Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 276 of 297
Found at i:94051156 original size:41 final size:41
Alignment explanation
Indices: 94051094--94051284 Score: 265
Period size: 41 Copynumber: 4.6 Consensus size: 41
94051084 AACTGAGCAG
* * *
94051094 TAGCGGCGTTTTTGGTCAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGG-AAAAACGCCGCTATAGATCGAGGTTT
* * *
94051136 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTTGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
94051177 TAGCGGCGCTTTTGGAAAAACGCAGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
94051218 TAGCGGCGCTTTTGGAAAAACACCGCTATAGATCAAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* * *
94051259 TAACGGCACTTTTGGAAAAATGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
94051285 AAAAAAGTAA
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 120 0.90
42 14 0.10
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:94051824 original size:7 final size:7
Alignment explanation
Indices: 94051814--94051847 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
94051804 TGGGGTTAAG
94051814 GGTTTAT
1 GGTTTAT
94051821 GGTTTAT
1 GGTTTAT
*
94051828 GTTTTAT
1 GGTTTAT
94051835 GGTTTAT
1 GGTTTAT
94051842 GGTTTA
1 GGTTTA
94051848 GAGTTTAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (7 bp):
GGTTTAT
Found at i:94051980 original size:14 final size:14
Alignment explanation
Indices: 94051970--94052008 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
94051960 AATGTTTATT
94051970 GTTTTTGGTTTAGA
1 GTTTTTGGTTTAGA
*
94051984 GTTTATGGTTTAGA
1 GTTTTTGGTTTAGA
*
94051998 GTTTGTGGTTT
1 GTTTTTGGTTT
94052009 TTTGTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (14 bp):
GTTTTTGGTTTAGA
Found at i:94052199 original size:20 final size:20
Alignment explanation
Indices: 94052176--94052227 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
94052166 AATATATATA
94052176 TTTAGGGTTTAAGATATAGG
1 TTTAGGGTTTAAGATATAGG
** ** * *
94052196 TTTATAGTTTGGGGTTTAGG
1 TTTAGGGTTTAAGATATAGG
94052216 TTTAGGGTTTAA
1 TTTAGGGTTTAA
94052228 TGTTGAAAAA
Statistics
Matches: 22, Mismatches: 10, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (20 bp):
TTTAGGGTTTAAGATATAGG
Found at i:94052211 original size:14 final size:13
Alignment explanation
Indices: 94052176--94052227 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
94052166 AATATATATA
94052176 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
*
94052189 ATATA-GGTTTATAG
1 -TTTAGGGTTTA-AG
* *
94052203 TTTGGGGTTTAGG
1 TTTAGGGTTTAAG
94052216 TTTAGGGTTTAA
1 TTTAGGGTTTAA
94052228 TGTTGAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:94054621 original size:24 final size:24
Alignment explanation
Indices: 94054594--94054645 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94054584 TTAGTAAGTC
*
94054594 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94054618 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94054642 AAAT
1 AAAT
94054646 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94056591 original size:24 final size:24
Alignment explanation
Indices: 94056564--94056616 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
94056554 TTAGTAAGTC
*
94056564 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94056588 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94056612 AAATA
1 AAATA
94056617 CAATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94056958 original size:11 final size:10
Alignment explanation
Indices: 94056944--94057003 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
94056934 AAATTAAGAT
94056944 TAATTTTTAAA
1 TAATTTTT-AA
* *
94056955 TAATTTATAT
1 TAATTTTTAA
*
94056965 TAATTTTTTA
1 TAATTTTTAA
*
94056975 TAA-TTTCAA
1 TAATTTTTAA
94056984 TAATTTTTAA
1 TAATTTTTAA
*
94056994 TAAATTTTAA
1 TAATTTTTAA
94057004 ATTATTTTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.18
10 25 0.64
11 7 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:94056977 original size:20 final size:21
Alignment explanation
Indices: 94056942--94056993 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
94056932 TTAAATTAAG
94056942 ATTAATTTTTAAATAATTTAT
1 ATTAATTTTTAAATAATTTAT
*
94056963 ATTAATTTTT-TATAATTTCA-
1 ATTAATTTTTAAATAATTT-AT
94056983 A-TAATTTTTAA
1 ATTAATTTTTAA
94056994 TAAATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTAATTTTTAAATAATTTAT
Found at i:94056989 original size:19 final size:18
Alignment explanation
Indices: 94056944--94057038 Score: 64
Period size: 21 Copynumber: 4.8 Consensus size: 18
94056934 AAATTAAGAT
*
94056944 TAATTTTTAAATAATTTATA
1 TAATTTTT-TATAATTTA-A
94056964 TTAATTTTTTATAATTTCAA
1 -TAATTTTTTATAATTT-AA
*
94056984 TAATTTTTAATAAATTTTAAA
1 TAATTTTTTAT-AA-TTT-AA
* * *
94057005 TTATTTTCTAGATATTTAA
1 TAATTTTTTATA-ATTTAA
*
94057024 TATTTTTTTATAATT
1 TAATTTTTTATAATT
94057039 ATTTGAAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
18 3 0.05
19 20 0.34
20 14 0.24
21 22 0.37
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (18 bp):
TAATTTTTTATAATTTAA
Found at i:94056999 original size:20 final size:21
Alignment explanation
Indices: 94056933--94057000 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
94056923 TCATTTATTT
* *
94056933 TAAATTAAGATTAATTTTTAA
1 TAAATTTATATTAATTTTTAA
*
94056954 -ATAATTTATATTAATTTTTTA
1 TA-AATTTATATTAATTTTTAA
94056975 T-AATTTCA-A-TAATTTTTAA
1 TAAATTT-ATATTAATTTTTAA
94056994 TAAATTT
1 TAAATTT
94057001 TAAATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 10 0.26
20 12 0.31
21 17 0.44
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
TAAATTTATATTAATTTTTAA
Found at i:94057042 original size:21 final size:19
Alignment explanation
Indices: 94056954--94057038 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
94056944 TAATTTTTAA
* *
94056954 ATAATTTATATTAATTTTTT
1 ATAATTT-TAATATTTTTTT
* * *
94056974 ATAATTTCAATAATTTTTA
1 ATAATTTTAATATTTTTTT
*
94056993 ATAAATTTTAA-ATTATTTT
1 AT-AATTTTAATATTTTTTT
*
94057012 CTAGATATTTAATATTTTTTT
1 ATA-AT-TTTAATATTTTTTT
94057033 ATAATT
1 ATAATT
94057039 ATTTGAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
18 1 0.02
19 20 0.39
20 21 0.41
21 9 0.18
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (19 bp):
ATAATTTTAATATTTTTTT
Found at i:94057729 original size:19 final size:19
Alignment explanation
Indices: 94057705--94057741 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
94057695 AAATGGATGA
94057705 AATTTTTATTAAAAATAAT
1 AATTTTTATTAAAAATAAT
*
94057724 AATTTTTATTAATAATAA
1 AATTTTTATTAAAAATAA
94057742 AAACAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTTTATTAAAAATAAT
Found at i:94058570 original size:24 final size:24
Alignment explanation
Indices: 94058543--94058589 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
94058533 TCAAAATAAT
*
94058543 ATATTTT-ATTTTTTTAAATTGAAG
1 ATATTTTCATTTTTCT-AATTGAAG
94058567 ATATTTTCATTTTTCTAATTGAA
1 ATATTTTCATTTTTCTAATTGAA
94058590 TTAGTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTTTCATTTTTCTAATTGAAG
Found at i:94060084 original size:28 final size:27
Alignment explanation
Indices: 94060049--94060154 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
94060039 GAAATCAGAG
94060049 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
94060076 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
* *
94060104 TCAGAGTATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
*
94060136 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
94060155 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
27 12 0.19
28 28 0.44
30 2 0.03
32 14 0.22
33 8 0.12
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:94060161 original size:61 final size:61
Alignment explanation
Indices: 94060042--94060162 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 61
94060032 TTATTCAGAA
* *
94060042 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
* *
94060103 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAA
94060163 GTCGAGATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
60 33 0.61
61 21 0.39
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
Found at i:94060181 original size:60 final size:60
Alignment explanation
Indices: 94060042--94060190 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
94060032 TTATTCAGAA
* * *
94060042 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ACTAGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
* * *
94060103 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAA-
1 ATCAGAGTATACTAGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAAT
* * *
94060163 GTC-GAGATATATTAGGCCTTGCCCATAT
1 ATCAGAG-TATACTAGGCCTAGCCCATAT
94060191 TAACATAGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
59 3 0.04
60 51 0.66
61 22 0.29
62 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTAGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
Found at i:94076746 original size:34 final size:33
Alignment explanation
Indices: 94076692--94076760 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 33
94076682 CCATGAATAC
* *
94076692 TACTGATACTGTGTGGGCTAAGGCCCTAATGCA
1 TACTGATAATATGTGGGCTAAGGCCCTAATGCA
*
94076725 TACTGATAATATGATGGGCTAAGGCCCTACTGCA
1 TACTGATAATATG-TGGGCTAAGGCCCTAATGCA
94076759 TA
1 TA
94076761 ATTGATACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGATAATATGTGGGCTAAGGCCCTAATGCA
Found at i:94080813 original size:30 final size:31
Alignment explanation
Indices: 94080756--94080815 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
94080746 ATTGAATTAT
* *
94080756 TTGAAAGTTTTCGTTTAAGTCATTGAACTAG
1 TTGAAAGTTTTCATTTAAGTCACTGAACTAG
*
94080787 TTGAAAGTTTT-ATTTGAGTCACTGAACTA
1 TTGAAAGTTTTCATTTAAGTCACTGAACTA
94080816 TTAAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (31 bp):
TTGAAAGTTTTCATTTAAGTCACTGAACTAG
Found at i:94089375 original size:47 final size:46
Alignment explanation
Indices: 94089300--94089418 Score: 125
Period size: 47 Copynumber: 2.5 Consensus size: 46
94089290 GGGTTATTGT
* * * *
94089300 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCA-TATTATGA
1 GAGCCAGTGTAAGACATGTCTGGAACATGGCATCGG-CATTA-GATGA
*
94089346 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATTGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGAACATGGCATCGGCATT-AGATGA
* *
94089394 GAGCCTGTGTAAGACGTGTCTGGAA
1 GAGCCAGTGTAAGACATGTCTGGAA
94089419 TGTAAGACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
46 13 0.21
47 24 0.39
48 24 0.39
49 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGAACATGGCATCGGCATTAGATGA
Found at i:94090666 original size:21 final size:22
Alignment explanation
Indices: 94090627--94090667 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
94090617 TCGAATTGGT
94090627 CACACAGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
*
94090649 CACACGGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
94090668 GTGGCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:94092204 original size:21 final size:22
Alignment explanation
Indices: 94092179--94092219 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
94092169 TTAAAAAATA
94092179 AACTAATTAACTGA-GTTTACT
1 AACTAATTAACTGATGTTTACT
*
94092200 AACTAATTAAGTGATGTTTA
1 AACTAATTAACTGATGTTTA
94092220 ACAAACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (22 bp):
AACTAATTAACTGATGTTTACT
Found at i:94098641 original size:9 final size:9
Alignment explanation
Indices: 94098627--94098651 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
94098617 GTTTACCGAA
94098627 AAGCATGAG
1 AAGCATGAG
94098636 AAGCATGAG
1 AAGCATGAG
94098645 AAGCATG
1 AAGCATG
94098652 CCATTGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (9 bp):
AAGCATGAG
Found at i:94101151 original size:37 final size:37
Alignment explanation
Indices: 94101101--94101192 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
94101091 TGGAAGATAT
* * *
94101101 TTGAAAGGTCATGTCTCTTCACTT-GTTCCGTGTGTAG
1 TTGAAAAGTCATGTCTCTTCACTTAG-TCCATATGTAG
* *
94101138 TTGAAAAGCCATGTCTCTTCACTTAGTCCATATGTAT
1 TTGAAAAGTCATGTCTCTTCACTTAGTCCATATGTAG
*
94101175 TTGAATAGTCATGTCTCT
1 TTGAAAAGTCATGTCTCT
94101193 ATACTTGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 46 0.98
38 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (37 bp):
TTGAAAAGTCATGTCTCTTCACTTAGTCCATATGTAG
Found at i:94101269 original size:11 final size:11
Alignment explanation
Indices: 94101231--94101278 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
94101221 AATGAGCAGT
94101231 TTTGTTGTCCC
1 TTTGTTGTCCC
**
94101242 TTCATT-TCCC
1 TTTGTTGTCCC
94101252 TTTTGTTGTCCC
1 -TTTGTTGTCCC
*
94101264 TTTGTTTTCCC
1 TTTGTTGTCCC
94101275 TTTG
1 TTTG
94101279 ATTGAATGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 4 0.13
11 22 0.73
12 4 0.13
ACGTcount: A:0.02, C:0.27, G:0.12, T:0.58
Consensus pattern (11 bp):
TTTGTTGTCCC
Found at i:94102721 original size:41 final size:41
Alignment explanation
Indices: 94102676--94102758 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
94102666 ATGTGGCCAA
94102676 TGACAAGGGCGATGATTCATTGTTCTCTACATATAATTCAG
1 TGACAAGGGCGATGATTCATTGTTCTCTACATATAATTCAG
* *
94102717 TGACAAGGGTGATGATTCGTTGTTCTCTACATATAATTCAG
1 TGACAAGGGCGATGATTCATTGTTCTCTACATATAATTCAG
94102758 T
1 T
94102759 TGAAGATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (41 bp):
TGACAAGGGCGATGATTCATTGTTCTCTACATATAATTCAG
Found at i:94103852 original size:28 final size:26
Alignment explanation
Indices: 94103781--94103866 Score: 136
Period size: 26 Copynumber: 3.2 Consensus size: 26
94103771 TCTAAAACTT
94103781 AAATATTCATTTTAATATACCTTATC
1 AAATATTCATTTTAATATACCTTATC
*
94103807 AAATATTCATTTTGATATACCTTATC
1 AAATATTCATTTTAATATACCTTATC
*
94103833 AAATGATTTCATTTTAATATACCTTATA
1 AAAT-A-TTCATTTTAATATACCTTATC
94103861 AAATAT
1 AAATAT
94103867 GCTTTTTATC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 30 0.55
27 2 0.04
28 23 0.42
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (26 bp):
AAATATTCATTTTAATATACCTTATC
Found at i:94106655 original size:16 final size:16
Alignment explanation
Indices: 94106630--94106671 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
94106620 AGGGATTTAG
* *
94106630 ATTATAATTTTGTTTT
1 ATTATTATTTTATTTT
*
94106646 TTTATTATTTTATTTT
1 ATTATTATTTTATTTT
94106662 ATT-TTATTTT
1 ATTATTATTTT
94106672 CTCTCTCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
ATTATTATTTTATTTT
Found at i:94109620 original size:156 final size:156
Alignment explanation
Indices: 94109336--94109648 Score: 599
Period size: 156 Copynumber: 2.0 Consensus size: 156
94109326 AAGGTCGAGT
* *
94109336 TTTTGAGGCTGAGTCGCTACACTCGAGGCATGGTTGCGACTGAGTATGAGAGGTGTGTCCAATTT
1 TTTTGAGGATAAGTCGCTACACTCGAGGCATGGTTGCGACTGAGTATGAGAGGTGTGTCCAATTT
94109401 GAGGACGGATTAAGGGATAATCTAAAAGTATTGATTGCTCTACAAAAAGAGTGAGAGTTCACAGT
66 GAGGACGGATTAAGGGATAATCTAAAAGTATTGATTGCTCTACAAAAAGAGTGAGAGTTCACAGT
94109466 TCTGGTTGAGAGTCAAAGATGTTAAG
131 TCTGGTTGAGAGTCAAAGATGTTAAG
94109492 TTTTGAGGATAAGTCGCTACACTCGAGGCATGGTTGCGACTGAGTATGAGAGGTGTGTCCAATTT
1 TTTTGAGGATAAGTCGCTACACTCGAGGCATGGTTGCGACTGAGTATGAGAGGTGTGTCCAATTT
94109557 GAGGACGGATTAAGGGATAATCTAAAAGTATTGATTGCTCTACAAAAAGAGTGAGAGTTCACAGT
66 GAGGACGGATTAAGGGATAATCTAAAAGTATTGATTGCTCTACAAAAAGAGTGAGAGTTCACAGT
*
94109622 TCTGGTTGAGAGTCAAGGATGTTAAG
131 TCTGGTTGAGAGTCAAAGATGTTAAG
94109648 T
1 T
94109649 GCGTGGAGCA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (156 bp):
TTTTGAGGATAAGTCGCTACACTCGAGGCATGGTTGCGACTGAGTATGAGAGGTGTGTCCAATTT
GAGGACGGATTAAGGGATAATCTAAAAGTATTGATTGCTCTACAAAAAGAGTGAGAGTTCACAGT
TCTGGTTGAGAGTCAAAGATGTTAAG
Found at i:94123041 original size:26 final size:26
Alignment explanation
Indices: 94123005--94123055 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
94122995 CGTAAGAAAA
94123005 GATAGGATACAAGTGGTATGCCAATT
1 GATAGGATACAAGTGGTATGCCAATT
*
94123031 GATAGGATACAATTGGTATGCCAAT
1 GATAGGATACAAGTGGTATGCCAAT
94123056 CCAGTTGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (26 bp):
GATAGGATACAAGTGGTATGCCAATT
Found at i:94123219 original size:28 final size:28
Alignment explanation
Indices: 94123149--94123219 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
94123139 TTATCGAGCT
* *
94123149 TTGTCTCTACGGAGACCACTGTTACTAA
1 TTGTCTATACAGAGACCACTGTTACTAA
* * * *
94123177 TTTTCTCTACGGAGACCACTGTTACTGA
1 TTGTCTATACAGAGACCACTGTTACTAA
* *
94123205 TTGTGTATATAGAGA
1 TTGTCTATACAGAGA
94123220 GCTTGGTGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (28 bp):
TTGTCTATACAGAGACCACTGTTACTAA
Found at i:94123510 original size:24 final size:25
Alignment explanation
Indices: 94123461--94123511 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
94123451 AGATTGAATG
*
94123461 ATTGAAATGATTATATATATTCTGA
1 ATTGAAATGATTATATATAATCTGA
*
94123486 ATTGATATG-TTATATAATAAT-TGA
1 ATTGAAATGATTATAT-ATAATCTGA
94123510 AT
1 AT
94123512 AATGTAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTGAAATGATTATATATAATCTGA
Found at i:94124333 original size:16 final size:16
Alignment explanation
Indices: 94124314--94124345 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94124304 TATATGTGAT
94124314 TACTTGAATATACAAA
1 TACTTGAATATACAAA
*
94124330 TACTTGAATATGCAAA
1 TACTTGAATATACAAA
94124346 CTATCATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (16 bp):
TACTTGAATATACAAA
Found at i:94130740 original size:12 final size:12
Alignment explanation
Indices: 94130723--94130748 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94130713 GATGCTTTAC
94130723 TTTCTTTTTTTT
1 TTTCTTTTTTTT
94130735 TTTCTTTTTTTT
1 TTTCTTTTTTTT
94130747 TT
1 TT
94130749 CTGTACATTG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:94130826 original size:2 final size:2
Alignment explanation
Indices: 94130819--94130844 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94130809 TTAGGTGGTG
94130819 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94130845 GGAAGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94135736 original size:19 final size:20
Alignment explanation
Indices: 94135714--94135753 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
94135704 AAATTTTAAA
* *
94135714 AAATATTTTTTATG-TTTTT
1 AAATAATTTTAATGATTTTT
94135733 AAATAATTTTAATGATTTTT
1 AAATAATTTTAATGATTTTT
94135753 A
1 A
94135754 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
AAATAATTTTAATGATTTTT
Found at i:94135775 original size:22 final size:22
Alignment explanation
Indices: 94135707--94135787 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
94135697 AAATTTTAAA
*
94135707 TTTTAAAAA-ATATTTTTTATGT
1 TTTTAAAAATATTTTTTTTAT-T
*
94135729 TTTTAAATAATTTTAATGATTTTTATT
1 TTTTAAA-AATATT--T--TTTTTATT
**
94135756 TTTTAAAAATATTTTTTTTAAA
1 TTTTAAAAATATTTTTTTTATT
94135778 TTTTAAAAAT
1 TTTTAAAAAT
94135788 TCAAAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
22 23 0.48
23 2 0.04
24 2 0.04
26 6 0.12
27 8 0.17
28 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAAAAATATTTTTTTTATT
Found at i:94136453 original size:6 final size:6
Alignment explanation
Indices: 94136420--94136452 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
94136410 AAGGTAAAAA
*
94136420 AAAATC AAAATC AAAATC AAAATT AAAA-C AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
94136453 AAGAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:94145577 original size:28 final size:28
Alignment explanation
Indices: 94145545--94145600 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
94145535 TAGAAAACCA
*
94145545 GTAATGAAAGGAAGAACAATAGAATGAT
1 GTAATGAAACGAAGAACAATAGAATGAT
94145573 GTAATGAAACGAAGAACAATAGAATGAT
1 GTAATGAAACGAAGAACAATAGAATGAT
94145601 TTTGTGCTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.18
Consensus pattern (28 bp):
GTAATGAAACGAAGAACAATAGAATGAT
Found at i:94154889 original size:30 final size:31
Alignment explanation
Indices: 94154850--94154917 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
94154840 ACTTAGCAAC
* * *
94154850 CAATTACTTAAAT-AAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTCTCAAATAATT
94154880 CAATGACTTAAATAAAAACTCTCAAATAATT
1 CAATGACTTAAATAAAAACTCTCAAATAATT
94154911 CAATGAC
1 CAATGAC
94154918 CATTTGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTCTCAAATAATT
Found at i:94155845 original size:27 final size:27
Alignment explanation
Indices: 94155807--94155864 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
94155797 TAAAATAAGG
94155807 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
94155834 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
94155861 GTGG
1 GTGG
94155865 TGCCTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.31, G:0.40, T:0.09
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:94155981 original size:22 final size:22
Alignment explanation
Indices: 94155956--94155997 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94155946 TTACAGAAGA
94155956 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
*
94155978 AGAAGAATAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
94155998 AGGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:94156093 original size:78 final size:77
Alignment explanation
Indices: 94155999--94156154 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 77
94155989 GAAAAGAAAA
94155999 GGTAATTTTTTGTTGTTATTTTTTAAATAAAATAGATTATGATAAGAAAAAATTATTTTGTTAGT
1 GGTAATTTTTTGTTGTTATTTTTTAAATAAAATAGATTATGATAAGAAAAAATTATTTTGTTAGT
94156064 ATTATATAGTTT
66 ATTATATAGTTT
94156076 GGTAATTTTTTTGTTGTTATTTTTTAAATAAAATAGATTATGATAAGAAAAAATTATTTTGTTAG
1 GGTAA-TTTTTTGTTGTTATTTTTTAAATAAAATAGATTATGATAAGAAAAAATTATTTTGTTAG
94156141 TATTATATAGTTT
65 TATTATATAGTTT
94156154 G
1 G
94156155 TTTAGTGTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 5 0.06
78 73 0.94
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (77 bp):
GGTAATTTTTTGTTGTTATTTTTTAAATAAAATAGATTATGATAAGAAAAAATTATTTTGTTAGT
ATTATATAGTTT
Found at i:94162628 original size:145 final size:145
Alignment explanation
Indices: 94162459--94162892 Score: 684
Period size: 145 Copynumber: 3.0 Consensus size: 145
94162449 TATTTTGGTA
*
94162459 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGT-TTTTTATTTTTATATTAT
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTT-TTTTTATATTAT
94162523 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTGA
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTGA
94162588 TTTTGGCCATTTATTT
130 TTTTGGCCATTTATTT
* * *
94162604 TTTATTTTATTTTCGAATTTTATTTTCTAAAATATACTATTTTCATATTTTGTTTTTTTATATTA
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTA-TTT-TTTTTTTATATTA
*
94162669 TTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTC
64 TTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTA-ATAAAAAACTC
94162732 TGATTTTGGCC--TT-TTT
127 TGATTTTGGCCATTTATTT
* * * *
94162748 TAT-TTTTATTTTCGAAATTTATTTTTTAAAATTTATTATTTTTGTATTTGTTTTTTTATATTAT
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTT-TTTTTTTATATTAT
94162812 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTGA
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTGA
94162877 TTTTGGCCATTTATTT
130 TTTTGGCCATTTATTT
94162893 CAAATGTATT
Statistics
Matches: 266, Mismatches: 13, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
142 57 0.21
143 54 0.20
144 21 0.08
145 61 0.23
146 17 0.06
147 54 0.20
148 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (145 bp):
TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTTTTTTTATATTATT
TTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTGAT
TTTGGCCATTTATTT
Found at i:94162779 original size:14 final size:15
Alignment explanation
Indices: 94162749--94162789 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
94162739 GGCCTTTTTT
*
94162749 ATTT-TTATTTTCGAA
1 ATTTATTATTTT-AAA
94162764 ATTTATT-TTTTAAA
1 ATTTATTATTTTAAA
94162778 ATTTATTATTTT
1 ATTTATTATTTT
94162790 TGTATTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (15 bp):
ATTTATTATTTTAAA
Found at i:94162850 original size:142 final size:144
Alignment explanation
Indices: 94162459--94162892 Score: 675
Period size: 142 Copynumber: 3.0 Consensus size: 144
94162449 TATTTTGGTA
*
94162459 TTTA-TTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGT-TTT-TTATTTTTATATT
1 TTTATTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTGTT-TTTTTATATT
94162521 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCT
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCT
94162586 GATTTTGGCCATTTAT
130 GATTTTGGCCA-TTAT
* * * *
94162602 TTTTTATTTTATTTTCGAATTTTATTTTCTAAAATATACTATTTTCATATTTTGTTTTTTTATAT
1 TTTAT-TTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTA-TTTGTTTTTTTATAT
*
94162667 TATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAAC
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTA-ATAAAAAAC
94162730 TCTGATTTTGGCC-TT-T
127 TCTGATTTTGGCCATTAT
* * *
94162746 TTTATTTTTATTTTCGAAATTTATTTTTTAAAATTTATTATTTTTGTATTTGTTTTTTTATATTA
1 TTTATTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTGTTTTTTTATATTA
94162811 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTG
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTG
94162876 ATTTTGGCCATTTAT
131 ATTTTGGCCA-TTAT
94162891 TT
1 TT
94162893 CAAATGTATT
Statistics
Matches: 265, Mismatches: 14, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
142 57 0.22
143 57 0.22
144 21 0.08
145 57 0.22
146 17 0.06
147 54 0.20
148 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (144 bp):
TTTATTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTGTTTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAATAAAAAACTCTG
ATTTTGGCCATTAT
Found at i:94162900 original size:64 final size:65
Alignment explanation
Indices: 94162826--94162957 Score: 212
Period size: 65 Copynumber: 2.0 Consensus size: 65
94162816 GTACATAATG
94162826 TTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAATAAAAAACTCTGATTTTGGCCATTTA
1 TTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTGATTTTGGCCATTTA
* ** * *
94162890 TTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATTTTTGATTTTGGCCGTTTA
1 TTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTGATTTTGGCCATTTA
94162955 TTT
1 TTT
94162958 TTTATTTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 20 0.32
65 42 0.68
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (65 bp):
TTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTGATTTTGGCCATTTA
Found at i:94162971 original size:13 final size:13
Alignment explanation
Indices: 94162951--94162984 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
94162941 ATTTTGGCCG
*
94162951 TTTATTTTT-TAT
1 TTTATTTTTGGAT
94162963 TTTATTTTTGGAT
1 TTTATTTTTGGAT
94162976 TTTATTTTT
1 TTTATTTTT
94162985 CAAAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTATTTTTGGAT
Found at i:94163044 original size:206 final size:208
Alignment explanation
Indices: 94162688--94163091 Score: 577
Period size: 207 Copynumber: 1.9 Consensus size: 208
94162678 ATAATGTTTC
94162688 ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTCTGATTTTGGCCTTTTTTATTT
1 ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTCTGATTTTGGCCTTTTTTATTT
* * * * *
94162753 TTATTTTCGAAATTTATTTTTTAAAATTTATTATTTTTGTATTTGTTTTTTTATATTATTTTAGT
66 TTATTTTCGAAATTTATTTTTCAAAATATACTATTTTTGCA-TTATTTTTTTATATTATTTTAGT
*
94162818 ACATAATGTTTCAAATGTATTATTTTAGT-TTTTTATATTAATTTAATAAAAAACTCTGATTTTG
130 ACATAATGTTTCAAATGTATTATTTTAGTATATTTATATTAATTTAATAAAAAACTCTGATTTTG
94162882 GCCATTTATTTCAA
195 GCCATTTATTTCAA
* ** * *
94162896 ATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAATTTTTGATTTTGGCCGTTTATTTTT
1 ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTCTGATTTTGGCC--TT-TTTTA
* * *
94162960 TATTTTATTTTTGGATTTTATTTTTCAAAATATACTA-TTTT-CA-TATTTTTTT-TATTATTTT
63 T-TTTTATTTTCGAAATTTATTTTTCAAAATATACTATTTTTGCATTATTTTTTTATATTATTTT
* *
94163021 AGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTGATT
127 AGTACATAATGTTTCAAATGTATTATTTTAGTATATTTATATTAATTTAATAAAAAACTCTGATT
94163086 TTGGCC
192 TTGGCC
94163092 TTTTTTTATT
Statistics
Matches: 175, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
206 40 0.23
207 61 0.35
208 33 0.19
209 3 0.02
210 9 0.05
211 29 0.17
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (208 bp):
ATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTCTGATTTTGGCCTTTTTTATTT
TTATTTTCGAAATTTATTTTTCAAAATATACTATTTTTGCATTATTTTTTTATATTATTTTAGTA
CATAATGTTTCAAATGTATTATTTTAGTATATTTATATTAATTTAATAAAAAACTCTGATTTTGG
CCATTTATTTCAA
Found at i:94163129 original size:14 final size:14
Alignment explanation
Indices: 94163112--94163140 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
94163102 TTATTTTCGG
94163112 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
94163126 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
94163140 A
1 A
94163141 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:94163809 original size:22 final size:22
Alignment explanation
Indices: 94163779--94163821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
94163769 AGCTCAGAGC
94163779 AGTCCCGTCGGTGGCAG-GGAGG
1 AGTCCCGTCGGT-GCAGAGGAGG
*
94163801 AGTCTCGTCGGTGCAGAGGAG
1 AGTCCCGTCGGTGCAGAGGAG
94163822 TGAGCGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (22 bp):
AGTCCCGTCGGTGCAGAGGAGG
Found at i:94163821 original size:19 final size:20
Alignment explanation
Indices: 94163773--94163822 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
94163763 AGAAATAGCT
*
94163773 CAGAGCAGTCCCGTCGGTGG
1 CAGAGGAGTCCCGTCGGTGG
*
94163793 CAGGGAGGAGTCTCGTCGGT-G
1 CA--GAGGAGTCCCGTCGGTGG
94163814 CAGAGGAGT
1 CAGAGGAGT
94163823 GAGCGATGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 2 0.08
21 3 0.12
22 14 0.54
ACGTcount: A:0.18, C:0.22, G:0.44, T:0.16
Consensus pattern (20 bp):
CAGAGGAGTCCCGTCGGTGG
Found at i:94165685 original size:177 final size:177
Alignment explanation
Indices: 94165389--94165740 Score: 533
Period size: 177 Copynumber: 2.0 Consensus size: 177
94165379 ACATGAATAC
* * * * **
94165389 CGCCGCTCTCCAAATGAAGTGGTCCGTTTGATGGTGTCCATGTTGAGTACTGATATGTACATGTT
1 CGCCGCTCTACAAATGAAGTGGTCCATCTAATGGTGTCCATGTTGAGTACTGATATGTACATACT
* * * *
94165454 GTAACAAAGAACAAATGTCATCCTATAAAAGTCTTAACTTTCAGTAAATATTAGAGTATTTAGAG
66 GTAACAAAGAACAAATGTCATCCCATAAAAGTCTTAACTTTAAGTAAATATTAGAATATCTAGAG
*
94165519 TTACCAATTTAAAGAGGAGGCAACGAAAAAGAGTCAACCTACCATAA
131 TTACCAATTTAAAAAGGAGGCAACGAAAAAGAGTCAACCTACCATAA
* ** *
94165566 CGCCGCTCTACAAATGAAGTGGTCCATCTAATGGTGTCTATGTTGAGTTTTGATATGTACCTACT
1 CGCCGCTCTACAAATGAAGTGGTCCATCTAATGGTGTCCATGTTGAGTACTGATATGTACATACT
* * *
94165631 GTATCAAAGAACGAATGTCATCCCATAAAAGTCTTAACTTTAAGTAGATATTAGAATATCTAGAG
66 GTAACAAAGAACAAATGTCATCCCATAAAAGTCTTAACTTTAAGTAAATATTAGAATATCTAGAG
*
94165696 TTACCAATTTAAAAAGGAGGTAACGAAAAAGAGTCAACCTACCAT
131 TTACCAATTTAAAAAGGAGGCAACGAAAAAGAGTCAACCTACCAT
94165741 GAAACTTGGA
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
177 156 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (177 bp):
CGCCGCTCTACAAATGAAGTGGTCCATCTAATGGTGTCCATGTTGAGTACTGATATGTACATACT
GTAACAAAGAACAAATGTCATCCCATAAAAGTCTTAACTTTAAGTAAATATTAGAATATCTAGAG
TTACCAATTTAAAAAGGAGGCAACGAAAAAGAGTCAACCTACCATAA
Found at i:94174252 original size:52 final size:54
Alignment explanation
Indices: 94174170--94174272 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 54
94174160 TTACTTATTT
*
94174170 TATTTATTCATTTACTTTTTAAATACTTAAATTTAATATTA-TT-TGTTTTGCC
1 TATTTATTCATTTACTTTTTAAATACTTAAATTCAATATTACTTATGTTTTGCC
* * *
94174222 TATTTATTTA-TTA-TTTTTATATATATTTAAATTCGATATTACTTATGTTTT
1 TATTTATTCATTTACTTTTTA-A-ATACTTAAATTCAATATTACTTATGTTTT
94174273 CCTTTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
50 6 0.14
51 4 0.09
52 25 0.58
53 2 0.05
54 6 0.14
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (54 bp):
TATTTATTCATTTACTTTTTAAATACTTAAATTCAATATTACTTATGTTTTGCC
Found at i:94183754 original size:24 final size:24
Alignment explanation
Indices: 94183729--94183773 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
94183719 CACGTTATTT
94183729 TTTTTGTTC-TGT-TTCTTCTTGG
1 TTTTTGTTCTTGTGTTCTTCTTGG
94183751 TTTTTGTTCTTGTGTTCTTCTTG
1 TTTTTGTTCTTGTGTTCTTCTTG
94183774 TTACTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.00, C:0.13, G:0.18, T:0.69
Consensus pattern (24 bp):
TTTTTGTTCTTGTGTTCTTCTTGG
Found at i:94185122 original size:5 final size:5
Alignment explanation
Indices: 94185112--94185183 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
94185102 TGTTAAAAAA
* *
94185112 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
94185158 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
94185184 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:94185165 original size:19 final size:19
Alignment explanation
Indices: 94185141--94185183 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
94185131 ATTATGTTTT
94185141 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
94185160 TATATTATATTATATTATA
1 TATATTATATTATATTATA
94185179 TATAT
1 TATAT
94185184 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:94185216 original size:18 final size:19
Alignment explanation
Indices: 94185188--94185227 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
94185178 ATATATACAT
*
94185188 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
94185207 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
94185225 AAA
1 AAA
94185228 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:94186193 original size:44 final size:45
Alignment explanation
Indices: 94186098--94186231 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
94186088 ACAGGACAGA
* *
94186098 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
94186144 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
94186188 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
94186232 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:94191617 original size:44 final size:44
Alignment explanation
Indices: 94191569--94191663 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
94191559 GATTATTATG
* * ** *
94191569 ACAAATCTTATC-TCTTTGAAGTTGCTGTGGAGTAGATTGAAGCC
1 ACAAATCTTATCTTC-CTGAAGTTACAATGGAGCAGATTGAAGCC
94191613 ACAAATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCC
1 ACAAATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCC
*
94191657 ACTAATC
1 ACAAATC
94191664 CTTTGGGGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAAATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCC
Found at i:94193129 original size:15 final size:15
Alignment explanation
Indices: 94193111--94193150 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
94193101 ATTTTAATTT
94193111 TTTATAATTT-ATATA
1 TTTATAATTTGA-ATA
*
94193126 TTTATAATTTGAATT
1 TTTATAATTTGAATA
94193141 TTTATAATTT
1 TTTATAATTT
94193151 TAGGGGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTATAATTTGAATA
Found at i:94194981 original size:11 final size:11
Alignment explanation
Indices: 94194951--94194982 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
94194941 TGAAATTTTC
*
94194951 TCAAAATTCCA
1 TCAAAATTCTA
94194962 TCAAAATTCTA
1 TCAAAATTCTA
94194973 TCAAAATTCT
1 TCAAAATTCT
94194983 TTGTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:94195199 original size:48 final size:47
Alignment explanation
Indices: 94195147--94195248 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 47
94195137 TACTATTTTA
* *
94195147 ATTTATGCAAATT-TAGTTA-AATTTGCAATACTATTTGATATTTCATTC
1 ATTTATGC-AATTGTAATTACAATAT-CAATACTATTTGAT-TTTCATTC
* **
94195195 ATTTATGCAATTGTAATTACAATATCAATACTGTTTGATTTTTTTTC
1 ATTTATGCAATTGTAATTACAATATCAATACTATTTGATTTTCATTC
94195242 ATTTATG
1 ATTTATG
94195249 ATGTTTGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 17 0.36
48 26 0.55
49 4 0.09
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (47 bp):
ATTTATGCAATTGTAATTACAATATCAATACTATTTGATTTTCATTC
Found at i:94196865 original size:18 final size:18
Alignment explanation
Indices: 94196842--94196879 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
94196832 TGCCAGGTGC
*
94196842 GTATTCTAGCCCTTATAT
1 GTATTCTAACCCTTATAT
94196860 GTATTCTAACCCTTATAT
1 GTATTCTAACCCTTATAT
94196878 GT
1 GT
94196880 TTCCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.45
Consensus pattern (18 bp):
GTATTCTAACCCTTATAT
Found at i:94200025 original size:43 final size:43
Alignment explanation
Indices: 94199955--94200138 Score: 199
Period size: 43 Copynumber: 4.3 Consensus size: 43
94199945 TGGCTGTTAC
*
94199955 AAAAGATCATGACCTTTAGCGACGCTTTTTCCACAAACGCCGCT
1 AAAA-ATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCT
* * *
94199999 AAAAATTATGACATTTAACGGCGCTTTTTCCACAAACGCCGCT
1 AAAAATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCT
* * * *
94200042 AAAGATCACGGCCTTTAGCGGCGCTTTTTCCACAAACGCCGTT
1 AAAAATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCT
* * ** * * *
94200085 AAAGATCACGGTCTTTAGCGGTGC-TTTTCTCAAAAATGCCGCT
1 AAAAATCATGACCTTTAGCGGCGCTTTTTC-CACAAACGCCGCT
*
94200128 AAAAGTCATGA
1 AAAAATCATGA
94200139 AATTCAAAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.04
43 110 0.92
44 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AAAAATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCT
Found at i:94204858 original size:13 final size:13
Alignment explanation
Indices: 94204838--94204877 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
94204828 CACTAACCTC
94204838 TATTTTATATTTTA
1 TATTTTAT-TTTTA
*
94204852 T-TTTTATTTTTG
1 TATTTTATTTTTA
94204864 TATTTTATTTTTA
1 TATTTTATTTTTA
94204877 T
1 T
94204878 TTGTTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 17 0.74
14 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:94204867 original size:19 final size:19
Alignment explanation
Indices: 94204840--94204884 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
94204830 CTAACCTCTA
94204840 TTTTATATTTTATTTTTAT
1 TTTTATATTTTATTTTTAT
*
94204859 TTTTGTATTTTATTTTTAT
1 TTTTATATTTTATTTTTAT
94204878 TTGTTAT
1 TT-TTAT
94204885 CAATGTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTATATTTTATTTTTAT
Found at i:94204884 original size:7 final size:6
Alignment explanation
Indices: 94204840--94204884 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
94204830 CTAACCTCTA
*
94204840 TTTTAT ATTTTAT TTTTAT TTTTGT ATTTTAT TTTTAT TTGTTAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TT-TTAT
94204885 CAATGTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 19 0.56
7 15 0.44
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:94204884 original size:13 final size:12
Alignment explanation
Indices: 94204840--94204884 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
94204830 CTAACCTCTA
94204840 TTTTATATTTTAT
1 TTTTAT-TTTTAT
*
94204853 TTTTATTTTTGT
1 TTTTATTTTTAT
94204865 ATTTTATTTTTAT
1 -TTTTATTTTTAT
94204878 TTGTTAT
1 TT-TTAT
94204885 CAATGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:94205293 original size:22 final size:22
Alignment explanation
Indices: 94205268--94205321 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
94205258 CATAACCCCT
94205268 AACCTTTAAACTA-TAA-TACATA
1 AACC-TTAAACTAGTAACT-CATA
*
94205290 AACCTTAAAATAGTAACTCATA
1 AACCTTAAACTAGTAACTCATA
94205312 AACCTTAAAC
1 AACCTTAAAC
94205322 CCTTAATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 20 0.71
23 1 0.04
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (22 bp):
AACCTTAAACTAGTAACTCATA
Found at i:94205484 original size:22 final size:22
Alignment explanation
Indices: 94205454--94205508 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
94205444 CATTAATTAA
* *
94205454 CTAAA-CCCTAAACTCTTAATC
1 CTAAATCCCTAAACCCTAAATC
* *
94205475 CTTAATCCCTAGACCCTAAATC
1 CTAAATCCCTAAACCCTAAATC
94205497 CTAAAT-CCTAAA
1 CTAAATCCCTAAA
94205509 ATATAAACTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.38, C:0.33, G:0.02, T:0.27
Consensus pattern (22 bp):
CTAAATCCCTAAACCCTAAATC
Found at i:94205557 original size:14 final size:15
Alignment explanation
Indices: 94205538--94205573 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
94205528 GACCACTAAC
94205538 CCCTAAA-CTATAAT
1 CCCTAAATCTATAAT
94205552 CCCTAAATCTATAAT
1 CCCTAAATCTATAAT
*
94205567 CCATAAA
1 CCCTAAA
94205574 ACTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
CCCTAAATCTATAAT
Found at i:94205833 original size:22 final size:22
Alignment explanation
Indices: 94205788--94205835 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
94205778 GTTTAAGATT
*
94205788 TTTTAAGGTTTAAGAGTTTAGTG
1 TTTTAAGGATTAAGAG-TTAGTG
94205811 TTTTAAGGATTATAGA-TTAGTG
1 TTTTAAGGATTA-AGAGTTAGTG
94205833 TTT
1 TTT
94205836 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAAGAGTTAGTG
Found at i:94205972 original size:40 final size:40
Alignment explanation
Indices: 94205877--94206012 Score: 193
Period size: 41 Copynumber: 3.4 Consensus size: 40
94205867 GTTATATGGC
* *
94205877 TTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTT
94205918 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
* * *
94205958 TTTAGCGGCGTTTTAACATAAAAG-GCCGCTATTGCTCTATT
1 TTTAGCGGCGTTTT-AC-CAAAAGCGCCGCTAATGCTCTGTT
94205999 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
94206013 TGGTAAAACG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 16 0.18
41 67 0.76
42 5 0.06
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (40 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
Found at i:94206031 original size:40 final size:41
Alignment explanation
Indices: 94205877--94206042 Score: 160
Period size: 41 Copynumber: 4.1 Consensus size: 41
94205867 GTTATATGGC
* ** **
94205877 TTTAGCAGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGGCT
1 TTTAGCGGCGTTTTTAATAAAAGCGCCGCTAATGCTCT-ATT
** *
94205918 TTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTAGCGGCGTTTTTAATAAAAGCGCCGCTAATGCTCTATT
* *
94205958 TTTAGCGGCGTTTTAACATAAAAG-GCCGCTATTGCTCTATT
1 TTTAGCGGCGTTTTTA-ATAAAAGCGCCGCTAATGCTCTATT
** * *
94205999 TTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTCTATG
1 TTTAGCGGCGTTTTTAATAAAAGCGCCGCTAATGCTCTATT
94206039 TTTA
1 TTTA
94206043 CAATTTTTGT
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.33
41 69 0.62
42 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAATAAAAGCGCCGCTAATGCTCTATT
Found at i:94208957 original size:126 final size:126
Alignment explanation
Indices: 94208729--94209111 Score: 624
Period size: 126 Copynumber: 3.0 Consensus size: 126
94208719 ATTTATACCC
* *
94208729 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCGCGTGGGAGCTTTTTCCAG-AATTTTGC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGC
* * *
94208793 TGATAGTGCATCCTGCTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
* * *
94208854 TTATTTTTCTACGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTTTTCTAGAAATTTTGC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGC
*
94208919 TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
*
94208980 TTATTTTTCTACGAAATACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGC
* * * *
94209045 TGACAGTGCATCATGCTTGAAGCGTTTTCTGACATTATTTGTCCAGAAACGTCTGCTCAGAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTC-GACACTATTTGTTCAGAAACGTCTACTCAGAA
94209107 TTATT
1 TTATT
94209112 CTTGCAGAAA
Statistics
Matches: 238, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 51 0.21
126 153 0.64
127 34 0.14
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGC
TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
Found at i:94211273 original size:10 final size:10
Alignment explanation
Indices: 94211258--94211282 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
94211248 AAGCAAGGAA
94211258 AGAAAGTAAC
1 AGAAAGTAAC
94211268 AGAAAGTAAC
1 AGAAAGTAAC
94211278 AGAAA
1 AGAAA
94211283 AATAACTACT
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:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:94220517 original size:48 final size:48
Alignment explanation
Indices: 94220404--94220574 Score: 218
Period size: 48 Copynumber: 3.5 Consensus size: 48
94220394 AGATCCCGTA
* ** * * *
94220404 TAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGTGT-TGACATGTGTGCCAGTG
*
94220453 TAAGACCATGTCTGGGACATGGCATCAGTGTTGATATGTGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGTGTTGACATGTGTGCCAGTG
* * *
94220501 TAAGACCATGTCTGGGACATGGCAT-TGATGATGACATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCAG-TGTTGACATGTGTGCCAGTG
*
94220549 TAAGACCATGTTTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
94220575 GGCACCGATA
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 80 0.73
49 28 0.26
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCAGTGTTGACATGTGTGCCAGTG
Found at i:94224160 original size:51 final size:51
Alignment explanation
Indices: 94224096--94224254 Score: 201
Period size: 51 Copynumber: 3.1 Consensus size: 51
94224086 ATTTTCTGTA
* *
94224096 CTCCTTCTTCTGGTCATACATCATCTACTCTATTTGGGTTAATTAGGGGTT
1 CTCCTACTTCTGGTCATACATCATCTACTCCATTTGGGTTAATTAGGGGTT
* * * * * *
94224147 CTTCTCCTTCTGGTCATACATCTTTTACTCCATCTGGGTTAATTAGGGATT
1 CTCCTACTTCTGGTCATACATCATCTACTCCATTTGGGTTAATTAGGGGTT
* * * *
94224198 CTCCTATTTCTGGTCATACGTCCTCTACTCCATTTGAGTTAATTAGGGGTT
1 CTCCTACTTCTGGTCATACATCATCTACTCCATTTGGGTTAATTAGGGGTT
*
94224249 CGCCTA
1 CTCCTA
94224255 TGTCAGCCTC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (51 bp):
CTCCTACTTCTGGTCATACATCATCTACTCCATTTGGGTTAATTAGGGGTT
Found at i:94226496 original size:46 final size:46
Alignment explanation
Indices: 94226430--94226550 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 46
94226420 TATGTCACGA
* * *
94226430 GGCCGATGCAGGT--CAGACATGTCTTACACCAGCTCTCGT-CTCAAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACCAGCTCTCATGCT--AT
** *
94226475 -GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATGCTGT
1 GGCCGATGCATGTCCCAAACATGTCTTACACCAGCTCTCATGCTAT
* *
94226520 GGCTGATGCATGTCCCAGACATGTCTTACAC
1 GGCCGATGCATGTCCCAAACATGTCTTACAC
94226551 TAGCACACAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.17
45 1 0.02
46 50 0.78
47 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACCAGCTCTCATGCTAT
Found at i:94232165 original size:13 final size:13
Alignment explanation
Indices: 94232149--94232174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94232139 CACTTTATTA
94232149 TTTAATTTTATAT
1 TTTAATTTTATAT
94232162 TTTAATTTTATAT
1 TTTAATTTTATAT
94232175 AATATGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAATTTTATAT
Found at i:94232393 original size:3 final size:3
Alignment explanation
Indices: 94232385--94232429 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
94232375 AATATTGAGG
94232385 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94232430 TAAGAAGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94232829 original size:11 final size:11
Alignment explanation
Indices: 94232796--94232837 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
94232786 TAAATATTAC
94232796 TTTATTAATAT
1 TTTATTAATAT
*
94232807 TTTAATGAAATAT
1 TTT-AT-TAATAT
94232820 TTTATTAATAT
1 TTTATTAATAT
94232831 TTTATTA
1 TTTATTA
94232838 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.56
12 4 0.15
13 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:94233008 original size:53 final size:53
Alignment explanation
Indices: 94232928--94233033 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
94232918 AAAAGAAGAA
*
94232928 AACTTTGTTGTAATTACATTTTGGTCCTTTTACCAAAAATCCACCATTTTCAC
1 AACTTTGTTGTAATTACATTTTGGTCCTTTTACCAAAAATCCACAATTTTCAC
*
94232981 AACTTTGTTGTCATTACATTTTGGTCCTTTTACCAAAAATCCACAATTTTCAC
1 AACTTTGTTGTAATTACATTTTGGTCCTTTTACCAAAAATCCACAATTTTCAC
94233034 CTAGAAGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.42
Consensus pattern (53 bp):
AACTTTGTTGTAATTACATTTTGGTCCTTTTACCAAAAATCCACAATTTTCAC
Found at i:94240558 original size:16 final size:15
Alignment explanation
Indices: 94240528--94240559 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
94240518 CAGTTAGATG
*
94240528 TAAAAATTGTATTTT
1 TAAAAACTGTATTTT
94240543 TAAAAACTGTATTTT
1 TAAAAACTGTATTTT
94240558 TA
1 TA
94240560 CATGGAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TAAAAACTGTATTTT
Found at i:94243116 original size:5 final size:5
Alignment explanation
Indices: 94243106--94243130 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
94243096 TAGGAAGATA
94243106 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
94243131 AATTTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:94247848 original size:47 final size:46
Alignment explanation
Indices: 94247738--94247912 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 46
94247728 TTCGACATGA
* * * * *
94247738 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCAAGT
* * * *
94247784 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CCTGTCAAGT
* * * *
94247831 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCAAGT
*
94247877 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
94247913 TCTATCAGAG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 72 0.65
47 39 0.35
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCAAGT
Found at i:94247912 original size:93 final size:93
Alignment explanation
Indices: 94247738--94247912 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 93
94247728 TTCGACATGA
* * * * * *
94247738 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCAAGTTGCCATGGTATCATTCAAC
**
94247803 CATGGTCTTATTCATTTCCCCGTCACGT
66 CATGGTCTTACACATTTCCCCGTCACGT
* *
94247831 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAAGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTC-TATCAAGTTGCCATGGTATCATTCAA
94247895 CCATGGTCTTACACATTT
65 CCATGGTCTTACACATTT
94247913 TCTATCAGAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (93 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCAAGTTGCCATGGTATCATTCAAC
CATGGTCTTACACATTTCCCCGTCACGT
Found at i:94250079 original size:11 final size:11
Alignment explanation
Indices: 94250063--94250114 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
94250053 TATACTAAAT
94250063 AAATAATAATA
1 AAATAATAATA
*
94250074 AAATAAT-ATT
1 AAATAATAATA
* *
94250084 AAATATCTCATA
1 AAATA-ATAATA
*
94250096 AAATATTAATA
1 AAATAATAATA
94250107 AAATAATA
1 AAATAATA
94250115 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:94252506 original size:33 final size:33
Alignment explanation
Indices: 94252469--94252558 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 33
94252459 AGGTTGATCA
*
94252469 AGAAGCAAAG-AGAAGAATATTTGAGGCTAACCG
1 AGAAG-AAAGAAGAAGAAGATTTGAGGCTAACCG
* *
94252502 AGAAGAAAGAAGAAGAAGATTTGAGGCTGATCG
1 AGAAGAAAGAAGAAGAAGATTTGAGGCTAACCG
*
94252535 AGAA-AAAGAAAGAAGAAGGTTTGA
1 AGAAGAAAG-AAGAAGAAGATTTGA
94252559 AATTGACCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.16
33 43 0.84
ACGTcount: A:0.49, C:0.07, G:0.30, T:0.14
Consensus pattern (33 bp):
AGAAGAAAGAAGAAGAAGATTTGAGGCTAACCG
Found at i:94262171 original size:17 final size:18
Alignment explanation
Indices: 94262149--94262183 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94262139 ATTTGGGCCG
94262149 TGTGGG-CCACAAGGGCA
1 TGTGGGCCCACAAGGGCA
*
94262166 TGTGGGCCCACACGGGCA
1 TGTGGGCCCACAAGGGCA
94262184 GGCCACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.29, G:0.40, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACAAGGGCA
Found at i:94270144 original size:10 final size:10
Alignment explanation
Indices: 94270131--94270168 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
94270121 AAGAAGCTAA
94270131 ATTGAGCTCG
1 ATTGAGCTCG
94270141 ATTGAGCT-G
1 ATTGAGCTCG
94270150 ACTTGAGCTCG
1 A-TTGAGCTCG
*
94270161 AGTGAGCT
1 ATTGAGCT
94270169 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:94270155 original size:20 final size:20
Alignment explanation
Indices: 94270132--94270169 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
94270122 AGAAGCTAAA
*
94270132 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
94270152 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
94270170 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:94271633 original size:12 final size:12
Alignment explanation
Indices: 94271616--94271642 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94271606 CAAAAAAATC
94271616 AAAATTCAAAAA
1 AAAATTCAAAAA
94271628 AAAATTCAAAAA
1 AAAATTCAAAAA
94271640 AAA
1 AAA
94271643 GAAAAAAAAA
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:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATTCAAAAA
Found at i:94271647 original size:19 final size:20
Alignment explanation
Indices: 94271623--94271669 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
94271613 ATCAAAATTC
94271623 AAAAAAAAATTCAAAAAAAAG-
1 AAAAAAAAA--CAAAAAAAAGT
*
94271644 AAAAAAAAAGAAAAAAAAGT
1 AAAAAAAAACAAAAAAAAGT
94271664 AAAAAA
1 AAAAAA
94271670 GAAGAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.06
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAAGT
Found at i:94271648 original size:10 final size:10
Alignment explanation
Indices: 94271635--94271675 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
94271625 AAAAAAATTC
94271635 AAAAAAAAGA
1 AAAAAAAAGA
94271645 AAAAAAAAG-
1 AAAAAAAAGA
94271654 AAAAAAAAGTA
1 AAAAAAAAG-A
*
94271665 AAAAAGAAGA
1 AAAAAAAAGA
94271675 A
1 A
94271676 GTGAAAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 9 0.32
10 11 0.39
11 8 0.29
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:94271674 original size:20 final size:19
Alignment explanation
Indices: 94271635--94271675 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
94271625 AAAAAAATTC
94271635 AAAAAAAAGAAAAAAAAAG
1 AAAAAAAAGAAAAAAAAAG
*
94271654 AAAAAAAAGTAAAAAAGAAG
1 AAAAAAAAG-AAAAAAAAAG
94271674 AA
1 AA
94271676 GTGAAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAAAG
Found at i:94272744 original size:15 final size:15
Alignment explanation
Indices: 94272719--94272765 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
94272709 AGAAAAGAAT
94272719 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
94272735 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
94272750 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
94272765 A
1 A
94272766 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:94272810 original size:12 final size:12
Alignment explanation
Indices: 94272793--94272853 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
94272783 AGTGAAAAGC
94272793 AAAAAGAGATTG
1 AAAAAGAGATTG
*
94272805 AAAAAGAAATTG
1 AAAAAGAGATTG
*
94272817 --AAAGAG-TGG
1 AAAAAGAGATTG
*
94272826 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
94272838 AAAGAGAGCTTG
1 AAAAAGAGATTG
94272850 AAAA
1 AAAA
94272854 GAAATCGAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 2 0.05
10 5 0.14
11 5 0.14
12 25 0.68
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:94272830 original size:21 final size:22
Alignment explanation
Indices: 94272795--94272844 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
94272785 TGAAAAGCAA
*
94272795 AAAGAGATTGAAAAAGAAATTG
1 AAAGAGATGGAAAAAGAAATTG
94272817 AAAGAG-TGGAAAAAGAAATTG
1 AAAGAGATGGAAAAAGAAATTG
94272838 AAAGAGA
1 AAAGAGA
94272845 GCTTGAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (22 bp):
AAAGAGATGGAAAAAGAAATTG
Found at i:94277993 original size:27 final size:28
Alignment explanation
Indices: 94277963--94278015 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
94277953 GATTCAATAT
94277963 GCAATT-TGATACAAG-AACTTTGATTTG
1 GCAATTAT-ATACAAGAAACTTTGATTTG
*
94277990 GCAATTATATACATGAAACTTTGATT
1 GCAATTATATACAAGAAACTTTGATT
94278016 GTGGTTCTAA
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:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (28 bp):
GCAATTATATACAAGAAACTTTGATTTG
Found at i:94282815 original size:28 final size:27
Alignment explanation
Indices: 94282783--94282850 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
94282773 CAATTAGTTG
94282783 GATGACAAAAAATAAAAAACT-ATAATT
1 GATGA-AAAAAATAAAAAACTAATAATT
* *
94282810 AGATGATAAAAATAAAAAATTAATAATT
1 -GATGAAAAAAATAAAAAACTAATAATT
94282838 GAGTGAAAAAAAT
1 GA-TGAAAAAAAT
94282851 TATTAATTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.24
Consensus pattern (27 bp):
GATGAAAAAAATAAAAAACTAATAATT
Found at i:94283156 original size:21 final size:21
Alignment explanation
Indices: 94283130--94283172 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
94283120 GGTTCGCTGT
*
94283130 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
94283151 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
94283172 A
1 A
94283173 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:94283172 original size:16 final size:16
Alignment explanation
Indices: 94283153--94283185 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
94283143 TGTATTGGAT
*
94283153 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
94283169 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
94283185 T
1 T
94283186 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:94283230 original size:45 final size:44
Alignment explanation
Indices: 94283164--94283258 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
94283154 GGATTAGAGG
* *
94283164 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
94283209 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
94283253 TGTAAT
1 TGTAAT
94283259 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:94288141 original size:34 final size:36
Alignment explanation
Indices: 94288102--94288185 Score: 120
Period size: 35 Copynumber: 2.4 Consensus size: 36
94288092 TTTAAAAAAA
*
94288102 TAAATTAGGTTTTAGGAG-TTTT-AAACAAATTAAT
1 TAAATTAGGTTTTAGGAGCTTTTAAAAAAAATTAAT
*
94288136 TAAATTAGTTTTTA-GAGCTTTTAAAAAAAATTAAT
1 TAAATTAGGTTTTAGGAGCTTTTAAAAAAAATTAAT
*
94288171 TAAATTAGGGTTTAG
1 TAAATTAGGTTTTAG
94288186 TTTTTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
35 23 0.53
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (36 bp):
TAAATTAGGTTTTAGGAGCTTTTAAAAAAAATTAAT
Found at i:94288193 original size:35 final size:34
Alignment explanation
Indices: 94288071--94288201 Score: 101
Period size: 35 Copynumber: 3.9 Consensus size: 34
94288061 TTTTAAAAAA
94288071 TAAATTAGGGTTTAGAATTTTTTT--AAAAA--AA-
1 TAAATTAGGGTTTAG--TTTTTTTAAAAAAATTAAT
* *** *
94288102 TAAATTAGGTTTTAGGAGTTTTAAACAAATTAAT
1 TAAATTAGGGTTTAGTTTTTTTAAAAAAATTAAT
** ** *
94288136 TAAATTAGTTTTTAGAGCTTTTAAAAAAAATTAAT
1 TAAATTAGGGTTTAG-TTTTTTTAAAAAAATTAAT
*
94288171 TAAATTAGGGTTTAGTTTTTTTAAAATAATT
1 TAAATTAGGGTTTAGTTTTTTTAAAAAAATT
94288202 TTGTGTTTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
29 4 0.05
31 18 0.23
33 2 0.03
34 26 0.33
35 28 0.36
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (34 bp):
TAAATTAGGGTTTAGTTTTTTTAAAAAAATTAAT
Found at i:94288584 original size:126 final size:126
Alignment explanation
Indices: 94288283--94288928 Score: 847
Period size: 126 Copynumber: 5.1 Consensus size: 126
94288273 AGAATTTTAT
* * * * * *
94288283 TTTTTTTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGACAGTTCTGAAAATAA-AATGTTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAA-AATAGTGTCAAA
* * * *
94288347 AACGCTTCAAGCAAGATGTACTGTCAGCAAAATTACT-AAACAAAGCTCCCATATGAACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAA-AAAGCTCCCACATGGACGCTC
* * ** *
94288409 TTTTTCTACAATAGTTCCT-AAAAAATAATTTTGAGAAAATGGTTCTGAAAAAGTAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * *
94288473 ACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGGAAAAAAGTTCTCACATGGACGATT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAAGCTCCCACATGGACGCTC
* * *
94288535 TTTTTCTACAGTAGTTCCTGAAAAAATAA-TTTGAGAAAACAGTTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * *
94288599 ACGCTTTAAGGAGGATGCACTGTCAGCAAAATTACTAGAAAAAAGCTCCCACATCGACG-TT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAAGCTCCCACATGGACGCTC
94288660 TTTTTCCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGT-AAA
1 TTTTT-CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
* * *
94288724 AATGCTTCAAGCAGGATGGACTTTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
* *
94288786 TTTTTCTACAATAGTTCCTGAAAAAATACTTTTGAGAAGAC-GATTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAG-TTCTGAAAAAATAGTGTCAAA
* * * * * *
94288850 AACGTTTTAAGCAGGATTCATTGTCAGCAAAATTACTGAAGAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
94288912 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
94288929 TTGCTTGGCC
Statistics
Matches: 458, Mismatches: 53, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
124 2 0.00
125 148 0.32
126 268 0.59
127 40 0.09
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
Found at i:94300245 original size:2 final size:2
Alignment explanation
Indices: 94300238--94300262 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94300228 ATCAACCAAG
94300238 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
94300263 ACTTTTCCTA
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:94309072 original size:28 final size:28
Alignment explanation
Indices: 94308994--94309059 Score: 125
Period size: 27 Copynumber: 2.4 Consensus size: 28
94308984 TACAGTAGTT
94308994 TCTGAAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAAATTAGAGAAGACGTA
94309022 TCT-AAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAAATTAGAGAAGACGTA
94309049 TCTGAAAAAAT
1 TCTGAAAAAAT
94309060 GATTTTGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.73
28 10 0.27
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.23
Consensus pattern (28 bp):
TCTGAAAAAATAAATTAGAGAAGACGTA
Found at i:94309280 original size:126 final size:126
Alignment explanation
Indices: 94309049--94309551 Score: 731
Period size: 126 Copynumber: 4.0 Consensus size: 126
94309039 AGAAGACGTA
* *
94309049 TCTGAAAAAATGATTTTGAGAAGATATTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCT-GGA
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTAAAAAATGCTTCAAG-TAGGA
* * * * *
94309113 TGAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACTTGGATGCTTTTTTTCTACAATAGTT
65 TGAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
* * * * * *
94309175 TTTGAAAAAATAATCTTGAGAAGATGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGTAAGAT
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGAT
* *
94309240 GCACTGTCAGCAAAAGTATTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
66 GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
* * * *
94309301 TCTGAAAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGCTTTAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGAT
* ** *
94309366 GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACACTATTTTTCTACAGTAGTT
66 GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
* * *
94309427 TCTAAAAAAATAATTTTGAGAATATGTTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGAT
* *
94309492 GCACTGTCAGCAAAAGTACTG-AAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAGTT
66 GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
94309552 CCTATTTGGC
Statistics
Matches: 332, Mismatches: 44, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
125 35 0.11
126 297 0.89
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
TCTGAAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGAT
GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
Found at i:94309495 original size:252 final size:251
Alignment explanation
Indices: 94309049--94309551 Score: 810
Period size: 252 Copynumber: 2.0 Consensus size: 251
94309039 AGAAGACGTA
* * *
94309049 TCTGAAAAAATGATTTTGAGAAGATATTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCTGGAT
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
** * * *
94309114 GAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACTTGGATGCTTTTTTTCTACAATAGTTTTTG
66 GAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACTTGGACACTATTTTTCTACAATAGTTTCTA
*
94309179 AAAAAATAATCTTGAGAAGATGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGTAAGATGCAC
131 AAAAAATAATCTTGAGAAGATGTTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAAGATGCAC
*
94309244 TGTCAGCAAAAGTATTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
196 TGTCAGCAAAAGTACTG-AAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
*
94309301 TCTGAAAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGCTTTAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
* * *
94309366 GAACTGTCAGCAAAAGTACTGAAAAAAGCTCCCA-TGTGGACACTATTTTTCTACAGTAGTTTCT
66 GAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACT-TGGACACTATTTTTCTACAATAGTTTCT
* * * *
94309430 AAAAAAATAATTTTGAGAATATGTTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGATGCA
130 AAAAAAATAATCTTGAGAAGATGTTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAAGATGCA
*
94309495 CTGTCAGCAAAAGTACTGAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAGTT
195 CTGTCAGCAAAAGTACTGAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
94309552 CCTATTTGGC
Statistics
Matches: 231, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
251 39 0.17
252 192 0.83
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (251 bp):
TCTGAAAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
GAACTATCAGCAAAAGTACTAAAAAAAGCTCCCACTTGGACACTATTTTTCTACAATAGTTTCTA
AAAAAATAATCTTGAGAAGATGTTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAAGATGCAC
TGTCAGCAAAAGTACTGAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTT
Found at i:94312010 original size:39 final size:39
Alignment explanation
Indices: 94311956--94312087 Score: 205
Period size: 39 Copynumber: 3.4 Consensus size: 39
94311946 TGCATGGTAT
*
94311956 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
94311995 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* *
94312034 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
94312073 TGGAAA-AGTATCCGG
1 TGGAAATA-TATCCGG
94312088 GCTAAGTCCC
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
38 3 0.03
39 85 0.97
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:94312113 original size:78 final size:78
Alignment explanation
Indices: 94311956--94312137 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 78
94311946 TGCATGGTAT
* * *
94311956 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCTGGAAATATATCCGGACTTGAAGTCC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAATATATCCGGACTTGAAGTCC
* *
94312021 GCAGGCTTTATGC
66 GAAGGCTTCATGC
*
94312034 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAA-AGTATCCGGGC-T-AAGT
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTTAA-TGCTGGAAATA-TATCCGGACTTGAAGT
*
94312095 CCCGAAGGCATTCGTGC
64 -CCGAAGGC-TTCATGC
* *
94312112 TGGTATTATATCCAGG-CTTAAAGTCC
1 TGGAAATATATCC-GGACTTAAAGTCC
94312138 CACATGCTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
76 4 0.04
77 11 0.12
78 73 0.81
79 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAATATATCCGGACTTGAAGTCC
GAAGGCTTCATGC
Found at i:94312419 original size:39 final size:39
Alignment explanation
Indices: 94312376--94312544 Score: 248
Period size: 39 Copynumber: 4.3 Consensus size: 39
94312366 GTGTATTCGG
* *
94312376 GGCTAAGTCCTGAAGGCATTCGTGTTGGTATTATATCCA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
** *
94312415 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
** *
94312454 GGCTAAGTCCCGAAGGCATTCGTGCTGGCGTTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
94312493 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
94312532 GGCTTAAAGTCCC
1 GGC-T-AAGTCCC
94312545 ACATGCTTTG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
39 110 0.93
40 1 0.01
41 7 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
Found at i:94314415 original size:40 final size:40
Alignment explanation
Indices: 94314378--94314562 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
94314368 GCTACTCGTT
*
94314378 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
94314418 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
94314458 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
94314497 CAAAAGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
94314538 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94314563 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 79 0.63
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:94314489 original size:79 final size:82
Alignment explanation
Indices: 94314378--94314562 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
94314368 GCTACTCGTT
* * *
94314378 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAAGCCTTC-GGATCTTAACCC
* *
94314441 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
94314458 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAAAGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAAGCCTTCGGATCTTAACCCG
* *
94314521 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
94314538 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94314563 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAAGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:94326513 original size:50 final size:49
Alignment explanation
Indices: 94326393--94326526 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 49
94326383 TAGGGTATAA
*
94326393 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACGTTAAG
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACGTTAAG
* * * **
94326442 T--CGATGCCATGTCCCAAACATGGTTTTACACTGACTCTCACGTATCCG
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACGT-TAAG
94326490 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGAC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGAC
94326527 ACATCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 38 0.52
48 3 0.04
49 1 0.01
50 31 0.42
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACGTTAAG
Found at i:94329000 original size:50 final size:49
Alignment explanation
Indices: 94328923--94329024 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 49
94328913 CAAAGCAATA
*
94328923 AGTTGGTTATAGCGCCAAGAACGTCCTGACCGTCAACTTTT-ACTTATGT
1 AGTTGGTTATAGCGCCAAGAACGTCCTGACCGCCAACTTTTCA-TTATGT
94328972 AGTTGGTTATAGCGACCAAGAACGTCCTGACCGCCAACTTTTCATTATGT
1 AGTTGGTTATAGCG-CCAAGAACGTCCTGACCGCCAACTTTTCATTATGT
94329022 AGT
1 AGT
94329025 CAATCCTGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
49 14 0.28
50 35 0.70
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (49 bp):
AGTTGGTTATAGCGCCAAGAACGTCCTGACCGCCAACTTTTCATTATGT
Found at i:94329745 original size:23 final size:23
Alignment explanation
Indices: 94329714--94329758 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
94329704 GCTAGATTTT
*
94329714 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATCATCACTAAATAA
* *
94329737 TTCTTAATATCATCATTAAATA
1 TTCTAAATATCATCACTAAATA
94329759 TTATCACTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (23 bp):
TTCTAAATATCATCACTAAATAA
Done.