Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 336 of 444
Found at i:96988355 original size:29 final size:29
Alignment explanation
Indices: 96988313--96988394 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
96988303 ATTATTTTTT
96988313 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
96988342 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
96988371 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
96988395 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:96995434 original size:43 final size:42
Alignment explanation
Indices: 96995344--96995443 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 42
96995334 ACACATATCG
* * * *
96995344 ATGCCACTGTCCCAGATAAGGTCTTACACGAAATCGATTAATG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGAAATC-ATCAATA
* *
96995387 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-TCAATACA
1 ATGCCAATGTCCCAGACAAGGTCTTACACGAAATCATCAAT--A
96995430 ATGCCAATGTCCCA
1 ATGCCAATGTCCCA
96995444 TGTAACACCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.08
43 45 0.92
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTACACGAAATCATCAATA
Found at i:97001608 original size:29 final size:29
Alignment explanation
Indices: 97001575--97001706 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
97001565 CCTCCGAACT
** * * *
97001575 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
97001604 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97001633 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97001662 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97001691 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
97001707 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:97005588 original size:40 final size:40
Alignment explanation
Indices: 97005543--97005709 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
97005533 CGGAATATAA
97005543 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
97005583 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
97005623 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
97005663 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
97005702 CCGGATAT
1 CCGGATAT
97005710 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:97013579 original size:40 final size:40
Alignment explanation
Indices: 97013534--97013700 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
97013524 CGGAATATAA
97013534 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
97013574 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
97013614 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
97013654 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
97013693 CCGGATAT
1 CCGGATAT
97013701 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:97019577 original size:43 final size:43
Alignment explanation
Indices: 97019525--97019692 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
97019515 ATAGGATTCT
*
97019525 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
97019568 GATTTGTGATTTGCATGTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCATC
* * ** * * * *
97019612 G-TATATGAGTTCATGTAAGACCTTGTCTAGGACAGTGGCGTT
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
97019654 GATATGTGATTACATGTAAGACCACGTTTGGGACGTTGG
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGG
97019693 TGTTGTATGA
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 26 0.26
43 46 0.46
44 29 0.29
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:97027145 original size:43 final size:42
Alignment explanation
Indices: 97026978--97027150 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 42
97026968 ATATTGTACA
* * * * *
97026978 ATGCCAACTTCCTAGATGTGGTCTTACATGTAACCACATGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG-AAACACATATCG
* * *
97027021 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGAAACACATA-T-CG
* **
97027064 ATGCCAATGTCCCAGACATGGTCTTA-ACCGAAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACA-CGAAA-CACATATCG
97027107 ATGCCAACGTCCCAGATGTGGTCTTACACGAGAACACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGA-AACACATATCG
97027150 A
1 A
97027151 AAATCCTATG
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 10 0.09
43 85 0.80
44 10 0.09
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGAAACACATATCG
Found at i:97027691 original size:28 final size:26
Alignment explanation
Indices: 97027657--97027708 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
97027647 CACAATTCAT
*
97027657 TTATTTTACATTTTAGTCCCTCAATTTA
1 TTATTTTACAATTTAG-CCCT-AATTTA
*
97027685 TTATTTTGCAATTTAGCCCTAATT
1 TTATTTTACAATTTAGCCCTAATT
97027709 ACTCAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 4 0.18
28 14 0.64
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATTTTACAATTTAGCCCTAATTTA
Found at i:97027906 original size:17 final size:18
Alignment explanation
Indices: 97027875--97027909 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
97027865 GAAGCAACGA
97027875 TATCAAAAACGTAAAAAT
1 TATCAAAAACGTAAAAAT
97027893 TATCAAAAAC-TAAAAAT
1 TATCAAAAACGTAAAAAT
97027910 AAAACATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (18 bp):
TATCAAAAACGTAAAAAT
Found at i:97033100 original size:31 final size:31
Alignment explanation
Indices: 97033055--97033169 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
97033045 TTAGTCTTGA
97033055 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
97033085 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
97033116 CAAATCACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
97033147 CATATCACTGGGCAGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
97033170 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:97033240 original size:42 final size:42
Alignment explanation
Indices: 97033193--97033284 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
97033183 TGGCCCTTAG
* ** *
97033193 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATACAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
*
97033235 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
97033277 GCCCATTT
1 GCCCATTT
97033285 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
Found at i:97034289 original size:27 final size:26
Alignment explanation
Indices: 97034259--97034336 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
97034249 GGGTATATTC
97034259 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
97034286 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTA-CCTAC-AGGGGTATTACG
* *
97034313 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
97034337 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 8 0.20
27 26 0.63
28 7 0.17
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:97034407 original size:27 final size:27
Alignment explanation
Indices: 97034377--97034428 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
97034367 GTAAATCTAC
97034377 AAACCAAGGGTATTTC-ATTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
97034404 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
97034429 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:97034552 original size:27 final size:27
Alignment explanation
Indices: 97034439--97034840 Score: 184
Period size: 27 Copynumber: 14.9 Consensus size: 27
97034429 TAGAAAGTCA
* * * *
97034439 AGGGTATTTTTGTAACTTTGTAAAT-T
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
97034465 AGGGGTATTGTGGTAATTTTACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
97034492 AGGGGTATTTTGGAAATTTTCCT-AATCG
1 A-GGGTATTTTGGTAATTTT-ATAAATCG
* *
97034520 AAGGTATTTTGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
97034547 AGGGTAAAATGATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
97034574 AGGGTAAAACGGTAATTCTATAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
***** * ** *
97034601 AGGGTAAAACAGTAATTCTAGGAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
***** *
97034628 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
97034655 AGGGTAAAATGATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
97034682 AGGGCATTTTAGTAATTTTA-CAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
97034708 ATGGTATTTCGGTAATTTTATAAACCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
97034735 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* ** *
97034762 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
97034789 AGGGTATTTTAGTAATTTTACAAA-CTA
1 AGGGTATTTTGGTAATTTTATAAATC-G
*
97034816 AGGGTATTTCGGTAATTTTAGTAAA
1 AGGGTATTTTGGTAATTTTA-TAAA
97034841 CTAAAGTATT
Statistics
Matches: 302, Mismatches: 66, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
26 24 0.08
27 273 0.90
28 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:97034698 original size:54 final size:54
Alignment explanation
Indices: 97034531--97034685 Score: 222
Period size: 54 Copynumber: 2.9 Consensus size: 54
97034521 AGGTATTTTG
* * *
97034531 GTAATTTTGTAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACA
* * ** *
97034585 GTAATTCTATAAATCAAGGGTAAAA-CAGTAATTCTAGGAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATGA-TAATTCTATAAATCGAGGGTAAAACA
97034639 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGG
1 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGG
97034686 CATTTTAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 84 0.98
55 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACA
Found at i:97034794 original size:54 final size:53
Alignment explanation
Indices: 97034667--97034840 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 53
97034657 GGTAAAATGA
* * *
97034667 TAATTCTATAAATCGAGGGCATTTTAGTAATTTTACAATCGATGGTATTTCGG
1 TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAAGGTATTTCGG
* * * * *
97034720 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAG
1 TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAA-TCGAAGGTATTTCGG
* * *
97034774 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGG
1 TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAA-GGTATTTCGG
97034828 TAATTTTAGTAAA
1 TAATTTTA-TAAA
97034841 CTAAAGTATT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 35 0.35
54 63 0.62
55 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAAGGTATTTCGG
Found at i:97037101 original size:31 final size:31
Alignment explanation
Indices: 97037063--97037169 Score: 169
Period size: 31 Copynumber: 3.5 Consensus size: 31
97037053 AACGGTTACA
*
97037063 AGGCCGAAGCCTTTTCATAAATCAAATCACT
1 AGGCCGAAGCCTTTTCATAAATCATATCACT
*
97037094 AGGCCGAAGCCTTTCCATAAATCATATCACT
1 AGGCCGAAGCCTTTTCATAAATCATATCACT
* *
97037125 GGGCCGAAGCCTTTTCATAAATCATATCATT
1 AGGCCGAAGCCTTTTCATAAATCATATCACT
*
97037156 GGGCCGAAGCCTTT
1 AGGCCGAAGCCTTT
97037170 ACTGTAAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (31 bp):
AGGCCGAAGCCTTTTCATAAATCATATCACT
Found at i:97037240 original size:42 final size:42
Alignment explanation
Indices: 97037193--97037284 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
97037183 TGGCCCTTAG
* *
97037193 GCCCATTTCAATATCACATGTAATTCCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
*
97037235 GCCCATTTCAATATCACATGAAATACCAATGTATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
97037277 GCCCATTT
1 GCCCATTT
97037285 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
Found at i:97038322 original size:27 final size:27
Alignment explanation
Indices: 97038259--97038323 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
97038249 GGGCATATTC
97038259 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
** *
97038286 GTCACATTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
97038313 GTCTTTTTACC
1 GTCATTTTACC
97038324 TAATAAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:97038397 original size:27 final size:27
Alignment explanation
Indices: 97038367--97038419 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
97038357 GAGTGTTTTG
97038367 GTAAATTTACAAACCAAGGGTATTTCA
1 GTAAATTTACAAACCAAGGGTATTTCA
* ** *
97038394 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATTTACAAACCAAGGGTATTTC
97038420 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAAATTTACAAACCAAGGGTATTTCA
Found at i:97038425 original size:27 final size:27
Alignment explanation
Indices: 97038377--97038511 Score: 94
Period size: 27 Copynumber: 4.9 Consensus size: 27
97038367 GTAAATTTAC
97038377 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
97038404 AAACCAATGGTATTTCTA-TAATTTTTT
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** * *
97038431 GAAAGTTAAGGGTATTTCTGTAACTTTGT
1 -AAA-CCAAGGGTATTTCAGTAATTTTGT
* * * **
97038460 AAATCAGGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCAG-TAATTTTGT
* **
97038487 AAACCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
97038512 CCTAATCGAG
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.02
27 60 0.69
28 8 0.09
29 17 0.20
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:97038524 original size:27 final size:27
Alignment explanation
Indices: 97038464--97038538 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
97038454 CTTTGTAAAT
*
97038464 CAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
97038491 CAGGGGTATTTTGGTAATTTTCCTAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
97038518 C-GAGGGTATTGTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
97038539 GTAAATTGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:97038562 original size:27 final size:27
Alignment explanation
Indices: 97038530--97038714 Score: 271
Period size: 27 Copynumber: 6.9 Consensus size: 27
97038520 AGGGTATTGT
*
97038530 GGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* * * *
97038557 GATAATTCTATAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* *
97038584 GATAATTTTGTAAATCGTGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
97038611 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* * *
97038638 GGTAATTCTATAAATCGAGGCTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
97038665 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
*
97038692 GGTAATTCTGTAAATCGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
97038715 CTTTGGTAAT
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:97038733 original size:27 final size:27
Alignment explanation
Indices: 97038703--97038866 Score: 165
Period size: 27 Copynumber: 6.1 Consensus size: 27
97038693 GTAATTCTGT
*
97038703 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTAC
* *
97038730 AAATTGAGGG-CCTTTTAGTAATTTTAC
1 AAATCGAGGGTAC-TTTAGTAATTTTAC
* * *
97038757 -AATCGATGGTA-TTTCGATAATTTTAT
1 AAATCGAGGGTACTTTAG-TAATTTTAC
* * *
97038783 AAACCGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTAC
* * *
97038810 AAGTCGAAGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTAC
97038837 AAATCGAGGGTA-TTTCAGTAATTTTAC
1 AAATCGAGGGTACTTT-AGTAATTTTAC
97038864 AAA
1 AAA
97038867 CTAAGGGTAT
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.04
26 19 0.17
27 83 0.75
28 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTACTTTAGTAATTTTAC
Found at i:97038751 original size:81 final size:79
Alignment explanation
Indices: 97038586--97038848 Score: 233
Period size: 81 Copynumber: 3.3 Consensus size: 79
97038576 GGTAAAACGA
* **** * *
97038586 TAATTTTGTAAATCGTGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACAA
***
97038651 ATCGAGGCTAAAACGG
66 ATCGAGGCTTTTA--G
*
97038667 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACAA
*
97038732 ATTGAGGGCCTTTTAG
66 ATCGA-GG-CTTTTAG
* *** * * * *
97038748 TAA-TTT-TACAATCGATGGTATTTCGATAATTTTATAAACCGGGGGTACTTTGGTAATTTTACA
1 TAATTTTGTA-AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACA
* *
97038811 AGTCGAAGGTATTTTAG
65 AATCG-AGG-CTTTTAG
**
97038828 TAATTTTACAAATCGAGGGTA
1 TAATTTTGTAAATCGAGGGTA
97038849 TTTCAGTAAT
Statistics
Matches: 149, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
79 2 0.01
80 62 0.42
81 79 0.53
82 3 0.02
83 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (79 bp):
TAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACAA
ATCGAGGCTTTTAG
Found at i:97038795 original size:80 final size:81
Alignment explanation
Indices: 97038710--97038867 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 81
97038700 TGTAAATCGA
* * * *
97038710 GGGTACTTTGGTAATTTTACAAATTGAGGGCCTTTTAGTAATTTTAC-AATCGATGGTATTTC-G
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
*
97038773 ATAATTTTATAAACCGG
66 -TAATTTTACAAACCGG
* *
97038790 GGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
97038855 TAATTTTACAAAC
66 TAATTTTACAAAC
97038868 TAAGGGTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
80 42 0.61
81 26 0.38
82 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTTACAAACCGG
Found at i:97038834 original size:54 final size:53
Alignment explanation
Indices: 97038704--97038865 Score: 150
Period size: 53 Copynumber: 3.0 Consensus size: 53
97038694 TAATTCTGTA
* * ** ** *
97038704 AATCGAGGGTACTTT-GGTAATTTTACAAATTGAGGGCCTTTTAGTAATTTTAC
1 AATCGAAGGTA-TTTAGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTAC
* * * * *
97038757 AATCGATGGTATTTCGATAATTTTATAAACCGGGGGTACTTT-GGTAATTTTAC
1 AATCGAAGGTATTTAGATAATTTTACAAACCGAGGGTA-TTTCAGTAATTTTAC
*
97038810 AAGTCGAAGGTATTTTAG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAAGGTA-TTTAGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTAC
97038864 AA
1 AA
97038866 ACTAAGGGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
52 3 0.03
53 41 0.46
54 41 0.46
55 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AATCGAAGGTATTTAGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTAC
Found at i:97038873 original size:27 final size:27
Alignment explanation
Indices: 97038720--97038884 Score: 124
Period size: 27 Copynumber: 6.1 Consensus size: 27
97038710 GGGTACTTTG
* ** *
97038720 GTAATTTTACAAATTGAGGGCCTTTTA
1 GTAATTTTACAAACTGAGGGTATTTCA
* *
97038747 GTAATTTTACAATC-GATGGTATTTC-
1 GTAATTTTACAAACTGAGGGTATTTCA
* * * *
97038772 GATAATTTTATAAACCGGGGGTACTTT-G
1 G-TAATTTTACAAACTGAGGGTA-TTTCA
* * *
97038800 GTAATTTTAC-AAGTCGAAGGTATTTTA
1 GTAATTTTACAAACT-GAGGGTATTTCA
97038827 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-GAGGGTATTTCA
* *
97038854 GTAATTTTACAAACTAAGGGTATTTCT
1 GTAATTTTACAAACTGAGGGTATTTCA
97038881 GTAA
1 GTAA
97038885 CACCCCTATC
Statistics
Matches: 110, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
25 1 0.01
26 23 0.21
27 79 0.72
28 7 0.06
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTGAGGGTATTTCA
Found at i:97040262 original size:47 final size:47
Alignment explanation
Indices: 97040184--97040337 Score: 240
Period size: 47 Copynumber: 3.3 Consensus size: 47
97040174 TCCTTCGGGA
* *
97040184 CTTATCACAGT-TATACACTTCCAC-TTCCATCACATTGACCATTCGGC
1 CTTATCACA-TATATACACTTTCACATT-CATCACATTGGCCATTCGGC
*
97040231 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
97040278 CTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
97040325 CTTATCACATATA
1 CTTATCACATATA
97040338 CATATCTTGT
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
46 1 0.01
47 96 0.97
48 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:97041199 original size:33 final size:33
Alignment explanation
Indices: 97041161--97041225 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
97041151 CTTATTAAAT
97041161 CAACTCATCATGTCCTATTATGATTGATTTTAA
1 CAACTCATCATGTCCTATTATGATTGATTTTAA
97041194 CAACTCATCATGTCCTATTATGATTGATTTTA
1 CAACTCATCATGTCCTATTATGATTGATTTTA
97041226 CTCAACGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (33 bp):
CAACTCATCATGTCCTATTATGATTGATTTTAA
Found at i:97042283 original size:117 final size:117
Alignment explanation
Indices: 97042077--97042319 Score: 468
Period size: 117 Copynumber: 2.1 Consensus size: 117
97042067 GTTATTATAA
*
97042077 TTTAACCTCTATTTCCGAATGCCCCCTTCTCTATAAAACCATCAAATTTTCAAATTATAATAGGT
1 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
97042142 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
66 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
97042194 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
1 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
97042259 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
66 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
97042311 TTTACACCT
1 TTTA-ACCT
97042320 AACTTACAAG
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 120 0.97
118 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.33
Consensus pattern (117 bp):
TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
Found at i:97043974 original size:25 final size:25
Alignment explanation
Indices: 97043940--97043993 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
97043930 CGGTTAAAGA
*
97043940 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
97043965 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
97043990 ATTC
1 ATTC
97043994 ATTATTACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:97044207 original size:40 final size:40
Alignment explanation
Indices: 97044163--97044439 Score: 428
Period size: 40 Copynumber: 6.9 Consensus size: 40
97044153 CACATCATCG
* * *
97044163 GCACGAATGCCCTTCAGGACTTAGCCCGAATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
97044203 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
97044243 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
** *
97044283 GCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* * *
97044323 ACACGAATGCTCTTCGGGACTTAGCCCGGATGCATCACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
** *
97044363 GCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* *
97044403 GCACGAATGCTCTTCGGGACCTAGCCCGGATATAACA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACA
97044440 TACTGAACTT
Statistics
Matches: 224, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 224 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:97046500 original size:47 final size:47
Alignment explanation
Indices: 97046422--97046575 Score: 222
Period size: 47 Copynumber: 3.3 Consensus size: 47
97046412 TCCTTCGGGA
* *
97046422 CTTATCACAGT-TATACACTTCCAC-TTCCATCACATTGACCATTCGGC
1 CTTATCACA-TATATACACTTTCACATT-CATCACATTGGCCATTCGGC
* * *
97046469 CTTATCACATATATATACTTTCACATTCATCAAATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
97046516 CTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
97046563 CTTATCACATATA
1 CTTATCACATATA
97046576 CATATCTTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 92 0.97
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:97048489 original size:117 final size:117
Alignment explanation
Indices: 97048283--97048525 Score: 477
Period size: 117 Copynumber: 2.1 Consensus size: 117
97048273 GTTATTATAA
97048283 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
1 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
97048348 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
66 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
97048400 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
1 TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
97048465 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
66 TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
97048517 TTTACACCT
1 TTTA-ACCT
97048526 AACTTACAAG
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 121 0.97
118 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (117 bp):
TTTAACCTCTATTTCCGAATGCCCCCTTCTCCATAAAACCATCAAATTTTCAAATTATAATAGGT
TCATAACTCATTTAACCACTAATTCCATGCCAAGCATAAAAAGGCCATTGGT
Found at i:97051445 original size:42 final size:43
Alignment explanation
Indices: 97051337--97051477 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 43
97051327 TATGTGTTAT
** * *
97051337 CGTGTAAGACCACGTCTGGGACGTTGGCATTG-ACTTATGATTTA
1 CGTGTAAGACCATATCTGGGACATTGGCATCGTA-TT-TGATTTA
* *
97051381 CGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGATTTA
* * *
97051423 CGTGTAATACCCTATCTGGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATATCTGGGACATTGGCATCG-TATTTGATTTA
*
97051466 CATGTAAGACCA
1 CGTGTAAGACCA
97051478 CGTTTGGGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.35
43 22 0.27
44 30 0.37
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGATTTA
Found at i:97051460 original size:43 final size:43
Alignment explanation
Indices: 97051374--97051477 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 43
97051364 CATTGACTTA
* *
97051374 TGATTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGTATT
* * *
97051417 TGATTT-CGTGTAATACCCTATCTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCG-TATT
*
97051460 TGA-TTACATGTAAGACCA
1 TGATTTACGTGTAAGACCA
97051478 CGTTTGGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGTATT
Found at i:97051494 original size:43 final size:43
Alignment explanation
Indices: 97051337--97051495 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
97051327 TATGTGTTAT
* *
97051337 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * *
97051381 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* *
97051423 CGTGTAATACC-CTATCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
97051466 CATGTAAGACCACGTTTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
97051496 TGTACGAGAT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 29 0.32
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:97052745 original size:14 final size:13
Alignment explanation
Indices: 97052722--97052753 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
97052712 GGAATATTGA
97052722 AACAATAATTAAG
1 AACAATAATTAAG
97052735 AACACATAATTAAG
1 AACA-ATAATTAAG
97052749 AACAA
1 AACAA
97052754 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:97055260 original size:25 final size:25
Alignment explanation
Indices: 97055208--97055265 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
97055198 AGAAAACCTA
*
97055208 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
97055234 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
97055259 -AAATAAA
1 AAAATAAA
97055266 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:97066136 original size:21 final size:20
Alignment explanation
Indices: 97066102--97066141 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
97066092 CCTGTGAAAC
*
97066102 TTTGAAAAAATTGTTTAAGT
1 TTTGAAAAAATTGTATAAGT
*
97066122 TTTGAAAAATTTTGTATAAG
1 TTTGAAAAA-ATTGTATAAG
97066142 CTTAGTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTGAAAAAATTGTATAAGT
Found at i:97069056 original size:43 final size:43
Alignment explanation
Indices: 97069008--97069169 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 43
97068998 GTACCATTCA
* * *
97069008 GGCCTCGAGCCTAGCAGG-TGATAATACTGGTGAAATAATATTG
1 GGCCTCGAGCCTAGCAGGCT-ATAATGCCGGTGAAATAATATCG
*
97069051 GGCCTCGAGCCTAGCAGGCTATAATGCCGATGAAATAATATCG
1 GGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCG
* * *
97069094 AGCCTCGAGCCTAGCAGGCTATAATGCCAGTGAAATAATATCA
1 GGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCG
* *
97069137 GGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 GGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAA
97069170 TGAATTCAGA
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 11 0.10
43 94 0.89
44 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (43 bp):
GGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCG
Found at i:97069248 original size:40 final size:40
Alignment explanation
Indices: 97069149--97069250 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 40
97069139 CTTCGAGCCT
* *
97069149 AGCAGGCGAAATGCCGGTGAATGAATTCAGATTTAAAATCT
1 AGCAGGCTAAATGCCGGTG-ATGAATTCAGATTTAAAATCG
*** ** * * *
97069190 AGCAGGCTTCGTATCGGTGATGAATTCGGGTTTAAAATGG
1 AGCAGGCTAAATGCCGGTGATGAATTCAGATTTAAAATCG
*
97069230 AGCAGGCTAATTGCCGGTGAT
1 AGCAGGCTAAATGCCGGTGAT
97069251 TTGATAACAG
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
40 33 0.72
41 13 0.28
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (40 bp):
AGCAGGCTAAATGCCGGTGATGAATTCAGATTTAAAATCG
Found at i:97076793 original size:43 final size:43
Alignment explanation
Indices: 97076732--97076887 Score: 217
Period size: 43 Copynumber: 3.7 Consensus size: 43
97076722 TTTGGGCATC
*
97076732 GAGCCTAGCAGGCTATAATACCGGTGAAATAATATCAGGCCTT
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTT
* *
97076775 GAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCCTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTT
* * *
97076818 GAGCCTAGCAGGCTATAGTGCCGGTGAAATAATAT-TGGGCTT
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTT
* *
97076860 AGAGCGTAGCAGGC-AAAATGCCGGTGAA
1 -GAGCCTAGCAGGCTATAATGCCGGTGAA
97076888 TGAATTTAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
42 16 0.16
43 86 0.84
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (43 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTT
Found at i:97076923 original size:41 final size:41
Alignment explanation
Indices: 97076878--97076967 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
97076868 GCAGGCAAAA
* * *
97076878 TGCCGGTGAATGAATTTAGACTTAAAATCTAGCAGGCTTCG
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTAG
* ** *
97076919 TGCCGGTG-ATGAATTCGGGTTTAAAACCTAGCAGGCTTAT
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTAG
97076959 TGCCGGTGA
1 TGCCGGTGA
97076968 TTTGATAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 33 0.80
41 8 0.20
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (41 bp):
TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTAG
Found at i:97077481 original size:16 final size:18
Alignment explanation
Indices: 97077450--97077482 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
97077440 AACTCGTCAC
97077450 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
97077468 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
97077483 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:97081598 original size:43 final size:43
Alignment explanation
Indices: 97081537--97081632 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
97081527 CATTCAGGCA
97081537 TCGAGCCTAGCAGGCTATAATACCGATGAAATAATATCGGGCC
1 TCGAGCCTAGCAGGCTATAATACCGATGAAATAATATCGGGCC
* *
97081580 TCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCC
1 TCGAGCCTAGCAGGCTATAATACCGATGAAATAATATCGGGCC
97081623 TCGAGCCTAG
1 TCGAGCCTAG
97081633 TATGTAACAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (43 bp):
TCGAGCCTAGCAGGCTATAATACCGATGAAATAATATCGGGCC
Found at i:97083157 original size:80 final size:80
Alignment explanation
Indices: 97083073--97083221 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
97083063 TATGGTAACC
* * * *
97083073 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
97083137 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
97083153 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
97083218 CCGG
66 CCGG
97083222 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:97083163 original size:40 final size:38
Alignment explanation
Indices: 97083114--97083221 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
97083104 ATCACGATTT
*
97083114 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
97083154 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
97083194 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
97083222 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:97085080 original size:40 final size:40
Alignment explanation
Indices: 97084981--97085083 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
97084971 GTTTAGAGCG
* * *
97084981 TAGCAGGCAAAATGCCGATGAATGAATTCAGACTTAAAATC
1 TAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAACC
*** * * **
97085022 TAGCAGGCTTCGTCCCGGTGATGAATTCGGGTTTAAAACC
1 TAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAACC
*
97085062 TAGCAGGCTAATTGCCGGTGAT
1 TAGCAGGCTAAATGCCGGTGAT
97085084 TTGATAACAG
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
40 34 0.71
41 14 0.29
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (40 bp):
TAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAACC
Found at i:97085596 original size:16 final size:18
Alignment explanation
Indices: 97085565--97085597 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
97085555 AACTCGTCAC
97085565 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
97085583 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
97085598 AATTCATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:97099049 original size:40 final size:39
Alignment explanation
Indices: 97098881--97099051 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
97098871 AGAAATTGAA
* *
97098881 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
97098921 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
97098961 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
97099001 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
97099041 TGATATCCGGG
1 TGATATCCGGG
97099052 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:97107078 original size:40 final size:39
Alignment explanation
Indices: 97106910--97107080 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
97106900 AGAAATTGAA
* *
97106910 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
97106950 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
97106990 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
97107030 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
97107070 TGATATCCGGG
1 TGATATCCGGG
97107081 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:97122778 original size:16 final size:16
Alignment explanation
Indices: 97122757--97122791 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
97122747 GTAGCCAAAC
97122757 TTTTGGCATTTCGACT
1 TTTTGGCATTTCGACT
*
97122773 TTTTGGCATTTCGGCT
1 TTTTGGCATTTCGACT
97122789 TTT
1 TTT
97122792 GCCGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTTGGCATTTCGACT
Found at i:97126584 original size:25 final size:25
Alignment explanation
Indices: 97126537--97126584 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
97126527 TTATAATATG
* * *
97126537 AAAATGACCATTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
97126562 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
97126585 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:97126646 original size:20 final size:20
Alignment explanation
Indices: 97126621--97126691 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
97126611 ATTTTGATAA
**
97126621 ACATGATATGTATGGCATGC
1 ACATGATATGTATGATATGC
*
97126641 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
97126661 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
97126681 ACATGAGATGT
1 ACATGATATGT
97126692 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:97126816 original size:24 final size:23
Alignment explanation
Indices: 97126737--97126902 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
97126727 GAGGAAGTGC
97126737 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97126760 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97126783 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
97126806 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
97126830 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
97126854 GAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
97126878 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
97126902 A
1 A
97126903 TGATAAAGCA
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 67 0.51
24 54 0.41
25 10 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:97126829 original size:47 final size:46
Alignment explanation
Indices: 97126738--97126902 Score: 224
Period size: 47 Copynumber: 3.5 Consensus size: 46
97126728 AGGAAGTGCA
*
97126738 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
97126784 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* * *
97126831 AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTACTA
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTA-TT
*
97126879 AAAGAGGC-TAGGCCTCCAGTTATA
1 AAAG-GGCTTATGCC-CCAGTTATA
97126903 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
46 22 0.20
47 63 0.58
48 13 0.12
49 10 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:97127128 original size:31 final size:31
Alignment explanation
Indices: 97127093--97127156 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
97127083 CGTTTACAGT
97127093 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
97127124 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97127155 AA
1 AA
97127157 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:97129194 original size:43 final size:43
Alignment explanation
Indices: 97129144--97129280 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 43
97129134 TCCCGGACGT
* *
97129144 GGTCTTACATGTAATTCAATATTGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAATTCAATATTGATGCCTATGTCCCAGACAC
** * *
97129187 GGTCTTACA-CAAAATCAGATA-TGATG-CTGATGTCCCAGACAT
1 GGTCTTACATGTAATTCA-ATATTGATGCCT-ATGTCCCAGACAC
* * *
97129229 GGTCTTATATGTAAATCTC-A-ATTGAGGCCTGTGTCCCAGACAC
1 GGTCTTACATGT-AAT-TCAATATTGATGCCTATGTCCCAGACAC
*
97129272 AGTCTTACA
1 GGTCTTACA
97129281 CGATGTCTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.03
42 30 0.41
43 35 0.48
44 4 0.05
45 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATTGATGCCTATGTCCCAGACAC
Found at i:97130317 original size:86 final size:85
Alignment explanation
Indices: 97130212--97130372 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
97130202 GATATGTGAT
* * *
97130212 TTCGTGTAAGACCACGTCTGGGA-TGTTAGCATCGATTTGTGATTTGCATATAAGACCATGTCTG
1 TTCGTGTAAGACCACGTCTGGGACAG-TAGCATCGATATGTGA-TTACATATAAGACCATGTCTG
97130276 GGACATCGGCATCGTATATGAG
64 GGACATCGGCATCGTATATGAG
* *
97130298 TTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGG
1 TTCGTGTAAGACCAC-GTCTGGGACAGTAGCATCGATATGTGATTACATATAAGACCATGTCTGG
*
97130362 GACATTGGCAT
65 GACATCGGCAT
97130373 TGTACGACCT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 31 0.46
86 35 0.52
87 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (85 bp):
TTCGTGTAAGACCACGTCTGGGACAGTAGCATCGATATGTGATTACATATAAGACCATGTCTGGG
ACATCGGCATCGTATATGAG
Found at i:97130363 original size:43 final size:43
Alignment explanation
Indices: 97130202--97130372 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
97130192 ATAGGATTCT
* * * * *
97130202 GATATGTGATTTCGTGTAAGACCACGTCTGGGA-TGTTAGCATC
1 GATATGTGAGTTCATGTAAGACCATGTCTGGGACAG-TGGCATC
* * *
97130245 GATTTGTGATTTGCATATAAGACCATGTCTGGGACA-TCGGCATC
1 GATATGTGAGTT-CATGTAAGACCATGTCTGGGACAGT-GGCATC
* * *
97130289 G-TATATGAGTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
1 GATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCATC
*
97130331 GATATGTGA-TTACATGTAAGACCATGTCTGGGACATTGGCAT
1 GATATGTGAGTT-CATGTAAGACCATGTCTGGGACAGTGGCAT
97130373 TGTACGACCT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.27
43 53 0.50
44 24 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCATC
Found at i:97131168 original size:19 final size:19
Alignment explanation
Indices: 97131144--97131182 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
97131134 GGTAAATTTG
97131144 ATATATGTA-GTTGATGAAT
1 ATATATGTAGGTT-ATGAAT
*
97131163 ATATATTTAGGTTATGAAT
1 ATATATGTAGGTTATGAAT
97131182 A
1 A
97131183 ATTAATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (19 bp):
ATATATGTAGGTTATGAAT
Found at i:97135344 original size:27 final size:27
Alignment explanation
Indices: 97135306--97135644 Score: 414
Period size: 27 Copynumber: 12.6 Consensus size: 27
97135296 AAAGTACTCC
*
97135306 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
97135333 C-AGGTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
97135360 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
97135387 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
97135414 C-ATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
97135440 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
97135466 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
97135494 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
97135521 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
97135548 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
97135575 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
97135602 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
97135629 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
97135645 TAAAATACCC
Statistics
Matches: 271, Mismatches: 36, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
26 27 0.10
27 242 0.89
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:97135681 original size:81 final size:81
Alignment explanation
Indices: 97135354--97135688 Score: 253
Period size: 81 Copynumber: 4.1 Consensus size: 81
97135344 ATTACTATTT
** * * * ***
97135354 TACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTC-ATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* *****
97135418 TACAGAATTACTATTT
66 TATAGAATTACCGCAA
* * *** *
97135434 TACCCTCGATTTACAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGAT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTCGAT
* * * ***
97135498 TTACATAATTATCGTTT
65 TTATAGAATTACCGCAA
* * ***
97135515 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
97135580 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
97135596 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
97135661 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
97135677 TACCCTCAATTT
1 TACCCTCGATTT
97135689 GTAAAACTAC
Statistics
Matches: 215, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 54 0.25
81 160 0.74
82 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:97136982 original size:9 final size:9
Alignment explanation
Indices: 97136968--97137024 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
97136958 TTTTGATAAC
97136968 ATGATATGT
1 ATGATATGT
*
97136977 ATGATATGCAC
1 ATGATATG--T
*
97136988 ATGACATGT
1 ATGATATGT
*
97136997 ATGATATGCAC
1 ATGATATG--T
97137008 ATGATATGT
1 ATGATATGT
97137017 ATGATATG
1 ATGATATG
97137025 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:97136991 original size:20 final size:20
Alignment explanation
Indices: 97136966--97137028 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
97136956 GATTTTGATA
97136966 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
97136986 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
97137006 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
97137026 ACA
1 ACA
97137029 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:97137139 original size:24 final size:23
Alignment explanation
Indices: 97137083--97137271 Score: 274
Period size: 24 Copynumber: 8.0 Consensus size: 23
97137073 GAGGAAGTGA
97137083 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97137106 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
97137129 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
97137153 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
97137177 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
97137201 -AAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97137223 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
97137247 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
97137271 A
1 A
97137272 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
22 21 0.14
23 42 0.27
24 81 0.53
25 10 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:97137498 original size:31 final size:31
Alignment explanation
Indices: 97137463--97137526 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
97137453 CGTTTACCGT
*
97137463 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
97137494 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97137525 AA
1 AA
97137527 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:97141614 original size:43 final size:43
Alignment explanation
Indices: 97141521--97141634 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
97141511 ACACATATTG
* * * * * *
97141521 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCCAATAACA
97141564 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATC-CAATAACA
*
97141607 ATTCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
97141635 TGTAACCACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 61 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCCAATAACA
Found at i:97146396 original size:44 final size:45
Alignment explanation
Indices: 97146318--97146403 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
97146308 CAAAACATGT
97146318 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
1 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
* * *
97146363 GTCACATATATCA-GAATTCAAACCACAAGTCAATAAGTTCA
1 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCA
97146404 AATTACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (45 bp):
GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
Found at i:97153371 original size:49 final size:49
Alignment explanation
Indices: 97153243--97153545 Score: 429
Period size: 49 Copynumber: 6.3 Consensus size: 49
97153233 CCCTTCGGGA
* * * * * * * *
97153243 CTTATCACAT-T-TATACGCTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
97153290 CCTATCACATATAT--ACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
97153337 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
97153386 CTTATCACATATATACACACTTTCACATTCATCACATCGGTCGTTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
97153435 CTTATCACATATATACACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
97153484 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
97153531 CTTATCACATATATA
1 CTTATCACATATATA
97153546 TATCTCATAC
Statistics
Matches: 235, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 91 0.39
48 2 0.01
49 142 0.60
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:97174958 original size:37 final size:34
Alignment explanation
Indices: 97174908--97174979 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
97174898 AAGTGTGCCG
* *
97174908 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
97174945 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
97174979 T
1 T
97174980 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:97180538 original size:31 final size:31
Alignment explanation
Indices: 97180498--97180576 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
97180488 CAACACATAT
*
97180498 TGGGCCGAAGCCTTTACATTTTTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
* *
97180529 TGGGTCGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
97180560 TGGGCCGAAGCCTTTAC
1 TGGGCCGAAGCCTTTAC
97180577 TGTAACAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:97180808 original size:25 final size:26
Alignment explanation
Indices: 97180793--97180889 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
97180783 CTCTTTTAAT
97180793 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
*
97180819 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
97180845 AACTGGGGC-AAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
97180870 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
97180890 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 32 0.49
26 33 0.51
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGATA
Found at i:97180872 original size:51 final size:51
Alignment explanation
Indices: 97180793--97180889 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
97180783 CTCTTTTAAT
*
97180793 AACTGGGGCAAAAGCCCTTTTTGATAAACTAGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATAAACTAGGGC-AAAGCCCTTTTTGATA
* *
97180845 AACTGGGGC-AAAGCCCTTTTCGGTAAACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTTCGATAAACTAGGGCAAAGCCCTTTT
97180890 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 10 0.24
51 23 0.55
52 9 0.21
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAAGCCCTTTTCGATAAACTAGGGCAAAGCCCTTTTTGATA
Found at i:97180953 original size:11 final size:11
Alignment explanation
Indices: 97180937--97180975 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
97180927 TATATAAATT
97180937 TATCATGTACA
1 TATCATGTACA
97180948 TATCA--TACA
1 TATCATGTACA
*
97180957 TATCATGTGCA
1 TATCATGTACA
97180968 TATCATGT
1 TATCATGT
97180976 CAAATAATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (11 bp):
TATCATGTACA
Found at i:97182294 original size:12 final size:12
Alignment explanation
Indices: 97182277--97182301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97182267 CCCTACCTAT
97182277 TAACAATATTTA
1 TAACAATATTTA
97182289 TAACAATATTTA
1 TAACAATATTTA
97182301 T
1 T
97182302 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:97204645 original size:2 final size:2
Alignment explanation
Indices: 97204638--97204676 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
97204628 TTGTCACTTT
97204638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97204677 ATGATAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97205420 original size:33 final size:33
Alignment explanation
Indices: 97205373--97205445 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
97205363 TTTAAAGATA
*
97205373 AAAAATAGAGAACTTAATCAATATTTAATTTAAT
1 AAAAATAGAGAACTTAAGCAA-ATTTAATTTAAT
* * *
97205407 AAAAATA-ATAACTTAAGGAAATTTATTTTAAT
1 AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
*
97205439 AAGAATA
1 AAAAATA
97205446 TATTTTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 17 0.50
33 10 0.29
34 7 0.21
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (33 bp):
AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
Found at i:97206846 original size:21 final size:21
Alignment explanation
Indices: 97206820--97206871 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
97206810 CCCGTATAGT
*
97206820 CCACACGGCCTAACCCAAAAC
1 CCACACGCCCTAACCCAAAAC
* *
97206841 CTACACGCCCTAGCCCAAAAC
1 CCACACGCCCTAACCCAAAAC
97206862 CCACACGCCC
1 CCACACGCCC
97206872 GTGTGGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.10, T:0.06
Consensus pattern (21 bp):
CCACACGCCCTAACCCAAAAC
Found at i:97208694 original size:221 final size:221
Alignment explanation
Indices: 97208306--97208747 Score: 776
Period size: 221 Copynumber: 2.0 Consensus size: 221
97208296 TTCTATGGAG
97208306 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
* * * * *
97208371 GACTTCTGTCTATTAGAAACTGCCTTCAGATTATCCATAATCATTCTAACATTATGTTCAGTCTC
66 GACTTCTGTCTATCAGAAACTGCCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
*
97208436 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTTAGTCCAACATAACGGAGTACGAC
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAGTCCAACATAACGGAGTACGAC
*
97208501 ACTTACGGCCTTACAAAGCCTCATAA
196 ACTTACGGCCATACAAAGCCTCATAA
*
97208527 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
*
97208592 GACTTCTGTCTATCAGAAACTGCCTTCAGATGATCCATAATCATCCTAACCTTATCTTCAATCTC
66 GACTTCTGTCTATCAGAAACTGCCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
**
97208657 AGAAACCAACTCAGGACCCAAAACCCTACGTTCACCCAACTCAGTCCAACATAACGGAGTACGAC
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAGTCCAACATAACGGAGTACGAC
*
97208722 ACTTACGGTCATACAAAGCCTCATAA
196 ACTTACGGCCATACAAAGCCTCATAA
97208748 GGTGCCATCT
Statistics
Matches: 209, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
221 209 1.00
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (221 bp):
AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
GACTTCTGTCTATCAGAAACTGCCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAGTCCAACATAACGGAGTACGAC
ACTTACGGCCATACAAAGCCTCATAA
Found at i:97212571 original size:13 final size:13
Alignment explanation
Indices: 97212553--97212598 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
97212543 AATAATATTT
97212553 ATAATATAAATAC
1 ATAATATAAATAC
*
97212566 ATAATA-ATAATGAT
1 ATAATATA-AAT-AC
97212580 ATAATATAAATAC
1 ATAATATAAATAC
97212593 ATAATA
1 ATAATA
97212599 ATATAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.57
14 10 0.36
15 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATATAAATAC
Found at i:97212572 original size:16 final size:16
Alignment explanation
Indices: 97212553--97212605 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
97212543 AATAATATTT
97212553 ATAATATAAATACATA
1 ATAATATAAATACATA
*
97212569 AT-A-AT-AAT-GAT-
1 ATAATATAAATACATA
97212580 ATAATATAAATACATA
1 ATAATATAAATACATA
97212596 ATAATATAAA
1 ATAATATAAA
97212606 AGAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 5 0.17
14 5 0.17
15 3 0.10
16 12 0.40
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAATATAAATACATA
Found at i:97212611 original size:21 final size:20
Alignment explanation
Indices: 97212553--97212613 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
97212543 AATAATATTT
97212553 ATAATATAAATACATAATAATA
1 ATAATATAAA-ACA-AATAATA
* * *
97212575 ATGATATAATATAAATACATA
1 ATAATATAAAACAAATA-ATA
*
97212596 ATAATATAAAAGAAATAA
1 ATAATATAAAACAAATAA
97212614 AACATAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 5 0.16
21 19 0.59
22 8 0.25
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
ATAATATAAAACAAATAATA
Found at i:97212612 original size:27 final size:27
Alignment explanation
Indices: 97212555--97212620 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
97212545 TAATATTTAT
* * *
97212555 AATATAAATACATAATAATAATGATAT
1 AATATAAATACATAATAATAATAAAAA
*
97212582 AATATAAATACATAATAAT-ATAAAAG
1 AATATAAATACATAATAATAATAAAAA
97212608 AA-ATAAA-ACATAA
1 AATATAAATACATAA
97212621 AGAAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 6 0.17
27 19 0.53
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (27 bp):
AATATAAATACATAATAATAATAAAAA
Found at i:97222654 original size:47 final size:47
Alignment explanation
Indices: 97222585--97222679 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
97222575 AGAAGAAAAT
97222585 TCACTATGTCAAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCAAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
*
97222632 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCAAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
97222679 T
1 T
97222680 ATTTATAGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (47 bp):
TCACTATGTCAAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
Found at i:97223593 original size:24 final size:25
Alignment explanation
Indices: 97223565--97223622 Score: 102
Period size: 24 Copynumber: 2.4 Consensus size: 25
97223555 TTTCATTTTA
97223565 TTTTGA-TTACCCAACTATTAATTT
1 TTTTGACTTACCCAACTATTAATTT
97223589 TTTTGACTTACCCAACTATTAA-TT
1 TTTTGACTTACCCAACTATTAATTT
97223613 TTTTGACTTA
1 TTTTGACTTA
97223623 GTCATTAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (25 bp):
TTTTGACTTACCCAACTATTAATTT
Found at i:97224508 original size:2 final size:2
Alignment explanation
Indices: 97224501--97224573 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
97224491 ATGATAGCAA
97224501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97224543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97224574 CTAGTTTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:97235462 original size:5 final size:5
Alignment explanation
Indices: 97235454--97235498 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
97235444 ATTTTATGTT
97235454 ATATA ATATA ATAATA ATATA ATATA ATATA ATAATA ATATA ATA
1 ATATA ATATA AT-ATA ATATA ATATA ATATA AT-ATA ATATA ATA
97235499 ACATAATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:97235469 original size:3 final size:3
Alignment explanation
Indices: 97235456--97235499 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
97235446 TTTATGTTAT
97235456 ATA AT- ATA ATA ATA AT- ATA AT- ATA AT- ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
97235499 A
1 A
97235500 CATAATATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 10 0.28
3 26 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:97235469 original size:8 final size:8
Alignment explanation
Indices: 97235456--97235506 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
97235446 TTTATGTTAT
97235456 ATAATATA
1 ATAATATA
97235464 ATAATA-A
1 ATAATATA
97235471 TATAATATA
1 -ATAATATA
97235480 AT-ATAATA
1 ATAAT-ATA
97235488 ATAATATA
1 ATAATATA
*
97235496 ATAACATA
1 ATAATATA
97235504 ATA
1 ATA
97235507 TCATTTACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 3 0.08
8 32 0.84
9 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:97235475 original size:16 final size:16
Alignment explanation
Indices: 97235454--97235499 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
97235444 ATTTTATGTT
97235454 ATATAATATAATAATA
1 ATATAATATAATAATA
97235470 ATATAATATAAT-ATA
1 ATATAATATAATAATA
97235485 ATAATAATATAATAA
1 AT-ATAATATAATAA
97235500 CATAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.18
16 22 0.79
17 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAATATAATAATA
Found at i:97235478 original size:21 final size:21
Alignment explanation
Indices: 97235454--97235498 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
97235444 ATTTTATGTT
97235454 ATATAATATAATAATAATATA
1 ATATAATATAATAATAATATA
97235475 ATATAATATAATAATAATATA
1 ATATAATATAATAATAATATA
97235496 ATA
1 ATA
97235499 ACATAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATAATAATAATATA
Found at i:97237077 original size:22 final size:22
Alignment explanation
Indices: 97237050--97237095 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
97237040 GGTAAATGTG
97237050 TGAAATAATTGAAATTGTGAGA
1 TGAAATAATTGAAATTGTGAGA
97237072 TGAAATAATTGAAATTGTGAGA
1 TGAAATAATTGAAATTGTGAGA
97237094 TG
1 TG
97237096 CTATAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (22 bp):
TGAAATAATTGAAATTGTGAGA
Found at i:97237604 original size:48 final size:48
Alignment explanation
Indices: 97237552--97237820 Score: 206
Period size: 48 Copynumber: 5.6 Consensus size: 48
97237542 TATGTGTGCT
* *
97237552 AGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
* * * * * * * *
97237600 AGTGTAAAACCATGTTTGGAACATGGCA-TCGACAATGTTATAAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAG-CCATGATATGAGAGCC
* * * * *
97237648 AGTGTAAGACCATGTCCGGGACATGGCATT-GACATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCA-TGATATGAGAGCC
* * * * * * *
97237696 AGTGTAAGACCATGTTTGGGTCATGGCATCAG-TATTA-AGAGAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATA-TG-AGAGCC
* * * *
97237744 AGTGTAAGACCATGTCTGGGACATGGTATTGGCC-TCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCAT-GATATGAGAGCC
* *
97237792 AATGTAAGACCATGTCTGAGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
97237821 CTATAATTTA
Statistics
Matches: 168, Mismatches: 44, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
46 1 0.01
47 6 0.04
48 156 0.93
49 4 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
Found at i:97237721 original size:96 final size:96
Alignment explanation
Indices: 97237552--97237821 Score: 287
Period size: 96 Copynumber: 2.8 Consensus size: 96
97237542 TATGTGTGCT
* * * *
97237552 AGTGTAAGACCATGTCTGGGACATGGCGTTAGCCA-CGATATGAGAGCCAGTGTAAAACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATT-GACATCGATATGTGAGCCAGTGTAAGACCATGTT
* * *
97237616 TGGAACATGGCATC-G-A-CAATGTTATAAGATCC
65 TGGGACATGGCATCAGTATCAA-G--AGAAGAGCC
* * * *
97237648 AGTGTAAGACCATGTCCGGGACATGGCATTGACATTGATATGTGTGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACATCGATATGTGAGCCAGTGTAAGACCATGTTT
* * *
97237713 GGGTCATGGCATCAGTATTAAGAGAAGAGCT
66 GGGACATGGCATCAGTATCAAGAGAAGAGCC
* * * * * *
97237744 AGTGTAAGACCATGTCTGGGACATGGTATTGGCCTCGACATGTGAGCCAATGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACATCGATATGTGAGCCAGTGTAAGACCATGTTT
*
97237809 GAGACATGGCATC
66 GGGACATGGCATC
97237822 TATAATTTAC
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
95 3 0.02
96 136 0.94
97 1 0.01
98 2 0.01
99 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGACATCGATATGTGAGCCAGTGTAAGACCATGTTT
GGGACATGGCATCAGTATCAAGAGAAGAGCC
Found at i:97245647 original size:7 final size:6
Alignment explanation
Indices: 97245606--97245646 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
97245596 ATAATTTAAT
*
97245606 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
97245647 ACATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:97245647 original size:20 final size:21
Alignment explanation
Indices: 97245608--97245654 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
97245598 AATTTAATAA
**
97245608 ATAAAAATAAAAATCTAAAAC
1 ATAAAAATAAAAATAAAAAAC
97245629 -TAAAAATAAAAATAAAAAAC
1 ATAAAAATAAAAATAAAAAAC
97245649 ATAAAA
1 ATAAAA
97245655 TTTTATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAAAC
Found at i:97245680 original size:9 final size:9
Alignment explanation
Indices: 97245666--97245724 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
97245656 TTTATACAAA
97245666 TAATTCGGT
1 TAATTCGGT
97245675 TAATTCGGT
1 TAATTCGGT
* *
97245684 TAATTTGGG
1 TAATTCGGT
*
97245693 TAATTCGGG
1 TAATTCGGT
97245702 TAATTCGGT
1 TAATTCGGT
*
97245711 TGATTCGGT
1 TAATTCGGT
97245720 TAATT
1 TAATT
97245725 TTATACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:97246626 original size:5 final size:5
Alignment explanation
Indices: 97246618--97246704 Score: 174
Period size: 5 Copynumber: 17.4 Consensus size: 5
97246608 TTTATGTTAC
97246618 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
97246668 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
97246705 CATTTACTTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 82 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:97247608 original size:21 final size:22
Alignment explanation
Indices: 97247567--97247608 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
97247557 TATTAATTAT
*
97247567 TATATTAAATGTAAGATTTTGG
1 TATATTAAATGTAAAATTTTGG
97247589 TATA-TAAA-GTAAAATATTTG
1 TATATTAAATGTAAAAT-TTTG
97247609 TATCTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATTAAATGTAAAATTTTGG
Found at i:97248974 original size:18 final size:18
Alignment explanation
Indices: 97248951--97248994 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
97248941 CCATATAAAG
*
97248951 CTTTCTTTAACCTACGCA
1 CTTTCTTTAACCTACACA
97248969 CTTTCTTTAACCTACACA
1 CTTTCTTTAACCTACACA
*
97248987 TTTTCTTT
1 CTTTCTTT
97248995 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (18 bp):
CTTTCTTTAACCTACACA
Found at i:97257397 original size:12 final size:12
Alignment explanation
Indices: 97257382--97257406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97257372 AGTTCACCGA
97257382 GGAGTGAAGGGG
1 GGAGTGAAGGGG
97257394 GGAGTGAAGGGG
1 GGAGTGAAGGGG
97257406 G
1 G
97257407 TGATGGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.68, T:0.08
Consensus pattern (12 bp):
GGAGTGAAGGGG
Found at i:97259660 original size:21 final size:20
Alignment explanation
Indices: 97259635--97259674 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97259625 TCTTTTTGCG
97259635 GGTTTATATTTAGGATTTATT
1 GGTTTATATTT-GGATTTATT
* *
97259656 GGTTTCTATTTGGTTTTAT
1 GGTTTATATTTGGATTTAT
97259675 ATTAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (20 bp):
GGTTTATATTTGGATTTATT
Found at i:97260954 original size:17 final size:18
Alignment explanation
Indices: 97260920--97260962 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
97260910 AAAGATTTCA
97260920 TTTACAAAACAATAAATTT
1 TTTA-AAAACAATAAATTT
*
97260939 TTTAAAAAC-ATTAATTT
1 TTTAAAAACAATAAATTT
97260956 TGTTAAA
1 T-TTAAA
97260963 TAGTGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 10 0.45
19 4 0.18
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTAAAAACAATAAATTT
Found at i:97260993 original size:22 final size:23
Alignment explanation
Indices: 97260950--97260993 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
97260940 TTAAAAACAT
* * *
97260950 TAATTTTGTTAAATAGTGAATGA
1 TAATTTTGTTAAACAATAAATGA
97260973 TAATTTT-TTAAACAATAAATG
1 TAATTTTGTTAAACAATAAATG
97260994 TTAGCTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
TAATTTTGTTAAACAATAAATGA
Found at i:97268307 original size:43 final size:43
Alignment explanation
Indices: 97268259--97268345 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
97268249 TTTGATTTTA
97268259 AGAGAAAATTCATATGCTTTTTACATTTATTGCTTCTCGCACT
1 AGAGAAAATTCATATGCTTTTTACATTTATTGCTTCTCGCACT
97268302 AGAGAAAATTCATATGCTTTTTACATTTATTGCTTCTCGCACT
1 AGAGAAAATTCATATGCTTTTTACATTTATTGCTTCTCGCACT
97268345 A
1 A
97268346 ACTCCAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (43 bp):
AGAGAAAATTCATATGCTTTTTACATTTATTGCTTCTCGCACT
Found at i:97280712 original size:46 final size:46
Alignment explanation
Indices: 97280544--97280714 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
97280534 GGTTGAGCAT
*
97280544 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
97280589 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
97280634 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
97280682 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
97280715 GGGGCAGGTT
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 28 0.26
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:97291168 original size:27 final size:27
Alignment explanation
Indices: 97291118--97291197 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
97291108 AACACGTCGG
* *
97291118 GAAAGAAAAGCCCTTGTGACGAAATGT
1 GAAAGAAAAGCCTTTGTGACGAAATAT
* **
97291145 GAAAGAAAAGCCTTTTTGGTGAAATAT
1 GAAAGAAAAGCCTTTGTGACGAAATAT
* * *
97291172 GAAAGGAATGCCTTTGTGTC-AAATAT
1 GAAAGAAAAGCCTTTGTGACGAAATAT
97291198 TGAATGGATC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGACGAAATAT
Found at i:97295228 original size:29 final size:29
Alignment explanation
Indices: 97295196--97295266 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
97295186 ATTCATATAA
*
97295196 CCCATTAGGCCCAAATCACCTGTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
* *
97295225 CCCATTAGGCCCAATTCACATTTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
* *
97295254 CCCGTTCGGCCCA
1 CCCATTAGGCCCA
97295267 GTCACATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATGTATATGG
Found at i:97295508 original size:16 final size:16
Alignment explanation
Indices: 97295489--97295547 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
97295479 ACTTTCAGCT
*
97295489 TTTCGATATTTCGGCA
1 TTTCGACATTTCGGCA
* *
97295505 TTTCGGCATTTTGGCA
1 TTTCGACATTTCGGCA
* * **
97295521 TTTTGACTTTTCGATA
1 TTTCGACATTTCGGCA
97295537 TTTCGACATTT
1 TTTCGACATTT
97295548 TGGATTTTAT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCGACATTTCGGCA
Found at i:97310053 original size:25 final size:26
Alignment explanation
Indices: 97310025--97310073 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
97310015 CTTTAATTGT
*
97310025 CAATTTGGTAATTTTTTT-ATTTATG
1 CAATTTAGTAATTTTTTTCATTTATG
*
97310050 CAATTTAGTCATTTTTTTCATTTA
1 CAATTTAGTAATTTTTTTCATTTA
97310074 AACCCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (26 bp):
CAATTTAGTAATTTTTTTCATTTATG
Found at i:97314263 original size:28 final size:28
Alignment explanation
Indices: 97314196--97314267 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
97314186 ATAGTGAATC
* * *
97314196 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAACT
97314225 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATAGATATC-AACT
97314253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
97314268 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAACT
Found at i:97322168 original size:30 final size:29
Alignment explanation
Indices: 97322074--97322175 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
97322064 TATAGTGAAT
* * *
97322074 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
97322103 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
97322131 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
97322161 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
97322176 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:97323484 original size:29 final size:29
Alignment explanation
Indices: 97323452--97323524 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
97323442 CTTCGAGCTC
*
97323452 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
97323481 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
97323510 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
97323525 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:97329051 original size:20 final size:19
Alignment explanation
Indices: 97329035--97329072 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
97329025 TAAATGATAG
97329035 AATA-ATGAGAAAAATGAA
1 AATAGATGAGAAAAATGAA
97329053 AATAGTATGAGAAAAATGAA
1 AATAG-ATGAGAAAAATGAA
97329073 GATTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (19 bp):
AATAGATGAGAAAAATGAA
Found at i:97340565 original size:11 final size:11
Alignment explanation
Indices: 97340551--97340607 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
97340541 TGTTTATCTT
97340551 ATTTATTTTTA
1 ATTTATTTTTA
*
97340562 ATTTTCTTTTTTA
1 A-TTT-ATTTTTA
*
97340575 ATTTTAATTTT-
1 A-TTTATTTTTA
*
97340586 ATTTATTTTTT
1 ATTTATTTTTA
97340597 ATTTATTTTTA
1 ATTTATTTTTA
97340608 TCAATCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 8 0.21
11 12 0.32
12 7 0.18
13 11 0.29
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:97340569 original size:19 final size:19
Alignment explanation
Indices: 97340547--97340585 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
97340537 CTTTTGTTTA
*
97340547 TCTTATTTATTTTTAATTT
1 TCTTATTTAATTTTAATTT
*
97340566 TCTTTTTTAATTTTAATTT
1 TCTTATTTAATTTTAATTT
97340585 T
1 T
97340586 ATTTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTTATTTAATTTTAATTT
Found at i:97342092 original size:6 final size:6
Alignment explanation
Indices: 97342081--97342120 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
97342071 TCTGAGTCCA
97342081 TTTATT TTTA-T TTTA-T TTTATT TTTATT TTTA-T TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
97342121 ATTTTTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Done.