Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 35 of 210
Found at i:11241305 original size:42 final size:42
Alignment explanation
Indices: 11241226--11241307 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
11241216 TAGACACAAG
* **
11241226 GGCTGGAACACGACCGTGTGTCTCAATTCAGTGAGTTACACA
1 GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACACA
* * **
11241268 GGCTGGAACACGGCTGTGTGTCCCAATTTTGAAAGTTACA
1 GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACA
11241308 AGGTCTAGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACACA
Found at i:11242599 original size:17 final size:17
Alignment explanation
Indices: 11242573--11242662 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
11242563 ATCGTAGGAT
* *
11242573 TGCGAACTCACCAAATG
1 TGCGAGCTCACCAAATC
*
11242590 TGCGAGCTCACCCAAAAC
1 TGCGAGCTCA-CCAAATC
* *
11242608 TGTGAGCTCATCAAGA-C
1 TGCGAGCTCACCAA-ATC
* *
11242625 TGCGAGCTCTCC-AATAG
1 TGCGAGCTCACCAAAT-C
*
11242642 TGCGAGCTCACCAAAGC
1 TGCGAGCTCACCAAATC
11242659 TGCG
1 TGCG
11242663 TAGTCTGGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 37 0.66
18 17 0.30
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (17 bp):
TGCGAGCTCACCAAATC
Found at i:11246342 original size:4 final size:4
Alignment explanation
Indices: 11246335--11246365 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
11246325 CATACATACA
11246335 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
11246366 ATAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:11249816 original size:14 final size:14
Alignment explanation
Indices: 11249797--11249823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11249787 CTTGGTAGAG
11249797 TAAAAAAATAAAAT
1 TAAAAAAATAAAAT
11249811 TAAAAAAATAAAA
1 TAAAAAAATAAAA
11249824 CATTTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAAAATAAAAT
Found at i:11255100 original size:41 final size:42
Alignment explanation
Indices: 11255043--11255185 Score: 177
Period size: 41 Copynumber: 3.5 Consensus size: 42
11255033 GCTTCTATTC
*
11255043 AGCTCTTACAAGCTTCTATTCAACTCTTATGAG-TTCTGTTA
1 AGCTCTTACGAGCTTCTATTCAACTCTTATGAGATTCTGTTA
* * *
11255084 AGCTCTTATGAGCTTCTGTTCAACTCTTATGAGATTCTGTTC
1 AGCTCTTACGAGCTTCTATTCAACTCTTATGAGATTCTGTTA
* * *
11255126 AGCTCTTACGAGCTTTTGTTCAACT-TT-TGAGTTTCTGTTTA
1 AGCTCTTACGAGCTTCTATTCAACTCTTATGAGATTCTG-TTA
*
11255167 A-CTCTTATGAGCTTCTATT
1 AGCTCTTACGAGCTTCTATT
11255186 TAGCTTTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 24 0.27
41 35 0.39
42 30 0.34
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (42 bp):
AGCTCTTACGAGCTTCTATTCAACTCTTATGAGATTCTGTTA
Found at i:11255132 original size:62 final size:61
Alignment explanation
Indices: 11255014--11255185 Score: 177
Period size: 62 Copynumber: 2.8 Consensus size: 61
11255004 ATGTTTTACT
* * * ** *
11255014 TTCTGTTTAGCTTTTTCGAGCTTCTATTCAGCTCTTACAAGCTTCTATTCAACTCTTATGAG-
1 TTCTGTTAAGC-TTTT-GAGCTTCTGTTCAACTCTTATGAGCTTCTATTCAACTCTTACGAGC
* * *
11255076 TTCTGTTAAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGATTCTGTTCAGCTCTTACGAGC
1 TTCTGTTAAGCT-TT-TGAGCTTCTGTTCAACTCTTATGAGCTTCTATTCAACTCTTACGAGC
* * *
11255139 TTTTGTTCAA-CTTTTGAGTTTCTGTTTAACTCTTATGAGCTTCTATT
1 TTCTGTT-AAGCTTTTGAGCTTCTGTTCAACTCTTATGAGCTTCTATT
11255186 TAGCTTTCGA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
61 30 0.33
62 51 0.55
63 9 0.10
64 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (61 bp):
TTCTGTTAAGCTTTTGAGCTTCTGTTCAACTCTTATGAGCTTCTATTCAACTCTTACGAGC
Found at i:11255145 original size:21 final size:21
Alignment explanation
Indices: 11255014--11255204 Score: 140
Period size: 21 Copynumber: 9.3 Consensus size: 21
11255004 ATGTTTTACT
* * *
11255014 TTCTGTTTAGCTTTTTCGAGC
1 TTCTGTTCAGCTCTTACGAGC
* *
11255035 TTCTATTCAGCTCTTACAAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
11255056 TTCTATTCAACTCTTATGAG-
1 TTCTGTTCAGCTCTTACGAGC
* *
11255076 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
11255097 TTCTGTTCAACTCTTATGAGA
1 TTCTGTTCAGCTCTTACGAGC
11255118 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * * *
11255139 TTTTGTTCAACT-TT-TGAGT
1 TTCTGTTCAGCTCTTACGAGC
* * *
11255158 TTCTGTTTAACTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
* *
11255179 TTCTATTTAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
11255198 TTATGTT
1 TTCTGTT
11255205 GGCGTATTTG
Statistics
Matches: 138, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
19 22 0.16
20 23 0.17
21 93 0.67
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:11255170 original size:61 final size:59
Alignment explanation
Indices: 11255092--11255204 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 59
11255082 TAAGCTCTTA
* *
11255092 TGAGCTTCTGTTCAACTCTTATGAGATTCTGTTCAGCTCTTACGAGCTTTTGTTCAACTTT
1 TGAGCTTCTGTTCAACTCTTATGAGATTCTATTCAGCT-TT-CGAGCTTATGTTCAACTTT
* * * *
11255153 TGAGTTTCTGTTTAACTCTTATGAGCTTCTATTTAGCTTTCGAGCTTATGTT
1 TGAGCTTCTGTTCAACTCTTATGAGATTCTATTCAGCTTTCGAGCTTATGTT
11255205 GGCGTATTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 11 0.24
60 2 0.04
61 33 0.72
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.47
Consensus pattern (59 bp):
TGAGCTTCTGTTCAACTCTTATGAGATTCTATTCAGCTTTCGAGCTTATGTTCAACTTT
Found at i:11258014 original size:28 final size:28
Alignment explanation
Indices: 11257982--11258037 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11257972 GTATGCGATG
11257982 AGTTGATCATGAATCGGTACCTTGATAT
1 AGTTGATCATGAATCGGTACCTTGATAT
11258010 AGTTGATCATGAATCGGTACCTTGATAT
1 AGTTGATCATGAATCGGTACCTTGATAT
11258038 GTAAGGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (28 bp):
AGTTGATCATGAATCGGTACCTTGATAT
Found at i:11268303 original size:134 final size:134
Alignment explanation
Indices: 11268024--11268619 Score: 737
Period size: 134 Copynumber: 4.5 Consensus size: 134
11268014 GTAAATAAGT
* *** * * * *
11268024 GAACTCTTAATGAACTGTTCATGATAACAAATCAATAAACTGAAATTGTGATCATAAATCAGCAA
1 GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGCAA
* * * *
11268089 GCTTT-AAAATTACAGTTGTGATCGTAAATCAATGAATTGTTTAAGTGGAGTCGCGATCGTAAAT
66 GCTTTAAAAATGACAGTTGTGATCGTAAATCAACGAACTGTTTAAGTGGAGTAGCGATCGTAAAT
*
11268153 CAAC
131 CGAC
* * **
11268157 AAACTCTTAATGAATTGTTCATGATCGTAAATTAATGAACTGAAACTGTGATCGTAAATTAGCAA
1 GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGCAA
* * * * *
11268222 ACTTTAAAAATGACAATTGTGATCGTAAATTAGCGAACTGTTTAAGTGGAGTAGCAATCGTAAAT
66 GCTTTAAAAATGACAGTTGTGATCGTAAATCAACGAACTGTTTAAGTGGAGTAGCGATCGTAAAT
* **
11268287 TGGT
131 CGAC
* * * * * **
11268291 GAACTCTTAATGAATTGTTCATCATCGTAAATCAATGAACTGAAGTTATGGTCTTAAATCAGTGA
1 GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGCAA
* * * * * * *
11268356 GCTTTAAAAATAACAGTTGTGATCGTGAATCAATGAACTATTTAAGTGGAGTCGCGATCTTAGAT
66 GCTTTAAAAATGACAGTTGTGATCGTAAATCAACGAACTGTTTAAGTGGAGTAGCGATCGTAAAT
11268421 CGAC
131 CGAC
* * **
11268425 GAAATCTTAATGAATTATTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGTGA
1 GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGCAA
* *
11268490 GCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTGTTTAAGTGGAGTAGTGATCGTAAAT
66 GCTTTAAAAATGACAGTTGTGATCGTAAATCAACGAACTGTTTAAGTGGAGTAGCGATCGTAAAT
*
11268555 TGAC
131 CGAC
* * *
11268559 GAAATCTTAATGAATTGCTCATGATCGTAAATCAATGAACTGAAGTTAT-ATCGTAAATTAG
1 GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAG
11268620 AGAGTTTTAA
Statistics
Matches: 393, Mismatches: 69, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
133 71 0.18
134 322 0.82
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (134 bp):
GAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGATCGTAAATTAGCAA
GCTTTAAAAATGACAGTTGTGATCGTAAATCAACGAACTGTTTAAGTGGAGTAGCGATCGTAAAT
CGAC
Found at i:11268464 original size:268 final size:267
Alignment explanation
Indices: 11268003--11268616 Score: 836
Period size: 268 Copynumber: 2.3 Consensus size: 267
11267993 CGTGAGAATA
* ** * *** *
11268003 GAGTTGCAATCGTAAATAAGTGAACTCTTAATGAACTGTTCATGATAACAAATCAATAAACTGAA
1 GAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAA
* * * * *
11268068 ATTGTGATCATAAATCAGCAAGCTTTAAAATTACAGTTGTGATCGTAAATCAATGAATTGTTTAA
66 GTTATGATCATAAATCAGCAAGCTTTAAAATAACAGTTGTGATCGTAAATCAATGAACTATTTAA
* *
11268133 GTGGAGTCGCGATCGTAAATCAACAAACTCTTAATGAATTGTTCATGATCGTAAATTAATGAACT
131 GTGGAGTCGCGATCGTAAATCAACAAACTCTTAATGAATTATTCATGATCGTAAATCAATGAACT
* * *
11268198 GAAACTGTGATCGTAAATTAGCAAACTTTAAAAATGACAATTGTGATCGTAAATTAGCGAACTGT
196 GAAACTGTGATCGTAAATTAGCAAACTTTAAAAATGACAATTGTGATCGTAAATCAACAAACTGT
11268263 TTAAGTG
261 TTAAGTG
*
11268270 GAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATCATCGTAAATCAATGAACTGAA
1 GAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAA
* * ** *
11268335 GTTATGGTCTTAAATCAGTGAGCTTTAAAAATAACAGTTGTGATCGTGAATCAATGAACTATTTA
66 GTTATGATCATAAATCAGCAAGCTTT-AAAATAACAGTTGTGATCGTAAATCAATGAACTATTTA
* * *
11268400 AGTGGAGTCGCGATCTTAGATCGACGAAA-TCTTAATGAATTATTCATGATCGTAAATCAATGAA
130 AGTGGAGTCGCGATCGTAAATCAAC-AAACTCTTAATGAATTATTCATGATCGTAAATCAATGAA
** ** * *
11268464 CTGAAGTTGTGATCGTAAATTAGTGAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACT
194 CTGAAACTGTGATCGTAAATTAGCAAACTTTAAAAATGACAATTGTGATCGTAAATCAACAAACT
11268529 GTTTAAGTG
259 GTTTAAGTG
** ** * *
11268538 GAGTAGTGATCGTAAATTGACGAAATCTTAATGAATTGCTCATGATCGTAAATCAATGAACTGAA
1 GAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAA
*
11268603 GTTAT-ATCGTAAAT
66 GTTATGATCATAAAT
11268617 TAGAGAGTTT
Statistics
Matches: 303, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
267 83 0.27
268 217 0.72
269 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (267 bp):
GAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAA
GTTATGATCATAAATCAGCAAGCTTTAAAATAACAGTTGTGATCGTAAATCAATGAACTATTTAA
GTGGAGTCGCGATCGTAAATCAACAAACTCTTAATGAATTATTCATGATCGTAAATCAATGAACT
GAAACTGTGATCGTAAATTAGCAAACTTTAAAAATGACAATTGTGATCGTAAATCAACAAACTGT
TTAAGTG
Found at i:11273651 original size:27 final size:27
Alignment explanation
Indices: 11273613--11274053 Score: 464
Period size: 27 Copynumber: 16.3 Consensus size: 27
11273603 ATTCATGGGC
* *
11273613 AAATTACTGAAATACCCTTGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
11273640 AAATGACTGAAAAACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
11273667 AAATGACCT-AAATACCCTTGAAAGGTA
1 AAATGA-CTGAAATACCCTCGAAGGGTA
* **
11273694 GAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
**
11273721 AAATGA-TCGAAATACCCTTAAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
11273748 AAATAACCGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
** *
11273775 AAATGACCAAAATACCCTCGAAAGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* **
11273802 AAATGACTGAAATACCTTTAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * *
11273829 AAATTA-TCAAAATACCCTCAAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
** *
11273856 AAATGACCAAAATACCCTCGAATGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
11273883 AAATGACTCAAATACCCTCGAAGGATA
1 AAATGACTGAAATACCCTCGAAGGGTA
11273910 AAATGACT-AAAGTACCCTCGAAGGGTA
1 AAATGACTGAAA-TACCCTCGAAGGGTA
* * *
11273937 AAATGACCGAAGTATCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
11273964 AAATGACCGAAATACCCTCGAAAGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
11273991 AAATGA-TCGAAATACCC-CTGAAGGTTA
1 AAATGACT-GAAATACCCTC-GAAGGGTA
* *
11274018 AAATGACTGAAATACCC-CTATAGGATA
1 AAATGACTGAAATACCCTCGA-AGGGTA
11274045 AAATGACTG
1 AAATGACTG
11274054 TTATAACCCT
Statistics
Matches: 350, Mismatches: 52, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.02
27 338 0.97
28 5 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:11279889 original size:81 final size:81
Alignment explanation
Indices: 11279747--11280033 Score: 337
Period size: 81 Copynumber: 3.5 Consensus size: 81
11279737 GATTCATGAG
* * * * * *
11279747 AAAATAACCGAAATACCCTTGAAGGGTAAAAAAACCAAAAAACCCTCGAAGGGTAAAATGACCAA
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGACCAA
* *
11279812 AATAACTTCGAAAGGT
66 AATACCCTCGAAAGGT
** * * * *
11279828 AAAATGATTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGTTAACATGACAAA
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGACCAA
* *
11279893 AATTCCCTCGAAGGGT
66 AATACCCTCGAAAGGT
* *
11279909 AAAATGACCGAAATACTCT-GAAAGGGTAAAATAA-CTGAAATACCCTCAAAGGGTAAAATGACC
1 AAAATGACCGAAATACCCTCG-AAGGGTAAAATAATC-GAAATACCCTCGAAGGGTAAAATGACC
11279972 AAAATACCCTCG-AAGTGT
64 AAAATACCCTCGAAAG-GT
* * *
11279990 AAAATCACCAAAATACGCTCGAAGGGTAAAATAATCGAAATACC
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATAATCGAAATACC
11280034 TTTATAGGGT
Statistics
Matches: 172, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
80 4 0.02
81 166 0.97
82 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (81 bp):
AAAATGACCGAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGACCAA
AATACCCTCGAAAGGT
Found at i:11280030 original size:27 final size:27
Alignment explanation
Indices: 11279747--11280033 Score: 297
Period size: 27 Copynumber: 10.6 Consensus size: 27
11279737 GATTCATGAG
* *
11279747 AAAATAACCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** * *
11279774 AAAAAAACCAAAAAACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
11279801 AAAATGACCAAAATAACTTCGAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
11279828 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
11279855 AAAATGATCGAAATACCCTCGAAGGTT
1 AAAATGACCGAAATACCCTCGAAGGGT
* ** *
11279882 AACATGACAAAAATTCCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
11279909 AAAATGACCGAAATACTCT-GAAAGGGT
1 AAAATGACCGAAATACCCTCG-AAGGGT
* * *
11279936 AAAATAACTGAAATACCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
11279963 AAAATGACCAAAATACCCTCGAAGTGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
11279990 AAAATCACCAAAATACGCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
11280017 AAAATAATCGAAATACC
1 AAAATGACCGAAATACC
11280034 TTTATAGGGT
Statistics
Matches: 213, Mismatches: 45, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.00
27 212 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:11290889 original size:17 final size:17
Alignment explanation
Indices: 11290866--11290909 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
11290856 GAAATTAGGG
11290866 AGTTAAATTTAGTTTAA
1 AGTTAAATTTAGTTTAA
*
11290883 GGTTAAATTTAGTTTAA
1 AGTTAAATTTAGTTTAA
*
11290900 AGTGAAATTT
1 AGTTAAATTT
11290910 GTATGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (17 bp):
AGTTAAATTTAGTTTAA
Found at i:11295330 original size:38 final size:38
Alignment explanation
Indices: 11295279--11295356 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
11295269 TTGGCCAAGG
*
11295279 TTAATAATTGCATGTATTGGATCTTTGTAATGTATGTT
1 TTAATAATGGCATGTATTGGATCTTTGTAATGTATGTT
11295317 TTAATAATGGCATGTATTGGATCTTTGTAATGTATGTT
1 TTAATAATGGCATGTATTGGATCTTTGTAATGTATGTT
11295355 TT
1 TT
11295357 GGTATGTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.50
Consensus pattern (38 bp):
TTAATAATGGCATGTATTGGATCTTTGTAATGTATGTT
Found at i:11298971 original size:21 final size:20
Alignment explanation
Indices: 11298947--11298991 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
11298937 GTCCTAATGC
11298947 AATAT-TAAAAATGCTAACTAA
1 AATATCTAAAAATGC-AAC-AA
11298968 AATATCCTAAAAATGCAACAA
1 AATAT-CTAAAAATGCAACAA
11298989 AAT
1 AAT
11298992 GTACTTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.24
Consensus pattern (20 bp):
AATATCTAAAAATGCAACAA
Found at i:11300271 original size:12 final size:12
Alignment explanation
Indices: 11300254--11300279 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11300244 CGAGCCCAAA
11300254 CTAATTTTGGCT
1 CTAATTTTGGCT
11300266 CTAATTTTGGCT
1 CTAATTTTGGCT
11300278 CT
1 CT
11300280 TATTCCTAAA
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:0.15, C:0.19, G:0.15, T:0.50
Consensus pattern (12 bp):
CTAATTTTGGCT
Found at i:11309294 original size:13 final size:13
Alignment explanation
Indices: 11309276--11309300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11309266 AAATTTAATT
11309276 AAAATGAATTTAG
1 AAAATGAATTTAG
11309289 AAAATGAATTTA
1 AAAATGAATTTA
11309301 CTAATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
AAAATGAATTTAG
Found at i:11311317 original size:17 final size:17
Alignment explanation
Indices: 11311295--11311337 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11311285 TTTTGATATA
11311295 CATATCTTTCTGACACC
1 CATATCTTTCTGACACC
*
11311312 CATATCTTTCTGATACC
1 CATATCTTTCTGACACC
11311329 CATATCTTT
1 CATATCTTT
11311338 GACTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (17 bp):
CATATCTTTCTGACACC
Found at i:11314652 original size:188 final size:188
Alignment explanation
Indices: 11314335--11314710 Score: 752
Period size: 188 Copynumber: 2.0 Consensus size: 188
11314325 CTGTATGTGA
11314335 ACAGTACCGTGAATGATTGTATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTGTGCGGA
1 ACAGTACCGTGAATGATTGTATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTGTGCGGA
11314400 AGCGTGTAAAAGAGTAAAATTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGA
66 AGCGTGTAAAAGAGTAAAATTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGA
11314465 GGTGGATCACAAGGATCGCTTAAGTACCAGGTCTTTCCTAGCCAGAATATCCCTCAAT
131 GGTGGATCACAAGGATCGCTTAAGTACCAGGTCTTTCCTAGCCAGAATATCCCTCAAT
11314523 ACAGTACCGTGAATGATTGTATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTGTGCGGA
1 ACAGTACCGTGAATGATTGTATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTGTGCGGA
11314588 AGCGTGTAAAAGAGTAAAATTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGA
66 AGCGTGTAAAAGAGTAAAATTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGA
11314653 GGTGGATCACAAGGATCGCTTAAGTACCAGGTCTTTCCTAGCCAGAATATCCCTCAAT
131 GGTGGATCACAAGGATCGCTTAAGTACCAGGTCTTTCCTAGCCAGAATATCCCTCAAT
11314711 CGTAATTTAA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 188 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (188 bp):
ACAGTACCGTGAATGATTGTATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTGTGCGGA
AGCGTGTAAAAGAGTAAAATTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGA
GGTGGATCACAAGGATCGCTTAAGTACCAGGTCTTTCCTAGCCAGAATATCCCTCAAT
Found at i:11315063 original size:17 final size:17
Alignment explanation
Indices: 11315041--11315073 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11315031 TCTCAGATTT
11315041 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
11315058 TGATACCTATATCTTT
1 TGATACCCATATCTTT
11315074 GACTTTCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:11318953 original size:10 final size:11
Alignment explanation
Indices: 11318925--11318951 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11318915 ATTAAAAAAA
11318925 TAAAAATATTT
1 TAAAAATATTT
11318936 TAAAAATATTT
1 TAAAAATATTT
11318947 TAAAA
1 TAAAA
11318952 TAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:11319293 original size:18 final size:18
Alignment explanation
Indices: 11319262--11319308 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
11319252 CAAAATTTTA
*
11319262 AAATAATTTTTAAAATTCC
1 AAAT-ATTTATAAAATTCC
11319281 AAATATTTATAAAATTCC
1 AAATATTTATAAAATTCC
11319299 AAA-ATTTATA
1 AAATATTTATA
11319309 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTTATAAAATTCC
Found at i:11319336 original size:17 final size:17
Alignment explanation
Indices: 11319272--11319337 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
11319262 AAATAATTTT
*
11319272 TAAAATTCCAAATATTTA
1 TAAAATTCCAAA-AATTA
*
11319290 TAAAATTCCAAAATTTA
1 TAAAATTCCAAAAATTA
** **
11319307 T-ATTTTTAAAAAATTA
1 TAAAATTCCAAAAATTA
11319323 TAAAATTCCAAAAAT
1 TAAAATTCCAAAAAT
11319338 AAATTAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
16 11 0.29
17 15 0.39
18 12 0.32
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATTCCAAAAATTA
Found at i:11320944 original size:43 final size:42
Alignment explanation
Indices: 11320883--11321047 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
11320873 ATTTTCGATG
*
11320883 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATC-ATT
* * *
11320926 TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAT-T
* ** * *
11320969 T-TATTT-CGTGTAAGACCTTGTTTGGGACAG-TGGCATCGATA
1 TGTGTTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATC-ATT
* *
11321010 TGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
11321048 TGTACGAGCC
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
41 28 0.28
42 10 0.10
43 62 0.62
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCATT
Found at i:11321029 original size:84 final size:84
Alignment explanation
Indices: 11320888--11321047 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
11320878 CGATGTGTGT
* * * *
11320888 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGTTTACGTGTAAGACCATGTCTGG
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACATGTAAGACCACGTCTGG
11320953 GACATTGGCATCGTATTTA
66 GACATTGGCATCGTATTTA
** * *
11320972 TTTCGTGTAAGACCTTGTTTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTG
1 TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCAATATGTGATTACATGTAAGACCACGTCTG
*
11321036 GGACGTTGGCAT
65 GGACATTGGCAT
11321048 TGTACGAGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
84 65 0.98
85 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (84 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACATGTAAGACCACGTCTGG
GACATTGGCATCGTATTTA
Found at i:11326812 original size:22 final size:22
Alignment explanation
Indices: 11326787--11326831 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11326777 ATTCTTGTAA
11326787 TTCTTGGAGTTGAAGTAATCTT
1 TTCTTGGAGTTGAAGTAATCTT
11326809 TTCTTGGAGTTGAAGTAATCTT
1 TTCTTGGAGTTGAAGTAATCTT
11326831 T
1 T
11326832 CTTTCTTCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (22 bp):
TTCTTGGAGTTGAAGTAATCTT
Found at i:11338289 original size:2 final size:2
Alignment explanation
Indices: 11338282--11338316 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11338272 TCTTTTATGT
11338282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11338317 TAATATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11344932 original size:65 final size:65
Alignment explanation
Indices: 11344828--11344959 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 65
11344818 TCAGGCTGTT
*
11344828 AGATTGCACGGTGTGCCAGTTTTTATTTTTTCGATAGATATCTGTGATTTACGTCTCGATTCTGG
1 AGATTGCACGGTGTGCCAGTTTTTATTTTTTCGATAGATATCTGTGATTTACGTCTCAATTCTGG
*
11344893 AGATTGTACGGTGTGCCAGTTTTTATTTTTTCGATAGATATCTGTGATTTACGTCTCAATTCTGG
1 AGATTGCACGGTGTGCCAGTTTTTATTTTTTCGATAGATATCTGTGATTTACGTCTCAATTCTGG
11344958 AG
1 AG
11344960 CAAGTTACAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (65 bp):
AGATTGCACGGTGTGCCAGTTTTTATTTTTTCGATAGATATCTGTGATTTACGTCTCAATTCTGG
Found at i:11346228 original size:28 final size:28
Alignment explanation
Indices: 11346188--11346242 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
11346178 TTATTTCCTT
11346188 CTTCAATCGAAATTATCAAAAAACCATA
1 CTTCAATCGAAATTATCAAAAAACCATA
11346216 CTTCAATCGAAATTATCAAAAAACCAT
1 CTTCAATCGAAATTATCAAAAAACCAT
11346243 TGCTAGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (28 bp):
CTTCAATCGAAATTATCAAAAAACCATA
Found at i:11347982 original size:15 final size:15
Alignment explanation
Indices: 11347959--11347989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11347949 TAGTAATTTC
11347959 CATTCAATTCAATAT
1 CATTCAATTCAATAT
*
11347974 CATTTAATTCAATAT
1 CATTCAATTCAATAT
11347989 C
1 C
11347990 GATAGTCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
CATTCAATTCAATAT
Found at i:11348804 original size:16 final size:18
Alignment explanation
Indices: 11348783--11348815 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11348773 GTTCTTTTTC
11348783 TGTC-TTTA-TTTCATTG
1 TGTCTTTTATTTTCATTG
11348799 TGTCTTTTATTTTCATT
1 TGTCTTTTATTTTCATT
11348816 TCTTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.67
Consensus pattern (18 bp):
TGTCTTTTATTTTCATTG
Found at i:11348906 original size:22 final size:23
Alignment explanation
Indices: 11348878--11348921 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
11348868 ATTAATAATT
11348878 ATGTAT-ATATATTAATTACAAA
1 ATGTATAATATATTAATTACAAA
*
11348900 ATGTATACATATATTTATTACA
1 ATGTATA-ATATATTAATTACA
11348922 CATGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
ATGTATAATATATTAATTACAAA
Found at i:11349616 original size:6 final size:6
Alignment explanation
Indices: 11349605--11349644 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
11349595 GCTACAATGT
* *
11349605 AAAGGA AAAGGA AATGGA AAAGGA AATGGA AAAGGA AAAG
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAG
11349645 TTACAACTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (6 bp):
AAAGGA
Found at i:11349623 original size:12 final size:12
Alignment explanation
Indices: 11349608--11349642 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
11349598 ACAATGTAAA
11349608 GGAAAAGGAAAT
1 GGAAAAGGAAAT
11349620 GGAAAAGGAAAT
1 GGAAAAGGAAAT
11349632 GGAAAAGGAAA
1 GGAAAAGGAAA
11349643 AGTTACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (12 bp):
GGAAAAGGAAAT
Found at i:11352098 original size:25 final size:25
Alignment explanation
Indices: 11352070--11352143 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 25
11352060 GAAATGAGAT
11352070 ATTTCCTTAGGATGAAAGTGCGACA
1 ATTTCCTTAGGATGAAAGTGCGACA
* * * * *
11352095 ATTT-C--ATGAAGGAA--GAGA-T
1 ATTTCCTTAGGATGAAAGTGCGACA
11352114 ATTTCCTTAGGATGAAAGTGCGACA
1 ATTTCCTTAGGATGAAAGTGCGACA
11352139 ATTTC
1 ATTTC
11352144 ATGAAGGAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 12
0.60 0.18 0.22
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
22 12 0.36
24 4 0.12
25 9 0.27
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (25 bp):
ATTTCCTTAGGATGAAAGTGCGACA
Found at i:11352123 original size:44 final size:44
Alignment explanation
Indices: 11352065--11352152 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
11352055 TTGAGGAAAT
11352065 GAGATATTTCCTTAGGATGAAAGTGCGACAATTTCATGAAGGAA
1 GAGATATTTCCTTAGGATGAAAGTGCGACAATTTCATGAAGGAA
11352109 GAGATATTTCCTTAGGATGAAAGTGCGACAATTTCATGAAGGAA
1 GAGATATTTCCTTAGGATGAAAGTGCGACAATTTCATGAAGGAA
11352153 TTTTCATAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (44 bp):
GAGATATTTCCTTAGGATGAAAGTGCGACAATTTCATGAAGGAA
Found at i:11362124 original size:18 final size:18
Alignment explanation
Indices: 11362081--11362126 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11362071 AGATCACTTC
*
11362081 AAATTATAAAAATTTTAT
1 AAATTATAAAAATATTAT
*
11362099 AAAATATAAAAATATTA-
1 AAATTATAAAAATATTAT
11362116 AATATTATAAA
1 AA-ATTATAAA
11362127 GCATTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTATAAAAATATTAT
Found at i:11362431 original size:13 final size:13
Alignment explanation
Indices: 11362413--11362440 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11362403 TAGTTGAATG
11362413 ATGATTCAACCAA
1 ATGATTCAACCAA
11362426 ATGATTCAACCAA
1 ATGATTCAACCAA
11362439 AT
1 AT
11362441 TATGTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (13 bp):
ATGATTCAACCAA
Found at i:11362899 original size:21 final size:22
Alignment explanation
Indices: 11362875--11362919 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
11362865 GTTAGCGAAC
11362875 AAAATAGATAAATAT-AAATAA
1 AAAATAGATAAATATAAAATAA
** *
11362896 AAAATATTTATATATAAAATAA
1 AAAATAGATAAATATAAAATAA
11362918 AA
1 AA
11362920 TATAAATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATAGATAAATATAAAATAA
Found at i:11362939 original size:16 final size:16
Alignment explanation
Indices: 11362887--11362939 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
11362877 AATAGATAAA
*
11362887 TATAAATAAAAAATATT
1 TATAAATAAAATA-ATT
* **
11362904 TATATATAAAATAAAA
1 TATAAATAAAATAATT
*
11362920 TATAAATAGAATAATT
1 TATAAATAAAATAATT
11362936 TATA
1 TATA
11362940 TTTCAATTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TATAAATAAAATAATT
Found at i:11363102 original size:18 final size:18
Alignment explanation
Indices: 11363063--11363111 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
11363053 AGAAAATAAG
*
11363063 TATAAAAATTTTATAAAA
1 TATAAAAATATTATAAAA
*
11363081 TATAAAAATATTA-AATA
1 TATAAAAATATTATAAAA
11363098 T-TATAAAATATTAT
1 TATA-AAAATATTAT
11363112 TAACACATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.07
17 13 0.48
18 12 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAAAATATTATAAAA
Found at i:11367460 original size:6 final size:6
Alignment explanation
Indices: 11367442--11367518 Score: 57
Period size: 6 Copynumber: 12.0 Consensus size: 6
11367432 ACGTTCCTTC
* *
11367442 TTCTTT TT-ATT TTCTTT TTCTTT TTCTTAT TTCTCCT TTCTTT TTCAATTCCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTT-T TTCT-TT TTCTTT TTC--TT--T
* *
11367495 TTGTTT TTCTTT TCCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT
11367519 CGATTTGCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.07
6 35 0.62
7 10 0.18
8 4 0.07
10 3 0.05
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.74
Consensus pattern (6 bp):
TTCTTT
Found at i:11367509 original size:16 final size:15
Alignment explanation
Indices: 11367446--11367519 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 15
11367436 TCCTTCTTCT
*
11367446 TTTTATTTTCTTTTTC
1 TTTT-TTTTCTTTTCC
* *
11367462 TTTTTCTTATTTCTCC
1 TTTTTTTTCTTT-TCC
**
11367478 TTTCTTTTTCAATTCC
1 TTT-TTTTTCTTTTCC
11367494 TTTGTTTTTCTTTTCC
1 TTT-TTTTTCTTTTCC
11367510 TTTTTCTTTC
1 TTTTT-TTTC
11367520 GATTTGCTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
15 8 0.18
16 32 0.71
17 5 0.11
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTTTTCTTTTCC
Found at i:11379383 original size:21 final size:21
Alignment explanation
Indices: 11379357--11379396 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11379347 GTATATCGAG
11379357 GAAAAATATAATTATTTTATA
1 GAAAAATATAATTATTTTATA
11379378 GAAAAATATAATTATTTTA
1 GAAAAATATAATTATTTTA
11379397 GTAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
GAAAAATATAATTATTTTATA
Found at i:11381416 original size:61 final size:60
Alignment explanation
Indices: 11381316--11381503 Score: 187
Period size: 61 Copynumber: 3.1 Consensus size: 60
11381306 AAATAAATGC
* * * * *
11381316 GATGATAAAGAGTGTTTATGGTTTAATAATTGTGAGGTTTAGGGTTTGGTTTTAAGGATAAG
1 GATGATAAAAAG-GTTTATGGTTTAATGATT-TGGGGTTTAGGGTTTGATTTTAAGGTTAAG
* * * * * *
11381378 GATGATAAAAAGGTTTATGGTTCAATGGTTTAGGGGTTTAAGGATTGATTTTAGGGTTAAA
1 GATGATAAAAAGGTTTATGGTTTAATGATTT-GGGGTTTAGGGTTTGATTTTAAGGTTAAG
* * * * * *
11381439 GATTATAATATGGTTTAAGGTTTAATGATTTGGAGGTTTAGAGTTTGATTTCAAGGTTAAG
1 GATGATAAAAAGGTTTATGGTTTAATGATTTGG-GGTTTAGGGTTTGATTTTAAGGTTAAG
11381500 GATG
1 GATG
11381504 GTATGTAACA
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
60 3 0.03
61 86 0.86
62 11 0.11
ACGTcount: A:0.30, C:0.01, G:0.29, T:0.40
Consensus pattern (60 bp):
GATGATAAAAAGGTTTATGGTTTAATGATTTGGGGTTTAGGGTTTGATTTTAAGGTTAAG
Found at i:11387376 original size:17 final size:18
Alignment explanation
Indices: 11387336--11387377 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
11387326 CTGGTGACAC
11387336 CATACTTAGTAAAGGATTT
1 CATA-TTAGTAAAGGATTT
* *
11387355 AATATTAGTAGA-GATTT
1 CATATTAGTAAAGGATTT
11387372 CATATT
1 CATATT
11387378 TTAAATTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 10 0.50
18 7 0.35
19 3 0.15
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (18 bp):
CATATTAGTAAAGGATTT
Found at i:11390886 original size:19 final size:19
Alignment explanation
Indices: 11390861--11390905 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
11390851 AACTTTATAG
11390861 AATATTTTTTATT-TTTTT
1 AATATTTTTTATTATTTTT
11390879 ACATA-TTTTTATTAATTTTT
1 A-ATATTTTTTATT-ATTTTT
11390899 AATATTT
1 AATATTT
11390906 ATTAATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
AATATTTTTTATTATTTTT
Found at i:11390910 original size:10 final size:9
Alignment explanation
Indices: 11390861--11390913 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
11390851 AACTTTATAG
11390861 AATATTTTT
1 AATATTTTT
* *
11390870 TATTTTTTT
1 AATATTTTT
11390879 ACATATTTTT
1 A-ATATTTTT
*
11390889 ATTAATTTTT
1 AAT-ATTTTT
11390899 AATATTTATT
1 AATATTT-TT
11390909 AATAT
1 AATAT
11390914 GACATGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 12 0.34
10 23 0.66
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
AATATTTTT
Found at i:11394044 original size:2 final size:2
Alignment explanation
Indices: 11394037--11394068 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11394027 AAGAAAATTA
11394037 AT AT AT 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 AT AT AT
11394069 GCCAACTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11395104 original size:14 final size:15
Alignment explanation
Indices: 11395070--11395099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11395060 ATATAATTTT
*
11395070 AAAATTTTTAAAAGA
1 AAAATCTTTAAAAGA
11395085 AAAATCTTTAAAAGA
1 AAAATCTTTAAAAGA
11395100 TAATCAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAATCTTTAAAAGA
Found at i:11399040 original size:25 final size:25
Alignment explanation
Indices: 11399001--11399076 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
11398991 AAACAAACAA
* *
11399001 TATATAGAATGCGCCATAAGGC-CT
1 TATATAGAATACGCCATAAGGCAAT
*
11399025 TATTATAGAATACGCCACAAAGGCAAT
1 TA-TATAGAATACGCCA-TAAGGCAAT
*
11399052 TATATAGAATTCGCCATAAGGCAAT
1 TATATAGAATACGCCATAAGGCAAT
11399077 CCATTCAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 21 0.48
26 18 0.41
27 3 0.07
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (25 bp):
TATATAGAATACGCCATAAGGCAAT
Found at i:11399125 original size:27 final size:27
Alignment explanation
Indices: 11399065--11399127 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
11399055 ATAGAATTCG
* **
11399065 CCAT-AAGGCAATCCATTCAGAGTATG
1 CCATAAAGGCAATCCATTCAAAGTACA
* *
11399091 CCACAAAGGCAATTCATTCAAAGTACA
1 CCATAAAGGCAATCCATTCAAAGTACA
11399118 CCATAAAGGC
1 CCATAAAGGC
11399128 TCACATGATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (27 bp):
CCATAAAGGCAATCCATTCAAAGTACA
Found at i:11408429 original size:25 final size:25
Alignment explanation
Indices: 11408396--11408460 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
11408386 AAAGGACATT
11408396 AAATTAAAATAAATATATATAATAA
1 AAATTAAAATAAATATATATAATAA
* *
11408421 AAATTAAAA-AATATATGTATATTAA
1 AAATTAAAATAA-ATATATATAATAA
* *
11408446 ATACTAAATATAAAT
1 AAATTAAA-ATAAAT
11408461 TAAATTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 2 0.06
25 26 0.79
26 3 0.09
27 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATTAAAATAAATATATATAATAA
Found at i:11408447 original size:23 final size:24
Alignment explanation
Indices: 11408393--11408447 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
11408383 TATAAAGGAC
11408393 ATTAAATTAAAATAAATATATATA
1 ATTAAATTAAAATAAATATATATA
* *
11408417 ATAAAAATT-AAA-AAATATATGTA
1 AT-TAAATTAAAATAAATATATATA
11408440 TATTAAAT
1 -ATTAAAT
11408448 ACTAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 14 0.54
24 7 0.27
25 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATTAAATTAAAATAAATATATATA
Found at i:11412504 original size:3 final size:3
Alignment explanation
Indices: 11412489--11412521 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
11412479 ATTGTTTGGT
11412489 TTA TTA TCT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
11412522 GTAGTAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11412526 original size:3 final size:3
Alignment explanation
Indices: 11412520--11412557 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11412510 TTATTATTAT
11412520 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
11412558 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:11412990 original size:18 final size:20
Alignment explanation
Indices: 11412967--11413006 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
11412957 CCCCTTTTAC
11412967 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
11412985 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
11413005 AT
1 AT
11413007 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:11416808 original size:25 final size:25
Alignment explanation
Indices: 11416780--11416880 Score: 122
Period size: 23 Copynumber: 4.2 Consensus size: 25
11416770 AATGTGTTAT
*
11416780 AATATACGCCACAAAGGCGTTATAG
1 AATATACGCCACAAAGGCGTTACAG
*
11416805 AATACAC-CACACAAAGGCGTTAC--
1 AATATACGC-CACAAAGGCGTTACAG
*
11416828 AATATACGCCACAAAGGTGTTACA-
1 AATATACGCCACAAAGGCGTTACAG
*
11416852 AA-ATACGTCACAAAGGCGTTACAG
1 AATATACGCCACAAAGGCGTTACAG
11416876 AATAT
1 AATAT
11416881 GACACAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
23 38 0.58
24 6 0.09
25 21 0.32
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (25 bp):
AATATACGCCACAAAGGCGTTACAG
Found at i:11416880 original size:48 final size:48
Alignment explanation
Indices: 11416775--11416874 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
11416765 ACGCAAATGT
* *
11416775 GTTATAATATACGCCACAAAGGCGTTATAGAATACACCACACAAAGGC
1 GTTACAATATACGCCACAAAGGCGTTACAGAATACACCACACAAAGGC
* * **
11416823 GTTACAATATACGCCACAAAGGTGTTACA-AA-ATACGTCACAAAGGC
1 GTTACAATATACGCCACAAAGGCGTTACAGAATACACCACACAAAGGC
11416869 GTTACA
1 GTTACA
11416875 GAATATGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 18 0.39
47 2 0.04
48 26 0.57
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (48 bp):
GTTACAATATACGCCACAAAGGCGTTACAGAATACACCACACAAAGGC
Found at i:11426623 original size:23 final size:22
Alignment explanation
Indices: 11426569--11426619 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
11426559 AATAAAAACA
11426569 AAAACATATGTATAAAATATAT
1 AAAACATATGTATAAAATATAT
* **
11426591 ATAAGCATATGTATACTATATAT
1 A-AAACATATGTATAAAATATAT
11426614 AAAACA
1 AAAACA
11426620 ATATATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAACATATGTATAAAATATAT
Found at i:11427175 original size:19 final size:19
Alignment explanation
Indices: 11427128--11427204 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
11427118 AAACTAAATC
*
11427128 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11427148 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
11427170 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
11427189 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11427205 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11428490 original size:18 final size:18
Alignment explanation
Indices: 11428472--11428514 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
11428462 ATTAAATTAA
*
11428472 TCGATTAAATTGATCTAAT
1 TCGATT-AATCGATCTAAT
11428491 TCGATTAATCGATCTAAT
1 TCGATTAATCGATCTAAT
11428509 TCGATT
1 TCGATT
11428515 GAAGGTCCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (18 bp):
TCGATTAATCGATCTAAT
Found at i:11429237 original size:2 final size:2
Alignment explanation
Indices: 11429230--11429264 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11429220 NNNNNNNNNG
11429230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11429265 TCCTATTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11439312 original size:28 final size:29
Alignment explanation
Indices: 11439267--11439334 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
11439257 TGGAAGACTT
11439267 ATTGATTTTTT-TATTTTACAAGGATTTA
1 ATTGATTTTTTATATTTTACAAGGATTTA
* * *
11439295 ATT-ATTTTTTATTTTTTACGAGGGTTTA
1 ATTGATTTTTTATATTTTACAAGGATTTA
*
11439323 ATTGATTATTTA
1 ATTGATTTTTTA
11439335 AGTACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.21
28 20 0.59
29 7 0.21
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (29 bp):
ATTGATTTTTTATATTTTACAAGGATTTA
Found at i:11439411 original size:9 final size:9
Alignment explanation
Indices: 11439399--11439513 Score: 63
Period size: 10 Copynumber: 12.0 Consensus size: 9
11439389 ATAAAAATTT
11439399 ATTATAAAA
1 ATTATAAAA
11439408 ATTATACAAA
1 ATTATA-AAA
11439418 A-TATTAAAA
1 ATTA-TAAAA
* **
11439427 GTTATAAGT
1 ATTATAAAA
* *
11439436 TTTTTAAGAA
1 ATTATAA-AA
*
11439446 AATATAAAAA
1 ATTAT-AAAA
*
11439456 ATTATTAAA
1 ATTATAAAA
11439465 ATTATTAAAA
1 ATTA-TAAAA
11439475 TATTATAATAA
1 -ATTATAA-AA
*
11439486 ATTAAAGAAA
1 ATTATA-AAA
11439496 TATTATAAAA
1 -ATTATAAAA
11439506 ATTA-AAAA
1 ATTATAAAA
11439514 TTACTAGACA
Statistics
Matches: 81, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
8 4 0.05
9 30 0.37
10 33 0.41
11 14 0.17
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
ATTATAAAA
Found at i:11439489 original size:21 final size:19
Alignment explanation
Indices: 11439398--11439514 Score: 80
Period size: 20 Copynumber: 6.1 Consensus size: 19
11439388 CATAAAAATT
11439398 TATTATAAAAATTATACAAA
1 TATTATAAAAATTATA-AAA
* *
11439418 -A-TATTAAAAGTTAT-AAG
1 TATTA-TAAAAATTATAAAA
* * *
11439435 TTTTTTAAGAAAATATAAAA
1 TATTATAA-AAATTATAAAA
* *
11439455 AATTATTAAAATTATTAAAA
1 TATTATAAAAATTA-TAAAA
*
11439475 TATTATAATAAATTAAAGAAA
1 TATTATAA-AAATTATA-AAA
11439496 TATTATAAAAATTA-AAAA
1 TATTATAAAAATTATAAAA
11439514 T
1 T
11439515 TACTAGACAT
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
17 2 0.03
18 9 0.12
19 22 0.30
20 24 0.32
21 17 0.23
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TATTATAAAAATTATAAAA
Found at i:11439510 original size:20 final size:21
Alignment explanation
Indices: 11439472--11439511 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11439462 AAAATTATTA
11439472 AAATATTATAATAAATTAAAG
1 AAATATTATAATAAATTAAAG
11439493 AAATATTATAA-AAATTAAA
1 AAATATTATAATAAATTAAA
11439512 AATTACTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAATATTATAATAAATTAAAG
Found at i:11445698 original size:23 final size:23
Alignment explanation
Indices: 11445667--11445710 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11445657 TGAGGTACCT
*
11445667 GATACGACATATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
*
11445690 GATATGACACATAAAGTGCCT
1 GATACGACACATAAAGTGCCT
11445711 AATTGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (23 bp):
GATACGACACATAAAGTGCCTGA
Found at i:11446717 original size:17 final size:17
Alignment explanation
Indices: 11446695--11446741 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
11446685 GAATGGTCTC
*
11446695 TGTTTCATTTCTTCTTT
1 TGTTTCATTTATTCTTT
*
11446712 TGTTTCTTTTATTCTTT
1 TGTTTCATTTATTCTTT
* *
11446729 TATTTTATTTATT
1 TGTTTCATTTATT
11446742 TTATGTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (17 bp):
TGTTTCATTTATTCTTT
Found at i:11446762 original size:3 final size:3
Alignment explanation
Indices: 11446754--11446791 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
11446744 ATGTATTAGT
*
11446754 TAA TAA TAA TAA AAA TATA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
11446792 TTTAATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11446778 original size:19 final size:21
Alignment explanation
Indices: 11446754--11446797 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
11446744 ATGTATTAGT
11446754 TAATAATAATA-AA-AATATA
1 TAATAATAATATAATAATATA
*
11446773 TAATAATAATATAATAATATT
1 TAATAATAATATAATAATATA
11446794 TAAT
1 TAAT
11446798 TCACAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATAATAATATAATAATATA
Found at i:11446786 original size:11 final size:11
Alignment explanation
Indices: 11446754--11446791 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11446744 ATGTATTAGT
11446754 TAATAATAATA
1 TAATAATAATA
11446765 -AA-AAT-ATA
1 TAATAATAATA
11446773 TAATAATAATA
1 TAATAATAATA
11446784 TAATAATA
1 TAATAATA
11446792 TTTAATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.12
9 5 0.21
10 5 0.21
11 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:11446959 original size:30 final size:27
Alignment explanation
Indices: 11446924--11446988 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
11446914 TTTCCTATAA
*
11446924 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
11446954 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
11446981 TATAATAT
1 TATAATAT
11446989 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:11446990 original size:16 final size:17
Alignment explanation
Indices: 11446954--11446990 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11446944 TAATATAATT
11446954 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
11446971 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
11446986 TATAA
1 TATAA
11446991 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:11449754 original size:11 final size:11
Alignment explanation
Indices: 11449734--11449786 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
11449724 TAAAAATTAA
11449734 AAAAAGTATTTT
1 AAAAA-TATTTT
11449746 AAAAATATTTT
1 AAAAATATTTT
*
11449757 -AAAA-A-TTA
1 AAAAATATTTT
11449765 AAAAAGTATTTT
1 AAAAA-TATTTT
11449777 -AAAATATTTT
1 AAAAATATTTT
11449787 TAAATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 2 0.06
9 5 0.14
10 10 0.29
11 11 0.31
12 7 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11449756 original size:32 final size:31
Alignment explanation
Indices: 11449719--11449798 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
11449709 ACCAAAAATT
11449719 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAGTATTTT-AAAA
11449751 TATTTTAAAAATT-AAAAAAGTATTTTAAAA
1 TATTTTAAAAATTAAAAAAAGTATTTTAAAA
* *
11449781 TATTTTTAAATTTAAAAA
1 TATTTTAAAAATTAAAAA
11449799 TAAAAACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 15 0.33
31 17 0.38
32 13 0.29
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATTAAAAAAAGTATTTTAAAA
Found at i:11449771 original size:31 final size:30
Alignment explanation
Indices: 11449719--11449798 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
11449709 ACCAAAAATT
11449719 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATT-AAAAAAGTATTTT-AAAA
11449751 TATTTTAAAAATTAAAAAAGTATTTTAAAA
1 TATTTTAAAAATTAAAAAAGTATTTTAAAA
* *
11449781 TATTTTTAAATTTAAAAA
1 TATTTTAAAAATTAAAAA
11449799 TAAAAACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 20 0.43
31 13 0.28
32 13 0.28
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTTTAAAAATTAAAAAAGTATTTTAAAA
Found at i:11449787 original size:11 final size:10
Alignment explanation
Indices: 11449735--11449791 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
11449725 AAAAATTAAA
11449735 AAAAGTATTTT
1 AAAA-TATTTT
11449746 AAAAATATTTT
1 -AAAATATTTT
**
11449757 AAAA-ATTAA
1 AAAATATTTT
11449766 AAAAGTATTTT
1 AAAA-TATTTT
11449777 AAAATATTTT
1 AAAATATTTT
*
11449787 TAAAT
1 AAAAT
11449792 TTAAAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 7 0.18
10 14 0.37
11 13 0.34
12 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (10 bp):
AAAATATTTT
Found at i:11450135 original size:17 final size:17
Alignment explanation
Indices: 11450113--11450157 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
11450103 NNNNNNAATT
11450113 TTAAAATATTTTTAAAA
1 TTAAAATATTTTTAAAA
*
11450130 TTAAAA-AATTTTAAAA
1 TTAAAATATTTTTAAAA
*
11450146 ATAAATATATTT
1 TTAAA-ATATTT
11450158 ATTATATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 13 0.57
17 7 0.30
18 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATATTTTTAAAA
Found at i:11452821 original size:16 final size:16
Alignment explanation
Indices: 11452790--11452826 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
11452780 ATGTGAAGAA
11452790 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
11452806 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
11452822 TATTA
1 TATTA
11452827 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:11453636 original size:15 final size:15
Alignment explanation
Indices: 11453587--11453637 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
11453577 TTGTCTTAGG
*
11453587 TTACATTTTAGTCAC
1 TTACGTTTTAGTCAC
* *
11453602 TTATGTTTTAAAT-A-
1 TTACGTTTT-AGTCAC
11453616 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
11453631 TTACGTT
1 TTACGTT
11453638 ATCGTGTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:11454192 original size:10 final size:10
Alignment explanation
Indices: 11454177--11454238 Score: 81
Period size: 10 Copynumber: 6.1 Consensus size: 10
11454167 TTGTTAGAAA
11454177 AAGCTAAATT
1 AAGCTAAATT
11454187 AAGCTAAATT
1 AAGCTAAATT
*
11454197 ATTGCTAGAA-T
1 A-AGCTA-AATT
11454208 AAGCTAAATT
1 AAGCTAAATT
11454218 AAGCTAAATT
1 AAGCTAAATT
*
11454228 AAGTTAAATT
1 AAGCTAAATT
11454238 A
1 A
11454239 TTGGTCTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.04
10 36 0.78
11 6 0.13
12 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (10 bp):
AAGCTAAATT
Found at i:11454198 original size:31 final size:31
Alignment explanation
Indices: 11454160--11454228 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
11454150 AACTCTAGGT
*
11454160 TAAATTATTGTTAGAAAAAGCTAAATTAAGC
1 TAAATTATTGCTAGAAAAAGCTAAATTAAGC
*
11454191 TAAATTATTGCTAGAATAAGCTAAATTAAGC
1 TAAATTATTGCTAGAAAAAGCTAAATTAAGC
11454222 TAAATTA
1 TAAATTA
11454229 AGTTAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (31 bp):
TAAATTATTGCTAGAAAAAGCTAAATTAAGC
Found at i:11455489 original size:25 final size:25
Alignment explanation
Indices: 11455442--11455489 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11455432 TTTAATGTCG
* * *
11455442 AAAATTTAAAAATATGATCCTTAAT
1 AAAACTTAAAAAAATGATACTTAAT
*
11455467 AAAACTTAAAAAAATGTTACTTA
1 AAAACTTAAAAAAATGATACTTA
11455490 TTAAGACTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAACTTAAAAAAATGATACTTAAT
Found at i:11455850 original size:4 final size:4
Alignment explanation
Indices: 11455808--11455843 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
11455798 AATTGTATAG
*
11455808 AAAT AACAT AAAT AAAT AAAT AAAT AAAC AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11455844 AATAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:11456446 original size:3 final size:3
Alignment explanation
Indices: 11456438--11456503 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
11456428 ATATATAGGT
11456438 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATGA A-A ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
11456483 AT- ATCA ATA CTA ATA A-A ATA A
1 ATA AT-A ATA ATA ATA ATA ATA A
11456504 ACTAAAAAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.15
3 39 0.72
4 7 0.13
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11456460 original size:18 final size:18
Alignment explanation
Indices: 11456437--11456486 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11456427 TATATATAGG
11456437 TATAATAATAATATATAA
1 TATAATAATAATATATAA
11456455 TATAATAATAATA-ATAA
1 TATAATAATAATATATAA
*
11456472 TGAAAATAATAATAT
1 T-ATAATAATAATAT
11456487 CAATACTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:11458307 original size:16 final size:16
Alignment explanation
Indices: 11458286--11458318 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11458276 ATCCCTCTTA
11458286 AATAATATTATA-TAAG
1 AATAAT-TTATATTAAG
11458302 AATAATTTATATTAAG
1 AATAATTTATATTAAG
11458318 A
1 A
11458319 TTGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AATAATTTATATTAAG
Found at i:11459361 original size:21 final size:20
Alignment explanation
Indices: 11459323--11459373 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
11459313 TGAGTTTAGG
*
11459323 ATTTTTTT-TATATTTTTAA
1 ATTTTTTTATATATATTTAA
*
11459342 ATTTTTTTATATAATATTTAG
1 ATTTTTTTATAT-ATATTTAA
11459363 ATTTTTTTATA
1 ATTTTTTTATA
11459374 ATTTTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 17 0.61
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTTTTTATATATATTTAA
Found at i:11460965 original size:21 final size:21
Alignment explanation
Indices: 11460939--11460978 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11460929 GTACTATTTT
*
11460939 TTTGAACTAGAGCCAATTCTA
1 TTTGAACCAGAGCCAATTCTA
11460960 TTTGAACCAGAGCCAATTC
1 TTTGAACCAGAGCCAATTC
11460979 CAACTGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
TTTGAACCAGAGCCAATTCTA
Found at i:11460986 original size:21 final size:21
Alignment explanation
Indices: 11460941--11460991 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11460931 ACTATTTTTT
* * **
11460941 TGAACTAGAGCCAATTCTATT
1 TGAACCAGAGCCAATTCCAAC
11460962 TGAACCAGAGCCAATTCCAAC
1 TGAACCAGAGCCAATTCCAAC
11460983 TGAACCAGA
1 TGAACCAGA
11460992 ATATGGAGGT
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:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (21 bp):
TGAACCAGAGCCAATTCCAAC
Found at i:11463721 original size:12 final size:12
Alignment explanation
Indices: 11463704--11463736 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11463694 TGACCCGCCC
11463704 ATATTAATTTTT
1 ATATTAATTTTT
*
11463716 ATATTATTTTTT
1 ATATTAATTTTT
11463728 ATA-TAATTT
1 ATATTAATTT
11463737 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11472416 original size:23 final size:23
Alignment explanation
Indices: 11472390--11472435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11472380 AAAAAATTTA
*
11472390 AGATGCCTGATTTGTGTTTATTG
1 AGATGCCTGATTTGGGTTTATTG
**
11472413 AGATGTTTGATTTGGGTTTATTG
1 AGATGCCTGATTTGGGTTTATTG
11472436 CATTACGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (23 bp):
AGATGCCTGATTTGGGTTTATTG
Found at i:11473565 original size:20 final size:20
Alignment explanation
Indices: 11473522--11473565 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11473512 GTTTTAAACT
11473522 AAAC-TTTTTTATTAACATA
1 AAACTTTTTTTATTAACATA
* *
11473541 TAACTTTTTTTATTAACTTA
1 AAACTTTTTTTATTAACATA
11473561 AAACT
1 AAACT
11473566 CCTAAATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTTTTTATTAACATA
Found at i:11474013 original size:16 final size:16
Alignment explanation
Indices: 11473977--11474016 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
11473967 AAAAGTCCAA
11473977 AAAAAATATATTTAAT
1 AAAAAATATATTTAAT
* *
11473993 AAAAAGTATATTTGAT
1 AAAAAATATATTTAAT
*
11474009 TAAAAATA
1 AAAAAATA
11474017 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAAAATATATTTAAT
Found at i:11474020 original size:6 final size:6
Alignment explanation
Indices: 11474009--11474040 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11473999 TATATTTGAT
11474009 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
11474041 TTTAACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:11474324 original size:11 final size:12
Alignment explanation
Indices: 11474292--11474325 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
11474282 GGCCCGTCCG
11474292 TATTAATTTTTA
1 TATTAATTTTTA
11474304 TATTAA-TTTTA
1 TATTAATTTTTA
11474315 TA-TAATTTTTA
1 TATTAATTTTTA
11474326 AAAAAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 12 0.57
12 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:11474575 original size:29 final size:29
Alignment explanation
Indices: 11474538--11474594 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
11474528 AAAATAGTGG
*
11474538 AAAACAACAAGAAAATAGCAACAAAACAAT
1 AAAACAACAAGAAAACAGCAA-AAAACAAT
*
11474568 AAAA-AACAAGAAAACAGTAAAAAACAA
1 AAAACAACAAGAAAACAGCAAAAAACAA
11474595 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 14 0.56
30 4 0.16
ACGTcount: A:0.74, C:0.14, G:0.07, T:0.05
Consensus pattern (29 bp):
AAAACAACAAGAAAACAGCAAAAAACAAT
Found at i:11474583 original size:18 final size:18
Alignment explanation
Indices: 11474560--11474594 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11474550 AAATAGCAAC
11474560 AAAACAATAAAAAACAAG
1 AAAACAATAAAAAACAAG
*
11474578 AAAACAGTAAAAAACAA
1 AAAACAATAAAAAACAA
11474595 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.11, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAACAATAAAAAACAAG
Found at i:11480965 original size:55 final size:55
Alignment explanation
Indices: 11480876--11480988 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 55
11480866 CACAGACGTA
* * *
11480876 TGGTTTGGCCATGTGACCCAAGTCAGGGAGTTACATGGGCTAGGACACGGGCGTG
1 TGGTCTGGCCATGTGACCCAAGTCAGGGAGTTACACGGGCAAGGACACGGGCGTG
* * *
11480931 TGGTCTGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGCAAGGATACGGGCGTG
1 TGGTCTGGCCATGTGACCCAAGTCAGGGAGTTACACGGGCAAGGACACGGGCGTG
11480986 TGG
1 TGG
11480989 CCCCATTTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.19, C:0.20, G:0.39, T:0.21
Consensus pattern (55 bp):
TGGTCTGGCCATGTGACCCAAGTCAGGGAGTTACACGGGCAAGGACACGGGCGTG
Found at i:11481483 original size:40 final size:40
Alignment explanation
Indices: 11481439--11481536 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
11481429 CGTTTGGAAG
*
11481439 AAAAACGCCGCTAAAAATTAAGCAT-TAGCGGTGCTTTTAA
1 AAAAACGCCGCTAAAAATCAAG-ATCTAGCGGTGCTTTTAA
* * * * * *
11481479 AAAAACGCCACTAAAGATCGAGTTCTAGTGGTGCTTTTGA
1 AAAAACGCCGCTAAAAATCAAGATCTAGCGGTGCTTTTAA
11481519 AAAAACGCCGCTAAAAAT
1 AAAAACGCCGCTAAAAAT
11481537 GAGTATTAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGATCTAGCGGTGCTTTTAA
Found at i:11481678 original size:41 final size:41
Alignment explanation
Indices: 11481610--11481892 Score: 361
Period size: 41 Copynumber: 6.9 Consensus size: 41
11481600 GAGTTTTCGG
* * * *
11481610 GGGCTTTCGCGGCGTTTATAAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* *
11481651 GGGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
11481692 GGGCTTTAGCGCCGTTTTTGAAGAAGCGCCGGTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* *
11481733 GGGCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
11481774 GGGATTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * * *
11481815 GAGATTTAGCGGCGTTTTTGAGGAGGCGCCGCTAATGCT-A
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* **
11481855 GGGGCTATAGCGGCGTTTTTGGGGAAGCGCCGCTAATG
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATG
11481893 ATCTATTTTT
Statistics
Matches: 215, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 215 1.00
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:11482179 original size:15 final size:15
Alignment explanation
Indices: 11482159--11482188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11482149 TATTTTAAAA
11482159 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
11482174 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
11482189 AATTAGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:11482228 original size:21 final size:20
Alignment explanation
Indices: 11482194--11482234 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11482184 TTATGAATTA
*
11482194 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
11482214 GGGATTTAAGGTTTATGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
11482235 AGGGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:11482289 original size:15 final size:16
Alignment explanation
Indices: 11482269--11482299 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11482259 AGGTTAAGAG
11482269 TTAGGGATTC-AGGGT
1 TTAGGGATTCAAGGGT
11482284 TTAGGGATTCAAGGGT
1 TTAGGGATTCAAGGGT
11482300 CAGGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.23, C:0.06, G:0.39, T:0.32
Consensus pattern (16 bp):
TTAGGGATTCAAGGGT
Found at i:11482539 original size:23 final size:22
Alignment explanation
Indices: 11482512--11482568 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
11482502 TGATATTTAA
* *
11482512 GGTTTAGGGGTTAGAGGTTTAGG
1 GGTTTAAGGGTTAGACG-TTAGG
11482535 GGTTTAAGGGTTAGACGTTAGG
1 GGTTTAAGGGTTAGACGTTAGG
*
11482557 GG-TTAAGAGTTA
1 GGTTTAAGGGTTA
11482569 AGGATTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 9 0.29
22 7 0.23
23 15 0.48
ACGTcount: A:0.23, C:0.02, G:0.42, T:0.33
Consensus pattern (22 bp):
GGTTTAAGGGTTAGACGTTAGG
Found at i:11482548 original size:15 final size:15
Alignment explanation
Indices: 11482507--11482548 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
11482497 AGGGTTGATA
11482507 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGG
11482522 -TTAGAGGTTTAGGGG
1 TTTA-AGGTTTAGGGG
*
11482537 TTTAAGGGTTAG
1 TTTAAGGTTTAG
11482549 ACGTTAGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (15 bp):
TTTAAGGTTTAGGGG
Found at i:11483368 original size:16 final size:16
Alignment explanation
Indices: 11483347--11483416 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
11483337 TTTGGTTCGC
* *
11483347 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
11483363 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
11483379 TGTAATGTAATAGAGG
1 TGTAATGGAATAGAGG
11483395 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
11483411 TGTAAT
1 TGTAAT
11483417 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:11483500 original size:39 final size:43
Alignment explanation
Indices: 11483395--11483504 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
11483385 GTAATAGAGG
11483395 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
11483440 TGTAATGGAATAGAGACGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
11483480 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
11483505 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:11483890 original size:14 final size:15
Alignment explanation
Indices: 11483851--11483892 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11483841 ATTTAGCATA
*
11483851 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11483866 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11483880 A-TATAATTTAATA
1 ATTATAATTAAATA
11483893 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11483941 original size:37 final size:35
Alignment explanation
Indices: 11483772--11483941 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
11483762 TTAAATATAA
*
11483772 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* * *
11483809 TATATGAATTTACTCAAATCATAAT-A-TAGATAATT
1 TATAT-AATTTAATAAAATCATAATAATTA-ATATTT
* * * *
11483844 TAGCATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TA-TATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
11483879 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
11483916 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
11483942 TATGATACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 5 0.05
35 9 0.09
36 8 0.08
37 34 0.34
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:11483994 original size:107 final size:108
Alignment explanation
Indices: 11483758--11483994 Score: 313
Period size: 107 Copynumber: 2.2 Consensus size: 108
11483748 NNNNNNNNNA
*
11483758 TATATTAAATATAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
1 TATATTAAATAT-AT-TATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
* * ** * *
11483823 CAAATCATAATATAGATAATTTAGCATAATTATTATTAAATATAT
64 AAAATCATAATATAGATAATATAAAATAATAATTATGAAATATAT
11483868 TATAATTAAA-ATA-TATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTA
1 TAT-ATTAAATATATTATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTA
*
11483931 AAATCATAATATATGATACTATAAAAT-ATAATT-TGAAATA-AT
65 AAATCATAATATA-GATAATATAAAATAATAATTATGAAATATAT
*
11483973 TAATATTAAATATATTTTAATT
1 T-ATATTAAATATATTATAATT
11483995 AAAATATATG
Statistics
Matches: 113, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
105 9 0.08
106 11 0.10
107 72 0.64
108 9 0.08
109 1 0.01
110 5 0.04
111 6 0.05
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (108 bp):
TATATTAAATATATTATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
AATCATAATATAGATAATATAAAATAATAATTATGAAATATAT
Found at i:11484068 original size:47 final size:46
Alignment explanation
Indices: 11483999--11484166 Score: 141
Period size: 47 Copynumber: 3.7 Consensus size: 46
11483989 TTAATTAAAA
* *
11483999 TATATG-ATTTAATAAAATTTAAAATAATTATACCTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATA-ATAATAAATTTTCT
* * * * **
11484046 TATATGAATTTTTATAATTTAAAATAATTATTATTCACTAAAATTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAAT-AATAAATTTTCT
* * *
11484094 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
11484137 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
11484167 ATATTAAATA
Statistics
Matches: 93, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
43 10 0.11
44 17 0.18
45 5 0.05
46 5 0.05
47 40 0.43
48 16 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:11484118 original size:28 final size:26
Alignment explanation
Indices: 11484061--11484118 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
11484051 GAATTTTTAT
*
11484061 AATTTAAAATAATTATTATTCACTAA
1 AATTTAAAATAATTATAATTCACTAA
11484087 AATTTAATAATAATATATAATTTCA-TAA
1 AATTTAA-AATAAT-TATAA-TTCACTAA
11484115 AATT
1 AATT
11484119 CTTGATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 6 0.21
28 11 0.39
29 4 0.14
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAAATAATTATAATTCACTAA
Found at i:11484128 original size:91 final size:91
Alignment explanation
Indices: 11484033--11484200 Score: 282
Period size: 91 Copynumber: 1.8 Consensus size: 91
11484023 TAATTATACC
* * * *
11484033 TAATAAATTTTCTTATATGAATTTTTATAATTTAAAATAATTATTATTCACTAAAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
11484098 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
*
11484124 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
*
11484189 GATATATAATTT
66 AATATATAATTT
11484201 ATACATTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:11484195 original size:44 final size:43
Alignment explanation
Indices: 11484058--11484201 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
11484048 TATGAATTTT
* * * *
11484058 TATAATTTAAAATAATTATTATTCACTAAAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
11484102 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
11484149 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
11484193 TATAATTTA
1 TATAATTTA
11484202 TACATTTAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 34 0.45
45 7 0.09
46 6 0.08
47 22 0.29
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:11486779 original size:27 final size:27
Alignment explanation
Indices: 11486726--11486786 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
11486716 CCACTGCTGT
* **
11486726 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
**
11486753 TGATGATGTTGCTGTTGTTGAAAATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
11486780 TGATGAT
1 TGATGAT
11486787 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (27 bp):
TGATGATGTTGCTGTTGCAGAAAATGA
Found at i:11491577 original size:43 final size:43
Alignment explanation
Indices: 11491518--11491782 Score: 320
Period size: 42 Copynumber: 6.2 Consensus size: 43
11491508 AAAAGTTTGT
* * ** *
11491518 TCTATAGTGGCATTTGTAAAAAAAGCGCCGCTAAAGGTTGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * *
11491561 TCTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* *
11491604 TCTTTAGCGGCG-TTGTTGAAAAAGCGCCGCTAAAGGTCCTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * * *
11491646 TCTTTAGTGGAGTTT-TTGGAAAAGCGCCGCTAAAGGTCGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * *
11491688 TCTATAGCGGTGTTT-TTGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * **
11491730 TCTTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAAGGTCGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
11491773 TCTATAGCGG
1 TCTATAGCGG
11491783 TGATTATTTC
Statistics
Matches: 196, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 115 0.59
43 81 0.41
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
Done.