55851881--55851928 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
55851871 TTATAACATG
* * *
55851881 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
55851905 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
55851929 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:55851979 original size:9 final size:9
Alignment explanation
Indices: 55851967--55852023 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55851957 TTTGATAAAC
55851967 ATGATATGT
1 ATGATATGT
*
55851976 ATGATATGCAC
1 ATGATATG--T
*
55851987 ATGACATGT
1 ATGATATGT
*
55851996 ATGATATGCAC
1 ATGATATG--T
55852007 ATGATATGT
1 ATGATATGT
55852016 ATGATATG
1 ATGATATG
55852024 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:55851990 original size:20 final size:20
Alignment explanation
Indices: 55851965--55852035 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
55851955 ATTTTGATAA
55851965 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55851985 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55852005 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55852025 ACATGAGATGT
1 ACATGATATGT
55852036 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55852012 original size:11 final size:11
Alignment explanation
Indices: 55851976--55852030 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55851966 CATGATATGT
55851976 ATGATATGCAC
1 ATGATATGCAC
* *
55851987 ATGACATG--T
1 ATGATATGCAC
55851996 ATGATATGCAC
1 ATGATATGCAC
*
55852007 ATGATATG--T
1 ATGATATGCAC
55852016 ATGATATGCAC
1 ATGATATGCAC
55852027 ATGA
1 ATGA
55852031 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55852137 original size:24 final size:24
Alignment explanation
Indices: 55852080--55852229 Score: 187
Period size: 24 Copynumber: 6.3 Consensus size: 24
55852070 GGAGGAAGTG
55852080 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55852104 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55852127 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
55852151 CAAAAGGGCTTACGCCCTAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55852175 -TAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * * *
55852198 TAAAAGGGCTTTTTCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55852222 TAAAAGGG
1 CAAAAGGG
55852230 GCTAGGCCTC
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 42 0.37
24 71 0.63
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55852149 original size:47 final size:47
Alignment explanation
Indices: 55852080--55852229 Score: 194
Period size: 47 Copynumber: 3.2 Consensus size: 47
55852070 GGAGGAAGTG
*
55852080 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
* * *
55852127 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCTAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCTAGTTAT
* * * *
55852175 -TAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTTTCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCTAGTTAT
*
55852222 TAAAAGGG
1 CAAAAGGG
55852230 GCTAGGCCTC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
47 63 0.72
48 25 0.28
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
Found at i:55852196 original size:71 final size:71
Alignment explanation
Indices: 55852080--55852229 Score: 219
Period size: 71 Copynumber: 2.1 Consensus size: 71
55852070 GGAGGAAGTG
* *
55852080 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55852145 AGTTAT
66 AGTTAT
* * * * * *
55852151 CAAAAGGGCTTACGCCCTAATTATTAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTTTCCCT
1 CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55852216 AGTTAT
66 AGTTAT
*
55852222 TAAAAGGG
1 CAAAAGGG
55852230 GCTAGGCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:55852475 original size:31 final size:31
Alignment explanation
Indices: 55852440--55852503 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55852430 CATTTACAGT
*
55852440 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
55852471 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55852502 AA
1 AA
55852504 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55854150 original size:24 final size:24
Alignment explanation
Indices: 55854105--55854176 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
55854095 CTATCATATG
* *
55854105 AGTCGATATTGGCACTAAGTGTGCGG
1 AGTCGA-A-TGGCACTATGTGTGCGA
* *
55854131 ATTTGAATGGCACTATGTGTGCGA
1 AGTCGAATGGCACTATGTGTGCGA
55854155 AGTCGAATGGCACTATGTGTGC
1 AGTCGAATGGCACTATGTGTGC
55854177 CGGCTTGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 35 0.88
25 1 0.03
26 4 0.10
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (24 bp):
AGTCGAATGGCACTATGTGTGCGA
Found at i:55854186 original size:24 final size:22
Alignment explanation
Indices: 55854114--55854186 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 22
55854104 GAGTCGATAT
*
55854114 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGG--TTGAA
*
55854138 TGGCACTATGTGTGCGAAGTCGAA
1 TGGCACTATGTGTGCG--GTTGAA
55854162 TGGCACTATGTGTGCCGGCTTGAA
1 TGGCACTATGTGTG-CGG-TTGAA
55854186 T
1 T
55854187 ATCAATACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.02
24 38 0.90
25 2 0.05
26 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (22 bp):
TGGCACTATGTGTGCGGTTGAA
Found at i:55856863 original size:19 final size:20
Alignment explanation
Indices: 55856839--55856877 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
55856829 TCCCATTATT
55856839 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
55856858 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
55856878 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:55856895 original size:25 final size:23
Alignment explanation
Indices: 55856839--55856913 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 23
55856829 TCCCATTATT
*
55856839 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
55856858 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
55856881 TATTTGATTTATTATATTTTAAA-G
1 TATTT-ATTT-TTATATTTTAAATG
*
55856905 TTTTTATTT
1 TATTTATTT
55856914 AATAAAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.23
20 6 0.12
21 2 0.04
23 9 0.19
24 9 0.19
25 11 0.23
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:55857224 original size:24 final size:24
Alignment explanation
Indices: 55857196--55857241 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
55857186 TATACGTGGA
55857196 ATTTAATTTTTATACTTTTTAAGG
1 ATTTAATTTTTATACTTTTTAAGG
* *
55857220 ATTTAATTTTTCTATTTTTTAA
1 ATTTAATTTTTATACTTTTTAA
55857242 ATTTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTAATTTTTATACTTTTTAAGG
Found at i:55862752 original size:26 final size:26
Alignment explanation
Indices: 55862723--55862774 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
55862713 GTTAAAAAGA
*
55862723 AATAGATCCATTTCTATGGTCATAGT
1 AATAGATCCATTTCCATGGTCATAGT
55862749 AATAGATCCATTTCCATGGTCATAGT
1 AATAGATCCATTTCCATGGTCATAGT
55862775 CTCCTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (26 bp):
AATAGATCCATTTCCATGGTCATAGT
Found at i:55868804 original size:46 final size:46
Alignment explanation
Indices: 55868724--55868889 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 46
55868714 GACAAACATG
* * * * * *
55868724 GAATACGCTACATAGGCATTGTAGAATACACCACAAAAGCATTATA
1 GAATAAGCCACATAGGCATTGCAAAATACGCCACAAAAGCATTACA
* * *
55868770 GAATAAGCCACATAAGCATTGCAAAATATGCCACAAAAGAATTACA
1 GAATAAGCCACATAGGCATTGCAAAATACGCCACAAAAGCATTACA
*
55868816 TG-ATAAGCCACATAGGCATTTCAAAATACGCCAC-AAAGCATTACA
1 -GAATAAGCCACATAGGCATTGCAAAATACGCCACAAAAGCATTACA
* * *
55868861 AAATATGCCACATAGGCATTGCAGAATAC
1 GAATAAGCCACATAGGCATTGCAAAATAC
55868890 TCCATAATGG
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
45 34 0.34
46 66 0.65
47 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (46 bp):
GAATAAGCCACATAGGCATTGCAAAATACGCCACAAAAGCATTACA
Found at i:55868924 original size:23 final size:23
Alignment explanation
Indices: 55868725--55868943 Score: 136
Period size: 23 Copynumber: 9.6 Consensus size: 23
55868715 ACAAACATGG
* * ** *
55868725 AATACGCTACATAGGCATTGTAG
1 AATACGCCACAAAGGCATTACAA
* * * *
55868748 AATACACCACAAAAGCATTATAG
1 AATACGCCACAAAGGCATTACAA
* *
55868771 AATAAGCCACATAA-GCATTGCAA
1 AATACGCCACA-AAGGCATTACAA
* * * *
55868794 AATATGCCACAAAAGAATTACAT
1 AATACGCCACAAAGGCATTACAA
* * * *
55868817 GATAAGCCACATAGGCATTTCAA
1 AATACGCCACAAAGGCATTACAA
55868840 AATACGCCACAAA-GCATTACAA
1 AATACGCCACAAAGGCATTACAA
* * * *
55868862 AATATGCCACATAGGCATTGCAG
1 AATACGCCACAAAGGCATTACAA
* * * *
55868885 AATACTCCATAATGGCATTAAAA
1 AATACGCCACAAAGGCATTACAA
* * *
55868908 AATACGCTACAAAGGCATTATAG
1 AATACGCCACAAAGGCATTACAA
*
55868931 AATATGCCACAAA
1 AATACGCCACAAA
55868944 AGCTTCACAA
Statistics
Matches: 148, Mismatches: 45, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
22 21 0.14
23 125 0.84
24 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (23 bp):
AATACGCCACAAAGGCATTACAA
Found at i:55868924 original size:91 final size:91
Alignment explanation
Indices: 55868725--55868943 Score: 226
Period size: 91 Copynumber: 2.4 Consensus size: 91
55868715 ACAAACATGG
* * * *
55868725 AATACGCTACATAGGCATTGTAGAATACACCACAAAAGCATTATAGAATAAGCCACATAAGCATT
1 AATACGCTACATAGGCATTATAGAATACGCCAC-AAAGCATTACAAAATAAGCCACATAAGCATT
* *
55868790 GCAAAATATGCCACAAAAGAATTACAT
65 GCAAAATATGCCACAAAAGAATTAAAA
* * * * * *
55868817 GATAAGCCACATAGGCATT-TCAAAATACGCCACAAAGCATTACAAAATATGCCACATAGGCATT
1 AATACGCTACATAGGCATTAT-AGAATACGCCACAAAGCATTACAAAATAAGCCACATAAGCATT
* * ** *
55868881 GCAGAATACT-CCATAATGGCATTAAAA
65 GCAAAATA-TGCCACAAAAGAATTAAAA
* *
55868908 AATACGCTACAAAGGCATTATAGAATATGCCACAAA
1 AATACGCTACATAGGCATTATAGAATACGCCACAAA
55868944 AGCTTCACAA
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
91 74 0.73
92 28 0.27
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (91 bp):
AATACGCTACATAGGCATTATAGAATACGCCACAAAGCATTACAAAATAAGCCACATAAGCATTG
CAAAATATGCCACAAAAGAATTAAAA
Found at i:55871592 original size:15 final size:15
Alignment explanation
Indices: 55871571--55871605 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55871561 ACTCTTTAAG
55871571 CTTTAGTTTAATGCA
1 CTTTAGTTTAATGCA
* *
55871586 TTTTAGTTTATTGCA
1 CTTTAGTTTAATGCA
55871601 CTTTA
1 CTTTA
55871606 AATCTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (15 bp):
CTTTAGTTTAATGCA
Found at i:55878003 original size:46 final size:45
Alignment explanation
Indices: 55877907--55878076 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
55877897 GCATATCTGT
* * *
55877907 GCCGATGCCATGTCCCAGACATGGTCTTACGCTGACACATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAGACACGTCTCA-A
*
55877953 GCCGATG-CATGTCCCAGACAT-GTCTTACACAGACTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAGAC--ACGTCTC-AA
* * *
55877999 GCCGATG-CATGTCCTAGAAAT-GTCTTACACTAG-CAATCGTCCCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC-AGAC-A-CGTCTCAA
55878044 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACAC
55878077 TAGCTCTCAT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 54 0.51
47 15 0.14
48 9 0.09
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACAGACACGTCTCAA
Found at i:55882068 original size:35 final size:35
Alignment explanation
Indices: 55882028--55882186 Score: 165
Period size: 35 Copynumber: 4.5 Consensus size: 35
55882018 GTATGTACAT
55882028 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
55882063 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
55882098 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
55882133 ATATGATGACATATTGCACTTGTATATTTAGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* *
55882168 ATGTGATGACATAATGAAC
1 ATGTGATGATATATTGAAC
55882187 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:55901506 original size:46 final size:44
Alignment explanation
Indices: 55901414--55901529 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 44
55901404 GTGCCGATGC
* *
55901414 CATGTCCCAGACATGGTCTTACGCTGACACATCTCGTAGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGCCAATG
* *
55901459 CATGTCCCAAACATGTCTTACACTAACTTACGTCTCG-AGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GCCAATG
* *
55901505 CATGTCCTAGACATGTTTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
55901530 GCACTCGTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 11 0.18
45 14 0.23
46 36 0.59
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAACACATCTCGTAGCCAATG
Found at i:55901539 original size:46 final size:46
Alignment explanation
Indices: 55901452--55901566 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
55901442 ACATCTCGTA
*
55901452 GCCAATGCATGTCCCAAACATGTCTTACACTAACTTACGTCTCGAG
1 GCCAATGCATGTCCCAAACATGTCTTACACTAACTTACGTCTCAAG
* * * *
55901498 GCCAATGCATGTCCTAGACATGTTTTACACTAGCAC-T-CGTCTCAAT
1 GCCAATGCATGTCCCAAACATGTCTTACACTA--ACTTACGTCTCAAG
* *
55901544 GCCGATGCCATGTCCCATACATG
1 GCCAATG-CATGTCCCAAACATG
55901567 GCCTTACATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
46 42 0.72
47 14 0.24
48 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCAATGCATGTCCCAAACATGTCTTACACTAACTTACGTCTCAAG
Found at i:55907285 original size:20 final size:21
Alignment explanation
Indices: 55907253--55907291 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
55907243 CTGCAGTTTG
55907253 AAAATTTTCATAT-TTTCCCT
1 AAAATTTTCATATGTTTCCCT
55907273 AAAA-TTTCTATATGTTTCC
1 AAAATTTTC-ATATGTTTCC
55907292 AATTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (21 bp):
AAAATTTTCATATGTTTCCCT
Found at i:55910901 original size:47 final size:47
Alignment explanation
Indices: 55910834--55910979 Score: 240
Period size: 47 Copynumber: 3.1 Consensus size: 47
55910824 TAAGTTGAAT
55910834 TTAAAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAA-CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
*
55910881 TTAAACTTGTTAAATTTGCTCTTAATATTTCCAGATAAGTTACTTAG
1 TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
* * *
55910928 TTAAGCTTGTTAAATTTGCTTTTAATATTTTCGGATAAGTTACTTAG
1 TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
55910975 TTAAA
1 TTAAA
55910980 GAAAATTTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 9 0.10
47 83 0.90
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (47 bp):
TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
Found at i:55911852 original size:45 final size:45
Alignment explanation
Indices: 55911788--55912006 Score: 270
Period size: 45 Copynumber: 5.0 Consensus size: 45
55911778 ATATCGCACA
* * * *
55911788 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATACTGCCGGTGAG
1 ATACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
*
55911833 ATACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
* * *
55911878 ATACTATTC-GGGCTTCGAGCCTAGCAGG-GAAAATGCCGGTGAG
1 ATACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
* * *
55911921 ATACTATTCAGGCATTCGAGCCTAGCAGGCTATAATGCCGCTGAA
1 ATACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
55911966 ATGA-TA-TCAGG-CTTCGAGCCTAGCAGGCGA-AATACCGGTGA
1 AT-ACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
55912007 ATGAATTTAG
Statistics
Matches: 154, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
42 9 0.06
43 39 0.25
44 39 0.25
45 66 0.43
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (45 bp):
ATACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:55911942 original size:88 final size:89
Alignment explanation
Indices: 55911787--55912006 Score: 295
Period size: 88 Copynumber: 2.5 Consensus size: 89
55911777 AATATCGCAC
* * * * * * *
55911787 AATACTATTCGGGCCTTTGAGCCTAGTAGGCTATACTGCCGGTGAGATACTATTCAGGCCTTTGA
1 AATACTATTCGGG-CTTCGAGCCTAGCAGGCGAAAATGCCGGTGAGATACTATTCAGGCATTCGA
*
55911852 GCCTAGCAGGCTATAATGCCGGTGA
65 GCCTAGCAGGCTATAATGCCGCTGA
*
55911877 GATACTATTCGGGCTTCGAGCCTAGCAGG-GAAAATGCCGGTGAGATACTATTCAGGCATTCGAG
1 AATACTATTCGGGCTTCGAGCCTAGCAGGCGAAAATGCCGGTGAGATACTATTCAGGCATTCGAG
55911941 CCTAGCAGGCTATAATGCCGCTGA
66 CCTAGCAGGCTATAATGCCGCTGA
* *
55911965 AATGA-TA-TCAGGCTTCGAGCCTAGCAGGCG-AAATACCGGTGA
1 AAT-ACTATTCGGGCTTCGAGCCTAGCAGGCGAAAATGCCGGTGA
55912007 ATGAATTTAG
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
87 31 0.27
88 58 0.50
89 15 0.13
90 12 0.10
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (89 bp):
AATACTATTCGGGCTTCGAGCCTAGCAGGCGAAAATGCCGGTGAGATACTATTCAGGCATTCGAG
CCTAGCAGGCTATAATGCCGCTGA
Found at i:55913992 original size:40 final size:39
Alignment explanation
Indices: 55913941--55914124 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
55913931 TTACTCATTC
*
55913941 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
55913981 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
55914021 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
55914061 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
55914102 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55914125 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 99 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:55914084 original size:80 final size:80
Alignment explanation
Indices: 55913944--55914124 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
55913934 CTCATTCAAT
* * *
55913944 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
55914008 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
55914023 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
55914086 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
55914104 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
55914125 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:55915151 original size:12 final size:11
Alignment explanation
Indices: 55915131--55915160 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
55915121 AGGATGAGCA
55915131 TTTTTTCTTTC
1 TTTTTTCTTTC
55915142 TTTGTTTCTTTC
1 TTT-TTTCTTTC
55915154 TTTTTTC
1 TTTTTTC
55915161 GGCTAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:55921901 original size:79 final size:79
Alignment explanation
Indices: 55921802--55922021 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
55921792 CTCGTTCAAG
* * ** * *
55921802 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
55921866 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
55921881 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
55921946 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
55921960 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
55922022 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:55921981 original size:40 final size:40
Alignment explanation
Indices: 55921839--55922021 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
55921829 TAACTCATTC
* *
55921839 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
55921879 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
55921918 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
55921958 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
55921999 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55922022 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:55928175 original size:47 final size:47
Alignment explanation
Indices: 55928117--55928246 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
55928107 TAAATCGATA
* * *
55928117 AGTAGCTATACCATGGCCAGTAGCCCAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCAGTAGCCAAATCAAGGTAACTCATCCCGG
* * * * *
55928164 AGTACCTATACCAAGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCAGTAGCCAAATCAAGGTAACTCATCCCGG
* *
55928211 AATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCAGTAGCCAAATCAAGGTA
55928247 TTATTCTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGGCCAGTAGCCAAATCAAGGTAACTCATCCCGG
Found at i:55935157 original size:27 final size:27
Alignment explanation
Indices: 55935113--55935467 Score: 122
Period size: 27 Copynumber: 13.2 Consensus size: 27
55935103 CAAAACAGTC
* * * *
55935113 ATTTTACCCTATAGGGGTATGTT-GGTC
1 ATTTTACACTACAAGGGTAT-TTCGGTA
*
55935140 ATTTTTCACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
**
55935167 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* ** * *
55935194 ATTTTACA-AATCCGGGGTGTTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
55935221 ATTTTACA-AATCGAGGGTATTT-GGGA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
55935247 GTTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
55935274 ATTTTACA-AATCAATGGTGTTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * * *
55935301 ATTTCACA-AATCGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
55935328 ATTTCACA-AATCAGGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * **
55935355 ATTTTACA-AATCGAGGGTATTTCATTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
55935382 ATTTCACAAT-CGAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * **
55935408 ATTTTACA-AATCGAGGGTATTTCAATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
55935435 ATTTTACA-AACCAGGGGTATTTAGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
55935462 ATTTTA
1 ATTTTA
55935468 TAAACTGGGG
Statistics
Matches: 271, Mismatches: 51, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 47 0.17
27 224 0.83
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:55935278 original size:107 final size:107
Alignment explanation
Indices: 55935153--55935653 Score: 480
Period size: 107 Copynumber: 4.7 Consensus size: 107
55935143 TTTCACTACA
* *
55935153 AGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAATAATTTTACAAATCCGGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACA-AACAAGGGTATTTCAATAATTTTACAAAT-CGGGGTATTTCA
* *
55935218 GTAATTTTACAAATCGA-GGGTATTT-GGGAGTTTTACAAATCG
64 GTAATTTTACAAATCGAGGGGTATTTAGGTAATTTTACAAATCG
* * * * *
55935260 AGGGTATTTCGGTAATTTTACAAATCAATGGTGTTTCAGTAATTTCACAAATCGAGGGTGTTTC-
1 AGGGTATTTCGGTAATTTTACAAA-CAAGGGTATTTCAATAATTTTACAAATCG-GGGTATTTCA
* * *
55935324 GATAATTTCACAAATC-AGGGGTATTTCGATAATTTTACAAATCG
64 G-TAATTTTACAAATCGAGGGGTATTTAGGTAATTTTACAAATCG
** * * * * *
55935368 AGGGTATTTCATTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAA
1 AGGGTATTTCGGTAATTTTACAAACAAGGGTATTTCAATAATTTTACAAATCG-GGGTATTTCAG
* *
55935433 TAATTTTACAAA-CCAGGGGTATTTAGGTAATTTTATAAA-CTG
65 TAATTTTACAAATCGAGGGGTATTTAGGTAATTTTACAAATC-G
* ** * *
55935475 GGGGTATTTTAGTAATTTTACAAATC--GGAGATATTTCAATAATTTTACAAACCGAGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAA-CAAGG-G-TATTTCAATAATTTTACAAATCGGGGTATTTC
* * * * *
55935538 GGTAATTTTACAAATTGA-GGGTATTTTGGTAATTTTACAAACCA
63 AGTAATTTTACAAATCGAGGGGTATTTAGGTAATTTTACAAATCG
* * ** * * * *
55935582 AGGGTATTTTGATAATTTTACAAATCGGGGGTACTTCGATAATTTTACAAATTAGGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAA-CAAGGGTATTTCAATAATTTTACAAA-TCGGGGTATTTCA
55935647 GTAATTT
64 GTAATTT
55935654 CTCTTTATTA
Statistics
Matches: 330, Mismatches: 48, Indels: 31
0.81 0.12 0.08
Matches are distributed among these distances:
106 9 0.03
107 243 0.74
108 76 0.23
109 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (107 bp):
AGGGTATTTCGGTAATTTTACAAACAAGGGTATTTCAATAATTTTACAAATCGGGGTATTTCAGT
AATTTTACAAATCGAGGGGTATTTAGGTAATTTTACAAATCG
Found at i:55935472 original size:27 final size:27
Alignment explanation
Indices: 55935154--55935653 Score: 237
Period size: 27 Copynumber: 18.6 Consensus size: 27
55935144 TTCACTACAA
* * *
55935154 GGGTATTTCGGTAATTTTACACTA-CAA
1 GGGTATTTAGGTAATTTTACA-AACCAG
*
55935181 GGGTATTTCA-ATAATTTTACAAATCC-G
1 GGGTATTT-AGGTAATTTTACAAA-CCAG
* *
55935208 GGGTGTTTCA-GTAATTTTACAAATC-G
1 GGGTATTT-AGGTAATTTTACAAACCAG
* * *
55935234 AGGGTATTT-GGGAGTTTTACAAATC-G
1 -GGGTATTTAGGTAATTTTACAAACCAG
* * *
55935260 AGGGTATTTCGGTAATTTTACAAATCAA
1 -GGGTATTTAGGTAATTTTACAAACCAG
* * * *
55935288 TGGTGTTTCA-GTAATTTCACAAATC-G
1 GGGTATTT-AGGTAATTTTACAAACCAG
* * * * *
55935314 AGGGTGTTTCGATAATTTCACAAATCAG
1 -GGGTATTTAGGTAATTTTACAAACCAG
* * *
55935342 GGGTATTTCGATAATTTTACAAATC-G
1 GGGTATTTAGGTAATTTTACAAACCAG
* * * *
55935368 AGGGTATTTCA-TTAATTTCACAATCGA-
1 -GGGTATTT-AGGTAATTTTACAAACCAG
* * *
55935395 GGGTATTTCGATAATTTTACAAATC-G
1 GGGTATTTAGGTAATTTTACAAACCAG
*
55935421 AGGGTATTTCA-ATAATTTTACAAACCAG
1 -GGGTATTT-AGGTAATTTTACAAACCAG
* **
55935449 GGGTATTTAGGTAATTTTATAAACTGG
1 GGGTATTTAGGTAATTTTACAAACCAG
*
55935476 GGGTATTTTA-GTAATTTTACAAATC-G
1 GGGTA-TTTAGGTAATTTTACAAACCAG
* *
55935502 GAGATATTTCA-ATAATTTTACAAACC-G
1 G-GGTATTT-AGGTAATTTTACAAACCAG
* * **
55935529 AGGTATTTCGGTAATTTTACAAA-TTG
1 GGGTATTTAGGTAATTTTACAAACCAG
* *
55935555 AGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTAGGTAATTTTACAAACCAG
* * * *
55935583 GGGTATTTTGATAATTTTACAAATCGG
1 GGGTATTTAGGTAATTTTACAAACCAG
* * * **
55935610 GGGTACTTCGATAATTTTACAAATTAG
1 GGGTATTTAGGTAATTTTACAAACCAG
*
55935637 GGGTATTTCGGTAATTT
1 GGGTATTTAGGTAATTT
55935654 CTCTTTATTA
Statistics
Matches: 379, Mismatches: 67, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
26 70 0.18
27 302 0.80
28 7 0.02
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTAGGTAATTTTACAAACCAG
Found at i:55935652 original size:134 final size:136
Alignment explanation
Indices: 55935153--55935653 Score: 565
Period size: 134 Copynumber: 3.7 Consensus size: 136
55935143 TTTCACTACA
* * * * *
55935153 AGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCAATAATTTTACAAATCCGGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACA-AACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTC
* * *
55935217 -AGTAATTTTACAAATCGAGGGTATTT-GGGAGTTTTACAAATCGAGGGTATTTCGGTAATTTTA
65 GAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTA
*
55935280 CAAATCA
130 CAAATCG
* * * * * * * *
55935287 ATGGTGTTTCAGTAATTTCACAAATCGAGGGTGTTTCGATAATTTCACAAATCAGGGGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCG
* * *
55935352 A-TAATTTTACAAATCGAGGGTATTTCATTAATTTCAC-AATCGAGGGTATTTCGATAATTTTAC
66 AGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTAC
55935415 AAATCG
131 AAATCG
* * * * *
55935421 AGGGTATTTCAATAATTTTACAAACCAGGGGTATTTAGGTAATTTTATAAA-CTGGGGGTATTT-
1 AGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATC-GGGGGTATTTC
* * * *
55935484 TAGTAATTTTACAAATCG-GAGATATTTCAATAATTTTACAAACCGA-GGTATTTCGGTAATTTT
65 GAGTAATTTTACAAATCGAG-GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTT
*
55935547 ACAAATTG
129 ACAAATCG
** * *
55935555 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCGGGGGTACTTCG
1 AGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCG
* *
55935620 A-TAATTTTACAAAT-TAGGGGTATTTCGGTAATTT
66 AGTAATTTTACAAATCGA-GGGTATTTCAGTAATTT
55935654 CTCTTTATTA
Statistics
Matches: 305, Mismatches: 51, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
133 4 0.01
134 286 0.94
135 15 0.05
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (136 bp):
AGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCG
AGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTAC
AAATCG
Found at i:55936017 original size:27 final size:28
Alignment explanation
Indices: 55935958--55936042 Score: 127
Period size: 27 Copynumber: 3.0 Consensus size: 28
55935948 CTTATTCCTT
* *
55935958 TGGCCCATTTAGGCCCAATCTCGTTCATA
1 TGGCCCA-TTAGGCCCAATCACATTCATA
55935987 TGGCCCATTAGGCCCAA-CACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
55936014 TGGCCCATGAGGCCCAATCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
55936042 T
1 T
55936043 CACCCATCAC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 24 0.46
28 21 0.40
29 7 0.13
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:55936048 original size:28 final size:28
Alignment explanation
Indices: 55935958--55936058 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
55935948 CTTATTCCTT
* * *
55935958 TGGCCCATTTAGGCCCAATCTCGTTCATA
1 TGGCCCA-TCAGGCCCAATCACATTCATA
*
55935987 TGGCCCATTAGGCCCAA-CACATTCATA
1 TGGCCCATCAGGCCCAATCACATTCATA
*
55936014 TGGCCCATGAGGCCCAATCACATTCATA
1 TGGCCCATCAGGCCCAATCACATTCATA
** *
55936042 TCACCCATCACGCCCAA
1 TGGCCCATCAGGCCCAA
55936059 CTACTTCCCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
27 24 0.38
28 33 0.52
29 7 0.11
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.23
Consensus pattern (28 bp):
TGGCCCATCAGGCCCAATCACATTCATA
Found at i:55938452 original size:47 final size:46
Alignment explanation
Indices: 55938395--55938524 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 46
55938385 TAAATCAATA
* *
55938395 AGTACCTATACCATGTCCTATAGCAAAATCAAGGTAACTTATC-CTGG
1 AGTACCTATACCATGTCCCATAGC-AAATCAAGGTAACTCATCTCT-G
* * * *
55938442 AGTACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGTCCCATAG-CAAATCAAGGTAACTCATCTCTG
* *
55938489 AATACCCATACCATGTCCCATAGTCAAATCAAGGTA
1 AGTACCTATACCATGTCCCATAG-CAAATCAAGGTA
55938525 TTATTCACAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 66 0.96
48 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (46 bp):
AGTACCTATACCATGTCCCATAGCAAATCAAGGTAACTCATCTCTG
Found at i:55940664 original size:21 final size:22
Alignment explanation
Indices: 55940638--55940686 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
55940628 TGTTTTGAAT
* *
55940638 TTTTACAAAATGTGTCGATA-C
1 TTTTACAAAAAGTATCGATACC
55940659 TTTTACAAAAAGTATCGATACC
1 TTTTACAAAAAGTATCGATACC
55940681 TTTTAC
1 TTTTAC
55940687 CAAGTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (22 bp):
TTTTACAAAAAGTATCGATACC
Found at i:55942016 original size:26 final size:27
Alignment explanation
Indices: 55941969--55942020 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
55941959 CATTCTACCA
55941969 TACAGGGGTATTACGGTCATTTTACAC
1 TACAGGGGTATTACGGTCATTTTACAC
** *
55941996 TACA-GGGTATTTTGGTGATTTTACA
1 TACAGGGGTATTACGGTCATTTTACA
55942021 AACCGGGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (27 bp):
TACAGGGGTATTACGGTCATTTTACAC
Found at i:55944861 original size:41 final size:41
Alignment explanation
Indices: 55944771--55944876 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 41
55944761 TGACAAATCA
* *
55944771 GCTATATGTGGCACTTAATGTGC-AAATCGACATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAAATCGACATAGCTTCG
* * * *
55944811 GCTACATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAAATCGACATAGCTTCG
*
55944852 GCTATATATGGCACTAAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGA
55944877 TGGATGGCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 20 0.35
41 37 0.65
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAAATCGACATAGCTTCG
Found at i:55948643 original size:16 final size:16
Alignment explanation
Indices: 55948624--55948684 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
55948614 CTTATTTTTA
55948624 TATTATATTATATAAT
1 TATTATATTATATAAT
* *
55948640 TATTTTATTAT-TTAT
1 TATTATATTATATAAT
55948655 TATTCATATTATTTATATAT
1 TATT-ATATTA--TATA-AT
55948675 TA-TATATTAT
1 TATTATATTAT
55948685 TTTTACATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.19
16 16 0.44
18 7 0.19
19 2 0.06
20 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTATATAAT
Found at i:55948645 original size:23 final size:24
Alignment explanation
Indices: 55948619--55948679 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
55948609 TTAATCTTAT
55948619 TTTTATATTATATTA-T-ATAATTA
1 TTTTATATTATATTATTCAT-ATTA
55948642 TTTTATTATT-TATTATTCATATTA
1 TTTTA-TATTATATTATTCATATTA
55948666 TTTATATATTATAT
1 TTT-TATATTATAT
55948680 ATTATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 10 0.30
24 16 0.48
25 7 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTATATTATATTATTCATATTA
Found at i:55948666 original size:9 final size:9
Alignment explanation
Indices: 55948621--55948686 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
55948611 AATCTTATTT
55948621 TTATATTATA
1 TTAT-TTATA
*
55948631 TTATATA-A
1 TTATTTATA
55948639 TTATTT-TA
1 TTATTTATA
55948647 TTA-TT-TA
1 TTATTTATA
*
55948654 TTATTCATA
1 TTATTTATA
55948663 TTATTTATA
1 TTATTTATA
55948672 -TATTATATA
1 TTATT-TATA
55948681 TTATTT
1 TTATTT
55948687 TTACATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
7 7 0.15
8 15 0.32
9 17 0.36
10 8 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATTTATA
Done.