Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 91 of 161
Found at i:28926033 original size:25 final size:23
Alignment explanation
Indices: 28925989--28926049 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
28925979 ATTTTGATTT
*
28925989 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
28926013 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
28926037 ATATAAATTATAT
1 AT-TTAATTATAT
28926050 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:28926052 original size:35 final size:35
Alignment explanation
Indices: 28925997--28926076 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
28925987 TTATTTAATA
* *
28925997 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
28926031 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
28926066 ATATAAT-TAAA
1 ATATAATATAAA
28926077 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:28926515 original size:16 final size:16
Alignment explanation
Indices: 28926494--28926524 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28926484 TAAGTAAGCA
28926494 AGTAAGTAAACAAGAG
1 AGTAAGTAAACAAGAG
*
28926510 AGTAAGTAAAGAAGA
1 AGTAAGTAAACAAGA
28926525 AACAAAGACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (16 bp):
AGTAAGTAAACAAGAG
Found at i:28929687 original size:14 final size:12
Alignment explanation
Indices: 28929658--28929684 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28929648 TTGTACGAAG
28929658 ATAATGCAACAT
1 ATAATGCAACAT
28929670 ATAATGCAACAT
1 ATAATGCAACAT
28929682 ATA
1 ATA
28929685 TAACTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (12 bp):
ATAATGCAACAT
Found at i:28944650 original size:12 final size:13
Alignment explanation
Indices: 28944626--28944655 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
28944616 GATGTTATTT
28944626 TGTTATATTTTTA
1 TGTTATATTTTTA
28944639 TGTTAT-TTTTTA
1 TGTTATATTTTTA
28944651 TGTTA
1 TGTTA
28944656 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (13 bp):
TGTTATATTTTTA
Found at i:28948045 original size:45 final size:45
Alignment explanation
Indices: 28947994--28948299 Score: 228
Period size: 45 Copynumber: 6.8 Consensus size: 45
28947984 TTGGCTTGTA
*
28947994 AAATGAATAAGACCATAGTTGAAAGACAATATGGCACTATACCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
* * * *
28948039 AAATGAATAAGACAATATTTGAAAGACACTATGGCGCTATACCGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
*
28948084 AAATGAATAAGACCATAGTT-CAAGAACACTATGGCAAC-ATGA-CGG
1 AAATGAATAAGACCATAGTTGAAAG-ACACTATGGC-ACTAT-ACCGG
* * ** **
28948129 AAATGAATAAGACCACAATTGAAAGACACTATGGCA-TCATGTCAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
* * * * ** **
28948174 AAATAAAAAAGACCATAGTTAAAAGACACTATGCCA-TCATGTCAC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
** * * * ** **
28948219 AAAAAAATAAAACCATAGTTGAAGGACAATATGGCA-TCATGTCAC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
** *
28948264 AAAAAAATAAAACCATAGTTGAAAGACACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
28948300 TCATATCGAA
Statistics
Matches: 222, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
44 4 0.02
45 213 0.96
46 5 0.02
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
Found at i:28948177 original size:90 final size:90
Alignment explanation
Indices: 28947993--28948299 Score: 309
Period size: 90 Copynumber: 3.4 Consensus size: 90
28947983 ATTGGCTTGT
* * *
28947993 AAAATGAATAAGACCATAGTTGAAAGACAATATGGC-ACTAT-ACCGGAAATGAATAAGACAATA
1 AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAAC-ATGA-CGGAAATGAATAAGACCATA
* * ** *
28948056 TTTGAAAGACACTATGGC-GCTATACCG
64 ATTGAAAGACACTATGGCATC-ATGTCA
* * *
28948083 AAAATGAATAAGACCATAGTT-CAAGAACACTATGGCAACATGACGGAAATGAATAAGACCACAA
1 AAAATAAATAAGACCATAGTTGAAAG-ACACTATGGCAACATGACGGAAATGAATAAGACCATAA
28948147 TTGAAAGACACTATGGCATCATGTCA
65 TTGAAAGACACTATGGCATCATGTCA
* * * * * ** ** * *
28948173 AAAATAAAAAAGACCATAGTTAAAAGACACTATGCCATCATGTCACAAAAAAATAAAACCATAGT
1 AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGACCATAAT
* *
28948238 TGAAGGACAATATGGCATCATGTCA
66 TGAAAGACACTATGGCATCATGTCA
*
28948263 CAAAA-AAATAAAACCATAGTTGAAAGACACTATGGCA
1 -AAAATAAATAAGACCATAGTTGAAAGACACTATGGCA
28948300 TCATATCGAA
Statistics
Matches: 183, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
89 3 0.02
90 169 0.92
91 11 0.06
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (90 bp):
AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGACCATAAT
TGAAAGACACTATGGCATCATGTCA
Found at i:28948300 original size:45 final size:45
Alignment explanation
Indices: 28948089--28948303 Score: 247
Period size: 45 Copynumber: 4.8 Consensus size: 45
28948079 ACCGAAAATG
* * * * ** **
28948089 AATAAGACCATAGTT-CAAGAACACTATGGCAACATGACGGAAATG
1 AATAAAACCATAGTTGAAAG-ACACTATGGCATCATGTCACAAAAA
* * *
28948134 AATAAGACCACAATTGAAAGACACTATGGCATCATGTCA-AAAATA
1 AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAA-A
* *
28948179 AA-AAAGACCATAGTTAAAAGACACTATGCCATCATGTCACAAAAA
1 AATAAA-ACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
* *
28948224 AATAAAACCATAGTTGAAGGACAATATGGCATCATGTCACAAAAA
1 AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
28948269 AATAAAACCATAGTTGAAAGACACTATGGCATCAT
1 AATAAAACCATAGTTGAAAGACACTATGGCATCAT
28948304 ATCGAAAGTG
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 5 0.03
45 131 0.90
46 10 0.07
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (45 bp):
AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
Found at i:28948775 original size:73 final size:74
Alignment explanation
Indices: 28948687--28948828 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 74
28948677 GTGTTTATAC
* * * * * *
28948687 GAAATGTTTATATGAATAGTTATTGAATGAATGGTATATCTAATATGTTTACTTGCATATGTTTC
1 GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
28948752 ATAACATGT
66 ATAACATGT
* * * *
28948761 GAAATG-TTATATGAATAGATGTTGAATAAAGGGAATATATAATGTATTTACTTGTATATGTTTT
1 GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
28948825 ATAA
66 ATAA
28948829 TATGAAAAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 52 0.90
74 6 0.10
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (74 bp):
GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
ATAACATGT
Found at i:28950949 original size:59 final size:62
Alignment explanation
Indices: 28950872--28950987 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
28950862 ATTACTTTAA
* * *
28950872 TATTAAATTAATATAATATTTATC-A-A-GATAAATATTAGATTAAATTTAATATTAGATCT
1 TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTAGATCT
*
28950931 TATTGAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTA
1 TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTA
28950988 AATACAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (62 bp):
TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTAGATCT
Found at i:28952645 original size:11 final size:11
Alignment explanation
Indices: 28952629--28952656 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
28952619 TTCATAACAA
28952629 TAGGTGAAGTC
1 TAGGTGAAGTC
28952640 TAGGTGAAGTC
1 TAGGTGAAGTC
28952651 TAGGTG
1 TAGGTG
28952657 GATTCTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.29
Consensus pattern (11 bp):
TAGGTGAAGTC
Found at i:28955377 original size:25 final size:25
Alignment explanation
Indices: 28955322--28955521 Score: 85
Period size: 25 Copynumber: 8.1 Consensus size: 25
28955312 AGCTCTTTCT
* *
28955322 AGCCATATAACGGGAAGCTCATAAT
1 AGCCATATAACGAGAAGCTCATAAG
*
28955347 AGCCATGTAACGAGAAGCTCATAAG
1 AGCCATATAACGAGAAGCTCATAAG
* * * *
28955372 ATCCATA-ATCGGGAAG-TCCA-AGCG
1 AGCCATATAACGAGAAGCT-CATA-AG
* **
28955396 AGCCA-ATATC-AGAAAGCTCCGAAG
1 AGCCATATAACGAG-AAGCTCATAAG
* *
28955420 AGCCAT-TAATCGGGAAGCTCATAAT
1 AGCCATATAA-CGAGAAGCTCATAAG
* **
28955445 AGCCATA-AGC-AGGAAGCTCGCAAG
1 AGCCATATAACGA-GAAGCTCATAAG
* * ***
28955469 AACCATATAACAAGAAGCTCCGGAG
1 AGCCATATAACGAGAAGCTCATAAG
* *
28955494 AGCCACATATCGA-AACGCTCATAAG
1 AGCCATATAACGAGAA-GCTCATAAG
28955519 AGC
1 AGC
28955522 TGTGGTGTGT
Statistics
Matches: 127, Mismatches: 34, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
23 4 0.03
24 47 0.37
25 74 0.58
26 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (25 bp):
AGCCATATAACGAGAAGCTCATAAG
Found at i:28967622 original size:5 final size:5
Alignment explanation
Indices: 28967612--28967674 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
28967602 GAAAAAATAT
* * *
28967612 ATTCG ATTCG ATTCG ATTCA ATTCG ATTCG ATTTG AATTCC ATCTC- ACTT-G
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG A-TTCG
28967663 ATTCG ATTCG AT
1 ATTCG ATTCG AT
28967675 AAAACTCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 2 0.04
5 40 0.83
6 6 0.12
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:28974810 original size:40 final size:40
Alignment explanation
Indices: 28974595--28974815 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 40
28974585 TCTTTTCAAG
* * *
28974595 AGATTCAGTTGGTATGGCTTGAGAGCGCATACGTTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * *
28974635 AGATACAGTAGGTATGGCTTGAAAGTGCATATGTTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * * *
28974675 AGATTTAGTAGGTATGGCTTGGAAGTGCATACGTTTCAAT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* *** * * *
28974715 AGATTCAATAGGTATCATTCGAAATCCCATACGTTTCTGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * *
28974755 AGATTGAATAGGTATTGCTCGAAAGCGCATACATTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * *
28974795 AGATTTAGTAAGTATTGCTCG
1 AGATTCAGTAGGTATGGCTCG
28974816 TCTGAGCACC
Statistics
Matches: 148, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 148 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (40 bp):
AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
Found at i:28977355 original size:19 final size:19
Alignment explanation
Indices: 28977310--28977356 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
28977300 TCTTAATTTT
*
28977310 TTAAATAATTTTTATAAGA
1 TTAAAAAATTTTTATAAGA
**
28977329 TTTTAAAATTTTTAATAAG-
1 TTAAAAAATTTTT-ATAAGA
28977348 TTAAAAAAT
1 TTAAAAAAT
28977357 AGTATTTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TTAAAAAATTTTTATAAGA
Found at i:28977492 original size:33 final size:33
Alignment explanation
Indices: 28977455--28977518 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
28977445 AGAATTGAAA
*
28977455 TTTTATTTCTCAAT-TTTTTAAATTTTTTAAATT
1 TTTTATTT-TCAATGTTTTTAAAATTTTTAAATT
**
28977488 TTTTATTTTTTATGTTTTTAAAATTTTTAAA
1 TTTTATTTTCAATGTTTTTAAAATTTTTAAA
28977519 AAGTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (33 bp):
TTTTATTTTCAATGTTTTTAAAATTTTTAAATT
Found at i:28977505 original size:25 final size:25
Alignment explanation
Indices: 28977467--28977515 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
28977457 TTATTTCTCA
*
28977467 ATTTTTTAAATTTTTTAAATTTTTT
1 ATTTTTTAAATTTTTAAAATTTTTT
**
28977492 ATTTTTTATGTTTTTAAAATTTTT
1 ATTTTTTAAATTTTTAAAATTTTT
28977516 AAAAAGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTTTTAAATTTTTAAAATTTTTT
Found at i:28977506 original size:16 final size:16
Alignment explanation
Indices: 28977466--28977499 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
28977456 TTTATTTCTC
28977466 AATTTTTTAAATTTTTTA
1 AATTTTTT--ATTTTTTA
28977484 AATTTTTTATTTTTTA
1 AATTTTTTATTTTTTA
28977500 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AATTTTTTATTTTTTA
Found at i:28977519 original size:9 final size:9
Alignment explanation
Indices: 28977466--28977518 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
28977456 TTTATTTCTC
28977466 AATTTTTTA
1 AATTTTTTA
28977475 AATTTTTTA
1 AATTTTTTA
28977484 AATTTTTT-
1 AATTTTTTA
28977492 -ATTTTTT-
1 AATTTTTTA
28977499 -ATGTTTTTA
1 AAT-TTTTTA
*
28977508 AAATTTTTA
1 AATTTTTTA
28977517 AA
1 AA
28977519 AAGTATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 9 0.22
8 5 0.12
9 25 0.62
10 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
AATTTTTTA
Found at i:28978871 original size:31 final size:31
Alignment explanation
Indices: 28978836--28978896 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
28978826 AACAATTTTT
*
28978836 TTAAAAAAAAACTTTCAAATAATTTAATGAC
1 TTAAAAAAAAACTTTCAAATAATTCAATGAC
* * *
28978867 TTAAATAGAAACTTTCAAATAGTTCAATGA
1 TTAAAAAAAAACTTTCAAATAATTCAATGA
28978897 TCATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
TTAAAAAAAAACTTTCAAATAATTCAATGAC
Found at i:28979265 original size:10 final size:10
Alignment explanation
Indices: 28979252--28979324 Score: 64
Period size: 9 Copynumber: 7.5 Consensus size: 10
28979242 TAAAAATGGT
*
28979252 TAAAAAATCA
1 TAAAAAATTA
28979262 T-AAAAATTAGA
1 TAAAAAATT--A
*
28979273 AAAAAAATTA
1 TAAAAAATTA
28979283 TAAAAAATTA
1 TAAAAAATTA
28979293 -AAAAAATTA
1 TAAAAAATTA
*
28979302 -AAACAATTA
1 TAAAAAATTA
*
28979311 T-AAATATTA
1 TAAAAAATTA
28979320 TAAAA
1 TAAAA
28979325 TTTAAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
9 30 0.58
10 14 0.27
11 1 0.02
12 7 0.13
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:28979275 original size:9 final size:9
Alignment explanation
Indices: 28979273--28979331 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
28979263 AAAAATTAGA
28979273 AAAAAAATT
1 AAAAAAATT
28979282 ATAAAAAATT
1 A-AAAAAATT
28979292 AAAAAAATT
1 AAAAAAATT
*
28979301 AAAACAATT
1 AAAAAAATT
* *
28979310 ATAAATATT
1 AAAAAAATT
* *
28979319 ATAAAATTT
1 AAAAAAATT
28979328 AAAA
1 AAAA
28979332 TATCTAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
9 33 0.79
10 9 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAAATT
Found at i:28979277 original size:21 final size:21
Alignment explanation
Indices: 28979253--28979298 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
28979243 AAAAATGGTT
28979253 AAAAAATCAT-AAAAATTAGAA
1 AAAAAATCATAAAAAATTA-AA
*
28979274 AAAAAATTATAAAAAATTAAA
1 AAAAAATCATAAAAAATTAAA
28979295 AAAA
1 AAAA
28979299 TTAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATCATAAAAAATTAAA
Found at i:28979309 original size:28 final size:27
Alignment explanation
Indices: 28979273--28979331 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
28979263 AAAAATTAGA
28979273 AAAAAAATTATAAAAAATTAAAAAAATT
1 AAAAAAATTAT-AAAAATTAAAAAAATT
* * * *
28979301 AAAACAATTATAAATATTATAAAATTT
1 AAAAAAATTATAAAAATTAAAAAAATT
28979328 AAAA
1 AAAA
28979332 TATCTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAAAATTATAAAAATTAAAAAAATT
Found at i:28984178 original size:17 final size:17
Alignment explanation
Indices: 28984158--28984265 Score: 81
Period size: 17 Copynumber: 6.4 Consensus size: 17
28984148 AAATATCTTC
*
28984158 TCATATAAAATAACAGT
1 TCATACAAAATAACAGT
* * **
28984175 TCATACCAAATGACAAC
1 TCATACAAAATAACAGT
* *
28984192 TCATGCAAAATAATAGT
1 TCATACAAAATAACAGT
* *
28984209 TCATACGAAATATCAGT
1 TCATACAAAATAACAGT
** * *
28984226 TCATACCGAATAATAAT
1 TCATACAAAATAACAGT
* *
28984243 TCATGCAAAATAGCAGT
1 TCATACAAAATAACAGT
28984260 TCATAC
1 TCATAC
28984266 TTCATCATAA
Statistics
Matches: 64, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
17 64 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (17 bp):
TCATACAAAATAACAGT
Found at i:28984185 original size:34 final size:34
Alignment explanation
Indices: 28984147--28984223 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
28984137 CAATTCGCAT
** *
28984147 CAAATATCTTCTCATATAAAATAACAGTTCATAC
1 CAAATATCAACTCATACAAAATAACAGTTCATAC
* *
28984181 CAAATGA-CAACTCATGCAAAATAATAGTTCATAC
1 CAAAT-ATCAACTCATACAAAATAACAGTTCATAC
*
28984215 GAAATATCA
1 CAAATATCA
28984224 GTTCATACCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.03
34 33 0.94
35 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (34 bp):
CAAATATCAACTCATACAAAATAACAGTTCATAC
Found at i:28984213 original size:51 final size:51
Alignment explanation
Indices: 28984158--28984265 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
28984148 AAATATCTTC
* * *
28984158 TCATATAAAATAACAGTTCATACCAAATGACAACTCATGCAAAATAATAGT
1 TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
* * * * * *
28984209 TCATACGAAATATCAGTTCATACCGAATAATAATTCATGCAAAATAGCAGT
1 TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
28984260 TCATAC
1 TCATAC
28984266 TTCATCATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (51 bp):
TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
Found at i:28984238 original size:34 final size:34
Alignment explanation
Indices: 28984200--28984265 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
28984190 ACTCATGCAA
* * *
28984200 AATAATAGTTCATACGAAATATCAGTTCATACCG
1 AATAATAATTCATACAAAATAGCAGTTCATACCG
*
28984234 AATAATAATTCATGCAAAATAGCAGTTCATAC
1 AATAATAATTCATACAAAATAGCAGTTCATAC
28984266 TTCATCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.29
Consensus pattern (34 bp):
AATAATAATTCATACAAAATAGCAGTTCATACCG
Found at i:28985532 original size:36 final size:34
Alignment explanation
Indices: 28985457--28985545 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
28985447 ACGCGTATAT
* *
28985457 ATATATTCTATATATATAACAAAACCATAAACGC
1 ATATATTCTATATATATAACAAAACCACAAACAC
*
28985491 ATATATTTTATATATATAACAAAATCCAC--ACAC
1 ATATATTCTATATATATAACAAAA-CCACAAACAC
28985524 --ATA--CTATATATATAACAAAACC
1 ATATATTCTATATATATAACAAAACC
28985546 CACGCGTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.04
29 16 0.32
31 3 0.06
33 3 0.06
34 23 0.46
35 3 0.06
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (34 bp):
ATATATTCTATATATATAACAAAACCACAAACAC
Found at i:28994125 original size:3 final size:3
Alignment explanation
Indices: 28994117--28994157 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
28994107 ACCAGAACGA
28994117 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
28994158 CCAAAAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:28996117 original size:45 final size:45
Alignment explanation
Indices: 28996053--28996304 Score: 250
Period size: 45 Copynumber: 5.8 Consensus size: 45
28996043 ATAAGGTATT
* * *
28996053 TATAATAATTGTCGGTTTCACCAACTAGTGCTAGGCACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
** * * *
28996098 TATAATATTTGTCAATTTCATCGACCAGTGTTGGGCACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* * * *
28996143 TATAATA----T---TTTCACCGACTAGTGTTAGACACAAATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* **
28996181 -ATAATAATTGTCGGTTTCACCGACCAGTGCTAGATACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* * * * *
28996225 TATAATATTTGTTGGTTTCACTGAGCAGTGCTGGGCACGCATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* *
28996270 TATAATATTTTTCGGTTTCACCGACCAGTTCTAGG
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGG
28996305 GCGTAAAACT
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
37 6 0.04
38 25 0.15
41 2 0.01
44 26 0.15
45 109 0.65
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (45 bp):
TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
Found at i:28996155 original size:38 final size:37
Alignment explanation
Indices: 28996113--28996186 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
28996103 TATTTGTCAA
* * * *
28996113 TTTCATCGACCAGTGTTGGGCACACATATATATAATAT
1 TTTCACCGACCAGTGTTAGACACAAATATA-ATAATAT
*
28996151 TTTCACCGACTAGTGTTAGACACAAATATAATAATA
1 TTTCACCGACCAGTGTTAGACACAAATATAATAATA
28996187 ATTGTCGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (37 bp):
TTTCACCGACCAGTGTTAGACACAAATATAATAATAT
Found at i:28996206 original size:82 final size:83
Alignment explanation
Indices: 28996068--28996234 Score: 219
Period size: 82 Copynumber: 2.0 Consensus size: 83
28996058 TAATTGTCGG
* * * * * * *
28996068 TTTCACCAACTAGTGCTAGGCACACATATATATAATATTTGTCAATTTCATCGACCAGTGTTGGG
1 TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
28996133 CACACATATATATAATAT
66 CACACATATATATAATAT
* * **
28996151 TTTCACCGACTAGTGTTAGACACAAATATA-ATAATAATTGTCGGTTTCACCGACCAGTGCTAGA
1 TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
*
28996215 TACACATATATATAATAT
66 CACACATATATATAATAT
28996233 TT
1 TT
28996235 GTTGGTTTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 46 0.64
83 26 0.36
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (83 bp):
TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
CACACATATATATAATAT
Found at i:29004725 original size:19 final size:18
Alignment explanation
Indices: 29004677--29004725 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
29004667 ATTTTTACTA
* *
29004677 TTTTTTTCTCTCTTTTTC
1 TTTTTTTCACTCGTTTTC
* *
29004695 TTTTTGTGACTCGTTTTC
1 TTTTTTTCACTCGTTTTC
29004713 TTTTTTCTCACTC
1 TTTTTT-TCACTC
29004726 TTTCTTTCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.04, C:0.22, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTTTCACTCGTTTTC
Found at i:29004775 original size:18 final size:18
Alignment explanation
Indices: 29004754--29004790 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29004744 TTCTGAACTC
*
29004754 TTTTT-TTTTCTTTTTCA
1 TTTTTCTTTTCTTGTTCA
29004771 TTTTTCTTTTCTTGTTCA
1 TTTTTCTTTTCTTGTTCA
29004789 TT
1 TT
29004791 CTCTTTCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCTTGTTCA
Found at i:29008192 original size:51 final size:51
Alignment explanation
Indices: 29008108--29008212 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
29008098 ATCTGACTTA
* * ** *
29008108 AAACTTGCATTGATGTTGTCTGAATTAAGACACACTTAATGAACATAAATC
1 AAACATGCATTGATGCTGTCCAAATTAAGACACACTTAATAAACATAAATC
*
29008159 AAACATGCATTGATGCTGTCCAAATT-AGAACACACTTAATAAACATGAATC
1 AAACATGCATTGATGCTGTCCAAATTAAG-ACACACTTAATAAACATAAATC
29008210 AAA
1 AAA
29008213 GTAAATACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (51 bp):
AAACATGCATTGATGCTGTCCAAATTAAGACACACTTAATAAACATAAATC
Found at i:29013260 original size:14 final size:14
Alignment explanation
Indices: 29013241--29013270 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29013231 TGTTTGGTTG
29013241 AATTTTTAAAAAAT
1 AATTTTTAAAAAAT
*
29013255 AATTTTTGAAAAAT
1 AATTTTTAAAAAAT
29013269 AA
1 AA
29013271 AAATGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTTTTAAAAAAT
Found at i:29013884 original size:21 final size:21
Alignment explanation
Indices: 29013860--29013922 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
29013850 TGTTTTTCAT
29013860 TTTTTTAAATGAAAATGAAAA
1 TTTTTTAAATGAAAATGAAAA
*
29013881 TTTTTAAAATGAAAATGAAAA
1 TTTTTTAAATGAAAATGAAAA
*
29013902 TTATTTT--TTGAAAATGAAAA
1 TT-TTTTAAATGAAAATGAAAA
29013922 T
1 T
29013923 GGAAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.34
21 22 0.58
22 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTTTAAATGAAAATGAAAA
Found at i:29013886 original size:20 final size:20
Alignment explanation
Indices: 29013861--29013922 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
29013851 GTTTTTCATT
29013861 TTTTTAAATGAAAATGAAAA
1 TTTTTAAATGAAAATGAAAA
29013881 TTTTTAAAATGAAAATGAAAA
1 TTTTT-AAATGAAAATGAAAA
**
29013902 TTATTT-TTTGAAAATGAAAA
1 TT-TTTAAATGAAAATGAAAA
29013922 T
1 T
29013923 GGAAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.47
21 17 0.45
22 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTTTAAATGAAAATGAAAA
Found at i:29013896 original size:27 final size:26
Alignment explanation
Indices: 29013866--29013930 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
29013856 TCATTTTTTT
29013866 AAATGAAAATGAAAATTTTT-AAAATGA
1 AAATGAAAAT--AAATTTTTGAAAATGA
* *
29013893 AAATGAAAATTATTTTTTGAAAATGA
1 AAATGAAAATAAATTTTTGAAAATGA
29013919 AAATGGAAAATA
1 AAAT-GAAAATA
29013931 TTACTAGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 6 0.18
26 11 0.33
27 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATGAAAATAAATTTTTGAAAATGA
Found at i:29013942 original size:26 final size:26
Alignment explanation
Indices: 29013866--29013942 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
29013856 TCATTTTTTT
29013866 AAATGAAAATGAAAATT-TT--T--A
1 AAATGAAAATGAAAATTATTACTAGA
** *
29013887 AAATGAAAATGAAAATTATTTTTTGA
1 AAATGAAAATGAAAATTATTACTAGA
*
29013913 AAATGAAAATGGAAAA-TATTACTAGC
1 AAATGAAAAT-GAAAATTATTACTAGA
29013939 AAAT
1 AAAT
29013943 ATTTTATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 17 0.37
22 2 0.04
24 1 0.02
26 21 0.46
27 5 0.11
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATGAAAATGAAAATTATTACTAGA
Found at i:29014223 original size:14 final size:14
Alignment explanation
Indices: 29014186--29014243 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 14
29014176 AAGCCTCATT
29014186 TATTTTTATATAA-A
1 TATTTTTATA-AATA
*
29014200 -ATTTTCATAAATA
1 TATTTTTATAAATA
29014213 TATTTTTATAAAAATA
1 TATTTTTAT--AAATA
29014229 TATTTTTATAAATA
1 TATTTTTATAAATA
29014243 T
1 T
29014244 TTGTACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 13 0.34
16 14 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTTTATAAATA
Found at i:29018108 original size:8 final size:8
Alignment explanation
Indices: 29018095--29018128 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
29018085 GGAATAATTG
29018095 AACAAATA
1 AACAAATA
*
29018103 AACAAACA
1 AACAAATA
29018111 AACAAATA
1 AACAAATA
29018119 AACAAATA
1 AACAAATA
29018127 AA
1 AA
29018129 TCGACCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (8 bp):
AACAAATA
Found at i:29018129 original size:12 final size:12
Alignment explanation
Indices: 29018065--29018129 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
29018055 ACCACATTTT
29018065 AATAAACAAATA
1 AATAAACAAATA
**
29018077 AATGAAATGGAATA
1 AAT-AAA-CAAATA
* *
29018091 ATTGAACAAATA
1 AATAAACAAATA
* *
29018103 AACAAACAAACA
1 AATAAACAAATA
29018115 AATAAACAAATA
1 AATAAACAAATA
29018127 AAT
1 AAT
29018130 CGACCCCACC
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
12 28 0.72
13 5 0.13
14 6 0.15
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.17
Consensus pattern (12 bp):
AATAAACAAATA
Found at i:29018338 original size:13 final size:13
Alignment explanation
Indices: 29018320--29018350 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29018310 TAACATAGTT
*
29018320 TAAAATGAATAAA
1 TAAAATAAATAAA
29018333 TAAAATAAATAAA
1 TAAAATAAATAAA
29018346 TAAAA
1 TAAAA
29018351 AAACACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:29019587 original size:21 final size:19
Alignment explanation
Indices: 29019539--29019593 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
29019529 TACAAAAATC
* *
29019539 TTTTTTGTTCTCTTCTCTG
1 TTTTTTCTTCTGTTCTCTG
29019558 TTGTTTTCTTCTGTTCTCTTG
1 TT-TTTTCTTCTGTTCTC-TG
*
29019579 TCTTTTTCTTTTGTT
1 T-TTTTTCTTCTGTT
29019594 GTTTTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.43
21 14 0.47
22 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.11, T:0.71
Consensus pattern (19 bp):
TTTTTTCTTCTGTTCTCTG
Found at i:29020895 original size:11 final size:11
Alignment explanation
Indices: 29020881--29020910 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
29020871 TGACAACAAC
29020881 AAAATAGTAAA
1 AAAATAGTAAA
29020892 AAAATAGTAAA
1 AAAATAGTAAA
29020903 AAAATAGT
1 AAAATAGT
29020911 TTTTTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (11 bp):
AAAATAGTAAA
Found at i:29032652 original size:27 final size:27
Alignment explanation
Indices: 29032613--29032682 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
29032603 GGATGTCATT
* * *
29032613 AAGGCTATACTTTCATAATTAGCCTCA
1 AAGGCTTTTCTTTCATAATTAGCCACA
* ** * *
29032640 AAGGTTTTTCTTTCATGTTTCGTCACA
1 AAGGCTTTTCTTTCATAATTAGCCACA
29032667 AAGGCTTTTCTTTCAT
1 AAGGCTTTTCTTTCAT
29032683 GGCGTGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (27 bp):
AAGGCTTTTCTTTCATAATTAGCCACA
Found at i:29044162 original size:17 final size:17
Alignment explanation
Indices: 29044142--29044196 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
29044132 ACACATGCCC
*
29044142 GTGTATGACACACGGGT
1 GTGTGTGACACACGGGT
* *
29044159 GTGTGTGACACATGGGC
1 GTGTGTGACACACGGGT
29044176 GTGTGTGACACACGGGT
1 GTGTGTGACACACGGGT
29044193 GTGT
1 GTGT
29044197 CCTAGGTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.18, C:0.16, G:0.40, T:0.25
Consensus pattern (17 bp):
GTGTGTGACACACGGGT
Found at i:29044179 original size:34 final size:34
Alignment explanation
Indices: 29044132--29044196 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
29044122 AAGGATCATC
29044132 ACACATGCCCGTGTATGACACACGGGTGTGTGTG
1 ACACATGCCCGTGTATGACACACGGGTGTGTGTG
** *
29044166 ACACATGGGCGTGTGTGACACACGGGTGTGT
1 ACACATGCCCGTGTATGACACACGGGTGTGT
29044197 CCTAGGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (34 bp):
ACACATGCCCGTGTATGACACACGGGTGTGTGTG
Found at i:29044937 original size:11 final size:11
Alignment explanation
Indices: 29044923--29044982 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
29044913 TCCTTTTTCC
29044923 TATTATTTTAT
1 TATTATTTTAT
*
29044934 TATT-TTATATT
1 TATTATTTTA-T
29044945 TATT-TTTTAT
1 TATTATTTTAT
29044955 TATTATTTTA-
1 TATTATTTTAT
29044965 TATTTATTTTAT
1 TA-TTATTTTAT
29044977 TATTAT
1 TATTAT
29044983 CTTGTTTGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 11 0.26
11 30 0.70
12 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:29044962 original size:24 final size:25
Alignment explanation
Indices: 29044925--29045014 Score: 105
Period size: 24 Copynumber: 3.6 Consensus size: 25
29044915 CTTTTTCCTA
29044925 TTATT-TTATTATTTTATATTTATT
1 TTATTATTATTATTTTATATTTATT
29044949 TT-TTATTATTATTTTATATTTATT
1 TTATTATTATTATTTTATATTTATT
*
29044973 TTATTATTATCTTGTTTGTATATTCT-TT
1 TTATTATTA--TTATTT-TATATT-TATT
*
29045001 TTATGATTATTATT
1 TTATTATTATTATT
29045015 AGTTTTGGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
23 2 0.04
24 23 0.40
25 6 0.11
26 4 0.07
27 5 0.09
28 16 0.28
29 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.71
Consensus pattern (25 bp):
TTATTATTATTATTTTATATTTATT
Found at i:29052319 original size:19 final size:18
Alignment explanation
Indices: 29052284--29052326 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
29052274 AATTTTTGTC
29052284 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTTT
* *
29052302 ATAAAATAGTTAAATTTT
1 ATAAAATAATTAATTTTT
29052320 ATTAAAA
1 A-TAAAA
29052327 ATTTGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATAAAATAATTAATTTTT
Found at i:29052384 original size:20 final size:21
Alignment explanation
Indices: 29052341--29052388 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
29052331 GAACATGTTA
29052341 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
*
29052363 ATTTTTAGTGAATTTT-AATT
1 ATTTTTAGTCAATTTTAAATT
29052383 ATTTTT
1 ATTTTT
29052389 GACAGATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.40
22 15 0.60
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:29052971 original size:19 final size:18
Alignment explanation
Indices: 29052943--29052985 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
29052933 CTCATTCACA
*
29052943 TCTCTTCTCTCACAACTTT
1 TCTCTCCTCTCAC-ACTTT
*
29052962 TCTCTCCTCTCTCACTTT
1 TCTCTCCTCTCACACTTT
*
29052980 TTTCTC
1 TCTCTC
29052986 TCATTTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.09, C:0.40, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCCTCTCACACTTT
Found at i:29053246 original size:57 final size:58
Alignment explanation
Indices: 29053127--29053248 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
29053117 GGTCATTTTG
*
29053127 ATTTTCATTTTCATTTTGGAGAAAAACCAAATTCATTTCCAAATGATTTCATTTCTCA
1 ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATTTCATTTCTCA
* * * *
29053185 ATTTTCATTTTTATTTTGGAG-AAGACCATAGTCATTTCCAAAT-ATTCTCATTTCTCC
1 ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATT-TCATTTCTCA
29053242 ATTTTCA
1 ATTTTCA
29053249 CCATTTCTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 3 0.05
57 35 0.60
58 20 0.34
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (58 bp):
ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATTTCATTTCTCA
Found at i:29057369 original size:15 final size:15
Alignment explanation
Indices: 29057336--29057373 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
29057326 ATCATAAATG
29057336 CAAAAACATATATATA
1 CAAAAA-ATATATATA
29057352 CAAAAAAT-TATATGA
1 CAAAAAATATATAT-A
29057367 CAAAAAA
1 CAAAAAA
29057374 ATTTGAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.21
Consensus pattern (15 bp):
CAAAAAATATATATA
Found at i:29058956 original size:29 final size:29
Alignment explanation
Indices: 29058923--29059136 Score: 177
Period size: 29 Copynumber: 7.4 Consensus size: 29
29058913 TCAGCGACCA
29058923 ATGAAAAGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * * *
29058952 ATGAAAAGGGATAGATTTGGCTATCGACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * *
29058981 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * * *
29059010 ATGAAAAGGGAT-GGTGACGACCATT-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATTGAA-T
* * ** * *
29059039 ATGAAAAGGGAT-GGTGACAACCA-TCAGAT
1 ATGAAAAGGGATAGCT-TCGGCTATTGA-AT
* *
29059068 ATGAAAAGGGATAACTTTGGCTATTG-AT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
*
29059096 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
29059125 ATGAAAAGGGAT
1 ATGAAAAGGGAT
29059137 GGTGACGACC
Statistics
Matches: 153, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
28 30 0.20
29 120 0.78
30 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATTGAAT
Found at i:29058993 original size:58 final size:58
Alignment explanation
Indices: 29058923--29059136 Score: 204
Period size: 58 Copynumber: 3.7 Consensus size: 58
29058913 TCAGCGACCA
*
29058923 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATCGACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATTGACT
* * * * ** * * *
29058981 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGAT-GGTGACGACCATTAACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGAT-TTGGCTATTGACT
* * ** * *
29059039 ATGAAAAGGGAT-GGTGACAACCA-TCAGATATGAAAAGGGATA-ACTTTGGCTATTGA-T
1 ATGAAAAGGGATAGCT-TCGGCTATTGA-ATATGAAAAGGGATAGA-TTTGGCTATTGACT
*
29059096 ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGAT
29059137 GGTGACGACC
Statistics
Matches: 117, Mismatches: 32, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
57 34 0.29
58 82 0.70
59 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATTGACT
Found at i:29059071 original size:87 final size:85
Alignment explanation
Indices: 29058974--29059207 Score: 263
Period size: 87 Copynumber: 2.7 Consensus size: 85
29058964 AGATTTGGCT
*
29058974 ATCGACTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAACT
1 ATCGATTATGAAAAGGGATAGCTTTGGCTATCGA-TATGAAAAGGGATGGT-ACGACCATTAACT
29059039 ATGAAAAGGGATGGTGACAACC
64 ATGAAAAGGGATGGTGACAACC
* * * * * * * *
29059061 ATCAGA-TATGAAAAGGGATAACTTTGGCTATTGATATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATC-GATTATGAAAAGGGATAGCTTTGGCTATCGATATGAAAAGGGAT-GGTACGACCATTAACT
*
29059125 ATGAAAAGGGATGGTGACGACC
64 ATGAAAAGGGATGGTGACAACC
* * * * *
29059147 ATCGATTAATGAAAAGGGATAGTTTTGACCATCGAATATGCAAATGGATGGTTACGACCAT
1 ATCGATT-ATGAAAAGGGATAGCTTTGGCTATCG-ATATGAAAAGGGATGG-TACGACCAT
29059208 CATTTAGAAC
Statistics
Matches: 121, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
85 2 0.02
86 46 0.38
87 53 0.44
88 20 0.17
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (85 bp):
ATCGATTATGAAAAGGGATAGCTTTGGCTATCGATATGAAAAGGGATGGTACGACCATTAACTAT
GAAAAGGGATGGTGACAACC
Found at i:29059105 original size:28 final size:28
Alignment explanation
Indices: 29059065--29059136 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
29059055 ACAACCATCA
*
29059065 GATATGAAAAGGGATAACTTTGGCTATT
1 GATATGAAAAGGGATAACTTCGGCTATT
*
29059093 GATATGAAAAGGGATAGCTTCGGCTATT
1 GATATGAAAAGGGATAACTTCGGCTATT
29059121 GATTATGAAAAGGGAT
1 GA-TATGAAAAGGGAT
29059137 GGTGACGACC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 28 0.68
29 13 0.32
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (28 bp):
GATATGAAAAGGGATAACTTCGGCTATT
Found at i:29059132 original size:115 final size:117
Alignment explanation
Indices: 29058950--29059166 Score: 350
Period size: 115 Copynumber: 1.9 Consensus size: 117
29058940 CGGCTATTGA
*
29058950 ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTTGGCTATCGATTATGAA
1 ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGAA
*
29059015 AAGGGATGGTGACGACCATTAACT-ATGAAAAGGGATGGTGACAACCATCAG
66 AAGGGATGGTGACGACCATCAACTAATGAAAAGGGATGGTGACAACCATCAG
* *
29059066 ATATGAAAAGGGATA-ACTTTGGCTATTGA-TATGAAAAGGGATAGCTTCGGCTATTGATTATGA
1 ATATGAAAAGGGATAGA-TTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGA
* *
29059129 AAAGGGATGGTGACGACCATCGATTAATGAAAAGGGAT
65 AAAGGGATGGTGACGACCATCAACTAATGAAAAGGGAT
29059167 AGTTTTGACC
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
115 55 0.59
116 38 0.41
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (117 bp):
ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGAA
AAGGGATGGTGACGACCATCAACTAATGAAAAGGGATGGTGACAACCATCAG
Found at i:29059153 original size:29 final size:29
Alignment explanation
Indices: 29059003--29059208 Score: 132
Period size: 29 Copynumber: 7.1 Consensus size: 29
29058993 AGCTTTGGCT
29059003 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
** * *
29059032 ATTAACTATGAAAAGGGATGGTGACAACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
** ** * *
29059061 ATCAGA-TATGAAAAGGGATAACT-TTGGCT
1 ATC-GATTATGAAAAGGGAT-GGTGACGACC
* * * * *
29059090 ATTGA-TATGAAAAGGGATAGCT-TCGGCT
1 ATCGATTATGAAAAGGGAT-GGTGACGACC
*
29059118 ATTGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
* ***
29059147 ATCGATTAATGAAAAGGGATAGTTTTGACC
1 ATCGATT-ATGAAAAGGGATGGTGACGACC
* * * *
29059177 ATCGAATATGCAAATGGATGGTTACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
29059206 ATC
1 ATC
29059209 ATTTAGAACA
Statistics
Matches: 141, Mismatches: 31, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
28 30 0.21
29 85 0.60
30 26 0.18
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACGACC
Found at i:29059196 original size:59 final size:59
Alignment explanation
Indices: 29058922--29059208 Score: 167
Period size: 58 Copynumber: 4.9 Consensus size: 59
29058912 ATCAGCGACC
* * * * ** * * *
29058922 AATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGAT-TTGGCTATCGACT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGAT-GGTGACGACCATCGATT
* * * * ** *
29058981 -ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAACT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
* * * ** ** * * *
29059039 -ATGAAAAGGGAT-GGTGACAACCATC-AGATATGAAAAGGGATAACT-TTGGCTATTGA-T
1 AATGAAAAGGGATAGCT-TCGACCATCGA-ATATGAAAAGGGAT-GGTGACGACCATCGATT
* * * *
29059096 -ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACGACCATCGATT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
* * * * *
29059154 AATGAAAAGGGATAGTTTTGACCATCGAATATGCAAATGGATGGTTACGACCATC
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATC
29059209 ATTTAGAACA
Statistics
Matches: 172, Mismatches: 47, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
56 1 0.01
57 41 0.24
58 84 0.49
59 46 0.27
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (59 bp):
AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
Found at i:29060019 original size:29 final size:29
Alignment explanation
Indices: 29059977--29060220 Score: 181
Period size: 29 Copynumber: 8.4 Consensus size: 29
29059967 TCAACGACCA
*
29059977 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
29060006 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29060035 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
29060064 ATGAAAAGAGAT-GGTGGCGACCATC-AATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * * *
29060093 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* *
29060122 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
29060151 ATGAAAAGGGAT-GGTGACGACCATCGATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* * * *
29060180 AATGGAAAGGGATAGTTTCGACCATCGAAT
1 -ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29060210 ATGCAAAGGGA
1 ATGAAAAGGGA
29060221 CGGTTATGAC
Statistics
Matches: 179, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.03
29 146 0.82
30 26 0.15
31 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:29060067 original size:58 final size:58
Alignment explanation
Indices: 29059999--29060220 Score: 223
Period size: 58 Copynumber: 3.8 Consensus size: 58
29059989 AGCTTTGGCT
* * * *
29059999 ATCGAATATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGAT-GCTGACGACC
* * * * * *
29060057 ATCGATTATGAAAAGAGAT-GGTGGCGACCATCAATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCT-TCGACCATCGATTATGAAAAGGGATGCTGACGACC
* * * * *
29060115 ATCAAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATGCTGACGACC
* * * * *
29060173 ATCGATTAATGGAAAGGGATAGTTTCGACCATCGAATATGCAAAGGGA
1 ATCGAAT-ATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGA
29060221 CGGTTATGAC
Statistics
Matches: 132, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
57 4 0.03
58 93 0.70
59 35 0.27
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATGCTGACGACC
Found at i:29060131 original size:87 final size:88
Alignment explanation
Indices: 29060006--29060220 Score: 281
Period size: 87 Copynumber: 2.5 Consensus size: 88
29059996 GCTATCGAAT
* * * *
29060006 ATGAAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAG-TGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
*
29060070 AGAGATGGTGGCGACCATCAATT-
65 AGAGATGGTGACGACCATCAATTA
* *
29060093 ATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAA
1 ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* *
29060158 GGGATGGTGACGACCATCGATTA
66 GAGATGGTGACGACCATCAATTA
* ** * *
29060181 ATGGAAAGGGATAGTTTCGACCATCGAATATGCAAAGGGA
1 ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGA
29060221 CGGTTATGAC
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.68
88 34 0.31
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (88 bp):
ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
GAGATGGTGACGACCATCAATTA
Found at i:29063662 original size:51 final size:52
Alignment explanation
Indices: 29063493--29063683 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 52
29063483 TGAAAGTGAA
** * *
29063493 AGTGAT-GGTCATGTGTGTATTACTATGTGCAGGCTACTACGCGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* * * *
29063543 A-TGATAGGTCGCATGTGTAGTGCTATGTGTAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* * * * * * *
29063594 AGCT--TCGATCACGTGTGTAGTACTTTGTGCAAGCTACTACGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* *
29063645 AGTGAT-GGTCACATGTGTAGTACTATGTGTAGGGTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
29063684 TGTGAACCGG
Statistics
Matches: 110, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
49 4 0.04
50 38 0.35
51 66 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
Found at i:29063693 original size:102 final size:101
Alignment explanation
Indices: 29063505--29063693 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 101
29063495 TGATGGTCAT
* * * *
29063505 GTGTGTATTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGGTCGCATGTGTAGTGCTATG
1 GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGAATGATAGGTCACATGTGTAGTACTATG
*
29063570 TGTAGGCTACTATGCGTACCGGATAGCTTCGATCAC
66 TGTAGGCTACTATGCGAACCGGATAGCTTCGATCAC
* * * *
29063606 GTGTGTAGTACTTTGTGCAAGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGA-A-TGATAGGTCACATGTGTAGTACTA
* *
29063670 TGTGTAGGGTACTATGTGAACCGG
64 TGTGTAGGCTACTATGCGAACCGG
29063694 TATCATTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 32 0.43
102 39 0.52
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGAATGATAGGTCACATGTGTAGTACTATG
TGTAGGCTACTATGCGAACCGGATAGCTTCGATCAC
Found at i:29063761 original size:46 final size:43
Alignment explanation
Indices: 29063689--29063787 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
29063679 TACTATGTGA
* *
29063689 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCTC
1 ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGAATC-C
* *
29063732 ACCGGATATCATTGATTACAAAGGGTGGTTGATGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGATATGTGCTGAATCC
29063778 ACCGTGTATC
1 ACCG-GTATC
29063788 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 25 0.53
47 4 0.09
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGAATCC
Found at i:29075629 original size:43 final size:42
Alignment explanation
Indices: 29075581--29075718 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 42
29075571 TCCTAGATGT
* * *
29075581 GGTCTTACATGTAATCA-ACTATCGATGCCACTGTCCCAGAGAA
1 GGTCTTACATGAAATCATA-TA-CGATGCCAATGTCCCAGACAA
*
29075624 GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGACAA
** * * **
29075666 GGTCTTACCCGTAAATC-TCAAACCGATGCCAACGTCCCAGACGT
1 GGTCTTACATG-AAATCAT-ATA-CGATGCCAATGTCCCAGACAA
29075710 GGTCTTACA
1 GGTCTTACA
29075719 CAAAATCACA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 28 0.35
43 25 0.31
44 28 0.35
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGACAA
Found at i:29081285 original size:124 final size:124
Alignment explanation
Indices: 29081065--29081400 Score: 541
Period size: 124 Copynumber: 2.7 Consensus size: 124
29081055 TGTTTCTGGT
*
29081065 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCTTCG
1 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
* * * *
29081130 TGGATGCGATTTTGCTACAATAGGTCATGTAAGAAATAAATT-TTTTTGACATTTTTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-AATTGTTTTTGACATTTCTAAG
29081189 CAAATAGTATAAAATCGCCTCTACCAGGAT-CATATTTGAGAAGAAATTATGAAATCGCGCCCTC
1 CAAATAGTATAAAATCGCCTCTACCAGGATGC-TATTTGAGAAGAAATTATGAAATCGCGCCCTC
* *
29081253 GTGGACGCGATTTTGCTACAGTATGTCATGTAAGAAATAATTGTTTTTGACGTTTCTAAG
65 GTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTTTTTGACATTTCTAAG
* * * *
29081313 CAAATAATATAAAATCGCCTCTACCAGGATGCTATTTGGGAAGAAATTGTGAAATTGCGCCCTCG
1 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
29081378 TGGACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
29081401 CAAGTTTGGG
Statistics
Matches: 197, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
123 5 0.03
124 191 0.97
125 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (124 bp):
CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTTTTTGACATTTCTAAG
Found at i:29084510 original size:10 final size:10
Alignment explanation
Indices: 29084495--29084519 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29084485 CAAATCTAAC
29084495 ATTATGTAAA
1 ATTATGTAAA
29084505 ATTATGTAAA
1 ATTATGTAAA
29084515 ATTAT
1 ATTAT
29084520 TAAGTCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:29084573 original size:10 final size:10
Alignment explanation
Indices: 29084558--29084584 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29084548 TAAAATTATC
29084558 AAATTATGTA
1 AAATTATGTA
29084568 AAATTATGTA
1 AAATTATGTA
29084578 AAATTAT
1 AAATTAT
29084585 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:29084629 original size:18 final size:18
Alignment explanation
Indices: 29084606--29084640 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29084596 AAATTTAATT
29084606 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
29084624 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
29084641 TATGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:29084632 original size:56 final size:55
Alignment explanation
Indices: 29084568--29084761 Score: 208
Period size: 56 Copynumber: 3.3 Consensus size: 55
29084558 AAATTATGTA
29084568 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTA-GTAAAATTATC
* *** **
29084624 AAATTATGTAAAATTATTATGTCCAAAAATTGTGTTAATGGTTAGAATTTTTTATCAAATTATGT
1 AAATTATGTAAAATTATTAAG-CCAAAAAAAAT-TTAA---TTA-AA-TTAGTA--AAATTA--T
*
29084689 A
55 C
29084690 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAA-TTAGTAAAATTATC
29084746 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
29084762 GGTTAGGGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
56 37 0.33
57 8 0.07
58 10 0.09
60 7 0.06
61 6 0.05
62 4 0.04
63 2 0.02
64 10 0.09
65 8 0.07
66 21 0.19
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGTAAAATTATC
Found at i:29084695 original size:10 final size:10
Alignment explanation
Indices: 29084680--29084706 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29084670 ATTTTTTATC
29084680 AAATTATGTA
1 AAATTATGTA
29084690 AAATTATGTA
1 AAATTATGTA
29084700 AAATTAT
1 AAATTAT
29084707 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:29084719 original size:122 final size:121
Alignment explanation
Indices: 29084503--29084761 Score: 425
Period size: 122 Copynumber: 2.1 Consensus size: 121
29084493 ACATTATGTA
*
29084503 AAATTATGTAAAATTATTAAGTCTCAAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCTCAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
29084568 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAA-TTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTTA-GTAAAATTATC
* **
29084624 AAATTATGTAAAATTATTATGTC-CAAAAATTGTGTTAATGGTTAG-AATTTTTTATCAAATTAT
1 AAATTATGTAAAATTATTAAGTCTC-AAAATTGTGTTAATGGTTAGTAA--AATTATCAAATTAT
29084687 GTAAAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTTAGTAAAATTATC
63 GTAAAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTTAGTAAAATTATC
29084746 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
29084762 GGTTAGGGTT
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
120 3 0.02
121 41 0.32
122 83 0.64
123 3 0.02
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAGTCTCAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTTAGTAAAATTATC
Found at i:29084796 original size:18 final size:18
Alignment explanation
Indices: 29084769--29084828 Score: 102
Period size: 18 Copynumber: 3.3 Consensus size: 18
29084759 TTAGGTTAGG
29084769 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
29084787 GTTAGAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
29084805 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
29084823 ATTAGG
1 GTTAGG
29084829 TTAGGGTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:29084847 original size:29 final size:29
Alignment explanation
Indices: 29084805--29084900 Score: 174
Period size: 29 Copynumber: 3.3 Consensus size: 29
29084795 TTTTAATTAA
29084805 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
29084834 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
29084863 GTTAGGATTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
29084892 GTTAGGGTT
1 GTTAGGGTT
29084901 AGGTTTTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:29084884 original size:34 final size:32
Alignment explanation
Indices: 29084817--29084918 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 32
29084807 TAGGGTTTTT
* *
29084817 AATTAAATTAGGTTAGGGTTAGG-GTTT-TT-
1 AATTAAGTTAGGTTAGGGTTAGGTTTTTATTA
29084846 AATTAAGTTAGGTTAGGGTTAGGATTTTTAATTA
1 AATTAAGTTAGGTTAGGGTTAGG-TTTTT-ATTA
* *
29084880 AATTAGGTTAGGGTTAGGGTTAGGTTTTTTATCA
1 AATTAAGTTA-GGTTAGGGTTAGG-TTTTTATTA
29084914 AATTA
1 AATTA
29084919 TGTAAAATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
29 22 0.35
31 3 0.05
33 2 0.03
34 17 0.27
35 18 0.29
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.44
Consensus pattern (32 bp):
AATTAAGTTAGGTTAGGGTTAGGTTTTTATTA
Found at i:29084895 original size:35 final size:32
Alignment explanation
Indices: 29084805--29084918 Score: 109
Period size: 29 Copynumber: 3.7 Consensus size: 32
29084795 TTTTAATTAA
29084805 GTTAGGGTTTTTAATT-AA--A-TTAGGTTAGG
1 GTTA-GGTTTTTAATTAAATTAGTTAGGTTAGG
29084834 GTTAGGGTTTTTAATT--A--AGTTAGGTTAGG
1 GTTA-GGTTTTTAATTAAATTAGTTAGGTTAGG
29084863 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGG-TTTTTAATTAAATTA-GTTA-GGTTAGG
* *
29084898 GTTAGGTTTTTTATCAAATTA
1 GTTAGGTTTTTAATTAAATTA
29084919 TGTAAAATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
28 4 0.05
29 39 0.52
31 1 0.01
33 1 0.01
34 17 0.23
35 13 0.17
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (32 bp):
GTTAGGTTTTTAATTAAATTAGTTAGGTTAGG
Found at i:29084983 original size:18 final size:18
Alignment explanation
Indices: 29084960--29084994 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29084950 AAATTTAATT
29084960 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
29084978 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
29084995 TAAGTCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:29084989 original size:55 final size:54
Alignment explanation
Indices: 29084923--29085048 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 54
29084913 AAATTATGTA
29084923 AAATTAAGTAAAATTATTAAG-CCAAAAAAATT-TAATTAA-ATTAGGTAAAATTATC
1 AAATTAAGTAAAATTATTAAGTCC--AAAAATTGT-ATTAAGATTA-GTAAAATTATC
* * *
29084978 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTAAGTAAAATTATTAAGTCCAAAAATTGTATTAA-GATTAGTAAAATTATC
*
29085033 AAATTATGTAAAATTA
1 AAATTAAGTAAAATTA
29085049 GGTTAGGGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
54 11 0.17
55 47 0.75
56 5 0.08
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (54 bp):
AAATTAAGTAAAATTATTAAGTCCAAAAATTGTATTAAGATTAGTAAAATTATC
Found at i:29085083 original size:18 final size:18
Alignment explanation
Indices: 29085056--29085169 Score: 125
Period size: 18 Copynumber: 6.7 Consensus size: 18
29085046 TTAGGTTAGG
29085056 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
29085074 GTTAGAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
29085092 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
29085110 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
29085121 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
29085139 GTTAGGGTTTTTAAATAA
1 GTTAGGGTTTTTAATTAA
*
29085157 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
29085170 TTACATCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
11 3 0.04
12 2 0.03
13 1 0.01
14 2 0.03
15 2 0.03
16 1 0.01
17 2 0.03
18 66 0.84
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:29085112 original size:65 final size:65
Alignment explanation
Indices: 29085043--29085169 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
29085033 AAATTATGTA
* *
29085043 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGAGTTTTTAAATAAATTAGGGTTTTTAATT
*
29085108 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGGTTTTTA
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGAGTTTTTAAATAAATTAGGGTTTTTA
29085170 TTACATCAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (65 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGAGTTTTTAAATAAATTAGGGTTTTTAATT
Found at i:29085217 original size:25 final size:26
Alignment explanation
Indices: 29085165--29085228 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
29085155 AAATTAGGGT
*
29085165 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
* *
29085191 TTTTATTATATTAAA-TAAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
29085216 TTTTATTACATCA
1 TTTTATTACATCA
29085229 GATAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATTAAACTTCTA
Found at i:29085664 original size:18 final size:18
Alignment explanation
Indices: 29085637--29085671 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29085627 CAGAAAAGGA
* *
29085637 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
29085655 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
29085672 AAACACACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:29086333 original size:7 final size:7
Alignment explanation
Indices: 29086323--29086347 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29086313 TTATATACAT
29086323 AATACTA
1 AATACTA
29086330 AATACTA
1 AATACTA
29086337 AATACTA
1 AATACTA
29086344 AATA
1 AATA
29086348 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:29087549 original size:51 final size:51
Alignment explanation
Indices: 29087492--29087605 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
29087482 TTTAAAAAAT
*
29087492 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
29087543 GGAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
29087594 GAAATTGA-AGGA
1 GAAATTGAGAGGA
29087606 TTAGAGAGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 4 0.07
51 55 0.93
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:29094960 original size:24 final size:25
Alignment explanation
Indices: 29094933--29095043 Score: 100
Period size: 25 Copynumber: 4.5 Consensus size: 25
29094923 GACACACCAC
*
29094933 AGCTCGTGTGAGCTTATCGATT-TT
1 AGCTCGTGTGAGCTTACCGATTCTT
*
29094957 AGCTCGTGAGAGCTTACCGATTCTT
1 AGCTCGTGTGAGCTTACCGATTCTT
* * * *
29094982 AGCTCGTATTAGCTTACCAATT-TCC
1 AGCTCGTGTGAGCTTACCGATTCT-T
* * * *
29095007 AGCTCGTGAGAGCATACTGATTCAT
1 AGCTCGTGTGAGCTTACCGATTCTT
*
29095032 AGCTCGTATGAG
1 AGCTCGTGTGAG
29095044 TATACATGTA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
24 21 0.31
25 46 0.69
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCTCGTGTGAGCTTACCGATTCTT
Found at i:29103867 original size:33 final size:33
Alignment explanation
Indices: 29103820--29103888 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
29103810 AAGGTTGTAA
*
29103820 TATAGTGCAGTAAAATAGATATAAATGAGGTGG
1 TATAGTGCAGTAAAAGAGATATAAATGAGGTGG
* *
29103853 TATATTGCAGTAAAAGATATATAAATGAGGTGG
1 TATAGTGCAGTAAAAGAGATATAAATGAGGTGG
29103886 TAT
1 TAT
29103889 CAACAAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (33 bp):
TATAGTGCAGTAAAAGAGATATAAATGAGGTGG
Found at i:29112624 original size:32 final size:31
Alignment explanation
Indices: 29112579--29112674 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
29112569 CTTAGATAAT
29112579 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
29112610 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
29112642 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
29112673 TT
1 TT
29112675 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:29113250 original size:19 final size:19
Alignment explanation
Indices: 29113219--29113270 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
29113209 TTCTTTAAAT
*
29113219 AAAAG-AAAAAAAACAGCAAC
1 AAAAGCAAAAAAAA-A-CAAA
*
29113239 AACAGCAAAAAAAAACAAA
1 AAAAGCAAAAAAAAACAAA
29113258 AAAAGCAAAAAAA
1 AAAAGCAAAAAAA
29113271 GCGCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 15 0.54
20 5 0.18
21 8 0.29
ACGTcount: A:0.79, C:0.13, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAGCAAAAAAAAACAAA
Found at i:29113280 original size:22 final size:23
Alignment explanation
Indices: 29113255--29113313 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
29113245 AAAAAAAAAC
29113255 AAAAAAAGCAAAAAAAGCGC-AA
1 AAAAAAAGCAAAAAAAGCGCAAA
*
29113277 AAAAAAAG-AGTAAAAAGCGCAAA
1 AAAAAAAGCA-AAAAAAGCGCAAA
29113300 AAAAAAAGCAAAAA
1 AAAAAAAGCAAAAA
29113314 GTAAAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 17 0.53
23 13 0.41
24 1 0.03
ACGTcount: A:0.75, C:0.10, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAAGCAAAAAAAGCGCAAA
Found at i:29113306 original size:28 final size:29
Alignment explanation
Indices: 29113275--29113334 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
29113265 AAAAAAGCGC
*
29113275 AAAAA-AAAAGAGT-AAAAAGCGCAAAAA
1 AAAAAGAAAAAAGTAAAAAAGCGCAAAAA
*
29113302 AAAAAGCAAAAAGTAAAAAAGCGCAAAAA
1 AAAAAGAAAAAAGTAAAAAAGCGCAAAAA
29113331 AAAA
1 AAAA
29113335 GTTGCCTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 18 0.62
ACGTcount: A:0.75, C:0.08, G:0.13, T:0.03
Consensus pattern (29 bp):
AAAAAGAAAAAAGTAAAAAAGCGCAAAAA
Found at i:29114526 original size:43 final size:43
Alignment explanation
Indices: 29114464--29114547 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
29114454 TACTACTTGG
*
29114464 GTTGAAATGAAGCGCATCTTACGAAAACGGTTTGTTCCACCGT
1 GTTGAAATGAAGCGAATCTTACGAAAACGGTTTGTTCCACCGT
*
29114507 GTTGAAATGAAGCGAATCTTACGAAAATGGTTTGTTCCACC
1 GTTGAAATGAAGCGAATCTTACGAAAACGGTTTGTTCCACC
29114548 ATACTATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GTTGAAATGAAGCGAATCTTACGAAAACGGTTTGTTCCACCGT
Found at i:29116483 original size:31 final size:32
Alignment explanation
Indices: 29116415--29116500 Score: 156
Period size: 32 Copynumber: 2.7 Consensus size: 32
29116405 TTTTAAAGAG
*
29116415 TTATTAGGATTCAATTACTCTTTAAAGAGTTT
1 TTATTAGGATTCAATTACTCTTGAAAGAGTTT
29116447 TTATTAGGATTCAATTACTCTTGAAAGAG-TT
1 TTATTAGGATTCAATTACTCTTGAAAGAGTTT
29116478 TTATTAGGATTCAATTACTCTTG
1 TTATTAGGATTCAATTACTCTTG
29116501 TAATTTGCCT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 25 0.47
32 28 0.53
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (32 bp):
TTATTAGGATTCAATTACTCTTGAAAGAGTTT
Found at i:29124214 original size:20 final size:20
Alignment explanation
Indices: 29124191--29124255 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
29124181 TAGGGGCATG
29124191 AAAGTGCAATCAGGGGTAAC
1 AAAGTGCAATCAGGGGTAAC
* * **
29124211 AAAGTACAAAT-AGGGGCATG
1 AAAGTGC-AATCAGGGGTAAC
* *
29124231 TAAGTGCAATCAGGGGTACC
1 AAAGTGCAATCAGGGGTAAC
29124251 AAAGT
1 AAAGT
29124256 ATACATAGGG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.40, C:0.14, G:0.29, T:0.17
Consensus pattern (20 bp):
AAAGTGCAATCAGGGGTAAC
Found at i:29124236 original size:40 final size:40
Alignment explanation
Indices: 29124181--29124308 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 40
29124171 GGAGTATAAC
* *
29124181 TAGGGGCATGAAAGTGCAATCAGGGGTAACAAAGTACAAA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
* *
29124221 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTATACA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
* * * *
29124261 TAGGGGCAGGTATGTGCAATCAAGCGTACCAAAGTACAAA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
*
29124301 CAGGGGCA
1 TAGGGGCA
29124309 CAAGAGTGCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.16
Consensus pattern (40 bp):
TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
Found at i:29124318 original size:40 final size:40
Alignment explanation
Indices: 29124193--29124322 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
29124183 GGGGCATGAA
* **
29124193 AGTGCAATCAGGGGTAACAAAGTACAAATAGGGGCATGTA-
1 AGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCA-CAAG
* * *
29124233 AGTGCAATCAGGGGTACCAAAGTATACATAGGGG--CAGG
1 AGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACAAG
* * *
29124271 TATGTGCAATCAAGCGTACCAAAGTACAAACAGGGGCACAAG
1 -A-GTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACAAG
29124313 AGTGCAATCA
1 AGTGCAATCA
29124323 TCCAATAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
39 1 0.01
40 68 0.93
41 1 0.01
42 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.16
Consensus pattern (40 bp):
AGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACAAG
Found at i:29135417 original size:39 final size:39
Alignment explanation
Indices: 29135374--29135611 Score: 302
Period size: 39 Copynumber: 6.1 Consensus size: 39
29135364 GTAAATTATA
* *
29135374 CCCTGAACGCACTTACATGCCCCTGTTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* *
29135413 CCCTGAACACACTTACGTGCCCCTATTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * * *
29135452 CCCTGAATGCACTTACGTGCCGCTGTTGTACATCGGTTC
1 CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * *
29135491 CCCTGATCGCACTTATC-TACCCCTGTTGTACTTCAGTAC
1 CCCTGAACGCACTTA-CGTGCCCCTGTTGTACTTCGGTAC
* * *
29135530 CCC-GATCGCACTTACATGCCACTGTTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGGTAC
*
29135568 CCCT-AATTGCACTTACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGAA-CGCACTTACGTGCCCCTGTTGTACTTCGGTAC
29135607 CCCTG
1 CCCTG
29135612 TTCTACTTTG
Statistics
Matches: 170, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 34 0.20
39 134 0.79
40 1 0.01
ACGTcount: A:0.18, C:0.35, G:0.17, T:0.30
Consensus pattern (39 bp):
CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGGTAC
Found at i:29135580 original size:77 final size:77
Alignment explanation
Indices: 29135372--29135609 Score: 293
Period size: 77 Copynumber: 3.1 Consensus size: 77
29135362 ACGTAAATTA
* * * * *
29135372 TACCCTGAACGCACTTACATGCCCCTGTTGTACTTCGATACCCCTGAA-CACACTTACGTGCCCC
1 TACCCCGATCGCACTTACATGCCACTGTTGTACTTCGGTACCCCT-AATCGCACTTACGTGCCCC
*
29135436 TATTGTACTTCGG
65 TGTTGTACTTCGG
* * * * * *
29135449 TACCCCTGAAT-GCACTTACGTGCCGCTGTTGTACATCGGTTCCCCTGATCGCACTTATC-TACC
1 TACCCC-G-ATCGCACTTACATGCCACTGTTGTACTTCGGTACCCCTAATCGCACTTA-CGTGCC
*
29135512 CCTGTTGTACTTCAG
63 CCTGTTGTACTTCGG
*
29135527 TACCCCGATCGCACTTACATGCCACTGTTGTACTTCGGTACCCCTAATTGCACTTACGTGCCCCT
1 TACCCCGATCGCACTTACATGCCACTGTTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCT
29135592 GTTGTACTTCGG
66 GTTGTACTTCGG
29135604 TACCCC
1 TACCCC
29135610 TGTTCTACTT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
76 3 0.02
77 70 0.52
78 60 0.44
79 2 0.01
ACGTcount: A:0.18, C:0.35, G:0.17, T:0.30
Consensus pattern (77 bp):
TACCCCGATCGCACTTACATGCCACTGTTGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCT
GTTGTACTTCGG
Found at i:29135594 original size:116 final size:117
Alignment explanation
Indices: 29135374--29135611 Score: 331
Period size: 116 Copynumber: 2.0 Consensus size: 117
29135364 GTAAATTATA
* * *
29135374 CCCTGAACGCACTTACATGCCCCTGTTGTACTTCGATACCCCTGAACACACTTACGTGCCCCTAT
1 CCCTGAACGCACTTACATACCCCTGTTGTACTTCGATACCCCTGAACACACTTACATGCCACTAT
* *
29135439 TGTACTTCGGTACCCCTGAATGCACTTACGTGCCGCTGTTGTACATCGGTTC
66 TGTACTTCGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACATCGGTAC
* * *
29135491 CCCTGATCGCACTTATC-TACCCCTGTTGTACTTC-AGTACCCC-GATCGCACTTACATGCCACT
1 CCCTGAACGCACTTA-CATACCCCTGTTGTACTTCGA-TACCCCTGAACACACTTACATGCCACT
* *
29135553 GTTGTACTTCGGTACCCCT-AATTGCACTTACGTGCCCCTGTTGTACTTCGGTAC
64 ATTGTACTTCGGTACCCCTGAA-TGCACTTACGTGCCCCTGTTGTACATCGGTAC
29135607 CCCTG
1 CCCTG
29135612 TTCTACTTTG
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
115 2 0.02
116 69 0.64
117 36 0.33
118 1 0.01
ACGTcount: A:0.18, C:0.35, G:0.17, T:0.30
Consensus pattern (117 bp):
CCCTGAACGCACTTACATACCCCTGTTGTACTTCGATACCCCTGAACACACTTACATGCCACTAT
TGTACTTCGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACATCGGTAC
Found at i:29135630 original size:19 final size:19
Alignment explanation
Indices: 29135551--29135630 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
29135541 TTACATGCCA
*
29135551 CTGTTGTACTTCGGTACCC
1 CTGTTCTACTTCGGTACCC
* *
29135570 CTAATTGC-ACTTAC-GTGCCC
1 CT-GTT-CTACTT-CGGTACCC
*
29135590 CTGTTGTACTTCGGTACCC
1 CTGTTCTACTTCGGTACCC
* *
29135609 CTGTTCTACTTTGGTACTC
1 CTGTTCTACTTCGGTACCC
29135628 CTG
1 CTG
29135631 ATAGCACTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.02
19 32 0.68
20 13 0.28
21 1 0.02
ACGTcount: A:0.12, C:0.31, G:0.19, T:0.38
Consensus pattern (19 bp):
CTGTTCTACTTCGGTACCC
Found at i:29142470 original size:25 final size:25
Alignment explanation
Indices: 29142442--29142525 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
29142432 CTTGAAAGCC
29142442 TTTGTGGCGAATTATTTGGTAAGAA
1 TTTGTGGCGAATTATTTGGTAAGAA
** * **
29142467 TTTGTGGTAAATCATTT-GTAAAGCC
1 TTTGTGGCGAATTATTTGGT-AAGAA
* * *
29142492 TTTGTGGGGGAATTGTTTGGGAAGAA
1 TTTGT-GGCGAATTATTTGGTAAGAA
29142518 TTTGTGGC
1 TTTGTGGC
29142526 AAGAACTGGG
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
24 2 0.05
25 24 0.56
26 16 0.37
27 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.31, T:0.39
Consensus pattern (25 bp):
TTTGTGGCGAATTATTTGGTAAGAA
Found at i:29162697 original size:931 final size:931
Alignment explanation
Indices: 29160895--29162758 Score: 3719
Period size: 931 Copynumber: 2.0 Consensus size: 931
29160885 AGATGTCAGG
29160895 ATTTAGGAACCATATGCTAAAAAAATAATACTTCACTTGTTGAATAAAACTCTTAATAATTAGTC
1 ATTTAGGAACCATATGCTAAAAAAATAATACTTCACTTGTTGAATAAAACTCTTAATAATTAGTC
29160960 TCTTAATATATATAGCAATAATTGTCAGATTTGGCTATGACTATCCTTCTATATGATTGTAGTTT
66 TCTTAATATATATAGCAATAATTGTCAGATTTGGCTATGACTATCCTTCTATATGATTGTAGTTT
29161025 ACAAATTGATGTCATATCACTATGTTTATTTGTAATGGAAGACTTGTTTAATTCTACTTATGTTT
131 ACAAATTGATGTCATATCACTATGTTTATTTGTAATGGAAGACTTGTTTAATTCTACTTATGTTT
*
29161090 AACAACTTTTTTAAGTGACAAATATGAAAGTTGTTTTTGTCTAAATTTTTTTATATTTTTCAAAT
196 AACAACTCTTTTAAGTGACAAATATGAAAGTTGTTTTTGTCTAAATTTTTTTATATTTTTCAAAT
29161155 GATTAAATATAAAAGTCAGTTTCATTACTAAAATCTGGTTAGTATATATTGGAAGCTTAAAAGAG
261 GATTAAATATAAAAGTCAGTTTCATTACTAAAATCTGGTTAGTATATATTGGAAGCTTAAAAGAG
29161220 TTGTTAAACATAAGTAGAATTAAACAAGTCTTCCATTACAAATAAACATAGTGATATGACATGAA
326 TTGTTAAACATAAGTAGAATTAAACAAGTCTTCCATTACAAATAAACATAGTGATATGACATGAA
29161285 TTTGTAAACTACAATCATATAGAAGGATAGTCACAGCCAAATTTGACAATTATAGCTATATAATT
391 TTTGTAAACTACAATCATATAGAAGGATAGTCACAGCCAAATTTGACAATTATAGCTATATAATT
29161350 TGTAAACAAGCCAGGATGATTCTCATCAAAGAAGAGATTATCATTTTCAATGCTGAAAAGAGACG
456 TGTAAACAAGCCAGGATGATTCTCATCAAAGAAGAGATTATCATTTTCAATGCTGAAAAGAGACG
29161415 ACAGATTTGTCTGGAAAATGAGTTTGACTAAGCAGGCAAAGAGGAGGAAGGGCCCTTACAGCATC
521 ACAGATTTGTCTGGAAAATGAGTTTGACTAAGCAGGCAAAGAGGAGGAAGGGCCCTTACAGCATC
29161480 CATACAATGACCAATGTGCAGATTACAAGGAAAACACAAGATTAGTAAAGCATGGAAAATGGGTT
586 CATACAATGACCAATGTGCAGATTACAAGGAAAACACAAGATTAGTAAAGCATGGAAAATGGGTT
29161545 TGACTAAGCAGAATACAGATTAAACATAAAATCCAGAATATAGATTCCAAAATTCCAATTTAATT
651 TGACTAAGCAGAATACAGATTAAACATAAAATCCAGAATATAGATTCCAAAATTCCAATTTAATT
29161610 CCCCCTTCCTGAATATTCAGTGTCTTAAAATCAAAATAAAAAAACCACCATATATCATCTTATCA
716 CCCCCTTCCTGAATATTCAGTGTCTTAAAATCAAAATAAAAAAACCACCATATATCATCTTATCA
29161675 AAATACCAATCCTTCCCTAGCAATTACCAAAACATCCCAAACCCTAACCCTAACCACTCAAAACG
781 AAATACCAATCCTTCCCTAGCAATTACCAAAACATCCCAAACCCTAACCCTAACCACTCAAAACG
29161740 ATCAAAACAATATCAATTTATGAATTACAAGTAGAAAATCAAAGCACCCTATTGGTCATATTAAT
846 ATCAAAACAATATCAATTTATGAATTACAAGTAGAAAATCAAAGCACCCTATTGGTCATATTAAT
29161805 ATAACAGAGATCAATCAGTTC
911 ATAACAGAGATCAATCAGTTC
29161826 ATTTAGGAACCATATGCTAAAAAAATAATACTTCACTTGTTGAATAAAACTCTTAATAATTAGTC
1 ATTTAGGAACCATATGCTAAAAAAATAATACTTCACTTGTTGAATAAAACTCTTAATAATTAGTC
29161891 TCTTAATATATATAGCAATAATTGTCAGATTTGGCTATGACTATCCTTCTATATGATTGTAGTTT
66 TCTTAATATATATAGCAATAATTGTCAGATTTGGCTATGACTATCCTTCTATATGATTGTAGTTT
29161956 ACAAATTGATGTCATATCACTATGTTTATTTGTAATGGAAGACTTGTTTAATTCTACTTATGTTT
131 ACAAATTGATGTCATATCACTATGTTTATTTGTAATGGAAGACTTGTTTAATTCTACTTATGTTT
29162021 AACAACTCTTTTAAGTGACAAATATGAAAGTTGTTTTTGTCTAAATTTTTTTATATTTTTCAAAT
196 AACAACTCTTTTAAGTGACAAATATGAAAGTTGTTTTTGTCTAAATTTTTTTATATTTTTCAAAT
29162086 GATTAAATATAAAAGTCAGTTTCATTACTAAAATCTGGTTAGTATATATTGGAAGCTTAAAAGAG
261 GATTAAATATAAAAGTCAGTTTCATTACTAAAATCTGGTTAGTATATATTGGAAGCTTAAAAGAG
29162151 TTGTTAAACATAAGTAGAATTAAACAAGTCTTCCATTACAAATAAACATAGTGATATGACATGAA
326 TTGTTAAACATAAGTAGAATTAAACAAGTCTTCCATTACAAATAAACATAGTGATATGACATGAA
29162216 TTTGTAAACTACAATCATATAGAAGGATAGTCACAGCCAAATTTGACAATTATAGCTATATAATT
391 TTTGTAAACTACAATCATATAGAAGGATAGTCACAGCCAAATTTGACAATTATAGCTATATAATT
29162281 TGTAAACAAGCCAGGATGATTCTCATCAAAGAAGAGATTATCATTTTCAATGCTGAAAAGAGACG
456 TGTAAACAAGCCAGGATGATTCTCATCAAAGAAGAGATTATCATTTTCAATGCTGAAAAGAGACG
29162346 ACAGATTTGTCTGGAAAATGAGTTTGACTAAGCAGGCAAAGAGGAGGAAGGGCCCTTACAGCATC
521 ACAGATTTGTCTGGAAAATGAGTTTGACTAAGCAGGCAAAGAGGAGGAAGGGCCCTTACAGCATC
29162411 CATACAATGACCAATGTGCAGATTACAAGGAAAACACAAGATTAGTAAAGCATGGAAAATGGGTT
586 CATACAATGACCAATGTGCAGATTACAAGGAAAACACAAGATTAGTAAAGCATGGAAAATGGGTT
29162476 TGACTAAGCAGAATACAGATTAAACATAAAATCCAGAATATAGATTCCAAAATTCCAATTTAATT
651 TGACTAAGCAGAATACAGATTAAACATAAAATCCAGAATATAGATTCCAAAATTCCAATTTAATT
29162541 CCCCCTTCCTGAATATTCAGTGTCTTAAAATCAAAATAAAAAAACCACCATATATCATCTTATCA
716 CCCCCTTCCTGAATATTCAGTGTCTTAAAATCAAAATAAAAAAACCACCATATATCATCTTATCA
29162606 AAATACCAATCCTTCCCTAGCAATTACCAAAACATCCCAAACCCTAACCCTAACCACTCAAAACG
781 AAATACCAATCCTTCCCTAGCAATTACCAAAACATCCCAAACCCTAACCCTAACCACTCAAAACG
29162671 ATCAAAACAATATCAATTTATGAATTACAAGTAGAAAATCAAAGCACCCTATTGGTCATATTAAT
846 ATCAAAACAATATCAATTTATGAATTACAAGTAGAAAATCAAAGCACCCTATTGGTCATATTAAT
29162736 ATAACAGAGATCAATCAGTTC
911 ATAACAGAGATCAATCAGTTC
29162757 AT
1 AT
29162759 CAATCCAAAA
Statistics
Matches: 932, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
931 932 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (931 bp):
ATTTAGGAACCATATGCTAAAAAAATAATACTTCACTTGTTGAATAAAACTCTTAATAATTAGTC
TCTTAATATATATAGCAATAATTGTCAGATTTGGCTATGACTATCCTTCTATATGATTGTAGTTT
ACAAATTGATGTCATATCACTATGTTTATTTGTAATGGAAGACTTGTTTAATTCTACTTATGTTT
AACAACTCTTTTAAGTGACAAATATGAAAGTTGTTTTTGTCTAAATTTTTTTATATTTTTCAAAT
GATTAAATATAAAAGTCAGTTTCATTACTAAAATCTGGTTAGTATATATTGGAAGCTTAAAAGAG
TTGTTAAACATAAGTAGAATTAAACAAGTCTTCCATTACAAATAAACATAGTGATATGACATGAA
TTTGTAAACTACAATCATATAGAAGGATAGTCACAGCCAAATTTGACAATTATAGCTATATAATT
TGTAAACAAGCCAGGATGATTCTCATCAAAGAAGAGATTATCATTTTCAATGCTGAAAAGAGACG
ACAGATTTGTCTGGAAAATGAGTTTGACTAAGCAGGCAAAGAGGAGGAAGGGCCCTTACAGCATC
CATACAATGACCAATGTGCAGATTACAAGGAAAACACAAGATTAGTAAAGCATGGAAAATGGGTT
TGACTAAGCAGAATACAGATTAAACATAAAATCCAGAATATAGATTCCAAAATTCCAATTTAATT
CCCCCTTCCTGAATATTCAGTGTCTTAAAATCAAAATAAAAAAACCACCATATATCATCTTATCA
AAATACCAATCCTTCCCTAGCAATTACCAAAACATCCCAAACCCTAACCCTAACCACTCAAAACG
ATCAAAACAATATCAATTTATGAATTACAAGTAGAAAATCAAAGCACCCTATTGGTCATATTAAT
ATAACAGAGATCAATCAGTTC
Found at i:29164873 original size:38 final size:37
Alignment explanation
Indices: 29164802--29164876 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 37
29164792 TCACCTTAAT
29164802 ATTAAATTAATATAATATTTATCAAGATAAATATTAG
1 ATTAAATTAATATAATATTTATCAAGATAAATATTAG
*
29164839 ATTAAATTTAATATTAA-ATTTTATCTAGATAATATATT
1 ATTAAA-TTAATA-TAATA-TTTATCAAGATAA-ATATT
29164877 GCTTACATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 6 0.18
38 7 0.21
39 15 0.45
40 5 0.15
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTAAATTAATATAATATTTATCAAGATAAATATTAG
Found at i:29172039 original size:45 final size:45
Alignment explanation
Indices: 29171975--29172147 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
29171965 TACTGAGTAT
* * **
29171975 CATTGATTATAAAAGTGGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* * * *
29172020 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCAGCGAAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
** *
29172065 CATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCAGCGAATAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* * * *
29172110 AATTGATTCTAAGGGCGG-TGCTATGTGCTGA-TCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
29172148 TGTAACGGTT
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 6 0.06
44 13 0.12
45 89 0.82
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
Found at i:29172700 original size:22 final size:22
Alignment explanation
Indices: 29172672--29172715 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
29172662 GATATTTCTT
29172672 TTTTAGTGAAGAGGGGTCAGAA
1 TTTTAGTGAAGAGGGGTCAGAA
29172694 TTTTAGTGAAGAGGGGTCAGAA
1 TTTTAGTGAAGAGGGGTCAGAA
29172716 CTGTCGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
TTTTAGTGAAGAGGGGTCAGAA
Found at i:29172841 original size:35 final size:35
Alignment explanation
Indices: 29172795--29172865 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
29172785 AAAATTTTAT
29172795 GGTAAGAAGAACGAATCTTAATTTGGAGCTCTGTA
1 GGTAAGAAGAACGAATCTTAATTTGGAGCTCTGTA
29172830 GGTAAGAAGAACGAATCTTAATTTGGAGCTCTGTA
1 GGTAAGAAGAACGAATCTTAATTTGGAGCTCTGTA
29172865 G
1 G
29172866 CGCGAGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (35 bp):
GGTAAGAAGAACGAATCTTAATTTGGAGCTCTGTA
Found at i:29179571 original size:457 final size:457
Alignment explanation
Indices: 29178717--29179622 Score: 1713
Period size: 457 Copynumber: 2.0 Consensus size: 457
29178707 AAGAGAAGTT
*
29178717 ACATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAAGCTCTATTGGTAAAAATTCTTCTAT
1 ACATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAAGCTCTATTGGTAAAAATTCTTCCAT
* * *
29178782 CATTATTGAAAATGTCTTGCATGTCAATGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTAT
66 CATTATTAAAAATGTCCTGCATGTCAACGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTAT
* *
29178847 GTGATAAAGGTTTCAATGTCATATTTGAGTTTAAATGTTGTAAAGTTATTGACATTGCTTTTAAT
131 GTGATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGTTATTGACATTGCTTCTAAT
*
29178912 AAGATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAA
196 AAGATTATGCTTGTAGGACATAGGACAGAAAATATATATTTGGTGCATTTAGATGATATGCATAA
29178977 CTCTAGATTATCCCTTATTGCTAAAAATAAGAATAGCGCTTTATTATGGCATAGAAAACTAGGAC
261 CTCTAGATTATCCCTTATTGCTAAAAATAAGAATAGCGCTTTATTATGGCATAGAAAACTAGGAC
29179042 AAGGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATT
326 AAGGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATT
*
29179107 GACTTTGATGTGAATTCTATTTGTGATGCTTGTATTAAGGGTAAACATAAAAAAGTGTCCTGTAA
391 GACTTTGATGTGAATTCTATTTGTGACGCTTGTATTAAGGGTAAACATAAAAAAGTGTCCTGTAA
29179172 AA
456 AA
*
29179174 ACATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCCAT
1 ACATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAAGCTCTATTGGTAAAAATTCTTCCAT
29179239 CATTATTAAAAATGTCCTGCATGTCAACGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTAT
66 CATTATTAAAAATGTCCTGCATGTCAACGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTAT
29179304 GTGATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGTTATTGACATTGCTTCTAAT
131 GTGATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGTTATTGACATTGCTTCTAAT
29179369 AAGATTATGCTTGTAGGACATAGGACAGAAAATATATATTTGGTGCATTTAGATGATATGCATAA
196 AAGATTATGCTTGTAGGACATAGGACAGAAAATATATATTTGGTGCATTTAGATGATATGCATAA
* *
29179434 CTCTAGCTTATCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGAC
261 CTCTAGATTATCCCTTATTGCTAAAAATAAGAATAGCGCTTTATTATGGCATAGAAAACTAGGAC
29179499 AAGGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATT
326 AAGGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATT
29179564 GACTTTGATGTGAATTCTATTTGTGACGCTTGTATTAAGGGTAAACATAAAAAAGTGTC
391 GACTTTGATGTGAATTCTATTTGTGACGCTTGTATTAAGGGTAAACATAAAAAAGTGTC
29179623 TTTTAAACCT
Statistics
Matches: 438, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
457 438 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (457 bp):
ACATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAAGCTCTATTGGTAAAAATTCTTCCAT
CATTATTAAAAATGTCCTGCATGTCAACGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTAT
GTGATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGTTATTGACATTGCTTCTAAT
AAGATTATGCTTGTAGGACATAGGACAGAAAATATATATTTGGTGCATTTAGATGATATGCATAA
CTCTAGATTATCCCTTATTGCTAAAAATAAGAATAGCGCTTTATTATGGCATAGAAAACTAGGAC
AAGGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATT
GACTTTGATGTGAATTCTATTTGTGACGCTTGTATTAAGGGTAAACATAAAAAAGTGTCCTGTAA
AA
Found at i:29182519 original size:20 final size:20
Alignment explanation
Indices: 29182494--29182544 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
29182484 GGTAATTTGG
29182494 TATCGATACCAACT-TAAAAA
1 TATCGATACCAA-TGTAAAAA
29182514 TATCGATACTC-ATGTAAAAA
1 TATCGATAC-CAATGTAAAAA
29182534 TATCGATACCA
1 TATCGATACCA
29182545 CTGGGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (20 bp):
TATCGATACCAATGTAAAAA
Found at i:29190172 original size:28 final size:28
Alignment explanation
Indices: 29190111--29190234 Score: 169
Period size: 28 Copynumber: 4.4 Consensus size: 28
29190101 NNNNNNNNNN
*
29190111 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
29190138 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
*
29190166 CACACTTAGTGCTATATAATCAAACTCT
1 CACACTTAGTGCTATATAATCAAACTCG
* * * * *
29190194 CACACTTAGTGCTGTACAATTTAAACCCA
1 CACACTTAGTGCTATATAA-TCAAACTCG
29190223 CACACTTAGTGC
1 CACACTTAGTGC
29190235 CATGCATTTC
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.23
28 50 0.57
29 18 0.20
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:29194801 original size:50 final size:50
Alignment explanation
Indices: 29194693--29194885 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 50
29194683 ATTTGGGTAA
* * * * *
29194693 AGAGATCCCATGTAAGACCATGTCTTGGACATGGAATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGAG---ATG
* *
29194749 AGAGGTCCCATGTAAGACCATGTCTAGGG-CATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCATGGGCACCGAGATG
** *
29194799 AGAGGTCCCCGGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * *
29194849 AGAACTCCCATGTAAGACCATTTCTGGGATATGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
29194886 TGGTAGTACA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 3 0.03
50 75 0.63
53 3 0.03
55 1 0.01
56 35 0.29
57 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:29201282 original size:50 final size:50
Alignment explanation
Indices: 29201176--29201287 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
29201166 GAGAGGTCCT
* * * * **
29201176 ATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGATATGAGAGGTCGC
1 ATGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCGC
** *
29201226 CCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCTC
1 ATGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCGC
29201276 ATGTAAGACCAT
1 ATGTAAGACCAT
29201288 ATCTGGGATA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCGC
Found at i:29203370 original size:20 final size:19
Alignment explanation
Indices: 29203344--29203444 Score: 78
Period size: 20 Copynumber: 5.1 Consensus size: 19
29203334 AAAGATGCGT
* *
29203344 AACAGAGGCATCGAAGTGC
1 AACAGAGGCACCAAAGTGC
29203363 AGACAGAGGCA-CAAATGTGC
1 A-ACAGAGGCACCAAA-GTGC
*
29203383 AATTAGAGGCACCAAAGTGC
1 AA-CAGAGGCACCAAAGTGC
* * *
29203403 AAATAGAGGCACCGAAGTGTA
1 -AACAGAGGCACCAAAGTG-C
* *
29203424 AACAAAGGCACTAAAGTGC
1 AACAGAGGCACCAAAGTGC
29203443 AA
1 AA
29203445 TCCCGTACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.10
20 54 0.81
21 6 0.09
ACGTcount: A:0.43, C:0.19, G:0.27, T:0.12
Consensus pattern (19 bp):
AACAGAGGCACCAAAGTGC
Found at i:29209787 original size:20 final size:20
Alignment explanation
Indices: 29209762--29209833 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
29209752 ACGGGATTTG
29209762 CACTTCGATGCCTCTGTAAA
1 CACTTCGATGCCTCTGTAAA
* * **
29209782 CACTTCGGT-CTCTCTTTTCA
1 CACTTCGATGC-CTCTGTAAA
* * **
29209802 CACTACGGTGCCTCTGTATG
1 CACTTCGATGCCTCTGTAAA
29209822 CACTTCGATGCC
1 CACTTCGATGCC
29209834 CTTTTTATGC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (20 bp):
CACTTCGATGCCTCTGTAAA
Found at i:29217779 original size:27 final size:26
Alignment explanation
Indices: 29217749--29217808 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
29217739 TGTACTGGTG
* *
29217749 GCTTTGCCACATATTCTGTTACTGGCA
1 GCTTTGCCACA-ATACTATTACTGGCA
**
29217776 GCTTTGCTGCAATACTATTACTGGCA
1 GCTTTGCCACAATACTATTACTGGCA
29217802 GCTTTGC
1 GCTTTGC
29217809 TGCGATATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
GCTTTGCCACAATACTATTACTGGCA
Found at i:29217959 original size:28 final size:28
Alignment explanation
Indices: 29217918--29217978 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
29217908 ATTGTACTGT
* *
29217918 ACTGTTACTGTATTGGGATAAGGCCTAC
1 ACTGTTACTATATTGGGATAAGGCCCAC
*
29217946 ACTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGATAAGGCCCAC
29217974 ACTGT
1 ACTGT
29217979 ACTGTTACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (28 bp):
ACTGTTACTATATTGGGATAAGGCCCAC
Done.