Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 29 of 322
Found at i:8563916 original size:34 final size:34
Alignment explanation
Indices: 8563847--8563916 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
8563837 ATTTTAAAAT
* * *
8563847 AATTACAAACACATCAATTTATAATATAATCTTA
1 AATTACAAACAAATCAATTTATAAAATAATATTA
* *
8563881 AATTACTAACAAATTAATTT-TAAAATAATTATTA
1 AATTACAAACAAATCAATTTATAAAATAA-TATTA
8563915 AA
1 AA
8563917 AAATTACATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (34 bp):
AATTACAAACAAATCAATTTATAAAATAATATTA
Found at i:8565136 original size:15 final size:14
Alignment explanation
Indices: 8565106--8565132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8565096 TATGTCTCTT
8565106 TTTTTAAATATTTA
1 TTTTTAAATATTTA
8565120 TTTTTAAATATTT
1 TTTTTAAATATTT
8565133 TATTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:8565382 original size:18 final size:18
Alignment explanation
Indices: 8565341--8565387 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
8565331 TTAGAAGAGT
*
8565341 ATATACTTAATT-TTTAA
1 ATATATTTAATTATTTAA
8565358 A-AT-TTTAATTATTTAA
1 ATATATTTAATTATTTAA
8565374 ATATATTTAATTAT
1 ATATATTTAATTAT
8565388 AAAAGTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 3 0.12
18 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTTAATTATTTAA
Found at i:8567065 original size:28 final size:28
Alignment explanation
Indices: 8567025--8567082 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8567015 AACAATATCT
8567025 AAGTCTTTATTGCGTAAAATAAAAATCA
1 AAGTCTTTATTGCGTAAAATAAAAATCA
8567053 AAGTCTTTATTGCGTAAAATAAAAATCA
1 AAGTCTTTATTGCGTAAAATAAAAATCA
8567081 AA
1 AA
8567083 CGATAGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (28 bp):
AAGTCTTTATTGCGTAAAATAAAAATCA
Found at i:8569154 original size:666 final size:666
Alignment explanation
Indices: 8567883--8569215 Score: 2666
Period size: 666 Copynumber: 2.0 Consensus size: 666
8567873 CTTAATATAC
8567883 AAAATAGACAATTATATATACCAAACAAGTTAAGTTCACGTTACGATATTTAATTTCTTTCTTTC
1 AAAATAGACAATTATATATACCAAACAAGTTAAGTTCACGTTACGATATTTAATTTCTTTCTTTC
8567948 TTTTTTTTCAATGTGTCAGCTTCATTTTGGGGTCCATAATTCTAAAAAAAGTTTTGATCACTCTA
66 TTTTTTTTCAATGTGTCAGCTTCATTTTGGGGTCCATAATTCTAAAAAAAGTTTTGATCACTCTA
8568013 GGCCTCTCTCTATCTAGCCCTTTGTTAATTTTTGGAATTTTGTTAAGGTTCAAAGCAACCATTAT
131 GGCCTCTCTCTATCTAGCCCTTTGTTAATTTTTGGAATTTTGTTAAGGTTCAAAGCAACCATTAT
8568078 TTTCACACAAATCGTAATCATGACAAATACGTGGTTAAATAAATTAATGATGATTTATATATCCA
196 TTTCACACAAATCGTAATCATGACAAATACGTGGTTAAATAAATTAATGATGATTTATATATCCA
8568143 TGGCCCCCTCCACCCTATTATTATTTTTTATGATAGATAAGAATTTCCCCATACTCGTTAAATGG
261 TGGCCCCCTCCACCCTATTATTATTTTTTATGATAGATAAGAATTTCCCCATACTCGTTAAATGG
8568208 GACCAAAATAATCATTATTTACCTGAAATTTTACATTCTCCAAAATTGCATGCCTCCAAATGGTT
326 GACCAAAATAATCATTATTTACCTGAAATTTTACATTCTCCAAAATTGCATGCCTCCAAATGGTT
8568273 TGCTGATTCTATACTGTGAGCTTCATTACTTCAGTGTTACTAACTTATATATATAAATCAAATTC
391 TGCTGATTCTATACTGTGAGCTTCATTACTTCAGTGTTACTAACTTATATATATAAATCAAATTC
8568338 ATAATCGAGTTGGTTTATTAGAGTGGTCGGTAGCTTGCATTTTAGTTTTTGGACGTGTTGTAAGA
456 ATAATCGAGTTGGTTTATTAGAGTGGTCGGTAGCTTGCATTTTAGTTTTTGGACGTGTTGTAAGA
8568403 AAGAGAAAATAATAATGAAAAGAATCAAACCAAAAAAAGAAAGAAAGAAAAGGGATTCACTTTTG
521 AAGAGAAAATAATAATGAAAAGAATCAAACCAAAAAAAGAAAGAAAGAAAAGGGATTCACTTTTG
8568468 CAAGTTGGTAAGAGTTTTCGACAGTGTTTTCTTCTTGCTAAGCTGATGGTGTTTTGCGTTGGTGA
586 CAAGTTGGTAAGAGTTTTCGACAGTGTTTTCTTCTTGCTAAGCTGATGGTGTTTTGCGTTGGTGA
8568533 ATGTTTGATCCTGGAG
651 ATGTTTGATCCTGGAG
8568549 AAAATAGACAATTATATATACCAAACAAGTTAAGTTCACGTTACGATATTTAATTTCTTTCTTTC
1 AAAATAGACAATTATATATACCAAACAAGTTAAGTTCACGTTACGATATTTAATTTCTTTCTTTC
8568614 TTTTTTTTCAATGTGTCAGCTTCATTTTGGGGTCCATAATTCTAAAAAAAGTTTTGATCACTCTA
66 TTTTTTTTCAATGTGTCAGCTTCATTTTGGGGTCCATAATTCTAAAAAAAGTTTTGATCACTCTA
8568679 GGCCTCTCTCTATCTAGCCCTTTGTTAATTTTTGGAATTTTGTTAAGGTTCAAAGCAACCATTAT
131 GGCCTCTCTCTATCTAGCCCTTTGTTAATTTTTGGAATTTTGTTAAGGTTCAAAGCAACCATTAT
8568744 TTTCACACAAATCGTAATCATGACAAATACGTGGTTAAATAAATTAATGATGATTTATATATCCA
196 TTTCACACAAATCGTAATCATGACAAATACGTGGTTAAATAAATTAATGATGATTTATATATCCA
8568809 TGGCCCCCTCCACCCTATTATTATTTTTTATGATAGATAAGAATTTCCCCATACTCGTTAAATGG
261 TGGCCCCCTCCACCCTATTATTATTTTTTATGATAGATAAGAATTTCCCCATACTCGTTAAATGG
8568874 GACCAAAATAATCATTATTTACCTGAAATTTTACATTCTCCAAAATTGCATGCCTCCAAATGGTT
326 GACCAAAATAATCATTATTTACCTGAAATTTTACATTCTCCAAAATTGCATGCCTCCAAATGGTT
8568939 TGCTGATTCTATACTGTGAGCTTCATTACTTCAGTGTTACTAACTTATATATATAAATCAAATTC
391 TGCTGATTCTATACTGTGAGCTTCATTACTTCAGTGTTACTAACTTATATATATAAATCAAATTC
8569004 ATAATCGAGTTGGTTTATTAGAGTGGTCGGTAGCTTGCATTTTAGTTTTTGGACGTGTTGTAAGA
456 ATAATCGAGTTGGTTTATTAGAGTGGTCGGTAGCTTGCATTTTAGTTTTTGGACGTGTTGTAAGA
8569069 AAGAGAAAATAATAATGAAAAGAATCAAACCAAAAAAAGAAAGAAAGAAAAGGGATTCACTTTTG
521 AAGAGAAAATAATAATGAAAAGAATCAAACCAAAAAAAGAAAGAAAGAAAAGGGATTCACTTTTG
8569134 CAAGTTGGTAAGAGTTTTCGACAGTGTTTTCTTCTTGCTAAGCTGATGGTGTTTTGCGTTGGTGA
586 CAAGTTGGTAAGAGTTTTCGACAGTGTTTTCTTCTTGCTAAGCTGATGGTGTTTTGCGTTGGTGA
8569199 ATGTTTGATCCTGGAG
651 ATGTTTGATCCTGGAG
8569215 A
1 A
8569216 CGACTGGAAA
Statistics
Matches: 667, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
666 667 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (666 bp):
AAAATAGACAATTATATATACCAAACAAGTTAAGTTCACGTTACGATATTTAATTTCTTTCTTTC
TTTTTTTTCAATGTGTCAGCTTCATTTTGGGGTCCATAATTCTAAAAAAAGTTTTGATCACTCTA
GGCCTCTCTCTATCTAGCCCTTTGTTAATTTTTGGAATTTTGTTAAGGTTCAAAGCAACCATTAT
TTTCACACAAATCGTAATCATGACAAATACGTGGTTAAATAAATTAATGATGATTTATATATCCA
TGGCCCCCTCCACCCTATTATTATTTTTTATGATAGATAAGAATTTCCCCATACTCGTTAAATGG
GACCAAAATAATCATTATTTACCTGAAATTTTACATTCTCCAAAATTGCATGCCTCCAAATGGTT
TGCTGATTCTATACTGTGAGCTTCATTACTTCAGTGTTACTAACTTATATATATAAATCAAATTC
ATAATCGAGTTGGTTTATTAGAGTGGTCGGTAGCTTGCATTTTAGTTTTTGGACGTGTTGTAAGA
AAGAGAAAATAATAATGAAAAGAATCAAACCAAAAAAAGAAAGAAAGAAAAGGGATTCACTTTTG
CAAGTTGGTAAGAGTTTTCGACAGTGTTTTCTTCTTGCTAAGCTGATGGTGTTTTGCGTTGGTGA
ATGTTTGATCCTGGAG
Found at i:8574372 original size:7 final size:7
Alignment explanation
Indices: 8574360--8574392 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
8574350 AATACAAACA
8574360 ATTTAAT
1 ATTTAAT
8574367 ATTTAAT
1 ATTTAAT
8574374 ATTTAAT
1 ATTTAAT
8574381 ATTTAAT
1 ATTTAAT
8574388 -TTTAA
1 ATTTAA
8574393 ACTACTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:8589694 original size:10 final size:10
Alignment explanation
Indices: 8589681--8589708 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8589671 AGAATTTTTT
8589681 TTTAATTATC
1 TTTAATTATC
8589691 TTTAATTATC
1 TTTAATTATC
8589701 TTTAATTA
1 TTTAATTA
8589709 AATGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATTATC
Found at i:8595213 original size:24 final size:26
Alignment explanation
Indices: 8595174--8595228 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
8595164 ATTCCTTTTC
8595174 TTTTTGAGTTTCCTTCCTTTCGTTT-
1 TTTTTGAGTTTCCTTCCTTTCGTTTA
* * *
8595199 TTTTTGTGTTT-CTTCTTTTTGTTTA
1 TTTTTGAGTTTCCTTCCTTTCGTTTA
8595224 TTTTT
1 TTTTT
8595229 TTATTTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.73
Consensus pattern (26 bp):
TTTTTGAGTTTCCTTCCTTTCGTTTA
Found at i:8598988 original size:42 final size:42
Alignment explanation
Indices: 8598896--8599070 Score: 170
Period size: 42 Copynumber: 4.2 Consensus size: 42
8598886 CACACACACA
** * *
8598896 CATGTCCTTGCCCGTGTGGCTCACACGGCCTCTGCATACGTC
1 CATGTCCTTGCCCGTGTGGCTCACACGGCCTGGGCACACGCC
* * * * * *
8598938 TATATCCTTGCCCATATGGCTCAAACGGCCTGGGCACATGCC
1 CATGTCCTTGCCCGTGTGGCTCACACGGCCTGGGCACACGCC
* ** * * *
8598980 TATGTCCTTGCATGTGTGGCTCACACGGCCTAGACACATGCC
1 CATGTCCTTGCCCGTGTGGCTCACACGGCCTGGGCACACGCC
* * * *
8599022 CATGTCTTTGCTCGTGTGGCTCATACGGCTTGGGCACACGCC
1 CATGTCCTTGCCCGTGTGGCTCACACGGCCTGGGCACACGCC
8599064 CATGTCC
1 CATGTCC
8599071 CTGGCTGTGT
Statistics
Matches: 105, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 105 1.00
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (42 bp):
CATGTCCTTGCCCGTGTGGCTCACACGGCCTGGGCACACGCC
Found at i:8599977 original size:11 final size:11
Alignment explanation
Indices: 8599959--8599998 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8599949 ACAATAACAA
8599959 CAAAATAATAG
1 CAAAATAATAG
*
8599970 CAACATAATAG
1 CAAAATAATAG
* *
8599981 TAAAATGATAG
1 CAAAATAATAG
8599992 CAAAATA
1 CAAAATA
8599999 TGGAGAAAGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:8609479 original size:18 final size:18
Alignment explanation
Indices: 8609456--8609490 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8609446 ACTTCAAACA
*
8609456 TAATGTTTGGGTTTGGGT
1 TAATGTTTGAGTTTGGGT
8609474 TAATGTTTGAGTTTGGG
1 TAATGTTTGAGTTTGGG
8609491 GTTTCAGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (18 bp):
TAATGTTTGAGTTTGGGT
Found at i:8611014 original size:21 final size:21
Alignment explanation
Indices: 8610990--8611032 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8610980 TTTTTTTAAA
*
8610990 TCGAGTCAAATGAAATGAAAT
1 TCGAGTCAAATCAAATGAAAT
*
8611011 TCGAGTCGAATCAAATGAAAT
1 TCGAGTCAAATCAAATGAAAT
8611032 T
1 T
8611033 GTTAGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (21 bp):
TCGAGTCAAATCAAATGAAAT
Found at i:8614174 original size:2 final size:2
Alignment explanation
Indices: 8614169--8614194 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8614159 TCCTTTGCTT
8614169 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
8614195 ATATTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8618297 original size:22 final size:20
Alignment explanation
Indices: 8618263--8618303 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
8618253 TATATTTTTA
8618263 TAAAATTTAAAATATTAAAT
1 TAAAATTTAAAATATTAAAT
8618283 TAAAATTTTATAAATATTAAA
1 TAAAA-TTTA-AAATATTAAA
8618304 GGATCAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTTAAAATATTAAAT
Found at i:8619381 original size:22 final size:23
Alignment explanation
Indices: 8619356--8619399 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8619346 TCATCCTAAC
* *
8619356 TTTAG-AAGCAAATCATTATGAT
1 TTTAGTAAACAAAGCATTATGAT
8619378 TTTAGTAAACAAAGCATTATGA
1 TTTAGTAAACAAAGCATTATGA
8619400 AGTAGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (23 bp):
TTTAGTAAACAAAGCATTATGAT
Found at i:8621010 original size:22 final size:23
Alignment explanation
Indices: 8620985--8621028 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
8620975 GCAATCCACG
*
8620985 TATTGATGTTG-ATTTTTTTTTA
1 TATTGACGTTGTATTTTTTTTTA
* *
8621007 TATTTACGTTGTCTTTTTTTTT
1 TATTGACGTTGTATTTTTTTTT
8621029 TTTGGTTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.70
Consensus pattern (23 bp):
TATTGACGTTGTATTTTTTTTTA
Found at i:8623352 original size:20 final size:18
Alignment explanation
Indices: 8623317--8623362 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
8623307 AAAAAAAAAT
*
8623317 AAAAAGAGAGAAATAATGTA
1 AAAAAAAGA-AAATAAT-TA
8623337 AAAGAAAAGAAAATAATTA
1 AAA-AAAAGAAAATAATTA
8623356 AAAAAAA
1 AAAAAAA
8623363 TATCTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 10 0.42
21 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAAAAGAAAATAATTA
Found at i:8626016 original size:12 final size:12
Alignment explanation
Indices: 8625999--8626024 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8625989 CAATTCTAGG
8625999 TTTTGAAGTCTA
1 TTTTGAAGTCTA
8626011 TTTTGAAGTCTA
1 TTTTGAAGTCTA
8626023 TT
1 TT
8626025 CAATTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTTTGAAGTCTA
Found at i:8627394 original size:91 final size:89
Alignment explanation
Indices: 8627193--8627406 Score: 257
Period size: 92 Copynumber: 2.3 Consensus size: 89
8627183 AAGTTTGATG
* * *
8627193 CAAAAAGCCCTAAAACTTTTTAAAAAAAACAATTAAGCCCCTGCTTTTTTTTTTACACTCATTTG
1 CAAAAAGCCCTAAAACTTTTTAAAAAAAACAATAAAGCCCCTACTTTTTTTTTTACACTCAATTG
* *
8627258 GGTACTTGAACTTTCAAAATGCAT
66 GGTACTTGAACTTTCAAAATACAC
* * * ** * *
8627282 AAAAAATGCCCTCAAACCTTTTTAATAAAAACAATAAAGCCTTTAACTTTTTTTTTTGCATTCAA
1 CAAAAA-GCCCT-AAAACTTTTTAAAAAAAACAATAAAGCCCCT-ACTTTTTTTTTTACACTCAA
*
8627347 TTGGGTTCTTGAACTTTCAAAATACAC
63 TTGGGTACTTGAACTTTCAAAATACAC
*
8627374 CAAAAAGGCCCTTAAACTTTTTTAAAAAAAACA
1 CAAAAA-GCCCTAAAAC-TTTTTAAAAAAAACA
8627407 CAATTAGGCC
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
89 5 0.05
90 5 0.05
91 29 0.28
92 64 0.62
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (89 bp):
CAAAAAGCCCTAAAACTTTTTAAAAAAAACAATAAAGCCCCTACTTTTTTTTTTACACTCAATTG
GGTACTTGAACTTTCAAAATACAC
Found at i:8627561 original size:20 final size:20
Alignment explanation
Indices: 8627538--8627589 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
8627528 ATAAAATATA
*
8627538 TAAAATTCATAAAAAATTGT
1 TAAAATTCATAAAAAATAGT
*
8627558 TAAATTTCAT-AAAAATAGT
1 TAAAATTCATAAAAAATAGT
*
8627577 AAAAATT-ATAAAA
1 TAAAATTCATAAAA
8627590 TATATAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.07
19 16 0.59
20 9 0.33
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAATTCATAAAAAATAGT
Found at i:8627590 original size:28 final size:26
Alignment explanation
Indices: 8627522--8627625 Score: 77
Period size: 28 Copynumber: 3.8 Consensus size: 26
8627512 CAAATTTATT
* *
8627522 AAAAATATAAAATATATAAAAT-TCATA
1 AAAAATTTAAAATTTATAAAATAT-A-A
* *
8627549 AAAAATTGTTAAATTTCATAAAA-ATAGT
1 AAAAATT-TAAAATTT-ATAAAATATA-A
*
8627577 AAAAATTATAAAATATATAGAAATATAA
1 AAAAATT-TAAAATTTATA-AAATATAA
8627605 AAAAATTTAAAATTTTATAAA
1 AAAAATTTAAAA-TTTATAAA
8627626 GTTGTAAGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
27 16 0.26
28 35 0.57
29 10 0.16
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAAATTTAAAATTTATAAAATATAA
Found at i:8627600 original size:10 final size:9
Alignment explanation
Indices: 8627521--8627617 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
8627511 ACAAATTTAT
8627521 TAAAA-ATA
1 TAAAATATA
8627529 TAAAATATA
1 TAAAATATA
8627538 TAAAAT-TCA
1 TAAAATAT-A
* *
8627547 TAAAAAATTG
1 TAAAATA-TA
* *
8627557 TTAAATTTCA
1 TAAAATAT-A
8627567 TAAAA-ATA
1 TAAAATATA
8627575 GTAAAA-ATTA
1 -TAAAATA-TA
8627585 TAAAATATA
1 TAAAATATA
8627594 TAGAAATATA
1 TA-AAATATA
* *
8627604 -AAAAAATT
1 TAAAATATA
8627612 TAAAAT
1 TAAAAT
8627618 TTTATAAAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 19
0.69 0.11 0.19
Matches are distributed among these distances:
8 12 0.18
9 37 0.54
10 18 0.26
11 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAATATA
Found at i:8627642 original size:56 final size:56
Alignment explanation
Indices: 8627521--8627625 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
8627511 ACAAATTTAT
*
8627521 TAAAAA-TATAAAATATATAAAATTCATAAAAAATTGTTAAATTTCATAAAAATAG
1 TAAAAATTATAAAATATATAAAATTCATAAAAAATTGTAAAATTTCATAAAAATAG
*
8627576 TAAAAATTATAAAATATATAGAAA-T-ATAAAAAAATT-TAAAATTTTATAAA
1 TAAAAATTATAAAATATATA-AAATTCAT-AAAAAATTGTAAAATTTCATAAA
8627626 GTTGTAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
55 20 0.44
56 22 0.49
57 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (56 bp):
TAAAAATTATAAAATATATAAAATTCATAAAAAATTGTAAAATTTCATAAAAATAG
Found at i:8627818 original size:17 final size:17
Alignment explanation
Indices: 8627796--8627829 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8627786 GGGGTCGCTA
8627796 TTTTTTACAATTTTTAT
1 TTTTTTACAATTTTTAT
8627813 TTTTTTACAATTTTTAT
1 TTTTTTACAATTTTTAT
8627830 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTACAATTTTTAT
Found at i:8627893 original size:19 final size:20
Alignment explanation
Indices: 8627840--8627893 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
8627830 AAAAAATTAT
*
8627840 AATTTATTATATTTTTATTAA
1 AATTTATTAT-TTTTTACTAA
* *
8627861 AATTTAATAATTTTT-CTAA
1 AATTTATTATTTTTTACTAA
8627880 AATTTATTATTTTT
1 AATTTATTATTTTT
8627894 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 5 0.18
21 8 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTATTATTTTTTACTAA
Found at i:8627900 original size:9 final size:9
Alignment explanation
Indices: 8627797--8627903 Score: 56
Period size: 9 Copynumber: 11.7 Consensus size: 9
8627787 GGGTCGCTAT
*
8627797 TTTTTACAA
1 TTTTTATAA
*
8627806 TTTTTAT-T
1 TTTTTATAA
*
8627814 TTTTTACAA
1 TTTTTATAA
8627823 TTTTTATAAA
1 TTTTTAT-AA
***
8627833 AAATTATAA
1 TTTTTATAA
8627842 TTTATTAT-A
1 TTT-TTATAA
8627851 TTTTTATTAAA
1 TTTTTA-T-AA
* *
8627862 ATTTAATAA
1 TTTTTATAA
*
8627871 TTTTTCTAA
1 TTTTTATAA
** *
8627880 AATTTATTA
1 TTTTTATAA
8627889 TTTTTATAA
1 TTTTTATAA
8627898 TTTTTA
1 TTTTTA
8627904 ATTAGAGTAG
Statistics
Matches: 69, Mismatches: 23, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
8 9 0.13
9 44 0.64
10 11 0.16
11 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8627907 original size:19 final size:18
Alignment explanation
Indices: 8627849--8627897 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
8627839 TAATTTATTA
8627849 TATTTTTATTAAAATTTAAT
1 TATTTTTA-TAAAATTT-AT
* *
8627869 AATTTTTCTAAAATTTAT
1 TATTTTTATAAAATTTAT
8627887 TATTTTTATAA
1 TATTTTTATAA
8627898 TTTTTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 11 0.44
19 8 0.32
20 6 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTTATAAAATTTAT
Found at i:8628401 original size:30 final size:32
Alignment explanation
Indices: 8628365--8628427 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
8628355 GAAAAATTAC
* *
8628365 TAGAAAA-TTTCA-ATCATACTTTCTAAAAAT
1 TAGAAAATTTTCATATCAAACTTTCCAAAAAT
*
8628395 TAGAAAATTTTCATATTAAACTTTCCAAAAAT
1 TAGAAAATTTTCATATCAAACTTTCCAAAAAT
8628427 T
1 T
8628428 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.25
31 5 0.18
32 16 0.57
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (32 bp):
TAGAAAATTTTCATATCAAACTTTCCAAAAAT
Found at i:8630137 original size:30 final size:30
Alignment explanation
Indices: 8630101--8630161 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8630091 TATGGATATG
8630101 CATAGTCTTATTTCTTTGATTAACTTTCTT
1 CATAGTCTTATTTCTTTGATTAACTTTCTT
8630131 CATAGTCTTATTTCTTTGATTAACTTTCTT
1 CATAGTCTTATTTCTTTGATTAACTTTCTT
8630161 C
1 C
8630162 TTCTTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.56
Consensus pattern (30 bp):
CATAGTCTTATTTCTTTGATTAACTTTCTT
Found at i:8634565 original size:185 final size:185
Alignment explanation
Indices: 8634253--8634806 Score: 1056
Period size: 185 Copynumber: 3.0 Consensus size: 185
8634243 AATTTGAGTC
* *
8634253 GCGTTAAACGCATTTGTTGTTCACACTTTTTCTTGTTATTGTAATTAAAAAAAAATCATAGTAAA
1 GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAATTTAAAAAAAATCATAGTAAA
8634318 GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
66 GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
8634383 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGGATGGATTAATTTT
131 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGGATGGATTAATTTT
8634438 GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAATTTAAAAAAAATCATAGTAAA
1 GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAATTTAAAAAAAATCATAGTAAA
*
8634503 GTTTCTTTAGGAAAACGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
66 GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
*
8634568 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGAATGGATTAATTTT
131 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGGATGGATTAATTTT
8634623 GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAA-TTAAAAAAAATCATAGTAAA
1 GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAATTTAAAAAAAATCATAGTAAA
8634687 GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
66 GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
*
8634752 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAATTGGTTGGATGGATTAATTTT
131 CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGGATGGATTAATTTT
8634807 CTTACCGATT
Statistics
Matches: 362, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
184 137 0.38
185 225 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (185 bp):
GCGTTAAACGCATTTGTTGTTCACACTTTTCCTTGTTATTGTAATTTAAAAAAAATCATAGTAAA
GTTTCTTTAGGAAAAGGAATAGTCCAAACAACCATAGTTTATATTGATGAGCTCTAGTCCTTTAG
CATTAACAGTAAGGGGAGGAATCGGTTGAAACAGTTGGTTGGATGGATTAATTTT
Found at i:8635472 original size:24 final size:24
Alignment explanation
Indices: 8635440--8635489 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8635430 CTAATTCTCC
8635440 TTCTCTTTTACAATTC-GATTTTTT
1 TTCTCTTTTACAATTCAG-TTTTTT
* *
8635464 TTCTCTTTTCCAGTTCAGTTTTTT
1 TTCTCTTTTACAATTCAGTTTTTT
8635488 TT
1 TT
8635490 ATGAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.64
Consensus pattern (24 bp):
TTCTCTTTTACAATTCAGTTTTTT
Found at i:8649081 original size:14 final size:14
Alignment explanation
Indices: 8649064--8649090 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8649054 TTTCAAAACA
8649064 ATAATTAAGAATAT
1 ATAATTAAGAATAT
8649078 ATAATTAAGAATA
1 ATAATTAAGAATA
8649091 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATAATTAAGAATAT
Found at i:8655287 original size:22 final size:22
Alignment explanation
Indices: 8655248--8655289 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8655238 GGTAAGCTCA
8655248 TATGACAAATTTAATGTTTTGT
1 TATGACAAATTTAATGTTTTGT
*
8655270 TATGA-AAATATTATTGTTTT
1 TATGACAAAT-TTAATGTTTT
8655290 TAAGTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (22 bp):
TATGACAAATTTAATGTTTTGT
Found at i:8655481 original size:52 final size:51
Alignment explanation
Indices: 8655423--8655575 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 51
8655413 GATGGAAATG
* *
8655423 ATGTGATATGTGCTTCTGTATAAGACCATAGCTGGGCTATGGCATTGGTACA
1 ATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * ***
8655475 ATGTGAT-TCGAGTTCCCGTATAAGACCATAGCTGGGCTATGACATCGGTGTG
1 ATGTGATAT-GTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
8655527 ATGTGATAATGTGATTCCATATAAGACCATATCTGGGATATGGCATCGG
1 ATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
8655576 CATGTTATGT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 3 0.04
52 47 0.56
53 31 0.37
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:8655632 original size:46 final size:47
Alignment explanation
Indices: 8655493--8655632 Score: 106
Period size: 46 Copynumber: 2.9 Consensus size: 47
8655483 CGAGTTCCCG
* * *
8655493 TATAAGACCATAGCTGGGCTATGACATCGGTGTGATGTGATAATGTGATTCCA
1 TATAAGACCATAGCAGGGATATGGCATC----TGATGTG-T-ATGTGATTCCA
* * *
8655546 TATAAGACCATATCTGGGATATGGCATCGGCATGT-TATGTGA-TCCA
1 TATAAGACCATAGCAGGGATATGGCATCTG-ATGTGTATGTGATTCCA
* * *
8655592 TGTAAGACCATGGCAGGGATATGGC-TTTGATGTGTGATGTG
1 TATAAGACCATAGCAGGGATATGGCATCTGATGTGT-ATGTG
8655633 TGACAATGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
44 4 0.05
45 3 0.04
46 30 0.41
47 6 0.08
48 1 0.01
49 1 0.01
50 4 0.05
53 25 0.34
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (47 bp):
TATAAGACCATAGCAGGGATATGGCATCTGATGTGTATGTGATTCCA
Found at i:8662917 original size:53 final size:52
Alignment explanation
Indices: 8662776--8662976 Score: 193
Period size: 52 Copynumber: 4.0 Consensus size: 52
8662766 TGACGGAAAA
* * *
8662776 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGACTATGGCATTGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * **
8662828 AATGTGAT-T-CGAGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* *
8662880 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGG--C
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * *
8662931 -ATGT--TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
8662977 GTGTGATGTG
Statistics
Matches: 123, Mismatches: 20, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
46 28 0.23
47 6 0.05
48 1 0.01
50 5 0.04
51 3 0.02
52 45 0.37
53 30 0.24
54 3 0.02
55 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:8662986 original size:46 final size:47
Alignment explanation
Indices: 8662784--8662986 Score: 124
Period size: 46 Copynumber: 4.1 Consensus size: 47
8662774 AAGATGTGAT
* * *
8662784 ATGTGCTTCCGTATAAGACCATAGC-TGGACTATGGCATTGGTACAATGTG
1 ATGTGATTCCGTATAAGACCATAGCAGGGA-TATGGCATCGG--C-ATGTG
* * * *
8662834 AT-TCGAGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTG
1 ATGT-GA-TT-CCGTATAAGACCATAGCAGGGATATGGCATC-G-G-CATGTG
* * *
8662886 ATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGCATGTT
1 ---ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGCATGTG
* * * * **
8662936 ATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTG
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGCATGTG
8662982 ATGTG
1 ATGTG
8662987 TGACAATGTG
Statistics
Matches: 122, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
46 36 0.30
47 6 0.05
49 1 0.01
50 7 0.06
51 3 0.02
52 30 0.25
53 31 0.25
54 3 0.02
55 4 0.03
56 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGCATGTG
Found at i:8663748 original size:20 final size:20
Alignment explanation
Indices: 8663723--8663776 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
8663713 CGCCCATGGG
*
8663723 CAGGCCACATGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
8663743 CAGGCCACACAGGCATGTCC
1 CAGGCCACACGGGCATGTCC
8663763 CAGGCCACACGGGC
1 CAGGCCACACGGGC
8663777 GTGTGCCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.39, G:0.30, T:0.09
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:8671656 original size:20 final size:21
Alignment explanation
Indices: 8671606--8671657 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
8671596 AGCCACCCTC
8671606 TTTCTCCTTCTTTTTCTTCACT
1 TTTC-CCTTCTTTTTCTTCACT
* **
8671628 TTT-CTTTCTTTTT-TTCTTT
1 TTTCCCTTCTTTTTCTTCACT
8671647 TTTCCCTTCTT
1 TTTCCCTTCTT
8671658 CTTCCCACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.28
20 15 0.60
22 3 0.12
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTCCCTTCTTTTTCTTCACT
Found at i:8673465 original size:24 final size:23
Alignment explanation
Indices: 8673421--8673483 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
8673411 TTTCGATTTG
* *
8673421 TTTTTCTTTTTCTTTTATTTTTA
1 TTTTTATTTTTCATTTATTTTTA
* *
8673444 TTTTTATTTTTGCATTTCTTTTTG
1 TTTTTATTTTT-CATTTATTTTTA
* *
8673468 TCTTTATTTATCATTT
1 TTTTTATTTTTCATTT
8673484 TCTTAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.11, C:0.10, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTTATTTTTCATTTATTTTTA
Found at i:8677402 original size:7 final size:7
Alignment explanation
Indices: 8677390--8677414 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8677380 TCCACCTAAA
8677390 TCCACTT
1 TCCACTT
8677397 TCCACTT
1 TCCACTT
8677404 TCCACTT
1 TCCACTT
8677411 TCCA
1 TCCA
8677415 TCCCTCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (7 bp):
TCCACTT
Found at i:8681896 original size:39 final size:39
Alignment explanation
Indices: 8681812--8681934 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
8681802 ATTTGATGTG
* *
8681812 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAATTA
8681851 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGG-ATATA
1 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAT-TA
* * * * * * * *
8681890 TGTCCGGGCTAAAGTTCCGCAGGCTTCGAGCTGGTATTA
1 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAATTA
8681929 TA-CCGG
1 TATCCGG
8681935 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 6 0.08
39 64 0.89
40 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAATTA
Found at i:8686738 original size:26 final size:25
Alignment explanation
Indices: 8686708--8686756 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8686698 AATATTTTTT
8686708 TATATAAAATTAAATTAAAAATATAA
1 TATATAAAA-TAAATTAAAAATATAA
* *
8686734 TATATCAAATACATTAAAAATAT
1 TATATAAAATAAATTAAAAATAT
8686757 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAAAATAAATTAAAAATATAA
Found at i:8699289 original size:16 final size:16
Alignment explanation
Indices: 8699268--8699319 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
8699258 TTTGGTTCGC
8699268 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8699284 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
8699300 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
8699316 TGTA
1 TGTA
8699320 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8699405 original size:39 final size:43
Alignment explanation
Indices: 8699300--8699409 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
8699290 GGATTAGAGG
8699300 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
8699345 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
8699385 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
8699410 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:8699573 original size:16 final size:15
Alignment explanation
Indices: 8699543--8699579 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8699533 TTTTAACATA
*
8699543 ATTATTATTAAATAT
1 ATTATAATTAAATAT
8699558 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
8699572 A-TATAATT
1 ATTATAATT
8699580 TTATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:8699894 original size:24 final size:27
Alignment explanation
Indices: 8699843--8699895 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
8699833 TATATGTAAT
*
8699843 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
8699870 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
8699894 AT
1 AT
8699896 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:8704889 original size:3 final size:3
Alignment explanation
Indices: 8704804--8704878 Score: 55
Period size: 3 Copynumber: 24.3 Consensus size: 3
8704794 TAATGAACAC
* *
8704804 AAT AAT AAT AAAT AAT AAT AAC AAT AAT AA- AA- AAT ATT CAATT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT
* * *
8704850 AAT ACT ATAT GAT AAT AAT GAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT A
8704879 GTGAAATAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.07
3 45 0.79
4 7 0.12
5 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8705022 original size:3 final size:3
Alignment explanation
Indices: 8705009--8705037 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8704999 CTAAATGACT
8705009 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8705038 TCTAATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8706326 original size:3 final size:3
Alignment explanation
Indices: 8706318--8706352 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8706308 TATGGTTTTA
* *
8706318 TAT TAT TAT TAT TAT TAG TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8706353 AATGAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8707667 original size:23 final size:23
Alignment explanation
Indices: 8707613--8707673 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
8707603 ACACATAAAA
8707613 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
8707634 GTGTCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
8707655 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
8707674 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
23 10 0.29
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:8707681 original size:23 final size:23
Alignment explanation
Indices: 8707597--8707685 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 23
8707587 ACCTGATCAG
*
8707597 AATACGACACATAAAAGTGCCT-A
1 AATACGACACA-CAAAGTGCCTGA
* * *
8707620 AA-ACGACACACGAGGTGTCTG-
1 AATACGACACACAAAGTGCCTGA
* *
8707641 -ATACGACACACGAGGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
*
8707663 AATACGACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
8707686 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 24 0.44
22 8 0.15
23 21 0.39
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:8709563 original size:3 final size:3
Alignment explanation
Indices: 8709555--8709592 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8709545 TTACTTCATT
* *
8709555 TAA TAA TAA TAA TAA CAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8709593 TAAAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8709633 original size:13 final size:12
Alignment explanation
Indices: 8709616--8709649 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
8709606 ATGGTTTATA
8709616 ATTATATATAAT
1 ATTATATATAAT
8709628 ATT-TATATAAT
1 ATTATATATAAT
8709639 ATTTATATATA
1 A-TTATATATA
8709650 TAACCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 5 0.25
13 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATATATAAT
Found at i:8709636 original size:11 final size:11
Alignment explanation
Indices: 8709620--8709647 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8709610 TTTATAATTA
8709620 TATATAATATT
1 TATATAATATT
8709631 TATATAATATT
1 TATATAATATT
8709642 TATATA
1 TATATA
8709648 TATAACCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATAATATT
Found at i:8718321 original size:21 final size:21
Alignment explanation
Indices: 8718291--8718341 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8718281 AAGAGTTATT
*
8718291 TTTTTTAAATTT-TTAATATA
1 TTTTTAAAATTTATTAATATA
**
8718311 TATTTTAAAATTTATTGTTATA
1 T-TTTTAAAATTTATTAATATA
8718333 TTTTTAAAA
1 TTTTTAAAA
8718342 ATATTTATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAAAATTTATTAATATA
Found at i:8718346 original size:20 final size:22
Alignment explanation
Indices: 8718307--8718346 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8718297 AAATTTTTAA
*
8718307 TATATATTTTAAAATTTATTGT
1 TATATATTTTAAAATATATTGT
8718329 TATAT-TTTTAAAA-ATATT
1 TATATATTTTAAAATATATT
8718347 TATGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TATATATTTTAAAATATATTGT
Found at i:8718737 original size:6 final size:6
Alignment explanation
Indices: 8718726--8718752 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8718716 AAGTATAGGC
8718726 CCCCCT CCCCCT CCCCCT CCCCCT CCC
1 CCCCCT CCCCCT CCCCCT CCCCCT CCC
8718753 AGTCCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCCCT
Found at i:8719002 original size:37 final size:37
Alignment explanation
Indices: 8718952--8719025 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
8718942 TTGGAGTGTA
*
8718952 CCACTTTTGCAAGTAACATCTATCTACCAAAATCATC
1 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
8718989 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
1 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
8719026 AACATGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (37 bp):
CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
Found at i:8721906 original size:46 final size:46
Alignment explanation
Indices: 8721839--8721958 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
8721829 TGTAACCCAC
*
8721839 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTGCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTGCGCAT
*
8721885 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTGCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTGCGCAT
8721931 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
8721959 AAGTTCGGAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTGCGCAT
Found at i:8724084 original size:30 final size:30
Alignment explanation
Indices: 8724048--8724107 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8724038 CAGTTTGGAA
8724048 ACAACCTGGGATCAAATCGAATACTAAAAT
1 ACAACCTGGGATCAAATCGAATACTAAAAT
8724078 ACAACCTGGGATCAAATCGAATACTAAAAT
1 ACAACCTGGGATCAAATCGAATACTAAAAT
8724108 CATTCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (30 bp):
ACAACCTGGGATCAAATCGAATACTAAAAT
Found at i:8724886 original size:72 final size:71
Alignment explanation
Indices: 8724800--8724932 Score: 194
Period size: 72 Copynumber: 1.9 Consensus size: 71
8724790 CATGATTCCC
* * * *
8724800 TTTTCAACACATCATTTTCATTTGTCATCCTTTTCGAATAACATCCTTTTCAACCTTTTCATTTG
1 TTTTCAACACATCATTTCCATGTGTCATCCCTTGCGAATAACATCCTTTTCAACCTTTTCATTTG
8724865 ATATCT
66 ATATCT
* * *
8724871 TTTTCAAATACATCATTTCCATGTGTTATCCCTTGCGAATAACTTCCTTTTCAACCTTTTCA
1 TTTTC-AACACATCATTTCCATGTGTCATCCCTTGCGAATAACATCCTTTTCAACCTTTTCA
8724933 AGGATTCGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
71 5 0.09
72 49 0.91
ACGTcount: A:0.24, C:0.25, G:0.05, T:0.46
Consensus pattern (71 bp):
TTTTCAACACATCATTTCCATGTGTCATCCCTTGCGAATAACATCCTTTTCAACCTTTTCATTTG
ATATCT
Found at i:8725887 original size:21 final size:20
Alignment explanation
Indices: 8725847--8725896 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
8725837 AGTACTAAAA
*
8725847 AGTACCAAAAATTATAAGGG
1 AGTACCAAAAACTATAAGGG
*
8725867 AGTACCTAAAAACTATTAGGG
1 AGTACC-AAAAACTATAAGGG
8725888 AGTA-CAAAA
1 AGTACCAAAA
8725897 GAAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 16 0.59
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (20 bp):
AGTACCAAAAACTATAAGGG
Found at i:8725963 original size:20 final size:20
Alignment explanation
Indices: 8725938--8726005 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
8725928 GAATACCCAA
8725938 AAAAAAATATGAAGAAGTAT
1 AAAAAAATATGAAGAAGTAT
* *
8725958 AAAAAATTAT-AAGAAAGTACC
1 AAAAAAATATGAAG-AAGTA-T
* *
8725979 AAAAAAATACGAGGGAA-TAT
1 AAAAAAATATGA-AGAAGTAT
8725999 AAAAAAA
1 AAAAAAA
8726006 ATCAGATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.08
20 21 0.55
21 10 0.26
22 3 0.08
23 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.16
Consensus pattern (20 bp):
AAAAAAATATGAAGAAGTAT
Found at i:8725963 original size:21 final size:21
Alignment explanation
Indices: 8725937--8726024 Score: 58
Period size: 21 Copynumber: 4.2 Consensus size: 21
8725927 GGAATACCCA
8725937 AAAAAAAATATGAAGAAGTA-
1 AAAAAAAATATGAAGAAGTAC
* *
8725957 TAAAAAATTAT-AAGAAAGTAC
1 AAAAAAAATATGAAG-AAGTAC
* * * *
8725978 CAAAAAAATACGAGGGAA-TAT
1 AAAAAAAATATGA-AGAAGTAC
*
8725999 AAAAAAAATCA-GATGAAGTAC
1 AAAAAAAAT-ATGAAGAAGTAC
8726020 AAAAA
1 AAAAA
8726025 GTTATGATGG
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
19 3 0.06
20 17 0.33
21 27 0.52
22 4 0.08
23 1 0.02
ACGTcount: A:0.65, C:0.06, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAAAAAATATGAAGAAGTAC
Found at i:8727557 original size:40 final size:40
Alignment explanation
Indices: 8727513--8727596 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
8727503 TGAAAGAGGA
8727513 TAGTTTTTTTTTTCTTCTTATTATAATATCTCACATGGGT
1 TAGTTTTTTTTTTCTTCTTATTATAATATCTCACATGGGT
8727553 TAGTTTTTTTTTTCTTCTTATTATAATATCTCACATGGGT
1 TAGTTTTTTTTTTCTTCTTATTATAATATCTCACATGGGT
8727593 TAGT
1 TAGT
8727597 CGATCGGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.57
Consensus pattern (40 bp):
TAGTTTTTTTTTTCTTCTTATTATAATATCTCACATGGGT
Found at i:8739128 original size:28 final size:28
Alignment explanation
Indices: 8739088--8739176 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
8739078 ACTGGTGACA
*
8739088 ACACGGGCGTGTCTAGGCCGTGTGCGGG
1 ACACGAGCGTGTCTAGGCCGTGTGCGGG
8739116 ACACGAGCGTGTCTAGGCCGTGTGCGGG
1 ACACGAGCGTGTCTAGGCCGTGTGCGGG
*
8739144 ACACGAGCGTGTCTAGGCCGTGTGAGGG
1 ACACGAGCGTGTCTAGGCCGTGTGCGGG
8739172 ACACG
1 ACACG
8739177 GGCCAGGGAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.17
Consensus pattern (28 bp):
ACACGAGCGTGTCTAGGCCGTGTGCGGG
Found at i:8740862 original size:63 final size:63
Alignment explanation
Indices: 8740782--8740904 Score: 183
Period size: 63 Copynumber: 2.0 Consensus size: 63
8740772 GTAGAGATCA
* * *
8740782 ATATGTATATCCAATCCAAATCGTATTGTAAAAATTTCATAGCTACTACAACATGATATTCGT
1 ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATTCGT
* * * *
8740845 ATATATATATCCGATCCAAATCGTTTTATAAAAGTTCCATAGCTACTACAATATGATATT
1 ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATT
8740905 GGTACCATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (63 bp):
ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATTCGT
Found at i:8743889 original size:25 final size:24
Alignment explanation
Indices: 8743860--8743926 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
8743850 AAATAAAAAA
8743860 ATTTAAAAT-ATAATAAATCAAATAC
1 ATTTAAAATCATAA-AAA-CAAATAC
8743885 ATTTAAAATCATAAAAACAAAT--
1 ATTTAAAATCATAAAAACAAATAC
8743907 A-TTAAAA-CA-AAAAACAAATA
1 ATTTAAAATCATAAAAACAAATA
8743927 AAAAATGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.25
20 2 0.05
21 6 0.15
22 1 0.03
24 5 0.12
25 12 0.30
26 4 0.10
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (24 bp):
ATTTAAAATCATAAAAACAAATAC
Found at i:8743921 original size:19 final size:21
Alignment explanation
Indices: 8743854--8743926 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 21
8743844 TTTATTAAAT
8743854 AAAA-AAAT-TTAAAAT-ATA
1 AAAACAAATATTAAAATCATA
8743872 ATAAATCAAATACATTTAAAATCATA
1 A-AAA-CAAAT--A-TTAAAATCATA
8743898 AAAACAAATATTAAAA-CA-A
1 AAAACAAATATTAAAATCATA
8743917 AAAACAAATA
1 AAAACAAATA
8743927 AAAAATGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 2 0.04
21 10 0.21
22 1 0.02
24 5 0.11
25 10 0.21
26 4 0.09
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAACAAATATTAAAATCATA
Found at i:8745422 original size:3 final size:3
Alignment explanation
Indices: 8745407--8745451 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
8745397 CCATTTTTTC
*
8745407 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8745452 CTCTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:8745517 original size:21 final size:21
Alignment explanation
Indices: 8745491--8745530 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8745481 ACGTGGCAAG
*
8745491 TTAACTGGCCATATCAGCTAA
1 TTAACTGGCCACATCAGCTAA
*
8745512 TTAACTTGCCACATCAGCT
1 TTAACTGGCCACATCAGCT
8745531 GTCCCGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
TTAACTGGCCACATCAGCTAA
Found at i:8749843 original size:81 final size:81
Alignment explanation
Indices: 8749755--8749996 Score: 385
Period size: 81 Copynumber: 3.0 Consensus size: 81
8749745 CTTCTAGAGG
* * * * *
8749755 TGGTACTGATTTATCTCCTCCTTGGAAGCGGAGGGTTAGGAATGGCACACCCTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
8749820 TAGTAAACAGAGCAGA
66 TAGTAAACAGAGCAGA
**
8749836 TGGTACTGATTTATCTCCTCCTAGGAAACATAGGGTTCGGAATGACACACCTTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
* *
8749901 TAGTAAACCGAACAGA
66 TAGTAAACAGAGCAGA
*
8749917 TGGTACTGATTTATCTCCTCCAAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
*
8749982 TAGCAAACAGAGCAG
66 TAGTAAACAGAGCAG
8749997 GTGCTGATCT
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (81 bp):
TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
TAGTAAACAGAGCAGA
Found at i:8762226 original size:30 final size:30
Alignment explanation
Indices: 8762192--8762251 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
8762182 TTTACAAACC
8762192 TATAAATAAACATAGTCTATTCCTCTTGTA
1 TATAAATAAACATAGTCTATTCCTCTTGTA
*
8762222 TATAAATAGACATAGTCTATTCCTCTTGTA
1 TATAAATAAACATAGTCTATTCCTCTTGTA
8762252 AAAAAAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (30 bp):
TATAAATAAACATAGTCTATTCCTCTTGTA
Found at i:8764029 original size:21 final size:21
Alignment explanation
Indices: 8764005--8764045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8763995 AACATTAAAT
*
8764005 TAATTTTAATTAATCATATTC
1 TAATTCTAATTAATCATATTC
*
8764026 TAATTCTAATTAATCTTATT
1 TAATTCTAATTAATCATATT
8764046 TTACTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTCTAATTAATCATATTC
Found at i:8766144 original size:80 final size:81
Alignment explanation
Indices: 8765989--8766146 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 81
8765979 TATATCTTGA
*
8765989 TTAATTAAACTTTTATCCAATAAACTTGTCATATATGTATTATCCTCATAGGATATTCATGATCC
1 TTAATTAAAC-TTTATCCAATAAACTTGTCATATATGTATTACCCTCATAGGATATTCATGATCC
*
8766054 ATTTAGGTTAAATCTAC
65 ATTTAAGTTAAATCTAC
* * * *
8766071 TTAATTAAA-TTTATCCAATGAACTTGTCATATGTGTATTACCCTCATAGGATATTCATGGTCCC
1 TTAATTAAACTTTATCCAATAAACTTGTCATATATGTATTACCCTCATAGGATATTCATGATCCA
8766135 TTTAAGTTAAAT
66 TTTAAGTTAAAT
8766147 ATTACCTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 61 0.87
82 9 0.13
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (81 bp):
TTAATTAAACTTTATCCAATAAACTTGTCATATATGTATTACCCTCATAGGATATTCATGATCCA
TTTAAGTTAAATCTAC
Found at i:8766965 original size:18 final size:18
Alignment explanation
Indices: 8766939--8766980 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
8766929 AGAATTAAAC
*
8766939 TATTATTAATATATGAGA
1 TATTCTTAATATATGAGA
8766957 TATTCTTAATATATGAGA
1 TATTCTTAATATATGAGA
8766975 TATTCT
1 TATTCT
8766981 ATGTAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (18 bp):
TATTCTTAATATATGAGA
Found at i:8767821 original size:6 final size:6
Alignment explanation
Indices: 8767801--8767843 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
8767791 GATGGGTGAG
*
8767801 AAAAAT -AAAAT -AAAAT AAAAAT AAAGAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
8767844 GAACACACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:8767835 original size:18 final size:17
Alignment explanation
Indices: 8767801--8767845 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
8767791 GATGGGTGAG
8767801 AAAAATAAA-ATAAAAT
1 AAAAATAAAGATAAAAT
8767817 AAAAATAAAGATAAAAAT
1 AAAAATAAAGAT-AAAAT
8767835 AAAAATAAAGA
1 AAAAATAAAGA
8767846 ACACACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.33
17 2 0.07
18 16 0.59
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAAATAAAGATAAAAT
Found at i:8777265 original size:20 final size:21
Alignment explanation
Indices: 8777228--8777287 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
8777218 TTAATTAGGA
8777228 ATAAAAT-A-ATAA-TTTATT
1 ATAAAATAATATAATTTTATT
* *
8777246 ATCACATAAT-TAATTTTATT
1 ATAAAATAATATAATTTTATT
8777266 -TAAAATAATATAATTTTATT
1 ATAAAATAATATAATTTTATT
8777286 AT
1 AT
8777288 TTATCTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 5 0.15
19 11 0.33
20 16 0.48
21 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATAATATAATTTTATT
Found at i:8783320 original size:5 final size:5
Alignment explanation
Indices: 8783310--8783343 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
8783300 CTAATTTGTG
8783310 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA
8783344 GAACACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8783331 original size:16 final size:16
Alignment explanation
Indices: 8783310--8783343 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
8783300 CTAATTTGTG
8783310 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
8783326 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
8783342 AA
1 AA
8783344 GAACACAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:8789448 original size:42 final size:42
Alignment explanation
Indices: 8789401--8789486 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
8789391 CCCTGTAAAA
8789401 CGATGTTGTTTAGGGGCTGATTCCAATAGCCCAAAACGGCAT
1 CGATGTTGTTTAGGGGCTGATTCCAATAGCCCAAAACGGCAT
8789443 CGATGTTGTTTAGGGGCTGATTCCAATAGCCCAAAACGGCAT
1 CGATGTTGTTTAGGGGCTGATTCCAATAGCCCAAAACGGCAT
8789485 CG
1 CG
8789487 TTTTGGCCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
CGATGTTGTTTAGGGGCTGATTCCAATAGCCCAAAACGGCAT
Found at i:8790075 original size:3 final size:3
Alignment explanation
Indices: 8790029--8790056 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8790019 ACTTTAGATT
8790029 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8790057 GTTTTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8791711 original size:59 final size:57
Alignment explanation
Indices: 8791635--8791760 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 57
8791625 ATTTGTTATT
* * * * *
8791635 AATTTTTTTGTCTCAATTT-GATATCTGAACTTGACCCTTTTTTTCTAATTTGGTACCTA
1 AATTTTTTTGGCTCAATTTAG-TACCTAAACTTG--CCATTTTTTCTAATTTGATACCTA
*
8791694 AATTTTTTTGGGC-CAATTTAGTACCTAAACTTGGCATTTTTTCTAATTTGATACCTA
1 AATTTTTTT-GGCTCAATTTAGTACCTAAACTTGCCATTTTTTCTAATTTGATACCTA
8791751 AGATTTTTTT
1 A-ATTTTTTT
8791761 TAAGTTCAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
57 22 0.38
58 8 0.14
59 25 0.43
60 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (57 bp):
AATTTTTTTGGCTCAATTTAGTACCTAAACTTGCCATTTTTTCTAATTTGATACCTA
Found at i:8792005 original size:24 final size:24
Alignment explanation
Indices: 8791963--8792008 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8791953 TTCAATTAAT
*
8791963 AAAATAATTAAATAAATAAAATTA
1 AAAATAATTAAACAAATAAAATTA
* *
8791987 AAAATAATTGAACATATAAAAT
1 AAAATAATTAAACAAATAAAAT
8792009 ACCAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAATTAAACAAATAAAATTA
Found at i:8793562 original size:29 final size:31
Alignment explanation
Indices: 8793516--8793586 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
8793506 TTCGTCCTTC
8793516 TTTTTT-CGTTTTTAACAT-ATGGCCCAATAT
1 TTTTTTAC-TTTTTAACATAATGGCCCAATAT
8793546 TTTTTTACTTTTT-ACATAAATGGCCCAATAT
1 TTTTTTACTTTTTAACAT-AATGGCCCAATAT
* *
8793577 GTTTATACTT
1 TTTTTTACTT
8793587 CTTCTTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 4 0.11
30 11 0.31
31 21 0.58
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.51
Consensus pattern (31 bp):
TTTTTTACTTTTTAACATAATGGCCCAATAT
Found at i:8794302 original size:3 final size:3
Alignment explanation
Indices: 8794294--8794331 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
8794284 GGAAATTTTC
*
8794294 TCT TCT TCT TC- TCT TCC TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8794332 CGTATGCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:8794315 original size:17 final size:18
Alignment explanation
Indices: 8794293--8794327 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
8794283 TGGAAATTTT
8794293 CTCTTCTTCTTC-TCTTC
1 CTCTTCTTCTTCTTCTTC
8794310 CTCTTCTTCTTCTTCTTC
1 CTCTTCTTCTTCTTCTTC
8794328 TTCTCGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (18 bp):
CTCTTCTTCTTCTTCTTC
Found at i:8794341 original size:26 final size:26
Alignment explanation
Indices: 8794294--8794343 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8794284 GGAAATTTTC
* *
8794294 TCTTCTTCTTCTCTTCCTCTTCTTCT
1 TCTTCTTCTTCTCGTCATCTTCTTCT
8794320 TCTTCTTCTTCTCGT-ATGCTTCTT
1 TCTTCTTCTTCTCGTCAT-CTTCTT
8794344 TTTTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.02, C:0.34, G:0.04, T:0.60
Consensus pattern (26 bp):
TCTTCTTCTTCTCGTCATCTTCTTCT
Found at i:8795267 original size:60 final size:60
Alignment explanation
Indices: 8795174--8795293 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
8795164 ATTTGTCATC
8795174 GATGCATTACCATTAGGCCCCTATTCAGGAAAGAAACAACCTTGAACATTAAAGCTGCTA
1 GATGCATTACCATTAGGCCCCTATTCAGGAAAGAAACAACCTTGAACATTAAAGCTGCTA
8795234 GATGCATTACCATTAGGCCCCTATTCAGGAAAGAAACAACCTTGAACATTAAAGCTGCTA
1 GATGCATTACCATTAGGCCCCTATTCAGGAAAGAAACAACCTTGAACATTAAAGCTGCTA
8795294 CAAGCAAGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (60 bp):
GATGCATTACCATTAGGCCCCTATTCAGGAAAGAAACAACCTTGAACATTAAAGCTGCTA
Found at i:8798986 original size:18 final size:21
Alignment explanation
Indices: 8798946--8798993 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
8798936 GAGCAAAATA
*
8798946 ATAATAAAATAAAATAACTAC
1 ATAATAAAATAAAATAACAAC
8798967 ATAA-AAAAT-AAATAA-AAC
1 ATAATAAAATAAAATAACAAC
8798985 ATAGATAAA
1 ATA-ATAAA
8798994 GCTTGAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 8 0.33
21 4 0.17
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (21 bp):
ATAATAAAATAAAATAACAAC
Found at i:8799457 original size:13 final size:13
Alignment explanation
Indices: 8799439--8799466 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8799429 ACAAAATATA
8799439 AAGGATTAAATCT
1 AAGGATTAAATCT
8799452 AAGGATTAAATCT
1 AAGGATTAAATCT
8799465 AA
1 AA
8799467 ATAAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (13 bp):
AAGGATTAAATCT
Found at i:8800911 original size:44 final size:43
Alignment explanation
Indices: 8800863--8801050 Score: 232
Period size: 44 Copynumber: 4.3 Consensus size: 43
8800853 AACTTTAGCA
*
8800863 AGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCATGG
1 AGATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTCA-GG
* * *
8800907 AGATAAGATTTGTAGCTTCAATTCGCTCCACTGCAATTTCAAGG
1 AGATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTC-AGG
* * * *
8800951 AGATAAGTTTTGTAGCTTTAATTTGCTTCACTGTAATTTCAGGG
1 AGATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTCA-GG
* * * *
8800995 AGATATGATTTGTAGCTTTAATTTGCTCCATTACATCTTCAGTG
1 AGATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTCAG-G
8801039 AGATAAGATTTG
1 AGATAAGATTTG
8801051 CTATGGTAGA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.02
44 120 0.98
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (43 bp):
AGATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTCAGG
Found at i:8801089 original size:22 final size:22
Alignment explanation
Indices: 8801061--8801106 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8801051 CTATGGTAGA
*
8801061 TTCAATCCATCCCACTACGGCT
1 TTCAATCCATCCCACTACGACT
8801083 TTCAATCCATCCCACTACGACT
1 TTCAATCCATCCCACTACGACT
8801105 TT
1 TT
8801107 AGGGGTGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.39, G:0.07, T:0.30
Consensus pattern (22 bp):
TTCAATCCATCCCACTACGACT
Found at i:8812770 original size:23 final size:21
Alignment explanation
Indices: 8812740--8812798 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
8812730 ATATGGTTAG
8812740 AATAATAATAAGAACAAAGTAA
1 AATAATAATAA-AACAAAGTAA
*
8812762 TAATAATAA-AATAACTAAGTAA
1 -AATAATAATAA-AACAAAGTAA
8812784 AA-AATAAATAAAACA
1 AATAAT-AATAAAACA
8812799 TAGATAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 13 0.42
23 8 0.26
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAATAATAAAACAAAGTAA
Found at i:8816762 original size:3 final size:3
Alignment explanation
Indices: 8816756--8816793 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8816746 CAACAATAGA
8816756 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8816794 GTGTACGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8817850 original size:46 final size:45
Alignment explanation
Indices: 8817790--8817957 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 45
8817780 TGCCATAATG
* * * * *
8817790 TCTTTGAACTATGGTATTACTCATTTACTGCCATGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACTCATTT-CTGTCATGTTGCCATGGTA
* *
8817836 TCTTTCAACCATGGTCTTATTCATTTCCCCGTCATGTTGCCATGGTATA
1 TCTTTCAACCATGGTCTTACTCATTT--CTGTCATGTTGCCATGG--TA
* *
8817885 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTC-TGTCATGTTGCCATGGTA
*
8817931 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
8817958 ATTTCAGAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 49 0.46
47 15 0.14
48 14 0.13
49 28 0.26
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTACTCATTTCTGTCATGTTGCCATGGTA
Found at i:8817958 original size:46 final size:46
Alignment explanation
Indices: 8817821--8817959 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 46
8817811 CATTTACTGC
* ***
8817821 CATGTTGCTATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATAT
8817868 CATGTTGCCATGGTATATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGG--TATCTTTCAACCATGGTCTTATTCATTTCATAT
**
8817916 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
8817960 TTCAGAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
46 29 0.35
47 12 0.14
48 15 0.18
49 28 0.33
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:8820740 original size:40 final size:39
Alignment explanation
Indices: 8820703--8820794 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
8820693 GCTACTCGTT
*
8820703 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
8820743 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
8820782 CAAATGCCTTCGG
1 CAAATGCCTTCGG
8820795 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:8820774 original size:39 final size:40
Alignment explanation
Indices: 8820684--8820847 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
8820674 CGGAATTTAA
** *
8820684 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
8820724 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
8820763 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
8820803 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
8820843 CCGGA
1 CCGGA
8820848 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:8824972 original size:44 final size:44
Alignment explanation
Indices: 8824889--8825049 Score: 175
Period size: 44 Copynumber: 3.7 Consensus size: 44
8824879 TTTTCAGTCA
* * * *
8824889 GCTCCACTGCAACTTTAGGGAGATGAGACTAGTA--ACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TA-TATGGCTTCAATCT
* *
8824933 GCTCCACTGCAACTTCAGGGACATAAGGT-TCATGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATAT-ATGGCTTCAATCT
* * * * *
8824977 TCTCTATTGCAACTTCAGTGAGATAAGATATATGGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATATATGGCTTCAATCT
8825021 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
8825050 CGCCATGATA
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 1 0.01
44 92 0.96
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATATATGGCTTCAATCT
Found at i:8836805 original size:12 final size:12
Alignment explanation
Indices: 8836788--8836832 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
8836778 AACATGCATG
8836788 GATAATAATAAT
1 GATAATAATAAT
8836800 GATAATAGA-AAT
1 GATAATA-ATAAT
8836812 GATAAT-ATAAAT
1 GATAATAAT-AAT
8836824 GATAATAAT
1 GATAATAAT
8836833 CATCAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
12 25 0.86
13 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
GATAATAATAAT
Found at i:8839337 original size:15 final size:15
Alignment explanation
Indices: 8839297--8839338 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
8839287 TAACAACCGT
8839297 TGTTTGAGAATAACTA
1 TGTTT-AGAATAACTA
8839313 TGTCTT-GAATAACTA
1 TGT-TTAGAATAACTA
8839328 TGTTTAGAATA
1 TGTTTAGAATA
8839339 GTGTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 17 0.71
16 3 0.12
17 2 0.08
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (15 bp):
TGTTTAGAATAACTA
Found at i:8839416 original size:28 final size:28
Alignment explanation
Indices: 8839376--8839432 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
8839366 TAGTGTACAT
8839376 TTCATTTGAGAATAGCTTTTGTTACGAA
1 TTCATTTGAGAATAGCTTTTGTTACGAA
8839404 TTCATTTGAGAATAGCTTTTGTTACGAA
1 TTCATTTGAGAATAGCTTTTGTTACGAA
8839432 T
1 T
8839433 AACTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (28 bp):
TTCATTTGAGAATAGCTTTTGTTACGAA
Found at i:8839673 original size:20 final size:20
Alignment explanation
Indices: 8839648--8839685 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8839638 TTGAGAACTC
8839648 ACATATGTGCAAGAACAATG
1 ACATATGTGCAAGAACAATG
8839668 ACATATGTGCAAGAACAA
1 ACATATGTGCAAGAACAA
8839686 CCCTTGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (20 bp):
ACATATGTGCAAGAACAATG
Found at i:8856268 original size:34 final size:33
Alignment explanation
Indices: 8856230--8856301 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
8856220 CCCATATCAT
* **
8856230 TAACAATAACAATCCGGGCCTGAGCCCATTTTAG
1 TAACAATAACAAT-CGGGCCTAAGCCCATCATAG
* * *
8856264 TAACAGTATCAATGGGGCCTAAGCCCATCATAG
1 TAACAATAACAATCGGGCCTAAGCCCATCATAG
8856297 TAACA
1 TAACA
8856302 GTACAGTACG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (33 bp):
TAACAATAACAATCGGGCCTAAGCCCATCATAG
Found at i:8862034 original size:23 final size:23
Alignment explanation
Indices: 8862004--8862049 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8861994 GTCCTCTGCT
8862004 CCGTACCTGTGAACAAGACAAAC
1 CCGTACCTGTGAACAAGACAAAC
8862027 CCGTACCTGTGAACAAGACAAAC
1 CCGTACCTGTGAACAAGACAAAC
8862050 ACAGCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.30, G:0.17, T:0.13
Consensus pattern (23 bp):
CCGTACCTGTGAACAAGACAAAC
Found at i:8864540 original size:131 final size:132
Alignment explanation
Indices: 8864295--8864578 Score: 320
Period size: 131 Copynumber: 2.1 Consensus size: 132
8864285 AACTAGTAAG
* * * * * *
8864295 AATTCTTTAAAACGAAGGCGACATTCGATATTTGGTAATTCTCAGAATTGTGCCCTAACCTATTG
1 AATTCCTTAAAACGAAGGCGACATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACCTACTG
* * * * *
8864360 GGTTGCAATTTCTCGTTTGCTTAAAGTAATCAAAGGTTCCTTTAGAATTTCACCCATATCTTTTA
66 GGTTGCAATTTCTCGTTTGCTTAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTTTA
8864425 AA
131 AA
** * * *
8864427 AATTCCTT-AAACGAAGGCGATGTGCGATATTTGGCAGTTCGC-GAAATCGTGCCCTAACGTGCT
1 AATTCCTTAAAACGAAGGCGACATGCGATATTTGGCAATTCGCAG-AATCGTGCCCTAACCTACT
* ** *
8864490 GGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCAGTCATGTCTTCT
65 GGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTT-T
*
8864555 AAAA
129 TAAA
* *
8864559 AAATCCTTTAAAACAAAGGC
1 AATTCC-TTAAAACGAAGGC
8864579 AATACTCGGT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 1 0.01
131 97 0.78
132 16 0.13
133 2 0.02
134 9 0.07
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (132 bp):
AATTCCTTAAAACGAAGGCGACATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACCTACTG
GGTTGCAATTTCTCGTTTGCTTAAAATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTTTA
AA
Found at i:8864808 original size:133 final size:133
Alignment explanation
Indices: 8864471--8864811 Score: 346
Period size: 133 Copynumber: 2.6 Consensus size: 133
8864461 CAGTTCGCGA
* * *
8864471 AATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATC-AAATATCCCTTC
1 AATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTG-TTCAAAACAATCGAAA-ATCCCTTC
* * * *
8864534 AAAATTTCAGTCATGTCTTCTAAAAAAATCCTTTAAAACAAAGGCAATACTCGGTGTTCGACAAT
64 GAAATTTCACTCATGTCTTCTAAAAAAACCCTTTAAAACAAAGGCAATACTCGATGTTCGACAAT
***
8864599 TTGGG
129 TCAAG
* * * * *
8864604 AATCATGCCCTATCATGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATAATCCTTTAG
1 AATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAA-AATCCCTTCG
** * * * ** ** * **
8864669 -GTTTTCACTCATGTTTTTTAAGAAAACCCTTTAAAACAAAGGTGATGTTCGATGTTTGGTAATT
65 AAATTTCACTCATGTCTTCTAAAAAAACCCTTTAAAACAAAGGCAATACTCGATGTTCGACAATT
8864733 CAAG
130 CAAG
* * * * *
8864737 AATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTCGA
1 AATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCGA
8864802 AATTTCACTC
66 AATTTCACTC
8864812 GTATTTTCTA
Statistics
Matches: 165, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
132 9 0.05
133 147 0.89
134 8 0.05
135 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (133 bp):
AATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCGA
AATTTCACTCATGTCTTCTAAAAAAACCCTTTAAAACAAAGGCAATACTCGATGTTCGACAATTC
AAG
Found at i:8871824 original size:3 final size:3
Alignment explanation
Indices: 8871816--8871873 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
8871806 AACCTGGAAC
8871816 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
8871864 CAG AAT AAG A
1 AAG AAG AAG A
8871874 GAAAAGGGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:8873406 original size:7 final size:7
Alignment explanation
Indices: 8873390--8873419 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8873380 AAATAAAGAT
*
8873390 ATATTAA
1 ATATTGA
8873397 ATATTGA
1 ATATTGA
8873404 ATATTGA
1 ATATTGA
8873411 ATATTGA
1 ATATTGA
8873418 AT
1 AT
8873420 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (7 bp):
ATATTGA
Found at i:8876512 original size:17 final size:16
Alignment explanation
Indices: 8876481--8876537 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
8876471 TTATTTTTAA
8876481 ATTTTTTTAAATATTT
1 ATTTTTTTAAATATTT
*
8876497 ATTTTATTTTAATATTT
1 ATTTT-TTTAAATATTT
* *
8876514 AATATTTTT--ATTTTT
1 -ATTTTTTTAAATATTT
8876529 ATTTTTTTA
1 ATTTTTTTA
8876538 TTTATTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 5 0.15
17 13 0.38
18 4 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTTTAAATATTT
Found at i:8876539 original size:27 final size:25
Alignment explanation
Indices: 8876482--8876541 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
8876472 TATTTTTAAA
8876482 TTTT-TTTAAATATTTATTTTATTT
1 TTTTATTTAAATATTTATTTTATTT
** *
8876506 TAATATTTAATATTTTTATTTTTATTT
1 TTTTATTTAA-ATATTTA-TTTTATTT
8876533 TTTTATTTA
1 TTTTATTTA
8876542 TTGAAAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.07
25 5 0.18
26 6 0.21
27 15 0.54
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTAAATATTTATTTTATTT
Found at i:8878933 original size:27 final size:26
Alignment explanation
Indices: 8878895--8878962 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
8878885 CTAGACATAC
*
8878895 TTTTTAGT-AATTTTACATATTTATATA
1 TTTTTA-TAAATTTTA-ATATATATATA
* *
8878922 TTTTTATAAATTTATAGTGTATATATA
1 TTTTTATAAATTT-TAATATATATATA
*
8878949 TTTTTATAATTTTT
1 TTTTTATAAATTTT
8878963 TTATTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTTATAAATTTTAATATATATATA
Found at i:8882020 original size:7 final size:7
Alignment explanation
Indices: 8882008--8882074 Score: 57
Period size: 7 Copynumber: 9.9 Consensus size: 7
8881998 CCAACATCAA
8882008 GGTTTGG
1 GGTTTGG
*
8882015 GGTTTGA
1 GGTTTGG
*
8882022 GGTTTTG
1 GGTTTGG
*
8882029 GGTTTTG
1 GGTTTGG
*
8882036 GGTTTAG
1 GGTTTGG
8882043 GGTTT-G
1 GGTTTGG
*
8882049 AGTTTGG
1 GGTTTGG
8882056 GGTTT-G
1 GGTTTGG
* *
8882062 AGTTCGG
1 GGTTTGG
8882069 GGTTTG
1 GGTTTG
8882075 AGATTCACGG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
6 9 0.19
7 39 0.81
ACGTcount: A:0.06, C:0.01, G:0.46, T:0.46
Consensus pattern (7 bp):
GGTTTGG
Found at i:8882026 original size:14 final size:14
Alignment explanation
Indices: 8882007--8882076 Score: 83
Period size: 13 Copynumber: 5.1 Consensus size: 14
8881997 CCCAACATCA
8882007 AGGTTTGGGGTTTG
1 AGGTTTGGGGTTTG
*
8882021 AGGTTTTGGGTTTTG
1 AGG-TTTGGGGTTTG
*
8882036 -GGTTTAGGGTTTG
1 AGGTTTGGGGTTTG
8882049 A-GTTTGGGGTTTG
1 AGGTTTGGGGTTTG
*
8882062 A-GTTCGGGGTTTG
1 AGGTTTGGGGTTTG
8882075 AG
1 AG
8882077 ATTCACGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
13 33 0.69
14 5 0.10
15 10 0.21
ACGTcount: A:0.09, C:0.01, G:0.46, T:0.44
Consensus pattern (14 bp):
AGGTTTGGGGTTTG
Found at i:8884180 original size:23 final size:22
Alignment explanation
Indices: 8884154--8884204 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
8884144 CTTATTAATA
8884154 TATTAATATTTTTACCATATTAT
1 TATTAATATTTTTA-CATATTAT
** *
8884177 TATTTCCTATTTTTATATATTAT
1 TA-TTAATATTTTTACATATTAT
8884200 TATTA
1 TATTA
8884205 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 2 0.09
23 11 0.48
24 10 0.43
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTAATATTTTTACATATTAT
Found at i:8884340 original size:3 final size:3
Alignment explanation
Indices: 8884334--8884502 Score: 105
Period size: 3 Copynumber: 55.7 Consensus size: 3
8884324 CTATCGTCAC
* * *
8884334 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAC TAC TAT T-T ATACT CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T -TAT
* * *
8884381 TAT TAT TACT TAT TAT T-T TAT TAT TGT TAT CTAA TA- TAC TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * * *
8884426 TAT CAC TAT TAT TAT T-T TAC TAT TGT AACT TAA TAT TTT TGT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
8884470 TCAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8884503 AACTAATTAA
Statistics
Matches: 130, Mismatches: 25, Indels: 22
0.73 0.14 0.12
Matches are distributed among these distances:
2 9 0.07
3 108 0.83
4 10 0.08
5 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8884419 original size:44 final size:42
Alignment explanation
Indices: 8884332--8884451 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 42
8884322 TACTATCGTC
*** *
8884332 ACTATTATTATTA-TTATTATTATTATTATAACTACTATTTAT
1 ACTATTATTATTACTTATTATT-TTATTATTGTTACTATATAT
8884374 ACTCTATTATTATTACTTATTATTTTATTATTGTTATCTA-ATAT
1 A--CTATTATTATTACTTATTATTTTATTATTGTTA-CTATATAT
* *
8884418 ACTATTATTATCACTATTATTATTTTACTATTGT
1 ACTATTATTATTAC--TTATTATTTTATTATTGT
8884452 AACTTAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
42 13 0.20
44 42 0.64
45 11 0.17
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (42 bp):
ACTATTATTATTACTTATTATTTTATTATTGTTACTATATAT
Done.