Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 202 of 226
Found at i:60541388 original size:16 final size:16
Alignment explanation
Indices: 60541367--60541399 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60541357 TCTTGAGATA
60541367 AGGTTTATATTTATTC
1 AGGTTTATATTTATTC
60541383 AGGTTTATATTTATTC
1 AGGTTTATATTTATTC
60541399 A
1 A
60541400 AATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (16 bp):
AGGTTTATATTTATTC
Found at i:60541405 original size:16 final size:16
Alignment explanation
Indices: 60541370--60541406 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
60541360 TGAGATAAGG
**
60541370 TTTATATTTATTCAGG
1 TTTATATTTATTCAAA
60541386 TTTATATTTATTCAAA
1 TTTATATTTATTCAAA
60541402 TTTAT
1 TTTAT
60541407 TATTGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTATATTTATTCAAA
Found at i:60549968 original size:12 final size:12
Alignment explanation
Indices: 60549951--60549976 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60549941 CAAAACAGGC
60549951 TTTTAGCGGCAT
1 TTTTAGCGGCAT
60549963 TTTTAGCGGCAT
1 TTTTAGCGGCAT
60549975 TT
1 TT
60549977 GGACAAAAAC
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:60550070 original size:40 final size:40
Alignment explanation
Indices: 60549994--60550088 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
60549984 AACGTCGCTA
* *
60549994 AAAT-TTGAGCATTAGCGGTGCCTTACGTAAAACGCCACT
1 AAATATTGAGCATTAGCGATGCCTTACCTAAAACGCCACT
* *
60550033 AAATATTGAGCATTAGCGATG-CTTTCCTCAAAGCGCCACT
1 AAATATTGAGCATTAGCGATGCCTTACCT-AAAACGCCACT
**
60550073 AAA-AAAGAGCATTAGC
1 AAATATTGAGCATTAGC
60550089 AGCGTCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 20 0.42
40 28 0.58
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (40 bp):
AAATATTGAGCATTAGCGATGCCTTACCTAAAACGCCACT
Found at i:60550218 original size:41 final size:41
Alignment explanation
Indices: 60550156--60550303 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
60550146 CCTTTCGGGG
* *
60550156 CTTTAGCGCCGTTTTTTAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * * * *
60550197 CTTTAACGGTGTTTTTGAAAAAACGCTGCTAATGCTTAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * * **
60550238 CTTTAGCGGCGTTTTTAAAAAAGCACCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
60550279 CTTTAGCGGCGTTTTTGAAAAAGCG
1 CTTTAGCGGCGTTTTTGAAAAAGCG
60550304 TCAAACATTT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:60550745 original size:14 final size:14
Alignment explanation
Indices: 60550726--60550764 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
60550716 GGGATTCTGG
60550726 TTTAAGGGTTATGA
1 TTTAAGGGTTATGA
*
60550740 TTTAAGGTTTATGA
1 TTTAAGGGTTATGA
* *
60550754 GTTAGGGGTTA
1 TTTAAGGGTTA
60550765 GGGGTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAAGGGTTATGA
Found at i:60553855 original size:15 final size:15
Alignment explanation
Indices: 60553835--60553866 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60553825 ACCTCACAGG
60553835 CTAACAATACATTGT
1 CTAACAATACATTGT
60553850 CTAACAATACATTGT
1 CTAACAATACATTGT
60553865 CT
1 CT
60553867 GATATCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (15 bp):
CTAACAATACATTGT
Found at i:60556934 original size:26 final size:26
Alignment explanation
Indices: 60556905--60556956 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
60556895 CTTTAATAAA
*
60556905 AATTTGGTATGTAAGAGATTAATTGT
1 AATTTGGTAGGTAAGAGATTAATTGT
60556931 AATTTGGTAGGTAAGAGATTAATTGT
1 AATTTGGTAGGTAAGAGATTAATTGT
60556957 TTACGTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (26 bp):
AATTTGGTAGGTAAGAGATTAATTGT
Found at i:60561492 original size:87 final size:85
Alignment explanation
Indices: 60561326--60561501 Score: 217
Period size: 87 Copynumber: 2.0 Consensus size: 85
60561316 TTTGGTTTAT
* * * * * * *
60561326 GGTTGTATATACCACATGTTTAGTTGGATTAAGCATATTTTTCTAGTTTTATATGTTGGCAACAT
1 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
* *
60561391 AATATTTTCTAGTAACAATATA
66 AATACTTTCCAGTAAC--TATA
* * *
60561413 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATTTTGACCACTT
1 GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
*
60561478 ATTACTTTCCAGTAACTATA
66 AATACTTTCCAGTAACTATA
60561498 GGTT
1 GGTT
60561502 TTTTTAATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 8 0.11
87 68 0.89
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (85 bp):
GGTTATATACACCACAAGTTTAGTTGGAGTAAGCATATTTTTCTACTTTTACATGTTGACAACAT
AATACTTTCCAGTAACTATA
Found at i:60566227 original size:25 final size:25
Alignment explanation
Indices: 60566175--60566225 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
60566165 ATCATTTAAT
*
60566175 AATAAACAATTTAAATTGTTTATAA
1 AATAAACAATTTAAATTATTTATAA
*
60566200 AATAAATAATTTAAA-TATTTATAA
1 AATAAACAATTTAAATTATTTATAA
60566224 AA
1 AA
60566226 ATGTTGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AATAAACAATTTAAATTATTTATAA
Found at i:60566465 original size:21 final size:21
Alignment explanation
Indices: 60566415--60566465 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
60566405 CCATTAATTT
*
60566415 TAATTTCACCACTATAATATC
1 TAATTTCACCACTATAATAAC
* * *
60566436 CAATATCACCTCTATAATAAC
1 TAATTTCACCACTATAATAAC
60566457 TAATTTCAC
1 TAATTTCAC
60566466 TACCACTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.35
Consensus pattern (21 bp):
TAATTTCACCACTATAATAAC
Found at i:60577226 original size:34 final size:35
Alignment explanation
Indices: 60577180--60577245 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
60577170 GTGTTTCAGC
60577180 TGGATTAACTCTTGTGAGCA-CTAGTGTGTTTGGA
1 TGGATTAACTCTTGTGAGCATCTAGTGTGTTTGGA
*
60577214 TGGATTAGCTCTTGTGAGCATCTAGTGTGTTT
1 TGGATTAACTCTTGTGAGCATCTAGTGTGTTT
60577246 TGGTTGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 19 0.63
35 11 0.37
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (35 bp):
TGGATTAACTCTTGTGAGCATCTAGTGTGTTTGGA
Found at i:60582610 original size:123 final size:123
Alignment explanation
Indices: 60582391--60582622 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
60582381 TAGATATAAC
* *
60582391 GGTGGCAGGCCTCGGCAAAAGCACTGGAGGAAAAGGTCGCGCCAGGGGTCTTTCACTTTTTCAAA
1 GGTGGCAAGCCTCGGCAAAAGCACTGGAGGAAAAGGTCGCACCAGGGGTCTTTCACTTTTTCAAA
* * * *
60582456 ACGGGGATGGTGACTTTGGACTTGTTGCGAGTGTTCGTCATGGTAAATCGAATATGAG
66 ACGGGGATGGCGACTTTGAACTTGCTGCGAGTGTTCCTCATGGTAAATCGAATATGAG
* * * * * **
60582514 GGTGGCAAGCCTCGGTAAAAGCGCTTGAGGAAGAGGTCGCACTAGGGGTCTTTTGCTTTTTCAAA
1 GGTGGCAAGCCTCGGCAAAAGCACTGGAGGAAAAGGTCGCACCAGGGGTCTTTCACTTTTTCAAA
*
60582579 GCTGGGG-TGGCGACTTTGAACTTGCTGCGAGTGTTCCTCATGGT
66 AC-GGGGATGGCGACTTTGAACTTGCTGCGAGTGTTCCTCATGGT
60582623 GTGCCTGAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 90 0.96
124 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.27
Consensus pattern (123 bp):
GGTGGCAAGCCTCGGCAAAAGCACTGGAGGAAAAGGTCGCACCAGGGGTCTTTCACTTTTTCAAA
ACGGGGATGGCGACTTTGAACTTGCTGCGAGTGTTCCTCATGGTAAATCGAATATGAG
Found at i:60582952 original size:26 final size:26
Alignment explanation
Indices: 60582909--60582969 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
60582899 TAATAATGAT
* * *
60582909 AAGAAACTAATGATAATAA-CATTAAG
1 AAGAAAATAATAACAATAAGCA-TAAG
*
60582935 AAGAAAATAATAACAATAAGCATAAT
1 AAGAAAATAATAACAATAAGCATAAG
60582961 AAGAAAATA
1 AAGAAAATA
60582970 GGACAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.20
Consensus pattern (26 bp):
AAGAAAATAATAACAATAAGCATAAG
Found at i:60588319 original size:29 final size:29
Alignment explanation
Indices: 60588277--60588335 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
60588267 AATCCGACGA
60588277 TTGAAATAGGTTAGGAGTGTTACACTACC
1 TTGAAATAGGTTAGGAGTGTTACACTACC
60588306 TTGAAATAGGTTAGGAGTGTTACACTACC
1 TTGAAATAGGTTAGGAGTGTTACACTACC
60588335 T
1 T
60588336 CTCTTCCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (29 bp):
TTGAAATAGGTTAGGAGTGTTACACTACC
Found at i:60589740 original size:19 final size:19
Alignment explanation
Indices: 60589715--60589801 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
60589705 AATTACAAAA
*
60589715 AAAAAATCAAAATTATTTTT
1 AAAAATTCAAAA-TATTTTT
*
60589735 AAAAATTTAAAATACTTTTT
1 AAAAATTCAAAATA-TTTTT
* *
60589755 -AAAATTGAAAATATTTAT
1 AAAAATTCAAAATATTTTT
60589773 AAACAATTTCAAAATTTATGTTTT
1 AAA-AA-TTCAAAA--TAT-TTTT
60589797 AAAAA
1 AAAAA
60589802 ATATTCTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 4 0.07
19 16 0.30
20 17 0.31
21 6 0.11
23 5 0.09
24 6 0.11
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:60597474 original size:19 final size:19
Alignment explanation
Indices: 60597430--60597474 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
60597420 TATATATACT
60597430 AAAAA-AATATAAAAATAA
1 AAAAATAATATAAAAATAA
* * *
60597448 CAATATAATATAAACATAA
1 AAAAATAATATAAAAATAA
60597467 AAAAATAA
1 AAAAATAA
60597475 AAAATATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATAATATAAAAATAA
Found at i:60597609 original size:11 final size:11
Alignment explanation
Indices: 60597593--60597627 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
60597583 TCCTTCCCCC
60597593 CTCCCTTCTCT
1 CTCCCTTCTCT
60597604 CTCCCTTCTCT
1 CTCCCTTCTCT
60597615 CTTCCC-TCTCT
1 C-TCCCTTCTCT
60597626 CT
1 CT
60597628 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:60598118 original size:3 final size:3
Alignment explanation
Indices: 60598094--60598161 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
60598084 AATATCCTTG
* * * *
60598094 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
60598142 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
60598162 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:60598171 original size:23 final size:23
Alignment explanation
Indices: 60598101--60598172 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
60598091 TTGTTATTTT
* *
60598101 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
60598123 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
60598148 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
60598171 TA
1 TA
60598173 GGTATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:60598171 original size:29 final size:26
Alignment explanation
Indices: 60598105--60598161 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
60598095 TATTTTTATA
* * *
60598105 TTATTAGTAT-TATTAGTAT-TAGTA
1 TTATTATTATGTATTAGTATATATTT
60598129 TTATTATTATGTATTAGTATATATTT
1 TTATTATTATGTATTAGTATATATTT
60598155 TTATTAT
1 TTATTAT
60598162 GTACGTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.32
25 9 0.32
26 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (26 bp):
TTATTATTATGTATTAGTATATATTT
Found at i:60598579 original size:64 final size:64
Alignment explanation
Indices: 60598500--60598631 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
60598490 GTCGTATTAT
*
60598500 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
60598561 GTA
62 GTA
* * *
60598564 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
60598628 TATA
1 TATA
60598632 ATGTTGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:60598606 original size:19 final size:18
Alignment explanation
Indices: 60598562--60598621 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
60598552 ATTATCATTG
60598562 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
60598580 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
60598602 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
60598622 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:60610001 original size:46 final size:44
Alignment explanation
Indices: 60609803--60610329 Score: 161
Period size: 44 Copynumber: 11.7 Consensus size: 44
60609793 ATTATACAGG
* *
60609803 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAGAA-TTCAGA
* * * ** **
60609849 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAGAATTCA-GA
* * ** * ** * *
60609893 TCTTATCTCTCTGAAGTTACAGCAGAGTAG--ATTGCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAGAATTCAGA
* * *
60609934 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAGAA-TTCAGA
** **
60609980 TCTTATCTCCCTGAGGTTACAGTGGAGCAG--ATTGAAGCCAGAAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAGAATTCAG--A
* * * * ** * *
60610024 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAG-AATTCAGA
* * * * ** **
60610068 TCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAGAATTCA-GA
* * * *
60610112 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG-ATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CA-A--AGAATT-----C--AGA
* * * *
60610166 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--CACTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAGAATTCA-GA
* * *
60610209 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATC-AA-AATGAT-AGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAGAAT--TCAGA
* * *
60610253 TCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAA-AATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-C-AAAGAA-TTCAGA
* *
60610299 TCTTATCTCCCTGAGATTACAATGGAGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
60610330 TTGAAGATAG
Statistics
Matches: 354, Mismatches: 89, Indels: 76
0.68 0.17 0.15
Matches are distributed among these distances:
41 27 0.08
42 9 0.03
43 39 0.11
44 138 0.39
45 4 0.01
46 95 0.27
47 3 0.01
48 5 0.01
51 3 0.01
53 1 0.00
54 29 0.08
55 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAGAATTCAGA
Found at i:60610033 original size:131 final size:130
Alignment explanation
Indices: 60609799--60610057 Score: 360
Period size: 131 Copynumber: 2.0 Consensus size: 130
60609789 GTTTATTATA
* *
60609799 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
* *
60609864 ATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATTGC
66 ATTACAGTGGAGCAGATTAAAACAAA-GATCTTATCTCTCTGAGA-TTACAGCAGAGTAGATTGC
60609928 AT
129 AT
* ** *
60609930 CAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
* ** *
60609995 GTTACAGTGGAGCAGATTGAAGCCAGAA-ATCTTATCTCTCTGAGATTACAGCGGAGTAGATTG
66 ATTACAGTGGAGCAGATT-AAAACA-AAGATCTTATCTCTCTGAGATTACAGCAGAGTAGATTG
60610058 AAGCTAGTAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
131 107 0.95
132 4 0.04
133 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (130 bp):
CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
ATTACAGTGGAGCAGATTAAAACAAAGATCTTATCTCTCTGAGATTACAGCAGAGTAGATTGCAT
Found at i:60610038 original size:44 final size:44
Alignment explanation
Indices: 60609979--60610413 Score: 255
Period size: 44 Copynumber: 9.6 Consensus size: 44
60609969 AGAATTTCAG
* *
60609979 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAA
* * * *
60610023 ATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAC-AGAA
* * * * *
60610067 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATA-AA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAGAA
* * *
60610109 GGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAG
1 --ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGACAGAA
* * **
60610165 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAA
* * *
60610208 ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGA-TCAA-A-ATGATA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACA-GA-A
* * ** *
60610251 GATCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAAAATTTCAG--
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-AAGA---CAGAA
* * *
60610298 ATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAA
* * * * *
60610342 ATCTTATCTCCCTAAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAA
* *
60610386 ATCCTATCTGCCTGAGATTACAGTGGAG
1 ATCTTATCTCCCTGAGATTACAGTGGAG
60610414 TGGATTAAAA
Statistics
Matches: 306, Mismatches: 52, Indels: 66
0.72 0.12 0.16
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 6 0.02
43 32 0.10
44 189 0.62
45 5 0.02
46 33 0.11
47 3 0.01
50 1 0.00
51 3 0.01
52 1 0.00
53 1 0.00
54 25 0.08
55 4 0.01
56 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAA
Found at i:60610273 original size:141 final size:142
Alignment explanation
Indices: 60610007--60610275 Score: 402
Period size: 141 Copynumber: 1.9 Consensus size: 142
60609997 TACAGTGGAG
* * * *
60610007 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTACTAATCCT
* * *
60610072 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGATCTTATCTCCCTGAAGTTACAGTAG
60610137 AGTAGATCACAT
131 AGTAGATCACAT
*
60610149 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCC
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-CTACTAATCC
*
60610212 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGATA-GATCTTATCTCCCTG-AGATTACAG
65 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT-AAAGGATCTTATCTCCCTGAAG-TTACAG
60610275 T
128 T
60610276 GGAACAAACC
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
140 2 0.02
141 58 0.50
142 54 0.47
143 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTACTAATCCT
ATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGATCTTATCTCCCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:60611352 original size:19 final size:19
Alignment explanation
Indices: 60611308--60611360 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
60611298 TATATATACT
60611308 AAAAA-AATATAAAAATAA
1 AAAAATAATATAAAAATAA
* * *
60611326 CAATATAATATAAACATAA
1 AAAAATAATATAAAAATAA
60611345 AAAAATAA-A-AAAAATA
1 AAAAATAATATAAAAATA
60611361 TTTTTTTTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.64
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAATAATATAAAAATAA
Found at i:60611988 original size:14 final size:14
Alignment explanation
Indices: 60611969--60612018 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
60611959 CTTGTTATTT
60611969 TTATATTATTAGTA
1 TTATATTATTAGTA
* *
60611983 TTATATTAGTATTA
1 TTATATTATTAGTA
60611997 TTATTATGTATTAGTA
1 TTA-TAT-TATTAGTA
60612013 -TATATT
1 TTATATT
60612019 TTTATTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.03
14 18 0.60
15 5 0.17
16 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (14 bp):
TTATATTATTAGTA
Found at i:60611989 original size:11 final size:12
Alignment explanation
Indices: 60611972--60612009 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
60611962 GTTATTTTTA
60611972 TATTATTAGTAT
1 TATTATTAGTAT
60611984 TA-TATTAGTAT
1 TATTATTAGTAT
60611995 TATTATTATGTAT
1 TATTATTA-GTAT
60612008 TA
1 TA
60612010 GTATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 7 0.29
13 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
TATTATTAGTAT
Found at i:60611998 original size:3 final size:3
Alignment explanation
Indices: 60611963--60612026 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
60611953 AATATCCTTG
* * *
60611963 TTA TTT TTA -TA TTA TTA GTA TTA -TA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
60612007 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
60612027 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:60612002 original size:23 final size:23
Alignment explanation
Indices: 60611972--60612029 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
60611962 GTTATTTTTA
60611972 TATTATTA-GTATTA-TATTAGTAT
1 TATTATTATGTATTAGTA-TA-TAT
60611995 TATTATTATGTATTAGTATATAT
1 TATTATTATGTATTAGTATATAT
*
60612018 TTTTATTATGTA
1 TATTATTATGTA
60612030 CGTGTATACG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 22 0.69
24 8 0.25
25 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
TATTATTATGTATTAGTATATAT
Found at i:60612036 original size:23 final size:23
Alignment explanation
Indices: 60611992--60612037 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
60611982 ATTATATTAG
*
60611992 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
60612015 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
60612038 CGTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:60618745 original size:20 final size:20
Alignment explanation
Indices: 60618708--60618745 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60618698 AAAAAAAATG
*
60618708 TTTATAATATTATAGTTTCT
1 TTTATAATATAATAGTTTCT
60618728 TTTACTAATATAAT-GTTT
1 TTTA-TAATATAATAGTTT
60618746 TTATGCAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATATAATAGTTTCT
Found at i:60620372 original size:58 final size:58
Alignment explanation
Indices: 60620301--60620420 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
60620291 TGGAGGGGGG
* * * *
60620301 AAAAGTCATTATGCCT-AATATTTATATAGTTTTTGTAAGATCATGAAAGTATAAGGTT
1 AAAAGTCAATATG-CTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
*
60620359 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAGGGTT
1 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
60620417 AAAA
1 AAAA
60620421 ATTTCTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 2 0.04
58 54 0.96
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (58 bp):
AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
Found at i:60624679 original size:21 final size:21
Alignment explanation
Indices: 60624655--60624694 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60624645 ATATTTATGG
*
60624655 TAATATAATTTATTTTTATAA
1 TAATATAATATATTTTTATAA
* *
60624676 TAATTTTATATATTTTTAT
1 TAATATAATATATTTTTAT
60624695 TTTCTTACCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATATAATATATTTTTATAA
Found at i:60629798 original size:21 final size:21
Alignment explanation
Indices: 60629750--60629799 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
60629740 ATAGACGTTT
*
60629750 TAAAAAATTATAATTAAATTA
1 TAAAAAATTATAATGAAATTA
*
60629771 TATAAAATTAGTAATGAAATTA
1 TAAAAAATTA-TAATGAAATTA
*
60629793 AAAAAAA
1 TAAAAAA
60629800 ATATTTTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAAAAATTATAATGAAATTA
Found at i:60631916 original size:16 final size:16
Alignment explanation
Indices: 60631895--60631938 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
60631885 TTATTGAAAT
60631895 TATTTAAATAAAAAAA
1 TATTTAAATAAAAAAA
* *
60631911 TATTTAAATTAAAAAT
1 TATTTAAATAAAAAAA
*
60631927 TA-TAAAATAAAA
1 TATTTAAATAAAA
60631939 TATTTCTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TATTTAAATAAAAAAA
Found at i:60631926 original size:15 final size:15
Alignment explanation
Indices: 60631895--60631971 Score: 77
Period size: 15 Copynumber: 5.1 Consensus size: 15
60631885 TTATTGAAAT
*
60631895 TATTTAAATAAAAAAA
1 TATTTAAAT-TAAAAA
60631911 TATTTAAATTAAAAA
1 TATTTAAATTAAAAA
* *
60631926 T-TATAAAAT-AAAA
1 TATTTAAATTAAAAA
*
60631939 TATTTCTAAACTAAAAA
1 TA-TT-TAAATTAAAAA
60631956 TATTTAAATTAAAAA
1 TATTTAAATTAAAAA
60631971 T
1 T
60631972 TATAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.10
14 6 0.12
15 18 0.35
16 16 0.31
17 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TATTTAAATTAAAAA
Found at i:60631979 original size:15 final size:15
Alignment explanation
Indices: 60631916--60631994 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 15
60631906 AAAAATATTT
60631916 AAATTAAAAATTATA
1 AAATTAAAAATTATA
*
60631931 AAA-TAAAATATT-TCT
1 AAATTAAAA-ATTAT-A
* *
60631946 AAACTAAAAA-TATTT
1 AAATTAAAAATTA-TA
60631961 AAATTAAAAATTATA
1 AAATTAAAAATTATA
60631976 AAATATCAAAAATTA-A
1 AAAT-T-AAAAATTATA
60631992 AAA
1 AAA
60631995 AAGAAATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.13
15 25 0.47
16 13 0.25
17 8 0.15
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTAAAAATTATA
Found at i:60632002 original size:45 final size:44
Alignment explanation
Indices: 60631898--60632009 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 44
60631888 TTGAAATTAT
*
60631898 TTAAATAAAAAAATATTTAAATTAAAAATTATAAAATAAAATATT
1 TTAAA-AAAAAAATATTTAAATTAAAAATTATAAAATAAAATATA
**
60631943 TCTAAACTAAAAATATTTAAATTAAAAATTATAAAATATCAAA-A-A
1 T-TAAAAAAAAAATATTTAAATTAAAAATTATAAAATA--AAATATA
60631988 TTAAAAAAAGAAATATGTTAAA
1 TTAAAAAAA-AAATAT-TTAAA
60632010 AATGCTAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
44 6 0.11
45 38 0.67
46 10 0.18
47 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (44 bp):
TTAAAAAAAAAATATTTAAATTAAAAATTATAAAATAAAATATA
Found at i:60632153 original size:11 final size:11
Alignment explanation
Indices: 60632137--60632199 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 11
60632127 ACCCCAGCTC
60632137 TTTTTTTCTTT
1 TTTTTTTCTTT
60632148 TTTTTTTC---
1 TTTTTTTCTTT
*
60632156 TTCTTTTCTTT
1 TTTTTTTCTTT
*
60632167 TTCTCTTTCTTT
1 TT-TTTTTCTTT
60632179 TTTTTTTCTCTT
1 TTTTTTTCT-TT
*
60632191 TTCTTTTCT
1 TTTTTTTCT
60632200 GCTCGGGTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.17
11 16 0.38
12 19 0.45
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:60632176 original size:17 final size:17
Alignment explanation
Indices: 60632141--60632199 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
60632131 CAGCTCTTTT
60632141 TTTCTTTT-TTTTT-TC
1 TTTCTTTTCTTTTTCTC
60632156 -TTCTTTTCTTTTTCTC
1 TTTCTTTTCTTTTTCTC
*
60632172 TTTCTTTTTTTTTTCTC
1 TTTCTTTTCTTTTTCTC
60632189 TTTTCTTTTCT
1 -TTTCTTTTCT
60632200 GCTCGGGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 7 0.18
15 5 0.13
16 2 0.05
17 15 0.39
18 9 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTCTTTTTCTC
Found at i:60632630 original size:18 final size:18
Alignment explanation
Indices: 60632604--60632652 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
60632594 CTCTTCCCTG
* *
60632604 TTTCCTCCTCTCTCTTCT
1 TTTCTTCCTCTCTCTTCC
*
60632622 TTTCTTCCTCTTTCTTCC
1 TTTCTTCCTCTCTCTTCC
* *
60632640 TCTCTTCTTCTCT
1 TTTCTTCCTCTCT
60632653 TTTTTTTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCTTCCTCTCTCTTCC
Found at i:60632637 original size:10 final size:10
Alignment explanation
Indices: 60632604--60632654 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
60632594 CTCTTCCCTG
*
60632604 TTTCCTCCTC
1 TTTCTTCCTC
*
60632614 TCTCTT-CT-
1 TTTCTTCCTC
60632622 TTTCTTCCTC
1 TTTCTTCCTC
60632632 TTTCTTCCTC
1 TTTCTTCCTC
60632642 TCTTCTT-CTC
1 T-TTCTTCCTC
60632652 TTT
1 TTT
60632655 TTTTTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 5 0.14
9 6 0.17
10 19 0.54
11 5 0.14
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCTTCCTC
Found at i:60632956 original size:59 final size:59
Alignment explanation
Indices: 60632878--60633034 Score: 187
Period size: 59 Copynumber: 2.6 Consensus size: 59
60632868 AGGTCCAAAG
* *
60632878 TGTAATTTCTAGAAAGTTTAAGGGTTAAAATG-AAATTTTAGGAAAGTT-TGGAGGTTAAAA-
1 TGTAATTT-TAAAAAGTTTAAGGGTCAAAATGTAAA-TTTAGGAAAGTTAT-GAGG-TAAAAT
* *
60632938 TGTAATTTTAAAAAGTTT-AGGGATGAAAATGTAAATTTAGGGAAGTTATGAGGTAAAAT
1 TGTAATTTTAAAAAGTTTAAGGG-TCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
* *
60632997 TGTAATTTTAAAAAGTTTAGGGGTCAAAATATAAATTT
1 TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTT
60633035 CAAATTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
58 9 0.10
59 62 0.72
60 15 0.17
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (59 bp):
TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
Found at i:60632966 original size:29 final size:28
Alignment explanation
Indices: 60632878--60633018 Score: 124
Period size: 30 Copynumber: 4.8 Consensus size: 28
60632868 AGGTCCAAAG
60632878 TGTAATTTCTAGAAAGTTTAAGGGTTAAAA
1 TGTAATTT-TAGAAAGTTT-AGGGTTAAAA
* *
60632908 TGAAATTTTAGGAAAGTTTGGAGGTTAAAA
1 TGTAATTTTA-GAAAGTTTAG-GGTTAAAA
* *
60632938 TGTAATTTTAAAAAGTTTAGGGATGAAAA
1 TGTAATTTTAGAAAGTTTAGGG-TTAAAA
* *
60632967 TGTAAATTTAGGGAAG-TTATGAGG-TAAAA
1 TGTAATTTTA-GAAAGTTTA-G-GGTTAAAA
*
60632996 TTGTAATTTTAAAAAGTTTAGGG
1 -TGTAATTTTAGAAAGTTTAGGG
60633019 GTCAAAATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.04
29 36 0.40
30 48 0.53
31 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.35
Consensus pattern (28 bp):
TGTAATTTTAGAAAGTTTAGGGTTAAAA
Found at i:60633034 original size:30 final size:29
Alignment explanation
Indices: 60632881--60633034 Score: 102
Period size: 30 Copynumber: 5.2 Consensus size: 29
60632871 TCCAAAGTGT
* *
60632881 AATTTCTAGAAAGTTTAAGGGTTAAAATGA
1 AATTT-TAGAAAGTTTAGGGGTTAAAATTA
60632911 AATTTTAGGAAAGTTT-GGAGGTTAAAATGT-
1 AATTTTA-GAAAGTTTAGG-GGTTAAAAT-TA
* * *
60632941 AATTTTAAAAAGTTTAGGGATGAAAATGTA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
* * *
60632971 AA-TTTAGGGAAG-TTATGAGG-TAAAATTGT
1 AATTTTA-GAAAGTTTA-GGGGTTAAAATT-A
* *
60633000 AATTTTAAAAAGTTTAGGGGTCAAAATATA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
60633030 AATTT
1 AATTT
60633035 CAAATTTTTT
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
28 1 0.01
29 39 0.41
30 55 0.57
31 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.35
Consensus pattern (29 bp):
AATTTTAGAAAGTTTAGGGGTTAAAATTA
Found at i:60633414 original size:77 final size:76
Alignment explanation
Indices: 60633207--60633680 Score: 521
Period size: 77 Copynumber: 6.1 Consensus size: 76
60633197 TTTTGTTTTT
* * * * *
60633207 ATTG-AAAATAGCTCGGCGTGTGATCCGAATGCACAACTTACCTCTCAG-ATTATGAGTTGATCT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAA-GCTCAACTCACCTCTC-GCATTATGAGTTGATTT
*
60633270 TTGAAAAACAGAA
64 TTGAAAAAAAGAA
* *
60633283 ATTGAAAAACACCTCGGCGTGTGACCC-AAGACTCAACTCACCTCTCGGATTATGAGTTGATTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAG-CTCAACTCACCTCTCGCATTATGAGTTGATTTT
60633347 TGACAAAAGAAGAA
65 TGA-AAAA-AAGAA
* *
60633361 ATTGAAAAATACCTCGGCGTATG-CCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
60633425 GAAAAAAAAATAGAA
66 G---AAAAAA-AGAA
*
60633440 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTATCGCATTATGAGTTGATTTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGA--TTT
* *
60633505 TTGAAAAACATAA
64 TTGAAAAAAAGAA
* * * * *
60633518 ATTG-AAAATACCTCAGCGAGCT-ACCTGAGGCTCAACTGACCTCTCGCATTATGAGTTGATTTT
1 ATTGAAAAATACCTCGGCGTG-TGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGA--TT
*
60633581 TTTGAAAAAACATAA
63 TTTGAAAAAA-AGAA
*** * * *
60633596 ATTG-AAAATACCTCAATGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
60633660 GAAAAAAGTAGAA
66 GAAAAAA--AGAA
60633673 ATTGAAAA
1 ATTGAAAA
60633681 TAATTCTTGA
Statistics
Matches: 348, Mismatches: 32, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
75 2 0.01
76 49 0.14
77 126 0.36
78 95 0.27
79 35 0.10
80 35 0.10
82 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
GAAAAAAAGAA
Found at i:60633492 original size:157 final size:154
Alignment explanation
Indices: 60633207--60633682 Score: 524
Period size: 157 Copynumber: 3.1 Consensus size: 154
60633197 TTTTGTTTTT
* * * * * * *
60633207 ATTGAAAATAGCTCGGCGTGTGATCCGAATGCACAACTTACCTCTCAG-ATTATGAGTTGATCTT
1 ATTGAAAATACCTCGGCGTATG-CCCGAA-GCTCAACTCACCTCTC-GCATTATGAGTTTATTTT
* *
60633271 TG---AAAAACAGAAATTGAAAAACACCTCGGCGTGTGACCC-AAGACTCAACTCACCTCTCGGA
63 TGAAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAG-CTCAACTCACCTCTCGGA
60633332 TTATGAGTTGATTTTTGACAAAAGAAGAA
127 TTATGAGTTGATTTTTGA-AAAAGAAGAA
60633361 ATTGAAAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTG
1 ATTG-AAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTG
* *
60633426 AAAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTATCGCATT
65 -AAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGGATT
* *
60633491 ATGAGTTGATTTTTTTGAAAAA-CATAA
129 ATGAGTTGA--TTTTTGAAAAAGAAGAA
* * * *
60633518 ATTGAAAATACCTCAGCG-A-GCTACCTGAGGCTCAACTGACCTCTCGCATTATGAGTTGATTTT
1 ATTGAAAATACCTCGGCGTATGC--CC-GAAGCTCAACTCACCTCTCGCATTATGAGTT--TATT
* *** * *
60633581 TTTGAAAAAACAT--AAATTG-AAAATACCTCAATGTGCGACCCGAGGCTCAACTCACCTCTCGG
61 TTTGAAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGG
*
60633643 ATTATGAGTTGATTTTTGAAAAAAGTAGAA
126 ATTATGAGTTGATTTTTG-AAAAAGAAGAA
60633673 ATTGAAAATA
1 ATTGAAAATA
60633683 ATTCTTGAAA
Statistics
Matches: 279, Mismatches: 27, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
152 1 0.00
153 36 0.13
154 16 0.06
155 78 0.28
156 21 0.08
157 98 0.35
158 15 0.05
159 14 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (154 bp):
ATTGAAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTGA
AAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGGATTAT
GAGTTGATTTTTGAAAAAGAAGAA
Found at i:60633582 original size:78 final size:78
Alignment explanation
Indices: 60633240--60633659 Score: 446
Period size: 78 Copynumber: 5.4 Consensus size: 78
60633230 TCCGAATGCA
* * * *
60633240 CAACTTACCTCTCAG-ATTATGAGTTGA--TCTTTGAAAAACAGAAATTGAAAAACACCTCGGCG
1 CAACTCACCTCTC-GCATTATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAATACCTCGGCG
* *
60633302 TG-TGACCCAAGACT
65 TGCT-ACCCGAGGCT
* * *
60633316 CAACTCACCTCTCGGATTATGAGTTGA--TTTTTGACAAAAGAAGAAATTGAAAAATACCTCGGC
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGA-AAAA-CATAAATTGAAAAATACCTCGGC
* * *
60633379 GT-ATGCCCGAAGCT
64 GTGCTACCCGAGGCT
* *** *
60633393 CAACTCACCTCTCGCATTATGAGTTTATTTTTGAAAAAAAAATAGAAATTGAAAAATACCTCGGC
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAT--AAATTGAAAAATACCTCGGC
*
60633458 GTG-TGACCCGAAGCT
64 GTGCT-ACCCGAGGCT
* * *
60633473 CAACTCACCTATCGCATTATGAGTTGATTTTTTTGAAAAACATAAATTG-AAAATACCTCAGCGA
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAATACCTCGGCGT
*
60633537 GCTACCTGAGGCT
66 GCTACCCGAGGCT
* ***
60633550 CAACTGACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAACATAAATTG-AAAATACCTCAATG
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTG-AAAAACATAAATTGAAAAATACCTCGGCG
*
60633614 TGCGACCCGAGGCT
65 TGCTACCCGAGGCT
*
60633628 CAACTCACCTCTCGGATTATGAGTTGATTTTT
1 CAACTCACCTCTCGCATTATGAGTTGATTTTT
60633660 GAAAAAAGTA
Statistics
Matches: 298, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.00
76 30 0.10
77 92 0.31
78 102 0.34
79 27 0.09
80 46 0.15
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (78 bp):
CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAATACCTCGGCGT
GCTACCCGAGGCT
Found at i:60636495 original size:34 final size:34
Alignment explanation
Indices: 60636457--60636524 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
60636447 CTGCCATCGT
* *
60636457 GACATTCTTCTTGAGAGTGCGGGTGATTCCATCA
1 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
60636491 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
1 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
60636525 TGTACTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (34 bp):
GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
Found at i:60639549 original size:39 final size:39
Alignment explanation
Indices: 60639500--60639637 Score: 177
Period size: 39 Copynumber: 3.4 Consensus size: 39
60639490 ACAGTAATCA
* *
60639500 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAATA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAA----T--TG
*
60639545 GTAACAGTAACAGTATTCGACATACAAAGTGCCGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
*
60639584 GTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
*
60639623 GTAACAGTAATAGTA
1 GTAACAGTAACAGTA
60639638 GGCGGCACAT
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.60
41 1 0.01
45 34 0.39
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
Found at i:60639555 original size:45 final size:44
Alignment explanation
Indices: 60639493--60639637 Score: 174
Period size: 45 Copynumber: 3.3 Consensus size: 44
60639483 CAAGTAAACA
*
60639493 GTAATCAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAAT-AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-G
*
60639539 GTAATAGTAACAGTAACAGTATTCGACATACAAAGTGCCGAA--
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
* *
60639581 -T--TGGTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-TG
* *
60639623 GTAACAGTAATAGTA
1 GTAATAGTAACAGTA
60639638 GGCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
39 35 0.41
41 1 0.01
43 1 0.01
45 43 0.51
46 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (44 bp):
GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
Found at i:60643404 original size:9 final size:9
Alignment explanation
Indices: 60643392--60643424 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
60643382 TTTCTTATAC
60643392 TTCTTTAGT
1 TTCTTTAGT
60643401 TTCTTTTA-T
1 TTC-TTTAGT
60643410 TTCTTTAGT
1 TTCTTTAGT
60643419 TTCTTT
1 TTCTTT
60643425 TATTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.18
9 14 0.64
10 4 0.18
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (9 bp):
TTCTTTAGT
Found at i:60643444 original size:18 final size:18
Alignment explanation
Indices: 60643381--60643438 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
60643371 CTGTTGTTTT
* *
60643381 GTTTCTTATACTTCTTTA
1 GTTTCTTTTATTTCTTTA
60643399 GTTTCTTTTATTTCTTTA
1 GTTTCTTTTATTTCTTTA
60643417 GTTTCTTTTATTTACTTT-
1 GTTTCTTTTATTT-CTTTA
60643435 GTTT
1 GTTT
60643439 TATTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 33 0.89
19 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (18 bp):
GTTTCTTTTATTTCTTTA
Found at i:60644317 original size:35 final size:37
Alignment explanation
Indices: 60644242--60644318 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 37
60644232 TTTGTTATGT
* *
60644242 CTTAAT-TAATTTATTTATTTAATAATATACTAATAA
1 CTTAATATAATTTATTAATTTAATAATATAATAATAA
60644278 -TTAATATAATTTA-TAATTTAATAATA-AATAA-AA
1 CTTAATATAATTTATTAATTTAATAATATAATAATAA
60644311 CCTTAATA
1 -CTTAATA
60644319 ATAAAATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
33 2 0.06
34 4 0.11
35 23 0.64
36 7 0.19
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (37 bp):
CTTAATATAATTTATTAATTTAATAATATAATAATAA
Found at i:60651068 original size:44 final size:43
Alignment explanation
Indices: 60650934--60651134 Score: 176
Period size: 43 Copynumber: 4.7 Consensus size: 43
60650924 AATACTTTTT
* * * * *
60650934 TAAAAGTCATG-TTTTTAGTGGCGTTTGT-GAAAAAGTGGCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
* * *
60650975 TAAAAGTCAT--TCTTTATAGCAGTGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCATGATC-TT-TAGCGGCGTTTGTGGAAGAAGCGCCGC
* * **
60651018 TAAAAGTCGTGCTCTTTAGCGGCGTTTGTGGAAAGAAGCGTTGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGG-AAGAAGCGCCGC
* * * * *
60651062 TAAAAGTCATGATCTTTAGCAGTGTTTTTCGAAGAAGTGCCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
* *
60651105 TAAAATTAATGATCTTTAGCGGCGTTTGTG
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTG
60651135 TTAGAAGCAC
Statistics
Matches: 125, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 12 0.10
42 10 0.08
43 64 0.51
44 36 0.29
45 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
Found at i:60651082 original size:87 final size:85
Alignment explanation
Indices: 60650934--60651134 Score: 228
Period size: 87 Copynumber: 2.3 Consensus size: 85
60650924 AATACTTTTT
* * *
60650934 TAAAAGTCATGTTTTTAGTGGCGTTTGT-GAAAAAGTGGCGCTAAAAGTCATTCTTTATAGCAGT
1 TAAAAGTCATGTCTTTAGCGGCGTTTGTGGAAAAAGCGGCGCTAAAAGTCATTCTTTATAGCAGT
* *
60650998 GTTTGTGGTAGAAGCGCCGC
66 GTTTGTCGAAGAAGCGCCGC
* **
60651018 TAAAAGTCGTGCTCTTTAGCGGCGTTTGTGGAAAGAAGCGTTGCTAAAAGTCATGATC-TT-TAG
1 TAAAAGTCATG-TCTTTAGCGGCGTTTGTGGAAA-AAGCGGCGCTAAAAGTCAT--TCTTTATAG
* *
60651081 CAGTGTTTTTCGAAGAAGTGCCGC
62 CAGTGTTTGTCGAAGAAGCGCCGC
* *
60651105 TAAAATTAATGATCTTTAGCGGCGTTTGTG
1 TAAAAGTCATG-TCTTTAGCGGCGTTTGTG
60651135 TTAGAAGCAC
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 10 0.10
85 15 0.15
86 4 0.04
87 65 0.66
88 2 0.02
89 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (85 bp):
TAAAAGTCATGTCTTTAGCGGCGTTTGTGGAAAAAGCGGCGCTAAAAGTCATTCTTTATAGCAGT
GTTTGTCGAAGAAGCGCCGC
Found at i:60651367 original size:44 final size:44
Alignment explanation
Indices: 60651316--60651424 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
60651306 GTCTGCTCCG
*
60651316 CTGCAACTTTA-GAGAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTCAGGA-AGATAAGGCTGGTGGCTTTAATCTGTTTCA
*
60651360 TTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
60651404 CTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGAAGATAAG
60651425 ATCTGCCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
Found at i:60654264 original size:22 final size:23
Alignment explanation
Indices: 60654239--60654287 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
60654229 TTGAAGACAG
60654239 AATAAT-AAAAACAATTAAATAA
1 AATAATGAAAAACAATTAAATAA
* * *
60654261 AAT-ATGTAAAAGAATTAATTAA
1 AATAATGAAAAACAATTAAATAA
60654283 AATAA
1 AATAA
60654288 GCTCAGCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 19 0.86
23 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAATGAAAAACAATTAAATAA
Found at i:60656278 original size:3 final size:3
Alignment explanation
Indices: 60656270--60656309 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
60656260 CATCATTAAC
*
60656270 ATT ATT ATT ACT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
60656310 CGTAATGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:60656704 original size:19 final size:19
Alignment explanation
Indices: 60656680--60656722 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
60656670 TATATATATA
*
60656680 TATATTATATTTTATA-CTT
1 TATATTAT-TTATATACCTT
60656699 TATATTATTTATATACCTT
1 TATATTATTTATATACCTT
60656718 TATAT
1 TATAT
60656723 ACCTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTATTTATATACCTT
Found at i:60656742 original size:10 final size:10
Alignment explanation
Indices: 60656706--60656734 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
60656696 CTTTATATTA
60656706 TTTATATACC
1 TTTATATACC
60656716 TTTATATACC
1 TTTATATACC
60656726 TTTATATAC
1 TTTATATAC
60656735 ATATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTATATACC
Found at i:60659435 original size:26 final size:26
Alignment explanation
Indices: 60659406--60659470 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
60659396 ATTTGATATT
* *
60659406 TATAAATATTATAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
**
60659432 TATATTTATAAAAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
60659458 TAT--ATATAAAAAA
1 TATAAATATAAAAAA
60659471 GTTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 9 0.26
26 25 0.74
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (26 bp):
TATAAATATAAAAAATATTCTAAAAG
Found at i:60659462 original size:13 final size:13
Alignment explanation
Indices: 60659420--60659462 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
60659410 AATATTATAA
60659420 ATATTCTAAAAGT
1 ATATTCTAAAAGT
**
60659433 ATATT-TATAAAAA
1 ATATTCTA-AAAGT
60659446 ATATTCTAAAAGT
1 ATATTCTAAAAGT
60659459 ATAT
1 ATAT
60659463 ATAAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (13 bp):
ATATTCTAAAAGT
Found at i:60659789 original size:365 final size:366
Alignment explanation
Indices: 60659073--60659867 Score: 1502
Period size: 365 Copynumber: 2.2 Consensus size: 366
60659063 TTTTATGTTT
* *
60659073 TAAAAAATATTCTAAAATTATTTATAAAAAAGTTAAAATTTTATTTTTTTTCTAAAATAATAATT
1 TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTA-TTTTTTTCTAAAATAATAATT
*
60659138 TGAGACCTAATTAGTGATTCAAATTTATTATACTCAATTATCTTTTTATTATTATTATTTTGGTT
65 TGAGACCTAATTAGTGATTCAAATTTATTATACTCAATTATCTTTTTATTATTATTATTTTGCTT
60659203 TGAAAAAAATTTCAAATATATATGGCTTCAAATTTATGTGTTCTAAATTAGTTATATTGTAACAA
130 TGAAAAAAATTTCAAATATATATGGCTTCAAATTTATGTGTTCTAAATTAGTTATATTGTAACAA
*
60659268 TATTTTTATTTGACATATTTATCTTTTAAAATTGAACTCTAACAATTTAACTGTATTAATGAAGT
195 TATTTTTATTTGACATATTTATCTTTTAAAATTGAACTCGAACAATTTAACTGTATTAATGAAGT
60659333 TTATTAAATAATTTTTATATAATTTATAAGTATTTTATCTTTTAAGATTTATTTATTCTCATTAT
260 TTATTAAATAATTTTTATATAATTTATAAGTATTTTATCTTTTAAGATTTATTTATTCTCATTAT
60659398 TTGATATTTATAAATATTATAAATATTCTAAAAGTATATTTA
325 TTGATATTTATAAATATTATAAATATTCTAAAAGTATATTTA
*
60659440 TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTAATTTTTTCTAAAATAATAATTT
1 TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTATTTTTTTCTAAAATAATAATTT
*
60659505 GAGCCCTAATTAGTGATTCAAATTTATTATACTCAATTATCTTTTTATTATTATTATTTTGCTTT
66 GAGACCTAATTAGTGATTCAAATTTATTATACTCAATTATCTTTTTATTATTATTATTTTGCTTT
60659570 GAAAAAAA-TTCAAATATATATGGCTTCAAATTTATGTGTTCTAAATTAGTTATATTGTAACAAT
131 GAAAAAAATTTCAAATATATATGGCTTCAAATTTATGTGTTCTAAATTAGTTATATTGTAACAAT
*
60659634 ATTTTTATTTGACATATTTATTTTTTAAAATTGAACTCGAACAATTTAACTGTATTAATGAAGTT
196 ATTTTTATTTGACATATTTATCTTTTAAAATTGAACTCGAACAATTTAACTGTATTAATGAAGTT
60659699 TATTAAATAATTTTTATATAATTTATAAGTATTTTATCTTTTAAGATTTATTTATTCTCATTATT
261 TATTAAATAATTTTTATATAATTTATAAGTATTTTATCTTTTAAGATTTATTTATTCTCATTATT
60659764 TGATATTTATAAATATTATAAATATTCTAAAAGTATATTTA
326 TGATATTTATAAATATTATAAATATTCTAAAAGTATATTTA
*
60659805 TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTATTTTTTTCTAAAATATTAAT
1 TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTATTTTTTTCTAAAATAATAAT
60659868 ATTTTTCAAG
Statistics
Matches: 419, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
365 286 0.68
366 92 0.22
367 41 0.10
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (366 bp):
TAAAAAATATTCTAAAAGTATATATAAAAAAGTTAAAATTTTATTTTTTTCTAAAATAATAATTT
GAGACCTAATTAGTGATTCAAATTTATTATACTCAATTATCTTTTTATTATTATTATTTTGCTTT
GAAAAAAATTTCAAATATATATGGCTTCAAATTTATGTGTTCTAAATTAGTTATATTGTAACAAT
ATTTTTATTTGACATATTTATCTTTTAAAATTGAACTCGAACAATTTAACTGTATTAATGAAGTT
TATTAAATAATTTTTATATAATTTATAAGTATTTTATCTTTTAAGATTTATTTATTCTCATTATT
TGATATTTATAAATATTATAAATATTCTAAAAGTATATTTA
Found at i:60659800 original size:26 final size:26
Alignment explanation
Indices: 60659771--60659835 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
60659761 ATTTGATATT
* *
60659771 TATAAATATTATAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
**
60659797 TATATTTATAAAAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
60659823 TAT--ATATAAAAAA
1 TATAAATATAAAAAA
60659836 GTTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 9 0.26
26 25 0.74
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (26 bp):
TATAAATATAAAAAATATTCTAAAAG
Found at i:60659827 original size:13 final size:13
Alignment explanation
Indices: 60659785--60659827 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
60659775 AATATTATAA
60659785 ATATTCTAAAAGT
1 ATATTCTAAAAGT
**
60659798 ATATT-TATAAAAA
1 ATATTCTA-AAAGT
60659811 ATATTCTAAAAGT
1 ATATTCTAAAAGT
60659824 ATAT
1 ATAT
60659828 ATAAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (13 bp):
ATATTCTAAAAGT
Found at i:60667078 original size:22 final size:22
Alignment explanation
Indices: 60667038--60667080 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60667028 TTTTTATAGT
**
60667038 AAAATTAATATATTTTAATTAC
1 AAAATTAATATATGATAATTAC
*
60667060 AAAATTAATTTATGATAATTA
1 AAAATTAATATATGATAATTA
60667081 TTAAGATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAATTAATATATGATAATTAC
Found at i:60667671 original size:18 final size:19
Alignment explanation
Indices: 60667631--60667673 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
60667621 GTTTAAATTC
60667631 TTTTTAATATTTTTTTAGA
1 TTTTTAATATTTTTTTAGA
60667650 -TTTT-ATATATTTTTTA-A
1 TTTTTAATAT-TTTTTTAGA
60667667 TTTTTAA
1 TTTTTAA
60667674 ATAATGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 5 0.24
18 15 0.71
19 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTAATATTTTTTTAGA
Found at i:60668991 original size:14 final size:14
Alignment explanation
Indices: 60668974--60669009 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
60668964 TCTCTTGATT
*
60668974 TCTCTCTTCTCTAC
1 TCTCTCTTCTCTAA
*
60668988 TCTCTTTTCTCTAA
1 TCTCTCTTCTCTAA
60669002 TCTCTCTT
1 TCTCTCTT
60669010 ATTCTTACTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTCTCTTCTCTAA
Found at i:60671896 original size:19 final size:20
Alignment explanation
Indices: 60671863--60671900 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
60671853 AAATCACTCC
*
60671863 AATAGATTTTTTAATTTTTT
1 AATAGATTTTATAATTTTTT
60671883 AATA-ATTTTATAATTTTT
1 AATAGATTTTATAATTTTT
60671901 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
AATAGATTTTATAATTTTTT
Found at i:60678485 original size:23 final size:23
Alignment explanation
Indices: 60678459--60678502 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
60678449 ACTGATTTTG
60678459 TACTATATTTACCTAAATATTTA
1 TACTATATTTACCTAAATATTTA
60678482 TACTATATTTACCTAAATATT
1 TACTATATTTACCTAAATATT
60678503 AATTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (23 bp):
TACTATATTTACCTAAATATTTA
Found at i:60679184 original size:33 final size:35
Alignment explanation
Indices: 60679145--60679218 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 35
60679135 AATAGTTTTT
*
60679145 ATATTTTTTTATTTAAAACA-ATTT-TGAAA-ATAA
1 ATATTTTTTTATTGAAAACATATTTAT-AAATATAA
60679178 ATA-TTTTTTATTGAAAACATATTTATAAATATAA
1 ATATTTTTTTATTGAAAACATATTTATAAATATAA
60679212 ATATTTT
1 ATATTTT
60679219 CTACTTAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 15 0.42
33 10 0.28
34 8 0.22
35 3 0.08
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (35 bp):
ATATTTTTTTATTGAAAACATATTTATAAATATAA
Found at i:60680890 original size:44 final size:43
Alignment explanation
Indices: 60680802--60681039 Score: 137
Period size: 44 Copynumber: 5.5 Consensus size: 43
60680792 TCTTATCTTC
* * ** * *
60680802 CTGAAGTTACAGTGGAGCAGACAAAAGAATCTA-ATCCTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATAAAACCA-C-AGATCTTACCTCT
* *
60680846 CTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTACCTCT
1 CTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTACCTCT
* * *** * * *
60680890 CTGAAATTGCAGTAGAGCAGATCGCATC-CAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTACCTCT
*** * * * * *
60680931 CT-AACAAGTAGTGGAGCAGACAGAAGA-AATCA-ATCCTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATA-AA-ACCA-CAGATCTTACCTCT
60680974 CTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCT
1 CTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTACCTCT
* *
60681018 CTGAAATTGCAGTAGAGCAGAT
1 CTGAAGTTGCAGTGGAGCAGAT
60681040 CGCATCCAGT
Statistics
Matches: 143, Mismatches: 40, Indels: 23
0.69 0.19 0.11
Matches are distributed among these distances:
40 13 0.09
41 10 0.07
42 4 0.03
43 20 0.14
44 90 0.63
45 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTACCTCT
Found at i:60681008 original size:128 final size:128
Alignment explanation
Indices: 60680769--60681138 Score: 514
Period size: 128 Copynumber: 2.9 Consensus size: 128
60680759 TGCTGTACTG
* * * * *
60680769 GCAGCAGAGTAGATCGCATCCAGTCTTATCTTCCT--GAAGTTACAGTGGAGCAGACAAAAG-AA
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAG-T--AGTGGAGCAGACAGAAGAAA
* *
60680831 TCTAATCCTATCTCTCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTACCTCTCTGAAA
63 TC-AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAA
60680896 TT
127 TT
60680898 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
60680963 ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
66 ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
* * *
60681026 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGC-AGTAGTGGAGTAGACAGATGAAATT
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAA-CAAGTAGTGGAGCAGACAGAAGAAATC
* * * * ** *
60681090 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACCAAAACCACAAATCT
65 AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCT
60681139 CATCCCATAG
Statistics
Matches: 220, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
128 179 0.81
129 37 0.17
130 1 0.00
131 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (128 bp):
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
Found at i:60683610 original size:12 final size:12
Alignment explanation
Indices: 60683595--60683645 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
60683585 ATTTTGTACT
60683595 ATATTTACCTAA
1 ATATTTACCTAA
60683607 ATATTTACCTAA
1 ATATTTACCTAA
*
60683619 AT-TTTA--TACT
1 ATATTTACCTA-A
60683629 ATATTTACCTAA
1 ATATTTACCTAA
60683641 ATATT
1 ATATT
60683646 AATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 2 0.06
11 8 0.24
12 19 0.58
13 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTACCTAA
Found at i:60687361 original size:71 final size:72
Alignment explanation
Indices: 60687255--60687387 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 72
60687245 CAATCAACGC
** * *
60687255 TGGGCGCAAAACATTGTCGGTTTATCTGACAAGTGCGGGGCACATCTATCA-TCAGT-TTATCCA
1 TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTAT-AGTCAGTATTATCCA
60687318 ACTAGCTT
65 ACTAGCTT
* * *
60687326 TGGGCGTAAAACATTGTTGGAGTATCCGACCAGTGCAGGGCACATCTATAGTCAGTATTATC
1 TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTATAGTCAGTATTATC
60687388 GACCAACAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
70 1 0.02
71 47 0.89
72 5 0.09
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (72 bp):
TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTATAGTCAGTATTATCCAA
CTAGCTT
Found at i:60689521 original size:41 final size:41
Alignment explanation
Indices: 60689403--60689521 Score: 136
Period size: 41 Copynumber: 2.9 Consensus size: 41
60689393 ATTTAACATA
60689403 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCT-AATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGAATTCAG
* ** * *
60689444 ATCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-AT
1 TTCACCGGCACTTAGCCTGCTAGGTTTAAA-CCTGAATTCAG
60689485 TTCACCGGC-CTTAAGCCTGCTAGGTTTTAAACCTGAA
1 TTCACCGGCACTT-AGCCTGCTAGG-TTTAAACCTGAA
60689522 AATTTTAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.08
41 51 0.78
42 9 0.14
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTAAACCTGAATTCAG
Found at i:60690917 original size:18 final size:17
Alignment explanation
Indices: 60690889--60690923 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60690879 ATTATTAAGA
*
60690889 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60690906 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60690924 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60691026 original size:61 final size:61
Alignment explanation
Indices: 60690866--60691040 Score: 162
Period size: 59 Copynumber: 2.9 Consensus size: 61
60690856 GAATTTTTGT
* * * *
60690866 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 TATAAGAATATTGATTATTAAGAATTTTATAAAATTATATATTATAATTAAAATAAATTCA
* * ** * * ** *
60690927 -ATAATAAT-TATG-TTAAATT-A-TATTTTATAGTATCATATATTATGATTTTAGTAAATTCA
1 TATAAGAATAT-TGATT--ATTAAGAATTTTATAAAATTATATATTATAATTAAAATAAATTCA
*
60690986 TATAAGAATATTGATTATTAAGAATTTTATAAAATTATATATTTTAATTAAAATA
1 TATAAGAATATTGATTATTAAGAATTTTATAAAATTATATATTATAATTAAAATA
60691041 TATTTAATAA
Statistics
Matches: 83, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
59 33 0.40
60 20 0.24
61 30 0.36
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (61 bp):
TATAAGAATATTGATTATTAAGAATTTTATAAAATTATATATTATAATTAAAATAAATTCA
Found at i:60695050 original size:44 final size:43
Alignment explanation
Indices: 60694916--60695116 Score: 194
Period size: 43 Copynumber: 4.7 Consensus size: 43
60694906 ATATTTTTTT
* * * *
60694916 TAAAAGTCATG-TTTTTAGTGGCGTTTGT-GAAAAAGCGGCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
* * *
60694957 TAAAAGTCAT--TCTTTATAGCAGTGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCATGATC-TT-TAGCGGCGTTTGTGGAAGAAGCGCCGC
* * **
60695000 TAAAAGTCGTGCTCTTTAGCGGCGTTTGTGGAAAGAAGCGTTGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGG-AAGAAGCGCCGC
* * * **
60695044 TAAAAGTCATGATCTTTAGCGGCATTTTTCGAAGAAGTACCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
*
60695087 TAAAATTCATGATCTTTAGCGGCGTTTGTG
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTG
60695117 TTAGAAGCAT
Statistics
Matches: 128, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
41 12 0.09
42 10 0.08
43 66 0.52
44 37 0.29
45 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
Found at i:60695349 original size:44 final size:44
Alignment explanation
Indices: 60695298--60695406 Score: 175
Period size: 44 Copynumber: 2.5 Consensus size: 44
60695288 GTCTGCTCCG
60695298 CTGCAACTTTA-GAGAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTTAGGA-AGATAAGGCTGGTGGCTTTAATCTGTTTCA
*
60695342 TTGCAACTTTAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTTAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
* *
60695386 CTGTAACTTCAGGAAGATAAG
1 CTGCAACTTTAGGAAGATAAG
60695407 ATCTGCCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
CTGCAACTTTAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
Found at i:60696014 original size:41 final size:41
Alignment explanation
Indices: 60695927--60696030 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 41
60695917 AAACCATAGA
* * * *
60695927 TCTTATCTCTTTGAAGTTCCAG-AGAGCAGATCGCATATAG
1 TCTTATCTCTTTGAAGTTGCAGTAGAACAGATCACATACAG
* *
60695967 TCTTATCTCTTTGAAGTTGCAGTTGAACAGATCACATCCAG
1 TCTTATCTCTTTGAAGTTGCAGTAGAACAGATCACATACAG
* **
60696008 TTTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCTTTGAAGTTGCAGT
60696031 GAAGAAGACA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 21 0.39
41 33 0.61
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (41 bp):
TCTTATCTCTTTGAAGTTGCAGTAGAACAGATCACATACAG
Found at i:60696813 original size:17 final size:16
Alignment explanation
Indices: 60696784--60696820 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
60696774 TTTCCTTTGC
*
60696784 TTCTTTTGGTTTTTTT
1 TTCTTTTGGTTTTCTT
60696800 TTCTTTTCGGTTTTCTT
1 TTCTTTT-GGTTTTCTT
60696817 TTCT
1 TTCT
60696821 ATACTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.76
Consensus pattern (16 bp):
TTCTTTTGGTTTTCTT
Found at i:60697482 original size:3 final size:3
Alignment explanation
Indices: 60697474--60697524 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
60697464 ATTAATTGGT
* *
60697474 TTA TTA TTA TTA TTA TTA TTA TTA TT- TGTCA CTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA
60697520 TTA TT
1 TTA TT
60697525 TTTTTATTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60704117 original size:18 final size:18
Alignment explanation
Indices: 60704086--60704132 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
60704076 AAACAATAAT
* *
60704086 AAAAATAAAGAAAATAGA
1 AAAAATATATAAAATAGA
*
60704104 TAAAAAT-TATAAAATATA
1 -AAAAATATATAAAATAGA
60704122 AAAAATATATA
1 AAAAATATATA
60704133 TGTATGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATATATAAAATAGA
Found at i:60705889 original size:3 final size:3
Alignment explanation
Indices: 60705838--60705869 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
60705828 ATTAATTGGT
60705838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
60705870 TGTCACTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:60710164 original size:22 final size:23
Alignment explanation
Indices: 60710122--60710231 Score: 129
Period size: 22 Copynumber: 4.9 Consensus size: 23
60710112 TTCAGATTCA
60710122 AAAAAAAATCAAGATCAAAAAAT
1 AAAAAAAATCAAGATCAAAAAAT
* * *
60710145 CAAAAAAATTAGGATC-AAAAAT
1 AAAAAAAATCAAGATCAAAAAAT
*
60710167 AAAAAAAATTTAAGATCAAAAAAT
1 AAAAAAAA-TCAAGATCAAAAAAT
*
60710191 -AAAAAAATCAAAATC-AAAAAT
1 AAAAAAAATCAAGATCAAAAAAT
60710212 AAAAAAAATCAA-AGTCAAAA
1 AAAAAAAATCAAGA-TCAAAA
60710232 TCAAAAATAA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
21 7 0.09
22 32 0.43
23 30 0.40
24 6 0.08
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAAAAAATCAAGATCAAAAAAT
Found at i:60710188 original size:45 final size:46
Alignment explanation
Indices: 60710121--60710238 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 46
60710111 GTTCAGATTC
* * * **
60710121 AAAAAAAAATCAAGATCAAAAAATCAAAAAAATTAGGATCAAAAAT
1 AAAAAAAATTAAAGATCAAAAAATCAAAAAAATCAAAATCAAAAAT
*
60710167 AAAAAAAATTTAAGATCAAAAAAT-AAAAAAATCAAAATCAAAAAT
1 AAAAAAAATTAAAGATCAAAAAATCAAAAAAATCAAAATCAAAAAT
*
60710212 AAAAAAAATCAAAG-TC--AAAATCAAAAA
1 AAAAAAAATTAAAGATCAAAAAATCAAAAA
60710239 TAAAAAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 5 0.08
43 5 0.08
44 2 0.03
45 30 0.47
46 22 0.34
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.15
Consensus pattern (46 bp):
AAAAAAAATTAAAGATCAAAAAATCAAAAAAATCAAAATCAAAAAT
Found at i:60712627 original size:88 final size:88
Alignment explanation
Indices: 60712510--60713076 Score: 533
Period size: 88 Copynumber: 6.6 Consensus size: 88
60712500 GAGCAGACTA
* * *
60712510 AAAATAGCAGATCTTGCCTTCTTGTACTGGCAGCGAAGCAGATCAAAAACACCAGCCTTATCTCC
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
60712575 CTGAGCAGCT-GTGGAGTAGGTTG
66 CTGAGCAG-TAGTGGAGTAGGTTG
* * * *
60712598 AAAATAGCAAATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAG--A-TAG-C--ATCTCT
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
** * * **
60712657 CTGAGTTGCAGCGGAGTAGACTG
66 CTGAGCAGTAGTGGAGTAGGTTG
* * * * * *
60712680 AAGATAGCATATCTTGTCTT--T-T--T------GTAGTAGATTAAAGACACCATCCTTATCTCC
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
* *
60712734 CTGAGCAGTAGTAGAGTGGGTTG
66 CTGAGCAGTAGTGGAGTAGGTTG
* * * *
60712757 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAACGAAGCAGATCGAAGATAGCCAGTCTTATCTC
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACA-CCAGCCTTATCTC
** ** *
60712822 CCTGAGTTGTAGCAGAGTAGATTG
65 CCTGAGCAGTAGTGGAGTAGGTTG
* * * * *
60712846 AAGATAACAGATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCAAAGACACTAGCCTTATCTCC
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
* * *
60712911 CTGTGTAGCAGTGGAGTAGGTTG
66 CTGAGCAGTAGTGGAGTAGGTTG
* * * **
60712934 AAAATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATTGAAGACACCAGCCTTATCTCC
1 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
* **
60712999 CTAAGCAGTAGTGGAGTAGGTAA
66 CTGAGCAGTAGTGGAGTAGGTTG
* * *
60713022 AAAATAGCACATCTTG-CTGTCTTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
1 AAAATAGCAGATCTTGTCT-TCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAG
60713077 TTTTATCGCA
Statistics
Matches: 378, Mismatches: 81, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
71 10 0.03
73 1 0.00
74 1 0.00
75 1 0.00
77 39 0.10
79 2 0.01
80 2 0.01
82 40 0.11
84 1 0.00
85 2 0.01
86 1 0.00
87 2 0.01
88 202 0.53
89 74 0.20
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTATCTCC
CTGAGCAGTAGTGGAGTAGGTTG
Found at i:60713101 original size:177 final size:177
Alignment explanation
Indices: 60712708--60713102 Score: 416
Period size: 177 Copynumber: 2.2 Consensus size: 177
60712698 TTTTTGTAGT
* * * * * * * *
60712708 AGATTAAAGACACCATCCTTATCTCCCTGAGCAGTAGTAGAGTGGGTTGAAAATAGCAGATCTTG
1 AGATCAAAGACACCAGCCTTATCGCACTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* * * * **
60712773 TCTTCCTGTACTGGCAACGAAGCAGATCGAAGATAGCCAGTCTTATCTCCCTGAGTTGTAGCAGA
66 TCTTCCTGTACTGGCAACAAAGCAGATCGAAGACAGCCAGCCTTATCTCCCTAAGCAGTAGCAGA
** * * *
60712838 GTAGATTGAAGATAACAGATCTTGTCTTCCTGTACTAGCAGCGAAGT
131 GTAGATAAAAAATAACACATCTTGTCTTCCTGTACTAGCAGCGAAGC
* * * * *
60712885 AGATCAAAGACACTAGCCTTATCTCCCTGTGTAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTG
1 AGATCAAAGACACCAGCCTTATCGCACTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* * * **
60712950 TCTTCCTGTATTGGCAGCAAAGCAGATTGAAGACA-CCAGCCTTATCTCCCTAAGCAGTAGTGGA
66 TCTTCCTGTACTGGCAACAAAGCAGATCGAAGACAGCCAGCCTTATCTCCCTAAGCAGTAGCAGA
* * * *
60713014 GTAGGTAAAAAATAGCACATCTTG-CTGTCTTGTACTGGCAGCGAAGC
131 GTAGATAAAAAATAACACATCTTGTCT-TCCTGTACTAGCAGCGAAGC
* ** * *
60713061 AGATCGAAGACACCAGTTTTATCGCATTGAAGTTGCAGTGGA
1 AGATCAAAGACACCAGCCTTATCGCACTG-AGTAGCAGTGGA
60713103 ATTGATTAAA
Statistics
Matches: 178, Mismatches: 38, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
175 2 0.01
176 80 0.45
177 96 0.54
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (177 bp):
AGATCAAAGACACCAGCCTTATCGCACTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
TCTTCCTGTACTGGCAACAAAGCAGATCGAAGACAGCCAGCCTTATCTCCCTAAGCAGTAGCAGA
GTAGATAAAAAATAACACATCTTGTCTTCCTGTACTAGCAGCGAAGC
Found at i:60713377 original size:50 final size:50
Alignment explanation
Indices: 60713323--60713979 Score: 433
Period size: 50 Copynumber: 13.2 Consensus size: 50
60713313 CTAGTGGAAC
* *
60713323 AGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCAGCTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
** * * * ** * **
60713373 AGATTGAAGCTACAACGGTTACTCTTACTTCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * *
60713423 AGATTGAAGCTACGACGGCGACTCTTGTTTCCCTGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * * * * **** ** ** *
60713473 ATATTGTAGCTACAATGGTGAATCTTACTTCCCTGGGGGTATAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * ** *
60713523 CGATTGAAGCTACGACAACGAATCTTATTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * * ** * * **
60713573 AGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTG-CGGTGTAATGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCC-TGACATTGCAGTTAAAT
* ** * * *
60713623 AGATTGAAGCTACGATAGCGAATCTTGTTT-CCTCAACATTACAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCT-GACATTGCAGTTAAAT
* * * ** * ** *
60713673 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * * ** * *
60713723 AAATTGAAGCTACGACGGCGAATCTTGTTTCCCCAATATTACAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
** * * * * *
60713773 AGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGA-TGTAGTGAAAC
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGAC-ATTGCAGTTAAAT
* * * * *
60713823 AGATTGAAGCTACGATGGTGAATCTTGTTTCCCCG--ATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * * * * * ** *
60713871 AGATTAAAGCTACAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
* * * * *
60713921 GGATTGAAGCTACGACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
60713971 AGATTGAAG
1 AGATTGAAG
60713980 ATGGCGAATC
Statistics
Matches: 437, Mismatches: 162, Indels: 16
0.71 0.26 0.03
Matches are distributed among these distances:
47 1 0.00
48 37 0.08
49 2 0.00
50 392 0.90
51 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTATTTCCCTGACATTGCAGTTAAAT
Found at i:60713390 original size:100 final size:100
Alignment explanation
Indices: 60713270--60713979 Score: 913
Period size: 100 Copynumber: 7.1 Consensus size: 100
60713260 ATTACAGTGG
** * * * *
60713270 AATAGATTGAAGCTACAACGGCAAATCTTACATT-TCTAGTGGTCTAGTGGAACAGATTGAAGCT
1 AATAGATTGAAGCTACAACGGTGAATCTTAC-TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT
* * *
60713334 ACAACGGCGAATCTTGTTTCCCTGACATTGCAGCTA
65 ACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
60713370 AATAGATTGAAGCTACAACGGTTACTCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
60713435 CGACGGCGACTCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
60713470 AATATATTGTAGCTACAATGGTGAATCTTACTTCCCTGGGGGTATAGTGGAACCGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
** *
60713535 CGACAACGAATCTTATTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
60713570 AATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCGGTGTAATGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
** * * *
60713635 CGATAGCGAATCTTGTTTCCTCAACATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
60713670 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
60713735 CGACGGCGAATCTTGTTTCCCCAATATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*** * * *
60713770 AATAGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGATGTAGTGAAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
60713835 CGATGGTGAATCTTGTTTCCCCG--ATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
60713868 AATAGATTAAAGCTACAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACGGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
**
60713933 CGACGGCGAATCTTACTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
60713968 AACAGATTGAAG
1 AATAGATTGAAG
60713980 ATGGCGAATC
Statistics
Matches: 529, Mismatches: 78, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
98 84 0.16
99 2 0.00
100 443 0.84
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:60714044 original size:44 final size:43
Alignment explanation
Indices: 60713986--60714183 Score: 197
Period size: 44 Copynumber: 4.6 Consensus size: 43
60713976 GAAGATGGCG
60713986 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGT-AAT
* ** * * *
60714030 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAT
* * * * *
60714073 AGATCTTATCTCTCTGAAGTTGCA-TAGAGCAGATTGCA-T-AT
1 A-ATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAT
* * * *
60714114 AGTCTTATCTCCCTGAAGATGCAGCGGAGCAGATTGAAGCCAAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAG-TAAT
60714158 AATCCTATCTCCCTGAA-ATTGCAGCA
1 AATCCTATCTCCCTGAAGA-TGCAGCA
60714184 CAACGGATTA
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 19 0.15
41 14 0.11
42 1 0.01
43 15 0.12
44 78 0.61
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAT
Found at i:60714130 original size:40 final size:42
Alignment explanation
Indices: 60713991--60714234 Score: 165
Period size: 44 Copynumber: 5.7 Consensus size: 42
60713981 TGGCGAATCC
* * *
60713991 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAATAATCC
1 TATCTCCCTGAAGATGCAGTAGAGCAGATTGAA-T-AATAGTCT
* * * *
60714035 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
1 TATCTCCCTGAAGATGCAGTAGAGCAGATT-GAATAATAG-TCT
* * *
60714079 TATCTCTCTGAAGTTGCA-TAGAGCAGATTGCAT-ATAGTCT
1 TATCTCCCTGAAGATGCAGTAGAGCAGATTGAATAATAGTCT
** * * *
60714119 TATCTCCCTGAAGATGCAGCGGAGCAGATTGAAGCCAATAATCC
1 TATCTCCCTGAAGATGCAGTAGAGCAGATTGAA--TAATAGTCT
* * * * *
60714163 TATCTCCCTGAA-ATTGCAGCACAACGGATT-AAAACCATAGATCT
1 TATCTCCCTGAAGA-TGCAGTAGAGCAGATTGAATA--ATAG-TCT
* *
60714207 TATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TATCTCCCTGAAGATGCAGTAGAGCAGAT
60714235 CGCATTGCAG
Statistics
Matches: 158, Mismatches: 31, Indels: 23
0.75 0.15 0.11
Matches are distributed among these distances:
40 19 0.12
41 16 0.10
42 2 0.01
43 25 0.16
44 94 0.59
45 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGATGCAGTAGAGCAGATTGAATAATAGTCT
Found at i:60714167 original size:84 final size:86
Alignment explanation
Indices: 60713986--60714183 Score: 231
Period size: 84 Copynumber: 2.3 Consensus size: 86
60713976 GAAGATGGCG
* *
60713986 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAATAATCCTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTGAAGT-AATAATCCTATCTCCCTGAAGATG
* *
60714051 CAGTGGAGCAGATTAAAATCAT
65 CAGCGGAGCAGATTAAAACCAT
* * * * * *
60714073 AGATCTTATCTCTCTGAAGTTGCA-TAGAGCAGATTGCA-T-ATAGTCTTATCTCCCTGAAGATG
1 A-ATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTGAAGTAATAATCCTATCTCCCTGAAGATG
* *
60714135 CAGCGGAGCAGATTGAAGCCAAT
65 CAGCGGAGCAGATTAAAACC-AT
*
60714158 AATCCTATCTCCCTGAAATTGCAGCA
1 AATCCTATCTCCCTGAAGTTGCAGCA
60714184 CAACGGATTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
84 55 0.60
85 4 0.04
86 1 0.01
87 13 0.14
88 19 0.21
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (86 bp):
AATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTGAAGTAATAATCCTATCTCCCTGAAGATGC
AGCGGAGCAGATTAAAACCAT
Found at i:60714219 original size:128 final size:128
Alignment explanation
Indices: 60713991--60714239 Score: 390
Period size: 128 Copynumber: 1.9 Consensus size: 128
60713981 TGGCGAATCC
* * **
60713991 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGTAAATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
* * * * *
60714056 GAGCAGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCATAGAGCAGATTGCATATAGTCT
66 CAACAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATATAGTCT
* *
60714119 TATCTCCCTGAAGATGCAGCGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAATTGCAGCA
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
*
60714184 CAACGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
66 CAACAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
60714240 TGCAGTGGAG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 109 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (128 bp):
TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
CAACAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATATAGTCT
Found at i:60715152 original size:17 final size:16
Alignment explanation
Indices: 60715123--60715159 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
60715113 TTTCCTTTGC
*
60715123 TTCTTTTGGTTTTTTT
1 TTCTTTTGGTTTTCTT
60715139 TTCTTTTCGGTTTTCTT
1 TTCTTTT-GGTTTTCTT
60715156 TTCT
1 TTCT
60715160 ATACTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.76
Consensus pattern (16 bp):
TTCTTTTGGTTTTCTT
Found at i:60715823 original size:3 final size:3
Alignment explanation
Indices: 60715815--60715874 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
60715805 ATTAATTGGT
*
60715815 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TGTCA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA
*
60715861 TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TT
60715875 TTTTTTATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 1 0.02
3 48 0.96
4 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60722449 original size:29 final size:28
Alignment explanation
Indices: 60722427--60722485 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
60722417 TAAAATATTA
*
60722427 AGTTAAACAATAATAAAAATAAAGAAAAT
1 AGTTAAAAAATAATAAAAATAAA-AAAAT
*
60722456 AGTTAAAAAATTATAAAATATAAAAAAAT
1 AGTTAAAAAATAATAAAA-ATAAAAAAAT
60722485 A
1 A
60722486 TATGTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (28 bp):
AGTTAAAAAATAATAAAAATAAAAAAAT
Found at i:60729750 original size:11 final size:11
Alignment explanation
Indices: 60729708--60729750 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
60729698 TTATTTGTGT
**
60729708 TTATTTTTTCC
1 TTATTTTTTAA
60729719 TTATTTTTTATGA
1 TTATTTTTTA--A
60729732 TTATTTTTTAA
1 TTATTTTTTAA
60729743 TTATTTTT
1 TTATTTTT
60729751 GAACTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:60730875 original size:32 final size:34
Alignment explanation
Indices: 60730837--60730909 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 34
60730827 AATAGTTTTT
*
60730837 ATATTTTTTATTTAAAACA-ATTT-TGAAA-ATAA
1 ATATTTTTTATTGAAAACATATTTAT-AAATATAA
60730869 ATATTTTTTATTGAAAACATATTTATAAATATAA
1 ATATTTTTTATTGAAAACATATTTATAAATATAA
60730903 ATATTTT
1 ATATTTT
60730910 CTACTTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
32 18 0.49
33 7 0.19
34 12 0.32
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (34 bp):
ATATTTTTTATTGAAAACATATTTATAAATATAA
Found at i:60735383 original size:19 final size:18
Alignment explanation
Indices: 60735359--60735394 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
60735349 AATTCATTTT
*
60735359 TAATTTATATATTTTTTAA
1 TAATTT-TATAATTTTTAA
60735378 TAATTTTATAATTTTTA
1 TAATTTTATAATTTTTA
60735395 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTTATAATTTTTAA
Found at i:60738169 original size:20 final size:20
Alignment explanation
Indices: 60738144--60738183 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
60738134 CAAGAGTATG
60738144 TTCAATAACTTATATTTGAT
1 TTCAATAACTTATATTTGAT
60738164 TTCAATAACTTATATTTGAT
1 TTCAATAACTTATATTTGAT
60738184 GAATAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTCAATAACTTATATTTGAT
Found at i:60748654 original size:32 final size:32
Alignment explanation
Indices: 60748618--60748678 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
60748608 ACAATCTACT
*
60748618 AAAACGACATAACAGTTGTACGTAATAAATAA
1 AAAACCACATAACAGTTGTACGTAATAAATAA
60748650 AAAACCACATAACAGTTGTACGTAATAAA
1 AAAACCACATAACAGTTGTACGTAATAAA
60748679 ATTCGAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.21
Consensus pattern (32 bp):
AAAACCACATAACAGTTGTACGTAATAAATAA
Found at i:60752586 original size:21 final size:21
Alignment explanation
Indices: 60752560--60752602 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
60752550 GGTTCGCTGT
*
60752560 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
60752581 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
60752602 A
1 A
60752603 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:60752602 original size:16 final size:16
Alignment explanation
Indices: 60752583--60752615 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60752573 TGTATTGGAT
*
60752583 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
60752599 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
60752615 T
1 T
60752616 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:60752660 original size:45 final size:44
Alignment explanation
Indices: 60752594--60752688 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
60752584 GGATTAGAGG
* *
60752594 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
60752639 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
60752683 TGTAAT
1 TGTAAT
60752689 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:60752871 original size:18 final size:17
Alignment explanation
Indices: 60752850--60752884 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60752840 TTATTATTTA
*
60752850 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60752868 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60752885 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60752878 original size:28 final size:27
Alignment explanation
Indices: 60752808--60752880 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
60752798 TTTATTATCA
*
60752808 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
60752836 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
60752863 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
60752881 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:60752997 original size:144 final size:147
Alignment explanation
Indices: 60752769--60753040 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
60752759 ATGATTATTG
60752769 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
60752834 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
60752899 AGAAATTTGATTTGGTAAA
129 AGAAATTTGATTTGGTAAA
*
60752918 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
60752980 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
60753041 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGATTTGGTAAA
Found at i:60753015 original size:18 final size:17
Alignment explanation
Indices: 60752994--60753028 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60752984 TTATTATTAA
*
60752994 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60753012 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60753029 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60753072 original size:54 final size:54
Alignment explanation
Indices: 60753014--60753192 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
60753004 ATTAAAATAT
*
60753014 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
60753068 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
60753131 TAT
53 -AC
*
60753134 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
60753188 ATAAT
1 ATAAT
60753193 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:60753074 original size:61 final size:61
Alignment explanation
Indices: 60753009--60753196 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
60752999 TTTTAATTAA
*
60753009 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
60753070 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
60753129 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
60753190 AATATAT
1 AATATAT
60753197 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:60753107 original size:120 final size:120
Alignment explanation
Indices: 60752977--60753199 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
60752967 ATCATATTTA
* *
60752977 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
60753042 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
60753097 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
60753162 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
60753200 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:60753135 original size:18 final size:17
Alignment explanation
Indices: 60753114--60753148 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60753104 TTATTATTAA
60753114 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
60753132 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
60753149 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:60753211 original size:17 final size:16
Alignment explanation
Indices: 60753189--60753235 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
60753179 ACTCAAATCA
60753189 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
60753206 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
60753220 TAAATATATGATTTAA
1 T-AATATATGATTTAA
60753236 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:60753236 original size:17 final size:17
Alignment explanation
Indices: 60753208--60753241 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60753198 ATTATAACTA
*
60753208 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
60753225 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
60753242 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Done.