Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 262 of 332
Found at i:87689342 original size:39 final size:40
Alignment explanation
Indices: 87689235--87689345 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
87689225 GACCTCGAGT
* **
87689235 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
87689276 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
87689314 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
87689346 AACTATCTGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:87691231 original size:21 final size:21
Alignment explanation
Indices: 87691192--87691231 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
87691182 GGACTAAACT
* * *
87691192 GAAAACTTTGGAAAGTTTTGG
1 GAAAACTTAGAAAAATTTTGG
87691213 GAAAACTTAGAAAAATTTT
1 GAAAACTTAGAAAAATTTT
87691232 CATGAAACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (21 bp):
GAAAACTTAGAAAAATTTTGG
Found at i:87693143 original size:47 final size:48
Alignment explanation
Indices: 87693089--87693261 Score: 249
Period size: 48 Copynumber: 3.6 Consensus size: 48
87693079 TATTGATGCT
* * * *
87693089 GATGCCATGTTCTAGACATGGTCTAACACTAGCACA-ATATCATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * *
87693136 GATGCCATGTCCCAAACATGATCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
87693184 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* **
87693232 GATGCCATGCCCCAGACACAGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
87693262 GGCTCTCATC
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 30 0.27
48 82 0.73
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.22
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
Found at i:87693291 original size:35 final size:35
Alignment explanation
Indices: 87693244--87693318 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
87693234 TGCCATGCCC
87693244 CAGACACAGTCTTACACTGGCTCTCATCTCGAATG
1 CAGACACAGTCTTACACTGGCTCTCATCTCGAATG
* *
87693279 TAGACATAGTCTTACACTGGCTCTCATCTCGAATG
1 CAGACACAGTCTTACACTGGCTCTCATCTCGAATG
87693314 CAGAC
1 CAGAC
87693319 GCCATGTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (35 bp):
CAGACACAGTCTTACACTGGCTCTCATCTCGAATG
Found at i:87699714 original size:23 final size:22
Alignment explanation
Indices: 87699671--87699715 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
87699661 ACACAAGGGT
*
87699671 GTGTGGGTCCTTGGGCCAGGCC
1 GTGTGGGTCCTTGGGCAAGGCC
87699693 GTGTGGG-CCTTACGGGCAAGGCC
1 GTGTGGGTCCTT--GGGCAAGGCC
87699716 AATTTGGGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.09, C:0.27, G:0.44, T:0.20
Consensus pattern (22 bp):
GTGTGGGTCCTTGGGCAAGGCC
Found at i:87703452 original size:14 final size:15
Alignment explanation
Indices: 87703411--87703453 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
87703401 ATCAAAAACA
*
87703411 AAATTAAAATTAAAT
1 AAATTAAAATAAAAT
*
87703426 -AATCAAAATAAAAT
1 AAATTAAAATAAAAT
87703440 AAATTAAAA-AAAAT
1 AAATTAAAATAAAAT
87703454 TAAAGAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAAATAAAAT
Found at i:87703640 original size:17 final size:17
Alignment explanation
Indices: 87703613--87703645 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87703603 ACTAATCGAC
87703613 CAATACTCACTTATCTTT
1 CAATACTCACTT-TCTTT
87703631 CAAT-CTCACTTTCTT
1 CAATACTCACTTTCTT
87703646 GACTTGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATACTCACTTTCTTT
Found at i:87710309 original size:2 final size:2
Alignment explanation
Indices: 87710302--87710335 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
87710292 TGCTCAAGTT
87710302 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
87710336 ACACACACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:87710340 original size:2 final size:2
Alignment explanation
Indices: 87710335--87710362 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87710325 CTCTCTCTCT
87710335 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
87710363 TATCTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:87721106 original size:14 final size:15
Alignment explanation
Indices: 87721077--87721109 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
87721067 CTTTTTTCTT
87721077 GGAGGGTGGGAAGGG
1 GGAGGGTGGGAAGGG
*
87721092 GGAGGG-GGGAGGGG
1 GGAGGGTGGGAAGGG
87721106 GGAG
1 GGAG
87721110 TTTCTACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.79, T:0.03
Consensus pattern (15 bp):
GGAGGGTGGGAAGGG
Found at i:87723920 original size:30 final size:28
Alignment explanation
Indices: 87723869--87723931 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 28
87723859 TTATCATTAA
87723869 ATTAAAATAAAATTTAATATTAAATAATTT
1 ATTAAAATAAAATTT-ATATT-AATAATTT
*
87723899 ATTAAAATAATGAATTT-TATTAATATTTT
1 ATTAAAATAA--AATTTATATTAATAATTT
87723928 ATTA
1 ATTA
87723932 TATTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
32 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTAAAATAAAATTTATATTAATAATTT
Found at i:87725212 original size:11 final size:11
Alignment explanation
Indices: 87725196--87725221 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
87725186 GCTTGTAAAG
87725196 CTACATCTACT
1 CTACATCTACT
87725207 CTACATCTACT
1 CTACATCTACT
87725218 CTAC
1 CTAC
87725222 TCAATGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (11 bp):
CTACATCTACT
Found at i:87727040 original size:46 final size:46
Alignment explanation
Indices: 87726905--87727087 Score: 188
Period size: 47 Copynumber: 3.9 Consensus size: 46
87726895 ATAGTTTATT
* * * * *
87726905 TGCTTGACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATC
1 TGCTCGACCAGTGGTTTAT-CACAACGTATTCTAGTCAGTAGTCATC
* * * *
87726952 TGCTCCACCTGTGGTTTAATCACAATGTATTCTAGTCGGTAGTCATC
1 TGCTCGACCAGTGGTTT-ATCACAACGTATTCTAGTCAGTAGTCATC
** *
87726999 TAATCGACCAGTGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATC
1 TGCTCGACCAGTGGTTTATC-ACAACGTATTCTAGTCAGTAGTCATC
* * *
87727045 TGCGCGACCATTGGTTTATGCACAACGCATTCTAGTCAGTAGT
1 TGCTCGACCAGTGGTTTAT-CACAACGTATTCTAGTCAGTAGT
87727088 TGTGACACCC
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 40 0.36
47 70 0.62
48 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (46 bp):
TGCTCGACCAGTGGTTTATCACAACGTATTCTAGTCAGTAGTCATC
Found at i:87727077 original size:93 final size:94
Alignment explanation
Indices: 87726910--87727087 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 94
87726900 TTATTTGCTT
* *
87726910 GACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTGTGGTTTAATCAC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACCTGTGGTTTAATCAC
* * *
87726975 AATGTATTCTAGTCGGTAGTCATCTAATC
66 AACGCATTCTAGTCAGTAGTCATCTAATC
* * * * * *
87727004 GACCAGTGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATCTGCGCGACCAT-TGGTTT-ATGC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACC-TGTGGTTTAAT-C
87727066 ACAACGCATTCTAGTCAGTAGT
64 ACAACGCATTCTAGTCAGTAGT
87727088 TGTGACACCC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
92 2 0.03
93 52 0.73
94 17 0.24
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (94 bp):
GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACCTGTGGTTTAATCAC
AACGCATTCTAGTCAGTAGTCATCTAATC
Found at i:87729904 original size:24 final size:24
Alignment explanation
Indices: 87729876--87729951 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
87729866 GAATGTGTAT
87729876 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* *
87729900 ATGTGATGA-ATGTG--AACAT-G-CA
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
87729922 TATGTGTGATAAGGCCGAATGGCCA
1 -ATGTGTGATAAGGCCGAATGGCCA
87729947 ATGTG
1 ATGTG
87729952 ATGAATGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 16 0.41
25 6 0.15
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:87729911 original size:47 final size:47
Alignment explanation
Indices: 87729857--87730141 Score: 480
Period size: 47 Copynumber: 6.1 Consensus size: 47
87729847 GATTTTATGA
** *
87729857 GATGAATGTGAATGTGTATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87729904 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
87729951 GATGAATGTGAACATGCATATGTGTAATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
87729998 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
87730045 GATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* ** *
87730092 GATGAATGTGAACATGCATATGTGTGATAAAGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87730139 GAT
1 GAT
87730142 AAACGTGGAA
Statistics
Matches: 225, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:87730160 original size:141 final size:141
Alignment explanation
Indices: 87729864--87730187 Score: 481
Period size: 141 Copynumber: 2.3 Consensus size: 141
87729854 TGAGATGAAT
* *
87729864 GTGAATGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* *
87729929 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTAATAAGGCCGAATGGCCA
66 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTAATAAAGCAGAATGGCCA
* *
87729994 ATGTGATGAAT
131 ATGTGATAAAC
* * *
87730005 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCATATGTGT
1 GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* * *
87730070 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAAGTAGAATGGCTA
66 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTAATAAAGCAGAATGGCCA
87730135 ATGTGATAAAC
131 ATGTGATAAAC
** *
87730146 GTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATGTGA
1 GT-GAACGTGTATATATGT-GATAAGGCCGAATGGCCAATGTGA
87730188 GATATGTATG
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
141 158 0.96
142 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (141 bp):
GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTAATAAAGCAGAATGGCCA
ATGTGATAAAC
Found at i:87732483 original size:31 final size:31
Alignment explanation
Indices: 87732445--87732508 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
87732435 TTTATACAGA
87732445 AAATTAAATCCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
*
87732476 AAATTAAATTCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
87732507 AA
1 AA
87732509 TTTAGTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
AAATTAAATCCGACACTTCGATGCCGGTCCT
Found at i:87734353 original size:79 final size:79
Alignment explanation
Indices: 87734221--87734380 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
87734211 CATCGTTTTC
*
87734221 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTGGTTAATTCAAATTGAG
*
87734286 TTTTAAATGATTAT
66 TTTTAAACGATTAT
87734300 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTGGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTGGTTAATTCAAATTGAG
87734365 TTTTAAACGATTAT
66 TTTTAAACGATTAT
87734379 AT
1 AT
87734381 TTAGATTTGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (79 bp):
ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTGGTTAATTCAAATTGAG
TTTTAAACGATTAT
Found at i:87741156 original size:15 final size:16
Alignment explanation
Indices: 87741136--87741169 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
87741126 GATTCCAATA
*
87741136 AAATGTGATTG-CTGG
1 AAATGTAATTGTCTGG
87741151 AAATGTAATTGTCTGG
1 AAATGTAATTGTCTGG
87741167 AAA
1 AAA
87741170 GTTATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (16 bp):
AAATGTAATTGTCTGG
Found at i:87742288 original size:30 final size:30
Alignment explanation
Indices: 87742227--87742288 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
87742217 GATAGGAGGA
* * * ***
87742227 GAGTAAAAGTTTTGGGGAGAAAGTGGGAAG
1 GAGTAAAAGTTTTGAGGAAAAAATAAAAAG
87742257 GAGTAAAAGTTTTGAGGAAAAAATAAAAAG
1 GAGTAAAAGTTTTGAGGAAAAAATAAAAAG
87742287 GA
1 GA
87742289 AAACTTAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (30 bp):
GAGTAAAAGTTTTGAGGAAAAAATAAAAAG
Found at i:87743142 original size:21 final size:21
Alignment explanation
Indices: 87743116--87743166 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
87743106 TTTTAGATTT
*
87743116 GTTTTGTTTTGCTAAATAGAA
1 GTTTTGTTTTGCTAAACAGAA
87743137 GTTTTGTTTTGCTAAACAGAA
1 GTTTTGTTTTGCTAAACAGAA
87743158 GTTTTGTTT
1 GTTTTGTTT
87743167 AAGTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.51
Consensus pattern (21 bp):
GTTTTGTTTTGCTAAACAGAA
Found at i:87743939 original size:21 final size:22
Alignment explanation
Indices: 87743909--87743958 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
87743899 ATCCCTGGTC
* *
87743909 CACACAGCCGTATGCCTCTA-T
1 CACACGGCCGTATGCCCCTATT
*
87743930 CACACGGCCGTGTGCCCCTATT
1 CACACGGCCGTATGCCCCTATT
87743952 CACACGG
1 CACACGG
87743959 GTGTTTGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (22 bp):
CACACGGCCGTATGCCCCTATT
Found at i:87746012 original size:14 final size:14
Alignment explanation
Indices: 87745995--87746044 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
87745985 GTTAGATTCC
*
87745995 AATGGCCATATTAT
1 AATGGTCATATTAT
* *
87746009 AATGGTCAAATTCT
1 AATGGTCATATTAT
* *
87746023 AATAGTCATATTGT
1 AATGGTCATATTAT
87746037 AATGGTCA
1 AATGGTCA
87746045 GATTCCAACG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (14 bp):
AATGGTCATATTAT
Found at i:87746063 original size:28 final size:28
Alignment explanation
Indices: 87745942--87746096 Score: 114
Period size: 28 Copynumber: 5.5 Consensus size: 28
87745932 AAAATTCAAT
* * * *
87745942 GGTCATATTGCAACGATCAGAGTCCAAC
1 GGTCATATTGTAATGGTCAGATTCCAAC
* * * * *
87745970 GTTCATATTCTAACGGTTAGATTCCAAT
1 GGTCATATTGTAATGGTCAGATTCCAAC
* * * * *
87745998 GGCCATATTATAATGGTCAAATTCTAAT
1 GGTCATATTGTAATGGTCAGATTCCAAC
*
87746026 AGTCATATTGTAATGGTCAGATTCCAAC
1 GGTCATATTGTAATGGTCAGATTCCAAC
* *
87746054 GGTCATATTGTCACT-ATCAGATTCCAAC
1 GGTCATATTGT-AATGGTCAGATTCCAAC
** *
87746082 GACCATATTATAATG
1 GGTCATATTGTAATG
87746097 ATAAGATTTT
Statistics
Matches: 98, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
27 2 0.02
28 94 0.96
29 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (28 bp):
GGTCATATTGTAATGGTCAGATTCCAAC
Found at i:87753151 original size:41 final size:41
Alignment explanation
Indices: 87753105--87753187 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
87753095 TGTCAAATTG
87753105 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
* * *
87753146 AAAGAGAATAGAGAATAATTCAATTCCAAATTGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
87753187 A
1 A
87753188 TACAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (41 bp):
AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
Found at i:87753291 original size:27 final size:27
Alignment explanation
Indices: 87753277--87753333 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
87753267 AATTTAATAT
87753277 AAAATCAAAAATAAAATAAAATAAAATA
1 AAAAT-AAAAATAAAATAAAATAAAATA
87753305 AAAATAAAAAT-AAATAAAATAAAATA
1 AAAATAAAAATAAAATAAAATAAAATA
87753331 AAA
1 AAA
87753334 TATTTCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 18 0.62
27 6 0.21
28 5 0.17
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAATAAAAATAAAATAAAATAAAATA
Found at i:87753292 original size:5 final size:5
Alignment explanation
Indices: 87753284--87753335 Score: 79
Period size: 5 Copynumber: 10.2 Consensus size: 5
87753274 TATAAAATCA
87753284 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT
87753335 A
1 A
87753336 TTTCTATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.02
5 37 0.84
6 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:87753309 original size:21 final size:22
Alignment explanation
Indices: 87753275--87753336 Score: 94
Period size: 21 Copynumber: 2.9 Consensus size: 22
87753265 CTAATTTAAT
87753275 ATAAAATCAAAAATAAAATA-AA
1 ATAAAAT-AAAAATAAAATATAA
87753297 ATAAAATAAAAATAAAA-ATAA
1 ATAAAATAAAAATAAAATATAA
87753318 ATAAAAT-AAAATAAAATAT
1 ATAAAATAAAAATAAAATAT
87753337 TTCTATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.26
21 21 0.55
22 7 0.18
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAAATAAAAATAAAATATAA
Found at i:87758823 original size:12 final size:12
Alignment explanation
Indices: 87758806--87758830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87758796 TATGTTAGTC
87758806 TACTTTCGAGGT
1 TACTTTCGAGGT
87758818 TACTTTCGAGGT
1 TACTTTCGAGGT
87758830 T
1 T
87758831 TATGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTTTCGAGGT
Found at i:87761543 original size:15 final size:16
Alignment explanation
Indices: 87761523--87761552 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87761513 TTTTTTTTTT
87761523 TGGGTGGGG-GGGTTC
1 TGGGTGGGGTGGGTTC
87761538 TGGGTGGGGTGGGTT
1 TGGGTGGGGTGGGTT
87761553 GCAATCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.03, G:0.67, T:0.30
Consensus pattern (16 bp):
TGGGTGGGGTGGGTTC
Found at i:87762775 original size:19 final size:19
Alignment explanation
Indices: 87762751--87762789 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
87762741 CTTCTTCACC
87762751 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
87762770 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
87762789 T
1 T
87762790 CAAACTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
TATAAAATCAACATTGTAG
Found at i:87766191 original size:12 final size:12
Alignment explanation
Indices: 87766174--87766199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87766164 AACCCGAATA
87766174 TAATTTCTAATT
1 TAATTTCTAATT
87766186 TAATTTCTAATT
1 TAATTTCTAATT
87766198 TA
1 TA
87766200 TTTAGTTATT
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTCTAATT
Found at i:87767826 original size:3 final size:3
Alignment explanation
Indices: 87767812--87767880 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
87767802 GAGTGCCGAA
* * *
87767812 AAT AAT AA- AAT AAT AAT AA- AAT AAT AAG AAT AAA AATT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * *
87767856 AA- AAT AAT AAT GAC AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
87767881 ATGAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:87767828 original size:11 final size:11
Alignment explanation
Indices: 87767812--87767881 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 11
87767802 GAGTGCCGAA
87767812 AATAATAAAAT
1 AATAATAAAAT
87767823 AATAATAAAAT
1 AATAATAAAAT
87767834 AATAAGAATAAAAATT
1 AAT---AAT-AAAA-T
*
87767850 AAAAATAAAAT
1 AATAATAAAAT
* *
87767861 AATAATGACAAC
1 AATAAT-AAAAT
87767873 AATAATAAA
1 AATAATAAA
87767882 TGAATAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 22 0.46
12 13 0.27
13 3 0.06
14 3 0.06
15 4 0.08
16 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:87767882 original size:27 final size:27
Alignment explanation
Indices: 87767818--87767882 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
87767808 CGAAAATAAT
*
87767818 AAAATAAT-AATAAAATAATAAGAATA
1 AAAATAATAAATAAAATAATAAGAACA
87767844 AAAATTAA-AAATAAAATAATAATG-ACA
1 AAAA-TAATAAATAAAATAATAA-GAACA
*
87767871 ACAATAATAAAT
1 AAAATAATAAAT
87767883 GAATAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
AAAATAATAAATAAAATAATAAGAACA
Found at i:87769500 original size:44 final size:44
Alignment explanation
Indices: 87769428--87769536 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
87769418 ACATTTCAAC
* *
87769428 CCACTGCAACTTCAGGG-GTATAAGATTTGCCGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGCCGCTTCAATCTACT
* ** *
87769472 CCATTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGCCGCTTCAATCTACT
*
87769516 CCACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGAGAT
87769537 GATTTGTAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 55 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAAATTTGCCGCTTCAATCTACT
Found at i:87769696 original size:44 final size:44
Alignment explanation
Indices: 87769648--87769734 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
87769638 GACTTATCGT
*
87769648 TTCAATCTACTCAACTGCAACTTTAAGGAGATAAGATCTGTAAC
1 TTCAATCTACTCAACTGCAACTTCAAGGAGATAAGATCTGTAAC
* * * *
87769692 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAA
1 TTCAATCTACTCAACTGCAACTTCAAGGAGATAAGATCTGTAA
87769735 TTTGTAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (44 bp):
TTCAATCTACTCAACTGCAACTTCAAGGAGATAAGATCTGTAAC
Found at i:87769952 original size:45 final size:44
Alignment explanation
Indices: 87769900--87770002 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
87769890 CTGCAACTTT
* * *
87769900 AGAGAGATAAGATTTGCT-ATTTTCGATCTATTCCACTGTAATTTC
1 AGAGAGATAAGATTTG-TGACTTT-AATCTATTCCACTATAATTTC
* * *
87769945 AGAGAGATAAAATTTGTGACTTTAATCTTTTCCACTATAATTTT
1 AGAGAGATAAGATTTGTGACTTTAATCTATTCCACTATAATTTC
*
87769989 AGGGAGATAAGATT
1 AGAGAGATAAGATT
87770003 CGTCACGGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 30 0.61
45 19 0.39
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (44 bp):
AGAGAGATAAGATTTGTGACTTTAATCTATTCCACTATAATTTC
Found at i:87789365 original size:239 final size:240
Alignment explanation
Indices: 87788941--87789385 Score: 849
Period size: 239 Copynumber: 1.9 Consensus size: 240
87788931 GCAATCCAAG
87788941 AACTGGGTTTGAAATTAGAGCAAGTCAATCTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
1 AACTGGGTTTGAAATTAGAGCAAGTCAATCTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
87789006 GAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
66 GAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
*
87789071 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGTACACTGCAAGTTACAA
131 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
87789136 CATCTATCCATGGAAGAACTATGACAAATCAAGTTACATTTGACT
196 CATCTATCCATGGAAGAACTATGACAAATCAAGTTACATTTGACT
*
87789181 AACTGGGTTTGAAATT-GCAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
1 AACTGGGTTTGAAATTAG-AGCAAGTCAATCTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
87789245 CGAAGATTGAT-AAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
65 CGAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
87789309 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
130 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
87789374 ACATCTATCCAT
195 ACATCTATCCAT
87789386 ACTAATACTG
Statistics
Matches: 202, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
239 130 0.64
240 72 0.36
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (240 bp):
AACTGGGTTTGAAATTAGAGCAAGTCAATCTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
GAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
CATCTATCCATGGAAGAACTATGACAAATCAAGTTACATTTGACT
Found at i:87793058 original size:6 final size:6
Alignment explanation
Indices: 87793047--87793075 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
87793037 ATGGTCCAAG
87793047 TGATAT TGATAT TGATAT TGATAT TGATA
1 TGATAT TGATAT TGATAT TGATAT TGATA
87793076 AATGTTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
TGATAT
Found at i:87794942 original size:31 final size:30
Alignment explanation
Indices: 87794888--87794946 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
87794878 CCGAGCCTAG
87794888 GGGCAAAAGTGTAAATATGCAAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGC-AAAAGTTTAA
* * * *
87794919 GGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
87794947 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:87806722 original size:20 final size:20
Alignment explanation
Indices: 87806690--87806729 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87806680 TAAAATTATT
*
87806690 ATTTTATGGTTTTATTTAAG
1 ATTTTATGGTTTTAATTAAG
87806710 ATTTT-TGGTTTTTAATTAAG
1 ATTTTATGG-TTTTAATTAAG
87806730 GGTGTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
ATTTTATGGTTTTAATTAAG
Found at i:87812422 original size:44 final size:46
Alignment explanation
Indices: 87812340--87812427 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 46
87812330 GTTGTAATTG
*
87812340 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGAAATGA
1 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATAAAATGA
* *
87812386 AATAGAGTTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATAAAAT
1 AATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATAAAAT
87812428 AGATATAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 21 0.55
45 3 0.08
46 13 0.34
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.39
Consensus pattern (46 bp):
AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATAAAATGA
Found at i:87812534 original size:25 final size:26
Alignment explanation
Indices: 87812501--87812550 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
87812491 TAGGTAAATG
*
87812501 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
87812526 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
87812551 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:87812629 original size:12 final size:11
Alignment explanation
Indices: 87812614--87812680 Score: 50
Period size: 12 Copynumber: 5.9 Consensus size: 11
87812604 TCTAATAAAA
87812614 TAATATATAATT
1 TAATA-ATAATT
* *
87812626 TAATAACATTCT
1 TAATAATAAT-T
87812638 TAAT-ATAATTAT
1 TAATAATAA-T-T
87812650 TAATAAT-ATT
1 TAATAATAATT
87812660 TAATAATAATTT
1 TAATAATAA-TT
87812672 TAAT-ATAAT
1 TAATAATAAT
87812681 ATTATTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.20
11 11 0.24
12 23 0.51
13 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATAATT
Found at i:87812675 original size:34 final size:36
Alignment explanation
Indices: 87812614--87812701 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 36
87812604 TCTAATAAAA
*
87812614 TAATATATAATTTAATAACATTCTTAATAT-A-ATTAT
1 TAATA-AT-ATTTAATAAAATTCTTAATATAATATTAT
87812650 TAATAATATTTAATAATAATT-TTAATATAATATTAT
1 TAATAATATTTAATAA-AATTCTTAATATAATATTAT
*
87812686 TAAGAATATTTCAATA
1 TAATAATATTT-AATA
87812702 TCTAATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 16 0.35
35 6 0.13
36 20 0.43
37 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
TAATAATATTTAATAAAATTCTTAATATAATATTAT
Found at i:87819938 original size:33 final size:33
Alignment explanation
Indices: 87819867--87819989 Score: 138
Period size: 33 Copynumber: 3.7 Consensus size: 33
87819857 ACGTTCATAG
* * * *
87819867 TGCCATAACCCGATTATGGTCTTATCATTAGAA
1 TGCCATAACCCAACTATGGTCTTATCATCAGGA
87819900 TGCCATAACCCAACTATGGTCTTATCATCAGGA
1 TGCCATAACCCAACTATGGTCTTATCATCAGGA
* * * * *
87819933 CGCCATAGCCCAGCTATGGTCTTATTATCAAGA
1 TGCCATAACCCAACTATGGTCTTATCATCAGGA
* * *
87819966 TACCATAGCCCAGCTATGGTCTTA
1 TGCCATAACCCAACTATGGTCTTA
87819990 CATATATACA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (33 bp):
TGCCATAACCCAACTATGGTCTTATCATCAGGA
Found at i:87821257 original size:16 final size:17
Alignment explanation
Indices: 87821226--87821258 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87821216 ATAACAATTA
87821226 AATTTAACCTCTTTTAC
1 AATTTAACCTCTTTTAC
*
87821243 AATTTAATC-CTTTTAC
1 AATTTAACCTCTTTTAC
87821259 CTTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAACCTCTTTTAC
Found at i:87823702 original size:43 final size:44
Alignment explanation
Indices: 87823641--87823774 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 44
87823631 GAAATTATAA
*
87823641 ATCTGAACTCGTTGAGTGGTCCAAGTTCATTATGGATGTGA-GC
1 ATCTGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGACGC
* * * *
87823684 ATCTGAGCTCGTTGAGTGGTCTGAGTTCATGATGGATGCGACGC
1 ATCTGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGACGC
87823728 ATGTAACATCCGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTG
1 A--T--C-T--GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTG
87823775 TTACATGTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
43 36 0.49
44 3 0.04
46 1 0.01
48 1 0.01
49 1 0.01
51 32 0.43
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (44 bp):
ATCTGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGACGC
Found at i:87832864 original size:19 final size:19
Alignment explanation
Indices: 87832831--87832877 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
87832821 CAATAAGAAT
87832831 AACAATAAAATAAT-AATA
1 AACAATAAAATAATAAATA
*
87832849 AACACTAAATATAATAAATA
1 AACAATAAA-ATAATAAATA
87832869 AA-AATAAAA
1 AACAATAAAA
87832878 AAGTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (19 bp):
AACAATAAAATAATAAATA
Found at i:87843606 original size:21 final size:19
Alignment explanation
Indices: 87843570--87843614 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
87843560 ATTAAAAGGT
*
87843570 AAAAATTAAATCAAAAATA
1 AAAAATTAAATAAAAAATA
87843589 AAAATATTAAAATAAAAAATA
1 AAAA-ATT-AAATAAAAAATA
87843610 AAAAA
1 AAAAA
87843615 ATTGGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 15 0.65
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATTAAATAAAAAATA
Found at i:87853645 original size:68 final size:72
Alignment explanation
Indices: 87853573--87853710 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
87853563 TTTAATAGAT
* ** *
87853573 TTAATATTAAATTTAATTTAATACTTATC-T-TA-A-CAATATTTTATTAATTTAATATTGAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
87853634 GATTATC
66 GATTATC
*
87853641 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
87853706 GATTA
66 GATTA
87853711 AATTTAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 28 0.46
69 1 0.02
70 2 0.03
71 1 0.02
72 29 0.48
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
GATTATC
Found at i:87856338 original size:16 final size:17
Alignment explanation
Indices: 87856317--87856349 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87856307 AAAGTCACAA
*
87856317 ATTTAA-GTTTTGCAAG
1 ATTTAACGTTATGCAAG
87856333 ATTTAACGTTATGCAAG
1 ATTTAACGTTATGCAAG
87856350 CTAGTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (17 bp):
ATTTAACGTTATGCAAG
Found at i:87860745 original size:127 final size:128
Alignment explanation
Indices: 87860596--87860846 Score: 405
Period size: 128 Copynumber: 2.0 Consensus size: 128
87860586 ATTTTCGTCT
* * * *
87860596 CGTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 CGTGTTCTGGAAATCATGAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
* * *
87860660 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTCG
* *
87860723 CGTGTTCTGGGAATCATGAGGTGATCTCAGTTTTTTAGAGGTTTAAAATATCCTGTCCTAACATG
1 CGTGTTCTGGAAATCATGAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
*
87860788 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCATCATGAGTTGT
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGT
87860847 GCACACATTT
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
127 28 0.25
128 85 0.75
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (128 bp):
CGTGTTCTGGAAATCATGAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTCG
Found at i:87872174 original size:45 final size:45
Alignment explanation
Indices: 87872116--87872212 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
87872106 AGTTGCAGGA
* * *
87872116 AGCAGACCAAAAATTACATA-TCTTATCTCCATGTATTGGCTATGG
1 AGCAGATCAAAAATGACA-AGTCTTATCTCCATGTATCGGCTATGG
* *
87872161 AGCAGATCGAAAATGGCAAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCAAAAATGACAAGTCTTATCTCCATGTATCGGCTATGG
87872206 AGCAGAT
1 AGCAGAT
87872213 TTTATCCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (45 bp):
AGCAGATCAAAAATGACAAGTCTTATCTCCATGTATCGGCTATGG
Found at i:87872255 original size:177 final size:177
Alignment explanation
Indices: 87871946--87872960 Score: 1359
Period size: 177 Copynumber: 5.7 Consensus size: 177
87871936 GCGACATCGG
* *
87871946 TAAAAATTACAGATCTTATCTCCATGTATCGGTTATGAAGCAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* *
87872011 TCCATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
*
87872076 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
87872123 CAAAAATTACATATCTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * ** *
87872188 TCCATGTATCGGCTATGGAGCAGATTTTATCCACTAGCCTTATCTCTCTGAGGAAGCAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-AGTGGAG
* * * *
87872252 CAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
87872300 TGAAAATTACATATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
*
87872365 TCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * *
87872430 AGGCTCAATATGCAAGTATTATCTTCTTGAAGTTGCAGAAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * ** * * *
87872477 TAAAAATAATAGATCTTATTTCCATGTATTAGCTATGGAGTAGATCAAAAATGGCGTGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * * * *
87872542 TCCATGTATCGACTATGGAGCGGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-AGTGGAG
* * * ** *
87872606 CAGGTTGAAGATATAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * *
87872654 TAAAAATTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
87872719 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * *
87872784 AGGCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAT
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGC-AGGAAGCAGAC
* * * * * *
87872832 TGAAAATAATAGATCTTATTTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * * * *
87872897 TCCATGTATCGGTTATGGAGTAGATTTTAGCCACCGGCTTTGTCTCCCTGAAGTTACAGTGGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAG
87872961 TAGGTTGAAG
Statistics
Matches: 722, Mismatches: 111, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
176 4 0.01
177 594 0.82
178 124 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (177 bp):
TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
Found at i:87872602 original size:354 final size:354
Alignment explanation
Indices: 87871946--87872931 Score: 1567
Period size: 354 Copynumber: 2.8 Consensus size: 354
87871936 GCGACATCGG
* **
87871946 TAAAAATTACAGATCTTATCTCCATGTATCGGTTATGAAGCAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATC
* *
87872011 TCCATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * * *
87872076 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACCAAAAATTACATATCTTA
131 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAATAGATCTTA
* *
87872141 TCTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCCATGTATCGGCTATGG
196 TTTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGG
* * *
87872206 AGCAGATTTTATCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTC
261 AGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTC
*
87872271 TTATCTTCCTGAAGTTGCAGGAAGCAGAC
326 TTATCTTCCTAAAGTTGCAGGAAGCAGAC
* * *
87872300 TGAAAATTACATATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATC
* *
87872365 TCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* *
87872430 AGGCTCAATATGCAAGTATTATCTTCTTGAAGTTGCAGAAAGCAGACTAAAAATAATAGATCTTA
131 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAATAGATCTTA
* * * * *
87872495 TTTCCATGTATTAGCTATGGAGTAGATCAAAAATGGCGTGTCTTATCTCCATGTATCGACTATGG
196 TTTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGG
* * * *
87872560 AGCGGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAGAGAGCAGGTTGAAGATATAAGTC
261 AGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTC
87872625 TTATCTTCCTAAAGTTGCAGGAAGCAGAC
326 TTATCTTCCTAAAGTTGCAGGAAGCAGAC
* *
87872654 TAAAAATTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATC
*
87872719 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * * * *
87872784 AGGCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAAATAATAGATCTT
131 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGC-AGGAAGCAGACTAAAAATAATAGATCTT
* * * *
87872849 ATTTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGTTATG
195 ATTTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
*
87872914 GAGTAGATTTTAGCCACC
260 GAGCAGATTTTAGCCACC
87872932 GGCTTTGTCT
Statistics
Matches: 575, Mismatches: 56, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
354 478 0.83
355 97 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (354 bp):
TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATC
TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAATAGATCTTA
TTTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGG
AGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTC
TTATCTTCCTAAAGTTGCAGGAAGCAGAC
Found at i:87875288 original size:127 final size:128
Alignment explanation
Indices: 87875144--87875383 Score: 383
Period size: 128 Copynumber: 1.9 Consensus size: 128
87875134 ATTTTCGTCT
* * *
87875144 CGTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCTTAACGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
* *
87875208 CTGGATGTGCTATTTTATTCCTTTGGAACGAGTGAATCGTAAAATCCAACTTGAGTTGTTTCG
66 CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCG
* * *
87875271 CGTGTTTTGGGAATCATGAGGTGATCTCAGTTTTTTGCAGGTTTAAAATATCATGTCCTAATGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
* *
87875336 CTGGATGTGGTATTTAATTCCTTTGGAACGAGCGAATCTTAAAATCCA
66 CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCA
87875384 TCACGAGTTG
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 29 0.28
128 73 0.72
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (128 bp):
CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCG
Found at i:87879236 original size:117 final size:117
Alignment explanation
Indices: 87879024--87879264 Score: 446
Period size: 117 Copynumber: 2.1 Consensus size: 117
87879014 TCCAAAAAAT
87879024 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
87879089 GTCCAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
66 GTCCAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
87879141 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* * *
87879206 GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGGAAAAATTAATTTTGTTG
66 GTCC-AAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
87879259 TAATTA
1 TAATTA
87879265 ATTCAATAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 69 0.57
118 51 0.43
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (117 bp):
TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCCAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
Found at i:87883951 original size:33 final size:33
Alignment explanation
Indices: 87883881--87883977 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
87883871 TATGTTGAAA
*
87883881 AATAATACTTAT-ATCTTTAATAATAAT-C-AT
1 AATAATACTTATAATATTTAATAATAATACAAT
*
87883911 AATAATACTTATAATATTTAATAATCATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
87883944 AATAATACTTATAATATTTAATAATAATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
87883977 A
1 A
87883978 GTAAAAATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
30 12 0.20
31 13 0.21
32 1 0.02
33 35 0.57
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (33 bp):
AATAATACTTATAATATTTAATAATAATACAAT
Found at i:87886086 original size:25 final size:25
Alignment explanation
Indices: 87886031--87886225 Score: 91
Period size: 25 Copynumber: 7.8 Consensus size: 25
87886021 AACAGTTAAC
* * * *
87886031 ATATAAAACAATATAGACTAAATAAC
1 ATATAAAAAAAT-TAAAATAAATAAT
* * *
87886057 CTATAAAAGAATTAAAATAGATAAT
1 ATATAAAAAAATTAAAATAAATAAT
* *
87886082 ATATAAAATAGTT----T-AA-AAT
1 ATATAAAAAAATTAAAATAAATAAT
* *
87886101 ATATGAAAAATATT-TAATAAATAAT
1 ATAT-AAAAAAATTAAAATAAATAAT
* * *
87886126 ATGTAAAGAAAATTTAAACAAATAAT
1 ATATAAA-AAAATTAAAATAAATAAT
*
87886152 ATATAAAAAAACTTAAAAATAGATAAT
1 ATATAAAAAAA-TT-AAAATAAATAAT
* * *
87886179 ATATAAAATAATTAAATATAATTTAT
1 ATATAAAAAAATTAAA-ATAAATAAT
* *
87886205 A-ATAAAACAATTTAAAGTAAA
1 ATATAAAA-AAATTAAAATAAA
87886226 AGGTCAAGGA
Statistics
Matches: 128, Mismatches: 29, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
19 7 0.05
20 7 0.05
21 1 0.01
23 1 0.01
24 5 0.04
25 46 0.36
26 42 0.33
27 19 0.15
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
ATATAAAAAAATTAAAATAAATAAT
Found at i:87886110 original size:21 final size:18
Alignment explanation
Indices: 87886079--87886117 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
87886069 TAAAATAGAT
87886079 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
87886098 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
87886118 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:87886179 original size:27 final size:25
Alignment explanation
Indices: 87886098--87886200 Score: 84
Period size: 26 Copynumber: 4.0 Consensus size: 25
87886088 AATAGTTTAA
* * *
87886098 AATATATGAAAAATATTTAATA-AAT
1 AATATAT-AAAAAAATTAAAAATAAT
* *
87886123 AATATGTAAAGAAAATTTAAACA-AAT
1 AATATATAAA-AAAA-TTAAAAATAAT
87886149 AATATATAAAAAAACTTAAAAATAGAT
1 AATATATAAAAAAA-TTAAAAATA-AT
* *
87886176 AATATATAAAATAATTAAATATAAT
1 AATATATAAAAAAATTAAAAATAAT
87886201 TTATAATAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
24 3 0.05
25 21 0.32
26 26 0.40
27 15 0.23
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AATATATAAAAAAATTAAAAATAAT
Found at i:87887899 original size:178 final size:179
Alignment explanation
Indices: 87887626--87887978 Score: 494
Period size: 178 Copynumber: 2.0 Consensus size: 179
87887616 AACTTGTAGC
* * ** *
87887626 TTCGATTTACATCAATATAGTTTCAGGGAGAAGAGATTTGTAGCTTCAATATACTCCGTTGGAAC
1 TTCGATTTACATCAATATAGTTTCAAGGAGAAGAGATTCGTAGCTTCAATATACTCCACTGAAAC
* *
87887691 TTAAAGGAGACAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
66 TCAAAGGAGACAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
*
87887756 GTATTTTTATCCT-ACCTACTACAACTTCAGAGAGATAAAGATTGCAAT
131 GTATTTTTATCCTGACCTACTACAACTTCAGAAAGATAAAGATTGCAAT
* * ** * *
87887804 TTCGATTTAC-TCCAATGTATTTTCAAGGAGAAGAGATTCGTAGCTTCGTTCTACTCTACTGAAA
1 TTCGATTTACAT-CAATATAGTTTCAAGGAGAAGAGATTCGTAGCTTCAATATACTCCACTGAAA
* *
87887868 CTCAAAGGAGATAAGAATTGGTAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTG
65 CTCAAAGGAGACAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
* ** * *
87887933 TGTATTTTTATCCTGTTCTACTGCAACTTCAGAAAGATAAGGATTG
130 CGTATTTTTATCCTGACCTACTACAACTTCAGAAAGATAAAGATTG
87887979 TGGCTTCTAT
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
177 1 0.01
178 125 0.82
179 26 0.17
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (179 bp):
TTCGATTTACATCAATATAGTTTCAAGGAGAAGAGATTCGTAGCTTCAATATACTCCACTGAAAC
TCAAAGGAGACAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
GTATTTTTATCCTGACCTACTACAACTTCAGAAAGATAAAGATTGCAAT
Found at i:87887957 original size:46 final size:45
Alignment explanation
Indices: 87887857--87888016 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 45
87887847 CTTCGTTCTA
* * * * *
87887857 CTCTACTGAAAC-TCAAAGGAGATAAGAATTGGTAACTTC-AACCTG
1 CTCTACTGCAACTTC-AGGGAGATAAGGATT-GTGACTTCTATCCTG
* * *
87887902 CTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTG
1 CTCTACTGCAACTTCAGGGAGATAAGGATTGTG-ACTTCTATCCTG
* ** *
87887948 TTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCTAT-CTG
1 CTCTACTGCAACTTCAGGGAGATAAGGATTGTGACTTCTATCCTG
* *
87887992 CTCCACTGCAACTTCAGGGAAATAA
1 CTCTACTGCAACTTCAGGGAGATAA
87888017 AATCCACTAT
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
44 25 0.27
45 31 0.34
46 36 0.39
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (45 bp):
CTCTACTGCAACTTCAGGGAGATAAGGATTGTGACTTCTATCCTG
Found at i:87888095 original size:44 final size:44
Alignment explanation
Indices: 87887875--87888148 Score: 182
Period size: 44 Copynumber: 6.2 Consensus size: 44
87887865 AAACTCAAAG
* * *
87887875 GAGATAAGAATTGGTAACTTCAACCTGCTCTACTGCAACTTCAGG
1 GAGATAAGAATTGCT-ACTTCAACCTGCTCCACTGCAACTTCAGA
** * * * * * *
87887920 GAGATAAGGTTTGTGTATTTTTATCCTGTTCTACTGCAACTTCAGA
1 GAGATAAGAATTG-CTA-CTTCAACCTGCTCCACTGCAACTTCAGA
* * * * * *
87887966 AAGATAAGGATTG-TGGCTTCTATCTGCTCCACTGCAACTTCAGG
1 GAGATAAGAATTGCT-ACTTCAACCTGCTCCACTGCAACTTCAGA
* ** **
87888010 GAAATAA-AATCCACTATCTTCAGTCTGCTCCACTGCAACTTCAGA
1 GAGATAAGAAT-TGCTA-CTTCAACCTGCTCCACTGCAACTTCAGA
* *
87888055 GAGATAAGACTTGCTACTTCAACCTGCTCCACTGCTACTTCATG-
1 GAGATAAGAATTGCTACTTCAACCTGCTCCACTGCAACTTCA-GA
** * * *
87888099 GAGATAAGGTTTGCTA--T-GATCTGCTCCACTGCAACTTTAGA
1 GAGATAAGAATTGCTACTTCAACCTGCTCCACTGCAACTTCAGA
87888140 GAGATAAGA
1 GAGATAAGA
87888149 TCTGTTTATT
Statistics
Matches: 179, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 26 0.15
42 1 0.01
43 2 0.01
44 63 0.35
45 48 0.27
46 38 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GAGATAAGAATTGCTACTTCAACCTGCTCCACTGCAACTTCAGA
Found at i:87889160 original size:65 final size:65
Alignment explanation
Indices: 87889090--87889214 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 65
87889080 AACAATGGAC
* *
87889090 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATGGAAT
1 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAATGGAAT
* * * * * *
87889155 AAGAAGGAAATTTATTGGGAGCATATCTTGAAACGAATAAAGTACTCAAAAATAGTAAAT
1 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAAT
87889215 TCAATATGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (65 bp):
AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAATGGAAT
Found at i:87892708 original size:29 final size:28
Alignment explanation
Indices: 87892671--87892734 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
87892661 ATATAAAAAG
87892671 TTTAAAATAAACAATATGAGAAAAATAAA
1 TTTAAAATAAACAATAT-AGAAAAATAAA
* * * *
87892700 TTTAAAATAGAGAATATATAAAAATATA
1 TTTAAAATAAACAATATAGAAAAATAAA
*
87892728 TATAAAA
1 TTTAAAA
87892735 CGGTTCAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (28 bp):
TTTAAAATAAACAATATAGAAAAATAAA
Found at i:87892899 original size:21 final size:18
Alignment explanation
Indices: 87892868--87892906 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
87892858 TAAAATAGAT
87892868 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
87892887 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
87892907 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:87893222 original size:5 final size:5
Alignment explanation
Indices: 87893206--87893241 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
87893196 GGCAAAATTA
87893206 AAAAG TAAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
87893242 GATTTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:87894224 original size:12 final size:12
Alignment explanation
Indices: 87894207--87894245 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
87894197 TGTAGAACTT
87894207 TTTTATTTTTGG
1 TTTTATTTTTGG
87894219 TTTTA-TTTT-G
1 TTTTATTTTTGG
87894229 TTTTATTTTTTGG
1 TTTTA-TTTTTGG
87894242 TTTT
1 TTTT
87894246 TGGGCCCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 9 0.38
13 5 0.21
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTGG
Found at i:87896265 original size:21 final size:21
Alignment explanation
Indices: 87896239--87896281 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87896229 AATGAGGAGC
87896239 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
87896260 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
87896281 A
1 A
87896282 GGGACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (21 bp):
ATTAGGAGAAGGTTGAACTCA
Found at i:87902194 original size:19 final size:20
Alignment explanation
Indices: 87902152--87902195 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
87902142 CCATATTAAC
** *
87902152 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
87902172 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
87902191 ACAGT
1 ACAGT
87902196 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:87903908 original size:90 final size:90
Alignment explanation
Indices: 87903755--87903936 Score: 346
Period size: 90 Copynumber: 2.0 Consensus size: 90
87903745 TCAAACTCCT
*
87903755 AACCGATCAGTAGCCTTATCCACCGCTTCATCATCCTGCTAATAAGAGTTTTGGTCCAACCCTAC
1 AACCGATCAGTAGCCATATCCACCGCTTCATCATCCTGCTAATAAGAGTTTTGGTCCAACCCTAC
87903820 TACTCTCCCTCACGCATGCAGCAAA
66 TACTCTCCCTCACGCATGCAGCAAA
87903845 AACCGATCAGTAGCCATATCCACCGCTTCATCATCCTGCTAATAAGAGTTTTGGTCCAACCCTAC
1 AACCGATCAGTAGCCATATCCACCGCTTCATCATCCTGCTAATAAGAGTTTTGGTCCAACCCTAC
*
87903910 TACTCTCCCTCACGTATGCAGCAAA
66 TACTCTCCCTCACGCATGCAGCAAA
87903935 AA
1 AA
87903937 GAGAGTCCTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.28, C:0.34, G:0.13, T:0.25
Consensus pattern (90 bp):
AACCGATCAGTAGCCATATCCACCGCTTCATCATCCTGCTAATAAGAGTTTTGGTCCAACCCTAC
TACTCTCCCTCACGCATGCAGCAAA
Found at i:87906298 original size:132 final size:132
Alignment explanation
Indices: 87906067--87906428 Score: 528
Period size: 132 Copynumber: 2.8 Consensus size: 132
87906057 GGAATCTTCG
* * * * * * * **
87906067 ATTATTTTGAACAAATGAAAAATCGCAACCCAGCACGATAGGGCACAATT-CTCGAATCACCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
* ** *
87906131 CATCGAACATTTCCTTCATTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
87906196 CA
131 CA
*
87906198 ATTATTTTGAGCAAACGAGAAATTACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
87906263 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
**
87906328 TG
131 CA
* *
87906330 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGAGAATTGTCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
* * *
87906395 TATCAAACATCGCCTTCGTTTTAAAGAATTTTTA
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTA
87906429 AATGAATAAA
Statistics
Matches: 208, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
131 43 0.21
132 165 0.79
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (132 bp):
ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
CA
Found at i:87909422 original size:133 final size:133
Alignment explanation
Indices: 87909184--87909453 Score: 369
Period size: 133 Copynumber: 2.0 Consensus size: 133
87909174 AGTGGAGACG
* * * *
87909184 AGATCTGCAATATTCAGCCTACTCCGCTACAACTTTAGAGAGATAGGATGGTGGCTTAAATCTGC
1 AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTAC
* *
87909249 TTCACTGCAACTTCAAGAAGAAGAGATTCACCGTTTTCGATCTACTCCACTACAACTTCAGGGAA
66 TTCACTGCAACTTCAAGAAGAAGAGATTCACCGTCTTCGATCTACCCCACTACAACTTCAGGGAA
87909314 ACA
131 ACA
* * *
87909317 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAAATCTAC
1 AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTAC
* * * ** * * ** *
87909382 TTTATTGCAACTTCAGGAAGACTAGATTCGCTGTCTTCGATCTACCCCACTGTAACTTCAGGGAG
66 TTCACTGCAACTTCAAGAAGAAGAGATTCACCGTCTTCGATCTACCCCACTACAACTTCAGGGAA
87909447 ACA
131 ACA
87909450 AGAT
1 AGAT
87909454 TTGTAGAATT
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (133 bp):
AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTAC
TTCACTGCAACTTCAAGAAGAAGAGATTCACCGTCTTCGATCTACCCCACTACAACTTCAGGGAA
ACA
Found at i:87921358 original size:262 final size:263
Alignment explanation
Indices: 87921009--87921529 Score: 640
Period size: 262 Copynumber: 2.0 Consensus size: 263
87920999 ATTTAAAGAG
* *
87921009 CATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGGACAAACAAGAAACCGCAACCCAGCACG
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAGACAAACAAGAAACCGCAACCCAGCACG
* * **
87921074 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTCATTTTGAAGAGTTTTTA-AA
66 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCATTTCAAAGAGTTTTTAGAA
* * *
87921138 GACATGAGTGAAATTCCAAAGGAATC-TTTGATTGTTTTGAACAAATGAAAAATCGCAAC-CTAG
131 -ACATGAATGAAATTCCAAAGGAA-CATTCGATTATTTTGAACAAATGAAAAATCGCAACAC-AG
* ** *
87921201 CACGATAGGGCAAAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTT
193 CACGATAGGGCAAAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTT
87921265 AGGAAA
258 AGGAAA
* * **
87921271 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTA-AGCAAACGAGAAATTGCAACCCAGCA
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTAGA-CAAACAAGAAACCGCAACCCAGCA
* * * * * *
87921334 CGTTAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTCAAAGAGTTTTTAG
64 CGATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCATTTCAAAGAGTTTTTA-
* * * * *
87921399 GAAACATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAG
128 GAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAG
* ** * * *
87921464 CACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTT
193 CACGATAGGGCAAAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTT
87921529 A
258 A
87921530 AATGAATAAT
Statistics
Matches: 218, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
261 2 0.01
262 108 0.50
263 64 0.29
264 44 0.20
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (263 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAGACAAACAAGAAACCGCAACCCAGCACG
ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCATTTCAAAGAGTTTTTAGAA
ACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAGCAC
GATAGGGCAAAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTTAGG
AAA
Found at i:87921399 original size:132 final size:132
Alignment explanation
Indices: 87921009--87921529 Score: 597
Period size: 132 Copynumber: 4.0 Consensus size: 132
87920999 ATTTAAAGAG
* * * *
87921009 CATGAGTGAAATTCTAAAGGAATCTTCGATTATTTT-GGACAAACAAGAAACCGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAAG-CAAACGAGAAATCGCAACCCAGCAC
* * * * **
87921073 GATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTCATTTTGAAGAGTTTTTA--
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
87921136 AAGA
130 AA-A
* * * * * * *
87921140 CATGAGTGAAATTCCAAAGGAATCTTTGATTGTTTTGAA-CAAATGAAAAATCGCAACCTAGCAC
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTT-AAGCAAACGAGAAATCGCAACCCAGCAC
* * * **
87921204 GATAGGGCAAAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTAGG
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
87921268 AAA
130 AAA
* *
87921271 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCAC
* * * *
87921335 GTTAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
87921400 AAA
130 AAA
* * * * *
87921403 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCAC
* * * * * *
87921467 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTA
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTA
87921530 AATGAATAAT
Statistics
Matches: 341, Mismatches: 42, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
130 44 0.13
131 128 0.38
132 169 0.50
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCACG
ATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGGA
AA
Found at i:87924515 original size:22 final size:22
Alignment explanation
Indices: 87924481--87924535 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
87924471 GAACAGTATC
* * *
87924481 ACACGCCCATGTGGCTAATGTG
1 ACACCCCCATGTGACTAATATG
*
87924503 ACACCCCCGTGTGACTAATATG
1 ACACCCCCATGTGACTAATATG
*
87924525 ACACGCCCATG
1 ACACCCCCATG
87924536 GAGGGCTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.20
Consensus pattern (22 bp):
ACACCCCCATGTGACTAATATG
Found at i:87925539 original size:12 final size:12
Alignment explanation
Indices: 87925522--87925546 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87925512 TACACCGTAT
87925522 CGGTAATAGTAA
1 CGGTAATAGTAA
87925534 CGGTAATAGTAA
1 CGGTAATAGTAA
87925546 C
1 C
87925547 AGTAGCGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (12 bp):
CGGTAATAGTAA
Found at i:87926521 original size:15 final size:15
Alignment explanation
Indices: 87926503--87926532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87926493 TCATGTTCTA
87926503 TTCTTTCTATTATTT
1 TTCTTTCTATTATTT
*
87926518 TTCTTTCTTTTATTT
1 TTCTTTCTATTATTT
87926533 AACTATTATA
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTCTATTATTT
Found at i:87926597 original size:19 final size:19
Alignment explanation
Indices: 87926573--87926611 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87926563 AATACTTATT
*
87926573 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
87926592 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
87926611 T
1 T
87926612 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:87926662 original size:15 final size:15
Alignment explanation
Indices: 87926634--87926674 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
87926624 ATACACTTGT
87926634 CTTTTATTTATTATA
1 CTTTTATTTATTATA
87926649 CTTTATATTT-TTATA
1 CTTT-TATTTATTATA
*
87926664 TTTTTATTTAT
1 CTTTTATTTAT
87926675 AATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTTTATTTATTATA
Found at i:87927503 original size:21 final size:21
Alignment explanation
Indices: 87927452--87927506 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
87927442 CCTCTATCTG
*
87927452 TCAATTCTTGTAACTAAGCTT
1 TCAATTCTTTTAACTAAGCTT
87927473 TCAATTCTTTTAACTAAGCTT
1 TCAATTCTTTTAACTAAGCTT
87927494 TCAATTCTTTTAA
1 TCAATTCTTTTAA
87927507 TTCAGTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (21 bp):
TCAATTCTTTTAACTAAGCTT
Found at i:87931841 original size:15 final size:15
Alignment explanation
Indices: 87931821--87931852 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
87931811 GACATTTTAA
*
87931821 TTATATTATAATATG
1 TTATATTATAACATG
87931836 TTATATTATAACATG
1 TTATATTATAACATG
87931851 TT
1 TT
87931853 TTTTTTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTATATTATAACATG
Found at i:87934411 original size:26 final size:25
Alignment explanation
Indices: 87934366--87934414 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
87934356 CAAGTTGGCT
87934366 TCTTATTTATTTTACAATTAATTAA
1 TCTTATTTATTTTACAATTAATTAA
*
87934391 TCTTTTTTACTTTTATC-ATTAATT
1 TCTTATTTA-TTTTA-CAATTAATT
87934415 GTTATATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 12 0.57
27 1 0.05
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (25 bp):
TCTTATTTATTTTACAATTAATTAA
Found at i:87936976 original size:22 final size:22
Alignment explanation
Indices: 87936948--87936991 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
87936938 ATATTAGTTC
87936948 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
87936970 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
87936992 TTTCGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
AACCTATTATAAAACTATCCAT
Found at i:87938011 original size:22 final size:22
Alignment explanation
Indices: 87937966--87938008 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
87937956 ACCTACACAA
87937966 CATAACATAACACCAATTTAAG
1 CATAACATAACACCAATTTAAG
*
87937988 CATATACATACCACCAATTTA
1 CATA-ACATAACACCAATTTA
87938009 GCAACAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (22 bp):
CATAACATAACACCAATTTAAG
Found at i:87938783 original size:43 final size:43
Alignment explanation
Indices: 87938665--87938783 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
87938655 ATACCAATGT
** * *
87938665 CATATCCCAGATATGGTCTTACATGT-GATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACATAAATCTCATATCGATGC
** *
87938707 CA-ATGGCCCATCTATGGTCTTACACA-AAGTCTCATATCGATGC
1 CATAT--CCCAGATATGGTCTTACACATAAATCTCATATCGATGC
*
87938750 CATATCCTAGATATGGTCTTACACATAAATCTCA
1 CATATCCCAGATATGGTCTTACACATAAATCTCA
87938784 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.03
42 19 0.31
43 38 0.62
44 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACACATAAATCTCATATCGATGC
Found at i:87945523 original size:31 final size:31
Alignment explanation
Indices: 87945485--87945545 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
87945475 TTTTTTGGAG
*
87945485 AATGAAAGGTCAAGATTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGC
87945516 AATGAAAGGTCAAGAGTCATTGGTTTATGG
1 AATGAAAGGTCAAGAGTCATTGGTTTATGG
87945546 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTTATGGC
Found at i:87949905 original size:31 final size:31
Alignment explanation
Indices: 87949867--87949927 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
87949857 TTTTTAAGAG
* *
87949867 AATGAAAGGTTAAGAGTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTAATGGC
87949898 AATGAAAGGTCAAGAGTCATTGGTTAATGG
1 AATGAAAGGTCAAGAGTCATTGGTTAATGG
87949928 TTTTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTAATGGC
Found at i:87953285 original size:19 final size:19
Alignment explanation
Indices: 87953248--87953286 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
87953238 AAAGCCGAAT
**
87953248 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
87953267 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
87953286 T
1 T
87953287 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:87954470 original size:20 final size:20
Alignment explanation
Indices: 87954427--87954472 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
87954417 ATTGTTTTGT
87954427 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
87954447 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
87954466 TATGGGC
1 TATGGGC
87954473 AAGGCCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:87955865 original size:18 final size:18
Alignment explanation
Indices: 87955843--87955907 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
87955833 CTGGAACTCT
*
87955843 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATGCA
* * *
87955861 GTAACAGTCATTTATTCA
1 ATAACAGTCAATTATGCA
* *
87955879 ATAACAGTCAATTATTCC
1 ATAACAGTCAATTATGCA
*
87955897 ATAGCAGTCAA
1 ATAACAGTCAA
87955908 CCTTTAATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (18 bp):
ATAACAGTCAATTATGCA
Found at i:87956691 original size:21 final size:21
Alignment explanation
Indices: 87956666--87956709 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
87956656 TTCTTCTCTG
87956666 TTTCTTTCTA-TTTGTTTTGTT
1 TTTCTTT-TACTTTGTTTTGTT
87956687 TTTCTTTTACTTTGTTTTGTT
1 TTTCTTTTACTTTGTTTTGTT
87956708 TT
1 TT
87956710 ATAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTCTTTTACTTTGTTTTGTT
Found at i:87956762 original size:3 final size:3
Alignment explanation
Indices: 87956710--87956748 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
87956700 GTTTTGTTTT
87956710 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87956749 TACTTATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87957848 original size:16 final size:16
Alignment explanation
Indices: 87957827--87957858 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87957817 TAATGTGTTT
87957827 TGCTGCTATTGTTTAA
1 TGCTGCTATTGTTTAA
*
87957843 TGCTGCTGTTGTTTAA
1 TGCTGCTATTGTTTAA
87957859 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
TGCTGCTATTGTTTAA
Found at i:87958040 original size:45 final size:45
Alignment explanation
Indices: 87957972--87958235 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
87957962 AAGAGGTGGA
** * * *
87957972 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
87958017 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
87958062 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
87958107 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
87958152 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
87958197 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
87958236 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:87961845 original size:16 final size:16
Alignment explanation
Indices: 87961820--87961851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87961810 TAATGTGTTT
87961820 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
*
87961836 TGCTGTTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
87961852 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:87962033 original size:45 final size:45
Alignment explanation
Indices: 87961965--87962183 Score: 330
Period size: 45 Copynumber: 4.9 Consensus size: 45
87961955 AAGAGGTGGA
** * * *
87961965 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
87962010 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
87962055 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
87962100 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
87962145 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
87962184 CCATGGCCAA
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 162 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:87968943 original size:58 final size:58
Alignment explanation
Indices: 87968847--87969013 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 58
87968837 TTTTTATAAT
*
87968847 ATTATATATTATGATTTT-TT-AATTCATA--TAATAATAATTTTATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTTTATTAA-AATTTGATTAA
* * * * * *
87968905 ATTATATATTA-TTTTATTAAATTATATTTAGTACTAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
* * * *
87968962 ATTATTTATTATTTTTATTACATTATTTTTAATAATAATCTTATTAAAATTT
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTT
87969014 AATAACAACA
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
55 4 0.05
56 5 0.06
57 22 0.25
58 57 0.65
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
Found at i:87970280 original size:110 final size:109
Alignment explanation
Indices: 87970087--87970300 Score: 383
Period size: 110 Copynumber: 2.0 Consensus size: 109
87970077 TGCTCGAAAT
* *
87970087 TTCGAGTTAATCTAATCGACTTTCGAATTTGAATAGAATTAAATTTTACAATTCGAATAACAAAT
1 TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
87970152 TTATGTAAATATCTATTTGATTCCTATCAAGTTTTAAAAAAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAG-TTTAAAAAAAAAA
* *
87970197 TTCGAGTCAATCTAATCGAGTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACATAT
1 TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
87970262 TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAA
87970301 TAAGTAAATT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 8 0.08
110 92 0.92
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (109 bp):
TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAAAAAAA
Found at i:87970378 original size:19 final size:19
Alignment explanation
Indices: 87970336--87970387 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
87970326 AAATTACAAA
*
87970336 AAAAATTAAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
87970355 TAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
87970374 AAAAATTCTAAAAT
1 AAAAATT-TAAAAT
87970388 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:87970399 original size:27 final size:27
Alignment explanation
Indices: 87970355--87970443 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
87970345 AAATAATTTT
* * *
87970355 TAAAATTTAAAATATTTATAAAAATTC
1 TAAAATTTAAAATATTTAAAAAAAATA
* * *
87970382 TAAAATTTATATTTTTTAAAAAAAATA
1 TAAAATTTAAAATATTTAAAAAAAATA
* *
87970409 TAAAATTTTCAAAAAAATCTAAAAAAATATA
1 TAAAA-TTT--AAAATATTTAAAAAAA-ATA
87970440 TAAA
1 TAAA
87970444 GAAAGTTAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 26 0.55
28 3 0.06
30 11 0.23
31 7 0.15
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATTTAAAATATTTAAAAAAAATA
Found at i:87970433 original size:20 final size:19
Alignment explanation
Indices: 87970395--87970432 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87970385 AATTTATATT
87970395 TTTTAAAAAAAATATAAAA
1 TTTTAAAAAAAATATAAAA
* *
87970414 TTTTCAAAAAAATCTAAAA
1 TTTTAAAAAAAATATAAAA
87970433 AAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTTAAAAAAAATATAAAA
Found at i:87975785 original size:18 final size:18
Alignment explanation
Indices: 87975762--87975854 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
87975752 CCCAACTACT
87975762 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
87975780 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
87975798 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
87975816 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
87975834 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
87975852 GTA
1 GTA
87975855 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:87975809 original size:36 final size:36
Alignment explanation
Indices: 87975762--87975854 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
87975752 CCCAACTACT
*
87975762 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
87975798 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
87975834 ATATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
87975855 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:87978097 original size:28 final size:27
Alignment explanation
Indices: 87978061--87978116 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
87978051 ATATATTTTC
* *
87978061 TAATTTTTA-AAAAATATATAAATAATA
1 TAATTTTTATAAAAA-ATAAAAAAAATA
87978088 TAATATTTTATAAAAAATAAAAAAAATA
1 TAAT-TTTTATAAAAAATAAAAAAAATA
87978116 T
1 T
87978117 CGATTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 16 0.64
29 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAATTTTTATAAAAAATAAAAAAAATA
Found at i:87978530 original size:16 final size:17
Alignment explanation
Indices: 87978509--87978540 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
87978499 CCCAATTCAT
87978509 TTTATATTT-TATATAG
1 TTTATATTTATATATAG
87978525 TTTATATTTATATATA
1 TTTATATTTATATATA
87978541 AAAGTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTATATTTATATATAG
Found at i:87978785 original size:20 final size:20
Alignment explanation
Indices: 87978762--87978809 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
87978752 AAATCTAAAT
87978762 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
87978782 TAAAATCCTGAAATTCGGGA
1 TAAAATACTGAAATTCAGGA
87978802 TAAGAATA
1 TAA-AATA
87978810 TTGATGTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:87979173 original size:19 final size:19
Alignment explanation
Indices: 87979138--87979175 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87979128 AAATCTAAAA
**
87979138 TAAAATTAAACTTTAAATT
1 TAAAATTAAACCCTAAATT
87979157 TAAAATTAAACCCTAAATT
1 TAAAATTAAACCCTAAATT
87979176 CAATTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTAAACCCTAAATT
Found at i:87986799 original size:26 final size:25
Alignment explanation
Indices: 87986751--87986802 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
87986741 TAACTCATAA
87986751 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
87986777 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
87986803 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:87990548 original size:21 final size:21
Alignment explanation
Indices: 87990522--87990562 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87990512 AACTTCTCTC
87990522 CTAAATATATTATTTACATAA
1 CTAAATATATTATTTACATAA
87990543 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
87990563 TTTAACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:88001291 original size:31 final size:29
Alignment explanation
Indices: 88001251--88001314 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
88001241 ATTTTAAAAT
*
88001251 TATAAATAAACTATGATTTAATGTGTAATTG
1 TATAAATAAACTATAATTT--TGTGTAATTG
* * *
88001282 TATATATAAACTTTAATTTTGTGTAATTT
1 TATAAATAAACTATAATTTTGTGTAATTG
88001311 TATA
1 TATA
88001315 CATGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.45
31 16 0.55
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (29 bp):
TATAAATAAACTATAATTTTGTGTAATTG
Found at i:88005147 original size:21 final size:21
Alignment explanation
Indices: 88005118--88005157 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
88005108 TTATTAATAT
88005118 TTTAACAAT-TCAATTATAAAA
1 TTTAACAATAT-AATTATAAAA
*
88005139 TTTATCAATATAATTATAA
1 TTTAACAATATAATTATAA
88005158 TTATCATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAACAATATAATTATAAAA
Found at i:88018260 original size:13 final size:13
Alignment explanation
Indices: 88018242--88018352 Score: 123
Period size: 13 Copynumber: 9.2 Consensus size: 13
88018232 AAATATCTTT
88018242 ACTCCACTAAACC
1 ACTCCACTAAACC
88018255 ACT-C-C--AACC
1 ACTCCACTAAACC
*
88018264 ACTTCACTAAACC
1 ACTCCACTAAACC
*
88018277 ACTCCATTAAACC
1 ACTCCACTAAACC
*
88018290 ACTACACTAAACC
1 ACTCCACTAAACC
88018303 ACTCCACTAAACC
1 ACTCCACTAAACC
88018316 AC-CC-C--AACC
1 ACTCCACTAAACC
88018325 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
88018338 ACTCCACTAAACC
1 ACTCCACTAAACC
88018351 AC
1 AC
88018353 CCCAATCACT
Statistics
Matches: 84, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
9 15 0.18
10 1 0.01
11 4 0.05
12 3 0.04
13 59 0.70
14 2 0.02
ACGTcount: A:0.39, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:88018325 original size:35 final size:35
Alignment explanation
Indices: 88018286--88018367 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
88018276 CACTCCATTA
*
88018286 AACCACTACACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
88018321 AACCAC-CCTACTAAACCACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
*
88018356 AATCACTCCACT
1 AACCACTCCACT
88018368 TGCCTTCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:88018770 original size:3 final size:3
Alignment explanation
Indices: 88018759--88018976 Score: 91
Period size: 3 Copynumber: 71.3 Consensus size: 3
88018749 TTTATTTTTT
* *
88018759 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
**
88018802 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA TATA TGCC
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA T-TA
* * * * *
88018849 CTC TCCA -TA TTTA TT- TATA TTA TTA TTA TTA TTA TTG TTA CTT- CTA
1 TTA T-TA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
88018895 TTA TT- TT- TTA TTTA TGA CTA CTA TTA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
88018939 TGTA TTA TTG TT- TGTA TTA TTA TTA TTA TTA TTA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T
88018977 CACCCCTATT
Statistics
Matches: 167, Mismatches: 25, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
2 17 0.10
3 123 0.74
4 25 0.15
5 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88021698 original size:19 final size:18
Alignment explanation
Indices: 88021676--88021721 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
88021666 CTTCCTTTCT
88021676 TTTGCATTCATTCCATACA
1 TTTGCATTCATTCCA-ACA
* *
88021695 TTTGCACTACATTGCAACA
1 TTTGCA-TTCATTCCAACA
88021714 TTTGCATT
1 TTTGCATT
88021722 AAACTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (18 bp):
TTTGCATTCATTCCAACA
Done.