Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 187 of 356
Found at i:60758255 original size:18 final size:17
Alignment explanation
Indices: 60758234--60758296 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 17
60758224 AAAGTAAATA
60758234 AAAGAATAAAAAAAGAAT
1 AAAGAA-AAAAAAAGAAT
*
60758252 AAAGAAACAAAAAGAAT
1 AAAGAAAAAAAAAGAAT
* * *
60758269 -GAGAAAGAAATAGAATT
1 AAAGAAAAAAAAAGAA-T
60758286 AAAGAACAAAA
1 AAAGAA-AAAA
60758297 CAAGGGAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 12 0.33
17 11 0.31
18 10 0.28
19 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAT
Found at i:60758273 original size:16 final size:17
Alignment explanation
Indices: 60758243--60758296 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
60758233 AAAAGAATAA
60758243 AAAAAGAATAAAGAAAC
1 AAAAAGAATAAAGAAAC
* *
60758260 AAAAAGAAT-GAGAAAG
1 AAAAAGAATAAAGAAAC
*
60758276 AAATAGAATTAAAG-AAC
1 AAAAAGAA-TAAAGAAAC
60758293 AAAA
1 AAAA
60758297 CAAGGGAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 12 0.41
17 15 0.52
18 2 0.07
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (17 bp):
AAAAAGAATAAAGAAAC
Found at i:60759358 original size:18 final size:18
Alignment explanation
Indices: 60759337--60759384 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
60759327 TGATCGGTTA
*
60759337 TTACTGAATAATTAATTG
1 TTACTGAATAACTAATTG
* *
60759355 TTACTGAATGACTGATTG
1 TTACTGAATAACTAATTG
*
60759373 TTACTAAATAAC
1 TTACTGAATAAC
60759385 AATGAACAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (18 bp):
TTACTGAATAACTAATTG
Found at i:60761724 original size:41 final size:41
Alignment explanation
Indices: 60761665--60761747 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
60761655 ACTGGTAAAA
60761665 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
1 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
* *
60761706 GTATGTACGAAAAGCTCATCTAAATGACCTCGGTATGTGAT
1 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
60761747 G
1 G
60761748 AACTTTTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (41 bp):
GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
Found at i:60767299 original size:76 final size:76
Alignment explanation
Indices: 60767218--60767367 Score: 264
Period size: 76 Copynumber: 2.0 Consensus size: 76
60767208 AATATTTACG
* *
60767218 AAGTTAATTGAGTGGTTTATTTGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
1 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
*
60767283 ATAAGGACTCA
66 ATAAAGACTCA
*
60767294 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTTGAT
1 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
60767359 ATAAAGACT
66 ATAAAGACT
60767368 AGATTGAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.39
Consensus pattern (76 bp):
AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
ATAAAGACTCA
Found at i:60768805 original size:18 final size:18
Alignment explanation
Indices: 60768782--60768842 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
60768772 AGATAAATGC
*
60768782 ACTGAATGACTAATTGTT
1 ACTGAATGACTGATTGTT
* *
60768800 ACTGAATAATTGATTGTT
1 ACTGAATGACTGATTGTT
60768818 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
*
60768836 GCTGAAT
1 ACTGAAT
60768843 ATCGAACAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (18 bp):
ACTGAATGACTGATTGTT
Found at i:60775788 original size:30 final size:30
Alignment explanation
Indices: 60775752--60775813 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
60775742 CAAGTAGCTG
60775752 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
60775782 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
60775812 AA
1 AA
60775814 ACTCCCGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:60779365 original size:5 final size:5
Alignment explanation
Indices: 60779355--60779380 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60779345 TTTTATCAAA
60779355 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
60779381 GAATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:60785416 original size:43 final size:43
Alignment explanation
Indices: 60785333--60785489 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
60785323 CTGAGACATT
* * * *
60785333 GTGTAAGACCGTGTCTCGGACA-CAGGCCTCGAT-TGAGATTTAC
1 GTGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTAC
* *
60785376 GTATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-T
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTAC
* ** *
60785418 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTAC
* * **
60785461 ATGTAAAACCATGTCCAGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATCGGCAT
60785490 TGTACTTGTT
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 33 0.37
43 56 0.62
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTAC
Found at i:60785472 original size:85 final size:85
Alignment explanation
Indices: 60785331--60785489 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
60785321 GTCTGAGACA
* * * * **
60785331 TTGTGTAAGACCGTGTCTCGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TTGTGTAAGACCCTGTCTCGGACACAGGCATCGATTGAGATTTACATATAAAACCATGTCCAGGA
60785396 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * *
60785416 TTGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAAACCATGTCCAG
1 TTGTGTAAGACCCTGTCTCGGACACAGGCATCG--ATTGAGATTTACATATAAAACCATGTCCAG
60785479 GACATCGGCAT
64 GACATCGGCAT
60785490 TGTACTTGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 57 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (85 bp):
TTGTGTAAGACCCTGTCTCGGACACAGGCATCGATTGAGATTTACATATAAAACCATGTCCAGGA
CATCGGCATCGTATCTGATT
Found at i:60790946 original size:26 final size:25
Alignment explanation
Indices: 60790918--60791025 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
60790908 AAATCACCAA
*
60790918 AAAGGCTTTTCTGATAATTCGTCAC
1 AAAGGCTTTTCTGATAATTCGCCAC
* * **
60790943 AAAAGCTTTACAAATAACTT-GCCAC
1 AAAGGCTTTTCTGATAA-TTCGCCAC
*
60790968 AAAGGCTTTTATGATAATTCGCCAC
1 AAAGGCTTTTCTGATAATTCGCCAC
* *
60790993 AAAGGCTTTACAGATAACTT-GCCAC
1 AAAGGCTTTTCTGATAA-TTCGCCAC
60791018 AAAGGCTT
1 AAAGGCTT
60791026 GGATTGATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
24 2 0.03
25 61 0.91
26 4 0.06
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAGGCTTTTCTGATAATTCGCCAC
Found at i:60790954 original size:50 final size:50
Alignment explanation
Indices: 60790900--60791009 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
60790890 CTTAATGACG
* * *
60790900 TTACATATAAATCACCAAAAAGGCTTTTCTGATAATTCGTCACAAAAGCT
1 TTACAAATAAATCACCAAAAAGGCTTTTATGATAATTCGCCACAAAAGCT
* ** * *
60790950 TTACAAATAACTTGCCACAAAGGCTTTTATGATAATTCGCCACAAAGGCT
1 TTACAAATAAATCACCAAAAAGGCTTTTATGATAATTCGCCACAAAAGCT
*
60791000 TTACAGATAA
1 TTACAAATAA
60791010 CTTGCCACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (50 bp):
TTACAAATAAATCACCAAAAAGGCTTTTATGATAATTCGCCACAAAAGCT
Found at i:60791010 original size:50 final size:50
Alignment explanation
Indices: 60790918--60791025 Score: 180
Period size: 50 Copynumber: 2.2 Consensus size: 50
60790908 AAATCACCAA
* *
60790918 AAAGGCTTTTCTGATAATTCGTCACAAAAGCTTTACAAATAACTTGCCAC
1 AAAGGCTTTTATGATAATTCGCCACAAAAGCTTTACAAATAACTTGCCAC
* *
60790968 AAAGGCTTTTATGATAATTCGCCACAAAGGCTTTACAGATAACTTGCCAC
1 AAAGGCTTTTATGATAATTCGCCACAAAAGCTTTACAAATAACTTGCCAC
60791018 AAAGGCTT
1 AAAGGCTT
60791026 GGATTGATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (50 bp):
AAAGGCTTTTATGATAATTCGCCACAAAAGCTTTACAAATAACTTGCCAC
Found at i:60799239 original size:79 final size:80
Alignment explanation
Indices: 60799103--60799282 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
60799093 TCGAATGATG
* *
60799103 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
60799168 GTGCGAGTTAGTAAT
66 GTGCGAGTTAGTAAT
* * * **
60799183 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
60799245 TTGTGCGAGTTACT-AT
64 TTGTGCGAGTTAGTAAT
* * *
60799261 AACCGGGCTATGTCCCAAAGGC
1 -TCCGGGCTAAGTCCCGAAGGC
60799283 ATTTGAACGA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.67
80 25 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTAGTAAT
Found at i:60799294 original size:40 final size:40
Alignment explanation
Indices: 60799103--60799287 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
60799093 TCGAATGATG
* * * *
60799103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60799143 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAGTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60799183 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60799222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
60799263 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60799288 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60799309 original size:79 final size:79
Alignment explanation
Indices: 60799156--60799310 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
60799146 GGACTAAGAT
* * * **
60799156 CCGAAGGCATTTGTGCGAGTTAGTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
60799221 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
60799235 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
*
60799298 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
60799311 ATTCCAAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:60808439 original size:27 final size:26
Alignment explanation
Indices: 60808408--60808585 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 26
60808398 TAAATTGTAC
60808408 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
60808435 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
60808461 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
60808489 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
60808517 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
60808544 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
60808571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60808586 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.80
28 25 0.19
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:60808576 original size:82 final size:81
Alignment explanation
Indices: 60808407--60808585 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 81
60808397 TTAAATTGTA
* *
60808407 CAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
60808472 GTGCGAATTGACCATG
66 GTGCGAATTGACCATG
* * ** *
60808488 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAA
1 CAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
60808552 GTGTGCGAGTTGATTATG
64 GTGTGCGAATTGACCATG
* *
60808570 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
60808586 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCATG
Found at i:60810539 original size:79 final size:80
Alignment explanation
Indices: 60810404--60810580 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
60810394 AATGATGTCC
* *
60810404 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
60810469 CGAGTTAGTAATTCT
66 CGAGTTAGTAATTCT
* * * **
60810484 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCATTTG
* * *
60810546 TGCGAGTTACT-ATAACC
64 TGCGAGTTAGTAAT-TCT
*
60810563 GGGCTATGTCCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
60810581 ATTTGAACGA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.06
79 54 0.66
80 23 0.28
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTAGTAATTCT
Found at i:60810592 original size:40 final size:40
Alignment explanation
Indices: 60810401--60810585 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
60810391 TCGAATGATG
* * * *
60810401 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60810441 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAGTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60810481 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60810520 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60810561 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60810586 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60810607 original size:79 final size:78
Alignment explanation
Indices: 60810438--60810618 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
60810428 CTAAGTGACC
* * * *
60810438 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAGTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCAT
**
60810503 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* *
60810517 AAATCCGGGTTAAG-TCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGG
1 ATATCC-GGTTAAGATCC-GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGG
*
60810580 CATTTGAACGAG-TAGCT
62 CATTGGAACGAGTTA-CT
60810597 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
60810619 TACGTGATAC
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
78 5 0.06
79 51 0.60
80 29 0.34
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:60823791 original size:40 final size:40
Alignment explanation
Indices: 60823746--60824410 Score: 1055
Period size: 40 Copynumber: 16.6 Consensus size: 40
60823736 CAAGCTCAAT
* * * * *
60823746 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
60823786 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
60823826 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
60823866 CGCCGTCAGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
60823906 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
60823946 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
60823986 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
60824026 TGCCTTCAGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
60824066 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
60824106 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
60824146 TTCCTTCGGGTCTTATCCCGGATATGTCAATTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
60824186 TGCCTTCGGGTCTTATCCCGGGTATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
60824226 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
60824266 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
60824306 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
60824346 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
60824386 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
60824411 CATTCAAATG
Statistics
Matches: 578, Mismatches: 43, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
39 4 0.01
40 571 0.99
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:60826895 original size:40 final size:40
Alignment explanation
Indices: 60826769--60826880 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
60826759 ATTTGAATGA
*
60826769 GATCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
60826809 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
* *
60826849 GATCCGGGCTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCT
60826881 TGTGGTAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
Found at i:60835096 original size:40 final size:40
Alignment explanation
Indices: 60835041--60835220 Score: 279
Period size: 40 Copynumber: 4.3 Consensus size: 40
60835031 ATTTGAATTA
60835041 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
60835081 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
60835121 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGTCCCG-A---A---G-GCATTTGTGCTAGTGATTT
*
60835169 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAATT
1 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
60835209 GATCCGGGCTAA
1 GATCCGGGCTAA
60835221 AGGCAATTGT
Statistics
Matches: 131, Mismatches: 1, Indels: 16
0.89 0.01 0.11
Matches are distributed among these distances:
40 88 0.67
41 2 0.02
44 2 0.02
47 2 0.02
48 37 0.28
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
Found at i:60835158 original size:48 final size:48
Alignment explanation
Indices: 60835102--60835199 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
60835092 AGTCCCGAAG
60835102 GCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGT
60835150 GCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGT
60835198 GC
1 GC
60835200 TAGTGAATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (48 bp):
GCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGT
Found at i:60843495 original size:11 final size:10
Alignment explanation
Indices: 60843461--60843511 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
60843451 ATCTTTTCGA
60843461 TTTGG-TCTGT
1 TTTGGCTCT-T
*
60843471 TTTGTCTCTT
1 TTTGGCTCTT
60843481 TTTGGCTCATT
1 TTTGGCTC-TT
*
60843492 TTTGGCTCCT
1 TTTGGCTCTT
*
60843502 TTTGACTCTT
1 TTTGGCTCTT
60843512 GATGCTCTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 21 0.62
11 13 0.38
ACGTcount: A:0.04, C:0.20, G:0.18, T:0.59
Consensus pattern (10 bp):
TTTGGCTCTT
Found at i:60854974 original size:57 final size:55
Alignment explanation
Indices: 60854851--60855037 Score: 189
Period size: 57 Copynumber: 3.3 Consensus size: 55
60854841 CTTATTATAG
* * * * *
60854851 AAAGGATTTAGCCTGGACGGGTAATCCTGATATAA-TCCCTCTTGAGCATATGTTACA-
1 AAAGGATTTAACCT-GACTGGTAATCCTAAT-TAACT-CTTC-TGAGCATACGTTACAT
* *
60854908 ATTATGATTTAACCTAGACTGGTAATCCTAATTAAGCTCTTCTGAGCATACGTTACAT
1 A-AAGGATTTAACCT-GACTGGTAATCCTAATTAA-CTCTTCTGAGCATACGTTACAT
* * *
60854966 AAAGGATTTAGCCTGAACTGGTATTCCTAATTGAACTCTTCTGAGCATACATTACAT
1 AAAGGATTTAACCTG-ACTGGTAATCCTAATT-AACTCTTCTGAGCATACGTTACAT
60855023 AAAGGATTTAACCTG
1 AAAGGATTTAACCTG
60855038 GAATAGTAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.01
57 78 0.71
58 30 0.27
59 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (55 bp):
AAAGGATTTAACCTGACTGGTAATCCTAATTAACTCTTCTGAGCATACGTTACAT
Found at i:60860161 original size:30 final size:30
Alignment explanation
Indices: 60860127--60860184 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60860117 TTTTTCATCA
* *
60860127 TAGGGATAAAATGGTCATTTTG-CCAAAGTT
1 TAGGGACAAAACGGTCA-TTTGACCAAAGTT
*
60860157 TAGGGGCAAAACGGTCATTTGACCAAAG
1 TAGGGACAAAACGGTCATTTGACCAAAG
60860185 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
TAGGGACAAAACGGTCATTTGACCAAAGTT
Found at i:60863458 original size:46 final size:46
Alignment explanation
Indices: 60863306--60863526 Score: 142
Period size: 46 Copynumber: 4.7 Consensus size: 46
60863296 ATTTGTTTGT
* * ** * ** *
60863306 GAGCTAGTGTAAGACATGTCTGGGACATGTGTCGGC-TACATTATGA
1 GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCAT-CAAGACGA
* * * **
60863352 GAGGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTATGGGACAT-GCATCAGCATCAAGACGA
* * *
60863400 GAGCTAGTGTAAGACATGTATGGGACATGCATCAGCCTCAAGGCGTA
1 GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCATCAAGACG-A
* ** * *
60863447 -AGCCAGTGTAAGACATGTTTGGGACATGCATTGGC-TACGAGATGA
1 GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCAT-CAAGACGA
* * *
60863492 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTATGGGACAT-GCATC
60863527 GGCACCTTAC
Statistics
Matches: 140, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 71 0.51
47 41 0.29
48 25 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTATGGGACATGCATCAGCATCAAGACGA
Found at i:60863517 original size:93 final size:95
Alignment explanation
Indices: 60863356--60863526 Score: 226
Period size: 93 Copynumber: 1.8 Consensus size: 95
60863346 TTATGAGAGG
*
60863356 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGTAT
60863421 GGGACAT-GCATCAGCCTCAAGGCGTAAGC
66 GGGACATGGCATCAGCCTCAAGGCGTAAGC
* * * *
60863450 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC-TACGAGATGATAG-TCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGACGAGAGCT-AGTGTAAGA-CATG
*
60863511 TCTGGGACATGGCATC
63 TATGGGACATGGCATC
60863527 GGCACCTTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
91 2 0.03
92 24 0.36
93 26 0.39
94 15 0.22
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGTAT
GGGACATGGCATCAGCCTCAAGGCGTAAGC
Found at i:60882488 original size:28 final size:29
Alignment explanation
Indices: 60882457--60882511 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
60882447 ACGAGTGACA
60882457 ACACGAGCGTG-TCTAAGCCATGTGAAGT
1 ACACGAGCGTGTTCTAAGCCATGTGAAGT
* * *
60882485 ACACGGGCGTGTTCTCAGCCGTGTGAA
1 ACACGAGCGTGTTCTAAGCCATGTGAA
60882512 AACCCTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (29 bp):
ACACGAGCGTGTTCTAAGCCATGTGAAGT
Found at i:60898291 original size:49 final size:49
Alignment explanation
Indices: 60898005--60898314 Score: 175
Period size: 46 Copynumber: 6.6 Consensus size: 49
60897995 TATGTGAGCC
* * *
60898005 AGTGTAAGACATGTCTGGGACAT-GCATC-GACCAC-AT-TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CCTCGATATATGAAAGCT
* * * * * *** *
60898051 AGTGTAAGACATTTTTGGGACAT-GCATCGGCATTG--AGCCGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
* **
60898097 AGTGTAAGACATGTCTGGGACAT-GTATCAGCCTCGGGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGA-AAGCT
* * * * * * * *
60898145 AGTGTAAGACCTATCTAGGACATGGCCTCAG-CTTG-T-TGTG--TGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
* * * * * * *
60898189 AATGTAAGACTTGTCTGAGACATGGCATCAACACT-GATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGC-CTCGATATATGAAAGCT
* * *
60898238 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
*
60898287 AGTGTAAGACATGT-TGGGACACGGCATC
1 AGTGTAAGACATGTCTGGGACATGGCATC
60898315 GACTTTAAGA
Statistics
Matches: 197, Mismatches: 52, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
44 26 0.13
45 1 0.01
46 67 0.34
47 4 0.02
48 43 0.22
49 56 0.28
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
Found at i:60917474 original size:27 final size:27
Alignment explanation
Indices: 60917334--60917511 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
60917324 TAAATTGTAC
60917334 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
60917361 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
60917387 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * * *
60917415 GGCACTAAGTGTGAGGGTTTGACTATGT
1 AGCACTAAGTGTG-CGATTTGATTATGT
*
60917443 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
60917470 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
60917497 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60917512 GGCTCAATAT
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.81
28 21 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:60917474 original size:55 final size:54
Alignment explanation
Indices: 60917389--60917511 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 54
60917379 TGAATATGAT
* * * *
60917389 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGAGGGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAG-TTGACTATATA
* ** * * *
60917444 GCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
*
60917498 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60917512 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 22 0.39
55 35 0.61
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
Found at i:60922283 original size:44 final size:45
Alignment explanation
Indices: 60922209--60922329 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
60922199 TATATGTGCC
*
60922209 GATGCCATGTCCCGGGCATGGTCTTACACTAAC-ACATCTCGTA-GCT
1 GATG-CATGTCCCGGACAT-GTCTTACACTAACTACATCTCG-AGGCT
* *
60922255 GATGCATGTCTCGGACATGTCTGACACTAACTTACATCTCGAGGCT
1 GATGCATGTCCCGGACATGTCTTACACTAAC-TACATCTCGAGGCT
* * *
60922301 AATACATGTCCCAGACATGTCTTACACTA
1 GATGCATGTCCCGGACATGTCTTACACTA
60922330 GCACTCGTCT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 12 0.19
45 13 0.20
46 39 0.61
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCGGACATGTCTTACACTAACTACATCTCGAGGCT
Found at i:60922803 original size:30 final size:30
Alignment explanation
Indices: 60922763--60922820 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60922753 AATTCATATA
* *
60922763 TTTGGTAAAATAACCATTTTTCCCCTAGAC
1 TTTGGCAAAATAACCATTTTACCCCTAGAC
*
60922793 TTTGGCAAAATGACCATTTTACCCCTAG
1 TTTGGCAAAATAACCATTTTACCCCTAG
60922821 GCCTGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (30 bp):
TTTGGCAAAATAACCATTTTACCCCTAGAC
Found at i:60927458 original size:13 final size:13
Alignment explanation
Indices: 60927440--60927486 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
60927430 TTGAGCAACA
60927440 AAGAAGATTAAAC
1 AAGAAGATTAAAC
*
60927453 AAGAAGATTAACC
1 AAGAAGATTAAAC
*
60927466 AAGAAGATGAAAC
1 AAGAAGATTAAAC
60927479 AAGAAGAT
1 AAGAAGAT
60927487 GAAGGAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.60, C:0.09, G:0.19, T:0.13
Consensus pattern (13 bp):
AAGAAGATTAAAC
Found at i:60934720 original size:27 final size:27
Alignment explanation
Indices: 60934685--60934749 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
60934675 TTCTCTCAGG
*
60934685 GTTCGCCATACATACTATTCATTCAAA
1 GTTCTCCATACATACTATTCATTCAAA
** * *
60934712 GTTCTCCATATGTACTATTCTTTCAGA
1 GTTCTCCATACATACTATTCATTCAAA
60934739 GTT-TACCATAC
1 GTTCT-CCATAC
60934750 CTACCAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
GTTCTCCATACATACTATTCATTCAAA
Found at i:60934845 original size:29 final size:29
Alignment explanation
Indices: 60934803--60934861 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
60934793 ATGTTACGAC
60934803 TGGATTATGAAGGTTACAACATTTAAACA
1 TGGATTATGAAGGTTACAACATTTAAACA
*
60934832 TGGATTATGAAGGTTAGAACATTTAAACA
1 TGGATTATGAAGGTTACAACATTTAAACA
60934861 T
1 T
60934862 AGTCCACCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (29 bp):
TGGATTATGAAGGTTACAACATTTAAACA
Found at i:60942071 original size:27 final size:27
Alignment explanation
Indices: 60942041--60942139 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
60942031 GGTGTTCCTT
**
60942041 CACAAAGGCTTCCATTTCATAGGTTGC
1 CACAAAGGCTTCCATTTCATAAATTGC
*
60942068 CACAAAGGCTTCCATTTAATAAATTGC
1 CACAAAGGCTTCCATTTCATAAATTGC
* * *
60942095 CATAAAGGATTCCATTTCATAAATACGC
1 CACAAAGGCTTCCATTTCATAAAT-TGC
* *
60942123 CACAACGGCTTTCATTT
1 CACAAAGGCTTCCATTT
60942140 TCTTATGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
27 45 0.75
28 15 0.25
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (27 bp):
CACAAAGGCTTCCATTTCATAAATTGC
Found at i:60945083 original size:20 final size:20
Alignment explanation
Indices: 60945058--60945102 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
60945048 AGGGACTAAA
* *
60945058 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
60945078 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
60945098 ATGAA
1 ATGAA
60945103 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:60945776 original size:57 final size:58
Alignment explanation
Indices: 60945644--60945791 Score: 167
Period size: 57 Copynumber: 2.6 Consensus size: 58
60945634 CATTGACCTT
* * * * *
60945644 GTTATATAAAGGATTTAGCCCGGACGGGTAATTCTGATATAATACCTCTTGAGCATAC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTTGAGCATAC
* * * * *
60945702 GTTATGATTATGG-TTTAGCCTGGACTAGTAATCCTAATCGAGCT-CCTC-TGAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGA-ATACCTCTTGAGCATAC
60945759 GTTATATAAAGGATTTAGCCTGGACTGGTAATC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATC
60945792 TTGTTATACG
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 5 0.07
57 33 0.45
58 30 0.41
59 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTTGAGCATAC
Found at i:60946736 original size:41 final size:42
Alignment explanation
Indices: 60946659--60946739 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
60946649 CCATATAGGT
* * *
60946659 AGACACACAGGTGTTTGTCTAGACTGTGTATGACACACGGCC
1 AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGGCC
* *
60946701 AGACACAAATGTGTGTGCCTAGA-TGTGTGTGACACACGG
1 AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGG
60946740 TATGGTAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (42 bp):
AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGGCC
Found at i:60950212 original size:21 final size:21
Alignment explanation
Indices: 60950173--60950213 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60950163 ATGTTTTGGA
*
60950173 TTAAATTAAATGAATTTTATG
1 TTAAATTAAATGAAATTTATG
* *
60950194 TTAAATTGAATTAAATTTAT
1 TTAAATTAAATGAAATTTAT
60950214 CCGTATAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
TTAAATTAAATGAAATTTATG
Found at i:60950577 original size:25 final size:23
Alignment explanation
Indices: 60950523--60950609 Score: 95
Period size: 25 Copynumber: 3.6 Consensus size: 23
60950513 AGACACACCA
60950523 CAGCTCGTATGAGCTTCTGATTT
1 CAGCTCGTATGAGCTTCTGATTT
*
60950546 TAGCTCGTGA-GAGCTTACTGATTCT
1 CAGCTCGT-ATGAGCTT-CTGATT-T
*
60950571 CAGCTCGTATGAGATTTCTGATTT
1 CAGCTCGTATGAG-CTTCTGATTT
*
60950595 CTAGCTCGTAAGAGC
1 C-AGCTCGTATGAGC
60950610 ATACCAATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
23 13 0.25
24 10 0.19
25 28 0.53
26 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTCTGATTT
Found at i:60950628 original size:50 final size:48
Alignment explanation
Indices: 60950526--60950632 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 48
60950516 CACACCACAG
* * ** *
60950526 CTCGTATGAGCTTCTGATTTTAGCTCGTGAGAGCTTACTGATTCTCAG
1 CTCGTATGAGCTTCTGATTTTAGCTCGTAAGAGCATACCAATTCTCAA
*
60950574 CTCGTATGAGATTTCTGATTTCTAGCTCGTAAGAGCATACCAATTCAT-AA
1 CTCGTATGAG-CTTCTGATTT-TAGCTCGTAAGAGCATACCAATTC-TCAA
60950624 CTCGTATGA
1 CTCGTATGA
60950633 CCATACATGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 10 0.20
49 9 0.18
50 30 0.60
51 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (48 bp):
CTCGTATGAGCTTCTGATTTTAGCTCGTAAGAGCATACCAATTCTCAA
Found at i:60964394 original size:16 final size:17
Alignment explanation
Indices: 60964363--60964395 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60964353 TTCATAAGTA
60964363 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
60964380 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
60964396 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:60964950 original size:46 final size:46
Alignment explanation
Indices: 60964681--60964954 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
60964671 TTTGACATGA
* * * *
60964681 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * ***
60964727 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** **
60964773 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
*
60964819 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* * * *
60964865 TGTCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
60964911 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
60964955 AGAGCACACT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:60975976 original size:40 final size:40
Alignment explanation
Indices: 60975910--60976120 Score: 302
Period size: 40 Copynumber: 5.3 Consensus size: 40
60975900 ATTCGGATTG
60975910 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
60975949 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
60975989 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
60976029 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
60976069 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
60976109 ATATCC-GGCTAA
1 ATAACCGGGCTAA
60976121 ACCTCGAAGG
Statistics
Matches: 157, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
39 21 0.13
40 136 0.87
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:60988717 original size:29 final size:29
Alignment explanation
Indices: 60988653--60988718 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
60988643 TTATCATTTA
* *
60988653 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
60988682 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
60988710 TTTACTCAA
1 TTT-CTCAA
60988719 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:60992608 original size:40 final size:41
Alignment explanation
Indices: 60992550--60992642 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
60992540 AGATCAGCCA
60992550 ACACTAAGTGC-CACATATAGCTGAAGCTAT-TCCAAATCGC
1 ACACTAAGTGCACACATATAGCTGAAGCTATCTCCAAAT-GC
* * * *
60992590 ACACTAAGTGCTATATATATAGTTGAAGCTATCTCGAAATGC
1 ACACTAAGTGC-ACACATATAGCTGAAGCTATCTCCAAATGC
60992632 ACACTAAGTGC
1 ACACTAAGTGC
60992643 CAAACATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 11 0.24
42 29 0.63
43 6 0.13
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (41 bp):
ACACTAAGTGCACACATATAGCTGAAGCTATCTCCAAATGC
Found at i:60998320 original size:18 final size:19
Alignment explanation
Indices: 60998233--60998324 Score: 68
Period size: 18 Copynumber: 4.9 Consensus size: 19
60998223 ATTTCACTCT
* *
60998233 TTCACTCACAATG-TTTTT
1 TTCACTCACATTGCTTTTA
*
60998251 TATCACTAATCA-TGCTTTTA
1 T-TCACTCA-CATTGCTTTTA
* *
60998271 TGCCACTCACTTTGCTTTTA
1 T-TCACTCACATTGCTTTTA
*
60998291 ATC-CTCACATTGCTTTTA
1 TTCACTCACATTGCTTTTA
60998309 TTCACTCA-ATTG-TTTT
1 TTCACTCACATTGCTTTT
60998325 TCGTTTTAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 4 0.07
18 21 0.36
19 14 0.24
20 20 0.34
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCACTCACATTGCTTTTA
Found at i:61000451 original size:29 final size:29
Alignment explanation
Indices: 61000419--61000498 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 29
61000409 GTGATTTCAA
* *
61000419 TAGCAGGTACTTTGTACTGGTGTTTTCTT
1 TAGCAGGTACTTTGTATTGGTGTTTTATT
* * *
61000448 TAGCAGGCACTTTGTGTTAGTGTTTTATT
1 TAGCAGGTACTTTGTATTGGTGTTTTATT
* *
61000477 TTGCAGGTACTATGTATTGGTG
1 TAGCAGGTACTTTGTATTGGTG
61000499 ATGGATATCG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.46
Consensus pattern (29 bp):
TAGCAGGTACTTTGTATTGGTGTTTTATT
Found at i:61002717 original size:21 final size:21
Alignment explanation
Indices: 61002678--61002717 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61002668 TATGTGTTAG
*
61002678 GTTAGTAAAAGAAATAGAAGA
1 GTTAGTAAAAGAAAAAGAAGA
61002699 GTTAGTAGAAA-AAAAAGAA
1 GTTAGTA-AAAGAAAAAGAA
61002718 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (21 bp):
GTTAGTAAAAGAAAAAGAAGA
Found at i:61005911 original size:42 final size:43
Alignment explanation
Indices: 61005804--61005921 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
61005794 ATACCAATGT
* *
61005804 CATATCCTAGATATGGTCTTACATGAAATCTTATATCGATGCG
1 CATATCCCAGATATGGTCTTACACGAAATCTTATATCGATGCG
* * * * *
61005847 AATAGCCCAGCTATGGTCTTACACGAAGT-TTCGTATCGATGC-
1 CATATCCCAGATATGGTCTTACACGAAATCTT-ATATCGATGCG
61005889 CATATCCCAGATATGGTCTTACAC-ATAATCTTA
1 CATATCCCAGATATGGTCTTACACGA-AATCTTA
61005922 GTAACCCTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 34 0.57
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACACGAAATCTTATATCGATGCG
Found at i:61007279 original size:79 final size:79
Alignment explanation
Indices: 61007148--61007306 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
61007138 GGGTGTTACA
*
61007148 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAATTGGTCAT
1 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
61007213 TTTATTGAACTATC
66 TTTATTGAACTATC
61007227 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
1 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
61007292 TTTATTGAACTATC
66 TTTATTGAACTATC
61007306 T
1 T
61007307 AGATTGTCTG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (79 bp):
TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
TTTATTGAACTATC
Found at i:61008266 original size:17 final size:17
Alignment explanation
Indices: 61008246--61008307 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 17
61008236 AATATTAAAT
61008246 TTAATATAATATTTATC
1 TTAATATAATATTTATC
*
61008263 TTAATCTAATATTTATC
1 TTAATATAATATTTATC
*
61008280 TTTATA-AATA-TTATC
1 TTAATATAATATTTATC
*
61008295 TTAATTTAATATT
1 TTAATATAATATT
61008308 AAAGTGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
15 9 0.24
16 8 0.21
17 21 0.55
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATAATATTTATC
Found at i:61014162 original size:42 final size:42
Alignment explanation
Indices: 61014051--61014172 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
61014041 TATCATACCA
* *
61014051 ATGCCATATCCTAGATATGGTCTTACATGAAATCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTTATATCG
* * * * *
61014093 ATGCGAATAGCCCAGCTATGGTCTTACACGAAGT-TTCGTATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAATCTT-ATATCG
61014136 ATGCCATATCCCAGATATGGTCTTACAC-ATAATCTTA
1 ATGCCATATCCCAGATATGGTCTTACACGA-AATCTTA
61014173 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 34 0.53
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTTATATCG
Found at i:61015465 original size:79 final size:79
Alignment explanation
Indices: 61015334--61015492 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
61015324 GGGTGTTACA
61015334 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
1 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
61015399 TTTATTGAACTATC
66 TTTATTGAACTATC
61015413 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
1 TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
61015478 TTTATTGAACTATC
66 TTTATTGAACTATC
61015492 T
1 T
61015493 AGATTGTCTG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (79 bp):
TGTAAATACCTTGTTGACATCTTATACTATATTGAAAGTAATGTTCGTTTAAATGAACTGGTCAT
TTTATTGAACTATC
Found at i:61016452 original size:17 final size:17
Alignment explanation
Indices: 61016432--61016493 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 17
61016422 AATATTAAAT
61016432 TTAATATAATATTTATC
1 TTAATATAATATTTATC
*
61016449 TTAATCTAATATTTATC
1 TTAATATAATATTTATC
*
61016466 TTTATA-AATA-TTATC
1 TTAATATAATATTTATC
*
61016481 TTAATTTAATATT
1 TTAATATAATATT
61016494 AAAGTGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
15 9 0.24
16 8 0.21
17 21 0.55
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATAATATTTATC
Found at i:61020469 original size:28 final size:28
Alignment explanation
Indices: 61020412--61020619 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
61020402 TAAATTGTGC
*
61020412 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61020439 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61020467 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61020495 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61020523 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61020550 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
61020578 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61020605 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61020620 GACTTAATAT
Statistics
Matches: 175, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 66 0.38
28 109 0.62
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:61020476 original size:55 final size:55
Alignment explanation
Indices: 61020412--61020619 Score: 362
Period size: 55 Copynumber: 3.8 Consensus size: 55
61020402 TAAATTGTGC
*
61020412 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
61020467 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
61020523 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
61020578 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
61020620 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
55 92 0.63
56 55 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:61028623 original size:28 final size:28
Alignment explanation
Indices: 61028566--61028764 Score: 269
Period size: 28 Copynumber: 7.5 Consensus size: 28
61028556 TAAATTGTGC
*
61028566 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61028593 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61028621 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61028649 AGCACTAA--GT--G-GTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61028672 ---ACT-AGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61028695 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
61028723 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61028750 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61028765 GACTTAATAT
Statistics
Matches: 157, Mismatches: 4, Indels: 22
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 2 0.01
23 23 0.15
24 2 0.01
26 5 0.03
27 49 0.31
28 72 0.46
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:61028696 original size:46 final size:49
Alignment explanation
Indices: 61028569--61028760 Score: 201
Period size: 55 Copynumber: 3.7 Consensus size: 49
61028559 ATTGTGCAGC
*
61028569 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
1 ACTAAGTGTGCGAGTTGACTATGTAGCACTAA--GT--GAGTTTGACTATGTA
61028622 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTG-GTTTGACTATGT-
1 --ACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGAGTTTGACTATGTA
*
61028672 ACT-AGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTA
1 ACTAAGTGTGCGAGTTGACTATGTAGCACTAA--GT--GAGTTTGACTATGTA
* * *
61028724 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 --ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
61028761 TGCGGACTTA
Statistics
Matches: 122, Mismatches: 5, Indels: 24
0.81 0.03 0.16
Matches are distributed among these distances:
46 18 0.15
47 10 0.08
48 5 0.04
50 1 0.01
51 24 0.20
52 1 0.01
53 2 0.02
54 5 0.04
55 38 0.31
56 18 0.15
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (49 bp):
ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGAGTTTGACTATGTA
Found at i:61028775 original size:27 final size:27
Alignment explanation
Indices: 61028675--61028777 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
61028665 ACTATGTACT
* * *
61028675 AGTGTGCGAGTTGACTATGTAGCACTA
1 AGTGTGCGACTTGAATATATAGCACTA
* * *
61028702 AGTGTGCGAGTTTGATTATGTAGCACTA
1 AGTGTGCGA-CTTGAATATATAGCACTA
* * *
61028730 AGTGTGCGAGTTGATTATATAGCACTG
1 AGTGTGCGACTTGAATATATAGCACTA
61028757 AGTGTGCGGACTT-AATATATA
1 AGTGTGC-GACTTGAATATATA
61028778 TTCTTGAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 38 0.57
28 29 0.43
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (27 bp):
AGTGTGCGACTTGAATATATAGCACTA
Found at i:61042889 original size:40 final size:40
Alignment explanation
Indices: 61042774--61042961 Score: 260
Period size: 39 Copynumber: 4.8 Consensus size: 40
61042764 CATTTGAATG
* * *
61042774 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
61042814 TTATCCGGGCTAAGA-CCGAA-GCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
61042852 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
61042892 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
61042931 ATACCCGGG-TTAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
61042962 TTGTGGTTAT
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 30 0.22
39 59 0.44
40 46 0.34
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:61048551 original size:40 final size:40
Alignment explanation
Indices: 61048507--61048769 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
61048497 GCTCCTCGTT
* *
61048507 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61048547 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61048587 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61048627 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61048666 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
61048705 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
61048746 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61048770 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 88 0.43
40 105 0.51
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61048730 original size:79 final size:79
Alignment explanation
Indices: 61048507--61048769 Score: 358
Period size: 79 Copynumber: 3.3 Consensus size: 79
61048497 GCTCCTCGTT
*
61048507 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAACCC
61048570 GGATTTAGTAACTCGCA
63 GGATTTAGTAACTCGCA
* *
61048587 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGACTTAACCCGGA
61048652 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* **
61048666 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGA-CTTAACCCGG
* *
61048730 ATATT-GTCACTTAGCA
65 AT-TTAGTAAC-TCGCA
61048746 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61048770 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
78 45 0.27
79 70 0.42
80 50 0.30
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:61056839 original size:39 final size:40
Alignment explanation
Indices: 61056682--61056906 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
61056672 GGTCCTCGTT
* * *
61056682 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61056722 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61056762 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61056802 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
61056841 CAAATGCCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATG-CCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
61056883 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61056907 CAGCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 45 0.27
40 96 0.58
41 17 0.10
42 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61059403 original size:30 final size:30
Alignment explanation
Indices: 61059367--61059425 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
61059357 CAAATTCGAA
*
61059367 TGTTGGTAAGGTACTGATGAAAGCTAGTAT
1 TGTTGGTAAGGTACTAATGAAAGCTAGTAT
61059397 TGTTGGTAAGGTACTAATGAAAGCTAGTA
1 TGTTGGTAAGGTACTAATGAAAGCTAGTA
61059426 AATGTATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (30 bp):
TGTTGGTAAGGTACTAATGAAAGCTAGTAT
Found at i:61059834 original size:5 final size:5
Alignment explanation
Indices: 61059824--61059852 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61059814 TGACTTGTTA
61059824 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
61059853 AATGCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:61067030 original size:26 final size:26
Alignment explanation
Indices: 61067000--61067081 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
61066990 TGAAATTCCC
61067000 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
61067026 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61067052 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61067078 ATCA
1 ATCA
61067082 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61075373 original size:20 final size:21
Alignment explanation
Indices: 61075350--61075395 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
61075340 TAAAATATTA
*
61075350 ATTTTTAAAAT-TTTAAATAT
1 ATTTATAAAATGTTTAAATAT
*
61075370 ATTTATAAAATGTTTGAATAT
1 ATTTATAAAATGTTTAAATAT
*
61075391 CTTTA
1 ATTTA
61075396 GAATTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTATAAAATGTTTAAATAT
Found at i:61075456 original size:29 final size:30
Alignment explanation
Indices: 61075386--61075473 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 30
61075376 AAAATGTTTG
* *
61075386 AATATCTTTAGAATTAATTTAAAAATTAAT
1 AATATATTTAAAATTAATTTAAAAATTAAT
* *
61075416 AATTTA-TAAAAATTATATTT-AAAATTAA-
1 AATATATTTAAAATTA-ATTTAAAAATTAAT
61075444 AATATATTTAAAA-T-ATTATAAAAA-TAAT
1 AATATATTTAAAATTAATT-TAAAAATTAAT
61075472 AA
1 AA
61075474 ATTTGAAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
26 3 0.06
27 4 0.09
28 12 0.26
29 20 0.43
30 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATATTTAAAATTAATTTAAAAATTAAT
Found at i:61075461 original size:19 final size:18
Alignment explanation
Indices: 61075424--61075457 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61075414 ATAATTTATA
61075424 AAAATTATATTTAAAATT
1 AAAATTATATTTAAAATT
61075442 AAAA-TATATTTAAAAT
1 AAAATTATATTTAAAAT
61075458 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTATATTTAAAATT
Found at i:61075575 original size:19 final size:18
Alignment explanation
Indices: 61075545--61075602 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
61075535 ATTTTATATT
61075545 ATTAAAAA-ATATTTAAA
1 ATTAAAAATATATTTAAA
61075562 ATTAAAAATCATATTTAAA
1 ATTAAAAAT-ATATTTAAA
61075581 ATTTAAAAATAATAATTTAAA
1 A-TTAAAAAT-AT-ATTTAAA
61075602 A
1 A
61075603 AATATATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 8 0.22
19 10 0.28
20 10 0.28
21 8 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAAAATATATTTAAA
Found at i:61075639 original size:23 final size:23
Alignment explanation
Indices: 61075596--61075640 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61075586 AAAATAATAA
*
61075596 TTTAAAAAATATATGTTTAAAAT
1 TTTAAAAAATATATGTATAAAAT
61075619 TTTAAAAAATAATAT-TATAAAA
1 TTTAAAAAAT-ATATGTATAAAA
61075641 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAAAATATATGTATAAAAT
Found at i:61075696 original size:24 final size:24
Alignment explanation
Indices: 61075667--61075764 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 24
61075657 TTCAAATTTT
*
61075667 ATAAAACT-AATAATAATCAAATAA
1 ATAAAACTAAATAAGAA-CAAATAA
*
61075691 ATAAAA-TAAATAAGGACAAATAA
1 ATAAAACTAAATAAGAACAAATAA
*
61075714 A-AAAACTTAA-AA-AACTAAATAA
1 ATAAAACTAAATAAGAAC-AAATAA
*
61075736 GTAAAACTTAAA-AAGAA-AAA-AA
1 ATAAAAC-TAAATAAGAACAAATAA
61075758 ATGAAAA
1 AT-AAAA
61075765 AGGGCAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 2 0.03
22 15 0.25
23 24 0.40
24 17 0.28
25 2 0.03
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.18
Consensus pattern (24 bp):
ATAAAACTAAATAAGAACAAATAA
Found at i:61075937 original size:18 final size:19
Alignment explanation
Indices: 61075916--61075951 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61075906 AAACTCCTCA
61075916 AATATTT-TTAAAATTTAC
1 AATATTTCTTAAAATTTAC
*
61075934 AATATTTCTTAATATTTA
1 AATATTTCTTAAAATTTA
61075952 TACAAGTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTTCTTAAAATTTAC
Found at i:61088207 original size:48 final size:46
Alignment explanation
Indices: 61088131--61088401 Score: 209
Period size: 48 Copynumber: 5.7 Consensus size: 46
61088121 TATGAGAGCC
*
61088131 AGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTAAGCA-GCT
* *
61088179 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTA--AGCAGCT
* * *
61088227 AGTGTAAGACCATGTCTGGGACATGGTATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATT-A-A-G-CAGCT
61088275 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT--G-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-C-C-ACAT-TAAGCAGCT
* * *
61088323 AGTGTAAGACCGTGTCTGGGACATGGCGTCGGCCTCGACATGT--G-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-C-C-ACAT-TAAGCAGCT
* *
61088371 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
61088402 ACAATTCACC
Statistics
Matches: 193, Mismatches: 17, Indels: 27
0.81 0.07 0.11
Matches are distributed among these distances:
45 6 0.03
46 2 0.01
47 2 0.01
48 174 0.90
49 2 0.01
50 3 0.02
54 3 0.02
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATTAAGCAGCT
Found at i:61088285 original size:96 final size:96
Alignment explanation
Indices: 61088118--61088401 Score: 317
Period size: 96 Copynumber: 3.0 Consensus size: 96
61088108 GCCATTTGGG
* * * *
61088118 CGATATGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAG-C-A-CGCTA
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--GCATTGAGACGAGAGCTA
61088180 GTGTAAGACCATGTCTAGGACATGGCATCGGCCA
63 GTGTAAGACCATGTCTAGGACATGGCATCGGCCA
*
61088214 C-ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGAGAGCTAGT
1 CGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGT
* *
61088278 GTAAGACCATGTCTGGGACATGGCATCGGCCT
65 GTAAGACCATGTCTAGGACATGGCATCGGCCA
* * * * * * * * * * *
61088310 CGACATGTGAGCTAGTGTAAGACCGTGTCTGGGACATGGCGTCGGCCTCGACATGTGAGCCAGTG
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTG
*
61088375 TAAGACCATGT-TTGGAACATGGCATCG
66 TAAGACCATGTCTAGG-ACATGGCATCG
61088402 ACAATTCACC
Statistics
Matches: 162, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
93 6 0.04
94 1 0.01
95 6 0.04
96 148 0.91
97 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (96 bp):
CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTG
TAAGACCATGTCTAGGACATGGCATCGGCCA
Found at i:61088384 original size:144 final size:143
Alignment explanation
Indices: 61088124--61088401 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 143
61088114 TGGGCGATAT
61088124 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCTAGTGTAAGAC
1 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATT-AGCACGCTAGTGTAAGAC
* * *
61088189 CATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGT
65 CATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGC
61088254 ATCGGCATTGAGAC
130 ATCGGCATTGAGAC
* * *
61088268 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT-G-A-GCTAGTGTAA
1 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAG-C-C-ACAT-TAGCACGCTAGTGTAA
* * * * * *
61088330 GACCGTGTCTGGGACATGGCGTCGGCCTCGA-CATGTGAGCCAGTGTAAGACCATGTTTGGAACA
62 GACCATGTCTAGGACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAAGACCATGTCTGGAACA
61088394 TGGCATCG
126 TGGCATCG
61088402 ACAATTCACC
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
144 107 0.91
145 3 0.03
146 2 0.02
147 4 0.03
148 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (143 bp):
GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAGCACGCTAGTGTAAGACC
ATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
TCGGCATTGAGAC
Found at i:61095646 original size:39 final size:40
Alignment explanation
Indices: 61095536--61095720 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
61095526 GCTACTCGTT
* *
61095536 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
61095576 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61095616 CAAATGCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
61095655 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61095696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61095721 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61095704 original size:79 final size:80
Alignment explanation
Indices: 61095536--61095720 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
61095526 GCTACTCGTT
* * *
61095536 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
61095600 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* ** *
61095616 CAAATGCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
61095679 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
*
61095696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61095721 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:61103776 original size:119 final size:120
Alignment explanation
Indices: 61103592--61103816 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
61103582 GCTACTCATT
*
61103592 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
61103657 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
61103712 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
61103774 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
61103817 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61103816 original size:40 final size:40
Alignment explanation
Indices: 61103592--61103816 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
61103582 GCTACTCATT
* *
61103592 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61103632 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61103672 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
61103712 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
61103751 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
61103792 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61103817 CATCATTCAA
Statistics
Matches: 166, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 120 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:61105881 original size:95 final size:94
Alignment explanation
Indices: 61105714--61105926 Score: 258
Period size: 95 Copynumber: 2.3 Consensus size: 94
61105704 TTAAGGGTGC
* * * * *
61105714 AAAAAGCCCTCAAA-CTTTTC--AAAAAAAGCAATTAAGCTCATGCTTCTTTTTTTGCACTTATT
1 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAAT
*
61105776 TGGATACTTGAACTTTCAAAGATGCATAAA
66 TGGATACTTGAACTTTCAAA-ATGAATAAA
*
61105806 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAGCAATTAAGCCCCTACCT-TTTTTTTGCACTCAA
1 AAAAAGCCCTCAAACCTTTTC-AAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAA
*
61105870 TTGTG-TACTTGAGCTTTCAAAATGAATAAA
65 TTG-GATACTTGAACTTTCAAAATGAATAAA
* * *
61105900 AAAGA-CCCTCAAACTTTTTCACAAAAA
1 AAAAAGCCCTCAAACCTTTTCAAAAAAA
61105927 GCAATGAAGT
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
92 20 0.19
93 20 0.19
94 12 0.11
95 31 0.30
96 22 0.21
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (94 bp):
AAAAAGCCCTCAAACCTTTTCAAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAAT
TGGATACTTGAACTTTCAAAATGAATAAA
Found at i:61106073 original size:19 final size:18
Alignment explanation
Indices: 61106051--61106121 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
61106041 TAATAATTAG
61106051 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAAT-AT
61106070 AAAAAAGAATATAAAAA-ATT
1 -AAAAA-AATATAAAAATA-T
*
61106090 GTAAAAAATAT-AAAATAT
1 -AAAAAAATATAAAAATAT
* *
61106108 ATAGAAATATAAAA
1 AAAAAAATATAAAA
61106122 TTTTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 7 0.17
18 8 0.19
19 7 0.17
20 10 0.24
21 10 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAAAAATAT
Found at i:61106085 original size:10 final size:9
Alignment explanation
Indices: 61106052--61106121 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
61106042 AATAATTAGA
61106052 AAAAAATAT
1 AAAAAATAT
*
61106061 AAAAATCATAA
1 AAAAA--ATAT
61106072 AAAAGAATAT
1 AAAA-AATAT
*
61106082 AAAAAATTGT
1 AAAAAA-TAT
61106092 AAAAAATAT
1 AAAAAATAT
*
61106101 AAAATATAT
1 AAAAAATAT
*
61106110 -AGAAATAT
1 AAAAAATAT
61106118 AAAA
1 AAAA
61106122 TTTTATAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 19 0.40
10 15 0.31
11 7 0.15
12 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:61106395 original size:11 final size:11
Alignment explanation
Indices: 61106379--61106473 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 11
61106369 TAAAAAATCT
61106379 AATTTTTAATA
1 AATTTTTAATA
61106390 AA-TTTTAA-A
1 AATTTTTAATA
** *
61106399 TTTTTTTATTA
1 AATTTTTAATA
*
61106410 AA-ATTTAATA
1 AATTTTTAATA
*
61106420 ATTTTTCTAA-A
1 AATTTT-TAATA
61106431 AATTTTT-ATA
1 AATTTTTAATA
* *
61106441 ATTTTTTTATA
1 AATTTTTAATA
* *
61106452 ATTTTTTTAT-
1 AATTTTTAATA
61106462 AATTTTTAATA
1 AATTTTTAATA
61106473 A
1 A
61106474 TAGCATGGTC
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
9 2 0.03
10 34 0.53
11 25 0.39
12 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:61106406 original size:20 final size:21
Alignment explanation
Indices: 61106381--61106468 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 21
61106371 AAAAATCTAA
61106381 TTTTTAATAAATTTTA-AATT
1 TTTTTAATAAATTTTATAATT
* *
61106401 TTTTTATTAAAATTTAATAATT
1 TTTTTAAT-AAATTTTATAATT
*
61106423 TTTCTAA-AAATTTTTATAATT
1 TTTTTAATAAA-TTTTATAATT
*
61106444 TTTTT-ATAATTTTTTTATAATT
1 TTTTTAATAA--ATTTTATAATT
61106466 TTT
1 TTT
61106469 AATAATAGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
20 11 0.20
21 22 0.40
22 22 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAATAAATTTTATAATT
Found at i:61106413 original size:21 final size:22
Alignment explanation
Indices: 61106381--61106468 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
61106371 AAAAATCTAA
*
61106381 TTTTTAAT-AAATTTTA-AATT
1 TTTTTATTAAAATTTTATAATT
*
61106401 TTTTTATTAAAATTTAATAATT
1 TTTTTATTAAAATTTTATAATT
*
61106423 TTTCTA--AAAATTTTTATAATT
1 TTTTTATTAAAA-TTTTATAATT
**
61106444 TTTTTA-TAATTTTTTTATAATT
1 TTTTTATTAA-AATTTTATAATT
61106466 TTT
1 TTT
61106469 AATAATAGCA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 11 0.20
21 21 0.38
22 24 0.43
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATTAAAATTTTATAATT
Found at i:61106456 original size:10 final size:10
Alignment explanation
Indices: 61106378--61106474 Score: 63
Period size: 11 Copynumber: 9.4 Consensus size: 10
61106368 ATAAAAAATC
*
61106378 TAATTTTTAA
1 TAATTTTTTA
*
61106388 TAA-ATTTTA
1 TAATTTTTTA
61106397 -AATTTTTTTA
1 TAA-TTTTTTA
** *
61106407 TTAAAATTTAA
1 -TAATTTTTTA
61106418 TAATTTTTCTA
1 TAATTTTT-TA
* *
61106429 AAAATTTTTA
1 TAATTTTTTA
61106439 TAATTTTTTTA
1 TAA-TTTTTTA
61106450 TAATTTTTTTA
1 TAA-TTTTTTA
*
61106461 TAATTTTTAA
1 TAATTTTTTA
61106471 TAAT
1 TAAT
61106475 AGCATGGTCT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.03
9 4 0.06
10 28 0.42
11 31 0.46
12 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:61106626 original size:89 final size:91
Alignment explanation
Indices: 61106488--61106666 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 91
61106478 ATGGTCTTAA
61106488 TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
1 TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
* * *
61106553 GTAAAA-AAAATAGGGGCTTAATTGC
66 GTAAAAGAAAAAAAGAGCTTAATTGC
* * * *
61106578 TTGCTTTTTTTGA-AGAAATTTGA-GG-CATTTTTTATGTATTTTGAAAGTTCAAGTGCTCAATT
1 TTGCTTTTTTTGATA-AAATTTGAGGGTC-TTTTTGATGCATTTTGAAAGTTCAAGTACCCAATT
61106640 GAGTAAAAGAAAAAAAGAGCTTAATTG
64 GAGTAAAAGAAAAAAAGAGCTTAATTG
61106667 TTTTTTTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
88 1 0.01
89 42 0.53
90 36 0.46
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (91 bp):
TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
GTAAAAGAAAAAAAGAGCTTAATTGC
Found at i:61107201 original size:30 final size:31
Alignment explanation
Indices: 61107166--61107241 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 31
61107156 CATACATGTA
61107166 ATAATGTTTTAC-TCTATTTATTCTTTTTAG
1 ATAATGTTTTACATCTATTTATTCTTTTTAG
*
61107196 ATAATGTCTTAAAACATCTATTTATTCTTTTTAG
1 ATAATGT-TT--TACATCTATTTATTCTTTTTAG
*
61107230 ATAATGTCTTAC
1 ATAATGTTTTAC
61107242 CTTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 7 0.18
31 4 0.10
33 3 0.08
34 25 0.64
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (31 bp):
ATAATGTTTTACATCTATTTATTCTTTTTAG
Found at i:61109351 original size:18 final size:19
Alignment explanation
Indices: 61109298--61109348 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
61109288 TTACAAAAAA
*
61109298 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
*
61109317 AAATTTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
61109336 AAAATTAAAAATA
1 AAAATTCAAAATA
61109349 TTTATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:61113838 original size:37 final size:38
Alignment explanation
Indices: 61113758--61113846 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 38
61113748 TAGATAGATA
** *
61113758 GCTAGGATTATTAGTTACCTTTAGGATTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
* *
61113796 ACTAGGATTAAAAGATATCTTTAGG-TTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
61113833 GCTAGGATTAAAAG
1 GCTAGGATTAAAAG
61113847 TTTATTTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
37 25 0.56
38 20 0.44
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (38 bp):
GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
Found at i:61116860 original size:7 final size:7
Alignment explanation
Indices: 61116848--61116875 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
61116838 ATGTTCTTCT
61116848 TTTATTA
1 TTTATTA
61116855 TTTATTA
1 TTTATTA
61116862 TTTATTA
1 TTTATTA
61116869 TTTATTA
1 TTTATTA
61116876 AAATATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:61127791 original size:36 final size:35
Alignment explanation
Indices: 61127750--61127834 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
61127740 ATCTTGACTC
*
61127750 GGAGTTAGCCAAGAA-AGAAAGATTATTTCAACTTTA
1 GGAGTT-G-CAAGAATACAAAGATTATTTCAACTTTA
* * *
61127786 GGAGTTGGAAGAATTCCAAGATTATTTCAACTTTA
1 GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
* *
61127821 GGAATTGGAAGAAT
1 GGAGTTGCAAGAAT
61127835 TCCATTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.12
35 32 0.74
36 6 0.14
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (35 bp):
GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
Found at i:61127808 original size:35 final size:35
Alignment explanation
Indices: 61127768--61127838 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
61127758 CCAAGAAAGA
*
61127768 AAGATTATTTCAACTTTAGGAGTTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
61127803 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
61127838 A
1 A
61127839 TTTTATGGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (35 bp):
AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
Found at i:61128537 original size:11 final size:12
Alignment explanation
Indices: 61128521--61128549 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61128511 TTTTGTCACC
61128521 AAAAAAG-AAAG
1 AAAAAAGAAAAG
61128532 AAAAAAGAAAAG
1 AAAAAAGAAAAG
61128544 AAAAAA
1 AAAAAA
61128550 ATGAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:61141391 original size:40 final size:40
Alignment explanation
Indices: 61141365--61141550 Score: 256
Period size: 40 Copynumber: 4.7 Consensus size: 40
61141355 AAGTGACCAT
61141365 ATCCGGACTAAGAT-CGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
61141404 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
*
61141444 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
**
61141484 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-A
* *
61141525 A-CCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
61141551 AACGAGGAGC
Statistics
Matches: 137, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 15 0.11
40 120 0.88
41 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:61141482 original size:80 final size:81
Alignment explanation
Indices: 61141326--61141550 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 81
61141316 TTGAATGATG
* * * *
61141326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGAT-CGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAATCCGGACTAAGATCCGAAGGCAT
61141388 TTGTGCGAGATACTAAA
65 TTGTGCGAGATACTAAA
61141405 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGACTAAGATCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATAATCCGGACTAAGATCCGAAGGCA
*
61141467 TTTGTGCGAGTTACTAAA
64 TTTGTGCGAGATACTAAA
** * *
61141485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCCGGACTAAGAT-CCGAAGGCAT
61141548 TTG
65 TTG
61141551 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
79 38 0.30
80 87 0.68
81 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:61141568 original size:80 final size:79
Alignment explanation
Indices: 61141365--61141583 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
61141355 AAGTGACCAT
** *
61141365 ATCCGGACTAAGAT-CGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCA
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCA
61141427 TTTGTGCGAGATACTAA
63 TTTGTGCGAGATACTAA
** * *
61141444 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATT
61141509 TGTGCGA-ATTACTATA
65 TGTGCGAGA-TACTA-A
* * *
61141525 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATCCCGAAGG
1 ATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
61141584 TACGTGGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
79 34 0.28
80 85 0.69
81 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:61149471 original size:79 final size:80
Alignment explanation
Indices: 61149322--61149546 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
61149312 TTGAATGATG
* * * * * *
61149322 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
61149385 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * *
61149402 TCCGGACTAA-TATCCGAAGGCATTTGTGCGAGA-TACTA-ATTCTGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAGT-CCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
61149463 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
61149481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
61149546 G
66 G
61149547 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
78 1 0.01
79 67 0.55
80 45 0.37
81 8 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:61149510 original size:40 final size:40
Alignment explanation
Indices: 61149322--61149546 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
61149312 TTGAATGATG
* * * *
61149322 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61149362 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
61149402 TCCGGACTAA-TATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGT-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
61149442 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61149481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61149522 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61149547 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.21
40 116 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61149538 original size:119 final size:120
Alignment explanation
Indices: 61149325--61149546 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
61149315 AATGATGTCC
*
61149325 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
61149390 CGAGATACTAAATCCGGACTAATATCCGAAGGCATTTGTGCGAGATACTAATTCT
66 CGAGATACTAAATCCGGACTAATATCCGAAGGCATTTGTGCGAGATACTAATTCT
* * * **
61149445 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTG
* *
61149507 TGCGA-ATTACTATAA-CCGGGCT-ATGTCCCGAAGGCATTTG
64 TGCGAGA-TACTA-AATCCGGACTAATAT-CCGAAGGCATTTG
61149547 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
118 5 0.06
119 67 0.75
120 17 0.19
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTAAATCCGGACTAATATCCGAAGGCATTTGTGCGAGATACTAATTCT
Found at i:61149568 original size:79 final size:79
Alignment explanation
Indices: 61149375--61149579 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 79
61149365 GGACTAAGAT
** **
61149375 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAATAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
* *
61149438 TAATTCTGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
61149454 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
61149518 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
61149534 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
61149580 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.05
79 78 0.72
80 25 0.23
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:61153044 original size:5 final size:5
Alignment explanation
Indices: 61153031--61153095 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
61153021 CAACCCAATC
* * * *
61153031 TTTTT TTTTA TTTTC CTTT- TTTTC TTTTA TTTT- TTATTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
*
61153080 TTTTTA TGTTA TTTTA
1 -TTTTA TTTTA TTTTA
61153096 GTTAAATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
4 5 0.10
5 37 0.76
6 7 0.14
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:61153063 original size:11 final size:11
Alignment explanation
Indices: 61153049--61153094 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
61153039 TATTTTCCTT
*
61153049 TTTTTCTTTTA
1 TTTTTATTTTA
*
61153060 TTTTT-TATTA
1 TTTTTATTTTA
61153070 -TTTTATTTTA
1 TTTTTATTTTA
*
61153080 TTTTTATGTTA
1 TTTTTATTTTA
61153091 TTTT
1 TTTT
61153095 AGTTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 4 0.13
10 8 0.27
11 18 0.60
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:61153085 original size:19 final size:19
Alignment explanation
Indices: 61153031--61153086 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
61153021 CAACCCAATC
* ** *
61153031 TTTTTTTTTATTTTCCTTT
1 TTTTATTTTATTTTTATTA
*
61153050 TTTTCTTTTATTTTTTATTA
1 TTTTATTTTA-TTTTTATTA
61153070 TTTTATTTTATTTTTAT
1 TTTTATTTTATTTTTAT
61153087 GTTATTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTATTTTATTTTTATTA
Found at i:61153091 original size:16 final size:16
Alignment explanation
Indices: 61153057--61153095 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
61153047 TTTTTTTCTT
*
61153057 TTATTTT-TTATTATT
1 TTATTTTATTATTATG
*
61153072 TTATTTTATTTTTATG
1 TTATTTTATTATTATG
61153088 TTATTTTA
1 TTATTTTA
61153096 GTTAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTATTTTATTATTATG
Found at i:61154439 original size:25 final size:26
Alignment explanation
Indices: 61154402--61154459 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
61154392 AATAAATTTT
* *
61154402 AAAAAAAGAAAAAAAAAAGAGAGAAG
1 AAAAAAAGAAAAAAAAAAGAAAAAAG
*
61154428 AAAAAAAG-AAAAAAAATGAAAAAAG
1 AAAAAAAGAAAAAAAAAAGAAAAAAG
61154453 AAAAAAA
1 AAAAAAA
61154460 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (26 bp):
AAAAAAAGAAAAAAAAAAGAAAAAAG
Found at i:61157374 original size:15 final size:15
Alignment explanation
Indices: 61157354--61157384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61157344 AGCTAATGTC
*
61157354 GGGCCCATGAATAGG
1 GGGCCCATGAACAGG
61157369 GGGCCCATGAACAGG
1 GGGCCCATGAACAGG
61157384 G
1 G
61157385 CGTATCTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.42, T:0.10
Consensus pattern (15 bp):
GGGCCCATGAACAGG
Found at i:61159972 original size:119 final size:120
Alignment explanation
Indices: 61159790--61160005 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
61159780 TCCTCGTTCA
*
61159790 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
61159855 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAATCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAATCCGGATTTAGTAACTCGCACC
* * **
61159910 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
61159972 ATATGGTCACTTAGCACAAAGTCTTCGGGACTTA
64 ATATGGTAACTTAGCACAAAGCCTTCGGGACTTA
61160006 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAATCCGGATTTAGTAACTCGCACC
Found at i:61160012 original size:40 final size:40
Alignment explanation
Indices: 61159788--61160012 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
61159778 GCTCCTCGTT
* *
61159788 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
61159828 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
** *
61159868 CAAATGCCTTCGGGACTTAATCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61159908 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
61159947 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
61159988 CAAA-GTCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61160013 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:61165583 original size:34 final size:33
Alignment explanation
Indices: 61165487--61165584 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 33
61165477 GCCTATGGGC
* *
61165487 CATACTGTTATCTGAAAAGGGGCTAAGGCCCAGT
1 CATACTGTTATTTGAAAA-GGGCTTAGGCCCAGT
* * *
61165521 -TTACCG-TATTCTGAAAAGGGCTTCGGCCCAGT
1 CATACTGTTATT-TGAAAAGGGCTTAGGCCCAGT
*
61165553 ACATACTGTTATTTGAATAGGGCTTAGGCCCA
1 -CATACTGTTATTTGAAAAGGGCTTAGGCCCA
61165585 ATGGGCTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
32 16 0.31
33 10 0.20
34 21 0.41
35 4 0.08
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
CATACTGTTATTTGAAAAGGGCTTAGGCCCAGT
Found at i:61167447 original size:29 final size:29
Alignment explanation
Indices: 61167412--61167614 Score: 178
Period size: 29 Copynumber: 7.0 Consensus size: 29
61167402 GATGGTTGAA
*
61167412 ACCATCCCTTTTCATATTTGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * * **
61167441 ACTATCCCTTTTCGTATTCGACGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * *
61167470 ACCATTCCTTTTCATATTCAATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
** * * *
61167499 ACTGTCCCTTTTTATATTCAATGGTCGA-A
1 ACCATCCCTTTTCATATTCGATGGTC-ATC
*
61167528 ACCATCCCTTTTCATATTCGATGGTCGA-A
1 ACCATCCCTTTTCATATTCGATGGTC-ATC
* * * *
61167557 ACCATCCCATTTCATAGTCAATGGTCGA-A
1 ACCATCCCTTTTCATATTCGATGGTC-ATC
*
61167586 ACCATCCCTTTTCATATTCGATGGGCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
61167615 GATATGTTGT
Statistics
Matches: 142, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
28 1 0.01
29 141 0.99
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCATC
Found at i:61167480 original size:58 final size:58
Alignment explanation
Indices: 61167409--61167614 Score: 234
Period size: 58 Copynumber: 3.6 Consensus size: 58
61167399 AACGATGGTT
* * * *
61167409 GAAACCATCCCTTTTCATATTTGATGGTCATCACTATCCCTTTTCGTATTCGACGGTT
1 GAAACCATCCCTTTTCATATTCGATGGTCATCACTATCCCTTTTCATATTCAACGGTC
** * * * * * *
61167467 GTCACCATTCCTTTTCATATTCAATGGTCGTCACTGTCCCTTTTTATATTCAATGGTC
1 GAAACCATCCCTTTTCATATTCGATGGTCATCACTATCCCTTTTCATATTCAACGGTC
* * * * *
61167525 GAAACCATCCCTTTTCATATTCGATGGTCGA-AACCATCCCATTTCATAGTCAATGGTC
1 GAAACCATCCCTTTTCATATTCGATGGTC-ATCACTATCCCTTTTCATATTCAACGGTC
*
61167583 GAAACCATCCCTTTTCATATTCGATGGGCATC
1 GAAACCATCCCTTTTCATATTCGATGGTCATC
61167615 GATATGTTGT
Statistics
Matches: 121, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
57 1 0.01
58 120 0.99
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (58 bp):
GAAACCATCCCTTTTCATATTCGATGGTCATCACTATCCCTTTTCATATTCAACGGTC
Found at i:61167594 original size:87 final size:87
Alignment explanation
Indices: 61167403--61167609 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 87
61167393 TGTACTAACG
* * * * * *
61167403 ATGGTTGAAACCATCCCTTTTCATATTTGATGGTCATCACTATCCCTTTTCGTATTCGACGGTTG
1 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCATAACCATCCCTTTTCATATTCGACGGTCG
** * * *
61167468 TCACCATTCCTTTTCATATTCA
66 AAACCATCCCATTTCATAGTCA
** ** * * *
61167490 ATGGTCGTCACTGTCCCTTTTTATATTCAATGGTCGA-AACCATCCCTTTTCATATTCGATGGTC
1 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTC-ATAACCATCCCTTTTCATATTCGACGGTC
61167554 GAAACCATCCCATTTCATAGTCA
65 GAAACCATCCCATTTCATAGTCA
61167577 ATGGTCGAAACCATCCCTTTTCATATTCGATGG
1 ATGGTCGAAACCATCCCTTTTCATATTCGATGG
61167610 GCATCGATAT
Statistics
Matches: 95, Mismatches: 24, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
87 94 0.99
88 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (87 bp):
ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCATAACCATCCCTTTTCATATTCGACGGTCG
AAACCATCCCATTTCATAGTCA
Done.