Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 108 of 208
Found at i:35647114 original size:27 final size:27
Alignment explanation
Indices: 35647084--35647135 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
35647074 AATAAAAAAA
* *
35647084 TAAATAAGTATGTAA-TAATTTATTTGT
1 TAAATAAATAGGTAATTAA-TTATTTGT
35647111 TAAATAAATAGGTAATTAATTATTT
1 TAAATAAATAGGTAATTAATTATTT
35647136 AAATGTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (27 bp):
TAAATAAATAGGTAATTAATTATTTGT
Found at i:35652695 original size:42 final size:41
Alignment explanation
Indices: 35652649--35652805 Score: 242
Period size: 42 Copynumber: 3.8 Consensus size: 41
35652639 GCATATTCAC
35652649 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAATAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAA-AAA
*
35652691 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AAAA
* * *
35652733 AAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AAAA
*
35652775 AAACGCCGCTAAAGAACATGATCTTTAGCGG
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGG
35652806 TGTTTTTGTT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 107 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (41 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAAAA
Found at i:35653821 original size:19 final size:20
Alignment explanation
Indices: 35653792--35653831 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35653782 ATAAATGGAC
**
35653792 TATTGTATTTGGTTTTTATT
1 TATTGTATTTGAATTTTATT
35653812 TATT-TATTTGAATTTTATT
1 TATTGTATTTGAATTTTATT
35653831 T
1 T
35653832 GTCTTGGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (20 bp):
TATTGTATTTGAATTTTATT
Found at i:35661741 original size:12 final size:12
Alignment explanation
Indices: 35661724--35661751 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35661714 AATGGTGAAG
35661724 CTTTAGCTTTCT
1 CTTTAGCTTTCT
35661736 CTTTAGCTTTCT
1 CTTTAGCTTTCT
35661748 CTTT
1 CTTT
35661752 GGTCCCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.61
Consensus pattern (12 bp):
CTTTAGCTTTCT
Found at i:35662373 original size:34 final size:34
Alignment explanation
Indices: 35662335--35662399 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
35662325 CTTAAAGTTT
*
35662335 TAGTATGTGAACCCCCATATTATATAGTATGACA
1 TAGTATGCGAACCCCCATATTATATAGTATGACA
*
35662369 TAGTATGCGAACCCCCATGTTATATAGTATG
1 TAGTATGCGAACCCCCATATTATATAGTATG
35662400 TGATTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (34 bp):
TAGTATGCGAACCCCCATATTATATAGTATGACA
Found at i:35662488 original size:28 final size:27
Alignment explanation
Indices: 35662453--35662519 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
35662443 GGGAACCCTA
*
35662453 TACATGTGAACTCTAGATGCGTGAACCT
1 TACATGTGAAC-CTAGATGCGTGAACCC
* * *
35662481 TAGATGTGCAACCTATATGTGTGAACCC
1 TACATGTG-AACCTAGATGCGTGAACCC
35662509 TACATGTGAAC
1 TACATGTGAAC
35662520 ATGTCATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
TACATGTGAACCTAGATGCGTGAACCC
Found at i:35662510 original size:15 final size:15
Alignment explanation
Indices: 35662424--35662516 Score: 57
Period size: 15 Copynumber: 6.3 Consensus size: 15
35662414 TGAACCTTGC
*
35662424 ATGTGTAGATCCC-AT
1 ATGTGT-GAACCCTAT
*
35662439 ATGTGGGAACCCTAT
1 ATGTGTGAACCCTAT
** * *
35662454 ACATGTGAACTCTAG
1 ATGTGTGAACCCTAT
* * *
35662469 ATGCGTGAACCTTAG
1 ATGTGTGAACCCTAT
*
35662484 ATGTG-CAA-CCTAT
1 ATGTGTGAACCCTAT
*
35662497 ATGTGTGAACCCTAC
1 ATGTGTGAACCCTAT
35662512 ATGTG
1 ATGTG
35662517 AACATGTCAT
Statistics
Matches: 57, Mismatches: 18, Indels: 6
0.70 0.22 0.07
Matches are distributed among these distances:
13 8 0.14
14 9 0.16
15 40 0.70
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (15 bp):
ATGTGTGAACCCTAT
Found at i:35664291 original size:21 final size:21
Alignment explanation
Indices: 35664267--35664313 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35664257 AAAAATTTAG
35664267 ATTATTATAATGGTTATTATC
1 ATTATTATAATGGTTATTATC
* * * *
35664288 ATTACTGTTATGGTTATTTTC
1 ATTATTATAATGGTTATTATC
35664309 ATTAT
1 ATTAT
35664314 CAATATTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (21 bp):
ATTATTATAATGGTTATTATC
Found at i:35667589 original size:6 final size:6
Alignment explanation
Indices: 35667590--35667614 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35667580 AAAATCAAAA
35667590 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
35667615 TGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:35669350 original size:88 final size:88
Alignment explanation
Indices: 35669234--35669843 Score: 580
Period size: 88 Copynumber: 6.9 Consensus size: 88
35669224 GAAACCATAA
* * * * *
35669234 AGCCTTATCTCCCTGAGCAGTAATGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
* *
35669299 CAGCGAAGTAGATTGAAGGCCCC
66 CAGCGAAGTAGATCGAAGACCCC
* * * * * *
35669322 AGCCTTATCTCCTTGAGAAACAGTGGAGTAGGTTGACAATAGCAGATCTTGCCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
** *
35669387 CAGCGAAGTAGATCGAAGATAGCA
66 CAGCGAAGTAGATCGAAGA-CCCC
* * * * *
35669411 AGCCTTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTATATTGA
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
* *
35669476 CAACGAAGTAGATCGAAAACCCC
66 CAGCGAAGTAGATCGAAGACCCC
* * * *
35669499 AGCCTTATCTCCCT-AGGCAACAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTCTATTG
1 AGCCTTATCTCCCTGA-GCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTG
* ** ****
35669563 GCAGTGAAGTAGATAAAAGATAGTA
65 GCAGCGAAGTAGATCGAAGA-CCCC
* * *
35669588 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGCATATGTTGTCTT-TCTATATTG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCT-TATATTG
35669652 GCAGCGAAGTAGATCGAAGACCCC
65 GCAGCGAAGTAGATCGAAGACCCC
* * * * * * * ** *
35669676 AACCATATCTCCCTGAGCGGCAGCGGAGCAGATTGAAAACAGCAGATCTTACCTTCCTATATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
* *
35669741 CAGCGAAGCAGATCGAAGAACACC
66 CAGCGAAGTAGATCGAAG-ACCCC
* ** * * ** * * *
35669765 AGCCCTT-CCTCCCTGAGTTTGTAGTGGAGCAGACTAAAAACAGCAGATCTTGTCTT-TCTATAA
1 AG-CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCT-TATAT
*
35669828 TGGCAGCGAAGCAGAT
63 TGGCAGCGAAGTAGAT
35669844 TGACAACACT
Statistics
Matches: 426, Mismatches: 86, Indels: 18
0.80 0.16 0.03
Matches are distributed among these distances:
87 1 0.00
88 212 0.50
89 159 0.37
90 54 0.13
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
CAGCGAAGTAGATCGAAGACCCC
Found at i:35669529 original size:177 final size:177
Alignment explanation
Indices: 35669233--35669843 Score: 699
Period size: 177 Copynumber: 3.4 Consensus size: 177
35669223 TGAAACCATA
* * *
35669233 AAGCCTTATCTCCCTGAGCAGTAATGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCTTGTATTG
1 AAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
* * * * *
35669298 GCAGCGAAGTAGATTGAAGGCCCCAGCCTTATCTCCTTGAGAAACAGTGGAGTAGGTTGACAATA
66 GCAGCGAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
* *
35669363 GCAGATCTTGCCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAGC
131 GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
35669410 AAGCCTTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTATATTG
1 AAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
* * *
35669475 ACAACGAAGTAGATCGAAAACCCCAGCCTTATCTCCCT-AGGCAACAGTGGAGTAGGTTGAAAAT
66 GCAGCGAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGA-GCAACAGTGGAGTAGGTTGAAAAT
* * * * ** *
35669539 AACAGATCTTGTCTTCCTCTATTGGCAGTGAAGTAGATAAAAGATAGT
130 AGCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * *
35669587 AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGCATATGTTGTCTTTCTATATTG
1 AAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
* * ** * * * *
35669652 GCAGCGAAGTAGATCGAAGACCCCAACCATATCTCCCTGAGCGGCAGCGGAGCAGATTGAAAACA
66 GCAGCGAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
* *
35669717 GCAGATCTTACCTTCCTATATTGGCAGCGAAGCAGATCGAAGA-A-C
131 GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* ** * ** * * *
35669762 ACCAGCCCTT-CCTCCCTGAGTTTGTAGTGGAGCAGACTAAAAACAGCAGATCTTGTCTTTCTAT
1 A--AG-CCTTATCTCCCTGAG-CAGTAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTAT
* *
35669826 AATGGCAGCGAAGCAGAT
62 ATTGGCAGCGAAGTAGAT
35669844 TGACAACACT
Statistics
Matches: 365, Mismatches: 63, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
175 1 0.00
176 2 0.01
177 308 0.84
178 54 0.15
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (177 bp):
AAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
GCAGCGAAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
Found at i:35669826 original size:90 final size:90
Alignment explanation
Indices: 35669636--35669882 Score: 270
Period size: 90 Copynumber: 2.8 Consensus size: 90
35669626 ATAGCATATG
* * * * **
35669636 TTGTCTTTCTATATTGGCAGCGAAGTAGATCGAAG-ACCCCAACCATAT-CTCCCTGAG-CGGCA
1 TTGTCTTTCTATATTGGCAGCGAAGCAGATCGAAGAACACCAGCCCT-TCCTCCCTGAGTTTGCA
* * *
35669698 GCGGAGCAGATTGAAAACAGCAGATC
65 GTGGAGCAGACTAAAAACAGCAGATC
** * *
35669724 TTACCTTCCTATATTGGCAGCGAAGCAGATCGAAGAACACCAGCCCTTCCTCCCTGAGTTTGTAG
1 TTGTCTTTCTATATTGGCAGCGAAGCAGATCGAAGAACACCAGCCCTTCCTCCCTGAGTTTGCAG
35669789 TGGAGCAGACTAAAAACAGCAGATC
66 TGGAGCAGACTAAAAACAGCAGATC
* * * * * *
35669814 TTGTCTTTCTATAATGGCAGCGAAGCAGATTG-ACAACACTAG-TCTTGCCTCTCTGAGTTTGCA
1 TTGTCTTTCTATATTGGCAGCGAAGCAGATCGAAGAACACCAGCCCTT-CCTCCCTGAGTTTGCA
35669877 GTGGAG
65 GTGGAG
35669883 TAGGTTGAAG
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
88 35 0.27
89 45 0.34
90 52 0.39
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (90 bp):
TTGTCTTTCTATATTGGCAGCGAAGCAGATCGAAGAACACCAGCCCTTCCTCCCTGAGTTTGCAG
TGGAGCAGACTAAAAACAGCAGATC
Found at i:35670042 original size:132 final size:132
Alignment explanation
Indices: 35669874--35670351 Score: 678
Period size: 132 Copynumber: 3.6 Consensus size: 132
35669864 CTCTGAGTTT
* *
35669874 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
35669939 AGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAG
66 AGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAG
35670004 CA
131 CA
* * * *
35670006 GCAGTGGAGCAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTACTGGAGTAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* *
35670071 -GATGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATTTCCCTGA
66 AG-TGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGA
35670135 GCA
130 GCA
* * * *
35670138 GCAGTGGAGTTGGTTGAAGAATGTAGAT-CTCGGCTCTCC-AAGCAGTAGTGGAACAGATCAAAG
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCT-GTCTC-CCTAAGCAGTAGTGGAGCAGATCAAAG
* * * * *
35670201 ACGGTGAATTTTATCTT-TCCAAGGTAGTAGGGAAGCAGATTTAAACCACAAATCCTATCTCTCT
64 ACAGTGAATCTTATCTTCT-CAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT
35670265 GAGCA
128 GAGCA
* * * * *
35670270 GCAGTGGAGTAGGTTGAAGATTGTAAATCATGTCTCGCTAAGCAGTAGTGAAGCAGATCAAAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
35670335 AGCGAATCTTA-CTTCTC
66 AGTGAATCTTATCTTCTC
35670352 CGACGTTACA
Statistics
Matches: 304, Mismatches: 34, Indels: 17
0.86 0.10 0.05
Matches are distributed among these distances:
131 8 0.03
132 292 0.96
133 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
AGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAG
CA
Found at i:35670480 original size:49 final size:50
Alignment explanation
Indices: 35670338--35670495 Score: 234
Period size: 47 Copynumber: 3.2 Consensus size: 50
35670328 CAAAGATAGC
* *
35670338 GAATCTTACTTCTCCGACGTTACAGTAAAACAGATTGAAGCTACAACAGT
1 GAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
* * *
35670388 GAATCCTA--T-TCCAACATTGCAGTAAAACAGATTGAAGCTACAACAGA
1 GAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
*
35670435 GAATCTTACTTCTCCGACGTTGTAGTAAAACAGA-TGAAGCTACAACAGA
1 GAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
35670484 GAATCTTACTTC
1 GAATCTTACTTC
35670496 CCCTGAAGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
47 41 0.43
48 1 0.01
49 28 0.29
50 26 0.27
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
Found at i:35670992 original size:19 final size:19
Alignment explanation
Indices: 35670968--35671037 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
35670958 GTATTCATAA
*
35670968 AAAGGGAGGAAATTAGTGT
1 AAAGGGAGAAAATTAGTGT
*
35670987 AAAGGGTGAAAATTAGTGT
1 AAAGGGAGAAAATTAGTGT
* * * *
35671006 AAAGAGAAAAAAATAAGTGC
1 AAAG-GGAGAAAATTAGTGT
*
35671026 AAAAGGAGAAAA
1 AAAGGGAGAAAA
35671038 AAGAAATAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.54, C:0.01, G:0.29, T:0.16
Consensus pattern (19 bp):
AAAGGGAGAAAATTAGTGT
Found at i:35671863 original size:24 final size:24
Alignment explanation
Indices: 35671836--35671950 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 24
35671826 TTATTGTATA
*
35671836 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* *
35671860 TTATTATTTGT-AATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
35671883 TTATTATTTTAAATTCATC--GTT
1 TTATTATTTTAAATTTATCATGTT
**
35671905 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
35671929 ATATTTATTTCAAATTTATCAT
1 TTA-TTATTTTAAATTTATCAT
35671951 TAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 35 0.47
24 35 0.47
25 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:35671956 original size:24 final size:23
Alignment explanation
Indices: 35671798--35671994 Score: 134
Period size: 24 Copynumber: 8.5 Consensus size: 23
35671788 CTTATTATCA
*
35671798 TTAAATTAATCATTAATATTA-T
1 TTAAATTTATCATTAATATTATT
* * ** *
35671820 CTAAGTTTATTGTATATTATTATT
1 TTAAATTTATCAT-TAATATTATT
* **
35671844 TTAGATTTATCATGTTTTATTATT
1 TTAAATTTATCAT-TAATATTATT
* *
35671868 TGT-AATTTATCAATATTATTATT
1 T-TAAATTTATCATTAATATTATT
* * *
35671891 TTAAATTCATCGTTAACATTATT
1 TTAAATTTATCATTAATATTATT
35671914 TTAAATTTATCATGT-ATATTTATT
1 TTAAATTTATCAT-TAATA-TTATT
*
35671938 TCAAATTTATCATTAATA-T-TT
1 TTAAATTTATCATTAATATTATT
* *
35671959 TTAAATTTATTATATACTATTATT
1 TTAAATTTATCAT-TAATATTATT
**
35671983 TTGGATTTATCA
1 TTAAATTTATCA
35671995 CGTATGATTG
Statistics
Matches: 134, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
21 13 0.10
22 14 0.10
23 47 0.35
24 59 0.44
25 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
TTAAATTTATCATTAATATTATT
Found at i:35672217 original size:11 final size:11
Alignment explanation
Indices: 35672201--35672229 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
35672191 TACATATTAC
35672201 TTATTTTTTAA
1 TTATTTTTTAA
35672212 TTA-TTTTTAA
1 TTATTTTTTAA
35672222 TTATTTTT
1 TTATTTTT
35672230 CTATATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:35674829 original size:23 final size:23
Alignment explanation
Indices: 35674803--35674849 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35674793 CAGCATCATA
35674803 TTTCATTACAAAAACCAATCAAT
1 TTTCATTACAAAAACCAATCAAT
* *
35674826 TTTCATTACAAAGACCAGTCAAT
1 TTTCATTACAAAAACCAATCAAT
35674849 T
1 T
35674850 CATACAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (23 bp):
TTTCATTACAAAAACCAATCAAT
Found at i:35676036 original size:36 final size:36
Alignment explanation
Indices: 35675989--35676096 Score: 157
Period size: 36 Copynumber: 3.0 Consensus size: 36
35675979 TGTCAGTGTC
*
35675989 TGATTACTACACCAAGATATCTCGTGCAAGTTTATA
1 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
35676025 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
1 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
** *
35676061 T--TTTGTCACACCAAGATATCTCATACAAGTTTATA
1 TGATTACT-ACACCAAGATATCTCGTACAAGTTTATA
35676096 T
1 T
35676097 TTTGTCTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 3 0.04
35 28 0.42
36 36 0.54
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
TGATTACTACACCAAGATATCTCGTACAAGTTTATA
Found at i:35676079 original size:35 final size:36
Alignment explanation
Indices: 35675995--35676104 Score: 161
Period size: 35 Copynumber: 3.1 Consensus size: 36
35675985 TGTCTGATTA
* * *
35675995 CTACACCAAGATATCTCGTGCAAGTTTATATGATT-A
1 CTACACCAAGATATCTCGTACAAGTTTATAT-TTTGT
35676031 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
1 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
*
35676067 C-ACACCAAGATATCTCATACAAGTTTATATTTTGT
1 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
35676102 CTA
1 CTA
35676105 AACATGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
35 36 0.53
36 32 0.47
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (36 bp):
CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
Found at i:35676797 original size:18 final size:19
Alignment explanation
Indices: 35676766--35676806 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
35676756 TCTATTCATA
35676766 TTTTTTTCTTTTTTTTTTAC
1 TTTTTTTC-TTTTTTTTTAC
35676786 TTTTTTTC-TTTTTTTTAC
1 TTTTTTTCTTTTTTTTTAC
35676804 TTT
1 TTT
35676807 CCCCAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTTAC
Found at i:35683484 original size:19 final size:19
Alignment explanation
Indices: 35683448--35683486 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35683438 AATTTTAAAA
* *
35683448 TATTTTTAAAATACTTTTT
1 TATTTTTAAAAGAATTTTT
35683467 TATTTTTAAAAGAATTTTT
1 TATTTTTAAAAGAATTTTT
35683486 T
1 T
35683487 TGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTAAAAGAATTTTT
Found at i:35689605 original size:32 final size:32
Alignment explanation
Indices: 35689535--35689708 Score: 197
Period size: 32 Copynumber: 5.5 Consensus size: 32
35689525 GAATGGCTAC
* *
35689535 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
35689566 AAACCATCAGTAGCAGTGATATGATCGACACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* **
35689598 CAGCCATCAGTAATAGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
35689630 AAGCCATTAGTAGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * * *
35689662 CAGCCATCAGTAACGGTAATATGATCGGCAAA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
35689694 AAGCCATCACTAGCA
1 AAGCCATCAGTAGCA
35689709 TCGCAGAAAA
Statistics
Matches: 114, Mismatches: 28, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
31 10 0.09
32 104 0.91
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:35689622 original size:64 final size:64
Alignment explanation
Indices: 35689536--35689708 Score: 242
Period size: 64 Copynumber: 2.7 Consensus size: 64
35689526 AATGGCTACA
* *
35689536 AGCCATAAGT-ACAGTAATATGATTGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
* * * * *
35689599 AGCCATCAGTAATAGTAATATGATCGGCACAAAGCCATTAGTAGCAGTGATATGATTGGCACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
* *
35689663 AGCCATCAGTAACGGTAATATGATCGGCA-AAAAGCCATCACTAGCA
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAA-CCATCAGTAGCA
35689709 TCGCAGAAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
63 12 0.12
64 84 0.88
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (64 bp):
AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
Found at i:35689746 original size:27 final size:26
Alignment explanation
Indices: 35689723--35689787 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
35689713 AGAAAAGCTG
35689723 CCAATAACAGTATATGTGGCAAAGCCA
1 CCAATAACAGTAT-TGTGGCAAAGCCA
*
35689750 CCAGTAACAGTGATTGTGGCAAAGCCA
1 CCAATAACAGT-ATTGTGGCAAAGCCA
35689777 CCAAT-ACAGTA
1 CCAATAACAGTA
35689788 CTTCCTCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAATAACAGTATTGTGGCAAAGCCA
Found at i:35689954 original size:27 final size:26
Alignment explanation
Indices: 35689907--35690081 Score: 104
Period size: 27 Copynumber: 6.6 Consensus size: 26
35689897 GGTAAAATAG
**
35689907 TCATTTTACCCTTTGAAGGTA-TATCGA
1 TCATTTTACCC-TACAAGGTATTA-CGA
*
35689934 TCATTTTACCCTACAAGGGTATTACGG
1 TCATTTTACCCTACAA-GGTATTACGA
* * * *
35689961 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACA-AGGTATTACGA
* * * *
35689988 TCATTTTACTCTACAGGGGATTACGG
1 TCATTTTACCCTACAAGGTATTACGA
* * *
35690014 TCATTTTATCCTA-AGGGGTATTACGG
1 TCATTTTACCCTACA-AGGTATTACGA
* * * *
35690040 TTATTTTACCTTACAGGGGCATTAC-A
1 TCATTTTACCCTACA-AGGTATTACGA
35690066 GTCATTTTACCCTACA
1 -TCATTTTACCCTACA
35690082 TAGGCTGTAA
Statistics
Matches: 123, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 44 0.36
27 76 0.62
28 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (26 bp):
TCATTTTACCCTACAAGGTATTACGA
Found at i:35690046 original size:79 final size:80
Alignment explanation
Indices: 35689934--35690081 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 80
35689924 GGTATATCGA
* * *
35689934 TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACTC
1 TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCC
35689999 TACAGGGGATTACGG
66 TACAGGGGATTACGG
* * * *
35690014 TCATTTTATCCTA-AGGGGTATTACGGTTATTTTACCTTACAGGGGCATTACAGTCATTTTACCC
1 TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCC
35690078 TACA
66 TACA
35690082 TAGGCTGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 49 0.80
80 12 0.20
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (80 bp):
TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCC
TACAGGGGATTACGG
Found at i:35690064 original size:53 final size:53
Alignment explanation
Indices: 35689934--35690079 Score: 197
Period size: 53 Copynumber: 2.7 Consensus size: 53
35689924 GGTATATCGA
* *
35689934 TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCTTAC-AGGGGATTACGGTCATTTTACCCTATAGGGGCATTACGG
* *
35689988 TCATTTTA-CTCTACAGGGGATTACGGTCATTTTATCCTA-AGGGGTATTACGG
1 TCATTTTACCT-TACAGGGGATTACGGTCATTTTACCCTATAGGGGCATTACGG
* *
35690040 TTATTTTACCTTACAGGGGCATTACAGTCATTTTACCCTA
1 TCATTTTACCTTACAGGGG-ATTACGGTCATTTTACCCTA
35690080 CATAGGCTGT
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
52 27 0.33
53 44 0.54
54 11 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (53 bp):
TCATTTTACCTTACAGGGGATTACGGTCATTTTACCCTATAGGGGCATTACGG
Found at i:35690620 original size:18 final size:18
Alignment explanation
Indices: 35690552--35690617 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
35690542 AAATAGTAGT
*
35690552 TTATTAATATTTTAATTTAA
1 TTATT-ATATTATAATTT-A
* * * *
35690572 TTTTTAAATGATATTTTA
1 TTATTATATTATAATTTA
*
35690590 TTATTTTATTATAATTTA
1 TTATTATATTATAATTTA
35690608 TTATATATAT
1 TTAT-TATAT
35690618 ATATGGAAGA
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
18 18 0.53
19 12 0.35
20 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATTATATTATAATTTA
Found at i:35692876 original size:27 final size:27
Alignment explanation
Indices: 35692834--35692903 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
35692824 CCAACATAGA
35692834 GGCATTACGATCATTTTACCCTACAGG
1 GGCATTACGATCATTTTACCCTACAGG
* * *
35692861 GGCCTTACGGTCATTTTACCCTATAGG
1 GGCATTACGATCATTTTACCCTACAGG
35692888 GGCATTACGATCATTT
1 GGCATTACGATCATTT
35692904 AACAACCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
GGCATTACGATCATTTTACCCTACAGG
Found at i:35696211 original size:42 final size:41
Alignment explanation
Indices: 35696061--35696257 Score: 198
Period size: 42 Copynumber: 4.7 Consensus size: 41
35696051 TAACCGTTAC
35696061 ACGGTGGAATCAGCACTTAACAACCACC-TTATAATCAATGAT
1 ACGG-GGAATCAGCACTTAACAACC-CCTTTATAATCAATGAT
* * *
35696103 ACGGGGAATCAGCACATAACAACCCCTTTCACAATCAAGGAT
1 ACGGGGAATCAGCACTTAACAACCCCTTT-ATAATCAATGAT
*
35696145 ACGGTGGAATCAGCACTTAACAACCACCTTTATAATCAACGAT
1 ACGG-GGAATCAGCACTTAACAACC-CCTTTATAATCAATGAT
** * * * * *
35696188 TTGGGGAATCTGCACTTAGCAACCCTTTTTTTTATCAATGAT
1 ACGGGGAATCAGCACTTAACAACCC-CTTTATAATCAATGAT
* * * *
35696230 TCGGGGAATCTGCATTTAGCAACCCCTT
1 ACGGGGAATCAGCACTTAACAACCCCTT
35696258 ACATTCAAAG
Statistics
Matches: 133, Mismatches: 17, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.18
42 71 0.53
43 31 0.23
44 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (41 bp):
ACGGGGAATCAGCACTTAACAACCCCTTTATAATCAATGAT
Found at i:35699407 original size:95 final size:95
Alignment explanation
Indices: 35699265--35699449 Score: 298
Period size: 95 Copynumber: 1.9 Consensus size: 95
35699255 AAGGTTATAA
* *
35699265 TTCTCAATGGTGACATTGACGAGATGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
1 TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
35699330 GTATCCATCACCAGAATAGGGTTACGAAGT
66 GTATCCATCACCAGAATAGGGTTACGAAGT
* * *
35699360 TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGGAACTAGAAATGTAACACCCCTAACCT
1 TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
* * *
35699425 GTATCCGTCGCCGGAATAGGGTTAC
66 GTATCCATCACCAGAATAGGGTTAC
35699450 AGAGCATTAC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (95 bp):
TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
GTATCCATCACCAGAATAGGGTTACGAAGT
Found at i:35700790 original size:31 final size:31
Alignment explanation
Indices: 35700753--35700829 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
35700743 AACCAAAGCT
* *
35700753 ATCCCTTTTCATAATTTTGATGGTCGTTACC
1 ATCCCTTTTCATAATTTTGATGGTCATCACC
*
35700784 ATCCCTTTTCAT--TGTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTTGATGGTCATCACC
* *
35700813 ATACCTTTACATAATTT
1 ATCCCTTTTCATAATTT
35700830 GATAGCCGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 24 0.63
31 14 0.37
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.44
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTTGATGGTCATCACC
Found at i:35711203 original size:30 final size:28
Alignment explanation
Indices: 35711164--35711235 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
35711154 ATAGCCGAAG
* *
35711164 CCATACCTTTTCATAGTTCAATGGTCATCA
1 CCAT-CCTTTTCATA-ATCAATAGTCATCA
* *
35711194 CCATCCCTTTTCATAATCGATAGTCGTCA
1 CCAT-CCTTTTCATAATCAATAGTCATCA
35711223 CCATCCTTTTCAT
1 CCATCCTTTTCAT
35711236 TTGTTGATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 9 0.24
29 14 0.38
30 14 0.38
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.38
Consensus pattern (28 bp):
CCATCCTTTTCATAATCAATAGTCATCA
Found at i:35712838 original size:22 final size:22
Alignment explanation
Indices: 35712796--35712838 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
35712786 CTAGGGCAAA
* *
35712796 TATTTACTAAAAACCATTTAAT
1 TATTTACTAAAAAACACTTAAT
35712818 TATTTAC-AGAAAAACACTTAA
1 TATTTACTA-AAAAACACTTAA
35712839 GAAATTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TATTTACTAAAAAACACTTAAT
Found at i:35714610 original size:16 final size:17
Alignment explanation
Indices: 35714591--35714622 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35714581 AAAGAACCAA
35714591 AAGGAAA-AAAGAAAAC
1 AAGGAAAGAAAGAAAAC
35714607 AAGGAAAGAAAGAAAA
1 AAGGAAAGAAAGAAAA
35714623 GAAGAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (17 bp):
AAGGAAAGAAAGAAAAC
Found at i:35717446 original size:47 final size:47
Alignment explanation
Indices: 35717392--35717989 Score: 971
Period size: 47 Copynumber: 12.6 Consensus size: 47
35717382 TATTTGAATA
35717392 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35717439 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717486 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35717533 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717582 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35717629 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717678 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAAG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35717725 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35717772 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35717819 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
35717868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
35717915 AATGTGAAAGTGTATATATGTTACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
35717962 GATGTCAAAAGTGTATAAATGTGATAAG
1 AATGT-GAAAGTGTATATATGTGATAAG
35717990 TCCCGAAGGG
Statistics
Matches: 515, Mismatches: 29, Indels: 13
0.92 0.05 0.02
Matches are distributed among these distances:
47 362 0.70
48 17 0.03
49 136 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:35717575 original size:96 final size:96
Alignment explanation
Indices: 35717392--35717933 Score: 993
Period size: 96 Copynumber: 5.7 Consensus size: 96
35717382 TATTTGAATA
35717392 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717455 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717486 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717551 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717582 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717647 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35717678 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAAGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717741 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
35717772 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717837 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
35717868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35717933 T
66 T
35717934 GTTACAGGGC
Statistics
Matches: 436, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
94 147 0.34
96 289 0.66
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:35717694 original size:143 final size:142
Alignment explanation
Indices: 35717392--35717989 Score: 968
Period size: 143 Copynumber: 4.2 Consensus size: 142
35717382 TATTTGAATA
*
35717392 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
35717456 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
35717521 GCCAATGTGATG
131 GCCGATGTGATG
35717533 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
35717598 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
35717663 ATGGCCGATGTGATG
128 ATGGCCGATGTGATG
* *
35717678 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGAAGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
35717742 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
35717807 GCCGATGTGATG
131 GCCGATGTGATG
35717819 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
35717884 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTACAGGGCCGAGT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* *
35717949 GGCCAACGTGATG
130 GGCCGATGTGATG
* * *
35717962 GATGTCAAAAGTG-TATAAATGTGATAAG
1 AATGT-GAAAGTGATATATATGTGATAAG
35717990 TCCCGAAGGG
Statistics
Matches: 427, Mismatches: 23, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
141 58 0.14
142 14 0.03
143 304 0.71
144 6 0.01
145 45 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (142 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATG
Found at i:35721533 original size:15 final size:15
Alignment explanation
Indices: 35721513--35721541 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35721503 ACTGACGAAT
35721513 AAACCAAAAACAAAA
1 AAACCAAAAACAAAA
35721528 AAACCAAAAACAAA
1 AAACCAAAAACAAA
35721542 TTATAGTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACCAAAAACAAAA
Found at i:35727171 original size:48 final size:48
Alignment explanation
Indices: 35727113--35727204 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
35727103 TGATGAATTT
35727113 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
*
35727161 GAAATTTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
35727205 ATGAATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (48 bp):
GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
Found at i:35727204 original size:13 final size:13
Alignment explanation
Indices: 35727134--35727169 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
35727124 TGATATTTAA
35727134 AAGT-ATTTTGTT
1 AAGTAATTTTGTT
35727146 AAGTAATTTTGTT
1 AAGTAATTTTGTT
*
35727159 AAGAAATTTTG
1 AAGTAATTTTG
35727170 GTTGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
AAGTAATTTTGTT
Found at i:35729742 original size:50 final size:50
Alignment explanation
Indices: 35729642--35729787 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
35729632 TTTCCGGTAC
* * * **
35729642 TGCCAATC-CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAA-CGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* * *
35729692 TG-CACATGCCATGTCCTAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
1 TGCCA-ACGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCATATCGG
*
35729742 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
35729788 ATCTCAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.05
50 71 0.90
51 4 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:35736261 original size:7 final size:7
Alignment explanation
Indices: 35736249--35736273 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35736239 AGAGAGCATT
35736249 GATATGA
1 GATATGA
35736256 GATATGA
1 GATATGA
35736263 GATATGA
1 GATATGA
35736270 GATA
1 GATA
35736274 GTAGAGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:35737431 original size:66 final size:66
Alignment explanation
Indices: 35737354--35737537 Score: 215
Period size: 66 Copynumber: 2.8 Consensus size: 66
35737344 GTTAGTAGCC
*
35737354 TCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
35737419 T
66 T
* * * * * * *
35737420 TCACACGGCCTAGCACACGGGCGTGTAGCTTAGCCGTATGTCACAAGTCAGTATGCCCTTCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
35737485 T
66 T
* ** * * * * * *
35737486 TAACACAACCTGGTATACGGGCATGTGGCTTGGTCATGTGACCCAAGTCAGT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGT
35737538 GAGTTATATG
Statistics
Matches: 96, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 96 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
T
Found at i:35741119 original size:21 final size:19
Alignment explanation
Indices: 35741095--35741152 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
35741085 GGGAAAATCC
35741095 ATTTTTTTATAATTTCTAATA
1 ATTTTTTTATAATTT-TAA-A
*
35741116 A-TTTTTCATAATTTTAAA
1 ATTTTTTTATAATTTTAAA
* * *
35741134 ATATTTTTACAGTTTTAAA
1 ATTTTTTTATAATTTTAAA
35741153 TAATTCGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 2 0.06
19 16 0.52
20 12 0.39
21 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTTTTATAATTTTAAA
Found at i:35741139 original size:20 final size:20
Alignment explanation
Indices: 35741097--35741141 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35741087 GAAAATCCAT
* *
35741097 TTTTTTATAATTTCTAATAA
1 TTTTTCATAATTTCTAAAAA
35741117 TTTTTCATAATTT-TAAAATA
1 TTTTTCATAATTTCTAAAA-A
35741137 TTTTT
1 TTTTT
35741142 ACAGTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTCATAATTTCTAAAAA
Found at i:35747446 original size:120 final size:120
Alignment explanation
Indices: 35747221--35747446 Score: 382
Period size: 120 Copynumber: 1.9 Consensus size: 120
35747211 CTCGTAAAAG
* *
35747221 CAAGACTACATGCATAAGCAAGACTAAAAAATGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
* * *
35747286 GAAGGCTTATTAAATAATGAAAAATAAAAAATATATATATATATAAAACGTACTA
66 GAAGGCTTATTAAATAATGAAAAATAAAAAAAAAACATATATATAAAACGTACTA
*
35747341 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAATTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
35747406 GAAGGCTTATTAAATAATGAAAAA-AACAAAAAAAACATATA
66 GAAGGCTTATTAAATAATGAAAAATAA-AAAAAAAACATATA
35747447 AAACTTAAGG
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
119 2 0.02
120 97 0.98
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (120 bp):
CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
GAAGGCTTATTAAATAATGAAAAATAAAAAAAAAACATATATATAAAACGTACTA
Found at i:35750960 original size:16 final size:16
Alignment explanation
Indices: 35750939--35750989 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
35750929 AGTTGGGGGG
*
35750939 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTAT
*
35750955 AATGGAATAAAGCTAT
1 AATGGAATAGAGCTAT
* *
35750971 AATAGAATAGAGCTGT
1 AATGGAATAGAGCTAT
35750987 AAT
1 AAT
35750990 TAGTAATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTAT
Found at i:35751175 original size:22 final size:21
Alignment explanation
Indices: 35751147--35751222 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
35751137 GATTATTGTT
35751147 ATTATTATTAAATTTTAATAA
1 ATTATTATTAAATTTTAATAA
* *
35751168 GATTATTATTAAA-TATAATTA
1 -ATTATTATTAAATTTTAATAA
* * *
35751189 ATT-TAATTATATTTTAACATA
1 ATTATTATTAAATTTTAATA-A
35751210 ATTATTATTAAAT
1 ATTATTATTAAAT
35751223 ATAATTTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 6 0.14
20 7 0.17
21 10 0.24
22 19 0.45
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
ATTATTATTAAATTTTAATAA
Found at i:35751188 original size:16 final size:16
Alignment explanation
Indices: 35751169--35751228 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 16
35751159 TTTTAATAAG
35751169 ATTATTATTAAATATA
1 ATTATTATTAAATATA
*
35751185 ATTA--ATTTAAT-T-
1 ATTATTATTAAATATA
*
35751197 A-TATT-TT-AACATA
1 ATTATTATTAAATATA
35751210 ATTATTATTAAATATA
1 ATTATTATTAAATATA
35751226 ATT
1 ATT
35751229 TAATAACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
11 4 0.12
12 4 0.12
13 2 0.06
14 10 0.29
15 2 0.06
16 12 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTATTAAATATA
Found at i:35751214 original size:41 final size:38
Alignment explanation
Indices: 35751169--35751271 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 38
35751159 TTTTAATAAG
* *
35751169 ATTATTATTAAATATAATTAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTAA-TTAA-CAT-TCTTAACATA
*
35751210 ATTATTATTAAATATAATTTAA-TAACATTCTTAATATA
1 ATTATTATTAAATATAA-TTAATTAACATTCTTAACATA
35751248 ATTATTATTAAAATATGAATTAAT
1 ATTATTATT-AAATAT-AATTAAT
35751272 AAAAATTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 17 0.31
39 12 0.22
40 5 0.09
41 17 0.31
42 4 0.07
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTATTATTAAATATAATTAATTAACATTCTTAACATA
Found at i:35751249 original size:38 final size:39
Alignment explanation
Indices: 35751161--35751273 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 39
35751151 TTATTAAATT
* *
35751161 TTAATA-AGATTATTATTAAATATAATTAATTTAATTATATT
1 TTAATATA-ATTATTATTAAATATAATTAA--TAATCATATC
*
35751202 TTAACATAATTATTATTAAATATAATTTAATAA-CAT-TC
1 TTAATATAATTATTATTAAATATAA-TTAATAATCATATC
35751240 TTAATATAATTATTATTAAAATATGAATTAATAA
1 TTAATATAATTATTATT-AAATAT-AATTAATAA
35751274 AAATTATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
38 17 0.27
39 15 0.23
40 5 0.08
41 22 0.34
42 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (39 bp):
TTAATATAATTATTATTAAATATAATTAATAATCATATC
Found at i:35751290 original size:41 final size:38
Alignment explanation
Indices: 35751169--35751304 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 38
35751159 TTTTAATAAG
**
35751169 ATTATTATTAAATATAATTAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTAATAAAATTATA---TAACATA
* * *
35751210 ATTATTATTAAATATAATTTAATAACATTCT-TAATATA
1 ATTATTATTAAATATAA-TTAATAAAATTATATAACATA
35751248 ATTATTATTAAAATATGAATTAATAAAAATTATAATAA-ATA
1 ATTATTATT-AAATAT-AATTAAT-AAAATTAT-ATAACATA
*
35751289 A-TATTA-TAAAAATAAT
1 ATTATTATTAAATATAAT
35751305 ATATAATCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
37 3 0.04
38 20 0.25
39 12 0.15
40 13 0.16
41 21 0.26
42 12 0.15
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (38 bp):
ATTATTATTAAATATAATTAATAAAATTATATAACATA
Found at i:35755078 original size:23 final size:25
Alignment explanation
Indices: 35755023--35755108 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
35755013 ACACAGCTTG
*
35755023 TATGAGCTTACCGATATATCAGCTC-T
1 TATGAGCTTACCG-T-TATCAGCTCGA
35755049 TATGAGCTTACCGTT-TCAGCTCGA
1 TATGAGCTTACCGTTATCAGCTCGA
*
35755073 TA-GAGCTTGCCGTTCATCAGCTCGGA
1 TATGAGCTTACCGTT-ATCAGCTC-GA
35755099 -ATGAGCTTAC
1 TATGAGCTTAC
35755109 TGATCATGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 18 0.35
24 3 0.06
25 9 0.17
26 22 0.42
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
TATGAGCTTACCGTTATCAGCTCGA
Found at i:35755308 original size:20 final size:20
Alignment explanation
Indices: 35755270--35755308 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35755260 TATGGATGGA
* *
35755270 TTACTGTTGATATGTATAAG
1 TTACTGTTGATAAGGATAAG
35755290 TTACTGTTGATAAGGATAA
1 TTACTGTTGATAAGGATAA
35755309 ATTTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (20 bp):
TTACTGTTGATAAGGATAAG
Found at i:35761450 original size:22 final size:22
Alignment explanation
Indices: 35761415--35761527 Score: 127
Period size: 22 Copynumber: 5.0 Consensus size: 22
35761405 CTCTGATATG
* *
35761415 TAGCACGTCAGTGCTCTCTGTT
1 TAGCACATCTGTGCTCTCTGTT
35761437 TAGCACATCTGTGCTCTCTGATT
1 TAGCACATCTGTGCTCTCTG-TT
*
35761460 GCTAGCACATCAGTGCTCTCTGTT
1 --TAGCACATCTGTGCTCTCTGTT
* *
35761484 TAGCACATATGTGCTCTCTGTA
1 TAGCACATCTGTGCTCTCTGTT
* * *
35761506 TAGCACTTCTATACTCTCTGTT
1 TAGCACATCTGTGCTCTCTGTT
35761528 CATTAGTGCA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
22 54 0.70
23 2 0.03
24 2 0.03
25 19 0.25
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (22 bp):
TAGCACATCTGTGCTCTCTGTT
Found at i:35761473 original size:47 final size:47
Alignment explanation
Indices: 35761402--35761503 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
35761392 ACTCTAGCGC
* *
35761402 GCTCTCTGATATGTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATATGTAGCACATCAGTGCTCTCTGTTTAGCACATATGT
35761449 GCTCTCTGAT-TGCTAGCACATCAGTGCTCTCTGTTTAGCACATATGT
1 GCTCTCTGATATG-TAGCACATCAGTGCTCTCTGTTTAGCACATATGT
35761496 GCTCTCTG
1 GCTCTCTG
35761504 TATAGCACTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 2 0.04
47 50 0.96
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (47 bp):
GCTCTCTGATATGTAGCACATCAGTGCTCTCTGTTTAGCACATATGT
Found at i:35762847 original size:159 final size:161
Alignment explanation
Indices: 35762547--35762865 Score: 462
Period size: 159 Copynumber: 2.0 Consensus size: 161
35762537 CACTATCAAT
* * * *
35762547 AAACACAAAAATAAATTTTATATAGTTTGTCAAGAGTTAATAACAACAAAGTGAATAGAAGGAGA
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAA-GAGA
*
35762612 CCAAACAAAACCCGTTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
65 CCAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
*
35762677 GAAAAATAAAATAAAAAAGCATACATTGAAGG
130 GAAAAAGAAAATAAAAAAGCATACATTGAAGG
* *
35762709 AAACACAAAAATAACTCTTATACAGTTTGTCAATAGTTAAGAACAACAAAGTAAATAG-A-AGAC
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
* * *** *
35762772 CAAACAAAACTCATTTTTAGATGGAGACCAAAGCCATTTACCTCTCACGGGGAAAGTAGAAAAGG
66 CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
* * *
35762837 GAAAAGAAAATAGAAAAGCATACCTTGAA
131 AAAAAGAAAATAAAAAAGCATACATTGAA
35762866 AGAACAAAGA
Statistics
Matches: 140, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
159 87 0.62
161 1 0.01
162 52 0.37
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (161 bp):
AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
AAAAAGAAAATAAAAAAGCATACATTGAAGG
Found at i:35766012 original size:11 final size:11
Alignment explanation
Indices: 35765996--35766021 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35765986 CTATAATTTA
35765996 ATTTTTATTGG
1 ATTTTTATTGG
35766007 ATTTTTATTGG
1 ATTTTTATTGG
35766018 ATTT
1 ATTT
35766022 CAGTTTCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (11 bp):
ATTTTTATTGG
Found at i:35766294 original size:13 final size:13
Alignment explanation
Indices: 35766276--35766303 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35766266 GTATGATGTT
35766276 AACAAATCATTTC
1 AACAAATCATTTC
35766289 AACAAATCATTTC
1 AACAAATCATTTC
35766302 AA
1 AA
35766304 AAAAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AACAAATCATTTC
Found at i:35766342 original size:83 final size:82
Alignment explanation
Indices: 35766202--35766406 Score: 302
Period size: 83 Copynumber: 2.5 Consensus size: 82
35766192 GGTATACATC
*
35766202 TTTCAACAAATCATTTCAAAAAACAAAAAAAAATATGTTATACTAACAAAATAATCCTATAACAG
1 TTTCAACAAATCATTTCAAAAAAC-AAACAAAATATGTTATACTAACAAAATAATCCTATAACAG
* *
35766267 TATGATGTTAACAAATCA
65 TAAGATGTTAACAAACCA
* * **
35766285 TTTCAACAAATCATTTCAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAG
1 TTTCAACAAATCATTTC-AAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAG
*
35766350 TAAGATGTTAACTAACCA
65 TAAGATGTTAACAAACCA
* *
35766368 TTTTAACGAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
35766407 ACCATCTCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
82 22 0.20
83 82 0.74
84 7 0.06
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
AAGATGTTAACAAACCA
Found at i:35766949 original size:157 final size:156
Alignment explanation
Indices: 35766484--35766937 Score: 546
Period size: 157 Copynumber: 2.9 Consensus size: 156
35766474 ATGCCATCCT
* * * * *
35766484 TTTTTGGCTTCTAGTTTTCATACTCGTACCAGATTGAGAAC-AAAAATCAGAACCCCAAATTAGA
1 TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAATCAGAA-CCCAAATTAGA
* * * *
35766548 TTTAAATAATTTGGAATTGATTAA-AAAAAGTGTTTACAATATACTTGTGATCCAGTTGTGTTAG
65 TTTAAATATTTTGGAATTGA-CAATAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAG
* **
35766612 GTTGAATGCATGGTGTTCTGTTGTTCTT
129 GTTGAATGCATGGTGTTATGTTGTTCAG
* *
35766640 TTTTTGGCTTCTAGTTCGT-GTACTCATACCAAACTAAGACCAAAAAAATCAGAAACCCAAATTA
1 TTTTTGGCTTCTAGTTC-TCGTACTCGTACCAGACTAAGACC-AAAAAATCAG-AACCCAAATTA
* * * *
35766704 GATTAAAATATTTTTGAATTGACATTAAAATAGT-TTATACG--ATACCTGTGATCCAGTTGTAT
63 GATTTAAATATTTTGGAATTGACAATAAAA-AGTGTT-TACGATATACCTGTGATCCAGTTGTGT
35766766 TAGGTTGAATGCATGGTGTTATGTTGTT-AG
126 TAGGTTGAATGCATGGTGTTATGTTGTTCAG
* * *
35766796 TTTTTGGGTTCTAATTCTCGTACTCGTACTAGACTAAGACCAAAAAATTCAGAACCCAAATTAGA
1 TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAA-TCAGAACCCAAATTAGA
* * *
35766861 TTTTAATATTTTGGAATTGACAATGAAAAAGTGTTTACGATATACCTGTGTTCCTA-TTTTGTTA
65 TTTAAATATTTTGGAATTGACAAT-AAAAAGTGTTTACGATATACCTGTGATCC-AGTTGTGTTA
35766925 GGTTGAATGCATG
128 GGTTGAATGCATG
35766938 ATATTTTGTT
Statistics
Matches: 254, Mismatches: 30, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
155 47 0.19
156 76 0.30
157 79 0.31
158 44 0.17
159 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (156 bp):
TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAATCAGAACCCAAATTAGAT
TTAAATATTTTGGAATTGACAATAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGT
TGAATGCATGGTGTTATGTTGTTCAG
Found at i:35769237 original size:51 final size:49
Alignment explanation
Indices: 35769178--35769292 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 49
35769168 CCTAAACCTT
35769178 CAACAACCTCACCACCCTCTCCCTCACCCTCACCCTCACCACATTTACTAC
1 CAACAACCTCACCA-CCTC-CCCTCACCCTCACCCTCACCACATTTACTAC
*
35769229 CAACAACCTCACCA----CCCTCACCCTCACCCTCACTACATTTACTAC
1 CAACAACCTCACCACCTCCCCTCACCCTCACCCTCACCACATTTACTAC
35769274 CAACAACCTCACCATCCTC
1 CAACAACCTCACCA-CCTC
35769293 GCCACCTTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
45 44 0.76
51 14 0.24
ACGTcount: A:0.28, C:0.53, G:0.00, T:0.19
Consensus pattern (49 bp):
CAACAACCTCACCACCTCCCCTCACCCTCACCCTCACCACATTTACTAC
Found at i:35769238 original size:24 final size:24
Alignment explanation
Indices: 35769211--35769287 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
35769201 TCACCCTCAC
35769211 CCTCACCACATTTACTACCAACAA
1 CCTCACCACATTTACTACCAACAA
** ** *
35769235 CCTCACCAC-CCT-C-ACCCTCAC
1 CCTCACCACATTTACTACCAACAA
*
35769256 CCTCACTACATTTACTACCAACAA
1 CCTCACCACATTTACTACCAACAA
35769280 CCTCACCA
1 CCTCACCA
35769288 TCCTCGCCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 2 0.05
24 21 0.55
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.19
Consensus pattern (24 bp):
CCTCACCACATTTACTACCAACAA
Found at i:35769249 original size:45 final size:45
Alignment explanation
Indices: 35769198--35769292 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
35769188 ACCACCCTCT
35769198 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
1 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
*
35769243 CCCTCACCCTCACCCTCACTACATTTACTACCAACAACCTCACCA
1 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
*
35769288 TCCTC
1 CCCTC
35769293 GCCACCTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.53, G:0.00, T:0.20
Consensus pattern (45 bp):
CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
Found at i:35771745 original size:10 final size:9
Alignment explanation
Indices: 35771715--35771751 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
35771705 CTGGCCAGTG
35771715 TTTAACTTGT
1 TTTAA-TTGT
*
35771725 TTTAATTTT
1 TTTAATTGT
35771734 TTTAATTGT
1 TTTAATTGT
35771743 TTTAATTGT
1 TTTAATTGT
35771752 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:35774863 original size:47 final size:48
Alignment explanation
Indices: 35774799--35774979 Score: 310
Period size: 48 Copynumber: 3.8 Consensus size: 48
35774789 AAATTACATT
35774799 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
1 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
***
35774847 AATAATT-AAATAAGGACTTTAATATTTTATTGCTATAAGGACTAATC
1 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
35774894 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
1 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
*
35774942 AATAATTAAAATAAGGACTTTAACATTTTATTCAAAAT
1 AATAATTAAAATAAGGACTTTAATATTTTATT-AAAAT
35774980 CACGAAATTT
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
47 44 0.35
48 75 0.60
49 5 0.04
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (48 bp):
AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATC
Found at i:35774901 original size:95 final size:96
Alignment explanation
Indices: 35774799--35774973 Score: 334
Period size: 95 Copynumber: 1.8 Consensus size: 96
35774789 AAATTACATT
35774799 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATT-AAATAAGGA
1 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAAGGA
*
35774863 CTTTAATATTTTATTGCTATAAGGACTAATC
66 CTTTAACATTTTATTGCTATAAGGACTAATC
35774894 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAAGGA
1 AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAAGGA
35774959 CTTTAACATTTTATT
66 CTTTAACATTTTATT
35774974 CAAAATCACG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 55 0.71
96 23 0.29
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (96 bp):
AATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAAGGA
CTTTAACATTTTATTGCTATAAGGACTAATC
Found at i:35778359 original size:92 final size:91
Alignment explanation
Indices: 35778197--35778403 Score: 274
Period size: 92 Copynumber: 2.3 Consensus size: 91
35778187 GATTTTAGTG
* * *
35778197 AATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATAT
1 AATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
* * *
35778262 TTAAT-ATTAATTATTTTAAATTGTATA
65 GTAATAATT-ATTATTTTAAATTATACA
*
35778289 AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTATA
1 AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTATA
35778353 TGTAATAATTATTATTTTAAATTATACA
64 TGTAATAATTATTATTTTAAATTATACA
* * *
35778381 AATTCATAAAATATAATTTATTA
1 AATTCATATAAGAAAATTTATTA
35778404 GTTATAATTA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 69 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATATG
TAATAATTATTATTTTAAATTATACA
Found at i:35778366 original size:24 final size:25
Alignment explanation
Indices: 35778331--35778378 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35778321 TTATGAAATT
35778331 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
35778355 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
35778379 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:35778532 original size:66 final size:63
Alignment explanation
Indices: 35778457--35778667 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
35778447 AAATATATTT
35778457 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
35778522 G
63 G
* * * * **
35778523 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
35778577 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
35778641 AG
62 AG
*
35778643 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
35778668 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:35778557 original size:120 final size:120
Alignment explanation
Indices: 35778419--35778711 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
35778409 AATTATTTTA
* * * *
35778419 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
35778481 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35778539 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
35778604 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35778659 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
35778712 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35778579 original size:15 final size:15
Alignment explanation
Indices: 35778544--35778595 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35778534 TTAAGAATTT
*
35778544 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35778558 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35778572 TATTTAATAATAAT-
1 TATTTAATTATAATA
35778586 TATGTTAATT
1 TAT-TTAATT
35778596 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35778694 original size:16 final size:16
Alignment explanation
Indices: 35778673--35778714 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35778663 TTATTAAATT
*
35778673 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35778689 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35778704 AT-TATGTTTAA
1 ATATAT-TTTAA
35778715 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35778699 original size:15 final size:15
Alignment explanation
Indices: 35778664--35778705 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35778654 TTAAGAATTT
*
35778664 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35778678 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35778692 TATTTAATAATAAT
1 TATTTAATTATAAT
35778706 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35778825 original size:153 final size:153
Alignment explanation
Indices: 35778648--35778934 Score: 502
Period size: 153 Copynumber: 1.9 Consensus size: 153
35778638 ATAAGAATAT
* * *
35778648 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* * *
35778713 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
35778778 TAATTATCAAAACAAATTTCTGC
131 TAATTATCAAAACAAATTTCTGC
* *
35778801 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
35778866 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
35778931 TAAT
131 TAAT
35778935 CATTTACCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 126 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (153 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
TAATTATCAAAACAAATTTCTGC
Found at i:35785881 original size:28 final size:28
Alignment explanation
Indices: 35785850--35785910 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
35785840 AAAAAACCAT
*
35785850 TTTTTTTA-AATTTATCGAAATGGGCCGA
1 TTTTTTGATAATTTATCGAAATGGGCC-A
* * *
35785878 TTTTTTGATTATTTATCGGAATGGTCCA
1 TTTTTTGATAATTTATCGAAATGGGCCA
35785906 TTTTT
1 TTTTT
35785911 CGAGAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.51
Consensus pattern (28 bp):
TTTTTTGATAATTTATCGAAATGGGCCA
Found at i:35786142 original size:22 final size:22
Alignment explanation
Indices: 35786114--35786163 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
35786104 ACAAATCCTA
35786114 TCTCAATTTCCTTCC-AAAATCC
1 TCTCAATTTCCTTCCAAAAAT-C
35786136 TCTCAATTTCCTTCCAAAAATC
1 TCTCAATTTCCTTCCAAAAATC
35786158 TCTCAA
1 TCTCAA
35786164 ATCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAAATC
Found at i:35786211 original size:18 final size:19
Alignment explanation
Indices: 35786190--35786227 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35786180 AATTTCCCCT
35786190 TAATTTC-ATTTTTTTAAA
1 TAATTTCAATTTTTTTAAA
35786208 TAATTTCAATTTTTTTAAA
1 TAATTTCAATTTTTTTAAA
35786227 T
1 T
35786228 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATTTCAATTTTTTTAAA
Found at i:35786233 original size:11 final size:10
Alignment explanation
Indices: 35786197--35786261 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
35786187 CCTTAATTTC
35786197 ATTTTTTTAA
1 ATTTTTTTAA
** *
35786207 A-TAATTTCA
1 ATTTTTTTAA
35786216 ATTTTTTTAA
1 ATTTTTTTAA
35786226 ATTTTTTTAAA
1 ATTTTTTT-AA
**
35786237 ATAATTTTAA
1 ATTTTTTTAA
*
35786247 ATTTTTTTAT
1 ATTTTTTTAA
35786257 ATTTT
1 ATTTT
35786262 CATCAATGGC
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
9 6 0.14
10 28 0.67
11 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:35786239 original size:30 final size:30
Alignment explanation
Indices: 35786197--35786261 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
35786187 CCTTAATTTC
*
35786197 ATTTTTTTAAATAA-TTTCAATTTTTTTAA
1 ATTTTTTTAAATAATTTTAAATTTTTTTAA
*
35786226 ATTTTTTTAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTT-AAATAATTTTAAATTTTTTTAA
35786257 ATTTT
1 ATTTT
35786262 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 8 0.25
30 6 0.19
31 18 0.56
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTTTTTTAAATAATTTTAAATTTTTTTAA
Found at i:35801539 original size:22 final size:22
Alignment explanation
Indices: 35801511--35801560 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
35801501 ACAAATCCTA
35801511 TCTCAATTTCCTTCC-AAAATCC
1 TCTCAATTTCCTTCCAAAAAT-C
35801533 TCTCAATTTCCTTCCAAAAATC
1 TCTCAATTTCCTTCCAAAAATC
35801555 TCTCAA
1 TCTCAA
35801561 ATCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAAATC
Found at i:35801607 original size:17 final size:19
Alignment explanation
Indices: 35801587--35801623 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35801577 AATTTCCCCT
35801587 TAATTTC-A-TTTTTTAAA
1 TAATTTCAATTTTTTTAAA
35801604 TAATTTCAATTTTTTTAAA
1 TAATTTCAATTTTTTTAAA
35801623 T
1 T
35801624 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTCAATTTTTTTAAA
Found at i:35801628 original size:9 final size:9
Alignment explanation
Indices: 35801594--35801655 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
35801584 CCTTAATTTC
35801594 ATTTTTTAA
1 ATTTTTTAA
* *
35801603 ATAATTTCAA
1 AT-TTTTTAA
*
35801613 TTTTTTTAA
1 ATTTTTTAA
35801622 ATTTTTTAAA
1 ATTTTTT-AA
*
35801632 ATAATTTTAA
1 AT-TTTTTAA
*
35801642 ATTTTTTAT
1 ATTTTTTAA
35801651 ATTTT
1 ATTTT
35801656 CATCAATGGC
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 23 0.56
10 14 0.34
11 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:35801637 original size:29 final size:28
Alignment explanation
Indices: 35801594--35801655 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
35801584 CCTTAATTTC
*
35801594 ATTTTTTAAATAATTTCAATTTTTTTAA
1 ATTTTTTAAATAATTTCAAATTTTTTAA
* *
35801622 ATTTTTTAAAATAATTTTAAATTTTTTAT
1 ATTTTTT-AAATAATTTCAAATTTTTTAA
35801651 ATTTT
1 ATTTT
35801656 CATCAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTTTTAAATAATTTCAAATTTTTTAA
Found at i:35804018 original size:29 final size:29
Alignment explanation
Indices: 35803983--35804624 Score: 854
Period size: 29 Copynumber: 22.3 Consensus size: 29
35803973 TTTATTTCAT
*
35803983 ACCCTAACCTTAACCTGATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804012 ATCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804040 ACCCTAAACTTAATCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804069 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* * *
35804098 CCCCTAACCATAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804127 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
35804156 A-CC--A---TAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804179 ACCC-AACCTTAGCCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804207 ACCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804235 ACCCTAAACTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
** *
35804264 ACTGTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804293 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804322 ACCCTAACCTTTCTTAACCTAATTTATTTAAGA
1 ACCCTAA-C---CTTAACCTAATTTAATTAAAA
35804355 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804384 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804413 ACTCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804442 ACCCTAACCTTAGCCTATTTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35804470 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* * *
35804499 ACCCTAATCTTAACCTAATTCATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804528 ACCCTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35804557 ACCCTAACCCTAACCTAATTTAATTAGAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
** *
35804586 ACCCTAACCCAAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
35804615 ACCCTAACCT
1 ACCCTAACCT
35804625 AATTTATTTG
Statistics
Matches: 541, Mismatches: 59, Indels: 26
0.86 0.09 0.04
Matches are distributed among these distances:
23 20 0.04
24 2 0.00
25 1 0.00
26 1 0.00
28 98 0.18
29 392 0.72
30 1 0.00
32 1 0.00
33 25 0.05
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (29 bp):
ACCCTAACCTTAACCTAATTTAATTAAAA
Found at i:35804058 original size:23 final size:22
Alignment explanation
Indices: 35804017--35804059 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35804007 TAAAAATCCT
*
35804017 AACCCTAACCTAATTTAATTAA
1 AACCCTAACCTAATCTAATTAA
*
35804039 AACCCTAAACTTAATCTAATT
1 AACCCT-AACCTAATCTAATT
35804060 TAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (22 bp):
AACCCTAACCTAATCTAATTAA
Found at i:35804218 original size:115 final size:114
Alignment explanation
Indices: 35803970--35804633 Score: 752
Period size: 115 Copynumber: 5.8 Consensus size: 114
35803960 ATAAAAATCG
* * * *
35803970 TAATTTATTT-CATACCCTAACCT--TAACCTGATTTAATTAAAAATCCTAACCCTAACCTAATT
1 TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* * *
35804032 TAATTAAAACCCTAAACTTAATCTAATTTAATTAAAAACCCTAACCTTAACC
66 TAATTAAAAACC--AAC-TAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * *
35804084 TAATTTATTTAAAACCCCTAA-C-CATAACCTAATTTATTTAAAAACCCTAACCCTAACCTAATT
1 TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* *
35804147 TAATTAAAAACC-A-TAACCTAATTTAATTAAAAACCC-AACCTTAGCC
66 TAATTAAAAACCAACTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* *
35804193 TAATTTATTTAAAAACCCTAA-C-CCTAACCTAATTTAATT-AAAACCCTAAACTTAACCTAATT
1 TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* *
35804255 TAATTAAAAACTGTAACCTTAACCTAATTTATTTAAAAACCCTAACATTAACC
66 TAATTAAAAAC--CAA-C-TAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * * * *
35804308 TAATTTAATTAAAAACCCTAACCTTTCTTAACCTAATTTATTTAAGAACCCTAACCTTAACCTAA
1 TAATTTATTTAAAAACCCTAACC--TCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
* *
35804373 TTTAATTAAAAACCCTAACCTTAACCTAATTTATTTAAAAACTCTAACCCTAACC
64 TTTAATTAAAAA-CC-AA-C-TAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * * **
35804428 TAATTTAATTAAAAACCCTAACCT--TAGCCTATTTTAATT-AAAACCCTAACATTAACCTAATT
1 TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* *
35804490 TAATTAAAAACCCTAATCTTAACCTAATTCATTTAAAAACCCTAACCCTAACC
66 TAATTAAAAA-CC-AA-C-TAACCTAATTTATTTAAAAACCCTAACCTTAACC
* *
35804543 TAATTTATTTAAAAACCCTAA-C-CCTAACCTAATTTAATTAGAAACCCTAACCCAAACCTAATT
1 TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
*
35804606 TATTTAAAAACC--CTAACCTAATTTATTT
66 TAATTAAAAACCAACTAACCTAATTTATTT
35804634 GATAAATTTA
Statistics
Matches: 486, Mismatches: 44, Indels: 44
0.85 0.08 0.08
Matches are distributed among these distances:
108 32 0.07
109 45 0.09
110 36 0.07
111 2 0.00
112 1 0.00
114 34 0.07
115 188 0.39
116 41 0.08
118 1 0.00
119 15 0.03
120 90 0.19
121 1 0.00
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (114 bp):
TAATTTATTTAAAAACCCTAACCTCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAACCAACTAACCTAATTTATTTAAAAACCCTAACCTTAACC
Found at i:35808035 original size:124 final size:125
Alignment explanation
Indices: 35807814--35808100 Score: 492
Period size: 124 Copynumber: 2.3 Consensus size: 125
35807804 AATTGCGTCC
*
35807814 ACGAGGGTGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAATTATTTCTTACATGACCAA
1 ACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAA
* * *
35807878 CTGTAGCGAAATCGCGTCCACGAGGGCACGATTTGACAATTTCTTCTCAATTAGCAT-CT
66 CTGTAGCAAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
35807937 ACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAA
1 ACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAA
*
35808002 CTGTAGCAAAATCGCATCCACGAGGGCATGATTTCACAATTTCTTCTCAATTAGCATCCT
66 CTGTAGCAAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
35808062 -CGAGGGCGCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 ACGAGGGCGCGATTTTATACTATTTG-CTCAGAAACGTCAA
35808101 CTCAAAATAA
Statistics
Matches: 156, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
123 37 0.24
124 116 0.74
125 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
ACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAA
CTGTAGCAAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
Found at i:35808337 original size:30 final size:29
Alignment explanation
Indices: 35808276--35808342 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
35808266 CAATTTCCCG
35808276 AAAAATGGACCATTCCGGTAAATAATCAA
1 AAAAATGGACCATTCCGGTAAATAATCAA
* * ** *
35808305 AAAAATCGGTCCATTTCGGTAAATTTTGAA
1 AAAAAT-GGACCATTCCGGTAAATAATCAA
35808335 AAAAATGG
1 AAAAATGG
35808343 CTTTTTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAAATGGACCATTCCGGTAAATAATCAA
Found at i:35815091 original size:21 final size:20
Alignment explanation
Indices: 35815067--35815110 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
35815057 ATTTATCTCC
* *
35815067 AATCCTAATGAATATAAAGAA
1 AATCATAATAAATA-AAAGAA
*
35815088 AATCATAATAAATAAAATAA
1 AATCATAATAAATAAAAGAA
35815108 AAT
1 AAT
35815111 ATACTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
AATCATAATAAATAAAAGAA
Found at i:35825241 original size:29 final size:30
Alignment explanation
Indices: 35825204--35825274 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
35825194 ACAAATATTT
*
35825204 ATTTGATAATAATGT-AA-TTATATAAAATA
1 ATTTTATAATAATGTGAATTTA-ATAAAATA
*
35825233 ATTTTATAATAATTTGAATTTAATAAAATA
1 ATTTTATAATAATGTGAATTTAATAAAATA
*
35825263 TTTTTATCAATA
1 ATTTTAT-AATA
35825275 TTAAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.36
30 16 0.44
31 7 0.19
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (30 bp):
ATTTTATAATAATGTGAATTTAATAAAATA
Found at i:35825284 original size:29 final size:30
Alignment explanation
Indices: 35825219--35825284 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
35825209 ATAATAATGT
*
35825219 AATTATATAAAATAATTTTATAATAATTTGA
1 AATTA-ATAAAATAATTTTATAATAATTTAA
* *
35825250 ATTTAATAAAATATTTTTATCAAT-A-TTAA
1 AATTAATAAAATAATTTTAT-AATAATTTAA
35825279 AATTAA
1 AATTAA
35825285 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 8 0.27
30 15 0.50
31 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
AATTAATAAAATAATTTTATAATAATTTAA
Found at i:35839808 original size:121 final size:122
Alignment explanation
Indices: 35839585--35839867 Score: 441
Period size: 121 Copynumber: 2.3 Consensus size: 122
35839575 AATTGCGTCC
*
35839585 ACGAGGGTGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCAAC
1 ACGAGGGCGCGATTTTATACTA-TTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCAAC
* * *
35839650 TGTAGCGAATCGCGTCCACGAGGGCACGATTTGACAATTTCTTCTCAATTAGCAT-CT
65 TGTAGCAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
35839707 ACGAGGGCGCGA-TTTATACTATTGCTCAG-AACGTCAAAAAAAATTATTTCTTACATGACCAAC
1 ACGAGGGCGCGATTTTATACTATTGCTCAGAAACGTC-AAAAAAATTATTTCTTACATGACCAAC
*
35839770 TGTAGCAAAATCGCATCCACGAGGGCATGATTTCACAATTTCTTCTCAATTAGCATCCT
65 TGTAGC-AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
35839829 -CGAGGGCGCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 ACGAGGGCGCGATTTTATACTA-TTG-CTCAGAAACGTCAA
35839868 CTCAAAATAA
Statistics
Matches: 149, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
119 6 0.04
120 41 0.28
121 65 0.44
122 22 0.15
123 8 0.05
124 7 0.05
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (122 bp):
ACGAGGGCGCGATTTTATACTATTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCAACT
GTAGCAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCT
Found at i:35840101 original size:29 final size:29
Alignment explanation
Indices: 35840042--35840107 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
35840032 CAATTTCCCG
35840042 AAAAATGGACCATTCCGGTAAATAATCAA
1 AAAAATGGACCATTCCGGTAAATAATCAA
* * * *
35840071 AAAAATCGGTCCATTTCGGTAAAT-TTGAA
1 AAAAAT-GGACCATTCCGGTAAATAATCAA
35840100 AAAAATGG
1 AAAAATGG
35840108 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.06
29 15 0.47
30 15 0.47
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAAATGGACCATTCCGGTAAATAATCAA
Found at i:35846825 original size:21 final size:20
Alignment explanation
Indices: 35846801--35846844 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
35846791 ATTTATCTCC
* *
35846801 AATCCTAATGAATATAAAGAA
1 AATCATAATAAATA-AAAGAA
*
35846822 AATCATAATAAATAAAATAA
1 AATCATAATAAATAAAAGAA
35846842 AAT
1 AAT
35846845 ATACTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
AATCATAATAAATAAAAGAA
Found at i:35857324 original size:18 final size:19
Alignment explanation
Indices: 35857303--35857340 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
35857293 AATTTTATTG
35857303 AAAA-TATATTTTTTAACT
1 AAAACTATATTTTTTAACT
*
35857321 AAAACTTATTTTTTTTAACT
1 AAAAC-TATATTTTTTAACT
35857341 TGGATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (19 bp):
AAAACTATATTTTTTAACT
Found at i:35865505 original size:27 final size:27
Alignment explanation
Indices: 35865474--35865525 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
35865464 TATGGTTTCT
*
35865474 TTTCTTGTTTTAATCTTCCTTTCTCGC
1 TTTCTTGTTTCAATCTTCCTTTCTCGC
35865501 TTTCTTGTTTCAATCTTCCTTTCTC
1 TTTCTTGTTTCAATCTTCCTTTCTC
35865526 TCCTTGTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.08, C:0.27, G:0.06, T:0.60
Consensus pattern (27 bp):
TTTCTTGTTTCAATCTTCCTTTCTCGC
Found at i:35867814 original size:13 final size:13
Alignment explanation
Indices: 35867793--35867843 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
35867783 ATAATCAAAT
*
35867793 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
35867806 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
*
35867819 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
35867832 TTTTCAAAAGCA
1 TTTTCAAAAGCA
35867844 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:35870000 original size:6 final size:6
Alignment explanation
Indices: 35869989--35870013 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35869979 AGGTTGGTTT
35869989 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
35870014 CAGACTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:35880440 original size:9 final size:9
Alignment explanation
Indices: 35880426--35880466 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
35880416 TTTGGTTAAA
35880426 AATTACCCG
1 AATTACCCG
35880435 AATTACCCG
1 AATTACCCG
35880444 AATTACCCG
1 AATTACCCG
35880453 AATTACCCG
1 AATTACCCG
35880462 AATTA
1 AATTA
35880467 AATCACTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:35880513 original size:37 final size:37
Alignment explanation
Indices: 35880471--35880628 Score: 223
Period size: 37 Copynumber: 4.3 Consensus size: 37
35880461 GAATTAAATC
* * *
35880471 ACTACATAATTAAAAGCATTACATAAATCTTTAAATT
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
* * *
35880508 GCTACATAATTAAAAATATTACATAAGTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35880545 ACTACATAATTAAAAACATTACATAAGTC-TTGAATT
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35880581 AACTACATAATTAAAAACATTACATAAGTC-TTGAATT
1 -ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35880618 AAC-ACATAATT
1 -ACTACATAATT
35880629 GACATGTAAG
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
36 14 0.13
37 97 0.87
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
Found at i:35880532 original size:17 final size:17
Alignment explanation
Indices: 35880510--35880607 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
35880500 TTTAAATTGC
35880510 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
35880527 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
35880547 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
** * *
35880564 TACATAAGTCTTGAATTAAC
1 TACATAA-T-TAAAAAT-AT
*
35880584 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
35880601 TACATAA
1 TACATAA
35880608 GTCTTGAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 23 0.41
18 8 0.14
19 9 0.16
20 16 0.29
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:35884204 original size:7 final size:7
Alignment explanation
Indices: 35884192--35884227 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
35884182 GTCAAATTTC
35884192 ACCGTTA
1 ACCGTTA
35884199 ACCGTTA
1 ACCGTTA
35884206 ACCGATTTA
1 ACCG--TTA
35884215 ACCGTTA
1 ACCGTTA
35884222 ACCGTT
1 ACCGTT
35884228 TAAACCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.74
9 7 0.26
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (7 bp):
ACCGTTA
Found at i:35884217 original size:16 final size:15
Alignment explanation
Indices: 35884192--35884230 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
35884182 GTCAAATTTC
35884192 ACCG-TTAACCGTTA
1 ACCGTTTAACCGTTA
35884206 ACCGATTTAACCGTTA
1 ACCG-TTTAACCGTTA
35884222 ACCGTTTAA
1 ACCGTTTAA
35884231 ACCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 14 0.61
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (15 bp):
ACCGTTTAACCGTTA
Found at i:35884233 original size:16 final size:16
Alignment explanation
Indices: 35884196--35884230 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
35884186 AATTTCACCG
35884196 TTAACCGTTAACCGAT
1 TTAACCGTTAACCGAT
35884212 TTAACCGTTAACCG-T
1 TTAACCGTTAACCGAT
35884227 TTAA
1 TTAA
35884231 ACCAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (16 bp):
TTAACCGTTAACCGAT
Found at i:35885271 original size:37 final size:37
Alignment explanation
Indices: 35885230--35885320 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 37
35885220 AGTACACAAG
* * * * *
35885230 TAATCCAACCGATAACATGCCAAGTGCTCCGAAGAGC
1 TAATCCAACAGATAACACGCCAAATGCTACAAAGAGC
** *
35885267 TAATCCAATTGATAACACGCTAAATGCTACAAAGAGC
1 TAATCCAACAGATAACACGCCAAATGCTACAAAGAGC
*
35885304 TAATGCAACAGATAACA
1 TAATCCAACAGATAACA
35885321 GGTCATGTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (37 bp):
TAATCCAACAGATAACACGCCAAATGCTACAAAGAGC
Found at i:35887907 original size:21 final size:21
Alignment explanation
Indices: 35887856--35887915 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
35887846 AAGTTTTTCG
*
35887856 AAATTAAATATTTT-ATACACT
1 AAATTAAAAATTTTAATA-ACT
*
35887877 AAATTGAAAATTTTAATAACT
1 AAATTAAAAATTTTAATAACT
* *
35887898 AAATCAAAAA-GTTAATAA
1 AAATTAAAAATTTTAATAA
35887916 TTAGATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATTAAAAATTTTAATAACT
Found at i:35888147 original size:12 final size:12
Alignment explanation
Indices: 35888130--35888154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35888120 TTCATAAGAA
35888130 TAGGGTTTTTAT
1 TAGGGTTTTTAT
35888142 TAGGGTTTTTAT
1 TAGGGTTTTTAT
35888154 T
1 T
35888155 TTAAGAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TAGGGTTTTTAT
Found at i:35893663 original size:18 final size:18
Alignment explanation
Indices: 35893622--35893665 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35893612 TGGCCAAGTA
*
35893622 CAGTGGTGGTCTATAGTG
1 CAGTGGTGGTCCATAGTG
*
35893640 CGGTGGTGGTCCATAGTG
1 CAGTGGTGGTCCATAGTG
*
35893658 TAGTGGTG
1 CAGTGGTG
35893666 CTTATGAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.43, T:0.32
Consensus pattern (18 bp):
CAGTGGTGGTCCATAGTG
Found at i:35896240 original size:42 final size:41
Alignment explanation
Indices: 35896086--35896241 Score: 113
Period size: 42 Copynumber: 3.7 Consensus size: 41
35896076 TGTGTTATCG
* *
35896086 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATT--GATTCA
* * * * *
35896128 TGCATAAGACCATGTCTGGGACATCGGCAT-TATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCAATA-TTGA-TTCA
* *
35896172 TGTAAAACC-CTGTCTGGGATAG-TGGCATCAATATTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCAATATTGATT-CA
*
35896214 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
35896242 TGTACGAGTT
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
41 3 0.03
42 47 0.54
43 8 0.09
44 27 0.31
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATTGATTCA
Found at i:35904952 original size:20 final size:21
Alignment explanation
Indices: 35904924--35904980 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
35904914 TACATATTAT
* *
35904924 CACTGTTCATTG-TTTGACTC
1 CACTGTTCATGGACTTGACTC
*
35904944 CACTATTCATGGACTTGACTC
1 CACTGTTCATGGACTTGACTC
35904965 CACTGTTCATAGGACT
1 CACTGTTCAT-GGACT
35904981 AACATTCTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.32
21 16 0.52
22 5 0.16
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (21 bp):
CACTGTTCATGGACTTGACTC
Found at i:35904963 original size:21 final size:22
Alignment explanation
Indices: 35904937--35904980 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
35904927 TGTTCATTGT
35904937 TTGACTCCACTATTCAT-GGAC
1 TTGACTCCACTATTCATAGGAC
*
35904958 TTGACTCCACTGTTCATAGGAC
1 TTGACTCCACTATTCATAGGAC
35904980 T
1 T
35904981 AACATTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (22 bp):
TTGACTCCACTATTCATAGGAC
Found at i:35905977 original size:24 final size:24
Alignment explanation
Indices: 35905942--35906000 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
35905932 TTTTACTATT
* *
35905942 TTAAATATAAAATATTTATTTCTAAA
1 TTAAATA-AAAAAATTAATTT-TAAA
35905968 -T-AATAAAAAAATTAATTTTAAA
1 TTAAATAAAAAAATTAATTTTAAA
35905990 TTAAATAAAAA
1 TTAAATAAAAA
35906001 TTGTATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 12 0.41
25 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAATAAAAAAATTAATTTTAAA
Found at i:35906001 original size:22 final size:23
Alignment explanation
Indices: 35905945--35906002 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
35905935 TACTATTTTA
*
35905945 AATATAAAATATTTATTTCTAAAT
1 AATATAAAA-ATTAATTTCTAAAT
*
35905969 AATAAAAAAATTAATTT-TAAATT
1 AATATAAAAATTAATTTCTAAA-T
35905992 AA-ATAAAAATT
1 AATATAAAAATT
35906003 GTATTCTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 10 0.33
24 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATAAAAATTAATTTCTAAAT
Found at i:35906012 original size:23 final size:22
Alignment explanation
Indices: 35905948--35906012 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
35905938 TATTTTAAAT
35905948 ATAAAATATTTATTTCTAAA-TAA
1 ATAAAA-ATTTA-TTCTAAATTAA
* * *
35905971 TAAAAAAATTAATTTTAAATTAA
1 -ATAAAAATTTATTCTAAATTAA
35905994 ATAAAAATTGTATTCTAAA
1 ATAAAAATT-TATTCTAAA
35906013 AATTGTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 14 0.42
23 14 0.42
24 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATTTATTCTAAATTAA
Found at i:35908113 original size:98 final size:98
Alignment explanation
Indices: 35907944--35908138 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
35907934 ATACAATAAA
*
35907944 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
35908009 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
35908042 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
35908107 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
35908139 CATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:35909230 original size:19 final size:19
Alignment explanation
Indices: 35909206--35909297 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
35909196 AATCATATAT
35909206 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
35909225 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
35909244 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
35909263 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35909282 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35909298 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.