Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 159 of 333
Found at i:52176385 original size:68 final size:67
Alignment explanation
Indices: 52176313--52176462 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
52176303 CATCATGTGT
* * * *
52176313 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
52176375 ATGTAG
62 ATGTAG
** * *
52176381 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
52176446 AG
66 AG
52176448 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
52176463 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:52176418 original size:64 final size:64
Alignment explanation
Indices: 52176337--52176520 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
52176327 AGACATTATG
* *
52176337 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
52176401 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52176466 AA
63 AA
* * * * *
52176468 ACTG--GCTAGGTCACATGGTTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
52176521 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 15 0.15
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52190828 original size:46 final size:46
Alignment explanation
Indices: 52190765--52190967 Score: 262
Period size: 46 Copynumber: 4.3 Consensus size: 46
52190755 TGACAAGTGG
* * * *
52190765 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
52190811 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
* *
52190857 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
* *
52190909 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
52190955 AAGGTGATAAGTG
1 AAAGTGATAAGTG
52190968 GCTACACTTA
Statistics
Matches: 140, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
46 97 0.69
52 43 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:52190877 original size:52 final size:52
Alignment explanation
Indices: 52190803--52190967 Score: 216
Period size: 52 Copynumber: 3.2 Consensus size: 52
52190793 CTTATCTGAT
*
52190803 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
52190856 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
52190908 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
52190954 CAAGGTGATAAGTG
1 CAA-GTGAAAAGTG
52190968 GCTACACTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
46 42 0.43
52 43 0.44
53 12 0.12
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:52190957 original size:98 final size:98
Alignment explanation
Indices: 52190739--52190950 Score: 388
Period size: 98 Copynumber: 2.2 Consensus size: 98
52190729 AGCCGCTGGT
*
52190739 CACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATC
1 CACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATC
*
52190804 AAGTGACAAAGTGATAAGTGATAGCTTCAGCTA
66 AAGAGACAAAGTGATAAGTGATAGCTTCAGCTA
*
52190837 CACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATC
1 CACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATC
*
52190902 AAGAGACAAAGTGATAAGTGATAGCTTTAGCTA
66 AAGAGACAAAGTGATAAGTGATAGCTTCAGCTA
52190935 CACTTATCTGATCAAG
1 CACTTATCTGATCAAG
52190951 AAACAAGGTG
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 110 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (98 bp):
CACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATC
AAGAGACAAAGTGATAAGTGATAGCTTCAGCTA
Found at i:52190973 original size:37 final size:37
Alignment explanation
Indices: 52190931--52191076 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
52190921 GATAGCTTTA
*
52190931 GCTACACTTATCTGATCAAGAAACAAGGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
52190968 GCTACACTTATCTGATCAAGAAACAAAGTAATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
52191005 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
52191042 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
52191077 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:52196512 original size:19 final size:19
Alignment explanation
Indices: 52196488--52196526 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
52196478 GAAAAGGAAG
52196488 GAGTAAGCATAAATTCTTA
1 GAGTAAGCATAAATTCTTA
52196507 GAGTAAGCATAAATTCTTA
1 GAGTAAGCATAAATTCTTA
52196526 G
1 G
52196527 TAAGTTCATA
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:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
GAGTAAGCATAAATTCTTA
Found at i:52196622 original size:19 final size:20
Alignment explanation
Indices: 52196598--52196635 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52196588 GGTACGACCA
52196598 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52196617 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52196636 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52196980 original size:93 final size:93
Alignment explanation
Indices: 52196865--52197035 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52196855 ACCCCTAAGT
*
52196865 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
52196929 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52196958 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52197023 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52197036 TCGACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52197030 original size:46 final size:46
Alignment explanation
Indices: 52196860--52197032 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
52196850 AACCCACCCC
* * *
52196860 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
52196906 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
52196954 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
52196999 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52197033 TGCTCGACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:52197489 original size:30 final size:30
Alignment explanation
Indices: 52197455--52197514 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52197445 ATTTAATACG
*
52197455 AACTTTAAAAAAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
52197485 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
52197515 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:52198510 original size:30 final size:30
Alignment explanation
Indices: 52198476--52198536 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52198466 TCCTCAACTC
*
52198476 AAACTTTGGCAAAATTGCAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
52198506 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
52198536 A
1 A
52198537 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:52208239 original size:43 final size:43
Alignment explanation
Indices: 52208191--52208275 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
52208181 TACATACTAC
52208191 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
1 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
52208234 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCG
1 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCG
52208276 AATAGCGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (43 bp):
ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
Found at i:52211361 original size:26 final size:26
Alignment explanation
Indices: 52211313--52211389 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
52211303 ACCAATATAA
* *
52211313 CAGCAAGGCTATCAGTAACAGTATGG
1 CAGCAAAGCTACCAGTAACAGTATGG
** *
52211339 CAGCAAAGCTACCAGTATTAGTATATG
1 CAGCAAAGCTACCAGTAACAGTAT-GG
** *
52211366 TGGCAAAGCCACCAGTAACAGTAT
1 CAGCAAAGCTACCAGTAACAGTAT
52211390 ATGTGGCGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CAGCAAAGCTACCAGTAACAGTATGG
Found at i:52211379 original size:27 final size:27
Alignment explanation
Indices: 52211341--52211410 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
52211331 CAGTATGGCA
* *
52211341 GCAAAGCTACCAGTATTAGTATATGTG
1 GCAAAGCCACCAGTATCAGTATATGTG
*
52211368 GCAAAGCCACCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTATCAGTATATGTG
* *
52211395 GCGAAGCCACAAGTAT
1 GCAAAGCCACCAGTAT
52211411 ATTACACTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTATCAGTATATGTG
Found at i:52215979 original size:36 final size:36
Alignment explanation
Indices: 52215928--52216004 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
52215918 TTCTAATGCT
*
52215928 CGTATTGGGCTTTGAGGGCCCAATCAAGGGAAGTTA
1 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
52215964 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
1 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
*
52216000 TGTAT
1 CGTAT
52216005 GATCTCAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (36 bp):
CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
Found at i:52217203 original size:19 final size:19
Alignment explanation
Indices: 52217164--52217200 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52217154 TAGTATAGCC
52217164 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
52217183 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
52217201 TATACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:52217212 original size:27 final size:28
Alignment explanation
Indices: 52217182--52217237 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
52217172 TGTCTTGAGT
** *
52217182 TATTTAATTTGTCTT-AGTTTATACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
52217209 TATTTAAAGTGTCTTAAGTTTAGACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
52217237 T
1 T
52217238 TAATTGCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTAAAGTGTCTTAAGTTTAGACAAC
Found at i:52221794 original size:18 final size:17
Alignment explanation
Indices: 52221750--52221808 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
52221740 AATAATCTGT
*
52221750 TGAAAAAGCAAAAGAAAA
1 TGAAAAAG-AAAAAAAAA
* *
52221768 TCAACAAGAAAAAAAGAA
1 TGAAAAAGAAAAAAA-AA
52221786 TGAAAAAGAAAAAGAAAA
1 TGAAAAAGAAAAA-AAAA
52221804 -GAAAA
1 TGAAAA
52221809 TCTAGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 11 0.32
18 21 0.62
19 2 0.06
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (17 bp):
TGAAAAAGAAAAAAAAA
Found at i:52222624 original size:22 final size:22
Alignment explanation
Indices: 52222599--52222642 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52222589 TACTTTGACG
*
52222599 ATATTTTAATTTATAGTAAGTC
1 ATATTTTAATTTATAGCAAGTC
52222621 ATATTTTAATTTATAGCAAGTC
1 ATATTTTAATTTATAGCAAGTC
52222643 TTTGACTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
ATATTTTAATTTATAGCAAGTC
Found at i:52225040 original size:19 final size:19
Alignment explanation
Indices: 52225001--52225037 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52224991 TAGTGCAGCC
*
52225001 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCATGAGTT
52225020 ATTTAATTTGTCAT-AGTT
1 ATTTAATTTGTCATGAGTT
52225038 TATACAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAATTTGTCATGAGTT
Found at i:52225051 original size:46 final size:44
Alignment explanation
Indices: 52224919--52225052 Score: 108
Period size: 46 Copynumber: 2.9 Consensus size: 44
52224909 AATTAATGTA
* * * *
52224919 TCTTGAGTTTATTTAATATGTCTAAGTATATACGGCAATTAATATG
1 TCTTGAG-TTATTTAATTTGTCT-AGTTTATACAGCATTTAATATG
* * * * * *
52224965 TCTTAAGATAATTAATTTGTTCTA-ATTAGTGCAGCCATTTAATTTG
1 TCTTGAGTTATTTAATTTG-TCTAGTTTA-TACAG-CATTTAATATG
52225011 TCTTGAGTTATTTAATTTGTCATAGTTTATACAGCTATTTAA
1 TCTTGAGTTATTTAATTTGTC-TAGTTTATACAGC-ATTTAA
52225053 GGTATCTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
44 2 0.03
45 16 0.24
46 46 0.69
47 3 0.04
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (44 bp):
TCTTGAGTTATTTAATTTGTCTAGTTTATACAGCATTTAATATG
Found at i:52227626 original size:44 final size:45
Alignment explanation
Indices: 52227531--52227664 Score: 153
Period size: 44 Copynumber: 3.0 Consensus size: 45
52227521 ACAGGACAGA
* *
52227531 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
52227577 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
52227621 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
52227665 CAACATATTC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:52234876 original size:47 final size:47
Alignment explanation
Indices: 52234769--52235199 Score: 639
Period size: 47 Copynumber: 9.1 Consensus size: 47
52234759 GAAATGATAG
*
52234769 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
52234818 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
52234865 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-GGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
52234911 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
52234958 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGAGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
52235005 TAGGGCCTAATAGCAGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
52235052 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52235099 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52235146 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52235193 CAAGGCC
1 TAAGGCC
52235200 GAGTGGCCAA
Statistics
Matches: 362, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 43 0.12
47 284 0.78
49 35 0.10
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:52235418 original size:37 final size:37
Alignment explanation
Indices: 52235362--52235440 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
52235352 CCGAGCTCTA
* * *
52235362 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
52235399 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52235436 AAGAC
1 AAGAC
52235441 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52237428 original size:29 final size:28
Alignment explanation
Indices: 52237387--52237462 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
52237377 GACTGTAAAA
52237387 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
52237415 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
52237444 GAGATTGGGCCTAGTGGGC
1 GTGATTGGGCCTAGTGGGC
52237463 TACAAGCATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 18 0.42
29 24 0.56
30 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:52239086 original size:28 final size:28
Alignment explanation
Indices: 52239055--52239141 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
52239045 ATGTTTGAGA
52239055 ATGTTTGCGATAGGTGGATGTTTTGGAT
1 ATGTTTGCGATAGGTGGATGTTTTGGAT
**** *
52239083 ATGTACTTATTTTA--TGTATG-TTTGAGA-
1 ATGT--TTGCGATAGGTGGATGTTTTG-GAT
52239110 ATGTTTGCGATAGGTGGATGTTTTGGAT
1 ATGTTTGCGATAGGTGGATGTTTTGGAT
52239138 ATGT
1 ATGT
52239142 ATTAAAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 4 0.10
27 15 0.36
28 19 0.45
30 4 0.10
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (28 bp):
ATGTTTGCGATAGGTGGATGTTTTGGAT
Found at i:52239115 original size:55 final size:55
Alignment explanation
Indices: 52239031--52239142 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
52239021 CTAAATTTGA
*
52239031 TACTTATTTTTTGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
1 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
52239086 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
1 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
52239141 TA
1 TA
52239143 TTAAAATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (55 bp):
TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
Found at i:52239130 original size:27 final size:27
Alignment explanation
Indices: 52239045--52239132 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
52239035 TATTTTTTGT
52239045 ATGTTTGAGAATGTTTGCGATAGGTGG
1 ATGTTTGAGAATGTTTGCGATAGGTGG
**** *
52239072 ATGTTTTG-GATATGTACTTATTTTA--TGT
1 ATG-TTTGAGA-ATGT--TTGCGATAGGTGG
52239100 ATGTTTGAGAATGTTTGCGATAGGTGG
1 ATGTTTGAGAATGTTTGCGATAGGTGG
52239127 ATGTTT
1 ATGTTT
52239133 TGGATATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 14
0.65 0.15 0.21
Matches are distributed among these distances:
25 4 0.09
27 21 0.48
28 15 0.34
30 4 0.09
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (27 bp):
ATGTTTGAGAATGTTTGCGATAGGTGG
Found at i:52241473 original size:29 final size:28
Alignment explanation
Indices: 52241433--52241512 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 28
52241423 GACTGTAAAA
*
52241433 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAATGGGCCATATGA-AT
52241461 GTGATTCGGGCCTAATGGGCCATATGAAT
1 GTGATT-GGGCCTAATGGGCCATATGAAT
*
52241490 GAGATTGGGCCTAATGGGCCATA
1 GTGATTGGGCCTAATGGGCCATA
52241513 AGCATGCCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.48
29 24 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAT
Found at i:52245892 original size:48 final size:45
Alignment explanation
Indices: 52245698--52245912 Score: 183
Period size: 48 Copynumber: 4.7 Consensus size: 45
52245688 ATTTGTGTGC
* * *
52245698 CAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCACCTTATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-CGTA-GAGAGT
* * *
52245744 CAGTGTATGACCATGTCTGGGACATGGCATCAGCA-TTAAGACAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-AG--AGAGT
* * *
52245790 CTAGTGTAAGA-CATGTCTGAGACAT-GAATCGGCTACG-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTAGA-GAGT
*
52245835 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG--TAGA-GAGT
52245883 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
52245913 TGTCATTATA
Statistics
Matches: 142, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 28 0.20
46 32 0.23
47 27 0.19
48 43 0.30
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAGAGAGT
Found at i:52250174 original size:40 final size:40
Alignment explanation
Indices: 52250113--52250339 Score: 219
Period size: 40 Copynumber: 5.7 Consensus size: 40
52250103 CTAACGGGGT
* * * *
52250113 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
52250153 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * * *
52250193 TAAGTCCCGAAGGCATTGGTACGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
52250233 TAAGTCCCGAAGGCATCTGTGCCAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGC
* * * *
52250273 TAAGACCCGAAGGCATTTATGCTAGTGA-TCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
52250313 TAAAGACCCGAAGGC-CTTGTGCGAGTG
1 T-AAGTCCCGAAGGCATTTGTGCGAGTG
52250340 GTTATATCCG
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 5 0.03
40 138 0.88
41 14 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:52259812 original size:39 final size:39
Alignment explanation
Indices: 52259752--52259975 Score: 204
Period size: 39 Copynumber: 5.7 Consensus size: 39
52259742 CTAACGGGGT
* * * *
52259752 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCGGGC
* *
52259791 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT-CGGGC
* * *
52259831 TAAGT-CCGAAGGCATTGGTGCGAGTTACTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT-CGGGC
* * *
52259870 TAAGTCCCGAAGGCATCTGTGCCAGTTG-CTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTA-ATTCGGGC
* * * *
52259910 TAAGACCCGAAGGCATTTATGCTAGTGAC-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTCGGGC
* *
52259949 TAAAGACCCGAAGGC-CTTGTGCGAGTG
1 T-AAGTCCCGAAGGCATTTGTGCGAGTG
52259976 GTTATATCCG
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 86 0.55
40 68 0.43
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCGGGC
Found at i:52259912 original size:40 final size:39
Alignment explanation
Indices: 52259752--52259999 Score: 188
Period size: 40 Copynumber: 6.3 Consensus size: 39
52259742 CTAACGGGGT
* * * *
52259752 TAAGTCCCGAAGACATGTGTGCTAG-TGAT-TAATTCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAGTTGCTAT-ATCCGGGC
* *
52259791 TAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAATTCCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTTGCTATA-TCCGGGC
* *
52259831 TAAGT-CCGAAGGCATTGGTGCGAGTTACTA-ATTCCGAGC
1 TAAGTCCCGAAGGCATT-GTGCGAGTTGCTATA-TCCGGGC
*
52259870 TAAGTCCCGAAGGCATCTGTGCCAGTTGCTATATCCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAGTTGCTATATCCGGGC
* * *
52259910 TAAGACCCGAAGGCATTTATGCTAG-TGAC-ATATCCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTTG-CTATATCCGGGC
* * * * *
52259949 TAAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGA
1 T-AAGTCCCGAAGGCATTGTGCGAGTTGCTATATCCGGGC
*
52259988 TAAATCCCGAAG
1 TAAGTCCCGAAG
52260000 ATACTTGGGT
Statistics
Matches: 174, Mismatches: 21, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
38 11 0.06
39 78 0.45
40 82 0.47
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTGCTATATCCGGGC
Found at i:52259951 original size:79 final size:78
Alignment explanation
Indices: 52259752--52259986 Score: 219
Period size: 79 Copynumber: 3.0 Consensus size: 78
52259742 CTAACGGGGT
* * *
52259752 TAAGTCCCGAAGACATGTG-TGCTAGTGATTAATT-CGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 TAAG-CCCGAAGGCAT-TGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA-TTGTGCGA
* *
52259815 GTTAC-AAATTCCGGGC
63 GTTGCTATA-TCCGGGC
* * * * *
52259831 TAAGTCCGAAGGCATTGGTGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATCTGTGCCAGT
1 TAAGCCCGAAGGCATTGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCAT-TGTGCGAGT
52259896 TGCTATATCCGGGC
65 TGCTATATCCGGGC
* * * *
52259910 TAAGACCCGAAGGCATTTATGCTAGTGAC--ATATCCGGGCTAAAGACCCGAAGGCCTTGTGCGA
1 TAAG-CCCGAAGGCATTGATGCGAGTGACTAAT-TCCGGGCT-AAGTCCCGAAGGCATTGTGCGA
* *
52259973 GTGGTTATATCCGG
63 GTTGCTATATCCGG
52259987 ATAAATCCCG
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
77 2 0.02
78 24 0.19
79 69 0.53
80 34 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TAAGCCCGAAGGCATTGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTT
GCTATATCCGGGC
Found at i:52268675 original size:14 final size:14
Alignment explanation
Indices: 52268658--52268688 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
52268648 GAAAAATCAC
52268658 TTAGTAAAAGTGGT
1 TTAGTAAAAGTGGT
52268672 TTAGTAAAAGTGGT
1 TTAGTAAAAGTGGT
52268686 TTA
1 TTA
52268689 CCATCCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (14 bp):
TTAGTAAAAGTGGT
Found at i:52283100 original size:40 final size:40
Alignment explanation
Indices: 52283039--52283265 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
52283029 CTAACGGGGT
* * * *
52283039 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
52283079 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
52283119 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
52283159 TAAGTCCCGAAGGCATCTGTGCCAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGC
* * * *
52283199 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
52283239 TAAAGACCCGAAGGC-CTTGTGCGAGTG
1 T-AAGTCCCGAAGGCATTTGTGCGAGTG
52283266 GTTATATCCG
Statistics
Matches: 161, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.02
40 143 0.89
41 14 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:52286870 original size:23 final size:23
Alignment explanation
Indices: 52286844--52286891 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
52286834 GAAGCATTTT
52286844 TACTATAAGTTAGCAATCTTTAA
1 TACTATAAGTTAGCAATCTTTAA
52286867 TACTATAAGTTAGCAATCTTTAA
1 TACTATAAGTTAGCAATCTTTAA
52286890 TA
1 TA
52286892 AAAAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
TACTATAAGTTAGCAATCTTTAA
Found at i:52297423 original size:12 final size:12
Alignment explanation
Indices: 52297406--52297430 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52297396 CCAACTCCTT
52297406 TTCTCTTAGTTG
1 TTCTCTTAGTTG
52297418 TTCTCTTAGTTG
1 TTCTCTTAGTTG
52297430 T
1 T
52297431 AGTAGCCCTT
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:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTCTCTTAGTTG
Found at i:52307454 original size:16 final size:16
Alignment explanation
Indices: 52307433--52307495 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
52307423 CATTGTGATG
*
52307433 GAATAGGGCTGTAATT
1 GAATAGAGCTGTAATT
*
52307449 GAATAGAGTTGTAATT
1 GAATAGAGCTGTAATT
*
52307465 GAATAGAGCTGTAATA
1 GAATAGAGCTGTAATT
52307481 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
52307496 AAGCAATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (16 bp):
GAATAGAGCTGTAATT
Found at i:52312145 original size:32 final size:32
Alignment explanation
Indices: 52312104--52312168 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
52312094 TTGCAATTTG
*
52312104 TTTTATATTTGCCCTTGGCTTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
*
52312136 TTTTATATTTTCCCTTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
52312168 T
1 T
52312169 CATCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (32 bp):
TTTTATATTTGCCCTTGGCCTTTACATCTATC
Found at i:52317932 original size:67 final size:66
Alignment explanation
Indices: 52317833--52318030 Score: 187
Period size: 67 Copynumber: 3.0 Consensus size: 66
52317823 ATTTTAATAG
* * *
52317833 ATTTAATATTAAATTTAATGTAATACTCATCTTA-ATATATTTTATTAAGTTAATATTAAAGTGA
1 ATTTAATATTAAATTTAATCTAATATTTATCTTAGATATATTTTATTAA-TTAATATTAAAGTGA
52317897 TT
65 TT
* * * *
52317899 ATCTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATT-TT-ATTAAT-TT-AA-T
1 AT-TTAATATTAAATTTAATCTAATATTTATC-T-TAGATATATTTTATTAATTAATATTAAAGT
**
52317959 -AAA
63 GATT
*
52317962 ATTTAATATTAAATTTAATCTAATATTTATCTT-GATAAATATTATATTAATTTAATATTAAAGT
1 ATTTAATATTAAATTTAATCTAATATTTATCTTAGAT--ATATTTTATTAA-TTAATATTAAAGT
52318026 GATT
63 GATT
52318030 A
1 A
52318031 AGTTTAATCA
Statistics
Matches: 104, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
59 3 0.03
60 1 0.01
61 5 0.05
62 29 0.28
63 4 0.04
64 6 0.06
65 4 0.04
66 6 0.06
67 31 0.30
68 4 0.04
69 4 0.04
70 7 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTAGATATATTTTATTAATTAATATTAAAGTGAT
T
Found at i:52317991 original size:62 final size:59
Alignment explanation
Indices: 52317902--52318018 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
52317892 AGTGATTATC
* * *
52317902 TTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTTTATTAATTTAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAAAT
52317964 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
52318019 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
60 1 0.02
61 1 0.02
62 27 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAAAT
Found at i:52321283 original size:43 final size:43
Alignment explanation
Indices: 52321235--52321350 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
52321225 TATCACATAT
* * *
52321235 CGATGCCACTGTCCCAGAC-TGGGTCTTACACGAAATCATAATA
1 CGATGCCAATGTCCCAGACAT-GGTCTTACACAAAATAATAATA
**
52321278 CGATGCCAATGTCCTTGACATGGTCTTACACAAAATAATAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACAAAATAATAATA
*
52321321 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
52321351 TGTAATCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACAAAATAATAATA
Found at i:52326387 original size:48 final size:48
Alignment explanation
Indices: 52326316--52326899 Score: 952
Period size: 48 Copynumber: 12.0 Consensus size: 48
52326306 CAAGATAAAT
52326316 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52326364 ATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
52326414 ATATGTATTTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52326462 ATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52326510 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52326558 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAG
* *
52326610 ATATGTATTTATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52326658 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
52326706 ATATGTAAATGTGGTAAAACCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52326754 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52326802 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52326850 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52326898 AT
1 AT
52326900 GTGTGTATAT
Statistics
Matches: 498, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
48 406 0.82
49 5 0.01
50 45 0.09
51 1 0.00
52 41 0.08
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52326689 original size:196 final size:194
Alignment explanation
Indices: 52326316--52326899 Score: 1010
Period size: 196 Copynumber: 3.0 Consensus size: 194
52326306 CAAGATAAAT
* *
52326316 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
52326381 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
*
52326446 GTGAAATATGTATGAGATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
*
52326510 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
52326575 AGCCAAATGGCTAATGTGAAATATATATATATGAGATATGTATTTATGGTAAAGCCGAATGGCTA
66 AGCCGAATGGCTAATGTG-AA-ATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTA
52326640 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGA
129 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGA
52326705 G
194 G
* *
52326706 ATATGTAAATGTGGTAAAACCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
52326771 AGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
* * *
52326834 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
52326898 AT
1 AT
52326900 GTGTGTATAT
Statistics
Matches: 371, Mismatches: 17, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
192 102 0.27
193 1 0.00
194 80 0.22
195 2 0.01
196 186 0.50
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (194 bp):
ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
Found at i:52327147 original size:37 final size:37
Alignment explanation
Indices: 52327038--52327147 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
52327028 TGGAAATATA
*
52327038 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
*
52327075 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* *
52327112 TTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52327148 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
Found at i:52329783 original size:27 final size:28
Alignment explanation
Indices: 52329699--52329796 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
52329689 CATGAGATTG
* * * *
52329699 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
52329728 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52329756 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52329783 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52329797 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52329807 original size:27 final size:27
Alignment explanation
Indices: 52329727--52329809 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
52329717 TAAATTGTAC
* *
52329727 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52329755 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52329782 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52329809 A
1 A
52329810 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52329810 original size:29 final size:27
Alignment explanation
Indices: 52329699--52329810 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
52329689 CATGAGATTG
** * *
52329699 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
52329728 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
52329756 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
52329783 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
52329811 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:52333741 original size:40 final size:40
Alignment explanation
Indices: 52333683--52333860 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
52333673 GTCTTAGCAT
* * *
52333683 AAATGCCTTCGGGTCTTAGCCTGG-ATATAGCAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAC
52333723 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* *
52333763 CAATGCCTTCGGGACTTAGCCCGGAATTTGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* * * *
52333803 AAATGCCTTCGGGACTTAGCCCGAAATTAATCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* *
52333843 ACATGTCTTCGGGACTTA
1 AAATGCCTTCGGGACTTA
52333861 ACCCCGTTAG
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 122 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
Found at i:52341960 original size:40 final size:41
Alignment explanation
Indices: 52341867--52342115 Score: 221
Period size: 40 Copynumber: 6.3 Consensus size: 41
52341857 ACCCAAGTAT
* * *
52341867 CTTCGGGATTTAG-CCGGATA-TA-AACACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTA-ACTCGCACAAATGC
* * * * * *
52341905 CTT-GGGTCTTCGCCCGGATA-TGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * *
52341944 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
52341984 CTTTGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
52342024 CTTCGGGACTTAGCCC-GAAATTTGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * * *
52342064 CTTCGGGACTTAGCCCAGA-ATTAATCACTAGCACACATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
52342104 CTTCGGGACTTA
1 CTTCGGGACTTA
52342116 ACCCCGTTAG
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
37 6 0.03
38 17 0.10
39 10 0.06
40 139 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:52347534 original size:28 final size:28
Alignment explanation
Indices: 52347481--52347540 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
52347471 AAGTAGTTGG
* *
52347481 GCCTGATGGGCCATATGAATGTGATTGA
1 GCCTGATGGGCCATATGAACGAGATTGA
* * *
52347509 GCCTGATGGGCCATGTTAACGAGATTGG
1 GCCTGATGGGCCATATGAACGAGATTGA
52347537 GCCT
1 GCCT
52347541 AAAGAGGCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (28 bp):
GCCTGATGGGCCATATGAACGAGATTGA
Found at i:52367982 original size:30 final size:30
Alignment explanation
Indices: 52367938--52367996 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52367928 TCTGAGCCTT
52367938 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
* * *
52367968 GGGGTAAAAA-TGTAATTTTGTCAAAGTTT
1 GGGG-AAAAAGTGTAAATATGTAAAAGTTT
52367997 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGTAAAAGTTTA
Found at i:52374587 original size:27 final size:27
Alignment explanation
Indices: 52374557--52375386 Score: 225
Period size: 27 Copynumber: 30.7 Consensus size: 27
52374547 TTAGTTTACC
* *
52374557 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
** * *
52374584 AAATTACTAAAATACCCTTGATTTATA
1 AAATTACCGAAATACCCCTGATTTGTA
* **
52374611 AAATTACCGAAATA-CCCTTATAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * **
52374638 GAATTATCGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * * **
52374665 GAATTACCAAAATACCCTTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * **
52374692 GAATTACTGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * **
52374719 GAATTACCGAAATACCTCTG-TAGGTCA
1 AAATTACCGAAATACCCCTGATTTGT-A
* * *
52374746 AAATTATCGAAATA-CCCTCAGTTTGCA
1 AAATTACCGAAATACCCCTGA-TTTGTA
**
52374773 AAATTATTGAAATA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
52374800 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
52374827 AAATTACC-AAAGTACCCCCGATTTATA
1 AAATTACCGAAA-TACCCCTGATTTGTA
* * **
52374854 AAATTACCCAAATATCATTGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
52374881 AAATTACCGAAATA-CCTTTAGTTTGCA
1 AAATTACCGAAATACCCCTGA-TTTGTA
* *
52374908 AAATTACTGAAAT-GCCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* * * **
52374935 AAATTACTGAAATACTCATG-TAAGATA
1 AAATTACCGAAATACCCCTGATTTG-TA
* ** *
52374962 TAATTACC-ATTTTA-CCCTCGATTTATA
1 AAATTACCGA-AATACCCCT-GATTTGTA
* *** * **
52374989 GAATTACCGTCTTACCCTTGATTTACA
1 AAATTACCGAAATACCCCTGATTTGTA
** * ***
52375016 AAATTACC-ATTTTACCCTTGATCAATA
1 AAATTACCGA-AATACCCCTGATTTGTA
* * *
52375043 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * * *
52375070 AAATTACCAAAATACCCTTAATTTGTG
1 AAATTACCGAAATACCCCTGATTTGTA
* **
52375097 AAATTACCGAAATACCCTTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * * **
52375124 GAATTACTGAAGTACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * **
52375151 GAATTATCGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * * **
52375178 GAATTATCGCAATACCCCT-ATAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* **
52375205 AAATTACCAAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * * **
52375232 GAATTACCGGAATACCCTTG-TAAGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* *** **
52375259 GAATTATTAAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* **
52375286 GAATTACCGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* **
52375313 GAATTACCGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * * **
52375340 GAATTATCGCAATACCCCT-ATAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
52375367 AAATTACCGAAATACCCCTG
1 AAATTACCGAAATACCCCTG
52375387 TAGGGTAGAA
Statistics
Matches: 651, Mismatches: 126, Indels: 51
0.79 0.15 0.06
Matches are distributed among these distances:
26 24 0.04
27 606 0.93
28 21 0.03
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGATTTGTA
Found at i:52375113 original size:81 final size:81
Alignment explanation
Indices: 52374557--52375139 Score: 319
Period size: 81 Copynumber: 7.2 Consensus size: 81
52374547 TTAGTTTACC
* * * *
52374557 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATAAAATTACCGAA
1 AAATTACCGAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCGAA
52374622 ATACCCTT-ATAGGGTA
66 ATACCCTTGATA-GGTA
* * * ** * ** * *
52374638 GAATTATCGAAATACCCCT-GTAGGGTAGAATTACCAAAATACCCTTG-TAGGGTAGAATTACTG
1 AAATTACCGAAATACCTCTGGT-TTGTAAAATTACCAAAATACCCTTGAT-TTGTAAAATTACCG
*
52374701 AAATACCCCTG-TAGGGTA
64 AAATACCCTTGATA-GGTA
* ** * * * * **
52374719 GAATTACCGAAATACCTCT-GTAGGTCAAAATTATCGAAATACCC-TCAGTTTGCAAAATTATTG
1 AAATTACCGAAATACCTCTGGTTTGT-AAAATTACCAAAATACCCTTGA-TTTGTAAAATTACCG
* **
52374782 AAATACCCTCGATTTGTA
64 AAATACCCTTGATAGGTA
* ** * ** * *
52374800 AAATTACTGAAATACC-CTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCA
1 AAATTACCGAAATACCTCT-GGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCGA
* * **
52374864 AATATCATTGATTTGTA
65 AATACCCTTGATAGGTA
* * * ** * * *
52374881 AAATTACCGAAATACCTTTAGTTTGCAAAATTACTGAAATGCCCTCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCGAA
* * *
52374946 ATACTCATG-TAAGATA
66 ATACCCTTGAT-AGGTA
* ** * * * **** **
52374962 TAATTACC-ATTTTACC-CTCGATTTATAGAATTACCGTCTTACCCTTGATTTACAAAATTACC-
1 AAATTACCGA-AATACCTCT-GGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCG
** *
52375024 ATTTTACCCTTGATCA-ATA
64 A-AATACCCTTGAT-AGGTA
* * *
52375043 AAATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTAATTTGTGAAATTACCGAA
1 AAATTACCGAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCGAA
52375108 ATACCCTTG-TAGGGTA
66 ATACCCTTGATA-GGTA
* * *
52375124 GAATTACTGAAGTACC
1 AAATTACCGAAATACC
52375140 CCTGTAGGGT
Statistics
Matches: 368, Mismatches: 113, Indels: 42
0.70 0.22 0.08
Matches are distributed among these distances:
79 1 0.00
80 14 0.04
81 341 0.93
82 12 0.03
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (81 bp):
AAATTACCGAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCGAA
ATACCCTTGATAGGTA
Found at i:52375390 original size:27 final size:27
Alignment explanation
Indices: 52375098--52375436 Score: 471
Period size: 27 Copynumber: 12.6 Consensus size: 27
52375088 TAATTTGTGA
*
52375098 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52375125 AATTACTGAAGTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52375152 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52375179 AATTATCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52375206 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
52375233 AATTACCGGAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
***
52375260 AATTATTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
52375287 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
52375314 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52375341 AATTATCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52375368 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
52375395 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52375422 AATTACCGAGATACC
1 AATTACCGAAATACC
52375437 TTGTGGGGTA
Statistics
Matches: 271, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 271 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52376132 original size:27 final size:27
Alignment explanation
Indices: 52376102--52376204 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
52376092 TATTCTATTA
* *
52376102 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTATGCCACAATATCTGTTTCT
52376129 AGTGGCTATGCCACAAATATCTG-TTCT
1 AGTGGCTATGCCAC-AATATCTGTTTCT
* * * *
52376156 GGTGGCTCTACCACAATATCTGTATCT
1 AGTGGCTATGCCACAATATCTGTTTCT
* * * *
52376183 GGTGACTCTGTCACAATATCTG
1 AGTGGCTATGCCACAATATCTG
52376205 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (27 bp):
AGTGGCTATGCCACAATATCTGTTTCT
Found at i:52376162 original size:54 final size:53
Alignment explanation
Indices: 52376103--52376204 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
52376093 ATTCTATTAA
* * * * *
52376103 GTGGCTTTGCCACATTATCTGTTTCTAGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTACCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* * *
52376157 GTGGCTCTACCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTACCACAATATCTGTATCTAGTGACTATGCCACAATATCTG
52376205 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
GTGGCTCTACCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:52376379 original size:6 final size:6
Alignment explanation
Indices: 52376341--52376460 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
52376331 TTGCATTCAC
* * *
52376341 ATTCTG ATTTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
52376391 -TTACCTG ATACTG ATTCTG GTTCTA ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
52376441 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
52376461 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.08
6 60 0.71
7 13 0.15
8 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52376387 original size:31 final size:31
Alignment explanation
Indices: 52376341--52376452 Score: 143
Period size: 31 Copynumber: 3.6 Consensus size: 31
52376331 TTGCATTCAC
52376341 ATTCTGATTTTTGATTCTATTACCTGATACTG
1 ATTCTGA-TTTTGATTCTATTACCTGATACTG
*
52376373 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
* * * * * * *
52376404 ATTCTGGTTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
52376435 ATTCTGATTTTGATTCTA
1 ATTCTGATTTTGATTCTA
52376453 GTTCTGATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 62 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:52382505 original size:28 final size:28
Alignment explanation
Indices: 52382459--52382539 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
52382449 ATGTCGTTGA
** *
52382459 ATACTCAATGCCTCACACACTAAGTTCC
1 ATACTCAATATCTCTCACACTAAGTTCC
52382487 ATACTCAATATCTCTCACACTAAGTTCC
1 ATACTCAATATCTCTCACACTAAGTTCC
*
52382515 ACACTCAATATCTCGT-ACACTAAGT
1 ATACTCAATATCTC-TCACACTAAGT
52382540 GTCGTACACA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 47 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.28
Consensus pattern (28 bp):
ATACTCAATATCTCTCACACTAAGTTCC
Found at i:52382577 original size:40 final size:40
Alignment explanation
Indices: 52382531--52382623 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
52382521 AATATCTCGT
* *
52382531 ACACTAAGTGTCGTACACAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACACAGCCGAAGCTATCTCAAATCGC
* * * * *
52382571 AGACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATACACAGCCGAAGCTATCTCAAATCGC
52382611 ACACTAAGTGCCA
1 ACACTAAGTGCCA
52382624 CAAATAGTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (40 bp):
ACACTAAGTGCCATACACAGCCGAAGCTATCTCAAATCGC
Found at i:52384738 original size:21 final size:22
Alignment explanation
Indices: 52384712--52384753 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52384702 AGCACGGACG
*
52384712 TGTCCCATGG-TCACATGGGCA
1 TGTCCCATGGACCACATGGGCA
*
52384733 TGTCCCTTGGACCACATGGGC
1 TGTCCCATGGACCACATGGGC
52384754 GTGTGAGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.24
Consensus pattern (22 bp):
TGTCCCATGGACCACATGGGCA
Found at i:52389539 original size:79 final size:79
Alignment explanation
Indices: 52389392--52389581 Score: 197
Period size: 79 Copynumber: 2.4 Consensus size: 79
52389382 TCTTTGGGAT
* * * * * * * *
52389392 TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATA
1 TTAGCCCGGATATAGCAACTCGCACAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACA
* *
52389456 AATGCCTTCGGGTC
66 AATGCCTTCGAGAC
* *
52389470 TTAGCCCGGATATAGCAACTCGCACAGATGCCTTCGGGACTTAGCCCGAAT-TAGTAACTCGTAC
1 TTAGCCCGGATATAGCAACTCGCACA-ATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCAC
*
52389534 CAATGCCTTCGAGAC
65 AAATGCCTTCGAGAC
* *
52389549 TTAGCCCGGA-ATTTGTAACTCGCACAAATGCCT
1 TTAGCCCGGATA-TAGCAACTCGCAC-AATGCCT
52389582 ACAAAATGGT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
78 5 0.05
79 66 0.71
80 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAGCAACTCGCACAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACA
AATGCCTTCGAGAC
Found at i:52389540 original size:39 final size:39
Alignment explanation
Indices: 52389408--52389581 Score: 163
Period size: 40 Copynumber: 4.4 Consensus size: 39
52389398 GGATATAACC
* * * * *
52389408 ACTCGCA-CAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 ACTCGCACCAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
* ** * * *
52389447 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 ACTCGCACCAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
52389487 ACTCGCA-CAGATGCCTTCGGGACTTAGCCCGAATTAGTA
1 ACTCGCACCA-ATGCCTTCGGGACTTAGCCCGAATTAGTA
* * *
52389526 ACTCGTACCAATGCCTTCGAGACTTAGCCCGGAATTTGTA
1 ACTCGCACCAATGCCTTCGGGACTTAGCCC-GAATTAGTA
*
52389566 ACTCGCACAAATGCCT
1 ACTCGCACCAATGCCT
52389582 ACAAAATGGT
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 36 0.31
40 79 0.69
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACCAATGCCTTCGGGACTTAGCCCGAATTAGTA
Found at i:52397135 original size:40 final size:41
Alignment explanation
Indices: 52397042--52397289 Score: 221
Period size: 40 Copynumber: 6.3 Consensus size: 41
52397032 ACCCAAGTAT
* * *
52397042 CTTCGGGATTTAG-CCGGATA-TA-AACACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTA-ACTCGCACAAATGC
* * * * * *
52397080 CTT-GGGTCTTCGCCCGGATA-TGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * *
52397119 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
52397159 CTT-GGGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
52397198 CTTCGGGACTTAGCCC-GAAATTTGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * * *
52397238 CTTCGGGACTTAGCCCAGA-ATTAATCACTAGCACACATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
52397278 CTTCGGGACTTA
1 CTTCGGGACTTA
52397290 ACCCCGTTAG
Statistics
Matches: 174, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
37 6 0.03
38 18 0.10
39 42 0.24
40 106 0.61
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:52397197 original size:79 final size:78
Alignment explanation
Indices: 52397042--52397289 Score: 227
Period size: 79 Copynumber: 3.2 Consensus size: 78
52397032 ACCCAAGTAT
* * * *
52397042 CTTCGGGAT-TTAG-CCGGATATA-AACACTCGCACAAGGCCTTGGGTCTTCGCCCGG-ATATGG
1 CTTCGGG-TCTTAGCCCGGATATAGAA-ACTCGCACAATGCCTTGGGACTTAGCCCGGAAT-TAG
* *
52397103 TCACTAGCATAAATGC
63 TAACTAGCACAAATGC
*
52397119 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAGATGCCTTGGGACTTAGCCCGGAATTAGTA
1 CTTCGGGTCTTAGCCCGGATATAGAAACTCGCACA-ATGCCTTGGGACTTAGCCCGGAATTAGTA
* *
52397184 ACTCGCACCAATGC
65 ACTAGCACAAATGC
* * * * * *
52397198 CTTCGGGACTTAGCCC-GAAATTTGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAA
1 CTTCGGGTCTTAGCCCGGATA-TAGAAACTCGCAC-AATGCCTT-GGGACTTAGCCCGGAATTAG
* * *
52397262 TCACTAGCACACATGT
63 TAACTAGCACAAATGC
*
52397278 CTTCGGGACTTA
1 CTTCGGGTCTTA
52397290 ACCCCGTTAG
Statistics
Matches: 143, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
76 1 0.01
77 11 0.08
78 21 0.15
79 66 0.46
80 44 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CTTCGGGTCTTAGCCCGGATATAGAAACTCGCACAATGCCTTGGGACTTAGCCCGGAATTAGTAA
CTAGCACAAATGC
Found at i:52402704 original size:28 final size:28
Alignment explanation
Indices: 52402651--52402710 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
52402641 AAGTAGTTGG
* *
52402651 GCCTGATGGGCCATATGAATGTGATTGA
1 GCCTGATGGGCCATATGAACGAGATTGA
* * *
52402679 GCCTGATGGGCCATGTTAACGAGATTGG
1 GCCTGATGGGCCATATGAACGAGATTGA
52402707 GCCT
1 GCCT
52402711 AAAGAGGCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (28 bp):
GCCTGATGGGCCATATGAACGAGATTGA
Found at i:52403189 original size:80 final size:80
Alignment explanation
Indices: 52403093--52403362 Score: 269
Period size: 80 Copynumber: 3.4 Consensus size: 80
52403083 TACGGAAGTA
* * *
52403093 CCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAATACCC-CTGA-TTG
1 CCTCGATTTGTAAAATTATCGAAATACCCACGATTTGTAAAATTACCAAAACACCCTC-GATTTG
* *
52403156 TGAAAATAT-TGAAATAC
65 T-AAAAT-TCCGAAACAC
* * * * * *
52403173 CCTCGATTTGTGAAATTACCGAAACACTCATGATTTGTAAAATTAACAAAACACCCTCGATTTGT
1 CCTCGATTTGTAAAATTATCGAAATACCCACGATTTGTAAAATTACCAAAACACCCTCGATTTGT
52403238 AAAATTCCGAAACAC
66 AAAATTCCGAAACAC
* * ** * * *
52403253 CCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAACCACCCCCAATTTGT
1 CCTCGATTTGTAAAATTATCGAAATACCCACGATTTGTAAAATTACCAAAACACCCTCGATTTGT
* *
52403318 AAAATTATCGAAATAC
66 AAAATT-CCGAAACAC
* *
52403334 CCTTGTAGTT-TAAAATTATCGAAATACCC
1 CCTCG-ATTTGTAAAATTATCGAAATACCC
52403363 TTATAGTGTA
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 118 0.76
81 34 0.22
82 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
CCTCGATTTGTAAAATTATCGAAATACCCACGATTTGTAAAATTACCAAAACACCCTCGATTTGT
AAAATTCCGAAACAC
Found at i:52403335 original size:27 final size:27
Alignment explanation
Indices: 52403025--52403363 Score: 279
Period size: 27 Copynumber: 12.7 Consensus size: 27
52403015 ATAATAAAGA
* * *
52403025 AAAATTA-CCAAATTACCCCCGGTTTGT
1 AAAATTATCGAAA-TACCCTCGATTTGT
* *
52403052 AAAATTATCGAAGTACCAC-CG-TTTTT
1 AAAATTATCGAAATACC-CTCGATTTGT
*
52403078 AAAATTA-CGGAAGTA-CCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
52403104 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
52403131 AAAATTACCAAAATACCC-CTGA-TTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
*
52403157 GAAAA-TATTGAAATACCCTCGATTTGT
1 -AAAATTATCGAAATACCCTCGATTTGT
* * * *
52403184 GAAATTACCGAAACACTCAT-GATTTGT
1 AAAATTATCGAAATAC-CCTCGATTTGT
* * *
52403211 AAAATTAACAAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * *
52403238 AAAATT-CCGAAACACCCTCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
52403264 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
** * *
52403291 AAAATTA-CTGAACCACCCCCAATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
52403318 AAAATTATCGAAATACCCTTGTAGTT-T
1 AAAATTATCGAAATACCCTCG-ATTTGT
52403345 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
52403364 TATAGTGTAA
Statistics
Matches: 256, Mismatches: 38, Indels: 36
0.78 0.12 0.11
Matches are distributed among these distances:
24 1 0.00
25 4 0.02
26 79 0.31
27 162 0.63
28 10 0.04
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:52403348 original size:54 final size:54
Alignment explanation
Indices: 52403025--52403362 Score: 296
Period size: 53 Copynumber: 6.3 Consensus size: 54
52403015 ATAATAAAGA
* ** * *
52403025 AAAATTACC-AAATTACCCCCGGTTTGTAAAATTATCGAAGTACCAC-CG-TTTTT
1 AAAATTACCGAAA-CACCCCCAATTTGTAAAATTATCGAAATACC-CTCGATTTGT
* ** * * * *
52403078 AAAATTACGGAAGTA-CCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCGAAACACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
* * ** *
52403131 AAAATTACCAAAATACCCCTGA-TTGTGAAAA-TATTGAAATACCCTCGATTTGT
1 AAAATTACCGAAACACCCCCAATTTGT-AAAATTATCGAAATACCCTCGATTTGT
* * *** * * *
52403184 GAAATTACCGAAACACTCATGATTTGTAAAATTAACAAAACACCCTCGATTTGT
1 AAAATTACCGAAACACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
*
52403238 AAAATT-CCGAAACACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
1 AAAATTACCGAAACACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
* * * *
52403291 AAAATTACTGAACCACCCCCAATTTGTAAAATTATCGAAATACCCTTGTAGTT-T
1 AAAATTACCGAAACACCCCCAATTTGTAAAATTATCGAAATACCCTCG-ATTTGT
* *
52403345 AAAATTATCGAAATACCC
1 AAAATTACCGAAACACCC
52403363 TTATAGTGTA
Statistics
Matches: 235, Mismatches: 41, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
51 1 0.00
52 26 0.11
53 116 0.49
54 89 0.38
55 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (54 bp):
AAAATTACCGAAACACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
Found at i:52403364 original size:27 final size:27
Alignment explanation
Indices: 52403315--52403376 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
52403305 ACCCCCAATT
*
52403315 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTATAG
*
52403342 TTTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
52403369 TGTAAAAT
1 TGTAAAAT
52403377 GACCAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTATAG
Found at i:52403387 original size:27 final size:26
Alignment explanation
Indices: 52403328--52403406 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
52403318 AAAATTATCG
* * *
52403328 AAATACCCTTGTAGTTTAAAATTATCG
1 AAATACCCTTGTAGTGTAAAATGA-CC
*
52403355 AAATACCCTTATAGTGTAAAATGACC
1 AAATACCCTTGTAGTGTAAAATGACC
* *
52403381 AACATACCCCTGTAGGGTAAAATGAC
1 AA-ATACCCTTGTAGTGTAAAATGAC
52403407 TATTTTGCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (26 bp):
AAATACCCTTGTAGTGTAAAATGACC
Found at i:52403880 original size:11 final size:11
Alignment explanation
Indices: 52403864--52403889 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52403854 ATTGCATGTA
52403864 TGATATTATTG
1 TGATATTATTG
52403875 TGATATTATTG
1 TGATATTATTG
52403886 TGAT
1 TGAT
52403890 GTGGGCTTCG
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:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:52406535 original size:29 final size:27
Alignment explanation
Indices: 52406517--52406586 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
52406507 ATATTAAGTC
52406517 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
52406544 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
52406572 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52406587 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52406580 original size:28 final size:28
Alignment explanation
Indices: 52406517--52406614 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
52406507 ATATTAAGTC
*
52406517 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
52406544 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52406572 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52406601 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52406615 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52414637 original size:28 final size:28
Alignment explanation
Indices: 52414596--52414676 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
52414586 TATATTAAGA
52414596 ATAATC-AACTCGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAT
*
52414623 ATAATCAAACTCGCACACTTAGTGCTGT
1 ATAATCAAACTCGCACACTTAGTGCTAT
* * *
52414651 ACAATTTAAACCCGCACACTTAGTGC
1 ATAA-TCAAACTCGCACACTTAGTGC
52414677 CAATCTCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.12
28 23 0.48
29 19 0.40
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
ATAATCAAACTCGCACACTTAGTGCTAT
Found at i:52418852 original size:96 final size:97
Alignment explanation
Indices: 52418661--52418895 Score: 310
Period size: 96 Copynumber: 2.4 Consensus size: 97
52418651 GTAAGATGCT
* * **
52418661 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCAATGCCATGCTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-CAATGCCAATGCCATGCTCCAA
* *
52418726 ACATGGTCTTACTCTAGCCCACATGTCGAGGCC
65 ACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * *
52418759 GATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCATATA-AATGCCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATGCCAATGCCATGCTCCAAA
* *
52418823 CATGGTCTTACACTGGCTCACATATCGAGGCC
66 CATGGTCTTACACTAGCCCACATATCGAGGCC
* * * *
52418855 AATGTCATATCCCAGACATGGTCTTACACTAGCTCTTATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
52418896 CCCTAATATC
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
96 81 0.68
98 38 0.32
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATGCCAATGCCATGCTCCAAA
CATGGTCTTACACTAGCCCACATATCGAGGCC
Found at i:52418896 original size:48 final size:48
Alignment explanation
Indices: 52418662--52418896 Score: 240
Period size: 48 Copynumber: 4.9 Consensus size: 48
52418652 TAAGATGCTG
* * *
52418662 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCGAG-GCCA
* * * * *
52418712 ATGCCATG-CTCCAAACATGGTCTTACTCTAGCCCACATGTCGAGGCCG
1 ATGCCATGTC-CCAAACATGGTCTTACACTAGCTCTCATATCGAGGCCA
* ** * *
52418760 ATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCATATAAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCCA
* * *
52418808 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCCA
* * * *
52418856 ATGTCATATCCCAGACATGGTCTTACACTAGCTCTTATATC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC
52418897 CCTAATATCA
Statistics
Matches: 151, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
48 120 0.79
49 3 0.02
50 28 0.19
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCCA
Found at i:52420159 original size:43 final size:42
Alignment explanation
Indices: 52420093--52420214 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
52420083 TTACATATCA
* * * *
52420093 ATGCCACTGTTCTAGACAAGGTCTTACATGGAATCATAATAC
1 ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
* *
52420135 GATGCCAATGTCCTTGACATGGTCTTACACGAAATCATAATAC
1 -ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
* *
52420178 ACTGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 A-TGCCAATGTCCTAGACATGGTCTTACATGAAATCA
52420215 CATCTCGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
Found at i:52427568 original size:5 final size:5
Alignment explanation
Indices: 52427558--52427589 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
52427548 CAAACTAATC
52427558 ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT AT
52427590 GACACATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:52440446 original size:47 final size:47
Alignment explanation
Indices: 52440377--52440686 Score: 422
Period size: 47 Copynumber: 6.6 Consensus size: 47
52440367 ACAAATGCCC
* * *
52440377 TTCGGACTTATCACATTTATACACTTTCACATCCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
52440424 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
52440471 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * * *
52440518 TTCGGCCTCATCACATATATACACTTTCACATTCATTACGTTGGTCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * * *
52440565 CTCGACCCTATCACATATATACACTTTCACATTCATCACGTTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
52440612 CTCGGCCCTATCACATATATATATACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
* * *
52440661 CTCGGCCCTATCACATATATATACTT
1 TTCGGCCTTATCACATATATACACTT
52440687 GTACATCAAT
Statistics
Matches: 239, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 194 0.81
49 45 0.19
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
Found at i:52449732 original size:43 final size:43
Alignment explanation
Indices: 52449574--52449740 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
52449564 GGTTAACGAG
* *
52449574 ATGTGATTACATGTAAGACCATGTCT-GGAACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATATCTAGG-ACATTGGCATCAAT
** * * **
52449616 ATTGTGATTATGTGTAAGACCATATCTGGGACATTTGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* * * * * * *
52449660 AAT-CGATTTCGTGTAAGACCCTTTTTAGGACAGTGGCATCAAT
1 -ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* *
52449703 ATGTGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCAT
52449741 TATACAAGCT
Statistics
Matches: 95, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 9 0.09
43 81 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
Found at i:52458175 original size:28 final size:28
Alignment explanation
Indices: 52458144--52458238 Score: 154
Period size: 28 Copynumber: 3.4 Consensus size: 28
52458134 CAATGCCTCA
* *
52458144 CACACTAAGTGTCATACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCG
* *
52458172 CACACAAAGTGCCACACTCGATATCTTG
1 CACACTAAGTGCCACACTCGATATCTCG
52458200 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCG
52458228 CACACTAAGTG
1 CACACTAAGTG
52458239 TCGTACACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCG
Found at i:52458270 original size:40 final size:40
Alignment explanation
Indices: 52458225--52458321 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
52458215 ACTCGATATC
* *
52458225 TCGCACACTAAGTGTCGTACACAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
* * * *
52458265 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
*
52458305 TCGTACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
52458322 CAAATAACTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
Found at i:52460484 original size:17 final size:17
Alignment explanation
Indices: 52460462--52460494 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52460452 ATCTGACAAA
*
52460462 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
52460479 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
52460495 ATGATAAAAA
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:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:52461742 original size:48 final size:48
Alignment explanation
Indices: 52461687--52461883 Score: 367
Period size: 48 Copynumber: 4.1 Consensus size: 48
52461677 ACACATCGCC
*
52461687 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
52461735 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
52461783 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
52461831 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
52461879 TACAT
1 TACAT
52461884 CAATTTCTGC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 146 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:52472332 original size:27 final size:27
Alignment explanation
Indices: 52472230--52472333 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
52472220 AATACTTTAG
*
52472230 TTTACCAAATTATTGAAATACCCTCGA
1 TTTACAAAATTATTGAAATACCCTCGA
* ** ** *
52472257 CTTGTAAAATTA-ACAAAGTACCCCCGA
1 TTTACAAAATTATTGAAA-TACCCTCGA
** *** *
52472284 TTTACAAAATTACCGTTTTACCATCGA
1 TTTACAAAATTATTGAAATACCCTCGA
52472311 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATTGAAATACCC
52472334 CTGTAGGGTA
Statistics
Matches: 52, Mismatches: 23, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.94
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATTGAAATACCCTCGA
Found at i:52472354 original size:27 final size:27
Alignment explanation
Indices: 52472318--52472458 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 27
52472308 CGATTTACAA
* *
52472318 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
52472345 AGTTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * *
52472372 AATTA-TCGAAATACCCTTGTAGGGCAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* **
52472399 AAATACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * * *
52472426 AATTA-TCGAGATACCCTTATGGGGTAA
1 AATTACT-GAAATACCCCTATAGGGTAG
52472453 AATTAC
1 AATTAC
52472459 CATTTTGCCC
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 89 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:52472383 original size:54 final size:54
Alignment explanation
Indices: 52472318--52472441 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
52472308 CGATTTACAA
* * ** **
52472318 AATTATTGAAATACCCCTGTAGGGTAGAGTTACTGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
*
52472372 AATTATCGAAATACCCTTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
*
52472426 AATTATCGAGATACCC
1 AATTATCGAAATACCC
52472442 TTATGGGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
Found at i:52473025 original size:27 final size:26
Alignment explanation
Indices: 52472951--52473080 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 26
52472941 TGGAGGAAGC
*
52472951 GTTCTGGTGGCAATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
52472978 GTTTCTGGTGGCTATGTCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
52473006 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
52473032 GTTTCTGGTGACTCTATCACAATATCT
1 G-TTCTGGTGGCTATGCCACAATATCT
* * *
52473059 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCTATGCCACAAT
52473081 TTCTATGGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.25
27 40 0.46
28 25 0.29
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:52473052 original size:54 final size:54
Alignment explanation
Indices: 52472951--52473066 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
52472941 TGGAGGAAGC
* *
52472951 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGTCACAAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCAC-AATATCT
** *
52473006 GTTCTGGTGGCTCTGCCAC-AATATCTGTTTCTGGTGACTCTATCACAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCACAATATCT
52473059 GTTCTGGT
1 GTTCTGGT
52473067 AGCCATGCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 15 0.27
54 24 0.43
55 17 0.30
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCACAATATCT
Found at i:52473080 original size:53 final size:54
Alignment explanation
Indices: 52472951--52473080 Score: 174
Period size: 53 Copynumber: 2.4 Consensus size: 54
52472941 TGGAGGAAGC
* * *
52472951 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGTCACAAATATCT
1 GTTCTGGTGGCCATGCCAC-AATATCTGTTTCTGGTGACTATATCACAAATATCT
*
52473006 GTTCTGGTGGCTC-TGCCACAATATCTGTTTCTGGTGACTCTATCAC-AATATCT
1 GTTCTGGTGGC-CATGCCACAATATCTGTTTCTGGTGACTATATCACAAATATCT
* *
52473059 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCCATGCCACAAT
52473081 TTCTATGGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 25 0.37
54 24 0.36
55 17 0.25
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCCATGCCACAATATCTGTTTCTGGTGACTATATCACAAATATCT
Found at i:52490939 original size:19 final size:21
Alignment explanation
Indices: 52490911--52490953 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
52490901 TTTGTTTTTC
*
52490911 TTTCTTTTCTTC-CTGC-CAA
1 TTTCTATTCTTCTCTGCACAA
52490930 TTTCTATTCTTCTCTGCACAA
1 TTTCTATTCTTCTCTGCACAA
52490951 TTT
1 TTT
52490954 TCTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.14, C:0.28, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTCTATTCTTCTCTGCACAA
Found at i:52491595 original size:16 final size:16
Alignment explanation
Indices: 52491560--52491611 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
52491550 TATGTATCGA
* * *
52491560 AAAAAGCTGAAATGCC
1 AAAAAGCCGAAAAGCG
52491576 AAAAAGCCGAAAAGCG
1 AAAAAGCCGAAAAGCG
* *
52491592 AAAATGTCGAAAAGCTG
1 AAAAAGCCGAAAAGC-G
52491609 AAA
1 AAA
52491612 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (16 bp):
AAAAAGCCGAAAAGCG
Found at i:52491869 original size:28 final size:28
Alignment explanation
Indices: 52491822--52491906 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
52491812 GTGAGCATGA
*
52491822 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
52491850 AT-TTAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
52491878 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
52491906 A
1 A
52491907 AATACAGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 8 0.16
28 35 0.70
29 7 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:52502171 original size:19 final size:19
Alignment explanation
Indices: 52502134--52502177 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
52502124 AATTTAGGGA
**
52502134 TTATTTTTTTCCTTTAATT
1 TTATTTTTTTCCTAAAATT
52502153 TTATTTTTTTCCTAAAATT
1 TTATTTTTTTCCTAAAATT
*
52502172 CTATTT
1 TTATTT
52502178 CCCGTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTTTCCTAAAATT
Found at i:52506947 original size:43 final size:43
Alignment explanation
Indices: 52506891--52507106 Score: 233
Period size: 43 Copynumber: 5.0 Consensus size: 43
52506881 CATAGGATTT
* *
52506891 TCGATATGTGATTTCGTGCAAGACCATGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
52506934 TCGACT-TATGATTTACATGTAAGATCATGTCTGGGACATCGGCA
1 TCGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
*
52506978 TC-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * * *
52507020 TCGATATTTGATTTTGTGTAAGACCCTGTTTGGGATAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGA-CGTTGGCA
* * *
52507063 TCGATATTTGATTACATGTAAGACCAAGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
52507106 T
1 T
52507107 TGTATGAGCT
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
42 27 0.19
43 90 0.62
44 27 0.19
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:52508990 original size:33 final size:33
Alignment explanation
Indices: 52508916--52508978 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
52508906 TCTCTGTTTG
*
52508916 GTGTGTTGGTTGGACTAGCTCTTATAAGCACTA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
* *
52508949 GTGTGTTGGTTGGATTAGCTCTTCTAAACA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACA
52508979 TTGATGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (33 bp):
GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
Found at i:52517931 original size:5 final size:5
Alignment explanation
Indices: 52517923--52517977 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
52517913 CCTTAATACT
52517923 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
52517973 ATATA
1 ATATA
52517978 GTAAATTTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:52519933 original size:48 final size:48
Alignment explanation
Indices: 52519862--52520092 Score: 277
Period size: 48 Copynumber: 4.8 Consensus size: 48
52519852 GACATCGTGC
* *
52519862 TATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCAGCGATAA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* *
52519910 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * *
52519958 TATGTATGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * **
52520006 TATGTGTGCCGGTCAAAGACCATGTCTGGGACATGGCATC-GACGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
* ** * *
52520054 TCTATG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
52520093 TAGTACTTTA
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 156 0.99
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:52521512 original size:21 final size:19
Alignment explanation
Indices: 52521483--52521522 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
52521473 ATTATGTTCC
52521483 TTAACTATTTTGGTACAATTT
1 TTAACTATTTT--TACAATTT
*
52521504 TTAATTATTTTTACAATTT
1 TTAACTATTTTTACAATTT
52521523 AGAACAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAACTATTTTTACAATTT
Found at i:52522082 original size:38 final size:38
Alignment explanation
Indices: 52522039--52522200 Score: 189
Period size: 38 Copynumber: 4.0 Consensus size: 38
52522029 TTTTCAAATA
52522039 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
52522077 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
52522115 ACATGTATCGATATGTGTAAACGTGGCATATTCACTTAGCACCACGTT
1 AC----AT-G-TA----TAACCGTGGCATATCCACTTAGCACCACGTT
*
52522163 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
52522201 TTTCCATTCT
Statistics
Matches: 105, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
38 66 0.63
42 4 0.04
43 2 0.02
44 3 0.03
48 30 0.29
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:52522154 original size:86 final size:86
Alignment explanation
Indices: 52522041--52522200 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 86
52522031 TTCAAATAAC
* *
52522041 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
52522106 CACCACGTTACATGTATCGAT
66 CACCACGTTACATGTATCGAT
* *
52522127 ATGTGTAAACGTGGCATATTCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
1 ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
52522192 CACCACGTT
66 CACCACGTT
52522201 TTTCCATTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (86 bp):
ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
CACCACGTTACATGTATCGAT
Found at i:52522159 original size:48 final size:48
Alignment explanation
Indices: 52522079--52522170 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
52522069 ACCACGTTAC
* * *
52522079 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCGAT
1 ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTATCGAT
*
52522127 ATGTGTAAACGTGGCATATTCACTTAGCACCACGTTACATGTAT
1 ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTAT
52522171 AACCGTGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (48 bp):
ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTATCGAT
Found at i:52529173 original size:38 final size:38
Alignment explanation
Indices: 52529130--52529338 Score: 175
Period size: 38 Copynumber: 5.0 Consensus size: 38
52529120 TTTTCAAATA
*
52529130 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
52529168 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
52529209 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
52529253 ACATGTATCGATATGTGTAAACGTGGTATATTCACTTAGCACCACGTT
1 AC----AT-G-TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
52529301 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
52529339 TTTCCATTCC
Statistics
Matches: 140, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
38 62 0.44
39 1 0.01
41 2 0.01
42 3 0.02
43 2 0.01
44 5 0.04
45 3 0.02
46 3 0.02
47 27 0.19
48 32 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:52529244 original size:47 final size:48
Alignment explanation
Indices: 52529175--52529303 Score: 188
Period size: 48 Copynumber: 2.7 Consensus size: 48
52529165 GTTACATGTT
*
52529175 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
52529222 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCGATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
52529270 TAAACGTGGTATATTCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACA
52529304 CGTATAACCG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 30 0.41
48 43 0.59
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:52533974 original size:30 final size:30
Alignment explanation
Indices: 52533940--52534000 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52533930 TCCTTAACTC
52533940 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
52533970 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
52534000 A
1 A
52534001 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:52536722 original size:47 final size:47
Alignment explanation
Indices: 52536644--52537051 Score: 627
Period size: 47 Copynumber: 8.6 Consensus size: 47
52536634 CCCTTCGGGA
* * * * * *
52536644 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52536691 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52536738 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52536785 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52536834 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52536883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52536930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52536977 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52537026 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52537052 CACAATTATC
Statistics
Matches: 336, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 197 0.59
49 139 0.41
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52536841 original size:96 final size:94
Alignment explanation
Indices: 52536644--52537051 Score: 627
Period size: 96 Copynumber: 4.3 Consensus size: 94
52536634 CCCTTCGGGA
* * * * * * * *
52536644 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52536709 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
52536738 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
52536803 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52536834 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
52536899 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52536930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
52536995 ACTTTCACATTCATCACATCGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
52537026 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52537052 CACAATTATC
Statistics
Matches: 289, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
94 90 0.31
96 155 0.54
98 44 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52536982 original size:192 final size:192
Alignment explanation
Indices: 52536644--52537052 Score: 718
Period size: 192 Copynumber: 2.2 Consensus size: 192
52536634 CCCTTCGGGA
* * *
52536644 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGACCCTATCACATATATAC
52536707 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
52536772 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52536834 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGACCCTATCACATATATAC
*
52536899 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
*
52536964 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52537026 CTTATCACATATATATACA--TTCACATC
1 CTTATCACATATATATACACTTTCACATC
52537053 ACAATTATCC
Statistics
Matches: 208, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
190 17 0.08
191 1 0.00
192 190 0.91
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGACCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52544783 original size:44 final size:44
Alignment explanation
Indices: 52544709--52544794 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
52544699 TACATGTATT
* *
52544709 GCATCCATAATGAACCCAGAACAACTCAACGAGCTCGGATGCTC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
*** *
52544753 GCATCCATAATGAACTTGGACCAACCCAACGAGCTCAGATGC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGC
52544795 CTCATACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (44 bp):
GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
Found at i:52551536 original size:27 final size:27
Alignment explanation
Indices: 52551506--52551795 Score: 222
Period size: 27 Copynumber: 10.7 Consensus size: 27
52551496 TATAGGATAG
* *
52551506 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52551533 AATTACCAAAATACCCATGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
52551560 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
52551587 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
52551614 AATTATCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCTT-GATTTGTAA
* * *
52551641 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * **
52551668 AATTATAAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
52551695 AATTACAAAAATGCCCTTGACTTTCAAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * * *
52551723 AATTACTAAAATACCATTGGTTTGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * * * *
52551750 AATTGTCGAAATACCTTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52551777 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
52551796 TAGGGTGAAA
Statistics
Matches: 212, Mismatches: 48, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.01
27 185 0.87
28 24 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:52551751 original size:28 final size:28
Alignment explanation
Indices: 52551666--52551741 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 28
52551656 CCTAATTTGG
* * *
52551666 AAAATTATAAAAATACCCTT-AATTT-A
1 AAAATTACAAAAATACCATTGACTTTCA
* *
52551692 CAAAATTACAAAAATGCCCTTGACTTTCA
1 -AAAATTACAAAAATACCATTGACTTTCA
*
52551721 AAAATTACTAAAATACCATTG
1 AAAATTACAAAAATACCATTG
52551742 GTTTGCAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
28 22 0.54
29 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAATTACAAAAATACCATTGACTTTCA
Found at i:52552267 original size:22 final size:22
Alignment explanation
Indices: 52552215--52552279 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
52552205 GCCCATTATT
* *
52552215 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
52552237 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
52552259 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
52552280 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:52552507 original size:22 final size:22
Alignment explanation
Indices: 52552489--52552553 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
52552479 CGTTGCTGCT
* *
52552489 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATGTGCTGTA
52552511 ATGTTTACGGCTATGTGCTGTA
1 ATGTTTACGGCTATGTGCTGTA
*
52552533 ATGTTTATGGCTATGTGCTGT
1 ATGTTTACGGCTATGTGCTGT
52552554 CCTGTCTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (22 bp):
ATGTTTACGGCTATGTGCTGTA
Found at i:52556442 original size:183 final size:181
Alignment explanation
Indices: 52556126--52556493 Score: 567
Period size: 183 Copynumber: 2.0 Consensus size: 181
52556116 TAGCTTCTCC
**
52556126 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGTGGACTAATAAATGCCAATAGAGTTTTG
1 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
* * * *
52556191 ATAGATTAAAAGCTTTATTGACAGAAGCACCAGTGTTAGTTCAACCAGAATTGGGTGAGGAATTT
66 ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAATTT
*
52556256 ACAGTTTAGAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
131 ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
* *
52556307 GATGACTCGTTTATTGCAAAAAAAGATGTAAAATTTGAGCAGACTAATAAATTCCAATAGAGTTT
1 GATGACTCGTTTAATGC--AAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTT
** * *
52556372 TGATAGATGAAAAGCTTTATTGATTGAAACAACAGTGTTAGTTCAGCCAGAATCGGGT-ATGAAG
64 TGATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAA-
* *
52556436 TTTACAGTTTACAGTGATGTGTCATTGAATGGTTTAGGCTGTGTTTTGATGCAA
128 TTTACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
52556490 GATG
1 GATG
52556494 GTAAAGTAGT
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
181 16 0.09
182 4 0.02
183 149 0.88
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (181 bp):
GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAATTT
ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
Found at i:52558207 original size:490 final size:490
Alignment explanation
Indices: 52557287--52558266 Score: 1933
Period size: 490 Copynumber: 2.0 Consensus size: 490
52557277 ACCCCCATCT
*
52557287 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACCAAGTTTACACACTTTATTCCAATATGTA
1 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
52557352 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
66 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
52557417 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
131 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
52557482 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
196 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
52557547 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
261 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
52557612 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
326 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
52557677 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
391 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
52557742 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
456 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
52557777 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
1 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
52557842 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
66 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
52557907 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
131 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
52557972 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
196 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
52558037 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
261 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
* *
52558102 ACGTATTTTCCCCTGGTCGAATTTGCTTATAATAATAGTTATCAGTCTAGTATTAAAATGGCACC
326 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
52558167 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
391 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
52558232 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
456 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
52558267 GGAAAGGTAA
Statistics
Matches: 487, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
490 487 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (490 bp):
CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
Found at i:52560371 original size:49 final size:51
Alignment explanation
Indices: 52560240--52560485 Score: 293
Period size: 49 Copynumber: 4.9 Consensus size: 51
52560230 TCTATTGTGA
* * * *
52560240 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * * * *
52560291 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * *
52560340 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * * *
52560391 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
52560440 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
52560486 GCTTCGGCTA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 80 0.50
50 3 0.02
51 76 0.48
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
Done.