Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 230 of 345
Found at i:67134307 original size:46 final size:46
Alignment explanation
Indices: 67134256--67134452 Score: 288
Period size: 46 Copynumber: 4.3 Consensus size: 46
67134246 AATTTGTGGT
* * * *
67134256 TTCTTCTATCCACCCCACTACAACTCAAGGGTATATGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
*
67134302 ATCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* *
67134348 TTCTTCAATCCATCCCACTGCAACTCAGGGGTATAAGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* *
67134394 TTCTTCAATCCATCCCACTGCAACT-TAGGGTTACAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGG-TATAGGATTTGTATC
*
67134440 TTCTTTAATCCAT
1 TTCTTCAATCCAT
67134453 TGATCTGGGT
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 3 0.02
46 134 0.98
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
Found at i:67135269 original size:6 final size:6
Alignment explanation
Indices: 67135260--67135329 Score: 63
Period size: 6 Copynumber: 12.0 Consensus size: 6
67135250 TTGGCCTCTC
* * * * *
67135260 CTTTTT CTTTTT TTTTTT CTTTTT -TATTT CTTCTT CTTCTT CTTCTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
* *
67135307 CTTCTT CTTCTT C-TTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT
67135330 TGGAAAACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
5 8 0.14
6 48 0.86
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:67135293 original size:3 final size:3
Alignment explanation
Indices: 67135287--67135326 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
67135277 TCTTTTTTAT
67135287 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
67135327 TTTTGGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:67137484 original size:40 final size:40
Alignment explanation
Indices: 67137379--67137585 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
67137369 CGGATGATAA
* *
67137379 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
67137419 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67137458 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67137498 CCGGGCTCAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
67137538 CCGGGCTAAGTCCCGAAGGGATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
67137578 CC-GGCTAA
1 CCGGGCTAA
67137586 ATTTCGAAGG
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 42 0.28
40 109 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67144601 original size:78 final size:77
Alignment explanation
Indices: 67144507--67144688 Score: 238
Period size: 78 Copynumber: 2.3 Consensus size: 77
67144497 TCGTTCAAAC
* * ** *
67144507 GCCTTCGGGACATAGCCCGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCA
1 GCCTTCGGG-CTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATCA
67144572 CAACTCGCACAATT
64 CAACTCGCACAATT
* ** *
67144586 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCC-GATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
*
67144651 AATTCGCACAATT
65 AACTCGCACAATT
67144664 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCC-GATATCA
67144689 CTCGAACATT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
78 59 0.64
79 33 0.36
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCACA
ACTCGCACAATT
Found at i:67144616 original size:39 final size:39
Alignment explanation
Indices: 67144537--67144689 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
67144527 TATGGTAACC
** * *
67144537 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
67144577 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
67144616 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
67144655 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
67144690 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 90 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:67146538 original size:29 final size:29
Alignment explanation
Indices: 67146505--67146665 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
67146495 GTGACGAGAT
67146505 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
67146534 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
67146563 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
67146592 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
67146621 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
67146650 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67146666 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:67154043 original size:29 final size:29
Alignment explanation
Indices: 67154010--67154170 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
67154000 GTGACGAGAT
67154010 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
67154039 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
67154068 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
67154097 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
67154126 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
67154155 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67154171 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:67158481 original size:40 final size:40
Alignment explanation
Indices: 67158376--67158519 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
67158366 CGGATGATAA
* *
67158376 CCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA-T
67158416 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
* * *
67158455 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
* *
67158495 CCGGGCTAAGTCCCAAAGGGATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
67158520 AGCAAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
39 34 0.36
40 60 0.64
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
Found at i:67158533 original size:40 final size:40
Alignment explanation
Indices: 67158376--67158552 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
67158366 CGGATGATAA
** *
67158376 CCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
67158416 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67158455 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
67158495 CCGGGCTAAGTCCCAAAGGGATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
67158535 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67158553 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 49 0.41
40 71 0.59
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67158541 original size:79 final size:79
Alignment explanation
Indices: 67158379--67158552 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 79
67158369 ATGATAACCG
** * * * **
67158379 GGCTAAGTCCCGAAGGCATTTGTGTTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTTGAGCA
67158444 AGTTACTATATCCA
66 AGTTACTATATCCA
* *
67158458 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCAAAGGGATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAG
67158522 CAAG-TAGCTATATCC-
64 CAAGTTA-CTATATCCA
* *
67158537 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
67158553 TACTTGGTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 56 0.69
80 23 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTTGAGCA
AGTTACTATATCCA
Found at i:67164712 original size:43 final size:43
Alignment explanation
Indices: 67164664--67164780 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 43
67164654 TCTAGGACTT
67164664 TGGCATCGATATGTGATTTCTAGTAAGACCATGACTGGGACA-
1 TGGCATCGATATGTGATTTCTAGTAAGACCATGACTGGGACAG
* *
67164706 TCGGCATC-ATAATTGTGA-TTCGT-GTAAGACCCTGTCTGGGACAG
1 T-GGCATCGAT-A-TGTGATTTC-TAGTAAGACCATGACTGGGACAG
* *
67164750 TGGCATCGACATGTGATTAC-ATGTAAGACCA
1 TGGCATCGATATGTGATTTCTA-GTAAGACCA
67164781 CGCCTAGGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
42 8 0.13
43 45 0.74
44 8 0.13
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGGCATCGATATGTGATTTCTAGTAAGACCATGACTGGGACAG
Found at i:67164797 original size:43 final size:41
Alignment explanation
Indices: 67164642--67164798 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 41
67164632 TGTGTTCTCG
* * *
67164642 TGTAAGACCACATCTAGGACTTTGGCATCGATATGTGATTTC
1 TGTAAGACCACGTCTAGGACGTTGGCATCGAAATGTGA-TTC
* * * * *
67164684 TAGTAAGACCATGACTGGGACATCGGCATC-ATAATTGTGATTC
1 T-GTAAGACCACGTCTAGGACGTTGGCATCGA-AA-TGTGATTC
* *
67164727 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGATTAC
1 -TGTAAGACCAC-GTCTAGGAC-GTTGGCATCGAAATGTGATT-C
*
67164770 ATGTAAGACCACGCCTAGGACGTTGGCAT
1 -TGTAAGACCACGTCTAGGACGTTGGCAT
67164799 TGTACGATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
42 10 0.11
43 72 0.80
44 8 0.09
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGAAATGTGATTC
Found at i:67167389 original size:19 final size:20
Alignment explanation
Indices: 67167365--67167409 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
67167355 TGGTGACATT
67167365 CAATGCATATG-ATGAAATG
1 CAATGCATATGCATGAAATG
67167384 CAATGCATATGCATGAAATG
1 CAATGCATATGCATGAAATG
67167404 -AATGCA
1 CAATGCA
67167410 AAAAGAGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.24
Consensus pattern (20 bp):
CAATGCATATGCATGAAATG
Found at i:67169377 original size:12 final size:12
Alignment explanation
Indices: 67169352--67169385 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67169342 ACAAGAACAA
*
67169352 ATAAATAAATAG
1 ATAAATAGATAG
*
67169364 ATAGATAGATAG
1 ATAAATAGATAG
67169376 ATAAATAGAT
1 ATAAATAGAT
67169386 TATAACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (12 bp):
ATAAATAGATAG
Found at i:67176924 original size:47 final size:45
Alignment explanation
Indices: 67176756--67176929 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
67176746 TGGGGTCAGG
* * *
67176756 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCA
*
67176801 TAGCCGATGCATGTCCCAAACATGTCTTACACTA-C-CTTACGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTC-A
* * *
67176848 GGCCGAAGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-A
*
67176894 TGCTGATGACATGTCCCAGACATGTCTTACACTAGC
1 TGCCGATG-CATGTCCCAGACATGTCTTACACTAGC
67176930 TCACACAAGT
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 53 0.50
47 28 0.26
48 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA
Found at i:67179699 original size:18 final size:18
Alignment explanation
Indices: 67179673--67179713 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
67179663 TTTTTCAAAT
67179673 AATTA-AAATT-TTAAAAA
1 AATTATAAATTCTT-AAAA
*
67179690 AATTATAAATTCTTTAAA
1 AATTATAAATTCTTAAAA
67179708 AATTAT
1 AATTAT
67179714 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTATAAATTCTTAAAA
Found at i:67179721 original size:10 final size:10
Alignment explanation
Indices: 67179677--67179766 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 10
67179667 TCAAATAATT
67179677 AAAATT-TTA
1 AAAATTATTA
*
67179686 AAAA-AATTA
1 AAAATTATTA
* *
67179695 TAAATTCTTTA
1 AAAATT-ATTA
67179706 AAAATTATTA
1 AAAATTATTA
*
67179716 AGAATTA-TA
1 AAAATTATTA
67179725 AATAATTA-TA
1 AA-AATTATTA
*
67179735 AATAATCATTA
1 AA-AATTATTA
* *
67179746 CAAATT-TAA
1 AAAATTATTA
67179755 AAAATTATTA
1 AAAATTATTA
67179765 AA
1 AA
67179767 GCCATACATA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
9 20 0.33
10 30 0.49
11 11 0.18
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:67180296 original size:38 final size:39
Alignment explanation
Indices: 67180247--67180344 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 39
67180237 GGTTTTTAAA
*
67180247 TAATTATTAGAA-ATTTTTATTTATTTATTTATGGATTT
1 TAATTTTTAGAATATTTTTATTTATTTATTTATGGATTT
67180285 TAATTTTTAGAATTATTTATTTATTTATTTATTTATGGATTT
1 TAATTTTTAGAA-TA-TT-TTTATTTATTTATTTATGGATTT
67180327 TAATTTTTA-AATATTTTT
1 TAATTTTTAGAATATTTTT
67180345 TTATATGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
38 14 0.25
39 2 0.04
40 3 0.05
41 4 0.07
42 32 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (39 bp):
TAATTTTTAGAATATTTTTATTTATTTATTTATGGATTT
Found at i:67180308 original size:42 final size:40
Alignment explanation
Indices: 67180262--67180348 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 40
67180252 ATTAGAAATT
67180262 TTTATTTATTTATTTATGGATTTTAATTTTTAGAATTATTTA
1 TTTATTTATTTATTTATGGATTTTAATTTTTA-AA-TATTTA
*
67180304 TTTATTTATTTATTTATGGATTTTAATTTTTAAATATTTT
1 TTTATTTATTTATTTATGGATTTTAATTTTTAAATATTTA
67180344 TTTAT
1 TTTAT
67180349 ATGAAAAGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 10 0.23
41 2 0.05
42 32 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (40 bp):
TTTATTTATTTATTTATGGATTTTAATTTTTAAATATTTA
Found at i:67181553 original size:21 final size:21
Alignment explanation
Indices: 67181527--67181575 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
67181517 GTAAGAGTGG
*
67181527 GGTGCATGATTAGTTTCCTAC
1 GGTGCACGATTAGTTTCCTAC
67181548 GGTGCACGATTAGTTTCCTAC
1 GGTGCACGATTAGTTTCCTAC
67181569 GGTGCAC
1 GGTGCAC
67181576 ACTCACCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (21 bp):
GGTGCACGATTAGTTTCCTAC
Found at i:67198106 original size:79 final size:81
Alignment explanation
Indices: 67197994--67198176 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
67197984 GCTACTCGTT
* * *
67197994 CAAATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-C
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTT-ACTCC
* *
67198057 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * *
67198074 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTTGCACGAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTACTCCG
*
67198137 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
67198154 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
67198177 AACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 6 0.07
79 52 0.58
80 31 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTACTCCGG
ATATAGTAACTTAGCA
Found at i:67198172 original size:40 final size:40
Alignment explanation
Indices: 67197975--67198176 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
67197965 CGGAGTTTAA
** * *
67197975 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATGGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67198015 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67198055 TCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
67198094 CCGGA-ATTAGTAACTTGCACGAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
67198134 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
67198174 CCG
1 CCG
67198177 AACATCATTC
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:67204344 original size:107 final size:107
Alignment explanation
Indices: 67204154--67204537 Score: 517
Period size: 107 Copynumber: 3.6 Consensus size: 107
67204144 CGATTTACAG
** * *
67204154 AATTACCGTTTTACCCTC-AGTTTACAGAATTATTGTTTTACCCTTGATTTACAAAATTACTGTT
1 AATTACCGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATT
67204218 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAA
65 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT-TAA
*
67204262 AATTACCGTTTTACCCTCGATTTACAGAATTACCG-TTTACCCTC-AGTTTACAGAATTACTATT
1 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACTATT
* *
67204325 TTACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACA
65 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTA-A
* * * * **
67204368 TAATTACCATTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTT
1 -AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATT
* *
67204432 TTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAG
65 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT-TAA
* * *
67204476 AATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
67204538 AAATACCCTT
Statistics
Matches: 242, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
105 2 0.01
106 22 0.09
107 141 0.58
108 74 0.31
109 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (107 bp):
AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTAA
Found at i:67204536 original size:27 final size:27
Alignment explanation
Indices: 67204144--67204535 Score: 506
Period size: 27 Copynumber: 14.6 Consensus size: 27
67204134 AAAGTACTCC
67204144 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67204171 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
67204198 TGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67204225 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
67204252 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67204279 CGATTTACAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67204305 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
67204332 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
67204358 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
67204385 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67204412 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67204439 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67204466 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67204493 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67204520 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
67204536 TAAAATACCC
Statistics
Matches: 322, Mismatches: 36, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
25 1 0.00
26 46 0.14
27 273 0.85
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:67204546 original size:81 final size:81
Alignment explanation
Indices: 67204144--67204535 Score: 499
Period size: 80 Copynumber: 4.9 Consensus size: 81
67204134 AAAGTACTCC
* ** *
67204144 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATTGTTTTACCCTTGATTTACAA
1 CGATTTACAGAATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAA
**
67204208 AATTACTGTTTTACCCT
65 AATTACCATTTTACCCT
* * ** * *
67204225 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
*
67204290 ATTACC-GTTTACCCT
66 ATTACCATTTTACCCT
* * *
67204305 C-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACA
1 CGA-TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACA
*
67204368 TAATTACCATTTTACCC-
64 AAATTACCATTTTACCCT
* * *
67204385 CGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
1 CGATTTACAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAA
67204449 AATTACCATTTTACCCT
65 AATTACCATTTTACCCT
* * *
67204466 CGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
67204531 ATTAC
66 ATTAC
67204536 TAAAATACCC
Statistics
Matches: 272, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
79 3 0.01
80 136 0.50
81 131 0.48
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
ATTACCATTTTACCCT
Found at i:67204572 original size:81 final size:81
Alignment explanation
Indices: 67204125--67204579 Score: 303
Period size: 81 Copynumber: 5.6 Consensus size: 81
67204115 CTCGACTTGT
* * *** **
67204125 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATT
1 AAAATTACCAAAATAC-CCTCGATTTATAGAATTACCGCAATACCCTCGA-TTTACAGAATTACC
*
67204188 GTTTTACCCTTGATTTAC
64 GTTTTACCCTCGATTTAC
***** *** ** *
67204206 AAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67204271 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** * ***** *
67204287 AGAATTACC-GTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCG
*
67204350 TTTTACCC-CTAATTTAC
65 TTTTACCCTC-GATTTAC
* *** * * * ***
67204367 ATAATTACCATTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
*
67204431 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *** * *
67204447 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67204512 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * * *
67204528 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
67204580 GTAAAACTAC
Statistics
Matches: 313, Mismatches: 52, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 139 0.44
81 171 0.55
82 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:67208912 original size:27 final size:27
Alignment explanation
Indices: 67208519--67208911 Score: 515
Period size: 27 Copynumber: 14.6 Consensus size: 27
67208509 AAAGTACTCC
67208519 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67208546 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
67208573 TGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67208600 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
67208627 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67208654 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67208681 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
67208708 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
67208734 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
67208761 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67208788 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67208815 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67208842 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67208869 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67208896 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
67208912 TAAAATACCC
Statistics
Matches: 324, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
26 25 0.08
27 297 0.92
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:67208948 original size:81 final size:81
Alignment explanation
Indices: 67208500--67208955 Score: 303
Period size: 81 Copynumber: 5.6 Consensus size: 81
67208490 CTCGACTTGT
* * *** **
67208500 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATT
1 AAAATTACCAAAATAC-CCTCGATTTATAGAATTACCGCAATACCCTCGA-TTTACAGAATTACC
*
67208563 GTTTTACCCTTGATTTAC
64 GTTTTACCCTCGATTTAC
***** *** ** *
67208581 AAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67208646 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **** * ***** *
67208662 AGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCG
*
67208726 TTTTACCC-CTAATTTAC
65 TTTTACCCTC-GATTTAC
* *** * * * ***
67208743 ATAATTACCATTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
*
67208807 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *** * *
67208823 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67208888 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * * *
67208904 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
67208956 GTAAAACTAC
Statistics
Matches: 316, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
80 73 0.23
81 242 0.77
82 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:67213288 original size:27 final size:27
Alignment explanation
Indices: 67212895--67213287 Score: 515
Period size: 27 Copynumber: 14.6 Consensus size: 27
67212885 AAAGTACTCC
67212895 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67212922 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
67212949 TGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67212976 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
67213003 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67213030 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
67213057 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
67213084 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
67213110 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
67213137 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
67213164 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67213191 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67213218 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
67213245 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
67213272 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
67213288 TAAAATACCC
Statistics
Matches: 324, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
26 25 0.08
27 297 0.92
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:67213324 original size:81 final size:81
Alignment explanation
Indices: 67212876--67213331 Score: 303
Period size: 81 Copynumber: 5.6 Consensus size: 81
67212866 CTCGACTTGT
* * *** **
67212876 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATT
1 AAAATTACCAAAATAC-CCTCGATTTATAGAATTACCGCAATACCCTCGA-TTTACAGAATTACC
*
67212939 GTTTTACCCTTGATTTAC
64 GTTTTACCCTCGATTTAC
***** *** ** *
67212957 AAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67213022 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **** * ***** *
67213038 AGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCG
*
67213102 TTTTACCC-CTAATTTAC
65 TTTTACCCTC-GATTTAC
* *** * * * ***
67213119 ATAATTACCATTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
*
67213183 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *** * *
67213199 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
67213264 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * * *
67213280 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
67213332 GTAAAACTAC
Statistics
Matches: 316, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
80 73 0.23
81 242 0.77
82 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:67227864 original size:27 final size:27
Alignment explanation
Indices: 67227834--67227887 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
67227824 AATCTCATAT
* * *
67227834 CTGTAGGCTAGTATTATTGAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
*
67227861 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
67227888 TTGGTTTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTAAAATACCC
Found at i:67227902 original size:27 final size:27
Alignment explanation
Indices: 67227872--67228268 Score: 162
Period size: 27 Copynumber: 14.7 Consensus size: 27
67227862 TGTAGGGTAG
*
67227872 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
**
67227899 AATTA-CTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
* * *
67227925 AATTACCAAAATA-CCATCGATTAGCAA
1 AATTACCAAAATACCCTTGGTTTA-CAA
* **
67227952 AATTACCAAAATAACCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ** * ***
67227979 AATCACCAAAATACCCCAGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTACAA
* * * *** *
67228006 AATTACCGAAATACTC-TCGACCAGTAA
1 AATTACCAAAATACCCTTGGTTTA-CAA
* ** **
67228033 AATTACCGAAATA-CCTTCGACTTGTAA
1 AATTACCAAAATACCCTT-GGTTTACAA
* ** ***
67228060 AATTACCAAAATA-CTTTCAATTTGTTA
1 AATTACCAAAATACCCTT-GGTTTACAA
** **
67228087 AATTACCAAAATACCCTTAATTTGGAA
1 AATTACCAAAATACCCTTGGTTTACAA
* * * * **
67228114 AATTATCGAAATACCTTTGATTTGGAA
1 AATTACCAAAATACCCTTGGTTTACAA
* *
67228141 AATTA-CAGAAATACCCCTGATTTACAA
1 AATTACCA-AAATACCCTTGGTTTACAA
*
67228168 AATTA-CAGAAATACCCTTGACTTT-CAAA
1 AATTACCA-AAATACCCTTG-GTTTAC-AA
* * *
67228196 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ** *
67228223 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTACAA
* *
67228250 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
67228269 TAGGGTGAAA
Statistics
Matches: 291, Mismatches: 67, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
26 32 0.11
27 228 0.78
28 30 0.10
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTACAA
Found at i:67228116 original size:81 final size:80
Alignment explanation
Indices: 67227924--67228238 Score: 251
Period size: 81 Copynumber: 3.9 Consensus size: 80
67227914 TTGGTTTACA
* * * *
67227924 AAATTACCAAAATACCATCGATTAGCAAAATTACCAAAATAACCTTGGTTTGTAAAATCACCAAA
1 AAATTACCAAAATACCCTCGATTAGCAAAATTACCGAAAT-ACCTTGATTTGTAAAATTACCAAA
67227989 ATACCCCAGATTTGTG
65 ATACCCCAGATTTGTG
* * ** * *
67228005 AAATTACCGAAATACTCTCGACCAGTAAAATTACCGAAATACCTTCGACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTAGCAAAATTACCGAAATACCTT-GATTTGTAAAATTACCAAA
** *
67228070 ATACTTTCA-ATTTGTT
65 ATAC-CCCAGATTTGTG
** * * * *
67228086 AAATTACCAAAATACCCTTAATTTGGAAAATTATCGAAATACCTTTGATTTGGAAAATTA-CAGA
1 AAATTACCAAAATACCCTCGATTAGCAAAATTACCGAAATACC-TTGATTTGTAAAATTACCA-A
* ***
67228150 AATACCCCTGATTTACA
64 AATACCCCAGATTTGTG
* * ** * *
67228167 AAATTA-CAGAAATACCCTTGACTT-TCAAAAATTACAAAAATACCATTGGTTTGCAAAATTACC
1 AAATTACCA-AAATACCCTCGA-TTAGC-AAAATTACCGAAATACC-TTGATTTGTAAAATTACC
*
67228230 GAAATACCC
62 AAAATACCC
67228239 TTGGTTTGTA
Statistics
Matches: 185, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
80 10 0.05
81 132 0.71
82 42 0.23
83 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGATTAGCAAAATTACCGAAATACCTTGATTTGTAAAATTACCAAAA
TACCCCAGATTTGTG
Found at i:67228170 original size:54 final size:52
Alignment explanation
Indices: 67227872--67228246 Score: 209
Period size: 54 Copynumber: 6.9 Consensus size: 52
67227862 TGTAGGGTAG
* * *
67227872 AATTACTAAAATACCCTTGGTTTACAAAATTACTG-AATACCCTTGGTTT-ACAA
1 AATTAC-AAAATACCCTTGATTTGCAAAATTAC-GAAATACCCTTGATTTGA-AA
* * * * * * *
67227925 AATTACCAAAATACCATCGATTAGCAAAATTACCAAAATAACCTTGGTTTGTAA
1 AATTA-CAAAATACCCTTGATTTGCAAAATTA-CGAAATACCCTTGATTTGAAA
* ** ** * * *** *
67227979 AATCACCAAAATACCCCAGATTTGTGAAATTACCGAAATACTCTCGACCAGTAA
1 AATTA-CAAAATACCCTTGATTTGCAAAATTA-CGAAATACCCTTGATTTGAAA
* * * * * * **
67228033 AATTACCGAAATA-CCTTCGACTTGTAAAATTACCAAAATA-CTTTCAATTTGTTA
1 AATTA-CAAAATACCCTT-GATTTGCAAAATTA-CGAAATACCCTT-GATTTGAAA
* * * *
67228087 AATTACCAAAATACCCTTAATTTGGAAAATTATCGAAATACCTTTGATTTGGAA
1 AATTA-CAAAATACCCTTGATTTGCAAAATTA-CGAAATACCCTTGATTTGAAA
* * *
67228141 AATTACAGAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCAAA
1 AATTACA-AAATACCCTTGATTTGCAAAATTAC-GAAATACCCTTGA-TTTGAAA
* * *
67228196 AATTACAAAAATACCATTGGTTTGCAAAATTACCGAAATACCCTTGGTTTG
1 AATTAC-AAAATACCCTTGATTTGCAAAATTA-CGAAATACCCTTGATTTG
67228247 TAGATTTACC
Statistics
Matches: 249, Mismatches: 60, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
53 31 0.12
54 165 0.66
55 51 0.20
56 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (52 bp):
AATTACAAAATACCCTTGATTTGCAAAATTACGAAATACCCTTGATTTGAAA
Found at i:67228551 original size:41 final size:41
Alignment explanation
Indices: 67228510--67228667 Score: 246
Period size: 41 Copynumber: 3.9 Consensus size: 41
67228500 GAAGAAATTG
** *
67228510 AGGATCGCATGGTTGCTTGACGATTGTGGATCCACCGATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
67228551 AGGATCGCATGGTTGCTTGACAATCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
67228592 AGGATCACATGGTTGCTTAACGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
67228633 AGGATCGCATGGTT-CTTGACGACCGTGGATCCACC
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
67228668 AGTGGCTTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 20 0.19
41 88 0.81
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:67229102 original size:22 final size:22
Alignment explanation
Indices: 67229076--67229121 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
67229066 GTTGCTGCGA
*
67229076 TGTTTACGGCTATATGTTGTCC
1 TGTTTAAGGCTATATGTTGTCC
*
67229098 TGTTTAAGGCTATGTGTTGTCC
1 TGTTTAAGGCTATATGTTGTCC
67229120 TG
1 TG
67229122 CCTACAGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (22 bp):
TGTTTAAGGCTATATGTTGTCC
Found at i:67239156 original size:57 final size:58
Alignment explanation
Indices: 67239031--67239172 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 58
67239021 CTCATTACAG
* * * **
67239031 AAAGGATTTAGCTTGGACTGGTAATCCTGATCTAAGTCCTTTCAAGCATATGTTATCG
1 AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTCCTTTCAAGCATATGTCATAA
** * *
67239089 ACTGGATTTAGCCCGGACAGGTAATCCAGAT-TAAG-CTCTTT-AGAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTC-CTTTCA-AGCATATGTCATAA
*
67239146 AAAGGATTTAGCCTGAACTGGTAATCC
1 AAAGGATTTAGCCTGGACTGGTAATCC
67239173 TGTTGTATAC
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
56 2 0.03
57 41 0.60
58 25 0.37
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTCCTTTCAAGCATATGTCATAA
Found at i:67240680 original size:21 final size:23
Alignment explanation
Indices: 67240654--67240702 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
67240644 TTACAAGCAA
*
67240654 CAAATTCACAA-CATTTTA-TAC
1 CAAATTCACAACCATTTTACAAC
*
67240675 CAAATTCTCAACCATTTTACAAC
1 CAAATTCACAACCATTTTACAAC
67240698 CAAAT
1 CAAAT
67240703 CATACATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATTCACAACCATTTTACAAC
Found at i:67241631 original size:42 final size:43
Alignment explanation
Indices: 67241534--67241688 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
67241524 TCGTACAATT
***
67241534 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCGATG
* *
67241577 CC-ACTGTCCCAGACAG-GGTGTTACACAAAATCAAGTA-CGATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAATATCGATG
* * * *
67241619 CCAACGTCCCAGATGTCGTCTTACACATAAATCATAA-GTCGATT
1 CCAACGTCCCAGACGTGGTCTTACACA-AAATCA-AATATCGATG
*
67241663 CCAACGTCCTAGACGTGGTCTTACAC
1 CCAACGTCCCAGACGTGGTCTTACAC
67241689 GGTAACACAT
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 35 0.38
44 29 0.32
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCGATG
Found at i:67257813 original size:23 final size:22
Alignment explanation
Indices: 67257783--67257825 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
67257773 GTAATACATA
* *
67257783 CCAAATCATGCCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
67257805 CCAACATCATACCAAAACATA
1 CCAA-ATCATACCAAAACATA
67257826 TGATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.49, C:0.30, G:0.05, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:67264056 original size:40 final size:40
Alignment explanation
Indices: 67264001--67264215 Score: 385
Period size: 40 Copynumber: 5.3 Consensus size: 40
67263991 CCCTTAGCCC
67264001 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
67264041 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
67264081 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
*
67264121 GGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCG
1 GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
* *
67264161 GGACTTAGCCCAGATAGTAGTACACTCACACAAATGCCTTCG
1 GGACTTAGCCCGGATA-TAGTA-ACTCGCACAAATGCCTTCG
67264203 GGACTTAGCCCGG
1 GGACTTAGCCCGG
67264216 TTATCATCCG
Statistics
Matches: 170, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 134 0.79
41 5 0.03
42 31 0.18
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
Found at i:67272088 original size:40 final size:40
Alignment explanation
Indices: 67272035--67272214 Score: 301
Period size: 40 Copynumber: 4.5 Consensus size: 40
67272025 ACTACTTGCT
*
67272035 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67272075 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
67272115 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
67272155 CAAATGCCTTC-GGACTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67272193 CAAATGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
67272215 GGTTATCATC
Statistics
Matches: 133, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 20 0.15
39 24 0.18
40 89 0.67
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:67276365 original size:40 final size:40
Alignment explanation
Indices: 67276312--67276493 Score: 312
Period size: 40 Copynumber: 4.5 Consensus size: 40
67276302 ACTACTTGCT
*
67276312 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
67276352 CAAATGCCTTCGGGACTTAGCCCGGAGATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67276392 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
67276432 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
67276472 CAAATGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
67276494 GGTTATCATC
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:67284377 original size:40 final size:40
Alignment explanation
Indices: 67284324--67284548 Score: 414
Period size: 40 Copynumber: 5.6 Consensus size: 40
67284314 ACTACTTGCT
*
67284324 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67284364 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67284404 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
67284444 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
67284484 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67284524 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
67284549 TTATCATCCG
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:67286247 original size:29 final size:29
Alignment explanation
Indices: 67286205--67286283 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
67286195 GGCTGTCACA
*
67286205 CATTAGGCCCAAATCACATTCATTTGGCC
1 CATTAGGCCCAAATCACATTCATATGGCC
67286234 CATTAGGCCCAAATCACATTCATATGGCC
1 CATTAGGCCCAAATCACATTCATATGGCC
*
67286263 TATTAGGCCCAAATCACATTC
1 CATTAGGCCCAAATCACATTC
67286284 TTATACATGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
CATTAGGCCCAAATCACATTCATATGGCC
Found at i:67291373 original size:37 final size:37
Alignment explanation
Indices: 67291314--67291459 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
67291304 AGCTCAGACG
* * * *
67291314 AAATCTCCACAAGAAGTTATCGGGTCTTACCGGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
67291351 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
67291388 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
67291425 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
67291460 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:67291718 original size:47 final size:47
Alignment explanation
Indices: 67291666--67291859 Score: 257
Period size: 47 Copynumber: 4.1 Consensus size: 47
67291656 CATACATATT
* * *
67291666 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
* * *
67291713 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
* *
67291760 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
* * *
67291807 TCACATTGGCCAGTCGGCCTTATCTCATATATATACA--TTCACATTCA
1 TCACATTGGCCATTCGGCCTTA-C-CACATATATGCATGTTCACATTCA
67291854 TCACAT
1 TCACAT
67291860 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 121 0.92
49 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
Found at i:67295956 original size:40 final size:40
Alignment explanation
Indices: 67295927--67296304 Score: 516
Period size: 40 Copynumber: 9.6 Consensus size: 40
67295917 GCATGATTGT
* * * * *
67295927 TCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATAC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
** * *
67295967 TCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* * *
67296007 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* *
67296047 TCTTCGGGACTTAGCCTGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* * *
67296087 TCTTCGGAACTTAGTCCGGATACATCAGCTAG--GGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCA-CTAGCACGAATGC
67296126 TCTTCGGGACTTAG-CCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
*
67296165 -CTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
67296204 -CTTCGGGACTTAG-CCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* *
67296242 TCTTCGGATACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGG-GACTTAGCCCGGATACATCACTAGCACGAATGC
67296283 TCTTCGGGACTTAGCCCGGATA
1 TCTTCGGGACTTAGCCCGGATA
67296305 TAACACTCTC
Statistics
Matches: 302, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
37 4 0.01
38 50 0.17
39 69 0.23
40 143 0.47
41 36 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
Found at i:67297630 original size:37 final size:37
Alignment explanation
Indices: 67297571--67297716 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
67297561 AGCTCAGACG
* *
67297571 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
67297608 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
67297645 TAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
67297682 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
67297717 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:67297975 original size:47 final size:47
Alignment explanation
Indices: 67297923--67298116 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
67297913 CATACATATT
* * * *
67297923 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
67297970 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
67298017 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
67298064 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
67298111 TCACAT
1 TCACAT
67298117 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:67302184 original size:40 final size:40
Alignment explanation
Indices: 67302155--67302536 Score: 570
Period size: 40 Copynumber: 9.6 Consensus size: 40
67302145 GCATGATTGT
* * * * * *
67302155 TCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATAC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
** *
67302195 TCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTC-CGGATACATCACTAGCACGAATGC
* *
67302235 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
67302275 TCTTCGGGACTTAG-CCTGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCC-GGATACATCACTAGCACGAATGC
* *
67302315 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
67302355 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
67302395 CCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
67302435 CCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
67302475 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
67302515 TCTTCGGGACTTAGCCCGGATA
1 TCTTCGGGACTTAGTCCGGATA
67302537 TAACACTCTC
Statistics
Matches: 314, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.01
40 308 0.98
41 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
Found at i:67303869 original size:37 final size:37
Alignment explanation
Indices: 67303810--67303955 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
67303800 AGCTCAGACG
* *
67303810 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
67303847 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
67303884 TAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
67303921 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
67303956 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:67304213 original size:47 final size:47
Alignment explanation
Indices: 67304161--67304354 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
67304151 CATACATATT
* * * *
67304161 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
67304208 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
67304255 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
67304302 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
67304349 TCACAT
1 TCACAT
67304355 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:67306037 original size:26 final size:26
Alignment explanation
Indices: 67306008--67306077 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
67305998 ATCACACATA
67306008 CACAATTTATATACAAATTTCATCCT
1 CACAATTTATATACAAATTTCATCCT
67306034 CACAATTTATATACAAATTTCATCCT
1 CACAATTTATATACAAATTTCATCCT
*
67306060 CACAA--TGTATACAAATTT
1 CACAATTTATATACAAATTT
67306078 TGTGGTCCCG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 12 0.28
26 31 0.72
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.37
Consensus pattern (26 bp):
CACAATTTATATACAAATTTCATCCT
Found at i:67306418 original size:29 final size:29
Alignment explanation
Indices: 67306351--67306471 Score: 163
Period size: 29 Copynumber: 4.2 Consensus size: 29
67306341 AAGTCTACAT
* * *
67306351 ACATGCATATAGCCCACTAAGCCC-AATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
* * *
67306379 TCATTCATATGGCCCATTATGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
* *
67306408 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
67306437 ACATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
67306466 ACATTC
1 ACATTC
67306472 TCATACATGC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 19 0.23
29 63 0.77
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATAGCCCATTAGGCCCAAATC
Found at i:67323202 original size:18 final size:18
Alignment explanation
Indices: 67323179--67323215 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
67323169 ATTAATATTG
67323179 AACATTTAAATCATCATA
1 AACATTTAAATCATCATA
67323197 AACATTTAAATCATCATA
1 AACATTTAAATCATCATA
67323215 A
1 A
67323216 TTATACTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (18 bp):
AACATTTAAATCATCATA
Found at i:67326908 original size:27 final size:27
Alignment explanation
Indices: 67326867--67326920 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
67326857 TGTCATGTGA
* *
67326867 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
67326894 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
67326921 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:67327245 original size:49 final size:49
Alignment explanation
Indices: 67327174--67327398 Score: 252
Period size: 49 Copynumber: 4.5 Consensus size: 49
67327164 TGAGGTCATG
* * *
67327174 TGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
67327223 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TTGGTCGCA
* * ** * *
67327274 TGTGTAGTACTAAGTGGAGGCTACTACGTGTATCAGATGGTTAGGTCCCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
* * *
67327324 TGTGTAGTACTAACTGCAGGCTACTACGTATACCAGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
67327373 TGTGTAGTACTAAGTGCAGGATACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
67327399 TGAGTATCAG
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 65 0.45
50 41 0.28
51 38 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:67327363 original size:101 final size:98
Alignment explanation
Indices: 67327173--67327408 Score: 258
Period size: 101 Copynumber: 2.4 Consensus size: 98
67327163 GTGAGGTCAT
* ** *
67327173 GTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CTAGATAATTGGTCGTATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATAATTGGTCCCATGTGTAGTACTAAC
* * *
67327237 TGCAGGCTACTATGCGTACCCGATAACTTTGATCAC
65 TGCAGGCTACTACGCATACCAGATAA--TTGATCAC
* ** *
67327273 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTATCAGATGGTTAGGTCCCGTGTGTAGTACTAAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCCCATGTGTAGTACTAAC
* * **
67327338 TGCAGGCTACTACGTATACCAGATAATTGGTCGT
65 TGCAGGCTACTACGCATACCAGATAATTGATCAC
* * * *
67327372 ATGTGTAGTACTAAGTGCAGGATACTATGAGTATCAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
67327409 TTATTATTCC
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 37 0.32
100 37 0.32
101 40 0.35
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCCCATGTGTAGTACTAACT
GCAGGCTACTACGCATACCAGATAATTGATCAC
Found at i:67329676 original size:16 final size:17
Alignment explanation
Indices: 67329628--67329676 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
67329618 TGGCAAATCC
67329628 CGAAATGCCGAAAAG-T
1 CGAAATGCCGAAAAGCT
* *
67329644 CGAAATGTCAAAAAGCT
1 CGAAATGCCGAAAAGCT
67329661 -GAAATGCCGAAAAGCT
1 CGAAATGCCGAAAAGCT
67329677 AAAAGTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (17 bp):
CGAAATGCCGAAAAGCT
Found at i:67329908 original size:29 final size:28
Alignment explanation
Indices: 67329867--67329937 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
67329857 AGTGATTGAA
*
67329867 CCTAGTGGGCCATAT-AGATGTGATTTGGG
1 CCTAGTGGGCCATATGA-ATGAGA-TTGGG
* *
67329896 CCTAATGGACCATATGAATGAGATTGGG
1 CCTAGTGGGCCATATGAATGAGATTGGG
67329924 CCTAGTGGGCCATA
1 CCTAGTGGGCCATA
67329938 AGCATGTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.47
29 18 0.50
30 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (28 bp):
CCTAGTGGGCCATATGAATGAGATTGGG
Found at i:67329936 original size:28 final size:29
Alignment explanation
Indices: 67329867--67329937 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
67329857 AGTGATTGAA
*
67329867 CCTAGTGGGCCATATAGATGTGATTTGGG
1 CCTAGTGGGCCATATAGATGAGATTTGGG
* *
67329896 CCTAATGGACCATAT-GAATGAGA-TTGGG
1 CCTAGTGGGCCATATAG-ATGAGATTTGGG
67329924 CCTAGTGGGCCATA
1 CCTAGTGGGCCATA
67329938 AGCATGTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
CCTAGTGGGCCATATAGATGAGATTTGGG
Found at i:67335237 original size:46 final size:46
Alignment explanation
Indices: 67335182--67335362 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
67335172 TAGGATGGTT
67335182 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
67335228 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
67335274 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** * *
67335321 GAACGCCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67335363 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:67335343 original size:93 final size:93
Alignment explanation
Indices: 67335184--67335354 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
67335174 GGATGGTTGA
* * *
67335184 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67335249 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
67335277 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67335342 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
67335355 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:67338980 original size:25 final size:25
Alignment explanation
Indices: 67338948--67338997 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
67338938 AATTAAACTT
67338948 ACCAAGTTCATTTATTAGAATTAAA
1 ACCAAGTTCATTTATTAGAATTAAA
67338973 ACCAAGTTCATTTATTAGAATTAAA
1 ACCAAGTTCATTTATTAGAATTAAA
67338998 CATACTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (25 bp):
ACCAAGTTCATTTATTAGAATTAAA
Found at i:67348177 original size:93 final size:93
Alignment explanation
Indices: 67348065--67348235 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
67348055 GCCCATAAGT
* *
67348065 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67348130 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
67348158 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67348223 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67348236 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:67348251 original size:46 final size:46
Alignment explanation
Indices: 67348057--67348237 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
67348047 TGTAACCCGC
* * *
67348057 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
67348103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
67348153 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
67348196 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
67348238 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:67351615 original size:53 final size:53
Alignment explanation
Indices: 67351419--67351621 Score: 145
Period size: 53 Copynumber: 3.8 Consensus size: 53
67351409 GGGTTTAAGA
* *** * * *
67351419 ATACCAAGTAAGACCATGCCAAGACATGACTTTGGTAAGTTTTACAAGGCAAGG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAG-TTCATAAGGCAAAG
* * ** * ** * * * *
67351473 AAATCATTTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGT-AAGTTC-ATAAGGCAAAG
* * * ** * *
67351528 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAG
*
67351581 ATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
67351622 TAAAAAGGAA
Statistics
Matches: 115, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.38
54 32 0.28
55 39 0.34
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (53 bp):
ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAG
Found at i:67353193 original size:45 final size:45
Alignment explanation
Indices: 67353129--67353251 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
67353119 TAGGATTCCG
*** * * * *
67353129 ATATGTGTTTTCGTGTAAGACTGTGTCTGGGATGTTGGCATTGGT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCGAT
67353174 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCGAT
* * * * *
67353219 ATATGTGGTTACATGTAAGACCATGTTTGGGAC
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGAC
67353252 ATCGGCATCG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCGAT
Found at i:67353260 original size:45 final size:45
Alignment explanation
Indices: 67353173--67353261 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
67353163 TTGGCATTGG
* * * * *
67353173 TATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCGA
1 TATATGTGGTTACATGTAAGACCACGTCTGGGACATCAGCATCGA
* * *
67353218 TATATGTGGTTACATGTAAGACCATGTTTGGGACATCGGCATCG
1 TATATGTGGTTACATGTAAGACCACGTCTGGGACATCAGCATCG
67353262 TACTGATTCG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (45 bp):
TATATGTGGTTACATGTAAGACCACGTCTGGGACATCAGCATCGA
Found at i:67354628 original size:45 final size:46
Alignment explanation
Indices: 67354573--67354688 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 46
67354563 TAGGAGTGCA
*
67354573 AGTGTAAGACATATCTGGGACATGCATCGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGAT-AGCC
* * * *
67354618 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGATAGCC
*
67354664 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
67354689 GCTTCGACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 29 0.47
46 18 0.29
47 15 0.24
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGATAGCC
Found at i:67354703 original size:47 final size:47
Alignment explanation
Indices: 67354573--67354733 Score: 152
Period size: 47 Copynumber: 3.5 Consensus size: 47
67354563 TAGGAGTGCA
* * * ** *
67354573 AGTGTAAGA-CATATCTGGGACATGCATCGCCT-CGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGATATGAGCC
* *
67354618 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGAT-ATGAGCC
* * *
67354664 AGTGTAAGACCATGTTTGGGACATGGCTTCGACT-TGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGACTACGAGATATGAGCC
**
67354711 AAAGTAAGACCATGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
67354734 CAGCATCAGC
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
45 29 0.30
46 19 0.20
47 42 0.43
48 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGATATGAGCC
Found at i:67360342 original size:29 final size:29
Alignment explanation
Indices: 67360324--67360382 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
67360314 AAGCTCTAAG
**
67360324 ATTGTTTAATTGATGATTTTTCTTAAAGT
1 ATTGTTTAATTGATGATTTAGCTTAAAGT
**
67360353 ATTGTTTAATTGATGATTTTTCTTAAAGT
1 ATTGTTTAATTGATGATTTAGCTTAAAGT
67360382 A
1 A
67360383 CTTTTCTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (29 bp):
ATTGTTTAATTGATGATTTAGCTTAAAGT
Found at i:67375678 original size:48 final size:45
Alignment explanation
Indices: 67375594--67375720 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 45
67375584 TCCCGAGGCT
*
67375594 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--T-AAGTGGCC
* *
67375640 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGGCC
67375688 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
67375721 ACACAAATGA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
45 2 0.03
46 19 0.26
47 29 0.40
48 22 0.31
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:67377342 original size:27 final size:27
Alignment explanation
Indices: 67377291--67377343 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
67377281 TACTTTTCTT
* *
67377291 TTTATTAATTTATTAATTATTATTTAC
1 TTTATTAATTTATAAATTATCATTTAC
67377318 TTTATTAATTTA-AAATATATCATTTA
1 TTTATTAATTTATAAAT-TATCATTTA
67377344 AACTAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTATTAATTTATAAATTATCATTTAC
Found at i:67378333 original size:23 final size:22
Alignment explanation
Indices: 67378293--67378438 Score: 114
Period size: 23 Copynumber: 6.4 Consensus size: 22
67378283 ACATGTAATG
* *
67378293 TTCTGTAAAGCCTTTGTGGCGTA
1 TTCTATAAAG-CTTTGTGGCATA
*
67378316 TTCAATAAAGCTTGTGTGGCATA
1 TTCTATAAAGCTT-TGTGGCATA
* *
67378339 TTCTGTAAAGTCTTTGTGGCATG
1 TTCTATAAAG-CTTTGTGGCATA
* *
67378362 TTCTGTAAAGGCTTTGTGTCATA
1 TTCTATAAA-GCTTTGTGGCATA
* * * *
67378385 TTCTATGATGCTCGTGTGGCGTA
1 TTCTATAAAGCT-TTGTGGCATA
67378408 TTCTATAATA-CTTGTGTGGCATA
1 TTCTATAA-AGCTT-TGTGGCATA
*
67378431 TTTTATAA
1 TTCTATAA
67378439 CACCCTTGAG
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
22 6 0.06
23 88 0.90
24 4 0.04
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.42
Consensus pattern (22 bp):
TTCTATAAAGCTTTGTGGCATA
Found at i:67378346 original size:46 final size:45
Alignment explanation
Indices: 67378293--67378432 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
67378283 ACATGTAATG
*
67378293 TTCTGTAAAGCCTTTGTGGCGTATTCAATAAAGCTTGTGTGGCATA
1 TTCTGTAAAG-CTTTGTGGCGTATTCTATAAAGCTTGTGTGGCATA
* * * *
67378339 TTCTGTAAAGTCTTTGTGGCATGTTCTGTAAAGGCTT-TGTGTCATA
1 TTCTGTAAAG-CTTTGTGGCGTATTCTATAAA-GCTTGTGTGGCATA
* * * *
67378385 TTCTATGATGCTCGTGTGGCGTATTCTATAATA-CTTGTGTGGCATA
1 TTCTGTAAAGCT-TTGTGGCGTATTCTATAA-AGCTTGTGTGGCATA
67378431 TT
1 TT
67378433 TTATAACACC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
45 5 0.07
46 66 0.87
47 5 0.07
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (45 bp):
TTCTGTAAAGCTTTGTGGCGTATTCTATAAAGCTTGTGTGGCATA
Found at i:67378426 original size:69 final size:68
Alignment explanation
Indices: 67378290--67378429 Score: 165
Period size: 69 Copynumber: 2.0 Consensus size: 68
67378280 TAAACATGTA
* * *
67378290 ATGTTCTGTAAAGCCTTTGTGGCGTATTCAATAAAGCTTGTGTGGCATATTCTGTAAAGTCTTTG
1 ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGTGGCATATTCTATAAAG-CTTTG
67378355 TGGC
65 TGGC
* * * * * *
67378359 ATGTTCTGTAAAGGCTTTGTGTCATATTCTATGATGCTCGTGTGGCGTATTCTATAATA-CTTGT
1 ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGTGGCATATTCTATAA-AGCTT-T
67378423 GTGGC
64 GTGGC
67378428 AT
1 AT
67378430 ATTTTATAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
68 3 0.05
69 56 0.93
70 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (68 bp):
ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGTGGCATATTCTATAAAGCTTTGT
GGC
Found at i:67379894 original size:15 final size:15
Alignment explanation
Indices: 67379870--67379902 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
67379860 TTGGCGGTAT
*
67379870 CTAAGGAGAGTATGC
1 CTAAGAAGAGTATGC
67379885 CTAAGAAGAGTATGC
1 CTAAGAAGAGTATGC
67379900 CTA
1 CTA
67379903 GAGTTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (15 bp):
CTAAGAAGAGTATGC
Found at i:67396902 original size:40 final size:40
Alignment explanation
Indices: 67396858--67396996 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
67396848 GGGTATAACG
*
67396858 ACTCGCTCAAATGCCTTCGGGAC-AAAGCCC-GGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAA-CCCGGGTT-TAGTA
* *
67396898 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* * * *
67396938 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* * *
67396977 ACTCGCGCGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
67396997 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.37
40 49 0.56
41 6 0.07
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
Found at i:67396982 original size:79 final size:81
Alignment explanation
Indices: 67396858--67397049 Score: 214
Period size: 79 Copynumber: 2.4 Consensus size: 81
67396848 GGGTATAACG
* ** *
67396858 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTC-GGATC
* * *
67396921 TTAACCCGGGTTTAGTA
65 TTAACCCAGATATAGTA
* *
67396938 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCGCGAACGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
** *
67397001 TAGTCCAGATATAGTC
66 TAACCCAGATATAGTA
*
67397017 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
67397050 CATCATTCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 51 0.54
80 41 0.43
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
TAACCCAGATATAGTA
Found at i:67402943 original size:47 final size:47
Alignment explanation
Indices: 67402890--67403153 Score: 375
Period size: 47 Copynumber: 5.5 Consensus size: 47
67402880 TATTAAAATT
67402890 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
67402937 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
67402984 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * *
67403033 TGTGAAGGTGTATATATATGTGATAAGGCTTAATGGACAATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * ** *
67403082 TGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACATGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
67403129 TGTGGAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
67403154 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 109 0.54
49 92 0.46
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:67403011 original size:96 final size:94
Alignment explanation
Indices: 67402890--67403153 Score: 375
Period size: 96 Copynumber: 2.8 Consensus size: 94
67402880 TATTAAAATT
67402890 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* *
67402955 TGATAAGGCCTAATGGCCGATGTGATGAA
66 TGATAAGGCCTAATGGACAATGTGATGAA
* *
67402984 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
67403049 TATGTGATAAGGCTTAATGGACAATGTGATGAA
62 TATGTGATAAGGCCTAATGGACAATGTGATGAA
* * * ** * * *
67403082 TGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACATGATGGATGTGGAAGTGTATAAATG
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
67403147 TGATAAG
66 TGATAAG
67403154 TCCCGAAGGG
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
94 23 0.15
96 85 0.56
98 43 0.28
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCTAATGGACAATGTGATGAA
Found at i:67405170 original size:27 final size:27
Alignment explanation
Indices: 67405122--67405226 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
67405112 GCGAGGCTGC
* * *
67405122 CAGATATTGTGACGGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAATA
* *
67405149 CAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAAATA
* *
67405175 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAAATA
*
67405202 CAGATAATTGTGGCATAGCCACCAA
1 CAGAT-ATTGTGGCAGAGCCACCAA
67405227 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 8 0.12
27 55 0.85
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAAATA
Found at i:67412102 original size:27 final size:27
Alignment explanation
Indices: 67412054--67412212 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
67412044 TCGAGGCTAC
*** *
67412054 CAGATATTGTGATGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
67412081 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
67412107 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
67412134 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
67412161 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
67412188 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
67412213 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.08
27 101 0.89
28 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:67412213 original size:54 final size:54
Alignment explanation
Indices: 67412072--67412215 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
67412062 GTGATGGAGT
* * *
67412072 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
67412126 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
67412180 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
67412216 GCTTCCTCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:67415201 original size:37 final size:37
Alignment explanation
Indices: 67415142--67415250 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
67415132 AGCTCAGACG
* * *
67415142 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
67415179 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
67415216 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
67415251 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:67415366 original size:48 final size:48
Alignment explanation
Indices: 67415295--67415440 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
67415285 TGTTACAACA
* * * *
67415295 TTCACATTAGCCATTCGGCTTTACCACATCTTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
67415343 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
*
67415391 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
67415439 TT
1 TT
67415441 ATTTATCTTG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
Found at i:67418767 original size:3 final size:3
Alignment explanation
Indices: 67418759--67418792 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
67418749 ATGTTGAAAG
67418759 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
67418793 GATGATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:67423932 original size:46 final size:44
Alignment explanation
Indices: 67423867--67423985 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 44
67423857 CGAGTGCTAG
*
67423867 TGTAAGACATGTTTGGGACATGCATCGTCCT-CAAGATGTCAGTCAA
1 TGTAAGACATGTCTGGGACATGCATCG-CCTACAAGATGT--GTCAA
* * * * *
67423913 TGTAAGACATGTCTAGGACATGCATTGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGCCTACAAGATGTGTCAA
67423957 TGTAAGAACATGTCTGGGACATGGCATCG
1 TGTAAG-ACATGTCTGGGACAT-GCATCG
67423986 ACACCTTACC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
44 10 0.16
45 16 0.26
46 36 0.58
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGCCTACAAGATGTGTCAA
Found at i:67426901 original size:19 final size:18
Alignment explanation
Indices: 67426860--67426901 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
67426850 AGCATTAATA
67426860 TATTTAATTTACCAATTT
1 TATTTAATTTACCAATTT
*
67426878 GATTTAATTT-CCTTAATTT
1 TATTTAATTTACC--AATTT
67426897 TATTT
1 TATTT
67426902 TTCAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTTAATTTACCAATTT
Found at i:67428995 original size:40 final size:40
Alignment explanation
Indices: 67428936--67429143 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
67428926 CAATTGAATG
* * * *
67428936 ATATCCGGGCTAATTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
67428976 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAATACCCGAAGG-CATTTGTGCAAGTAATT
* * **
67429016 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAATT
* ***
67429056 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGCCGTT
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
67429096 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAATT
67429136 ATATCCGG
1 ATATCCGG
67429144 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAATT
Found at i:67429074 original size:80 final size:80
Alignment explanation
Indices: 67428938--67429143 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 80
67428928 ATTGAATGAT
* * ** * * *
67428938 ATCCGGGCTAATTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
* *
67429002 TTGTGCTAG-TGACCAC
65 TTGTGCAAGCCGACC-C
* * *
67429018 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
67429083 TGTGCAAGCCGTTCT
66 TGTGCAAGCCGACCC
* * *
67429098 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67429144 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 101 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGCCGACCC
Found at i:67431338 original size:20 final size:21
Alignment explanation
Indices: 67431313--67431352 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67431303 CTCTTGAGAC
*
67431313 AGGGCA-CACGCCCGTGTGGA
1 AGGGCAGCACGCCCATGTGGA
67431333 AGGGCAGCACGCCCATGTGG
1 AGGGCAGCACGCCCATGTGG
67431353 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAGCACGCCCATGTGGA
Found at i:67432578 original size:47 final size:45
Alignment explanation
Indices: 67432509--67432820 Score: 230
Period size: 47 Copynumber: 6.7 Consensus size: 45
67432499 GTATAATGTT
67432509 GATGCCATGTCCCAGACATGGTCTTACA-TGGGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGCTCAT-CAT-AAGTC
* * * *
67432556 GATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ATAAGT--C
* * * *
67432604 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAACT-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA--TCATAAGTC
* * * * * * *
67432650 GATG-CATGTCTCAGACA-AGTCTTATATTGGCTTACATCTCTAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATC-ATAAGTC
* *
67432696 GATG-TATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA--T-AA-GTC
67432742 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATAATGTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAA-GT--C
67432789 TGATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGC
67432821 ACACAATTAA
Statistics
Matches: 216, Mismatches: 28, Indels: 43
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 21 0.10
46 55 0.25
47 62 0.29
48 57 0.26
49 3 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGTC
Found at i:67432734 original size:46 final size:46
Alignment explanation
Indices: 67432509--67432818 Score: 210
Period size: 46 Copynumber: 6.7 Consensus size: 46
67432499 GTATAATGTT
** * *
67432509 GATGCCATGTCCCAGACATGGTCTTACA-TGGGCTCATC-CATCAAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGCTCTCATCTC-T-AGGCC
* *
67432556 GATGCCATGTCCCAGACATGGTCTTACACTGACAC-C-TCTATACGTGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTG-CTCTCATCTCTA-G-GCC
* * * *
67432604 GATGCCATGTCCCAGACATGGTCTTACACTG-ACACATCTCGTA-ACT
1 GATG-CATGTCCCAGACATGGTCTTACACTGCTCTCATCTC-TAGGCC
* * * *
67432650 GATGCATGTCTCAGACA-AGTCTTATATTGGCT-TACATCTCTAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACT-GCTCT-CATCTCTAGGCC
* * * *
67432696 GATGTATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGTC
1 GATGCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTCTAGGCC
* * * *
67432742 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-GGCT
1 GATG-CATGTCCCAGACATGGTCTTACACT-GCTCTCAT-CTCTAGGCC
67432790 GATGCATGTCCCAGACAT-GTCTTACACTG
1 GATGCATGTCCCAGACATGGTCTTACACTG
67432819 GCACACAATT
Statistics
Matches: 213, Mismatches: 33, Indels: 36
0.76 0.12 0.13
Matches are distributed among these distances:
44 8 0.04
45 16 0.08
46 64 0.30
47 60 0.28
48 61 0.29
49 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGCTCTCATCTCTAGGCC
Found at i:67437078 original size:28 final size:27
Alignment explanation
Indices: 67437015--67437084 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
67437005 ATAGTGAGTC
67437015 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
67437042 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
67437070 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67437085 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:67444730 original size:29 final size:29
Alignment explanation
Indices: 67444697--67444886 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
67444687 GTGACGAGAT
67444697 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
67444726 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
67444755 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
67444784 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** ** * ***
67444813 CGGCACTGGGTGTGCGAACTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
67444842 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
67444871 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67444887 AAATTGAGTA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.01
29 136 0.99
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:67452772 original size:27 final size:28
Alignment explanation
Indices: 67452716--67452785 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
67452706 AAATTTGTAC
67452716 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
67452744 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
67452771 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
67452786 GAATCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:67462139 original size:14 final size:14
Alignment explanation
Indices: 67462120--67462146 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67462110 AGTAGTCCAG
67462120 TTGAACTGAACCGA
1 TTGAACTGAACCGA
67462134 TTGAACTGAACCG
1 TTGAACTGAACCG
67462147 GCCAAGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (14 bp):
TTGAACTGAACCGA
Found at i:67467555 original size:25 final size:28
Alignment explanation
Indices: 67467527--67467581 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
67467517 ATATAGTTAC
*
67467527 ATATATAAAT-AATT-A-TATTTATTTA
1 ATATAAAAATAAATTGAGTATTTATTTA
67467552 ATATAAAAATAAATTGATGTATTTATTTA
1 ATATAAAAATAAATTGA-GTATTTATTTA
67467581 A
1 A
67467582 ATACATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 1 0.04
29 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (28 bp):
ATATAAAAATAAATTGAGTATTTATTTA
Found at i:67472871 original size:15 final size:15
Alignment explanation
Indices: 67472851--67472882 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
67472841 GAAGTTGTCA
67472851 TACTCAATATGTAGC
1 TACTCAATATGTAGC
67472866 TACTCAATATGTAGC
1 TACTCAATATGTAGC
67472881 TA
1 TA
67472883 TCTCTGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (15 bp):
TACTCAATATGTAGC
Found at i:67472989 original size:34 final size:34
Alignment explanation
Indices: 67472951--67473019 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
67472941 TCAAACATAC
67472951 TTAAATCTTCATCATTCTTCAAGGACATTCTTGT
1 TTAAATCTTCATCATTCTTCAAGGACATTCTTGT
67472985 TTAAATCTTCATCATTCTTCAAGGACATTCTTGT
1 TTAAATCTTCATCATTCTTCAAGGACATTCTTGT
67473019 T
1 T
67473020 AATGCATCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TTAAATCTTCATCATTCTTCAAGGACATTCTTGT
Found at i:67474190 original size:44 final size:44
Alignment explanation
Indices: 67474127--67474210 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
67474117 TTTCTAGGAA
67474127 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
1 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
67474171 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAG
1 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAG
67474211 AATATGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (44 bp):
TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
Found at i:67478099 original size:30 final size:30
Alignment explanation
Indices: 67478065--67478124 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
67478055 CTTTAATATG
*
67478065 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
67478095 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
67478125 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:67479124 original size:26 final size:26
Alignment explanation
Indices: 67479058--67479126 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
67479048 TTGTATTGTT
*
67479058 ACATTTATCATTTGACACTAAATGAA
1 ACATTTATCATTTGTCACTAAATGAA
67479084 ACATTTATCATTTGTCACTAAATGAA
1 ACATTTATCATTTGTCACTAAATGAA
67479110 ACATTTATCATTTGTCA
1 ACATTTATCATTTGTCA
67479127 TGTAGTCTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (26 bp):
ACATTTATCATTTGTCACTAAATGAA
Found at i:67480938 original size:40 final size:40
Alignment explanation
Indices: 67480839--67480991 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
67480829 CGAATGGTAT
* * * *
67480839 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
67480880 CCGGG-TCAATTCCTGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
67480920 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
67480960 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
67480992 CGCTATATCC
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 68 0.74
41 24 0.26
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:67484334 original size:29 final size:30
Alignment explanation
Indices: 67484288--67484345 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
67484278 CGAATTGATC
* *
67484288 ATTTTATGATTGTATGTGATAATT-GATGTG
1 ATTTAATGAATGTATGTGA-AATTAGATGTG
67484318 ATTTAATGAATGT-TGTGAAATTAGATGT
1 ATTTAATGAATGTATGTGAAATTAGATGT
67484346 ATATTCCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (30 bp):
ATTTAATGAATGTATGTGAAATTAGATGTG
Found at i:67487236 original size:49 final size:49
Alignment explanation
Indices: 67487164--67487350 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
67487154 TGAGGTCACG
67487164 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
** ** * *
67487213 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
*
67487263 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTCGCA
* * * *
67487312 TGTATAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
67487351 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 76 0.65
50 41 0.35
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:67487327 original size:99 final size:99
Alignment explanation
Indices: 67487156--67487334 Score: 324
Period size: 99 Copynumber: 1.8 Consensus size: 99
67487146 ATCTATTGTG
*
67487156 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTATAGT
67487221 ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
*
67487255 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATTGGTCGCATGTATAG
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTCGCATGTATAG
67487319 TACTAAGTGCAGGCTA
65 TACTAAGTGCAGGCTA
67487335 TTATGCGTAC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
98 1 0.01
99 76 0.99
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTATAGT
ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
Found at i:67489637 original size:24 final size:24
Alignment explanation
Indices: 67489605--67489682 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
67489595 CTGCAAATAT
*
67489605 TGGTGGCTTTGTCCACAACCTACA
1 TGGTAGCTTTGTCCACAACCTACA
* * * *
67489629 TGGTAGCTTGTTTGC-GAA--TA-T
1 TGGTAGCTT-TGTCCACAACCTACA
*
67489650 TGGTGGCTTTGTCCACAACCTACA
1 TGGTAGCTTTGTCCACAACCTACA
67489674 TGGTAGCTT
1 TGGTAGCTT
67489683 GTCTGCAAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
20 3 0.08
21 10 0.26
22 2 0.05
23 2 0.05
24 18 0.47
25 3 0.08
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (24 bp):
TGGTAGCTTTGTCCACAACCTACA
Found at i:67489649 original size:45 final size:45
Alignment explanation
Indices: 67489583--67489711 Score: 222
Period size: 45 Copynumber: 2.9 Consensus size: 45
67489573 GGGTGTTACA
*
67489583 ATGGTAGTTTGTCTGCAAATATTGGTGGCTTTGTCCACAACCTAC
1 ATGGTAGCTTGTCTGCAAATATTGGTGGCTTTGTCCACAACCTAC
* *
67489628 ATGGTAGCTTGTTTGCGAATATTGGTGGCTTTGTCCACAACCTAC
1 ATGGTAGCTTGTCTGCAAATATTGGTGGCTTTGTCCACAACCTAC
*
67489673 ATGGTAGCTTGTCTGCAAATATTGTTGGCTTTGTCCACA
1 ATGGTAGCTTGTCTGCAAATATTGGTGGCTTTGTCCACA
67489712 TTAGAGTGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (45 bp):
ATGGTAGCTTGTCTGCAAATATTGGTGGCTTTGTCCACAACCTAC
Found at i:67493000 original size:19 final size:19
Alignment explanation
Indices: 67492976--67493012 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
67492966 ATCTTATGCA
67492976 TTTAAATCATACATAAGCG
1 TTTAAATCATACATAAGCG
67492995 TTTAAATCATACATAAGC
1 TTTAAATCATACATAAGC
67493013 TTAATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTAAATCATACATAAGCG
Found at i:67495550 original size:109 final size:108
Alignment explanation
Indices: 67495338--67495716 Score: 440
Period size: 109 Copynumber: 3.5 Consensus size: 108
67495328 ACTTTGAAGA
* * * * * * * * **
67495338 GCTCACGATGCTCCTCATACAAGCTATAGAGAATTCGAAATAGATGCATGATCTCAAGCCATCAT
1 GCTCACGATTCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCTC-AGCCATCGC
* * ** *
67495403 TACGGTCTATATCACCGATACATAGTACTTGCTAAATAATCACCG
65 TACAGTCTGTATCACCGGCACATAGTACCTGCTAAATAATCA-CG
* * * * *
67495448 GCTCACGATTCTGCTTACACAAGCTGTAGAGAATCCATAACAAATGTAGGATCTCAGCCATTGCT
1 GCTCACGATTCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCTCAGCCATCGCT
* *
67495513 ACAGTCTGTATCACTGGCACATAGTACCTGCTAAATAATCATTG
66 ACAGTCTGTATCACCGGCACATAGTACCTGCTAAATAATCA-CG
***
67495557 GCTCACGATGT-TGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATCGC
1 GCTCACGAT-TCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCTCAGCCATCGC
* * *
67495621 TACGGTCTGTATCACCGGTACGTAGTACCTGCTAAATAATCAC-
65 TACAGTCTGTATCACCGGCACATAGTACCTGCTAAATAATCACG
*
67495664 -CTCACGATGCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCT
1 GCTCACGATTCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCT
67495717 ATTAAAGCCT
Statistics
Matches: 228, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
106 48 0.21
109 136 0.60
110 44 0.19
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (108 bp):
GCTCACGATTCTGCTCACACAAGCTGTAGAGAATCCAAAACAGATGCAGGATCTCAGCCATCGCT
ACAGTCTGTATCACCGGCACATAGTACCTGCTAAATAATCACG
Found at i:67498734 original size:20 final size:20
Alignment explanation
Indices: 67498678--67498740 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
67498668 CCGAAACGTT
**
67498678 AACAGAGGCACCGTAGTGCAA
1 AACAGAGGCACCAAAGTGC-A
*
67498699 ATACAGCA-GCATCAAAGTGCA
1 A-ACAG-AGGCACCAAAGTGCA
67498720 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
67498740 A
1 A
67498741 TCTCGTACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 3 0.09
22 13 0.37
23 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:67500435 original size:17 final size:17
Alignment explanation
Indices: 67500413--67500464 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
67500403 TTCCAAAAGC
67500413 AAAATTAATTGATTTTT
1 AAAATTAATTGATTTTT
**
67500430 AAAA-T--TT--TTTGC
1 AAAATTAATTGATTTTT
67500442 AAAATTAATTGATTTTT
1 AAAATTAATTGATTTTT
67500459 AAAATT
1 AAAATT
67500465 TTTAGTGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 7 0.27
13 1 0.04
14 2 0.08
15 2 0.08
16 1 0.04
17 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (17 bp):
AAAATTAATTGATTTTT
Found at i:67500444 original size:29 final size:29
Alignment explanation
Indices: 67500411--67500467 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
67500401 TTTTCCAAAA
67500411 GCAAAATTAATTGATTTTTAAAATTTTTT
1 GCAAAATTAATTGATTTTTAAAATTTTTT
67500440 GCAAAATTAATTGATTTTTAAAATTTTT
1 GCAAAATTAATTGATTTTTAAAATTTTT
67500468 AGTGTTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (29 bp):
GCAAAATTAATTGATTTTTAAAATTTTTT
Found at i:67502414 original size:46 final size:49
Alignment explanation
Indices: 67502271--67502630 Score: 265
Period size: 46 Copynumber: 7.6 Consensus size: 49
67502261 ATTGTATGCC
* * * *
67502271 AGTGTAAGA-CATGTCTGGGACAT-GTATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA-GATGTAGAGCT
* * * * *
67502317 AGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
67502365 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
** *
67502411 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGTTACGAGATGT-G-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAGATGTAGAGCT
* * * ** * *
67502455 AGTGTAAGACCATGTCTAGGACATGGCATCGGTACGTATAGAGGT-G-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG--CCTCGAGATGTAGAGCT
** *
67502503 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACAT--ATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-C-TCGAGATGT-AGAGCT
* * * * *
67502553 AGTGTAAGACCATGTCTGGTACATGGCATCAGCCTCGA-TTTTGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGT-AGAGCT
67502602 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
67502631 TAACTTGATG
Statistics
Matches: 258, Mismatches: 37, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.03
45 16 0.06
46 72 0.28
47 28 0.11
48 63 0.24
49 39 0.15
50 31 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
Found at i:67502785 original size:30 final size:30
Alignment explanation
Indices: 67502749--67502808 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
67502739 GGTGAGAGTT
67502749 ACAGTTTGAGTTAAACAAGAAAAGTATAGC
1 ACAGTTTGAGTTAAACAAGAAAAGTATAGC
67502779 ACAGTTTGAGTTAAACAAGAAAAGTATAGC
1 ACAGTTTGAGTTAAACAAGAAAAGTATAGC
67502809 CATGTTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (30 bp):
ACAGTTTGAGTTAAACAAGAAAAGTATAGC
Done.