Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 75 of 182
Found at i:22628071 original size:23 final size:23
Alignment explanation
Indices: 22628030--22628076 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
22628020 AAGAATCACC
*
22628030 TTAAAAAGAAAGTTGGAAAAAAA
1 TTAAAAAAAAAGTTGGAAAAAAA
*
22628053 TTAAAAATAAAAGTTGAAAAAAAA
1 TTAAAAA-AAAAGTTGGAAAAAAA
22628077 AAACAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (23 bp):
TTAAAAAAAAAGTTGGAAAAAAA
Found at i:22638784 original size:40 final size:41
Alignment explanation
Indices: 22638731--22638819 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 41
22638721 TTTAATAATA
22638731 TATATTTTTATAATTTTTAAAGAATTAAATC-ATTTTTTTT
1 TATATTTTTATAATTTTTAAAGAATTAAATCAATTTTTTTT
22638771 TATATTTTTATAATTTTTAAAGAATTAAATCAATTTTTTTT
1 TATATTTTTATAATTTTTAAAGAATTAAATCAATTTTTTTT
22638812 TATCATTT
1 TAT-ATTT
22638820 AGAGGGTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 31 0.66
41 12 0.26
42 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (41 bp):
TATATTTTTATAATTTTTAAAGAATTAAATCAATTTTTTTT
Found at i:22638851 original size:22 final size:23
Alignment explanation
Indices: 22638826--22638878 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
22638816 ATTTAGAGGG
*
22638826 TTAAAGTATAATTTTAT-CATTA
1 TTAAAGTATAATTTTATAAATTA
** *
22638848 TTAATTTAAAATTTTATAAATTA
1 TTAAAGTATAATTTTATAAATTA
22638871 -TAAAGTAT
1 TTAAAGTAT
22638879 GAAAATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAAGTATAATTTTATAAATTA
Found at i:22655667 original size:26 final size:25
Alignment explanation
Indices: 22655604--22655666 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
22655594 GACTATAAAA
*
22655604 TTTTACAATTTTATATTTAATAATT
1 TTTTACAATTTTACATTTAATAATT
* ** *
22655629 TTTATAAAATTTTACATTTTTTTATT
1 TTT-TACAATTTTACATTTAATAATT
22655655 TTTTACAATTTT
1 TTTTACAATTTT
22655667 TGTAACTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTACAATTTTACATTTAATAATT
Found at i:22663535 original size:30 final size:30
Alignment explanation
Indices: 22663456--22663537 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
22663446 TCCTCTTCCA
* * *
22663456 TTTCGTCCTCCTCCTCATCATCATCATCAT
1 TTTCATCCTCCTCCTCCTCCTCATCATCAT
22663486 TTTCATCCTCCTCCTCCTCCTCATCATCAT
1 TTTCATCCTCCTCCTCCTCCTCATCATCAT
*
22663516 TTTCATCCTCCTCCCCCTCCTC
1 TTTCATCCTCCTCCTCCTCCTC
22663538 CTCGTCCTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.12, C:0.48, G:0.01, T:0.39
Consensus pattern (30 bp):
TTTCATCCTCCTCCTCCTCCTCATCATCAT
Found at i:22667763 original size:7 final size:7
Alignment explanation
Indices: 22667751--22667783 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22667741 ATAATAAATA
22667751 TATTTTT
1 TATTTTT
22667758 TA-TTTT
1 TATTTTT
22667764 TATTTTT
1 TATTTTT
22667771 TATTTTT
1 TATTTTT
*
22667778 AATTTT
1 TATTTT
22667784 AAAATACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:22667769 original size:13 final size:13
Alignment explanation
Indices: 22667751--22667783 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
22667741 ATAATAAATA
22667751 TATTTTTTATTTT
1 TATTTTTTATTTT
22667764 TATTTTTTATTTT
1 TATTTTTTATTTT
*
22667777 TAATTTT
1 TATTTTT
22667784 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:22669768 original size:36 final size:35
Alignment explanation
Indices: 22669724--22669796 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
22669714 AATTTTAATA
22669724 TTTTTTTAATA-ATTAATAATTAATAAT-TTATTTAT
1 TTTTTTTAATACATTAAT-ATT-ATAATATTATTTAT
* *
22669759 TTTTATTTAATACATTGATATTATAATATTTTTTAT
1 TTTT-TTTAATACATTAATATTATAATATTATTTAT
22669795 TT
1 TT
22669797 CACAAGCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 9 0.27
36 19 0.58
37 5 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (35 bp):
TTTTTTTAATACATTAATATTATAATATTATTTAT
Found at i:22670439 original size:22 final size:22
Alignment explanation
Indices: 22670393--22670439 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22670383 AAATATGTTG
* *
22670393 TTTTCTTCTTGTTTTCTCATTA
1 TTTTCTTATTGTTTTCTCATCA
22670415 TTTTCTTATTGTTTTGCTC-TCA
1 TTTTCTTATTGTTTT-CTCATCA
22670437 TTT
1 TTT
22670440 CACTATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTTCTTATTGTTTTCTCATCA
Found at i:22675371 original size:28 final size:27
Alignment explanation
Indices: 22675326--22675390 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
22675316 AAATAATAAC
* **
22675326 AAAATTAACAACAAAACAACAATTATAT
1 AAAA-TAAAAACAAAACAACAACAATAT
*
22675354 AAAATAAAAACAATAACAATAACAATAT
1 AAAATAAAAACAA-AACAACAACAATAT
*
22675382 AAAGTAAAA
1 AAAATAAAA
22675391 TGACAGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (27 bp):
AAAATAAAAACAAAACAACAACAATAT
Found at i:22680017 original size:16 final size:16
Alignment explanation
Indices: 22679996--22680064 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
22679986 ATATCTAATC
22679996 ATATAATAAATTATTA
1 ATATAATAAATTATTA
**
22680012 ATATAATTTATTATT-
1 ATATAATAAATTATTA
22680027 -TA-AATAAATTATTTA
1 ATATAATAAATTA-TTA
*
22680042 ATAT-TTAAATT-TTA
1 ATATAATAAATTATTA
*
22680056 ATTTAATAA
1 ATATAATAA
22680065 TAAATATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
13 7 0.17
14 10 0.24
15 3 0.07
16 21 0.51
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:22680074 original size:19 final size:19
Alignment explanation
Indices: 22680037--22680096 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
22680027 TAAATAAATT
*
22680037 ATTTAATATTTAAAT-TTTA
1 ATTTAATA-ATAAATATTTA
22680056 ATTTAATAATAAATATTT-
1 ATTTAATAATAAATATTTA
* *
22680074 ATGATAATTATAAATATATTA
1 AT-TTAATAATAAATAT-TTA
22680095 AT
1 AT
22680097 AATAAATGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.21
19 23 0.68
20 2 0.06
21 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTAATAATAAATATTTA
Found at i:22683379 original size:21 final size:22
Alignment explanation
Indices: 22683350--22683396 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
22683340 CAGAAGGAGT
*
22683350 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22683372 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22683393 GAGT
1 GAGT
22683397 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:22687196 original size:22 final size:23
Alignment explanation
Indices: 22687155--22687198 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
22687145 TAAGATAATT
22687155 ATATATAAAATTTTAATAAATAAA
1 ATATATAAAA-TTTAATAAATAAA
*
22687179 ATATATAAAA-TTATTAAATA
1 ATATATAAAATTTAATAAATA
22687199 TTAAATCAAA
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:22695682 original size:4 final size:4
Alignment explanation
Indices: 22695673--22695708 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
22695663 GTAGTGAGAT
22695673 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
22695709 TTATCATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:22698116 original size:265 final size:266
Alignment explanation
Indices: 22697641--22698231 Score: 794
Period size: 265 Copynumber: 2.2 Consensus size: 266
22697631 CCTAACCTAT
* *
22697641 AAAGAACATACCAACC-ACAAAAAGATAAGGAAAACTTAGAACCCATTGGAGCAAAAGACATGAA
1 AAAGAACATACCAACCAACAAAAAG-GAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAA
* * * * * *
22697705 ATTTCAACAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACCCATTTCAGGAGATTACAATTATT
65 ATTTCAAAAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACACATTACAGCAAAGTACAATTATT
** * *
22697770 ACACAAAGAACATACCAACCAACAAAAAAGGAAGTGAGAGTTAGAACCCATTAAAGCAAAAGACT
130 ACACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACT
** * * *
22697835 TAAAACTTTCAACAAAAAGCTCAAAAACTCAATAGACTTGAATCTACACATTACGGCAAAGTATA
195 TAAAACTTTCAAC-AAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACA
22697900 ATTACAAC
259 ATTACAAC
* * *
22697908 AAAGAACATACTAACCAACAAAAAGGAAGAAAAACTTAGAACCTATTGGAGCAAAGGACATGAAA
1 AAAGAACATACCAACCAACAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAAA
* * ** * * * *
22697973 TTTCAAAAAAAGCTCAGAATTTTAGTAG-ACTTGAATCTACATATTACAGCAAAGTATAATTA-T
66 TTTCAAAAAAAGCTCAAAAATTTAAAAGAAC-AGAAGCTACACATTACAGCAAAGTACAATTATT
* **
22698036 A-ACAAAGAACATACGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACT
130 ACACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACT
*
22698100 TAAAACTTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGATACACATTACAGCAAAGCACAA
195 TAAAACTTTCAACAAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACAA
*
22698165 TTATAAC
260 TTACAAC
** *
22698172 AAAGAACATAGGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAACAAAAGAC
1 AAAGAACATACCAACCAAC-AAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGAC
22698232 TTAAACTTGA
Statistics
Matches: 283, Mismatches: 38, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
264 69 0.24
265 106 0.37
266 4 0.01
267 96 0.34
268 8 0.03
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.18
Consensus pattern (266 bp):
AAAGAACATACCAACCAACAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAAA
TTTCAAAAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACACATTACAGCAAAGTACAATTATTA
CACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACTT
AAAACTTTCAACAAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACAAT
TACAAC
Found at i:22698167 original size:133 final size:132
Alignment explanation
Indices: 22697641--22698236 Score: 723
Period size: 133 Copynumber: 4.5 Consensus size: 132
22697631 CCTAACCTAT
* * * *
22697641 AAAGAACATACCAACC-AC-AAAAAGATAAGGAAAACTTAGAACCCATTGGAGCAAAAGACATGA
1 AAAGAACATACCAACCAACAAAAAAG-GAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAA
* * * * * * * *
22697704 AATTTCAACAAAAGCTCAAAAATTTAAAAGAAC-AGAAGCTACCCATTTCAGGAGATTACAATTA
65 AATTTCAACAAAAGCTCAAAAATTCAATAG-ACTTGAAGCTACACATTACAGCAAAGTACAATTA
22697768 TTACAC
129 -TA-AC
** * * **
22697774 AAAGAACATACCAACCAACAAAAAAGGAAGTGAGAGTTAGAACCCATTAAAGCAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* * * *
22697839 ACTTTCAACAAAAAGCTCAAAAACTCAATAGACTTGAATCTACACATTACGGCAAAGTATAATTA
66 A-TTTCAAC-AAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTA
*
22697904 CAAC
129 TAAC
* * * * *
22697908 AAAGAACATACTAACCAAC-AAAAAGGAAGAAAAACTTAGAACCTATTGGAGCAAAGGACATGAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* * * * * * * *
22697972 ATTTCAAAAAAAGCTCAGAATTTTAGTAGACTTGAATCTACATATTACAGCAAAGTATAATTATA
66 ATTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTATA
22698037 AC
131 AC
*
22698039 AAAGAACATACGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* *
22698104 ACTTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGATACACATTACAGCAAAGCACAATTAT
66 A-TTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTAT
22698169 AAC
130 AAC
** *
22698172 AAAGAACATAGGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAACAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
22698237 CTTGACATAG
Statistics
Matches: 397, Mismatches: 59, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
131 69 0.17
132 48 0.12
133 171 0.43
134 53 0.13
135 16 0.04
136 40 0.10
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.18
Consensus pattern (132 bp):
AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
ATTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTATA
AC
Found at i:22701291 original size:16 final size:18
Alignment explanation
Indices: 22701272--22701311 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22701262 TACAATTTTT
*
22701272 TTAAAAATA-T-AATATA
1 TTAAAAATACTAAAAATA
22701288 TTAAAAATACTAAAAATA
1 TTAAAAATACTAAAAATA
22701306 TTAAAA
1 TTAAAA
22701312 TAAATGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 1 0.05
18 11 0.52
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAATACTAAAAATA
Found at i:22709043 original size:17 final size:17
Alignment explanation
Indices: 22709009--22709043 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22708999 AAATTTAATA
*
22709009 TTTAATTTCCCTATTTT
1 TTTAATTTCCCTACTTT
*
22709026 TTTAATTTCTCTACTTT
1 TTTAATTTCCCTACTTT
22709043 T
1 T
22709044 ATTTTGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAATTTCCCTACTTT
Found at i:22711082 original size:51 final size:51
Alignment explanation
Indices: 22711027--22711163 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
22711017 TATGGTAACT
*
22711027 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAAATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAAATAAGATATGG
* * * ** * * **
22711078 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAAATAAGATATGG
*
22711129 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
22711164 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAAATAAGATATGG
Found at i:22711740 original size:270 final size:270
Alignment explanation
Indices: 22711259--22711799 Score: 1055
Period size: 270 Copynumber: 2.0 Consensus size: 270
22711249 AGCCTCCCCC
22711259 TCATTTGTACTCACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAATAGAGAGCATTTA
1 TCATTTGTACTCACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAATAGAGAGCATTTA
*
22711324 CTCAAACACTTTGTGTGCGTCCCTTTCTTTTGTTCTTTATAAGCTTCTTTTGGCATAAGTTTGCT
66 CTCAAACACTTTGTGTGCGTCCCTTTCTGTTGTTCTTTATAAGCTTCTTTTGGCATAAGTTTGCT
*
22711389 TCCGCTGTACGAGTTGGTGCCTTGGAGGAGTTCTTAAGGAATCCTCATTCGAGTAAAGGCTGACT
131 TCCGCTGTACGAGTTGGTGCCTTGGAGGAGTTCTTAAGGAATCCTCATTCGAGCAAAGGCTGACT
*
22711454 TGGGCGAGTTTGGACGAGCGAATCGCCTAAGGCCGCACGGATCGCGAGACGAAAGGTCCAGCCCC
196 TGGGCGAGTTTGGACGAGCGAATCGCCTAAGGCCGCACGGATCGAGAGACGAAAGGTCCAGCCCC
22711519 GTGACACTAG
261 GTGACACTAG
22711529 TCATTTGTACTCACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAATAGAGAGCATTTA
1 TCATTTGTACTCACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAATAGAGAGCATTTA
22711594 CTCAAACACTTTGTGTGCGTCCCTTTCTGTTGTTCTTTATAAGCTTCTTTTGGCATAAGTTTGCT
66 CTCAAACACTTTGTGTGCGTCCCTTTCTGTTGTTCTTTATAAGCTTCTTTTGGCATAAGTTTGCT
22711659 TCCGCTGTACGAGTTGGTGCCTTGGAGGAGTTCTTAAGGAATCCTCATTCGAGCAAAGGCTGACT
131 TCCGCTGTACGAGTTGGTGCCTTGGAGGAGTTCTTAAGGAATCCTCATTCGAGCAAAGGCTGACT
22711724 TGGGCGAGTTTGGACGAGCGAATCGCCTAAGGCCGCACGGATCGAGAGACGAAAGGTCCAGCCCC
196 TGGGCGAGTTTGGACGAGCGAATCGCCTAAGGCCGCACGGATCGAGAGACGAAAGGTCCAGCCCC
22711789 GTGACACTAG
261 GTGACACTAG
22711799 T
1 T
22711800 GTGGTGATGG
Statistics
Matches: 268, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
270 268 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (270 bp):
TCATTTGTACTCACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAATAGAGAGCATTTA
CTCAAACACTTTGTGTGCGTCCCTTTCTGTTGTTCTTTATAAGCTTCTTTTGGCATAAGTTTGCT
TCCGCTGTACGAGTTGGTGCCTTGGAGGAGTTCTTAAGGAATCCTCATTCGAGCAAAGGCTGACT
TGGGCGAGTTTGGACGAGCGAATCGCCTAAGGCCGCACGGATCGAGAGACGAAAGGTCCAGCCCC
GTGACACTAG
Found at i:22711940 original size:21 final size:21
Alignment explanation
Indices: 22711916--22711959 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22711906 TACAAACTGA
22711916 TAACAAAACCAGAGGATGGTT
1 TAACAAAACCAGAGGATGGTT
* * *
22711937 TAACAGAATCAGATGATGGTT
1 TAACAAAACCAGAGGATGGTT
22711958 TA
1 TA
22711960 CCTGCTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (21 bp):
TAACAAAACCAGAGGATGGTT
Found at i:22723431 original size:13 final size:13
Alignment explanation
Indices: 22723413--22723442 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
22723403 TTTGGCAAGC
22723413 ATTGCAATATTGA
1 ATTGCAATATTGA
22723426 ATTGCAATATTGA
1 ATTGCAATATTGA
22723439 ATTG
1 ATTG
22723443 ACTCAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (13 bp):
ATTGCAATATTGA
Found at i:22724929 original size:50 final size:50
Alignment explanation
Indices: 22724799--22725041 Score: 283
Period size: 50 Copynumber: 4.8 Consensus size: 50
22724789 GATAATAACA
* * ** * *
22724799 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA-CCTCTCAT-CTCGG
* *
22724850 TGTCC-ATGCCATGTCCCAGACATGTTCTTACAGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
* *
22724900 TGCCAACGCCATTTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
* * *
22724950 TGTCAATGCAATGTCCCAGACATTGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
* * * * *
22725000 TGCCAGTGCAATGTCCCAGACATTGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCT
22725042 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.02
50 133 0.79
51 31 0.18
52 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
Found at i:22732466 original size:51 final size:51
Alignment explanation
Indices: 22732394--22732628 Score: 470
Period size: 51 Copynumber: 4.6 Consensus size: 51
22732384 ACATGCCAAA
22732394 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
22732445 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
22732496 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
22732547 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
22732598 GCCATGTCCCAGACATGGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT
22732629 CTCTTTACCC
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 184 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
Found at i:22732748 original size:13 final size:13
Alignment explanation
Indices: 22732727--22732758 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22732717 GCTTGGATCA
*
22732727 TCATCAAATAAAT
1 TCATAAAATAAAT
22732740 TCATAAAATAAAT
1 TCATAAAATAAAT
22732753 TCATAA
1 TCATAA
22732759 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:22733005 original size:29 final size:30
Alignment explanation
Indices: 22732968--22733027 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
22732958 GCCCTCGACT
*
22732968 CTAACTTTTT-CAAAATTACAATTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
* *
22732997 CTAAATTTTTACATAATTACATTTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
22733027 C
1 C
22733028 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
CTAAATTTTTACAAAATTACAATTTTGCCC
Found at i:22753436 original size:4 final size:4
Alignment explanation
Indices: 22753427--22753451 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22753417 TTTCGAACTT
22753427 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
22753452 CAAAAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:22764354 original size:3 final size:3
Alignment explanation
Indices: 22764346--22764377 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22764336 AATGCAGGTA
22764346 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
22764378 ATCAATGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:22769564 original size:3 final size:3
Alignment explanation
Indices: 22769558--22769582 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22769548 AAAAATAGAA
22769558 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
22769583 ACAGAGTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:22774932 original size:22 final size:22
Alignment explanation
Indices: 22774890--22774935 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22774880 TTGATTTTTG
**
22774890 AAAATATTTTTTATTTATAAAA
1 AAAATATTTTTTAAATATAAAA
*
22774912 AAAATATTTTTTAAA-ATTAAA
1 AAAATATTTTTTAAATATAAAA
22774933 AAA
1 AAA
22774936 CATGTTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATATTTTTTAAATATAAAA
Found at i:22786460 original size:14 final size:15
Alignment explanation
Indices: 22786433--22786461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22786423 TATATATTCA
22786433 AAATATTTTATTTAT
1 AAATATTTTATTTAT
22786448 AAATATTTT-TTTAT
1 AAATATTTTATTTAT
22786462 GATATCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATATTTTATTTAT
Found at i:22791551 original size:228 final size:224
Alignment explanation
Indices: 22791011--22791680 Score: 1044
Period size: 223 Copynumber: 3.0 Consensus size: 224
22791001 TCACTTTTAG
* * ** * * * *
22791011 TATATGGAGATCCTTGAAGGTTCGTGATTGTGTTTATTACTGTCTAGAACTTAAGCTCCTAAATA
1 TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
*
22791076 GTTAGATTGATTTACATTTTGGCATACTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
66 GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
* *
22791141 TATCATTTGTTTTGGCCGTCCACAGTATTGTTCGAGTCCTCATGCATGTGCCTTTCATAGTTATC
131 TATCATTTGTTTTGGCCGTCCACAGTCTTGTT-GAGTCCTCATGCATGTGCCTTTCTTAGTTATC
*
22791206 AATATTTCAAAGCATCTTTGTGCATGCGTT
195 AATATTTCAAAGCATCTTTGTGCATGTGTT
*
22791236 TA-AT-GAGATCCTCAATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
1 TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
*
22791299 GTTAGATTGGTTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
66 GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
* * *
22791364 TGTCATTTGTTTTGGCCGTCCACAGTCTTGTTGAGTCCTCATGCATGTGCCTTTTTTAGTTACCA
131 TATCATTTGTTTTGGCCGTCCACAGTCTTGTTGAGTCCTCATGCATGTGCCTTTCTTAGTTATCA
22791429 ATATTTCAAAGCATCTTTGTGCATGTGTTT
196 ATATTTCAAAGCATCTTTGTGCATGTG-TT
*
22791459 AATGATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTTCTAA
1 --T-ATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAA
*
22791524 ATAGTTAGATTGATTTACATATTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCT
63 ATAGTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCT
* ** *
22791589 TTATATCATTTGTTTTGGCCAT-C-CAGTCTCATCTGAGTCCTCATGGATGTGCCTTTCTTAGTT
128 TTATATCATTTGTTTTGGCCGTCCACAGTCTTGT-TGAGTCCTCATGCATGTGCCTTTCTTAGTT
22791652 ATCAATA-TTCAAAGCATCTTTGTGCATGT
192 ATCAATATTTCAAAGCATCTTTGTGCATGT
22791681 ATTTTATCAC
Statistics
Matches: 410, Mismatches: 28, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
222 56 0.14
223 145 0.35
224 2 0.00
225 3 0.01
226 30 0.07
227 37 0.09
228 137 0.33
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (224 bp):
TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
TATCATTTGTTTTGGCCGTCCACAGTCTTGTTGAGTCCTCATGCATGTGCCTTTCTTAGTTATCA
ATATTTCAAAGCATCTTTGTGCATGTGTT
Found at i:22815490 original size:20 final size:20
Alignment explanation
Indices: 22815465--22815515 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
22815455 AATGGGATAC
22815465 ACTTTTGTGGTATAACTATG
1 ACTTTTGTGGTATAACTATG
22815485 ACTTTTGTGGTATAACTATG
1 ACTTTTGTGGTATAACTATG
22815505 ACTTTTGTGGT
1 ACTTTTGTGGT
22815516 CTTAACTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.47
Consensus pattern (20 bp):
ACTTTTGTGGTATAACTATG
Found at i:22821937 original size:3 final size:3
Alignment explanation
Indices: 22821929--22821981 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
22821919 TTGTTATTTC
*
22821929 TAT TAT TAT TA- AAT TAGT T-T TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
22821974 CAT TAT TA
1 TAT TAT TA
22821982 GTTTTATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 34 0.81
4 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:22821972 original size:16 final size:16
Alignment explanation
Indices: 22821951--22821981 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22821941 ATTAGTTTTA
*
22821951 TTATTATTATTATTAT
1 TTATTATCATTATTAT
22821967 TTATTATCATTATTA
1 TTATTATCATTATTA
22821982 GTTTTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATCATTATTAT
Found at i:22822666 original size:12 final size:12
Alignment explanation
Indices: 22822645--22822676 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22822635 TTTTATAGCC
*
22822645 TTATTCATTTCT
1 TTATTTATTTCT
22822657 TTATTTATTTCT
1 TTATTTATTTCT
22822669 TTATTTAT
1 TTATTTAT
22822677 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:22825568 original size:93 final size:92
Alignment explanation
Indices: 22825407--22825580 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 92
22825397 ATTTTGTTAC
* ** *
22825407 AACAATTAATACAATTAACAATTAATAATTTTACTAACAAACTGTTAATACCAATTACTAATTAA
1 AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTTAATACCAA-TAAAAAATAA
*
22825472 TAATTTGATATAATTTGATAATTTTAGT
65 TAATTTGATACAATTTGATAATTTTAGT
*
22825500 AACAATTAATACAATTAACAATTCATAATTTTACTAACAAAATGTTGACTAGTA-CAA-AAAAAA
1 AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTT-A--A-TACCAATAAAAAA
22825563 T-ATAATTTGATACAATTT
62 TAATAATTTGATACAATTT
22825581 TAATAACAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
93 60 0.85
94 5 0.07
96 4 0.06
97 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (92 bp):
AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTTAATACCAATAAAAAATAAT
AATTTGATACAATTTGATAATTTTAGT
Found at i:22825595 original size:16 final size:16
Alignment explanation
Indices: 22825576--22825616 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
22825566 AATTTGATAC
22825576 AATTTTAATAACAATT
1 AATTTTAATAACAATT
22825592 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
22825608 AGTTTTAAT
1 AATTTTAAT
22825617 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:22825642 original size:24 final size:24
Alignment explanation
Indices: 22825590--22825678 Score: 137
Period size: 24 Copynumber: 3.8 Consensus size: 24
22825580 TTAATAACAA
* *
22825590 TTAATTTTAAT-AACAAT-TAGTT
1 TTAATTTTAATAAAAAATATAATT
22825612 TTAATTTTAATAAAAAATATAATT
1 TTAATTTTAATAAAAAATATAATT
22825636 TTAATTTTAATAAAAAATATAATT
1 TTAATTTTAATAAAAAATATAATT
*
22825660 TTAATTTTAATTAAAAATA
1 TTAATTTTAATAAAAAATA
22825679 GGCCTGGCCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 11 0.18
23 5 0.08
24 46 0.74
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
TTAATTTTAATAAAAAATATAATT
Found at i:22827749 original size:18 final size:18
Alignment explanation
Indices: 22827726--22827761 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22827716 TAGGTGCGTT
22827726 TTCCTTGACATGTCAATA
1 TTCCTTGACATGTCAATA
22827744 TTCCTTGACATGTCAATA
1 TTCCTTGACATGTCAATA
22827762 GGAAAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TTCCTTGACATGTCAATA
Found at i:22831196 original size:42 final size:42
Alignment explanation
Indices: 22831149--22831229 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
22831139 TTCCTCCAGA
* * *
22831149 ACCTCCTGCCCCGATTAGAGCTAGTTCTCCTCCACCACCACC
1 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACCACC
*
22831191 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTGCACCACC
1 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACC
22831230 TCCCGCACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.48, G:0.12, T:0.20
Consensus pattern (42 bp):
ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACCACC
Found at i:22836709 original size:18 final size:18
Alignment explanation
Indices: 22836672--22836709 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22836662 CCAGAGTTTT
*
22836672 AAGATAAACAGAGCCGAA
1 AAGATAAACAGAGCCAAA
22836690 AAGATAAACA-AGGCCAAA
1 AAGATAAACAGA-GCCAAA
22836708 AA
1 AA
22836710 AGAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.61, C:0.16, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGATAAACAGAGCCAAA
Found at i:22839796 original size:35 final size:35
Alignment explanation
Indices: 22839744--22839820 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
22839734 AACCTTGAAC
* * *
22839744 CCTTAAACCCTTAAATTCTAAACCC-GAACCCGTAA
1 CCTTGAACCCTTAAATTCTAAACCCAAAACCC-AAA
* *
22839779 CCTTGAACCCTTGAATTCTGAACCCAAAACCCAAA
1 CCTTGAACCCTTAAATTCTAAACCCAAAACCCAAA
22839814 CCTTGAA
1 CCTTGAA
22839821 TGTTAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 31 0.86
36 5 0.14
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (35 bp):
CCTTGAACCCTTAAATTCTAAACCCAAAACCCAAA
Found at i:22844763 original size:17 final size:17
Alignment explanation
Indices: 22844718--22844764 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
22844708 AACTAAATTC
22844718 AAAATTACTTAAAACTCG
1 AAAA-TACTTAAAACTCG
* *
22844736 AAAATATTTAAATCT-G
1 AAAATACTTAAAACTCG
22844752 AAAATAACTTAAA
1 AAAAT-ACTTAAA
22844765 CCTAAAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 15 0.60
18 4 0.16
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAATACTTAAAACTCG
Found at i:22851033 original size:33 final size:30
Alignment explanation
Indices: 22850980--22851039 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
22850970 TAAAAAAAGG
*
22850980 TATAAATTTATTAAATATTAAAATAATATAA
1 TATAAATTTATTAAAAATTAAAA-AATATAA
*
22851011 TATAAATATTTTTAAAAAATTAAAAAATA
1 TATAAAT-TTATT-AAAAATTAAAAAATA
22851040 ATATGGACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.28
32 8 0.32
33 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TATAAATTTATTAAAAATTAAAAAATATAA
Found at i:22853800 original size:24 final size:26
Alignment explanation
Indices: 22853762--22853810 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
22853752 TAACACATAG
22853762 AAAATTTTAACAAATAAAAAAAATAC
1 AAAATTTTAACAAATAAAAAAAATAC
*
22853788 AAAA-TTTAA-AAATAAAAATAATA
1 AAAATTTTAACAAATAAAAAAAATA
22853811 AATTAATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 5 0.23
26 4 0.18
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAATTTTAACAAATAAAAAAAATAC
Found at i:22854604 original size:7 final size:6
Alignment explanation
Indices: 22854579--22854617 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
22854569 ATCAATATAT
*
22854579 ATTAAA ATTAAA ATTAAA ATTTAAA AATATAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA A-TTAAA ATTA-AA ATTAAA A
22854618 CTCAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:22854604 original size:13 final size:12
Alignment explanation
Indices: 22854579--22854617 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
22854569 ATCAATATAT
22854579 ATTAAAATTAAA
1 ATTAAAATTAAA
22854591 ATTAAAATTTAAA
1 ATTAAAA-TTAAA
*
22854604 AATATAAATTAAA
1 ATTA-AAATTAAA
22854617 A
1 A
22854618 CTCAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 14 0.58
14 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAAATTAAA
Found at i:22854612 original size:20 final size:19
Alignment explanation
Indices: 22854580--22854617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22854570 TCAATATATA
*
22854580 TTAAAATTAAAATTAAAAT
1 TTAAAAATAAAATTAAAAT
22854599 TTAAAAATATAAATTAAAA
1 TTAAAAATA-AAATTAAAA
22854618 CTCAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAATAAAATTAAAAT
Found at i:22858991 original size:31 final size:31
Alignment explanation
Indices: 22858956--22859020 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
22858946 AACAACCTAA
* *
22858956 TGACTTCAATAAAAATTTTCGAATAATTTAG
1 TGACTTAAATAAAAACTTTCGAATAATTTAG
* *
22858987 TGACTTAAATGAAAACTTTCGAATAGTTTAG
1 TGACTTAAATAAAAACTTTCGAATAATTTAG
22859018 TGA
1 TGA
22859021 GTTTTGAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAATTTAG
Found at i:22865900 original size:15 final size:15
Alignment explanation
Indices: 22865869--22865916 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
22865859 AACATGAAAA
22865869 ATAAATATAAA---T
1 ATAAATATAAATTTT
22865881 ATAAATATAAATTTT
1 ATAAATATAAATTTT
*
22865896 ATAAA-AAAATATTTT
1 ATAAATATAA-ATTTT
22865911 ATAAAT
1 ATAAAT
22865917 TGTTCATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.37
14 3 0.10
15 16 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATATAAATTTT
Found at i:22866734 original size:17 final size:18
Alignment explanation
Indices: 22866712--22866745 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22866702 TAAATTAAGT
*
22866712 AATTTTTTA-ATTAATTG
1 AATTTTCTAGATTAATTG
22866729 AATTTTCTAGATTAATT
1 AATTTTCTAGATTAATT
22866746 AAAGGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
AATTTTCTAGATTAATTG
Found at i:22881862 original size:31 final size:30
Alignment explanation
Indices: 22881794--22881862 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
22881784 CTTAACAGTC
*
22881794 CAGTGACTTAAATAAAATTTTCAAATAGTT
1 CAGTGACTTAAATAAAACTTTCAAATAGTT
* * * * *
22881824 TAATGACTTACATGAAAACTTTCGAGTAGTT
1 CAGTGACTTAAAT-AAAACTTTCAAATAGTT
22881855 CAGTGACT
1 CAGTGACT
22881863 ATTTTGTAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (30 bp):
CAGTGACTTAAATAAAACTTTCAAATAGTT
Found at i:22903771 original size:14 final size:14
Alignment explanation
Indices: 22903749--22903782 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22903739 AATAATATTG
*
22903749 ATAACTTCATCTAT
1 ATAATTTCATCTAT
22903763 ATAATTTCATCTAT
1 ATAATTTCATCTAT
22903777 ATAATT
1 ATAATT
22903783 AAAAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTTCATCTAT
Found at i:22904941 original size:31 final size:31
Alignment explanation
Indices: 22904906--22904974 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
22904896 ATTAATAATG
*
22904906 ATAAAATTGTACTTTAA-CCTTTCAAAAATTA
1 ATAAAATT-TAATTTAATCCTTTCAAAAATTA
* *
22904937 ATAAAATTTAATTTAATCTTTTTAAAAATTA
1 ATAAAATTTAATTTAATCCTTTCAAAAATTA
*
22904968 TTAAAAT
1 ATAAAAT
22904975 ATAAATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAAAATTTAATTTAATCCTTTCAAAAATTA
Found at i:22904982 original size:15 final size:17
Alignment explanation
Indices: 22904961--22905000 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
22904951 AATCTTTTTA
22904961 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATAAT
22904977 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
22904993 AAAATTAT
1 AAAATTAT
22905001 ATTTTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:22906049 original size:29 final size:29
Alignment explanation
Indices: 22906016--22906083 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
22906006 TACTTTGGTC
* *
22906016 TAAATTAAATTAATCTTTCAACTATTAAA
1 TAAATCAAATTAATCATTCAACTATTAAA
* **
22906045 TAAATCAATTTAATCATTGTACTATTAAA
1 TAAATCAAATTAATCATTCAACTATTAAA
*
22906074 AAGAATCAAA
1 TA-AATCAAA
22906084 CAACGTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAATCAAATTAATCATTCAACTATTAAA
Found at i:22910567 original size:3 final size:3
Alignment explanation
Indices: 22910559--22910587 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22910549 ATGCATCCTA
22910559 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22910588 GCTTCCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22913528 original size:14 final size:13
Alignment explanation
Indices: 22913508--22913541 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22913498 TCCATTTATC
*
22913508 AAAATTAATATAT
1 AAAATTAATAAAT
22913521 ATAAATTAATAAAT
1 A-AAATTAATAAAT
22913535 AAAATTA
1 AAAATTA
22913542 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAATTAATAAAT
Found at i:22916742 original size:19 final size:19
Alignment explanation
Indices: 22916712--22916748 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
22916702 AAGACTCAAA
22916712 ATTTAAATTTG-AAGGTTG
1 ATTTAAATTTGAAAGGTTG
22916730 ATTTAACATTTGAAAGGTT
1 ATTTAA-ATTTGAAAGGTT
22916749 TGAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (19 bp):
ATTTAAATTTGAAAGGTTG
Found at i:22921049 original size:366 final size:366
Alignment explanation
Indices: 22920377--22921109 Score: 1466
Period size: 366 Copynumber: 2.0 Consensus size: 366
22920367 CAAGGTATAT
22920377 ACATACTTGGTTTACACATATTAGTCGAGTCGCTTTCGTATTTACTAACCCAGCCTCCATCACAG
1 ACATACTTGGTTTACACATATTAGTCGAGTCGCTTTCGTATTTACTAACCCAGCCTCCATCACAG
22920442 ACTGCATTCACCACAAAGAAAGATTATGGCAAAGAAGAAAGGGAAGCACAATGGGCACTTGCCCA
66 ACTGCATTCACCACAAAGAAAGATTATGGCAAAGAAGAAAGGGAAGCACAATGGGCACTTGCCCA
22920507 AAGAACATTGCACGGACTTCAACCACCGGAAACTTCTAATCTCTTCAATGACAAGAACAGTTACC
131 AAGAACATTGCACGGACTTCAACCACCGGAAACTTCTAATCTCTTCAATGACAAGAACAGTTACC
22920572 GGGAGTTATCGGAGATCGCCGAGCAGGCCAAGAGACGAGCCGAAGTTGCAAGGTAACAGATTAAC
196 GGGAGTTATCGGAGATCGCCGAGCAGGCCAAGAGACGAGCCGAAGTTGCAAGGTAACAGATTAAC
22920637 CCATCATGCCTTATTCATTAACACTAAAATCTATAACTGTTCATTTTATGACTCGATCACGGATT
261 CCATCATGCCTTATTCATTAACACTAAAATCTATAACTGTTCATTTTATGACTCGATCACGGATT
22920702 TCTGATGTCGGTTTTATAGGCTTCGAGAGCTTCATACACTC
326 TCTGATGTCGGTTTTATAGGCTTCGAGAGCTTCATACACTC
22920743 ACATACTTGGTTTACACATATTAGTCGAGTCGCTTTCGTATTTACTAACCCAGCCTCCATCACAG
1 ACATACTTGGTTTACACATATTAGTCGAGTCGCTTTCGTATTTACTAACCCAGCCTCCATCACAG
22920808 ACTGCATTCACCACAAAGAAAGATTATGGCAAAGAAGAAAGGGAAGCACAATGGGCACTTGCCCA
66 ACTGCATTCACCACAAAGAAAGATTATGGCAAAGAAGAAAGGGAAGCACAATGGGCACTTGCCCA
22920873 AAGAACATTGCACGGACTTCAACCACCGGAAACTTCTAATCTCTTCAATGACAAGAACAGTTACC
131 AAGAACATTGCACGGACTTCAACCACCGGAAACTTCTAATCTCTTCAATGACAAGAACAGTTACC
22920938 GGGAGTTATCGGAGATCGCCGAGCAGGCCAAGAGACGAGCCGAAGTTGCAAGGTAACAGATTAAC
196 GGGAGTTATCGGAGATCGCCGAGCAGGCCAAGAGACGAGCCGAAGTTGCAAGGTAACAGATTAAC
22921003 CCATCATGCCTTATTCATTAACACTAAAATCTATAACTGTTCATTTTATGACTCGATCACGGATT
261 CCATCATGCCTTATTCATTAACACTAAAATCTATAACTGTTCATTTTATGACTCGATCACGGATT
22921068 TCTGATGTCGGTTTTATAGGCTTCGAGAGCTTCATACACTC
326 TCTGATGTCGGTTTTATAGGCTTCGAGAGCTTCATACACTC
22921109 A
1 A
22921110 AAGGGCACGT
Statistics
Matches: 367, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
366 367 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (366 bp):
ACATACTTGGTTTACACATATTAGTCGAGTCGCTTTCGTATTTACTAACCCAGCCTCCATCACAG
ACTGCATTCACCACAAAGAAAGATTATGGCAAAGAAGAAAGGGAAGCACAATGGGCACTTGCCCA
AAGAACATTGCACGGACTTCAACCACCGGAAACTTCTAATCTCTTCAATGACAAGAACAGTTACC
GGGAGTTATCGGAGATCGCCGAGCAGGCCAAGAGACGAGCCGAAGTTGCAAGGTAACAGATTAAC
CCATCATGCCTTATTCATTAACACTAAAATCTATAACTGTTCATTTTATGACTCGATCACGGATT
TCTGATGTCGGTTTTATAGGCTTCGAGAGCTTCATACACTC
Found at i:22922666 original size:34 final size:35
Alignment explanation
Indices: 22922623--22922781 Score: 189
Period size: 35 Copynumber: 4.6 Consensus size: 35
22922613 AATAATATCT
* * * *
22922623 GGAGAGATTCCCTGTAA-TAAATGATGTGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
22922657 GGAGAGATTCCTTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
* *
22922692 GAAAAGATTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
22922727 -G-GAGACTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
* * * *
22922760 TGAAATATTCCCTGCAAGAAAA
1 GGAGAGATTCCCTGCAACAAAA
22922782 GACAAGTGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
33 30 0.28
34 16 0.15
35 61 0.57
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (35 bp):
GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
Found at i:22922748 original size:68 final size:69
Alignment explanation
Indices: 22922627--22922781 Score: 199
Period size: 68 Copynumber: 2.2 Consensus size: 69
22922617 ATATCTGGAG
* * * * * *
22922627 AGATTCCCTGTAATAAATGATGTGTGAACAGGAGAGATTCCTTGCAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAAAAATAATGCGTGAACAGGAGAGACTCCCTGCAACAAAATAATGCGTGAACA
22922692 -GAAA
66 TG-AA
22922696 AGATTCCCTGCAACAAAATAATGCGTGAACA-G-GAGACTCCCTGCAACAAAATAATGCGTGAAC
1 AGATTCCCTGCAA-AAAATAATGCGTGAACAGGAGAGACTCCCTGCAACAAAATAATGCGTGAAC
22922759 ATGAA
65 ATGAA
*
22922764 ATATTCCCTGCAAGAAAA
1 AGATTCCCTGCAA-AAAA
22922782 GACAAGTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
68 48 0.63
69 14 0.18
70 14 0.18
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (69 bp):
AGATTCCCTGCAAAAAATAATGCGTGAACAGGAGAGACTCCCTGCAACAAAATAATGCGTGAACA
TGAA
Found at i:22923278 original size:21 final size:22
Alignment explanation
Indices: 22923219--22923280 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 22
22923209 AATACTTCAA
22923219 AAATATT-AAAAATATCAAAAT
1 AAATATTAAAAAATATCAAAAT
* *
22923240 AAATATTTCTCAACAAAT-TGAAAAT
1 AAATA--T-T-AAAAAATATCAAAAT
22923265 AAATATTAAAAAATAT
1 AAATATTAAAAAATAT
22923281 GTATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
21 11 0.34
22 2 0.06
23 2 0.06
24 1 0.03
25 11 0.34
26 5 0.16
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATATTAAAAAATATCAAAAT
Found at i:22931417 original size:8 final size:8
Alignment explanation
Indices: 22931406--22931434 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22931396 AAGTATAAGC
22931406 TTATTGAG
1 TTATTGAG
22931414 TTATTGAG
1 TTATTGAG
22931422 TTATTGAG
1 TTATTGAG
22931430 TTATT
1 TTATT
22931435 TCCGATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (8 bp):
TTATTGAG
Found at i:22935588 original size:9 final size:8
Alignment explanation
Indices: 22935565--22935607 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
22935555 AGGGTTAAAA
22935565 TATAATTT
1 TATAATTT
22935573 TATAATTT
1 TATAATTT
22935581 TAATAA-TT
1 T-ATAATTT
*
22935589 TATATTTT
1 TATAATTT
22935597 TATAAATTT
1 TAT-AATTT
22935606 TA
1 TA
22935608 AAAGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 3 0.10
8 17 0.57
9 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATAATTT
Found at i:22935592 original size:16 final size:17
Alignment explanation
Indices: 22935566--22935607 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
22935556 GGGTTAAAAT
22935566 ATAATTTTATAATTTTA
1 ATAATTTTATAATTTTA
*
22935583 ATAA-TTTAT-ATTTTT
1 ATAATTTTATAATTTTA
22935598 ATAAATTTTA
1 AT-AATTTTA
22935608 AAAGATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATAATTTTA
Found at i:22941721 original size:3 final size:3
Alignment explanation
Indices: 22941713--22941738 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22941703 GGCATTTTTG
22941713 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22941739 CTGACTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22942183 original size:71 final size:71
Alignment explanation
Indices: 22942101--22942252 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 71
22942091 CCTGAATACA
22942101 GGATATAATCCCTATAGAC-TTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAAGTCTCTC
1 GGATATAATCCCTATA-ACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAAGTCTCTC
22942165 GAATTTG
65 GAATTTG
* * * *
22942172 GGATATAATCCCTATATCTTTTTTGTTTTGGTTAAAATGTGTTATTGGTCCTTGTATGTCTCTCG
1 GGATATAATCCCTATAACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAAGTCTCTCG
22942237 AATTTG
66 AATTTG
*
22942243 AGATATAATC
1 GGATATAATC
22942253 TCTGTACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 1 0.01
71 74 0.99
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.46
Consensus pattern (71 bp):
GGATATAATCCCTATAACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAAGTCTCTCG
AATTTG
Found at i:22944935 original size:22 final size:22
Alignment explanation
Indices: 22944885--22944935 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
22944875 ACAATATAAT
* * *
22944885 AACAATATAATATCGAAATGAC
1 AACAAAATAATAACAAAATGAC
*
22944907 AATAAAATAATAACAAAATGAC
1 AACAAAATAATAACAAAATGAC
*
22944929 AGCAAAA
1 AACAAAA
22944936 AAAAAGTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.12, G:0.08, T:0.18
Consensus pattern (22 bp):
AACAAAATAATAACAAAATGAC
Found at i:22953541 original size:34 final size:31
Alignment explanation
Indices: 22953474--22953533 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
22953464 AATTCAACCA
22953474 TGTAAAATAATTAAAAAATTAATTAAATATT
1 TGTAAAATAATTAAAAAATTAATTAAATATT
*
22953505 TGTAAAATAATT-AAAGATTAATT-AATATT
1 TGTAAAATAATTAAAAAATTAATTAAATATT
22953534 AGATTTGTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (31 bp):
TGTAAAATAATTAAAAAATTAATTAAATATT
Found at i:22960027 original size:18 final size:16
Alignment explanation
Indices: 22960004--22960037 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
22959994 TACTTTAGGC
22960004 TTCTTTTTCTTTTCTTTT
1 TTCTTTTT-TTTT-TTTT
22960022 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
22960038 GCAGTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:22972053 original size:20 final size:21
Alignment explanation
Indices: 22972028--22972074 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
22972018 TAAAATTTTG
22972028 ATTAATTAAAG-TAAAACAT-A
1 ATTAATT-AAGCTAAAACATAA
*
22972048 ATTAATTAAGCTAAAATATAA
1 ATTAATTAAGCTAAAACATAA
22972069 ATTAAT
1 ATTAAT
22972075 CCAAGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
ATTAATTAAGCTAAAACATAA
Found at i:22974186 original size:21 final size:21
Alignment explanation
Indices: 22974160--22974202 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22974150 ATTGGGTGAA
*
22974160 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAACTTCTGT
*
22974181 TCAGCTCTTATGAACTTCTGT
1 TCAGCTCTTACGAACTTCTGT
22974202 T
1 T
22974203 TAACTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAACTTCTGT
Found at i:22981717 original size:11 final size:11
Alignment explanation
Indices: 22981701--22981734 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
22981691 TTCCCCCCTC
22981701 CCTTCTCTCTT
1 CCTTCTCTCTT
22981712 CCTTCTCTCTT
1 CCTTCTCTCTT
*
22981723 CCCTCTCTCTT
1 CCTTCTCTCTT
22981734 C
1 C
22981735 TTTTTTTTNN
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:22983948 original size:132 final size:132
Alignment explanation
Indices: 22983711--22983975 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
22983701 TGCACAATAT
22983711 TAACACCTCTCTTAAGTCTTGTAGATACCACTAATCAAGATACACGACTCTCCGCAAAGGTTGGG
1 TAACACCTCTCTTAAGTCTTGTAGATACCACTAATCAAGATACACGACTCTCCGCAAAGGTTGGG
22983776 GACAAAATCCCATGGGGACAATGCTTTTTATTATTGAGGGGTCAATCAACTGCCCTGCGAACGAC
66 GACAAAATCCCATGGGGACAATGCTTTTTATTATTGAGGGGTCAATCAACTGCCCTGCGAACGAC
22983841 AC
131 AC
22983843 TAACACCTCTCTTAAGTCTTGTAGATACCACTAATCAAGATACACGACTCTCCGCAAAGGTTGGG
1 TAACACCTCTCTTAAGTCTTGTAGATACCACTAATCAAGATACACGACTCTCCGCAAAGGTTGGG
22983908 GACAAAATCCCATGGGGACAATGCTTTTTATTATTGAGGGGTCAATCAACTGCCCTGCGAACGAC
66 GACAAAATCCCATGGGGACAATGCTTTTTATTATTGAGGGGTCAATCAACTGCCCTGCGAACGAC
22983973 AC
131 AC
22983975 T
1 T
22983976 TTAAAGATTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (132 bp):
TAACACCTCTCTTAAGTCTTGTAGATACCACTAATCAAGATACACGACTCTCCGCAAAGGTTGGG
GACAAAATCCCATGGGGACAATGCTTTTTATTATTGAGGGGTCAATCAACTGCCCTGCGAACGAC
AC
Found at i:22984107 original size:35 final size:35
Alignment explanation
Indices: 22984061--22984128 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
22984051 AATTCATAGT
*
22984061 TTACATTCAATGGTTTATTGATCTC-ATTTAGCAGA
1 TTACATTCAATGGTTTATTAATCTCGA-TTAGCAGA
22984096 TTACATTCAATGGTTTATTAATCTCGATTAGCA
1 TTACATTCAATGGTTTATTAATCTCGATTAGCA
22984129 TTGTTGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (35 bp):
TTACATTCAATGGTTTATTAATCTCGATTAGCAGA
Found at i:22984573 original size:19 final size:16
Alignment explanation
Indices: 22984547--22984591 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
22984537 AGGCCTGTCG
22984547 GAAAAATAGGAGGGTTT
1 GAAAAATAGGA-GGTTT
*
22984564 AGATAAAATACGAGGTTT
1 -GA-AAAATAGGAGGTTT
22984582 GAAAAATAGG
1 GAAAAATAGG
22984592 TTTGGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 7 0.29
19 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (16 bp):
GAAAAATAGGAGGTTT
Found at i:22984945 original size:40 final size:40
Alignment explanation
Indices: 22984853--22984941 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
22984843 AAAAATTATA
* * * *
22984853 TTTAATACAATAAAATATTTTTTTATATTTATTTGTGTTT
1 TTTAATATAATAAAATATTTTATTATATTTATTGGTATTT
*
22984893 TGTAATATAATAAAATA-TTTATTATATTTA-TGGTAATTT
1 TTTAATATAATAAAATATTTTATTATATTTATTGGT-ATTT
22984932 TTTAATATAA
1 TTTAATATAA
22984942 ATAATTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.07
39 24 0.57
40 15 0.36
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTTATTATATTTATTGGTATTT
Found at i:22989859 original size:20 final size:19
Alignment explanation
Indices: 22989808--22989855 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
22989798 ATGAAAAATA
*
22989808 TTATATTAATTATATATGT
1 TTATATTAATTATATATAT
* *
22989827 TAAGTAATAATTATATATAT
1 TTA-TATTAATTATATATAT
22989847 TTATATTAA
1 TTATATTAA
22989856 ATTACTAACC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
TTATATTAATTATATATAT
Found at i:22990914 original size:21 final size:21
Alignment explanation
Indices: 22990865--22990934 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
22990855 TTTAAGCTGT
* *
22990865 TCTGCTTTCCTCGCTG-CAGCC
1 TCTGCTTCCCTCGCTGTC-GCA
*
22990886 TCTACTTCCCTCGCTGTCGCA
1 TCTGCTTCCCTCGCTGTCGCA
*
22990907 TCTGCTTCTCTCGCTGTCGCA
1 TCTGCTTCCCTCGCTGTCGCA
22990928 TCTGCTT
1 TCTGCTT
22990935 TAAGCTGCTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.06, C:0.40, G:0.17, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGTCGCA
Found at i:22991000 original size:21 final size:21
Alignment explanation
Indices: 22990971--22991021 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22990961 TTTCGTTGAA
* * *
22990971 CCTCAGCTTCTCTCGTTGCTG
1 CCTCTGCTTCTCTCGCTGCCG
22990992 CCTCTGCTTCTCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCCG
*
22991013 CATCTGCTT
1 CCTCTGCTT
22991022 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCCG
Found at i:22991016 original size:87 final size:87
Alignment explanation
Indices: 22990907--22991087 Score: 276
Period size: 87 Copynumber: 2.1 Consensus size: 87
22990897 CGCTGTCGCA
*
22990907 TCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGA
1 TCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGA
*
22990970 ACCTCAGCTTCTCTCGTTGCTGCC
64 ACCTCAGCTTCTCTCGATGCTGCC
* *
22990994 TCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAAC
1 TCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAAC
*
22991059 CTCAGCTTCTCTCGATGTTGCC
66 CTCAGCTTCTCTCGATGCTGCC
*
22991081 TCCGCTT
1 TCTGCTT
22991088 TAAGTTGTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 81 0.94
88 4 0.05
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (87 bp):
TCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAAC
CTCAGCTTCTCTCGATGCTGCC
Found at i:22996292 original size:30 final size:28
Alignment explanation
Indices: 22996258--22996317 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
22996248 TTGCAATGTG
22996258 AAAATGAACTAAAATTAAAGTTTGAAGTAT
1 AAAATGAAC-AAAATTAAAG-TTGAAGTAT
* * *
22996288 AAAATGCACCAAATTAAAGTTGATGTAT
1 AAAATGAACAAAATTAAAGTTGAAGTAT
22996316 AA
1 AA
22996318 CATTGTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 10 0.37
29 9 0.33
30 8 0.30
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (28 bp):
AAAATGAACAAAATTAAAGTTGAAGTAT
Found at i:23004481 original size:21 final size:23
Alignment explanation
Indices: 23004457--23004501 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23004447 AGCTCATTTT
*
23004457 TTATGTT-TTTA-ATATATCATA
1 TTATGTTATTTATATATATAATA
23004478 TTATGTTATTTATATATATAATA
1 TTATGTTATTTATATATATAATA
23004501 T
1 T
23004502 AATTTATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATGTTATTTATATATATAATA
Found at i:23007290 original size:32 final size:32
Alignment explanation
Indices: 23007249--23007311 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
23007239 GTTCAACTGC
23007249 ACTAAATTAATATCAATAGATAGGAAGCATGT
1 ACTAAATTAATATCAATAGATAGGAAGCATGT
23007281 ACTAAATTAATATCAATAGATAGGAAGCATG
1 ACTAAATTAATATCAATAGATAGGAAGCATG
23007312 GTCGAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.27
Consensus pattern (32 bp):
ACTAAATTAATATCAATAGATAGGAAGCATGT
Found at i:23007477 original size:29 final size:29
Alignment explanation
Indices: 23007444--23007520 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
23007434 ATGGGGTTTA
*
23007444 AATTGATGAGAAAATAGTAA-ATAAAAT-TT
1 AATTGAT-AGAAAATAG-AATATAAAATAGT
*
23007473 AATTGAAAGTAAAATAGAATATAAAATAGT
1 AATTGATAG-AAAATAGAATATAAAATAGT
23007503 AATTTGATAGAAAATAGA
1 AA-TTGATAGAAAATAGA
23007521 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.10
29 20 0.49
30 11 0.27
31 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (29 bp):
AATTGATAGAAAATAGAATATAAAATAGT
Found at i:23009102 original size:31 final size:31
Alignment explanation
Indices: 23009066--23009127 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
23009056 AGATAATTTT
23009066 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
23009097 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
23009128 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:23009768 original size:19 final size:20
Alignment explanation
Indices: 23009737--23009794 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
23009727 ACTTGTTTTA
*
23009737 AAACAGTTTTAACTTGATTG
1 AAACAATTTTAACTTGATTG
**
23009757 -AA-AATGTTTAACTCAATTG
1 AAACAAT-TTTAACTTGATTG
23009776 AAACAATTTTAACTTGATT
1 AAACAATTTTAACTTGATT
23009795 TTATCATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 2 0.07
19 13 0.43
20 12 0.40
21 3 0.10
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
AAACAATTTTAACTTGATTG
Found at i:23010705 original size:3 final size:3
Alignment explanation
Indices: 23010699--23010752 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
23010689 CCACCTCAGG
23010699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23010747 TAT TAT
1 TAT TAT
23010753 GGTAAACTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23019323 original size:28 final size:28
Alignment explanation
Indices: 23019283--23019353 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
23019273 ACTTAAACCT
* * * * *
23019283 ATTTTATAGATTTAATTTAATTACTTTG
1 ATTTAATAGATTTAATTGAACTAATTTA
23019311 ATTTAATAGATTTAATTGAACTAATTTA
1 ATTTAATAGATTTAATTGAACTAATTTA
23019339 ATTTAATAGATTTAA
1 ATTTAATAGATTTAA
23019354 AAATCAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (28 bp):
ATTTAATAGATTTAATTGAACTAATTTA
Found at i:23019351 original size:14 final size:14
Alignment explanation
Indices: 23019283--23019353 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
23019273 ACTTAAACCT
*
23019283 ATTTTATAGATTTA
1 ATTTAATAGATTTA
* *
23019297 ATTTAATTA-CTTTG
1 ATTTAA-TAGATTTA
23019311 ATTTAATAGATTTA
1 ATTTAATAGATTTA
*
23019325 ATTGAACTA-ATTTA
1 ATTTAA-TAGATTTA
23019339 ATTTAATAGATTTA
1 ATTTAATAGATTTA
23019353 A
1 A
23019354 AAATCAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 4 0.09
14 38 0.83
15 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (14 bp):
ATTTAATAGATTTA
Found at i:23020843 original size:113 final size:113
Alignment explanation
Indices: 23020717--23020943 Score: 427
Period size: 113 Copynumber: 2.0 Consensus size: 113
23020707 AAGTAGCTAA
* * *
23020717 ATGAAATTTTATATAAAGCAAAATGGTATAGTCTTAACAAAAGTTTCACTCTTTAGGGAACTTGC
1 ATGAAAATTTATATAAAGCAAAAAGGTATAGTCTTAACAAAAGTTTCACTCTTTAGGGAACGTGC
23020782 ATAGATCGTTTATGTTCTAAAAGAACTTTTTATCGAACAGTTGCATTC
66 ATAGATCGTTTATGTTCTAAAAGAACTTTTTATCGAACAGTTGCATTC
23020830 ATGAAAATTTATATAAAGCAAAAAGGTATAGTCTTAACAAAAGTTTCACTCTTTAGGGAACGTGC
1 ATGAAAATTTATATAAAGCAAAAAGGTATAGTCTTAACAAAAGTTTCACTCTTTAGGGAACGTGC
23020895 ATAGATCGTTTATGTTCTAAAAGAACTTTTTATCGAACAGTTGCATTC
66 ATAGATCGTTTATGTTCTAAAAGAACTTTTTATCGAACAGTTGCATTC
23020943 A
1 A
23020944 ATATGAAAAG
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (113 bp):
ATGAAAATTTATATAAAGCAAAAAGGTATAGTCTTAACAAAAGTTTCACTCTTTAGGGAACGTGC
ATAGATCGTTTATGTTCTAAAAGAACTTTTTATCGAACAGTTGCATTC
Found at i:23028540 original size:13 final size:13
Alignment explanation
Indices: 23028524--23028588 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
23028514 GTTTTTATAA
23028524 CTTTCTTTTTTTT
1 CTTTCTTTTTTTT
23028537 CTTT-TTCTTTTTT
1 CTTTCTT-TTTTTT
* **
23028550 CATTCTCTTCTGCTT
1 C-TT-TCTTTTTTTT
*
23028565 CTTTATTTTTTTT
1 CTTTCTTTTTTTT
*
23028578 CTTCCTTTTTT
1 CTTTCTTTTTT
23028589 CATCTTTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
12 2 0.05
13 26 0.67
14 4 0.10
15 5 0.13
16 2 0.05
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (13 bp):
CTTTCTTTTTTTT
Found at i:23029405 original size:11 final size:11
Alignment explanation
Indices: 23029389--23029413 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23029379 TTAGTTATTA
23029389 AATTATAAAAT
1 AATTATAAAAT
23029400 AATTATAAAAT
1 AATTATAAAAT
23029411 AAT
1 AAT
23029414 CATTTAATTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:23030809 original size:19 final size:19
Alignment explanation
Indices: 23030785--23030823 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
23030775 ACTAATTCTC
23030785 TCATTTCATTG-ATTTTTTT
1 TCATTTC-TTGAATTTTTTT
23030804 TCATTTCTTGTAATTTTTTT
1 TCATTTCTTG-AATTTTTTT
23030824 GGATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 7 0.39
20 8 0.44
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (19 bp):
TCATTTCTTGAATTTTTTT
Found at i:23038526 original size:72 final size:71
Alignment explanation
Indices: 23038410--23038552 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 71
23038400 GAACTTGAAG
*
23038410 CACGTGAATCAAACTCTAGTCTTAAGTACTTGTGTAGTTATGGCATGGACAGTTTGATAAAATTT
1 CACGTGAATCAAACTCTAGTCTTAAGTACTTGTGTACTTATGGCATGGACAGTTTGATAAAATTT
23038475 AAGAGT
66 AAGAGT
*
23038481 CACGTGAATCGAACTCTGAAGTC-TAAGTACTTGTGTACTTATGGCATGGACAGTTTGATAAAAT
1 CACGTGAATCAAACTCT--AGTCTTAAGTACTTGTGTACTTATGGCATGGACAGTTTGATAAAAT
23038545 TTAAGAGT
64 TTAAGAGT
23038553 TATTTTCTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
71 16 0.24
72 48 0.71
73 4 0.06
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (71 bp):
CACGTGAATCAAACTCTAGTCTTAAGTACTTGTGTACTTATGGCATGGACAGTTTGATAAAATTT
AAGAGT
Found at i:23046708 original size:3 final size:3
Alignment explanation
Indices: 23046700--23046763 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
23046690 TTAAAAGGTA
23046700 AAT 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 AAT
23046748 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
23046764 TTATTATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23046768 original size:3 final size:3
Alignment explanation
Indices: 23046762--23046803 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
23046752 ATAATAATAA
*
23046762 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23046804 AGAAGTCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23048059 original size:41 final size:39
Alignment explanation
Indices: 23048009--23048098 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
23047999 TAAAAAGTAT
** *
23048009 TTATATTAAAAAACAGTTCCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACAAAT--ATAAATATAATAAATATTTCA
*
23048050 TTATATTAAAAAATAAATATAAATATAATAAATATTTCA
1 TTATATTAAAAAACAAATATAAATATAATAAATATTTCA
*
23048089 TTGTATTAAA
1 TTATATTAAA
23048099 TATTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 29 0.66
41 15 0.34
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (39 bp):
TTATATTAAAAAACAAATATAAATATAATAAATATTTCA
Found at i:23051311 original size:19 final size:18
Alignment explanation
Indices: 23051256--23051311 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
23051246 GGCAGACATA
* *
23051256 AATTAAAAAAATTAAA-A
1 AATTTAAAAAATTAAATT
*
23051273 ATATTTTAAAAATATAAATT
1 A-ATTTAAAAAAT-TAAATT
23051293 AATTTAAAAAATTACAATT
1 AATTTAAAAAATTA-AATT
23051312 TTTTTTAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 11 0.35
19 18 0.58
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTTAAAAAATTAAATT
Found at i:23052359 original size:17 final size:18
Alignment explanation
Indices: 23052334--23052375 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
23052324 AAACTCTAAT
23052334 AAATCAAAAAATATTTT-A
1 AAAT-AAAAAATATTTTAA
*
23052352 AAAT-AAAAATTTTTTAA
1 AAATAAAAAATATTTTAA
23052369 AAATAAA
1 AAATAAA
23052376 GAAAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAAAAATATTTTAA
Found at i:23052361 original size:16 final size:17
Alignment explanation
Indices: 23052340--23052375 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23052330 TAATAAATCA
23052340 AAAAATATTTT-AAAAT
1 AAAAATATTTTAAAAAT
*
23052356 AAAAATTTTTTAAAAAT
1 AAAAATATTTTAAAAAT
23052373 AAA
1 AAA
23052376 GAAAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATTTTAAAAAT
Found at i:23052733 original size:25 final size:25
Alignment explanation
Indices: 23052705--23052756 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23052695 TTTAAAAAAC
* *
23052705 ATATATATTATTTTTAT-TATTTTAA
1 ATATATATT-TTATAATATATTTTAA
23052730 ATATATATTTTATAATATATTTTAA
1 ATATATATTTTATAATATATTTTAA
23052755 AT
1 AT
23052757 TAGTCAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATATATTTTATAATATATTTTAA
Found at i:23052749 original size:12 final size:13
Alignment explanation
Indices: 23052722--23052756 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23052712 TTATTTTTAT
23052722 TATTTTAAATATA
1 TATTTTAAATATA
*
23052735 TATTTTATA-ATA
1 TATTTTAAATATA
23052747 TATTTTAAAT
1 TATTTTAAAT
23052757 TAGTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:23053644 original size:31 final size:32
Alignment explanation
Indices: 23053601--23053660 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
23053591 CATCATTTCA
*
23053601 ACTCTTTTTTAAAAGGTTGA-TGGTCAAATCCG
1 ACTCTTTTTTAAAAAGTTGAGT-GTCAAATCCG
23053633 ACTC-TTTTTAAAAAGTTGAGTGTCAAAT
1 ACTCTTTTTTAAAAAGTTGAGTGTCAAAT
23053661 TTAGCTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
ACTCTTTTTTAAAAAGTTGAGTGTCAAATCCG
Found at i:23069804 original size:22 final size:23
Alignment explanation
Indices: 23069777--23069827 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
23069767 AAATGATAGC
*
23069777 AAAATAGT-GAAAAAACAATA-A
1 AAAATAGTAAAAAAAACAATACA
23069798 GAAAATAGTAAAAAAAACAATACA
1 -AAAATAGTAAAAAAAACAATACA
23069822 AAAATA
1 AAAATA
23069828 ATAATTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAATAGTAAAAAAAACAATACA
Found at i:23069918 original size:13 final size:14
Alignment explanation
Indices: 23069900--23069928 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23069890 TTTTTTTACC
23069900 TAAACTTAT-TTTT
1 TAAACTTATATTTT
23069913 TAAACTTATATTTT
1 TAAACTTATATTTT
23069927 TA
1 TA
23069929 CACAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAACTTATATTTT
Found at i:23074446 original size:118 final size:118
Alignment explanation
Indices: 23074226--23074446 Score: 295
Period size: 118 Copynumber: 1.9 Consensus size: 118
23074216 GTTTATCGAA
* ** * *
23074226 ATAATTCTCTCCTAAACAAACCATGACAAGGAGTTACAAGCTGGAGAAAACATGGATAAATGCAG
1 ATAATTCTCTCCCAAACAAACCATGACAAGGAACTACAAGCTGAAGAAAACATGAATAAATGCAG
* * * *
23074291 CCTGATCAAGACCTCCATGAGCAACATAGAGATTTTTCGCATAGGTCAGTGGG
66 CCTAACCAAGACCTCCATGAGCAACAGAGAGACTTTTCGCATAGGTCAGTGGG
* *
23074344 ATAATTCTCTCCCAAACAAACCATGTCAAGGAACTA-AGAGCTGAAGAAAACATGAATAAATGTA
1 ATAATTCTCTCCCAAACAAACCATGACAAGGAACTACA-AGCTGAAGAAAACATGAATAAATGCA
23074408 GCCTAACCAAGACC-CTCATGAGCAACACGA-AGACTTTTC
65 GCCTAACCAAGACCTC-CATGAGCAACA-GAGAGACTTTTC
23074447 ACAGATGGTG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
117 2 0.02
118 86 0.97
119 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (118 bp):
ATAATTCTCTCCCAAACAAACCATGACAAGGAACTACAAGCTGAAGAAAACATGAATAAATGCAG
CCTAACCAAGACCTCCATGAGCAACAGAGAGACTTTTCGCATAGGTCAGTGGG
Found at i:23077270 original size:22 final size:22
Alignment explanation
Indices: 23077245--23077298 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
23077235 AAGCTCAGGC
*
23077245 TTTTTCATGTAAAA-ACTAGTAT
1 TTTTTCATGTAAAAGACTA-TAA
** *
23077267 TTTTTCCGGTAAAAGCCTATAA
1 TTTTTCATGTAAAAGACTATAA
23077289 TTTTTCATGT
1 TTTTTCATGT
23077299 TTTTGGAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (22 bp):
TTTTTCATGTAAAAGACTATAA
Found at i:23077516 original size:19 final size:18
Alignment explanation
Indices: 23077480--23077515 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23077470 CTAGAAAATA
*
23077480 AAAAAATTAAATAATTTT
1 AAAAAATAAAATAATTTT
*
23077498 AAAAAATAAAATTATTTT
1 AAAAAATAAAATAATTTT
23077516 TTCTTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAAATAAAATAATTTT
Found at i:23077668 original size:19 final size:20
Alignment explanation
Indices: 23077646--23077687 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
23077636 AATTAAAGGT
*
23077646 AAAT-AAATTTTTTAATGTA
1 AAATCAAATTTTTCAATGTA
* *
23077665 AAATCAAGTTTTTCCATGTA
1 AAATCAAATTTTTCAATGTA
23077685 AAA
1 AAA
23077688 ATTAAGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
AAATCAAATTTTTCAATGTA
Found at i:23077683 original size:20 final size:20
Alignment explanation
Indices: 23077660--23077718 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
23077650 AAATTTTTTA
23077660 ATGTAAAATCAAGTTTTTCC
1 ATGTAAAATCAAGTTTTTCC
*
23077680 ATGTAAAAATTAAGTTTTTCC
1 ATGT-AAAATCAAGTTTTTCC
* * *
23077701 TTATAAACTCAAGTTTTT
1 ATGTAAAATCAAGTTTTT
23077719 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (20 bp):
ATGTAAAATCAAGTTTTTCC
Found at i:23077688 original size:21 final size:21
Alignment explanation
Indices: 23077660--23077718 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
23077650 AAATTTTTTA
23077660 ATGT-AAAATCAAGTTTTTCC
1 ATGTAAAAATCAAGTTTTTCC
*
23077680 ATGTAAAAATTAAGTTTTTCC
1 ATGTAAAAATCAAGTTTTTCC
*
23077701 -T-TATAAACTCAAGTTTTT
1 ATGTA-AAAATCAAGTTTTT
23077719 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 15 0.44
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (21 bp):
ATGTAAAAATCAAGTTTTTCC
Found at i:23077883 original size:43 final size:43
Alignment explanation
Indices: 23077818--23077906 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
23077808 GAATGTACAA
*
23077818 TAACATTGAATTAACGATATGTAACTGAAATAAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATAAAAATTGACTT
*
23077861 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATAAAAATTGACTT
23077904 TAA
1 TAA
23077907 TGATAGTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (43 bp):
TAACATTGAATTAACGACATGTAACTGAAATAAAAATTGACTT
Found at i:23082050 original size:26 final size:28
Alignment explanation
Indices: 23082017--23082079 Score: 103
Period size: 29 Copynumber: 2.3 Consensus size: 28
23082007 AAAAAATAAT
23082017 CAAAATATTAT-AA-TTTTTTTATTTAC
1 CAAAATATTATAAATTTTTTTTATTTAC
23082043 CAAAATATTATAAATTTTTTTTTATTTAC
1 CAAAATATTATAAA-TTTTTTTTATTTAC
23082072 CAAAATAT
1 CAAAATAT
23082080 ACAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 11 0.32
27 2 0.06
29 21 0.62
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (28 bp):
CAAAATATTATAAATTTTTTTTATTTAC
Found at i:23082103 original size:18 final size:18
Alignment explanation
Indices: 23082072--23082107 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23082062 TTTTATTTAC
*
23082072 CAAAATATACAAAAAAAA
1 CAAAAAATACAAAAAAAA
*
23082090 CAAAAAATAGAAAAAAAA
1 CAAAAAATACAAAAAAAA
23082108 ACCTGACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (18 bp):
CAAAAAATACAAAAAAAA
Found at i:23082167 original size:27 final size:27
Alignment explanation
Indices: 23082128--23082213 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
23082118 GCCTGATCAG
* * *
23082128 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATGAGATTGGAGGCACCAATGGT
*
23082155 GCCAATGAGATT-GACGACACCAATGGT
1 GCCAATGAGATTGGA-GGCACCAATGGT
* * *
23082182 GCCAAAGAGATGGGCGGCACCAATGGT
1 GCCAATGAGATTGGAGGCACCAATGGT
23082209 GCCAA
1 GCCAA
23082214 AGGACTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.04
27 46 0.94
28 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.14
Consensus pattern (27 bp):
GCCAATGAGATTGGAGGCACCAATGGT
Found at i:23082214 original size:27 final size:27
Alignment explanation
Indices: 23082139--23082215 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
23082129 CCAATCACAT
* *
23082139 TGGA-GGCACCAAAGGTGCCAATGAGA
1 TGGACGGCACCAATGGTGCCAAAGAGA
* *
23082165 TTGACGACACCAATGGTGCCAAAGAGA
1 TGGACGGCACCAATGGTGCCAAAGAGA
*
23082192 TGGGCGGCACCAATGGTGCCAAAG
1 TGGACGGCACCAATGGTGCCAAAG
23082216 GACTAAAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.32, C:0.22, G:0.32, T:0.13
Consensus pattern (27 bp):
TGGACGGCACCAATGGTGCCAAAGAGA
Done.