Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 269 of 325
Found at i:87992732 original size:26 final size:26
Alignment explanation
Indices: 87992703--87992755 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
87992693 ATAGGCGAAA
87992703 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
87992729 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
87992755 A
1 A
87992756 AGTCCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (26 bp):
AGCTAAAACTTTGTTAAAAATTATTT
Found at i:87994666 original size:20 final size:20
Alignment explanation
Indices: 87994641--87994685 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
87994631 AGGGGCTAAA
* *
87994641 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
87994661 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
87994681 ATGAA
1 ATGAA
87994686 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:87996843 original size:33 final size:33
Alignment explanation
Indices: 87996801--87996869 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
87996791 TTGTCCTTAC
*
87996801 ATAGTTTTTGTAGGTAAAGCAAAATTGAAGCAA
1 ATAGTTTTTGCAGGTAAAGCAAAATTGAAGCAA
87996834 ATAGTTTTTGCAGGTAAAGCAAAATTGAAGCAA
1 ATAGTTTTTGCAGGTAAAGCAAAATTGAAGCAA
87996867 ATA
1 ATA
87996870 TTGCTCACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.29
Consensus pattern (33 bp):
ATAGTTTTTGCAGGTAAAGCAAAATTGAAGCAA
Found at i:88008673 original size:24 final size:24
Alignment explanation
Indices: 88008641--88008696 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
88008631 AGTTGGCTAT
*
88008641 GGTCGTGGTCGAGAAGGACATGAC
1 GGTCGTGGTCGAAAAGGACATGAC
*
88008665 GGTCGTGGTCGAAAAGGACATGGC
1 GGTCGTGGTCGAAAAGGACATGAC
*
88008689 AGTCGTGG
1 GGTCGTGG
88008697 AGAACCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.16, G:0.43, T:0.18
Consensus pattern (24 bp):
GGTCGTGGTCGAAAAGGACATGAC
Found at i:88016410 original size:19 final size:19
Alignment explanation
Indices: 88016386--88016423 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
88016376 TGTATGATTT
88016386 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
88016405 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
88016424 AATATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (19 bp):
GGATTTGAAATTGGTTGAA
Found at i:88017526 original size:13 final size:13
Alignment explanation
Indices: 88017508--88017535 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88017498 GTTTGGCAGG
88017508 GACACGCCCGTGT
1 GACACGCCCGTGT
88017521 GACACGCCCGTGT
1 GACACGCCCGTGT
88017534 GA
1 GA
88017536 GGAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:88021388 original size:27 final size:27
Alignment explanation
Indices: 88021348--88021402 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
88021338 CTTGACAACC
*
88021348 CTAAGAAGTTATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
88021375 CTAAGAAGTAATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
88021402 C
1 C
88021403 AGAAGAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (27 bp):
CTAAGAAGTAATTTAAGTAGATGAGGT
Found at i:88021456 original size:55 final size:55
Alignment explanation
Indices: 88021395--88021518 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 55
88021385 ATTTAAGTAG
*
88021395 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTGTCCTAGTTTGAACT
1 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
* * * * *
88021450 ATGAGGTCGGAAGAATTGTCTATTGAGCATCTCTTAACTTATCCTGGTTTGAATT
1 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
88021505 ATGAGGTCAGAAGA
1 ATGAGGTCAGAAGA
88021519 TAAGTAGTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (55 bp):
ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
Found at i:88053962 original size:18 final size:19
Alignment explanation
Indices: 88053933--88053968 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88053923 GCATGTTTGC
*
88053933 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
88053952 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
88053969 CGCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:88054420 original size:18 final size:19
Alignment explanation
Indices: 88054397--88054434 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
88054387 TGGTCCACAC
88054397 ACACATGCGTGTG-AGGTT
1 ACACATGCGTGTGTAGGTT
*
88054415 ACACATGGGTGTGTAGGTT
1 ACACATGCGTGTGTAGGTT
88054434 A
1 A
88054435 ACCACACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (19 bp):
ACACATGCGTGTGTAGGTT
Found at i:88059332 original size:44 final size:43
Alignment explanation
Indices: 88059269--88059422 Score: 172
Period size: 44 Copynumber: 3.6 Consensus size: 43
88059259 TATGTGTTAT
*
88059269 CGTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTT-TGATTTA
* * *
88059313 CGTGTAAGACCATGTCTGGGATGTTGGCATTGTTTTTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTTA
* *
88059355 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATACTTGA-TTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTTGATTTA
* *
88059398 CATGTACA-ACCACGTCTGGGACGTT
1 CGTGTA-AGACCATGTCTGGGACGTT
88059423 TTGTACGAGC
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
42 31 0.33
43 29 0.31
44 33 0.35
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTTA
Found at i:88059371 original size:42 final size:43
Alignment explanation
Indices: 88059268--88059422 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
88059258 ATATGTGTTA
*
88059268 TCGTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTATGATT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* * *
88059311 TACGTGTAAGACCATGTCTGGGATGTTGGCATTG-TTTTTGATT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* *
88059354 TCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATACT-TGATT
1 TCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTATGATT
* * *
88059397 ACATGTACA-ACCACGTCTGGGACGTT
1 TCGTGTA-AGACCATGTCTGGGACGTT
88059423 TTGTACGAGC
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 28 0.30
43 35 0.37
44 31 0.33
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
Found at i:88066424 original size:42 final size:43
Alignment explanation
Indices: 88066320--88066479 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
88066310 ATATGTGTTA
** * * *
88066320 TCGTGTAAGACCAAATCTGGGACGTTGGCATCAGCT-TATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATC-GATATTTGATT
88066363 TACGTGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
* * *
88066406 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTGGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATT
* * * *
88066449 ACATGTAAGACCACGTCTGGAACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
88066480 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 41 0.41
44 29 0.29
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
Found at i:88067971 original size:42 final size:42
Alignment explanation
Indices: 88067919--88068034 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
88067909 GTTAGGGGTG
*
88067919 TTACA-GTAAGACCATACTTGGGATATGGCATCGATATAAGA
1 TTACATGTAAGACCATACTTGGGATATGGCATCGATACAAGA
**
88067960 CTT-TTTGTAAGACCATAGC-TGGGATATTGGCATCGATACAAGA
1 -TTACATGTAAGACCATA-CTTGGGATA-TGGCATCGATACAAGA
*
88068003 TTACATGTAAGACCATATTTGGGATATGGCAT
1 TTACATGTAAGACCATACTTGGGATATGGCAT
88068035 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATACTTGGGATATGGCATCGATACAAGA
Found at i:88068587 original size:56 final size:56
Alignment explanation
Indices: 88068527--88068645 Score: 211
Period size: 56 Copynumber: 2.1 Consensus size: 56
88068517 ACTCAATGCA
88068527 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
* *
88068583 ATGGCTTGTAATCGTCAAAGGCTTGTTTTGCTATTTGGTCATGTAAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
88068639 ATTGGCT
1 A-TGGCT
88068646 AACATGGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 55 0.92
57 5 0.08
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.42
Consensus pattern (56 bp):
ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
Found at i:88068681 original size:14 final size:14
Alignment explanation
Indices: 88068662--88068691 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88068652 GTTGTAAGCC
88068662 TAAGTATACTCATA
1 TAAGTATACTCATA
88068676 TAAGTATACTCATA
1 TAAGTATACTCATA
88068690 TA
1 TA
88068692 TGGTGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
TAAGTATACTCATA
Found at i:88073773 original size:13 final size:13
Alignment explanation
Indices: 88073755--88073786 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88073745 ATGCTGTTGA
*
88073755 CCGTGGTGGCACT
1 CCGTGGCGGCACT
88073768 CCGTGGCGGCACT
1 CCGTGGCGGCACT
88073781 CCGTGG
1 CCGTGG
88073787 ATGAGCCGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.34, G:0.41, T:0.19
Consensus pattern (13 bp):
CCGTGGCGGCACT
Found at i:88076336 original size:7 final size:7
Alignment explanation
Indices: 88076326--88076358 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
88076316 CCCCCCCCCA
88076326 AAAAAAC
1 AAAAAAC
88076333 AAAAAA-
1 AAAAAAC
*
88076339 AAAAACC
1 AAAAAAC
88076346 AAAAAAC
1 AAAAAAC
88076353 AAAAAA
1 AAAAAA
88076359 AGAGAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:88081061 original size:15 final size:14
Alignment explanation
Indices: 88081027--88081061 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
88081017 TCATATTTGA
88081027 AATTTAATTTTTAT
1 AATTTAATTTTTAT
*
88081041 ATTTTAATTTATTAT
1 AATTTAATTT-TTAT
88081056 AATTTA
1 AATTTA
88081062 GTTCTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:88081271 original size:17 final size:17
Alignment explanation
Indices: 88081238--88081287 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
88081228 CATAATAAAT
88081238 ATATATATG-TA--GTA
1 ATATATATGTTAGGGTA
88081252 ATATATATGTTAGGGTA
1 ATATATATGTTAGGGTA
*
88081269 ATATCTATGTTAGGGTA
1 ATATATATGTTAGGGTA
88081286 AT
1 AT
88081288 GTTCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
17 21 0.66
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (17 bp):
ATATATATGTTAGGGTA
Found at i:88084012 original size:3 final size:3
Alignment explanation
Indices: 88084004--88084045 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
88083994 GGCAGTAGGT
*
88084004 GAA GAA GAA G-A GAA GAA AAA GAA -AA -AA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
88084046 TACAAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:88084052 original size:27 final size:24
Alignment explanation
Indices: 88084005--88084054 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
88083995 GCAGTAGGTG
88084005 AAGAAGAAGAGAAGAAAAAGAAAA
1 AAGAAGAAGAGAAGAAAAAGAAAA
88084029 AAGAAGAAGAAGAAGAATACAAGAAA
1 AAGAAGAAG-AGAAGAA-A-AAGAAA
88084055 TGAAGATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.39
25 7 0.30
26 1 0.04
27 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (24 bp):
AAGAAGAAGAGAAGAAAAAGAAAA
Found at i:88091106 original size:18 final size:17
Alignment explanation
Indices: 88091079--88091115 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
88091069 CAGATTGTGC
88091079 AATTATTATATACATGA
1 AATTATTATATACATGA
*
88091096 AATTGATTATATATATGA
1 AATT-ATTATATACATGA
88091114 AA
1 AA
88091116 GTGTCTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
AATTATTATATACATGA
Found at i:88091387 original size:41 final size:41
Alignment explanation
Indices: 88091310--88091388 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
88091300 CATGTGTTGT
* *
88091310 GGACATACAACAACTCTTTGTGAGCATCCTATTATATGATC
1 GGACATACAACAACTCTTTATGAGCATCCTAGTATATGATC
* * *
88091351 GGACATACCACAGCTCTTTATGAGCGTCCCT-GTATATG
1 GGACATACAACAACTCTTTATGAGCAT-CCTAGTATATG
88091389 GCTCTTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (41 bp):
GGACATACAACAACTCTTTATGAGCATCCTAGTATATGATC
Found at i:88094996 original size:64 final size:64
Alignment explanation
Indices: 88094895--88095023 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
88094885 GGCCGTGTGT
*
88094895 CACACACTGCTAAGACACACGCTTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
1 CACACACGGCTAAGACACACGCTTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
88094959 CACACACGGCTAAGACACACGCTTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
1 CACACACGGCTAAGACACACGCTTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
88095023 C
1 C
88095024 CTTATTTCTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (64 bp):
CACACACGGCTAAGACACACGCTTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
Found at i:88095922 original size:25 final size:25
Alignment explanation
Indices: 88095878--88095951 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
88095868 AGCCCTCTCT
* *
88095878 CGAGCCATATAAC-AGAAAGCTCATG
1 CGAGCAATATAACGAG-AAGCTCATC
* ** *
88095903 TGAGCTGTATAACGAGAAGCTTATC
1 CGAGCAATATAACGAGAAGCTCATC
*
88095928 CGGGCAATATAACGAGAAGCTCAT
1 CGAGCAATATAACGAGAAGCTCAT
88095952 AAGAGCCATA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
CGAGCAATATAACGAGAAGCTCATC
Found at i:88107608 original size:18 final size:19
Alignment explanation
Indices: 88107567--88107608 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
88107557 CAAATATTTT
**
88107567 AAAAAAATATAAAATTATT
1 AAAAAAATATAAAATTAAA
*
88107586 CAAAAAAT-TAAAATTAAA
1 AAAAAAATATAAAATTAAA
88107604 AAAAA
1 AAAAA
88107609 GAGATTGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATATAAAATTAAA
Found at i:88113317 original size:60 final size:58
Alignment explanation
Indices: 88113212--88113342 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 58
88113202 ATCGCTTTAA
* ** * * **
88113212 TATTAAATTAATATAATTTTTATTAAGATAAATATTAGATTAAATTTAATATTAACTC
1 TATTAAATTAATAGAATACTTATTAAAATAAATATTAAATTAAATTTAATATTAAAAC
88113270 TATTAAATTAATAGAATACTTATCTAAAAATAAATATTAAATTAAATTTAATATTAAAAC
1 TATTAAATTAATAGAATACTTAT-T-AAAATAAATATTAAATTAAATTTAATATTAAAAC
*
88113330 TATTAAAATAATA
1 TATTAAATTAATA
88113343 TTCTTTTTCG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 20 0.32
59 1 0.02
60 42 0.67
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATTAAAATAAATATTAAATTAAATTTAATATTAAAAC
Found at i:88125068 original size:4 final size:4
Alignment explanation
Indices: 88125055--88125122 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
88125045 ATTAAAACGT
* *
88125055 TTTC -TTC TTTC TTTTC TTTT TTTC TTTC -TT- TTTC TTTTC TTTT TTTC
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
88125102 TTTC -TT- TTTC TTTTC TTTC TT
1 TTTC TTTC TTTC -TTTC TTTC TT
88125123 GATATTTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
3 11 0.21
4 29 0.56
5 12 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:88125071 original size:12 final size:11
Alignment explanation
Indices: 88125054--88125119 Score: 87
Period size: 12 Copynumber: 5.7 Consensus size: 11
88125044 GATTAAAACG
88125054 TTTTCTTCTTTC
1 TTTTCTT-TTTC
*
88125066 TTTTCTTTTTT
1 TTTTCTTTTTC
88125077 TCTTTCTTTTTC
1 T-TTTCTTTTTC
*
88125089 TTTTCTTTTTT
1 TTTTCTTTTTC
88125100 TCTTTCTTTTTC
1 T-TTTCTTTTTC
88125112 TTTTCTTT
1 TTTTCTTT
88125120 CTTGATATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 21 0.44
12 27 0.56
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:88125091 original size:23 final size:23
Alignment explanation
Indices: 88125055--88125119 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
88125045 ATTAAAACGT
88125055 TTTCTTCTTTCTTTTCTTTTTTTC
1 TTTCTT-TTTCTTTTCTTTTTTTC
88125079 TTTCTTTTTCTTTTCTTTTTTTC
1 TTTCTTTTTCTTTTCTTTTTTTC
88125102 TTTCTTTTTCTTTTCTTT
1 TTTCTTTTTCTTTTCTTT
88125120 CTTGATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 35 0.85
24 6 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTCTTTTTCTTTTCTTTTTTTC
Found at i:88125815 original size:63 final size:63
Alignment explanation
Indices: 88125694--88125820 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
88125684 GTCATGTGGT
* * * *
88125694 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGGGTCAGAGATATAGACGTGTGTCC
1 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
* * *
88125757 AGGTCGTGTAACTCACTGTTTTGGAATTAGAGTCATACGAGCCAGAGACACGAG-CGTGTGTCC
1 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACA-GAGACGTGTGTCC
88125820 A
1 A
88125821 AGCCGTGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 54 0.96
64 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (63 bp):
AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
Found at i:88126560 original size:22 final size:22
Alignment explanation
Indices: 88126532--88126576 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
88126522 GGTAGGAATT
88126532 TGCATCTGTATCTGATATGTTC
1 TGCATCTGTATCTGATATGTTC
* *
88126554 TGCATCTGTATTTGATCTGTTC
1 TGCATCTGTATCTGATATGTTC
88126576 T
1 T
88126577 ATATCTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (22 bp):
TGCATCTGTATCTGATATGTTC
Found at i:88126582 original size:22 final size:22
Alignment explanation
Indices: 88126534--88126587 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
88126524 TAGGAATTTG
*
88126534 CATCTGTATCTGATATGTTCTG
1 CATCTGTATCTGATATGTTCTA
* *
88126556 CATCTGTATTTGATCTGTTCTA
1 CATCTGTATCTGATATGTTCTA
* *
88126578 TATCTATATC
1 CATCTGTATC
88126588 GACTATCCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (22 bp):
CATCTGTATCTGATATGTTCTA
Found at i:88128251 original size:61 final size:58
Alignment explanation
Indices: 88128144--88128259 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
88128134 TTCACTTTAA
*
88128144 TATTAAATTAATATAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAATTAATAGAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATT
* *
88128202 TATTAAATTAATAGAATATTTATCCATAAGATAAATATTTA-ATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTAT--A-AAGATAAATA-TTAGATTAAATTTAATATTAA
88128260 GATAATAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 21 0.41
60 1 0.02
61 26 0.51
62 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATT
Found at i:88128291 original size:25 final size:25
Alignment explanation
Indices: 88128244--88128291 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
88128234 AAATATTTAA
*
88128244 TTTAATTTAATATTAAGATAATAAT
1 TTTAATTTAATATTAAGAAAATAAT
*
88128269 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
88128292 CTATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAT
Found at i:88133990 original size:18 final size:18
Alignment explanation
Indices: 88133969--88134011 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
88133959 AAAGTTGTAT
88133969 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
88133987 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
88134005 TAACTAA
1 TAACTAA
88134012 ATGAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (18 bp):
TAACTAATAAATAATGTG
Found at i:88135061 original size:20 final size:20
Alignment explanation
Indices: 88135036--88135088 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
88135026 ACGGCTGTAG
* * *
88135036 CACACGGGCGTGTTCTAGGC
1 CACACGGGCATGTCCTAAGC
*
88135056 CACACGAGCATGTCCTAAGC
1 CACACGGGCATGTCCTAAGC
88135076 CACACGGGCATGT
1 CACACGGGCATGT
88135089 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (20 bp):
CACACGGGCATGTCCTAAGC
Found at i:88141684 original size:46 final size:48
Alignment explanation
Indices: 88141552--88141694 Score: 146
Period size: 46 Copynumber: 2.9 Consensus size: 48
88141542 CATACTCCCA
88141552 TATAAGACCATGGCAGGGCTATGGCATCAATGTAATGTGATAATGTGATTCCG
1 TATAAGACCATGGCAGGGCTATGGCATC-A-GT-A-GTGAT-ATGTGATTCCG
** * * * *
88141605 TATAAGACCATATCTGGGATATGACATCGGTA-TGATATGTGA-TCCG
1 TATAAGACCATGGCAGGGCTATGGCATCAGTAGTGATATGTGATTCCG
* *
88141651 TGTAAGACCATGGCAGGGCTATGGCTTCAGTATGTGATATGTGA
1 TATAAGACCATGGCAGGGCTATGGCATCAGTA-GTGATATGTGA
88141695 CAATGTGAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
46 28 0.38
47 6 0.08
48 14 0.19
50 1 0.01
51 2 0.03
53 23 0.31
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TATAAGACCATGGCAGGGCTATGGCATCAGTAGTGATATGTGATTCCG
Found at i:88142459 original size:20 final size:20
Alignment explanation
Indices: 88142434--88142486 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
88142424 ACTGCCGCAG
*
88142434 CACACGAGCATGTCCCAGGC
1 CACACGAGCATGTCCCAAGC
* **
88142454 CACACGGGTGTGTCCCAAGC
1 CACACGAGCATGTCCCAAGC
*
88142474 CACACGCGCATGT
1 CACACGAGCATGT
88142487 GCCCTTATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13
Consensus pattern (20 bp):
CACACGAGCATGTCCCAAGC
Found at i:88157140 original size:28 final size:29
Alignment explanation
Indices: 88157093--88157147 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
88157083 AAAACTCAAC
*
88157093 TTATGAAAAAATTAATAATA-TATAAAAA
1 TTATGAAAAAACTAATAATATTATAAAAA
88157121 TTATGAGAAAAACTAA-AATATTATAAA
1 TTATGA-AAAAACTAATAATATTATAAA
88157148 CTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (29 bp):
TTATGAAAAAACTAATAATATTATAAAAA
Found at i:88173425 original size:26 final size:25
Alignment explanation
Indices: 88173345--88173427 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 25
88173335 TTTATTTGAT
* *
88173345 TTTTTA-TTTTTTAAAAGTTTTCATT
1 TTTTTATTTTTTTAATA-TTTTCATA
* **
88173370 TTTTTATTTTTTTCATCATTTGGA-A
1 TTTTTATTTTTTTAAT-ATTTTCATA
88173395 TTTTTTATTTTATTTAATATTTTCATA
1 -TTTTTATTTT-TTTAATATTTTCATA
88173422 TTTTTA
1 TTTTTA
88173428 GAATAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
25 6 0.13
26 32 0.71
27 7 0.16
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTATTTTTTTAATATTTTCATA
Found at i:88173460 original size:29 final size:29
Alignment explanation
Indices: 88173428--88173488 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
88173418 CATATTTTTA
*
88173428 GAATAAAATTTTATCATTTTTATAACTTG
1 GAATAAAATTCTATCATTTTTATAACTTG
*
88173457 GAATAAAGTTCTATCATTTTTATAACTTG
1 GAATAAAATTCTATCATTTTTATAACTTG
88173486 GAA
1 GAA
88173489 CTTAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (29 bp):
GAATAAAATTCTATCATTTTTATAACTTG
Found at i:88184479 original size:15 final size:15
Alignment explanation
Indices: 88184443--88184480 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
88184433 TCATTAATTT
88184443 TTTTTATTATCATCA
1 TTTTTATTATCATCA
*
88184458 TTATTATTATCA-CTA
1 TTTTTATTATCATC-A
88184473 TTTTTATT
1 TTTTTATT
88184481 TTATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTATTATCATCA
Found at i:88184642 original size:26 final size:26
Alignment explanation
Indices: 88184612--88184662 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
88184602 TTTCTTCACT
*
88184612 ATTATTTTTATTATCATTATT-TATTC
1 ATTATTATTATTATCA-TATTATATTC
88184638 ATTATTATTATTATCATATTATATT
1 ATTATTATTATTATCATATTATATT
88184663 TTTTCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTATTATTATCATATTATATTC
Found at i:88184647 original size:17 final size:17
Alignment explanation
Indices: 88184611--88184669 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
88184601 TTTTCTTCAC
88184611 TATTATTT-TT-ATTAT
1 TATTATTTATTCATTAT
*
88184626 CATTATTTATTCATTAT
1 TATTATTTATTCATTAT
88184643 TATTA-TTA-TCA-TAT
1 TATTATTTATTCATTAT
*
88184657 TA-TATTTTTTCAT
1 TATTATTTATTCAT
88184670 ATACGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 7 0.19
15 13 0.36
16 5 0.14
17 9 0.25
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTTATTCATTAT
Found at i:88188991 original size:37 final size:37
Alignment explanation
Indices: 88188945--88189015 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
88188935 AAAAATAATG
*
88188945 TTATTTTAATAGT-TTAATATTAAATTTAAT-TTAATAC
1 TTATCTTAATAGTATT-ATATT-AATTTAATATTAATAC
*
88188982 TTATCTTAATAGTATTTTATTAATTTAATATTAA
1 TTATCTTAATAGTATTATATTAATTTAATATTAA
88189016 AGAGATTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 8 0.27
37 20 0.67
38 2 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (37 bp):
TTATCTTAATAGTATTATATTAATTTAATATTAATAC
Found at i:88194449 original size:6 final size:6
Alignment explanation
Indices: 88194438--88194480 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
88194428 AGTTTATTTG
* *
88194438 TTTTAT TTTTAT TTTTA- -TTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
88194481 CTTAGACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
6 27 0.87
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:88194460 original size:16 final size:16
Alignment explanation
Indices: 88194430--88194472 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
88194420 GACCATTAAG
*
88194430 TTTATTTGT-TTTATT
1 TTTATTTTTATTTATT
88194445 TTTATTTTTATTTATT
1 TTTATTTTTATTTATT
*
88194461 TTTATGTTTATT
1 TTTATTTTTATT
88194473 GTTATTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTATTTTTATTTATT
Found at i:88194470 original size:22 final size:21
Alignment explanation
Indices: 88194430--88194479 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
88194420 GACCATTAAG
*
88194430 TTTATTTGTTTTATTTTTATT
1 TTTATTTGTTTTATGTTTATT
*
88194451 TTTATTTATTTTTATGTTTATT
1 TTTATTT-GTTTTATGTTTATT
*
88194473 GTTATTT
1 TTTATTT
88194480 TCTTAGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTATTTGTTTTATGTTTATT
Found at i:88198776 original size:68 final size:66
Alignment explanation
Indices: 88198704--88198853 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
88198694 CATCATGTGT
* * * *
88198704 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
88198767 TGTAG
62 TGTAG
* * * *
88198772 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGTATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
88198837 AG
65 AG
88198839 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
88198854 GATAAATTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:88202234 original size:36 final size:36
Alignment explanation
Indices: 88202193--88202264 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
88202183 ATGATTATTC
* **
88202193 TACAATTTGAAAGATAATATGATTCAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
*
88202229 TACAATCTGAAAGATAATACAATTTAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
88202265 CATGCTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (36 bp):
TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
Found at i:88204154 original size:16 final size:16
Alignment explanation
Indices: 88204133--88204163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88204123 TTCACTATTA
*
88204133 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
88204149 TATCTTTTATATTTT
1 TATCTTTTATATTTT
88204164 GCATGCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:88214066 original size:24 final size:24
Alignment explanation
Indices: 88214008--88214082 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
88213998 AGGCTGAGTG
*
88214008 ATGCAGACCAGTGCCTTGGGCTGA
1 ATGCAGACCAGTGTCTTGGGCTGA
* *
88214032 ATAG-TGGCCAGTGTCTTGGGCTGA
1 AT-GCAGACCAGTGTCTTGGGCTGA
* * *
88214056 ATGCAGACCAGTATATTAGGCTGA
1 ATGCAGACCAGTGTCTTGGGCTGA
88214080 ATG
1 ATG
88214083 GTCCTAGTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGCAGACCAGTGTCTTGGGCTGA
Found at i:88231538 original size:28 final size:29
Alignment explanation
Indices: 88231484--88231538 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
88231474 ACAGGGGTTT
88231484 TCACACGGCCAAGCACACGCTCGTGTCCC
1 TCACACGGCCAAGCACACGCTCGTGTCCC
*
88231513 TCACACGGCCTAGACACAC-C-CGTGTC
1 TCACACGGCCAAG-CACACGCTCGTGTC
88231539 GTCGCCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.22, C:0.44, G:0.20, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCTCGTGTCCC
Found at i:88243910 original size:14 final size:14
Alignment explanation
Indices: 88243891--88243918 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88243881 AACTGTTGTT
88243891 TTATATAAAAAAAA
1 TTATATAAAAAAAA
88243905 TTATATAAAAAAAA
1 TTATATAAAAAAAA
88243919 AACTCTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TTATATAAAAAAAA
Found at i:88252909 original size:16 final size:16
Alignment explanation
Indices: 88252878--88252919 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
88252868 TGTTTAAGAA
*
88252878 TAATCTAATTATGAAGT
1 TAATCT-ATCATGAAGT
88252895 TAATCTATCATGAAGT
1 TAATCTATCATGAAGT
88252911 TAATCTATC
1 TAATCTATC
88252920 TTCTATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (16 bp):
TAATCTATCATGAAGT
Found at i:88256019 original size:12 final size:12
Alignment explanation
Indices: 88256002--88256027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88255992 AAATGGTTAA
88256002 AAATATTTTTTT
1 AAATATTTTTTT
88256014 AAATATTTTTTT
1 AAATATTTTTTT
88256026 AA
1 AA
88256028 TTTTTAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATATTTTTTT
Found at i:88257959 original size:16 final size:17
Alignment explanation
Indices: 88257938--88257977 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
88257928 TGGTCCTAAG
88257938 TTAAAA-AGTCAATTAC
1 TTAAAAGAGTCAATTAC
*
88257954 TTAAAATGTGTCAATTAC
1 TTAAAA-GAGTCAATTAC
88257972 TTAAAA
1 TTAAAA
88257978 TGTGTAGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (17 bp):
TTAAAAGAGTCAATTAC
Found at i:88257968 original size:18 final size:18
Alignment explanation
Indices: 88257945--88257982 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
88257935 AAGTTAAAAA
88257945 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
88257963 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
88257981 GT
1 GT
88257983 AGTCGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
GTCAATTACTTAAAATGT
Found at i:88262278 original size:12 final size:12
Alignment explanation
Indices: 88262261--88262290 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
88262251 ACTGGGAGAA
88262261 GAAGTCCTACTT
1 GAAGTCCTACTT
88262273 GAAGTCCTACTT
1 GAAGTCCTACTT
88262285 GAAGTC
1 GAAGTC
88262291 TAAAACGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (12 bp):
GAAGTCCTACTT
Found at i:88278576 original size:10 final size:10
Alignment explanation
Indices: 88278544--88278577 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88278534 CGTTTTGTCC
88278544 CTTTTTGGCT
1 CTTTTTGGCT
88278554 CGTTTTTGGCT
1 C-TTTTTGGCT
*
88278565 CTTTTTGACT
1 CTTTTTGGCT
88278575 CTT
1 CTT
88278578 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:88281596 original size:49 final size:48
Alignment explanation
Indices: 88281540--88281718 Score: 152
Period size: 49 Copynumber: 3.7 Consensus size: 48
88281530 TGTTGTACGT
* **
88281540 TAGTGTAAGACCTGTCTGAGACATGGCATCGACAC-CGATAGATGCGAGC
1 TAGTGTAAGACCTGTCTG-GACATGGCATCGAC-CTCGATAGACGAAAGC
* * *
88281589 TAGTGTAAGACCTGTCTGGCACATGGCAT-TAGCCTCGATATACGAAAGT
1 TAGTGTAAGACCTGTCTGG-ACATGGCATCGA-CCTCGATAGACGAAAGC
* **
88281638 TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTAAT-GTAC--AAGC
1 TAGTGTAAGACCTGTCT-GGACATGGCATCGACCTCGATAG-ACGAAAGC
* *
88281685 CAGTGTAAGACCATGTCTAGGACATGGCGTCGAC
1 TAGTGTAAGACC-TGTCT-GGACATGGCATCGAC
88281719 ATCTTATCCC
Statistics
Matches: 108, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
47 14 0.13
48 22 0.20
49 69 0.64
50 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCTGTCTGGACATGGCATCGACCTCGATAGACGAAAGC
Found at i:88281607 original size:93 final size:97
Alignment explanation
Indices: 88281493--88281670 Score: 247
Period size: 98 Copynumber: 1.9 Consensus size: 97
88281483 GAGATATACA
* * * * *
88281493 AGCTAGTGTAAGACCTATCTGGGACATGGCGTCAG-CTTG-T-T-GTACGTTAGTGTAAGACCTG
1 AGCTAGTGTAAGACCTATCTGGCACATGGCATCAGCCTCGATATAGAAAGTTAGTGTAAGACCTG
88281554 TCTGAGACATGGCATCGACACCGATAGATGCG
66 TCTGAGACATGGCATCGACACCGATAGATGCG
* *
88281586 AGCTAGTGTAAGACCTGTCTGGCACATGGCATTAGCCTCGATATACGAAAGTTAGTGTAAGACCT
1 AGCTAGTGTAAGACCTATCTGGCACATGGCATCAGCCTCGATATA-GAAAGTTAGTGTAAGACCT
*
88281651 GTCTGGGACATGGCATCGAC
65 GTCTGAGACATGGCATCGAC
88281671 TTTAATGTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 31 0.43
94 3 0.04
95 1 0.01
96 1 0.01
98 36 0.50
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (97 bp):
AGCTAGTGTAAGACCTATCTGGCACATGGCATCAGCCTCGATATAGAAAGTTAGTGTAAGACCTG
TCTGAGACATGGCATCGACACCGATAGATGCG
Found at i:88284929 original size:16 final size:16
Alignment explanation
Indices: 88284904--88284937 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88284894 ATGAATATAT
* *
88284904 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
88284920 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
88284936 AT
1 AT
88284938 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:88288382 original size:55 final size:55
Alignment explanation
Indices: 88288313--88288422 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
88288303 TGTGTGCAAG
88288313 TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
*
88288368 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
88288423 CAGGGACAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (55 bp):
TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
Found at i:88298893 original size:55 final size:55
Alignment explanation
Indices: 88298828--88298965 Score: 242
Period size: 55 Copynumber: 2.5 Consensus size: 55
88298818 ATGTGTACGA
88298828 TTAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTG
1 TTAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTG
88298883 TTAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTG
1 TTAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTG
*
88298938 TTAGGGA-CAGTGGCATCGATATGTGATT
1 TTA-AGACCA-TGGCATCGATATGTGATT
88298966 GCATGTAAGA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
55 60 0.75
56 20 0.25
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
TTAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTG
Found at i:88310048 original size:15 final size:16
Alignment explanation
Indices: 88310028--88310061 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
88310018 GGATGACTTG
88310028 AAGAGAA-ATTCATGT
1 AAGAGAAGATTCATGT
88310043 AAGAGAAGGATTCATGT
1 AAGAGAA-GATTCATGT
88310060 AA
1 AA
88310062 AGGCAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
AAGAGAAGATTCATGT
Found at i:88319465 original size:16 final size:15
Alignment explanation
Indices: 88319431--88319472 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
88319421 GAGCATACTT
*
88319431 TTTATACAACTTTTC
1 TTTATATAACTTTTC
*
88319446 TTTATATAATCTTTTG
1 TTTATATAA-CTTTTC
88319462 TTTA-ATAACTT
1 TTTATATAACTT
88319473 AATTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 12 0.50
16 9 0.38
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTATATAACTTTTC
Found at i:88320576 original size:30 final size:30
Alignment explanation
Indices: 88320540--88320598 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
88320530 TGACATTGAG
88320540 GGTTAATTTTAAAAGAAGAAAAGATGAAAC
1 GGTTAATTTTAAAAGAAGAAAAGATGAAAC
*
88320570 GGTTAATTTTAAAAGGAGAAAAGATGAAA
1 GGTTAATTTTAAAAGAAGAAAAGATGAAA
88320599 TATATTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.24
Consensus pattern (30 bp):
GGTTAATTTTAAAAGAAGAAAAGATGAAAC
Found at i:88321360 original size:37 final size:37
Alignment explanation
Indices: 88321310--88321383 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
88321300 CAGAATAAGG
88321310 TAAAACGAAGGGTGAGTTAACAAACATTGCGTAACCA
1 TAAAACGAAGGGTGAGTTAACAAACATTGCGTAACCA
88321347 TAAAACGAAGGGTGAGTTAACAAACATTGCGTAACCA
1 TAAAACGAAGGGTGAGTTAACAAACATTGCGTAACCA
88321384 AACTCAGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (37 bp):
TAAAACGAAGGGTGAGTTAACAAACATTGCGTAACCA
Found at i:88321639 original size:40 final size:40
Alignment explanation
Indices: 88321591--88321675 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
88321581 ATAAGTAGAA
*
88321591 CAAAGCAGAATAATACTGAATGGAACAGACCAGTACGGAG
1 CAAAGCAGAATAATACTGAATGGAACAGAACAGTACGGAG
* *
88321631 CAAAGCAGAATAATACTTAATGGAATAGAACAGTACGGAG
1 CAAAGCAGAATAATACTGAATGGAACAGAACAGTACGGAG
88321671 CAAAG
1 CAAAG
88321676 TAGGATAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.14
Consensus pattern (40 bp):
CAAAGCAGAATAATACTGAATGGAACAGAACAGTACGGAG
Found at i:88327245 original size:19 final size:19
Alignment explanation
Indices: 88327221--88327289 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
88327211 AATTCTAGAA
88327221 TTATAAAAAACATAAAATT
1 TTATAAAAAACATAAAATT
88327240 TTAT-AAAAACTATTAGAAATT
1 TTATAAAAAAC-A-TA-AAATT
* *
88327261 AATTA-AAAAATCATAAAACT
1 --TTATAAAAAACATAAAATT
88327281 TTATAAAAA
1 TTATAAAAA
88327290 TATAATTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
18 9 0.22
19 10 0.24
20 6 0.15
21 7 0.17
22 1 0.02
23 8 0.20
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (19 bp):
TTATAAAAAACATAAAATT
Found at i:88328945 original size:16 final size:17
Alignment explanation
Indices: 88328924--88328963 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
88328914 ATATATATTA
88328924 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
88328940 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
88328956 TATATTAT
1 TATATTAT
88328964 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:88329061 original size:11 final size:11
Alignment explanation
Indices: 88329030--88329073 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
88329020 TATATTTTTA
88329030 TAATTATAATT
1 TAATTATAATT
88329041 TAAATATATAATT
1 T-AAT-TATAATT
*
88329054 TACTTATAATT
1 TAATTATAATT
*
88329065 TAAGTATAA
1 TAATTATAA
88329074 AGATATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TAATTATAATT
Found at i:88329244 original size:33 final size:30
Alignment explanation
Indices: 88329194--88329254 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
88329184 TATAATTGTA
*
88329194 ATATTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTTTATTTAATTATTAAAGTAAATAG
*
88329224 ATATTTATTATTTATAATTATTAAATTAAAT
1 ATATTT-TTA-TT-TAATTATTAAAGTAAAT
88329255 TAAAGACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 3 0.12
32 2 0.08
33 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
ATATTTTTATTTAATTATTAAAGTAAATAG
Found at i:88329609 original size:13 final size:14
Alignment explanation
Indices: 88329583--88329611 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88329573 CGGAAGTGGG
88329583 AAAGAAAGAATAAA
1 AAAGAAAGAATAAA
88329597 AAAGAAA-AATAAA
1 AAAGAAAGAATAAA
88329610 AA
1 AA
88329612 TAAAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAGAAAGAATAAA
Found at i:88330904 original size:47 final size:47
Alignment explanation
Indices: 88330823--88330923 Score: 116
Period size: 47 Copynumber: 2.1 Consensus size: 47
88330813 CCTTGTGTGT
**
88330823 CATACTGTTACTATTACTTCGGATTAATCTGATGAGGTACTGAGTAC
1 CATACTGTTACTATTACTTCGGATTAATCTGATGAGACACTGAGTAC
* * *
88330870 CATACTGTTACTATTTATTTCGGCA-TAGTC-GATGAGACACTGAGTGC
1 CATACTGTTACTA-TTACTTCGG-ATTAATCTGATGAGACACTGAGTAC
*
88330917 CGTACTG
1 CATACTG
88330924 GTGTGTTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 33 0.72
48 12 0.26
49 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (47 bp):
CATACTGTTACTATTACTTCGGATTAATCTGATGAGACACTGAGTAC
Found at i:88331070 original size:48 final size:48
Alignment explanation
Indices: 88331017--88331111 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
88331007 TAATGGTTGA
* *
88331017 CTGTTACTGAATAATAAAGATCAATTGATTGCTACTGAAAAATATTGC
1 CTGTTACTGAATAATAAAGATAAATTGATTGATACTGAAAAATATTGC
* * ** *
88331065 CTGTTATTGAATGATATTGATAAATTGATTGATATTGAAAAATATTG
1 CTGTTACTGAATAATAAAGATAAATTGATTGATACTGAAAAATATTG
88331112 ATTGATAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (48 bp):
CTGTTACTGAATAATAAAGATAAATTGATTGATACTGAAAAATATTGC
Found at i:88331097 original size:18 final size:20
Alignment explanation
Indices: 88331069--88331118 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
88331059 TATTGCCTGT
* *
88331069 TATTGAATGATATTG-ATAA
1 TATTGATTGATATTGAAAAA
88331088 -ATTGATTGATATTGAAAAA
1 TATTGATTGATATTGAAAAA
88331107 TATTGATTGATA
1 TATTGATTGATA
88331119 ATGAGCTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 3 0.11
20 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
TATTGATTGATATTGAAAAA
Found at i:88334449 original size:31 final size:30
Alignment explanation
Indices: 88334414--88334493 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
88334404 TATAATTTCC
*
88334414 AATTTTTAATG-GTTTTAATAAATTTGTTTAT
1 AATTTTT-ATGAGTTTTAATAAATTT-TTAAT
* *
88334445 AATTTTTATGATTTTTAATTAATTTTTAAT
1 AATTTTTATGAGTTTTAATAAATTTTTAAT
* *
88334475 AATTATTATAAGTTTTAAT
1 AATTTTTATGAGTTTTAAT
88334494 TATTTTAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.55
31 19 0.45
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (30 bp):
AATTTTTATGAGTTTTAATAAATTTTTAAT
Found at i:88334458 original size:9 final size:9
Alignment explanation
Indices: 88334440--88334491 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
88334430 AATAAATTTG
88334440 TTTATAATT
1 TTTATAATT
*
88334449 TTTATGATT
1 TTTATAATT
88334458 TTTAATTAATT
1 TTT-A-TAATT
88334469 TTTAATAATT
1 TTT-ATAATT
* *
88334479 ATTATAAGT
1 TTTATAATT
88334488 TTTA
1 TTTA
88334492 ATTATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 19 0.53
10 8 0.22
11 9 0.25
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:88336878 original size:37 final size:37
Alignment explanation
Indices: 88336810--88336882 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
88336800 TCACTATGTA
88336810 TTTTTGAATTAAAAAATATATTAAATGTAAAAATATGG
1 TTTTTGAATTAAAAAATATATTAAATGT-AAAATATGG
* * *
88336848 TTTTTTAA-TAAAAATTATTTTAAA-GATAAAATATG
1 TTTTTGAATTAAAAAATATATTAAATG-TAAAATATG
88336883 AAATTGGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 9 0.29
37 15 0.48
38 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (37 bp):
TTTTTGAATTAAAAAATATATTAAATGTAAAATATGG
Found at i:88337536 original size:9 final size:9
Alignment explanation
Indices: 88337522--88337558 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
88337512 TATAGTTTAA
88337522 TATTCGAAT
1 TATTCGAAT
88337531 TATTCGAAT
1 TATTCGAAT
*
88337540 TATTCGAGT
1 TATTCGAAT
88337549 TATTCGAAT
1 TATTCGAAT
88337558 T
1 T
88337559 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:88347793 original size:17 final size:17
Alignment explanation
Indices: 88347771--88347803 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88347761 CACACTACAC
*
88347771 CATACGGCCATGTCTTG
1 CATACGACCATGTCTTG
88347788 CATACGACCATGTCTT
1 CATACGACCATGTCTT
88347804 CATCGAACAC
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:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (17 bp):
CATACGACCATGTCTTG
Found at i:88357042 original size:24 final size:24
Alignment explanation
Indices: 88356948--88357045 Score: 74
Period size: 24 Copynumber: 4.0 Consensus size: 24
88356938 AGTTACCCAT
*
88356948 TAAGCTCGCATGAGCTTTCTGATT-
1 TAAGCTCACATGAGCTTTCTG-TTA
** *
88356972 TAAGCTCTTATGAGCTTTTTGTTA
1 TAAGCTCACATGAGCTTTCTGTTA
* * * *
88356996 TTAAGCCCGA-ATAATCTTCCTGTTA
1 -TAAGCTC-ACATGAGCTTTCTGTTA
*
88357021 CAAGCTCACATGAGCTTTCTGTTA
1 TAAGCTCACATGAGCTTTCTGTTA
88357045 T
1 T
88357046 TTGGTTTGGA
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
23 3 0.05
24 35 0.64
25 17 0.31
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (24 bp):
TAAGCTCACATGAGCTTTCTGTTA
Found at i:88359110 original size:44 final size:45
Alignment explanation
Indices: 88359015--88359129 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
88359005 ACAGGACAGA
* *
88359015 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAG
* * *
88359061 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
* **
88359105 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
88359130 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
Found at i:88361391 original size:25 final size:25
Alignment explanation
Indices: 88361357--88361407 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
88361347 TTGAATATGG
88361357 ACACCCGTTTGTCGAGATACATTCT
1 ACACCCGTTTGTCGAGATACATTCT
88361382 ACACCCGTTTGTCGAGATACATTCT
1 ACACCCGTTTGTCGAGATACATTCT
88361407 A
1 A
88361408 GAATTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (25 bp):
ACACCCGTTTGTCGAGATACATTCT
Found at i:88362875 original size:22 final size:22
Alignment explanation
Indices: 88362847--88362913 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
88362837 GATAATTTTC
88362847 AAAATTTCAAAATATTTATAAA
1 AAAATTTCAAAATATTTATAAA
88362869 AAAATTTCAAAATATTTATAAA
1 AAAATTTCAAAATATTTATAAA
*
88362891 AAATTTTCAAAAT-TTTATAAA
1 AAAATTTCAAAATATTTATAAA
88362912 AA
1 AA
88362914 TTATAAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 10 0.23
22 34 0.77
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATTTCAAAATATTTATAAA
Found at i:88362917 original size:9 final size:9
Alignment explanation
Indices: 88362905--88362986 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 9
88362895 TTTCAAAATT
88362905 TTATAAAAA
1 TTATAAAAA
88362914 TTATAAAAA
1 TTATAAAAA
88362923 -TATCAAAAA
1 TTAT-AAAAA
*
88362932 CTA-AAAAGCA
1 TTATAAAA--A
88362942 TTATACAAAA
1 TTATA-AAAA
* *
88362952 TTCTGAAAA
1 TTATAAAAA
88362961 TTATATAAAA
1 TTATA-AAAA
* *
88362971 ATGTAAAAA
1 TTATAAAAA
88362980 TTA-AAAA
1 TTATAAAA
88362987 TTAAAAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
8 11 0.19
9 26 0.46
10 16 0.28
11 1 0.02
12 3 0.05
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (9 bp):
TTATAAAAA
Found at i:88362961 original size:58 final size:55
Alignment explanation
Indices: 88362884--88362993 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 55
88362874 TTCAAAATAT
* *
88362884 TTATAAAAAATTTTCAAAATTTTATAAAAATTATAAAAATATCAAAAACTAAAAAGCA
1 TTATAAAAAATTCTCAAAATTATATAAAAA-TATAAAAAT-T-AAAAACTAAAAAGCA
* * * *
88362942 TTATACAAAATTCTGAAAATTATATAAAAATGTAAAAATTAAAAATTAAAAA
1 TTATAAAAAATTCTCAAAATTATATAAAAATATAAAAATTAAAAACTAAAAA
88362994 TTAAAATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 11 0.24
56 1 0.02
57 8 0.17
58 26 0.57
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (55 bp):
TTATAAAAAATTCTCAAAATTATATAAAAATATAAAAATTAAAAACTAAAAAGCA
Found at i:88363000 original size:6 final size:7
Alignment explanation
Indices: 88362966--88362999 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
88362956 GAAAATTATA
88362966 TAAAAAT
1 TAAAAAT
88362973 GTAAAAAT
1 -TAAAAAT
88362981 TAAAAAT
1 TAAAAAT
88362988 TAAAAAT
1 TAAAAAT
88362995 TAAAA
1 TAAAA
88363000 TATATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:88370388 original size:28 final size:29
Alignment explanation
Indices: 88370357--88370419 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
88370347 TTAAATTAAA
*
88370357 AAATTTTAAAAATAATTTTATATA-TTTT
1 AAATTTTAAAAATAATTTTATAAATTTTT
*** *
88370385 AAATTTTTTTAATAATTTTTTAAATTTTT
1 AAATTTTAAAAATAATTTTATAAATTTTT
88370414 AAATTT
1 AAATTT
88370420 AATTAATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
AAATTTTAAAAATAATTTTATAAATTTTT
Found at i:88370425 original size:29 final size:29
Alignment explanation
Indices: 88370332--88370426 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
88370322 ACATGATAGC
***
88370332 AATTAATTAATTTTTTTAAATTAAAAAATTTT
1 AATTAA-TAA-TTTTTTAAATTTTTAAA-TTT
* * *
88370364 AA-AAATAATTTTATATA-TTTTAAATTT
1 AATTAATAATTTTTTAAATTTTTAAATTT
**
88370391 TTTTAATAATTTTTTAAATTTTTAAATTT
1 AATTAATAATTTTTTAAATTTTTAAATTT
88370420 AATTAAT
1 AATTAAT
88370427 TGTTGACGTG
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
27 3 0.06
28 16 0.33
29 22 0.46
30 3 0.06
31 2 0.04
32 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTAATAATTTTTTAAATTTTTAAATTT
Found at i:88375788 original size:26 final size:26
Alignment explanation
Indices: 88375759--88375820 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
88375749 AACTAATAAT
88375759 AAAAACTAATTTTAAATTAAGCTTTA
1 AAAAACTAATTTTAAATTAAGCTTTA
88375785 AAAAACTAATTTTAAATTAAGCTTTA
1 AAAAACTAATTTTAAATTAAGCTTTA
**
88375811 TTAAACTAAT
1 AAAAACTAAT
88375821 AATTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (26 bp):
AAAAACTAATTTTAAATTAAGCTTTA
Found at i:88382355 original size:28 final size:28
Alignment explanation
Indices: 88382319--88382375 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
88382309 CATACATAAA
88382319 TCCACTGATATCTTGAAAAATTTGAATC
1 TCCACTGATATCTTGAAAAATTTGAATC
*
88382347 TCCACTGATATCTTGAAATATTTGAATC
1 TCCACTGATATCTTGAAAAATTTGAATC
88382375 T
1 T
88382376 TGTGATTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (28 bp):
TCCACTGATATCTTGAAAAATTTGAATC
Found at i:88384088 original size:27 final size:29
Alignment explanation
Indices: 88384040--88384096 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
88384030 ACATCTATTA
* *
88384040 ACCAAAATTAATAATTACAATATT-TTTT
1 ACCAAAATTAAAAACTACAATATTATTTT
*
88384068 ACCAAATTTAAAAACTA-AATATTATTTT
1 ACCAAAATTAAAAACTACAATATTATTTT
88384096 A
1 A
88384097 TCCTAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (29 bp):
ACCAAAATTAAAAACTACAATATTATTTT
Found at i:88387020 original size:17 final size:19
Alignment explanation
Indices: 88386978--88387021 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
88386968 ACGAAATTTT
*
88386978 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
88386997 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
88387015 AA-TATTA
1 AATTATTA
88387022 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:88391866 original size:35 final size:35
Alignment explanation
Indices: 88391805--88391962 Score: 210
Period size: 35 Copynumber: 4.5 Consensus size: 35
88391795 TCTGTTTTGT
88391805 TGTGTTTCGGATGGA-TAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
88391839 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
* ** *
88391874 TGTGTTCCAAATTGATTAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
* ** **
88391909 TGTGTTCCAAATGGATTAGCTCTTATGAGCATCTAA
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCAT-TGG
*
88391945 TGTGTTTCGGTTGGATTA
1 TGTGTTTCGGATGGATTA
88391963 TCGATGTACT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
34 15 0.14
35 81 0.73
36 15 0.14
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (35 bp):
TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
Found at i:88400102 original size:45 final size:45
Alignment explanation
Indices: 88400021--88400148 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 45
88400011 TATCGTACGG
* * *
88400021 TACTATTCGGGCCTTTGAG-CTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
88400065 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
88400110 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
88400149 GATGAATTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
42 10 0.13
43 18 0.23
44 23 0.29
45 26 0.33
46 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:88404994 original size:15 final size:15
Alignment explanation
Indices: 88404974--88405010 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
88404964 AAAATTTTTA
88404974 ATTATTATGGAATTT
1 ATTATTATGGAATTT
*
88404989 ATTATTATGTAATTT
1 ATTATTATGGAATTT
88405004 ATT-TTAT
1 ATTATTAT
88405011 TTTTGTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
ATTATTATGGAATTT
Found at i:88408828 original size:43 final size:44
Alignment explanation
Indices: 88408717--88408828 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 44
88408707 AATGCAAACG
* * *
88408717 TCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTA
* *
88408760 TCCCAGATAGGGTCTTACACG-AAATCAAATA-CGATGCCGA-TA
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCC-ACTA
*
88408802 TTCCAGACATGGTCTTACACGTAAATC
1 TCCCAGACATGGTCTTACACGTAAATC
88408829 TCAAATCGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTA
Found at i:88416464 original size:44 final size:41
Alignment explanation
Indices: 88416320--88416484 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
88416310 AGCTCATACA
* * *** *
88416320 ATGCCAACGTCCCAGACGTGGTCTTATGTGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATC-AA-ATCG
* * * *
88416363 ATGCCACTGTCCCAGACAAGGTCTTATACGAAATCAAATGTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* *
88416405 ATGCCGATGTCCCAGACATGGTCTTACACTTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAA--TCAAATCG
*
88416449 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
88416485 CATATCAGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 5 0.05
42 28 0.28
43 34 0.34
44 28 0.28
45 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:88417764 original size:21 final size:20
Alignment explanation
Indices: 88417721--88417765 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
88417711 TCTTTTTCTA
*
88417721 ACATCAGAGGCATCGTTGCG
1 ACATCAGAGGCATCGTCGCG
88417741 ACATCAGATGGCCA-CGTCGCG
1 ACATCAGA-GG-CATCGTCGCG
88417762 ACAT
1 ACAT
88417766 GTAGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 12 0.55
22 2 0.09
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.18
Consensus pattern (20 bp):
ACATCAGAGGCATCGTCGCG
Found at i:88420201 original size:18 final size:17
Alignment explanation
Indices: 88420180--88420214 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88420170 AACAAGCAAC
*
88420180 TAAATAACAATAAATAAA
1 TAAATAAAAAT-AATAAA
88420198 TAAATAAAAATAATAAA
1 TAAATAAAAATAATAAA
88420215 AGGAAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAATAAAAATAATAAA
Found at i:88421328 original size:20 final size:21
Alignment explanation
Indices: 88421295--88421334 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
88421285 TGACCATTAA
**
88421295 ATAAATAATTTTAA-ATGGTT
1 ATAAATAAGGTTAATATGGTT
88421315 ATAAATAAGGTTAATATGGT
1 ATAAATAAGGTTAATATGGT
88421335 AAATAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (21 bp):
ATAAATAAGGTTAATATGGTT
Found at i:88422333 original size:42 final size:42
Alignment explanation
Indices: 88422227--88422350 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 42
88422217 TCGATGTGTG
*
88422227 ATTTCGTGTAAGACCAC-GTCTGGAACGTTGACATCGATTTGAT
1 ATTTCGTGTAAGACC-CTGTCTGG-ACATTGACATCGATTTGAT
* *
88422270 ATTTACGTGTAAGACCATGTCTAGGACATTGACATTGTATTT-A-
1 ATTT-CGTGTAAGACCCTGTCT-GGACATTGACATCG-ATTTGAT
* *
88422313 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATTTCGTGTAAGACCCTGTCT-GGACATTGACATCGAT
88422351 ATTTGATTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
41 2 0.03
42 27 0.39
43 8 0.12
44 26 0.38
45 6 0.09
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
ATTTCGTGTAAGACCCTGTCTGGACATTGACATCGATTTGAT
Found at i:88422368 original size:43 final size:42
Alignment explanation
Indices: 88422231--88422371 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 42
88422221 TGTGTGATTT
*
88422231 CGTGTAAGACCACGTCT-GGA-ACGTTGACATCG-ATTTGATATTTA
1 CGTGTAAGACCATGTCTAGGACA-G-TGACATCGTATTT-A-A-TTA
* * *
88422275 CGTGTAAGACCATGTCTAGGACATTGACATTGTATTTAATTT
1 CGTGTAAGACCATGTCTAGGACAGTGACATCGTATTTAATTA
* * * *
88422317 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTAGGACAGTGACATCG-TATTTAATTA
*
88422360 CATGTAAGACCA
1 CGTGTAAGACCA
88422372 CGTTTGGGAC
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.36
43 19 0.24
44 24 0.30
45 7 0.09
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTAGGACAGTGACATCGTATTTAATTA
Found at i:88441210 original size:21 final size:22
Alignment explanation
Indices: 88441176--88441224 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
88441166 ATTGACCCCT
* *
88441176 GTTTAGTAGAAAAATTTTCAAA
1 GTTTTGTAGAAAAATTTTAAAA
88441198 GTTTTGTA-AAAAATTTTAAAA
1 GTTTTGTAGAAAAATTTTAAAA
*
88441219 TTTTTG
1 GTTTTG
88441225 ATTTAGTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (22 bp):
GTTTTGTAGAAAAATTTTAAAA
Found at i:88442580 original size:90 final size:90
Alignment explanation
Indices: 88442360--88442581 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 90
88442350 CATGTTCTAG
* * * *
88442360 TAATACA-AAGATTGATAGTTCAAGTATAACATTAAACATTTTTAAAGTATAAGTACTACATTGG
1 TAATACACAA-ATGGATAGTTCAAGTACAACATTAAATA-TTTCAAAGTATAAGTACTACATTGG
* *
88442424 ATATTTTATGAAAGTATAAGTACCAAA
64 ACATTTTATGAAAGTACAAGTACCAAA
** * ** * *
88442451 TAATACACAAATTAATAGTTCAAGTACTACATTGGATATTTCAAAGTATAGGT-GTCACATTGGA
1 TAATACACAAATGGATAGTTCAAGTACAACATTAAATATTTCAAAGTATAAGTACT-ACATTGGA
* *
88442515 CATTTTATGAAAGTACAATTATCAAA
65 CATTTTATGAAAGTACAAGTACCAAA
* * *
88442541 TAATATACAAATGGATAGTTCAAATACAATATTAAATATTT
1 TAATACACAAATGGATAGTTCAAGTACAACATTAAATATTT
88442582 TATAAAAGTA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 76 0.70
91 29 0.27
92 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (90 bp):
TAATACACAAATGGATAGTTCAAGTACAACATTAAATATTTCAAAGTATAAGTACTACATTGGAC
ATTTTATGAAAGTACAAGTACCAAA
Found at i:88455232 original size:28 final size:28
Alignment explanation
Indices: 88455169--88455263 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
88455159 ATATTAAGTC
*
88455169 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
88455196 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
88455224 CGCACACTTAGTACTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88455253 CGCACACTTAG
1 CGCACACTTAG
88455264 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.37
28 22 0.37
29 16 0.27
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:88463283 original size:26 final size:27
Alignment explanation
Indices: 88463238--88463306 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 27
88463228 ATATTAAGTC
88463238 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACT-AGTGCTATATAATCAAACT
88463265 CGCACACTAGTGCTATATAATCAAACT
1 CGCACACTAGTGCTATATAATCAAACT
88463292 CGCACACTTAGTGCT
1 CGCACAC-TAGTGCT
88463307 GTACAATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 14 0.35
27 19 0.47
28 7 0.17
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTAGTGCTATATAATCAAACT
Found at i:88463326 original size:29 final size:28
Alignment explanation
Indices: 88463237--88463331 Score: 104
Period size: 27 Copynumber: 3.4 Consensus size: 28
88463227 TATATTAAGT
* *
88463237 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
88463264 TCGCACAC-TAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
88463291 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
88463320 CCGCACACTTAG
1 CCGCACACTTAG
88463332 CGCCAATCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 14 0.24
27 18 0.31
28 11 0.19
29 16 0.27
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:88481885 original size:17 final size:17
Alignment explanation
Indices: 88481839--88481885 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
88481829 TTTGAGTCAA
*
88481839 TTTA-TTTTACTTTGTT
1 TTTATTTTTATTTTGTT
* **
88481855 TTTCTTTTCCTTTTGTT
1 TTTATTTTTATTTTGTT
88481872 TTTATTTTTATTTT
1 TTTATTTTTATTTT
88481886 AATTTCATGT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTGTT
Found at i:88488835 original size:34 final size:34
Alignment explanation
Indices: 88488787--88488860 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
88488777 TAACAAACTT
* *
88488787 TAACAAACTCAGCTTCCTACTCCTACTAATAAGC
1 TAACAAACTCAGCTTCCTACTACTACTAACAAGC
* * *
88488821 TAACAAACTTAGCTTCTTTCTACTACTAACAAGC
1 TAACAAACTCAGCTTCCTACTACTACTAACAAGC
88488855 TAACAA
1 TAACAA
88488861 TCTCCCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.28
Consensus pattern (34 bp):
TAACAAACTCAGCTTCCTACTACTACTAACAAGC
Found at i:88491087 original size:76 final size:76
Alignment explanation
Indices: 88490993--88491140 Score: 206
Period size: 76 Copynumber: 1.9 Consensus size: 76
88490983 TCTATTCCTA
* *
88490993 AGTGTGCCCTCTAGATATAATTCATTTTGGACTATATAATAAACTCCTCAATTTCATTATGACCA
1 AGTGTGCCCTCAAAATATAATTCATTTTGGACTATATAATAAACTCCTCAATTTCATTATGACCA
88491058 ATCACTTCTTG
66 ATCACTTCTTG
* * * * * ** *
88491069 AGTGTGTCCTCAAAATATAATTCTTTTTGGAGTGTGTAATAAACTTTTCAATTTCATTATGGCCA
1 AGTGTGCCCTCAAAATATAATTCATTTTGGACTATATAATAAACTCCTCAATTTCATTATGACCA
88491134 ATCACTT
66 ATCACTT
88491141 AACTAAAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (76 bp):
AGTGTGCCCTCAAAATATAATTCATTTTGGACTATATAATAAACTCCTCAATTTCATTATGACCA
ATCACTTCTTG
Found at i:88494102 original size:3 final size:3
Alignment explanation
Indices: 88494094--88494133 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
88494084 ACATAATACA
* * *
88494094 AAT AAT AAT AAT AAT AAT AAT AAT AAC CAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
88494134 GGAACAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:88496064 original size:96 final size:96
Alignment explanation
Indices: 88495960--88496138 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
88495950 ATTTTCTATA
** ***
88495960 TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGGTTCGTGACTTACAGCTTCAATCTACTCCA
1 TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCCCAACTTACAGCTTCAATCTACTCCA
*
88496025 CTGCAACTTCAGGGAGATGAAATTCCCTACC
66 CTGCAACTTCAGGAAGATGAAATTCCCTACC
*** ** ** *
88496056 TTCAGTCTGCTTTGCTGTAACTTCAGGGAGATAAGACTCCCAACTTGTAGCTTCAATTTACTCCA
1 TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCCCAACTTACAGCTTCAATCTACTCCA
*
88496121 CTGCAACTTTAGGAAGAT
66 CTGCAACTTCAGGAAGAT
88496139 AAGATTCACT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (96 bp):
TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCCCAACTTACAGCTTCAATCTACTCCA
CTGCAACTTCAGGAAGATGAAATTCCCTACC
Found at i:88496175 original size:54 final size:54
Alignment explanation
Indices: 88496100--88496204 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
88496090 GACTCCCAAC
* * *
88496100 TTGTAGCTTCAATTTACTCCACTGCAACTTTA-GGAAGATAAGATTCACTATAAT
1 TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAA-ATAAGATTCACTATAAT
* * *
88496154 TTGTAGCTTTAATATATTCCACTGCAACGTCAGGGAAATAAGATTCGCTAT
1 TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAAATAAGATTCACTAT
88496205 CTTCGATCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 40 0.91
55 4 0.09
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (54 bp):
TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAAATAAGATTCACTATAAT
Found at i:88496393 original size:44 final size:44
Alignment explanation
Indices: 88496323--88496416 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
88496313 GACTTTAGGA
*
88496323 AGATAAGGCTTATAACTTCAACCTGCTCTACTGCAACTTCAGAG
1 AGATAAGGCTTATAACTTCAACCTGCTCTACTACAACTTCAGAG
** * * *
88496367 AGATAAGGCTTATAGTTTTAATCTGCTCTATTACAACTTCAGAG
1 AGATAAGGCTTATAACTTCAACCTGCTCTACTACAACTTCAGAG
88496411 AGATAA
1 AGATAA
88496417 AATCTGTGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (44 bp):
AGATAAGGCTTATAACTTCAACCTGCTCTACTACAACTTCAGAG
Done.