Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 309 of 345
Found at i:104528588 original size:2 final size:2
Alignment explanation
Indices: 104528581--104528611 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104528571 ATGTTAAAGA
104528581 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
104528612 TTGAACTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:104534276 original size:17 final size:18
Alignment explanation
Indices: 104534254--104534287 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
104534244 CAATTTGGAC
104534254 CGTGTGGG-CCACACGGG
1 CGTGTGGGCCCACACGGG
104534271 CGTGTGGGCCCACACGG
1 CGTGTGGGCCCACACGG
104534288 CCAGGCCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.32, G:0.44, T:0.12
Consensus pattern (18 bp):
CGTGTGGGCCCACACGGG
Found at i:104549063 original size:40 final size:38
Alignment explanation
Indices: 104549004--104549185 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 38
104548994 TAACTCATTC
*
104549004 AATGCCTTC-GGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA--TTAAAACTCGCACA
* *
104549043 AATGCCTTCGGGACTTAACCCGGATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTA-AAACTCGCACA
*
104549082 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTAA-AACTCGCACA
* ** ** *
104549122 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAT-TA-AAAC-TCGCACA
*
104549163 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
104549186 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.03
39 44 0.37
40 61 0.51
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGATTAAAACTCGCACA
Found at i:104549116 original size:79 final size:80
Alignment explanation
Indices: 104549007--104549185 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
104548997 CTCATTCAAT
* * *
104549007 GCCTTC-GGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGAT-T
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATAT
*
104549069 AGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
104549084 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
104549148 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
104549165 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
104549186 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
78 13 0.15
79 41 0.47
80 24 0.27
81 9 0.10
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:104552303 original size:21 final size:21
Alignment explanation
Indices: 104552257--104552305 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
104552247 TGGTCGAGCT
* * *
104552257 CGAGCTTGAACATTCAATGTC
1 CGAGCTCGAACATTCAAGGCC
*
104552278 TGAGCTCGAACATTCAAGGCC
1 CGAGCTCGAACATTCAAGGCC
104552299 CGAGCTC
1 CGAGCTC
104552306 ATTTTTTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (21 bp):
CGAGCTCGAACATTCAAGGCC
Found at i:104552503 original size:22 final size:23
Alignment explanation
Indices: 104552462--104552505 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
104552452 TATGATGACT
104552462 ATATATAAAATTTTAATAAATAAA
1 ATATATAAAA-TTTAATAAATAAA
*
104552486 ATATATAAAA-TTATTAAATA
1 ATATATAAAATTTAATAAATA
104552506 TTAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATATAAAATTTAATAAATAAA
Found at i:104553896 original size:29 final size:31
Alignment explanation
Indices: 104553841--104553900 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
104553831 GGGGGTGGGA
*
104553841 TGGGAAGGGAGTAAAAATTTTGGGGGGAAAG
1 TGGGAAGGGAGTAAAAATATTGGGGGGAAAG
*
104553872 TGGG-AGGGAGTAAAAGTATT-GGGGGAAAG
1 TGGGAAGGGAGTAAAAATATTGGGGGGAAAG
104553901 CAAAAAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.33
30 14 0.52
31 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAATATTGGGGGGAAAG
Found at i:104557680 original size:43 final size:44
Alignment explanation
Indices: 104557591--104557705 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 44
104557581 TGTGATTACA
* *
104557591 TGTAATACCATGTCT-GGAACATTGGCAT-TGTATTATGATTATG
1 TGTAAGACCATGTCTAGG-ACATTGGCATCTGTATTACGATTATG
104557634 TGTAAGACCATGTCTAGGACATTGGCATCAT-TATT-CGATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATC-TGTATTACGATTAT-G
* *
104557677 TGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGTAAGACCATGTCTAGGACATTGGCATC
104557706 GATATGTGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 1 0.02
43 56 0.88
44 6 0.09
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTCTAGGACATTGGCATCTGTATTACGATTATG
Found at i:104557724 original size:43 final size:43
Alignment explanation
Indices: 104557634--104557727 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
104557624 TATGATTATG
* *** *
104557634 TGTAAGACCATGTCTAGGACATTGGCATCATTATTCGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCATTATTCGACGACA
*
104557677 TGTAAGACCCTGTCTAGGACAGTGGCATCGA-TATGT-GACGACA
1 TGTAAGACCATGTCTAGGACAGTGGCATC-ATTAT-TCGACGACA
104557720 TGTAAGAC
1 TGTAAGAC
104557728 TATATCTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCATTATTCGACGACA
Found at i:104560357 original size:29 final size:29
Alignment explanation
Indices: 104560324--104560380 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
104560314 TCTGATGTTG
104560324 TTACCATTTGATGAATTTGATATAATTCA
1 TTACCATTTGATGAATTTGATATAATTCA
104560353 TTACCATTTGATGAATTTGATATAATTC
1 TTACCATTTGATGAATTTGATATAATTC
104560381 TGGGTATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (29 bp):
TTACCATTTGATGAATTTGATATAATTCA
Found at i:104564727 original size:47 final size:47
Alignment explanation
Indices: 104564609--104564730 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
104564599 GCATTGGCAC
*
104564609 TAAGACAAGGATACCATGTAAGACAATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
104564656 AAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* *
104564703 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
104564731 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:104564773 original size:54 final size:54
Alignment explanation
Indices: 104564709--104564917 Score: 233
Period size: 54 Copynumber: 3.9 Consensus size: 54
104564699 TTGGTAAGAT
* *
104564709 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
* * * *
104564763 AAGGAAATCATGTAAGACCATGTCAAGACATAACATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATAAGTT-CTATAAGGC
** * * *
104564818 AAAGG-TCCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 -AAGGAT-ATCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
* * * * *
104564872 AAGGATATCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATAAGTTC
104564918 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 36 0.28
54 47 0.36
55 10 0.08
56 37 0.28
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
Found at i:104565337 original size:22 final size:22
Alignment explanation
Indices: 104565312--104565379 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
104565302 TGCTTATTAT
104565312 TTTACATGTGAACTTACTAAGC
1 TTTACATGTGAACTTACTAAGC
* * * *
104565334 TTTATAAGCTCG--CTTA-TTA-T
1 TTTACATG-T-GAACTTACTAAGC
104565354 TTTACATGTGAACTTACTAAGC
1 TTTACATGTGAACTTACTAAGC
104565376 TTTA
1 TTTA
104565380 TAAGCTTACT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 10 0.31
21 4 0.12
22 14 0.44
23 1 0.03
24 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (22 bp):
TTTACATGTGAACTTACTAAGC
Found at i:104565350 original size:42 final size:42
Alignment explanation
Indices: 104565303--104565385 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
104565293 GATTGCTAAT
104565303 GCTTATTATTTTACATGTGAACTTACTAAGCTTTATAAGCTC
1 GCTTATTATTTTACATGTGAACTTACTAAGCTTTATAAGCTC
104565345 GCTTATTATTTTACATGTGAACTTACTAAGCTTTATAAGCT
1 GCTTATTATTTTACATGTGAACTTACTAAGCTTTATAAGCT
104565386 TACTTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (42 bp):
GCTTATTATTTTACATGTGAACTTACTAAGCTTTATAAGCTC
Found at i:104568285 original size:43 final size:44
Alignment explanation
Indices: 104568237--104568385 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 44
104568227 GTTACTGAGA
104568237 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAT
* * * *
104568280 TGTGATTATATGTAAGACCATGCCTGGTACATT-ACATCAT-TAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTAT
* * * * * *
104568323 T-CGATTTCATGTAAGACCCTGTCTAGGACAGTGGCATCGGTA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAT
* *
104568365 TATGATGACATGTAAGACCAT
1 TGTGATTACATGTAAGACCAT
104568386 ATATGGGATA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 27 0.33
43 55 0.66
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAT
Found at i:104576358 original size:13 final size:13
Alignment explanation
Indices: 104576340--104576368 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
104576330 TTTAGTTTAA
104576340 TTAGTTAATTAGT
1 TTAGTTAATTAGT
104576353 TTAGTTAATTAGT
1 TTAGTTAATTAGT
104576366 TTA
1 TTA
104576369 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:104577430 original size:30 final size:30
Alignment explanation
Indices: 104577384--104577444 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
104577374 TTCTCGAGCC
104577384 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
104577414 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
104577444 T
1 T
104577445 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:104578096 original size:67 final size:65
Alignment explanation
Indices: 104577955--104578108 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 65
104577945 CATCATGTGT
* * * *
104577955 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACG-G-GA-TATGATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
104578020 TAG
63 TAG
* *
104578023 ACAAGAGAGCTACGGGATAT-ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGGGATATGATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATG
104578087 TAG
63 TAG
*
104578090 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGGGATA
104578109 AACTGGCTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 25 0.33
65 3 0.04
66 3 0.04
67 31 0.41
68 14 0.18
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGGGATATGATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAG
Found at i:104589342 original size:15 final size:15
Alignment explanation
Indices: 104589322--104589360 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
104589312 GAGCCCTCAA
*
104589322 AATTGGCCTTTTCCG
1 AATTGGACTTTTCCG
*
104589337 AATTGGACTTTTTCG
1 AATTGGACTTTTCCG
104589352 AATTGGACT
1 AATTGGACT
104589361 AAACTTGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (15 bp):
AATTGGACTTTTCCG
Found at i:104591252 original size:24 final size:24
Alignment explanation
Indices: 104591225--104591280 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
104591215 TGGTAGCTAT
104591225 GGTCGTGGTCGAGCAGGACATGGC
1 GGTCGTGGTCGAGCAGGACATGGC
*
104591249 GGTCGTGGTCGAGCAGGACATGTC
1 GGTCGTGGTCGAGCAGGACATGGC
*
104591273 AGTCGTGG
1 GGTCGTGG
104591281 AGAACCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.45, T:0.20
Consensus pattern (24 bp):
GGTCGTGGTCGAGCAGGACATGGC
Found at i:104591684 original size:20 final size:20
Alignment explanation
Indices: 104591656--104591706 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
104591646 TCGCTTCTCC
* *
104591656 CACGTCCGTGTATGCAGGCG
1 CACGCCCGTGTATGCAGGCA
*
104591676 CACGCCCGTGTATGTAGGCA
1 CACGCCCGTGTATGCAGGCA
*
104591696 CACACCCGTGT
1 CACGCCCGTGT
104591707 TAAATTGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (20 bp):
CACGCCCGTGTATGCAGGCA
Found at i:104596478 original size:7 final size:6
Alignment explanation
Indices: 104596464--104596527 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
104596454 AAGAAATTTG
* * *
104596464 AAATAA AAATCA AAAGAA AAATAA GAAT-A AAAT-- AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
104596509 GAAT-- AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA
104596528 ATAGGAGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
4 7 0.15
5 4 0.09
6 35 0.76
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:104596506 original size:21 final size:22
Alignment explanation
Indices: 104596470--104596527 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
104596460 TTTGAAATAA
* *
104596470 AAATCAAAAGAAAAATAAGAAT
1 AAATAAAAATAAAAATAAGAAT
*
104596492 AAA-ATAAATAAAAATAAGAAT
1 AAATAAAAATAAAAATAAGAAT
104596513 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
104596528 ATAGGAGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAAATAAGAAT
Found at i:104596515 original size:16 final size:16
Alignment explanation
Indices: 104596477--104596524 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
104596467 TAAAAATCAA
*
104596477 AAGAA-AAATAAGAAT
1 AAGAATAAATAAAAAT
104596492 AA-AATAAATAAAAAT
1 AAGAATAAATAAAAAT
104596507 AAGAATAAATAAAAAT
1 AAGAATAAATAAAAAT
104596523 AA
1 AA
104596525 AAAATAGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 2 0.07
15 13 0.43
16 15 0.50
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAGAATAAATAAAAAT
Found at i:104621241 original size:46 final size:46
Alignment explanation
Indices: 104621191--104621312 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
104621181 TGAGCATCCA
* *
104621191 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
* * *
104621237 AACTCGTTGAGTTGAGTCCGAGTTAATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
*
104621283 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
104621313 GGGGCGGGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
Found at i:104625083 original size:21 final size:21
Alignment explanation
Indices: 104625054--104625101 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
104625044 TATTTATTTC
104625054 ATTATCAGAAAATCCCTGAATA
1 ATTA-CAGAAAATCCCTGAATA
104625076 ATTACAGAAAATCCCTGAATA
1 ATTACAGAAAATCCCTGAATA
104625097 ATTAC
1 ATTAC
104625102 CTTGTTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (21 bp):
ATTACAGAAAATCCCTGAATA
Found at i:104629933 original size:39 final size:39
Alignment explanation
Indices: 104629889--104629973 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
104629879 CATGAATTGA
104629889 TAAGTTTTGTTATTTAATGTGGTATGCATGGATGGCTTG
1 TAAGTTTTGTTATTTAATGTGGTATGCATGGATGGCTTG
*
104629928 TAAGTTTTGTTATTTGATGTGGTATGCATGGATGGCTTG
1 TAAGTTTTGTTATTTAATGTGGTATGCATGGATGGCTTG
*
104629967 AAAGTTT
1 TAAGTTT
104629974 GGCTTGATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.46
Consensus pattern (39 bp):
TAAGTTTTGTTATTTAATGTGGTATGCATGGATGGCTTG
Found at i:104638915 original size:12 final size:13
Alignment explanation
Indices: 104638879--104638916 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
104638869 AAGTATTTGA
104638879 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
104638892 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
104638906 CTTG-TCTTAAT
1 CTTGTTCTTAAT
104638917 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:104651181 original size:38 final size:38
Alignment explanation
Indices: 104651139--104651215 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
104651129 ATCATAAATC
*
104651139 ATACAATATGAGACTAGCCACAGATATATATACATACT
1 ATACAAGATGAGACTAGCCACAGATATATATACATACT
*
104651177 ATACAAGATTAGACTAGCCACAGATATATATACATACT
1 ATACAAGATGAGACTAGCCACAGATATATATACATACT
104651215 A
1 A
104651216 ACATATACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (38 bp):
ATACAAGATGAGACTAGCCACAGATATATATACATACT
Found at i:104655642 original size:27 final size:27
Alignment explanation
Indices: 104655611--104655788 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
104655601 TGAATTGTAC
104655611 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
104655638 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104655664 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
104655692 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
104655720 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104655747 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
104655774 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
104655789 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:104655735 original size:82 final size:81
Alignment explanation
Indices: 104655612--104655767 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
104655602 GAATTGTACA
* *
104655612 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
104655676 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
104655693 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
104655758 TGCGAGTTGA
65 TGCGAATTGA
104655768 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:104655779 original size:82 final size:81
Alignment explanation
Indices: 104655608--104655788 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
104655598 AATTGAATTG
* *
104655608 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
104655673 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
104655689 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
104655753 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
104655771 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
104655789 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:104663601 original size:27 final size:27
Alignment explanation
Indices: 104663567--104663741 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
104663557 TAAATTGTAC
104663567 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
104663594 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104663620 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
104663648 GGCACTAAGTGTGCGAGTTTGAC---GT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
104663673 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104663700 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
104663727 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
104663742 GACTCAATAT
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.04
25 16 0.13
27 99 0.79
28 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:104663688 original size:79 final size:79
Alignment explanation
Indices: 104663568--104663720 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
104663558 AAATTGTACA
* *
104663568 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGAC--TGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
104663632 TGCGAATTGACCATGCG
63 TGCGAATTGACCATGCG
** *
104663649 GCACTAAGTGTGCGAGTTTGAC-GTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTG
1 GCACTAAGTGTGCGA-TTTGACTGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
*
104663713 CGAGTTGA
65 CGAATTGA
104663721 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 42 0.66
80 1 0.02
81 15 0.23
82 6 0.09
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (79 bp):
GCACTAAGTGTGCGATTTGACTGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCG
Found at i:104671757 original size:12 final size:13
Alignment explanation
Indices: 104671740--104671777 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
104671730 ATCCTAGAAT
104671740 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
104671752 ATTAAGAACACATA
1 ATTAAGAACA-AGA
104671766 ATTAAGAACAAG
1 ATTAAGAACAAG
104671778 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:104688454 original size:7 final size:7
Alignment explanation
Indices: 104688442--104688483 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
104688432 GAATTCTAGT
104688442 CCCTAAA
1 CCCTAAA
104688449 CCCTAAA
1 CCCTAAA
104688456 CCCTAAA
1 CCCTAAA
* *
104688463 CTCAAAA
1 CCCTAAA
104688470 CCCTAAA
1 CCCTAAA
104688477 CCCTAAA
1 CCCTAAA
104688484 ACTTAGGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:104698399 original size:13 final size:13
Alignment explanation
Indices: 104698360--104698399 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
104698350 TTTAAATCAA
*
104698360 ACTTTCCAAAAGC
1 ACTTTTCAAAAGC
* *
104698373 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
104698386 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
104698399 A
1 A
104698400 TTGCTAAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:104699360 original size:57 final size:58
Alignment explanation
Indices: 104699283--104699392 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
104699273 GGTGAATACA
* *
104699283 GAGAAATGTGAAACATTTGGAAATGATTAT-ACTTTTCTCCAAAATGAAAATGAAAATG
1 GAGAAATGTGAAACATTTGGAAATGAATATGA-TTTTCTCCAAAATCAAAATGAAAATG
*
104699341 GAGAAATG-GAATCATTTGGAAATGAATATGATTTTCTCCAAAATCAAAATGA
1 GAGAAATGTGAAACATTTGGAAATGAATATGATTTTCTCCAAAATCAAAATGA
104699393 CCTAGAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
57 39 0.81
58 9 0.19
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (58 bp):
GAGAAATGTGAAACATTTGGAAATGAATATGATTTTCTCCAAAATCAAAATGAAAATG
Found at i:104701085 original size:28 final size:28
Alignment explanation
Indices: 104701040--104701102 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
104701030 ATTAACCCTG
*
104701040 GGGGTATAAAGGTCATTTAGCATACATA
1 GGGGTATAAAGGTAATTTAGCATACATA
** *
104701068 GGGGTATAATTGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTAGCATACATA
104701096 GGGGTAT
1 GGGGTAT
104701103 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTAGCATACATA
Found at i:104708366 original size:28 final size:28
Alignment explanation
Indices: 104708318--104708408 Score: 123
Period size: 28 Copynumber: 3.2 Consensus size: 28
104708308 GTGACAGAGT
*
104708318 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
104708347 CACCAGAACAGATAATTTGTGGCAAG-GC
1 CACCAGAACAGATAATTTGTGGC-AGTGC
*
104708375 CACCAGAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
104708403 CACCAG
1 CACCAG
104708409 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 1 0.02
28 47 0.82
29 9 0.16
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:104708566 original size:28 final size:28
Alignment explanation
Indices: 104708515--104708578 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
104708505 AATTAACCCT
*
104708515 AGGGGTATAAAGGTCATTTAGCATACAG
1 AGGGGTATAAAGGTAATTTAGCATACAG
* *
104708543 AGGGGTATAATGGTAACTTT-GCATACAT
1 AGGGGTATAAAGGTAA-TTTAGCATACAG
104708571 AGGGGTAT
1 AGGGGTAT
104708579 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTAGCATACAG
Found at i:104708700 original size:19 final size:19
Alignment explanation
Indices: 104708676--104708730 Score: 101
Period size: 19 Copynumber: 2.8 Consensus size: 19
104708666 ACTGGGCCCG
104708676 TTGGCCCATTAACCCAGTT
1 TTGGCCCATTAACCCAGTT
104708695 TTGGCCCATTAACCCAGTT
1 TTGGCCCATTAACCCAGTT
104708714 TTGGCCCATTAAGCCCA
1 TTGGCCCATTAA-CCCA
104708731 AAATATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (19 bp):
TTGGCCCATTAACCCAGTT
Found at i:104712608 original size:24 final size:24
Alignment explanation
Indices: 104712581--104712631 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
104712571 ATTTTTTTAT
104712581 TAAGTAAAATATAAA-ATA-ATAAAA
1 TAAGTAAAATA-AAATATACA-AAAA
*
104712605 TAAGTTAAATAAAATATACAAAAA
1 TAAGTAAAATAAAATATACAAAAA
104712629 TAA
1 TAA
104712632 AAACATCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (24 bp):
TAAGTAAAATAAAATATACAAAAA
Found at i:104713662 original size:44 final size:44
Alignment explanation
Indices: 104713599--104713720 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
104713589 TGTCATTAGG
*
104713599 ATTTATATTCA-AAAGGTACTATGTACCGGTGTTGGCTACCTAGC
1 ATTTATATTCAGAAA-GTACTATGTACCGGTGTTGGCTACCTACC
* * * ** *
104713643 ATTTATATTCAGCAAGTACTATGTATCAGTGTTGGCTATGTTCC
1 ATTTATATTCAGAAAGTACTATGTACCGGTGTTGGCTACCTACC
* * *
104713687 ATTTATATTCAGTAGGTACTATGTACCGATGTTG
1 ATTTATATTCAGAAAGTACTATGTACCGGTGTTG
104713721 CAGTAGCAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (44 bp):
ATTTATATTCAGAAAGTACTATGTACCGGTGTTGGCTACCTACC
Found at i:104714300 original size:31 final size:29
Alignment explanation
Indices: 104714265--104714358 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 29
104714255 ATTAGAAAAA
104714265 TATTACTGTATATATGTTTAAAAATTTTTAT
1 TATTA-TGTATATAT-TTTAAAAATTTTTAT
* * **
104714296 TATTATTTACTGTATTATTTGAAATTTTTAT
1 TATTATGTA-TATATT-TTAAAAATTTTTAT
104714327 TATTA-G-ATATA-TTTATAAAATTTTTAT
1 TATTATGTATATATTTTA-AAAATTTTTAT
104714354 TATTA
1 TATTA
104714359 GTAATTAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
26 2 0.04
27 16 0.31
28 3 0.06
29 1 0.02
30 4 0.08
31 26 0.50
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
TATTATGTATATATTTTAAAAATTTTTAT
Found at i:104715257 original size:14 final size:14
Alignment explanation
Indices: 104715231--104715274 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
104715221 CTTCTTTTTT
104715231 TATTTTCTCTTCTTC
1 TATTTT-TCTTCTTC
104715246 TATTTTTCTTCTTC
1 TATTTTTCTTCTTC
*
104715260 TTGTTTTTCTT-TTC
1 -TATTTTTCTTCTTC
104715274 T
1 T
104715275 CCCCTATAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 1 0.04
14 11 0.41
15 15 0.56
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTTCTTCTTC
Found at i:104715260 original size:17 final size:17
Alignment explanation
Indices: 104715214--104715261 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
104715204 TGCAAATTTA
* *
104715214 TATTTTTCTTCTTTTTT
1 TATTTTTCTTCTTCTTC
104715231 TA-TTTTC-TCTTCTTC
1 TATTTTTCTTCTTCTTC
104715246 TATTTTTCTTCTTCTT
1 TATTTTTCTTCTTCTT
104715262 GTTTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 10 0.37
17 9 0.33
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTCTTCTTCTTC
Found at i:104721128 original size:5 final size:6
Alignment explanation
Indices: 104721101--104721171 Score: 72
Period size: 6 Copynumber: 11.5 Consensus size: 6
104721091 AAAAGTCTAG
* * **
104721101 AAAAAT AAAAAT AAACAG AAAAAT AAAAAT AATAACC AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT
104721150 AAGAAA- AAAATAT AAAAAT AAA
1 AA-AAAT AAAA-AT AAAAAT AAA
104721172 TGGACTCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
5 2 0.04
6 40 0.75
7 11 0.21
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:104721167 original size:19 final size:17
Alignment explanation
Indices: 104721101--104721171 Score: 79
Period size: 19 Copynumber: 3.9 Consensus size: 17
104721091 AAAAGTCTAG
*
104721101 AAAAATAAAAATAAACAG
1 AAAAATAAAAATAAA-AA
*
104721119 AAAAATAAAAATAATAACC
1 AAAAATAAAAATAA-AA-A
104721138 AAAAATAAAAATAAGAAA
1 AAAAATAAAAATAA-AAA
104721156 AAAATATAAAAATAAA
1 AAAA-ATAAAAATAAA
104721172 TGGACTCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 20 0.43
19 27 0.57
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAATAAAAATAAAAA
Found at i:104724305 original size:39 final size:39
Alignment explanation
Indices: 104724206--104724380 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 39
104724196 TTCGGGCTTA
* * *
104724206 AAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGCTT
1 AAGATCCGCAGGCT-TCGTGCTGGAATTATATCCGGACTT
* *
104724245 AAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTT
1 -AAGATCCGCAGGCTTCGTGCTGGAATTATATCCGGACTT
* * *
104724285 AAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTT
1 AAGATCCGCAGGCTTCGTGCTGGAATTATATCCGGACTT
* * * *
104724324 AAGATCCGTAGGCTTCGTGCTGGTACTATATCTGGACTT
1 AAGATCCGCAGGCTTCGTGCTGGAATTATATCCGGACTT
* *
104724363 AAGGTCCACAGGCTTCGT
1 AAGATCCGCAGGCTTCGT
104724381 ACTAGTACTA
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 84 0.71
40 34 0.29
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
AAGATCCGCAGGCTTCGTGCTGGAATTATATCCGGACTT
Found at i:104724375 original size:78 final size:79
Alignment explanation
Indices: 104724223--104724380 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 79
104724213 GCAGGCTATA
** * *
104724223 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAG
1 TGCTGGAATTATATCCGAACTTAAAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAG
*
104724288 GTCCGCAGGCTTCG
66 GTCCACAGGCTTCG
* * * * *
104724302 TGCTGGAATTGTATCCGAACTT-AAGATCCGTAGGCTTCGTGCTGGTACTATATCTGGACTTAAG
1 TGCTGGAATTATATCCGAACTTAAAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAG
104724366 GTCCACAGGCTTCG
66 GTCCACAGGCTTCG
104724380 T
1 T
104724381 ACTAGTACTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
78 50 0.72
79 19 0.28
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (79 bp):
TGCTGGAATTATATCCGAACTTAAAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAG
GTCCACAGGCTTCG
Found at i:104724389 original size:39 final size:39
Alignment explanation
Indices: 104724254--104724426 Score: 157
Period size: 39 Copynumber: 4.4 Consensus size: 39
104724244 TAAAGACCCG
* * * *
104724254 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGTCCA
* * * * * *
104724293 CAGGCTTCGTGCTGGAATTGTATCCGAACTTAAGATCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGTCCA
* *
104724332 TAGGCTTCGTGCTGGTACTATATCTGGACTTAAGGTCCA
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGTCCA
* * * * *
104724371 CAGGCTTCGTACTAGTACTATATCTGGGCTTAAAGTCCCA
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGT-CCA
* * *
104724411 TAGGCTTTGTGTTGGT
1 CAGGCTTCGTGCTGGT
104724427 GATTGAATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 99 0.88
40 14 0.12
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (39 bp):
CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGTCCA
Found at i:104724403 original size:78 final size:78
Alignment explanation
Indices: 104724232--104724403 Score: 200
Period size: 78 Copynumber: 2.2 Consensus size: 78
104724222 ATGCTGGAAT
* * *
104724232 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGG
1 TATATCCGGGCTT-AAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAGGTCCACAGG
* * *
104724297 CTTCGTGCTGGAAT
65 CTTCGTACTAGAAC
* ** * * * *
104724311 TGTATCCGAACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATCTGGACTTAAGGTCCACAGGC
1 TATATCCGGGCTTAAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAGGTCCACAGGC
*
104724376 TTCGTACTAGTAC
66 TTCGTACTAGAAC
*
104724389 TATATCTGGGCTTAA
1 TATATCCGGGCTTAA
104724404 AGTCCCATAG
Statistics
Matches: 75, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
78 65 0.87
79 10 0.13
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (78 bp):
TATATCCGGGCTTAAGACCCGCAGGCTTCGTGCTGGAACTATATCCGGACTTAAGGTCCACAGGC
TTCGTACTAGAAC
Found at i:104726232 original size:24 final size:21
Alignment explanation
Indices: 104726188--104726245 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
104726178 ATTAAAGGAT
*
104726188 TAATAATAAATATTAATGAAA
1 TAATAATAAATAATAATGAAA
104726209 TAATAATGATAATAATAATCGAAA
1 TAATAAT-A-AATAATAAT-GAAA
*
104726233 CAAATAA-AAATAA
1 -TAATAATAAATAA
104726246 GGGAAAGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 9 0.29
24 4 0.13
25 5 0.16
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
TAATAATAAATAATAATGAAA
Found at i:104728668 original size:21 final size:21
Alignment explanation
Indices: 104728635--104728674 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104728625 CCGATTTTTG
* *
104728635 CTTATCTTGACTTACCTCAAC
1 CTTACCTTAACTTACCTCAAC
104728656 CTTACCTTAACTTACCTCA
1 CTTACCTTAACTTACCTCA
104728675 CTTTCTTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.35, G:0.03, T:0.38
Consensus pattern (21 bp):
CTTACCTTAACTTACCTCAAC
Found at i:104740518 original size:12 final size:12
Alignment explanation
Indices: 104740495--104740526 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
104740485 TATTTTCATC
104740495 TATTTGTTTATTT
1 TATTT-TTTATTT
104740508 TATTTTTTATTT
1 TATTTTTTATTT
104740520 TATTTTT
1 TATTTTT
104740527 AAATAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:104744607 original size:19 final size:20
Alignment explanation
Indices: 104744583--104744620 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
104744573 GGTACCACCA
104744583 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
104744602 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
104744621 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:104744960 original size:93 final size:93
Alignment explanation
Indices: 104744850--104745020 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
104744840 GCCCCTAAGT
* * * *
104744850 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
104744915 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
104744943 GAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
104745008 CGAGTTCGGATGC
66 CGAGTTCGGATGC
104745021 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:104745017 original size:46 final size:46
Alignment explanation
Indices: 104744845--104745017 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
104744835 AACCCGCCCC
* * * * *
104744845 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
104744891 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
104744939 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
104744984 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104745018 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:104748257 original size:62 final size:62
Alignment explanation
Indices: 104748118--104748258 Score: 178
Period size: 62 Copynumber: 2.3 Consensus size: 62
104748108 CACATGCCTA
* * * * *
104748118 TGTCCCTGGCCGTGTGGTTTTATATCATTAACAGTGATTTACACAACCTGGGCACACGCCCG
1 TGTCCCTGGCTGTGTGATTTTATATCATGAACAGTGAGTTACACAACCTGGCCACACGCCCG
* * *
104748180 TGTTCCTAG-TCGTGTGATTTTATA-CAATGAACAGTGAGTTACACAGCCTGGCCACACGCCCG
1 TGTCCCTGGCT-GTGTGATTTTATATC-ATGAACAGTGAGTTACACAACCTGGCCACACGCCCG
104748242 TGTCCCTGGCTGTGTGA
1 TGTCCCTGGCTGTGTGA
104748259 ACCTTGCACT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
61 1 0.02
62 64 0.97
63 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (62 bp):
TGTCCCTGGCTGTGTGATTTTATATCATGAACAGTGAGTTACACAACCTGGCCACACGCCCG
Found at i:104748895 original size:27 final size:28
Alignment explanation
Indices: 104748844--104748896 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
104748834 AAAATGAAAA
*
104748844 AAAAAAATTAGAAGAAGAAGCAAAAATT
1 AAAAAAATTAGAAGAAGAAGAAAAAATT
104748872 AAAAAAATT-GAAGTAA-AAGAAAAAA
1 AAAAAAATTAGAAG-AAGAAGAAAAAA
104748897 AATGATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (28 bp):
AAAAAAATTAGAAGAAGAAGAAAAAATT
Found at i:104755197 original size:62 final size:62
Alignment explanation
Indices: 104755107--104755251 Score: 184
Period size: 62 Copynumber: 2.3 Consensus size: 62
104755097 AGCACAAACA
* * * * * * *
104755107 GAGTCACACAGCCTGGACACACATTCGTGTCCCTGGCTGTGTGGTTTTATATC-ATGAACAGT
1 GAGTTACACGGCCTGGGCACACACTCGTGTCCCTGGCCGTGTGATTTTATA-CAATGAACAAT
* *
104755169 GAGTTACACGGCCTGGGCACACGCTCGTGTTCCTGGCCGTGTGATTTTATACAATGAACAAT
1 GAGTTACACGGCCTGGGCACACACTCGTGTCCCTGGCCGTGTGATTTTATACAATGAACAAT
*
104755231 AAGTTACACGGCCTGGGCACA
1 GAGTTACACGGCCTGGGCACA
104755252 TATGGCTCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 1 0.01
62 71 0.99
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (62 bp):
GAGTTACACGGCCTGGGCACACACTCGTGTCCCTGGCCGTGTGATTTTATACAATGAACAAT
Found at i:104759492 original size:6 final size:6
Alignment explanation
Indices: 104759481--104759534 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
104759471 AAGGAAGAAG
* * *
104759481 AATAAA AATAAA AATAAA TAATAAA AGTAAA AGTAAA AGTAAA AATAAA
1 AATAAA AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA
104759530 TAATA
1 -AATA
104759535 TTAATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
6 34 0.77
7 10 0.23
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:104760942 original size:20 final size:20
Alignment explanation
Indices: 104760919--104760957 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104760909 ATTCAAACAA
* *
104760919 TATTACTTGAATAGTTATAG
1 TATTACATGAATAATTATAG
*
104760939 TATTAGATGAATAATTATA
1 TATTACATGAATAATTATA
104760958 TGTCTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (20 bp):
TATTACATGAATAATTATAG
Found at i:104765739 original size:13 final size:13
Alignment explanation
Indices: 104765723--104765747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104765713 TATAAGTCCA
104765723 AAAAATAAAAATG
1 AAAAATAAAAATG
104765736 AAAAATAAAAAT
1 AAAAATAAAAAT
104765748 AGGGATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:104765762 original size:6 final size:6
Alignment explanation
Indices: 104765755--104765787 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
104765745 AATAGGGATT
*
104765755 GGGGTT GGGGTA GGGGTA GGGGTA GGGGTA GGG
1 GGGGTA GGGGTA GGGGTA GGGGTA GGGGTA GGG
104765788 AGGAACAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.70, T:0.18
Consensus pattern (6 bp):
GGGGTA
Found at i:104766679 original size:19 final size:19
Alignment explanation
Indices: 104766641--104766680 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
104766631 TCTTGTTTTC
*
104766641 TTTTCTTTTTATTTGGTTT
1 TTTTCTTTTTATTTGATTT
* *
104766660 TTTTCTTTTTCTTTTATTT
1 TTTTCTTTTTATTTGATTT
104766679 TT
1 TT
104766681 CTTTCTTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTTATTTGATTT
Found at i:104772538 original size:13 final size:13
Alignment explanation
Indices: 104772522--104772546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104772512 TGAATTCATA
104772522 TGTGAAATTGTGT
1 TGTGAAATTGTGT
104772535 TGTGAAATTGTG
1 TGTGAAATTGTG
104772547 GAGTAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (13 bp):
TGTGAAATTGTGT
Found at i:104781170 original size:20 final size:20
Alignment explanation
Indices: 104781145--104781186 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
104781135 ATTAGAATGT
104781145 AAATATT-AAATTAAAAACAA
1 AAATATTAAAATT-AAAACAA
104781165 AAATATTAAAATTAAAACAA
1 AAATATTAAAATTAAAACAA
104781185 AA
1 AA
104781187 TTGGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATATTAAAATTAAAACAA
Found at i:104782624 original size:15 final size:16
Alignment explanation
Indices: 104782599--104782632 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
104782589 AAGATGAAGC
*
104782599 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
104782615 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
104782630 GTT
1 GTT
104782633 GAAATTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:104788724 original size:44 final size:44
Alignment explanation
Indices: 104788661--104788746 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
104788651 TAGGACTGAG
104788661 ATTTTATTTGGAAATTACACCAACAAGTTCTAAAAATTCTTTTT
1 ATTTTATTTGGAAATTACACCAACAAGTTCTAAAAATTCTTTTT
*
104788705 ATTTTATTTGGAAATTACACCAATAAGTTCTAAAAATTCTTT
1 ATTTTATTTGGAAATTACACCAACAAGTTCTAAAAATTCTTT
104788747 CTATCCTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (44 bp):
ATTTTATTTGGAAATTACACCAACAAGTTCTAAAAATTCTTTTT
Found at i:104789918 original size:12 final size:12
Alignment explanation
Indices: 104789901--104789926 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
104789891 TTATAGAACA
104789901 CATTTACGGCCT
1 CATTTACGGCCT
104789913 CATTTACGGCCT
1 CATTTACGGCCT
104789925 CA
1 CA
104789927 AAAACGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (12 bp):
CATTTACGGCCT
Found at i:104791100 original size:14 final size:14
Alignment explanation
Indices: 104791081--104791110 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104791071 TTATATCGAG
104791081 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
104791095 ACCAATCCAATTCA
1 ACCAATCCAAATCA
104791109 AC
1 AC
104791111 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:104803219 original size:16 final size:16
Alignment explanation
Indices: 104803200--104803239 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
104803190 GATAAAATAC
*
104803200 AAAAATTAAAAAATTA
1 AAAAAATAAAAAATTA
*
104803216 AAAAAATAAATAATTA
1 AAAAAATAAAAAATTA
104803232 AAATAAAT
1 AAA-AAAT
104803240 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAATAAAAAATTA
Found at i:104803237 original size:9 final size:8
Alignment explanation
Indices: 104803200--104803234 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
104803190 GATAAAATAC
104803200 AAAAATTA
1 AAAAATTA
104803208 AAAAATTA
1 AAAAATTA
*
104803216 AAAAAATA
1 AAAAATTA
*
104803224 AATAATTA
1 AAAAATTA
104803232 AAA
1 AAA
104803235 TAAATTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTA
Found at i:104803824 original size:29 final size:29
Alignment explanation
Indices: 104803773--104803829 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
104803763 ATTGGTTATG
104803773 TATATTTTTAATTTTAAGATAAT-TTTTA
1 TATATTTTTAATTTTAAGATAATATTTTA
104803801 TATATTTTTTAATTTTAA-ATTAATATTTT
1 TATA-TTTTTAATTTTAAGA-TAATATTTT
104803830 TATTTTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TATATTTTTAATTTTAAGATAATATTTTA
Found at i:104804498 original size:23 final size:23
Alignment explanation
Indices: 104804472--104804518 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
104804462 TCACGTTGCA
*
104804472 ACTTCAGACATCTCGACGTCATG
1 ACTTCAGACATCTCGACATCATG
*
104804495 ACTTTAGACATCTCGACATCATG
1 ACTTCAGACATCTCGACATCATG
104804518 A
1 A
104804519 TGTCACTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (23 bp):
ACTTCAGACATCTCGACATCATG
Found at i:104811888 original size:17 final size:17
Alignment explanation
Indices: 104811868--104811907 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
104811858 GAATATGACC
104811868 TATTTCTCTAACTTCAT
1 TATTTCTCTAACTTCAT
104811885 TATTTCTCTAACTTCAT
1 TATTTCTCTAACTTCAT
104811902 TATTTC
1 TATTTC
104811908 CATTTGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTCTCTAACTTCAT
Found at i:104813796 original size:27 final size:27
Alignment explanation
Indices: 104813766--104813817 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
104813756 TAATAAAATA
104813766 TGTATTTCTCTTTGTCTTACTGTATTT
1 TGTATTTCTCTTTGTCTTACTGTATTT
104813793 TGTATTTCTCTTTGTCTTACTGTAT
1 TGTATTTCTCTTTGTCTTACTGTAT
104813818 ATTCTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (27 bp):
TGTATTTCTCTTTGTCTTACTGTATTT
Found at i:104814552 original size:4 final size:4
Alignment explanation
Indices: 104814543--104814580 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
104814533 GAATGAGAAG
104814543 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
104814581 TGGAGGGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:104815999 original size:22 final size:22
Alignment explanation
Indices: 104815957--104815999 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104815947 AAAATTCAAT
*
104815957 AAATAAATAATATTAATTATTA
1 AAATAAATAATATTAAATATTA
104815979 AAATAATATAATA-TAAATATT
1 AAATAA-ATAATATTAAATATT
104816000 TTTTAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAATAATATTAAATATTA
Found at i:104818950 original size:12 final size:12
Alignment explanation
Indices: 104818929--104818963 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
104818919 AAAAAGCGCA
104818929 CACACACACACC
1 CACACACACACC
*
104818941 CACACCCACACC
1 CACACACACACC
104818953 CACACACACAC
1 CACACACACAC
104818964 ATATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (12 bp):
CACACACACACC
Found at i:104819695 original size:68 final size:68
Alignment explanation
Indices: 104819623--104819750 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
104819613 AAGCATATAT
* *
104819623 TTAGCCAATTTGTTTTAGGGTTCATAAGAAATT-ATGGATATTTTTAGTTTGTTTGATTTTTGTG
1 TTAGCCAATTTGTTTTAGAGTTCATAAGAAATTGA-AGATATTTTTAGTTTGTTTGATTTTTGTG
104819687 CCAA
65 CCAA
* *
104819691 TTAGCCAATTTGTTTTCGAGTTCATAAGAAATTGAAGATTTTTTTAGTTTGTTTGATTTT
1 TTAGCCAATTTGTTTTAGAGTTCATAAGAAATTGAAGATATTTTTAGTTTGTTTGATTTT
104819751 GTGTCGGCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 54 0.98
69 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (68 bp):
TTAGCCAATTTGTTTTAGAGTTCATAAGAAATTGAAGATATTTTTAGTTTGTTTGATTTTTGTGC
CAA
Found at i:104820100 original size:26 final size:26
Alignment explanation
Indices: 104820070--104820122 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
104820060 TGGGTGATGA
104820070 CAGCCAAACAAAAGAGGTCAATCATG
1 CAGCCAAACAAAAGAGGTCAATCATG
104820096 CAGCCAAACAAAAGAGGTCAATCATG
1 CAGCCAAACAAAAGAGGTCAATCATG
104820122 C
1 C
104820123 TGTTGTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (26 bp):
CAGCCAAACAAAAGAGGTCAATCATG
Found at i:104824772 original size:22 final size:22
Alignment explanation
Indices: 104824747--104824790 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
104824737 AAACCCTAAG
104824747 GTTATCCTATAAAGTCCTACTA
1 GTTATCCTATAAAGTCCTACTA
*
104824769 GTTATCCTGTAAAGTCCTACTA
1 GTTATCCTATAAAGTCCTACTA
104824791 CTAGGTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (22 bp):
GTTATCCTATAAAGTCCTACTA
Found at i:104825479 original size:15 final size:15
Alignment explanation
Indices: 104825461--104825564 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
104825451 AAAAATCTCC
104825461 AAATCAAAATACCCT
1 AAATCAAAATACCCT
* * *
104825476 AAATGAAAATCCCCA
1 AAATCAAAATACCCT
104825491 AAATC-AAA-ACTCCT
1 AAATCAAAATAC-CCT
**
104825505 AACCCAAAAT-CCCT
1 AAATCAAAATACCCT
* *
104825519 AAATCCGACA-A-CCT
1 AAAT-CAAAATACCCT
*
104825533 AAATCAAAAT-CCCC
1 AAATCAAAATACCCT
104825547 AAACTCAAAA-ACCCT
1 AAA-TCAAAATACCCT
104825562 AAA
1 AAA
104825565 CATAAAACGA
Statistics
Matches: 64, Mismatches: 16, Indels: 18
0.65 0.16 0.18
Matches are distributed among these distances:
13 4 0.06
14 25 0.39
15 35 0.55
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (15 bp):
AAATCAAAATACCCT
Found at i:104837827 original size:11 final size:11
Alignment explanation
Indices: 104837811--104837835 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104837801 TTACTTACTC
104837811 AAGATTGAGGT
1 AAGATTGAGGT
104837822 AAGATTGAGGT
1 AAGATTGAGGT
104837833 AAG
1 AAG
104837836 TCCCACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (11 bp):
AAGATTGAGGT
Found at i:104838380 original size:10 final size:10
Alignment explanation
Indices: 104838351--104838524 Score: 66
Period size: 10 Copynumber: 18.1 Consensus size: 10
104838341 AAATTACTCT
104838351 TTTTTTATAA
1 TTTTTTATAA
*
104838361 -TTTCT-T-A
1 TTTTTTATAA
104838368 TTTTTTATAA
1 TTTTTTATAA
* * *
104838378 TTTATTAGAGG
1 TTTTTTATA-A
104838389 TTTTTTAT--
1 TTTTTTATAA
104838397 TTTTTTAT-A
1 TTTTTTATAA
104838406 TATTTTTATAA
1 T-TTTTTATAA
*
104838417 -GTTTTATGAA
1 TTTTTTAT-AA
*
104838427 -GTTTTAT-A
1 TTTTTTATAA
104838435 TTTTTTATAA
1 TTTTTTATAA
**
104838445 AATTTTA-AA
1 TTTTTTATAA
*
104838454 TTATTTA-ATA
1 TTTTTTATA-A
*
104838464 TGTTTTATTAA
1 TTTTTTA-TAA
* *
104838475 TTTTATAT-T
1 TTTTTTATAA
104838484 TTTTTTATAA
1 TTTTTTATAA
* * *
104838494 TTTATTAGAC
1 TTTTTTATAA
* *
104838504 TTTATTAGAA
1 TTTTTTATAA
104838514 TTTTTTATAA
1 TTTTTTATAA
104838524 T
1 T
104838525 ATAAAAAATC
Statistics
Matches: 123, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
7 1 0.01
8 14 0.11
9 32 0.26
10 62 0.50
11 13 0.11
12 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:104838420 original size:29 final size:27
Alignment explanation
Indices: 104838352--104838444 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 27
104838342 AATTACTCTT
*
104838352 TTTTTATAA-TTTCTTATTTTTTATAA
1 TTTTTATAAGTTTTTTATTTTTTATAA
* *
104838378 TTTATTAGAGGTTTTTTATTTTTTTATATA
1 TTT-TTATAAGTTTTTTA-TTTTTTATA-A
* ** *
104838408 TTTTTATAAGTTTTATGAAGTTTTATAT
1 TTTTTATAAGTTTT-TTATTTTTTATAA
104838436 TTTTTATAA
1 TTTTTATAA
104838445 AATTTTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.06
27 4 0.08
28 15 0.28
29 25 0.47
30 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (27 bp):
TTTTTATAAGTTTTTTATTTTTTATAA
Found at i:104838421 original size:19 final size:19
Alignment explanation
Indices: 104838352--104838496 Score: 81
Period size: 19 Copynumber: 7.6 Consensus size: 19
104838342 AATTACTCTT
*
104838352 TTTTTATAATTTCT-TAT-
1 TTTTTATAATTTTTATATA
*
104838369 TTTTTATAATTTATTAGAGGT-
1 TTTTTATAATTT-TTATA--TA
*
104838390 TTTTTAT-TTTTTTATATA
1 TTTTTATAATTTTTATATA
*
104838408 TTTTTATAAGTTTTATGA-A
1 TTTTTATAATTTTTAT-ATA
* * *
104838427 GTTTTATATTTTTTATAAA
1 TTTTTATAATTTTTATATA
*
104838446 ATTTTA-AATTATTTA-ATA
1 TTTTTATAATT-TTTATATA
*
104838464 TGTTTTATTAA-TTTTATATTT
1 T-TTTTA-TAATTTTTATA-TA
104838485 TTTTTATAATTT
1 TTTTTATAATTT
104838497 ATTAGACTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
17 13 0.13
18 14 0.14
19 47 0.47
20 13 0.13
21 12 0.12
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTTTTATATA
Found at i:104838582 original size:9 final size:9
Alignment explanation
Indices: 104838568--104838607 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
104838558 TTATGAAATA
104838568 TTTATAACT
1 TTTATAACT
104838577 TTTATAACT
1 TTTATAACT
*
104838586 TTTATAAGT
1 TTTATAACT
*
104838595 TTATATAAAT
1 TT-TATAACT
104838605 TTT
1 TTT
104838608 TAATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTATAACT
Found at i:104838607 original size:19 final size:18
Alignment explanation
Indices: 104838556--104838607 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
104838546 ATAAATAATA
104838556 TTTTATGAAATATTTATAAC
1 TTTTAT-AAAT-TTTATAAC
* *
104838576 TTTTATAACTTTTATAAG
1 TTTTATAAATTTTATAAC
104838594 TTTATATAAATTTT
1 TTT-TATAAATTTT
104838608 TAATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (18 bp):
TTTTATAAATTTTATAAC
Found at i:104838616 original size:28 final size:30
Alignment explanation
Indices: 104838550--104838616 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 30
104838540 AAACTTATAA
*
104838550 ATAATATTTTATGAAATATTTATAACTTTT
1 ATAATATTTTATGAAATATTTATAAATTTT
* *
104838580 ATAA-CTTTTAT-AAGT-TTATATAAATTTT
1 ATAATATTTTATGAAATATT-TATAAATTTT
104838608 -TAATATTTT
1 ATAATATTTT
104838617 TAAATTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 5 0.16
28 16 0.52
29 6 0.19
30 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
ATAATATTTTATGAAATATTTATAAATTTT
Found at i:104838633 original size:19 final size:17
Alignment explanation
Indices: 104838600--104838638 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
104838590 TAAGTTTATA
104838600 TAAATTTTTAATATTTT
1 TAAATTTTTAATATTTT
104838617 TAAATTCTTTAAATATTTT
1 TAAATT-TTT-AATATTTT
104838636 TAA
1 TAA
104838639 GAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 3 0.15
19 11 0.55
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATTTTTAATATTTT
Found at i:104838655 original size:12 final size:11
Alignment explanation
Indices: 104838604--104838675 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 11
104838594 TTTATATAAA
104838604 TTTTTAATA--
1 TTTTTAATATT
104838613 TTTTTAA-ATT
1 TTTTTAATATT
* *
104838623 CTTTAAATATT
1 TTTTTAATATT
**
104838634 TTTAAGAATATT
1 TTT-TTAATATT
*
104838646 TTTTCTAATAAT
1 TTTT-TAATATT
104838658 TTTTTATATATT
1 TTTTTA-ATATT
104838670 TTTTTA
1 TTTTTA
104838676 TTTCATGATT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
8 1 0.02
9 7 0.15
10 5 0.10
11 7 0.15
12 28 0.58
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:104843831 original size:24 final size:24
Alignment explanation
Indices: 104843804--104843851 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
104843794 ATCAAGTGTG
104843804 TATCCATTTATTCCAAAATGACAC
1 TATCCATTTATTCCAAAATGACAC
**
104843828 TATCTGTTTATTCCAAAATGACAC
1 TATCCATTTATTCCAAAATGACAC
104843852 ACTTATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (24 bp):
TATCCATTTATTCCAAAATGACAC
Found at i:104847119 original size:7 final size:7
Alignment explanation
Indices: 104847101--104847133 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
104847091 TTTTTTAAAA
104847101 TTTTCTTC
1 TTTTC-TC
104847109 TTTTCTC
1 TTTTCTC
104847116 TTTTCTC
1 TTTTCTC
104847123 TTTTCTC
1 TTTTCTC
104847130 TTTT
1 TTTT
104847134 TCCCTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTC
Found at i:104847934 original size:3 final size:3
Alignment explanation
Indices: 104847926--104847975 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
104847916 AGATATTTAC
104847926 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
104847974 TT
1 TT
104847976 TACAAATGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:104848112 original size:26 final size:25
Alignment explanation
Indices: 104848083--104848131 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
104848073 AAATAGTTAC
* *
104848083 AGAAGAAACGAAATAGAAAGAAAGAA
1 AGAAGAAAAGAAA-AGAAAAAAAGAA
104848109 AGAAGAAAAGAAAAGAAAAAAAG
1 AGAAGAAAAGAAAAGAAAAAAAG
104848132 GAGAAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (25 bp):
AGAAGAAAAGAAAAGAAAAAAAGAA
Found at i:104849595 original size:42 final size:42
Alignment explanation
Indices: 104849544--104849635 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
104849534 TGGGCGTGTG
* *
104849544 CCCA-GGCCGTGTG-GCAAAGTCAGA-CTTGCCCACAGGTTAGT
1 CCCACGGCCGTGTGAG-AAAGTCAGATC-TGCCCACAGGCTAGC
* *
104849585 CCCACGGCCGTGTGAGTAAGTCAGATCTGCCCACGGGCTAGC
1 CCCACGGCCGTGTGAGAAAGTCAGATCTGCCCACAGGCTAGC
104849627 CCCACGGCC
1 CCCACGGCC
104849636 ATGGGAGCCC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (42 bp):
CCCACGGCCGTGTGAGAAAGTCAGATCTGCCCACAGGCTAGC
Found at i:104872716 original size:12 final size:12
Alignment explanation
Indices: 104872695--104872731 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
104872685 ACAAAACTAG
104872695 ATATATAAATAA
1 ATATATAAATAA
*
104872707 ATATAGAAATAA
1 ATATATAAATAA
*
104872719 ATAAATAAATAA
1 ATATATAAATAA
104872731 A
1 A
104872732 ATAAGATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
ATATATAAATAA
Found at i:104874899 original size:232 final size:232
Alignment explanation
Indices: 104874437--104874925 Score: 617
Period size: 232 Copynumber: 2.1 Consensus size: 232
104874427 AGCTTTAATA
* * * *
104874437 TGCTCCACTGCAACTTCAGGAAAATGAGATTCACTATCTTCAGTCTGCTCCGCTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATGAGATTCACTATCCTCAGTCTGCTCCGCTGCAACTTCAAG
*
104874502 GAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATTTGCCATAATT
66 GAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATCTGCCATAATT
* *
104874567 TGTAACTTTAATCTATTCCACTGCAACGTCATAGAAATAAGATTCGCTATCTTCGATTTGCTCCA
131 TGTAACTTTAATATATTCCACTGCAACGTCATAGAAATAAGATTCGCTATCTTAGATTTGCTCCA
* * *
104874632 CTGTAACTTTAAGGAGATAAGATCTACAACTTCAATC
196 CTGCAACTTCAAGGAAATAAGATCTACAACTTCAATC
* * ** *
104874669 TTCTCCACTGCTACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCTGCTGCAACTTCAAG
1 TGCTCCACTGCAACTTCAGGGAGATGAGATTCACTATCCTCAGTCTGCTCCGCTGCAACTTCAAG
* * * * * * *
104874734 GAGATCAGGCTGGTGGCTTTAATCTGCTTCACTGTAACTTCAGGAAGATAGGGTCTGCCATAATT
66 GAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATCTGCCATAATT
* * * *
104874799 TGTAGCTTTAATATGTTCCACTGCAACGTCA-AGGAAATAAGATTCGCTGTTTTTAG-TTTGCTC
131 TGTAACTTTAATATATTCCACTGCAACGTCATA-GAAATAAGATTCGCT-ATCTTAGATTTGCTC
* * ****
104874862 CGCTGCGACTTC-AGAGAAATAAGA-CTGGTTGCTTCAATC
194 CACTGCAACTTCAAG-GAAATAAGATCT-ACAACTTCAATC
*
104874901 TGCTCCATTGCAACTTCAGGGAGAT
1 TGCTCCACTGCAACTTCAGGGAGAT
104874926 AAGTTTTGTC
Statistics
Matches: 218, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
231 5 0.02
232 209 0.96
233 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (232 bp):
TGCTCCACTGCAACTTCAGGGAGATGAGATTCACTATCCTCAGTCTGCTCCGCTGCAACTTCAAG
GAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATCTGCCATAATT
TGTAACTTTAATATATTCCACTGCAACGTCATAGAAATAAGATTCGCTATCTTAGATTTGCTCCA
CTGCAACTTCAAGGAAATAAGATCTACAACTTCAATC
Found at i:104881716 original size:8 final size:8
Alignment explanation
Indices: 104881703--104881746 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
104881693 ACTTAAGTAT
104881703 ATAATATA
1 ATAATATA
104881711 ATAATATA
1 ATAATATA
* *
104881719 TTAATTTA
1 ATAATATA
*
104881727 ATAATTTA
1 ATAATATA
*
104881735 ATAATCTA
1 ATAATATA
104881743 ATAA
1 ATAA
104881747 AAGAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:104888995 original size:44 final size:43
Alignment explanation
Indices: 104888893--104889230 Score: 169
Period size: 44 Copynumber: 7.8 Consensus size: 43
104888883 CCTTTATTTT
* * ** *
104888893 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTC
* *
104888936 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTC
* * * *
104888980 AATTTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTCC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT---CTGGCTTC
** * * * * *
104889026 GGTCTACTCCACTATAACCTCAGGGAAATAAG--CCCT-GATGT-
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCT-TC
* * * *
104889067 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTC
* * * * ** *
104889106 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT-CTGGCTTC
* * *
104889150 GATCTGCCCCGCTGTAATCTCAGGGAGATAAGATCCTCTGGCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGAT-CTCTGGCTTC
*
104889195 AATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT
104889231 GAAATTCTTT
Statistics
Matches: 225, Mismatches: 52, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
39 25 0.11
40 5 0.02
41 26 0.12
42 2 0.01
43 31 0.14
44 69 0.31
45 36 0.16
46 30 0.13
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATCTCTGGCTTC
Found at i:104889226 original size:215 final size:214
Alignment explanation
Indices: 104888827--104889277 Score: 636
Period size: 215 Copynumber: 2.1 Consensus size: 214
104888817 CACTGCATCT
* * *
104888827 TCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTGACCTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCC----TTT
* * * *
104888892 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
62 TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCCCCGCTGTAATCTC
*
104888957 AGGGAGATAAGATCTCTGGCTTCAATTTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
127 AGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
104889022 CTCCGGTCTACTCCACTATAACC
192 CTCCGGTCTACTCCACTATAACC
* * * *
104889045 TCAGGGAAATAAGCCCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-TTTAAT
1 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTTAAT
* *
104889109 CCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCCCCGCTGTAATCTCAG
66 CCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTGCCCCGCTGTAATCTCAG
*
104889173 GGAGATAAGATCCTCTGGCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTC
129 GGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTC
** * * *
104889238 TTTGGTCTGCTCCACTGTAATC
193 TCCGGTCTACTCCACTATAACC
*
104889260 TCAGGGAGATAAGACCTG
1 TCAGGGAAATAAGACCTG
104889278 TATAATAAAC
Statistics
Matches: 208, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
212 1 0.00
213 32 0.15
214 40 0.19
215 84 0.40
218 51 0.25
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (214 bp):
TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTTAAT
CCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCCCCGCTGTAATCTCAGGG
AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTCC
GGTCTACTCCACTATAACC
Found at i:104893766 original size:14 final size:15
Alignment explanation
Indices: 104893742--104893776 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
104893732 TATATATATT
104893742 ACCATATAAATACTA
1 ACCATATAAATACTA
104893757 ACCATA-AAATACTA
1 ACCATATAAATACTA
104893771 ATCCAT
1 A-CCAT
104893777 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:104894475 original size:41 final size:41
Alignment explanation
Indices: 104894444--104894766 Score: 497
Period size: 41 Copynumber: 7.9 Consensus size: 41
104894434 CTATATAAAA
* ** * * * *
104894444 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAT-AATC
* * * * *
104894485 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATC
*
104894526 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
104894567 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
104894608 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
104894649 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
104894690 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
104894731 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
104894767 ATCTCATATA
Statistics
Matches: 266, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
41 263 0.99
42 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
Found at i:104894999 original size:64 final size:63
Alignment explanation
Indices: 104894881--104895061 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
104894871 GCAAACAAAC
*
104894881 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
104894942 T
63 T
104894943 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
104895007 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
104895062 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:104909330 original size:21 final size:20
Alignment explanation
Indices: 104909281--104909335 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
104909271 TGAGAAATTG
* *
104909281 TTAAATTTTATT-TTTGGTCC
1 TTAAA-TTTATTATTTAGTCA
104909301 TTAAATTTATTATTTAGTCA
1 TTAAATTTATTATTTAGTCA
104909321 TTATAATTTATTATT
1 TTA-AATTTATTATT
104909336 AAATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.19
20 14 0.45
21 11 0.35
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAAATTTATTATTTAGTCA
Found at i:104910708 original size:21 final size:21
Alignment explanation
Indices: 104910682--104910724 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
104910672 AACTCTAGGT
104910682 ATATTAATACCTTTATTATTC
1 ATATTAATACCTTTATTATTC
104910703 ATATTAATACCTTTATTATTC
1 ATATTAATACCTTTATTATTC
104910724 A
1 A
104910725 CTCCATTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTAATACCTTTATTATTC
Found at i:104916788 original size:21 final size:21
Alignment explanation
Indices: 104916730--104916790 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
104916720 AGGAACTTTA
104916730 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* *
104916753 TGTG-CTGTATCAGGCACCTCG
1 TGTGTC-GTTTTAGGCACCTCG
104916774 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
104916791 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 23 0.72
22 3 0.09
23 6 0.19
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:104924841 original size:23 final size:23
Alignment explanation
Indices: 104924759--104924845 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 23
104924749 CCTAATCAGT
*
104924759 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * * *
104924781 A-ACAACACACGAGGTGTCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
104924801 ATACGGCACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
104924824 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
104924846 TCAGTAAAGC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.02
21 29 0.59
22 1 0.02
23 18 0.37
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:104926140 original size:24 final size:24
Alignment explanation
Indices: 104926113--104926163 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
104926103 CATTCAATTA
104926113 AACCCCTATTTCATCATTTTATTC
1 AACCCCTATTTCATCATTTTATTC
104926137 AACCCCTATTTCATCATTTTATTC
1 AACCCCTATTTCATCATTTTATTC
104926161 AAC
1 AAC
104926164 ATAGACTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.43
Consensus pattern (24 bp):
AACCCCTATTTCATCATTTTATTC
Found at i:104931463 original size:24 final size:25
Alignment explanation
Indices: 104931436--104931484 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
104931426 CTTTTTTTAT
*
104931436 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
104931460 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
104931485 AAACAAACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:104935547 original size:20 final size:22
Alignment explanation
Indices: 104935522--104935563 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
104935512 TAATTTTTCA
104935522 TAAAA-TTAATAAAAA-ATATT
1 TAAAATTTAATAAAAACATATT
*
104935542 TAAAATTTTATAAAAACATATT
1 TAAAATTTAATAAAAACATATT
104935564 AAATTCTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAATTTAATAAAAACATATT
Found at i:104935567 original size:20 final size:21
Alignment explanation
Indices: 104935522--104935579 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
104935512 TAATTTTTCA
*
104935522 TAAAATT-AATAAAAAATATT
1 TAAAATTCTATAAAAAATATT
*
104935542 TAAAATTTTATAAAAACATA-T
1 TAAAATTCTATAAAAA-ATATT
104935563 T-AAATTCTATAAAAAAT
1 TAAAATTCTATAAAAAAT
104935580 CATAAAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 2 0.06
20 20 0.59
21 9 0.26
22 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAATTCTATAAAAAATATT
Found at i:104935776 original size:19 final size:20
Alignment explanation
Indices: 104935743--104935781 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
104935733 GTTGAGTTGG
*
104935743 TTTTTTAAATATTTTTTTTA
1 TTTTTTAAATATTTTATTTA
*
104935763 TTTTTT-AATGTTTTATTTA
1 TTTTTTAAATATTTTATTTA
104935782 ATTGAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTTAAATATTTTATTTA
Found at i:104938987 original size:16 final size:16
Alignment explanation
Indices: 104938966--104939000 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
104938956 GACCAAGTGC
104938966 TATTGATACCTGAACT
1 TATTGATACCTGAACT
104938982 TATTGATACCTGAACT
1 TATTGATACCTGAACT
104938998 TAT
1 TAT
104939001 GGCAGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (16 bp):
TATTGATACCTGAACT
Found at i:104949265 original size:14 final size:15
Alignment explanation
Indices: 104949238--104949279 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
104949228 TAAGCAAGCC
*
104949238 TATTAATTATAATT-
1 TATTAATTAAAATTA
*
104949252 TATTAATAAAAATTA
1 TATTAATTAAAATTA
*
104949267 TCTTAATTAAAAT
1 TATTAATTAAAAT
104949280 ATTTCAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATTA
Found at i:104949520 original size:2 final size:2
Alignment explanation
Indices: 104949513--104949537 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104949503 ATGTAAAATA
104949513 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
104949538 ATCAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.