Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 30 of 207
Found at i:8788944 original size:18 final size:18
Alignment explanation
Indices: 8788921--8788964 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8788911 AATTTTTATG
*
8788921 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
8788939 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
8788957 CTTGGGTT
1 ATTGGGTT
8788965 TGGATTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:8789343 original size:15 final size:15
Alignment explanation
Indices: 8789323--8789354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8789313 CATTTCACTA
*
8789323 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
8789338 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
8789353 TT
1 TT
8789355 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:8798377 original size:11 final size:11
Alignment explanation
Indices: 8798361--8798385 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8798351 AAAACCATAA
8798361 ATAAATCAATC
1 ATAAATCAATC
8798372 ATAAATCAATC
1 ATAAATCAATC
8798383 ATA
1 ATA
8798386 GTTAACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATCAATC
Found at i:8798774 original size:85 final size:85
Alignment explanation
Indices: 8798670--8798949 Score: 352
Period size: 85 Copynumber: 3.3 Consensus size: 85
8798660 CAGCGTTTAC
* * *
8798670 GAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGATC
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGATC
* *
8798735 ATGTTTTTTAGCGGGGCTTA
66 ATGTTCTTTAGCGGCGCTTA
* * * *
8798755 GAAAAAAAATGCCGCTAAAGAACATGATCTTTAGCGGTGA-TTAGAAAAAAACGCCGCTAAAGAT
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGG-CACTTAGAAAAAAACGCCGCTAAAGAT
8798819 CATGTTCTTTAGCGGCGCTTA
65 CATGTTCTTTAGCGGCGCTTA
* * *
8798840 -AAAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GAAGAAAAACGCCGCAAAAGA
1 GAAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAA-AAAAACGCCGCTAAAGA
*
8798903 TCATGTTCTTTAGCGGCACTT-
64 TCATGTTCTTTAGCGGCGCTTA
* * * *
8798924 GATAAAAAACTCCGCTATAGAACATG
1 GAAAAAAAACGCCGCTAAAGATCATG
8798950 ACTTTTAGCG
Statistics
Matches: 168, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
84 24 0.14
85 143 0.85
86 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (85 bp):
GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGATC
ATGTTCTTTAGCGGCGCTTA
Found at i:8798775 original size:43 final size:43
Alignment explanation
Indices: 8798670--8799008 Score: 350
Period size: 42 Copynumber: 8.0 Consensus size: 43
8798660 CAGCGTTTAC
* * *
8798670 GAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTA
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * *
8798713 G-AAAAAAATGCCGCTAAAGATCATGTTTTTTAGCGGGGCTTA
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * * *
8798755 GAAAAAAAATGCCGCTAAAGAACATGATCTTTAGCGGTGATTA
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
8798798 G-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
8798840 -AAAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTT-
1 GAAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * *
8798882 GAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCACTT-
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * * * * *
8798924 GATAAAAAACTCCGCTATAGAACATG-ACTTTTAGCGACGCTTT
1 GAAAAAAAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTA
**** * *
8798967 CTTCACAAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCGCTT
1 GAAAAAAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTT
8799009 TCATCACAAA
Statistics
Matches: 249, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.00
42 140 0.56
43 103 0.41
44 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (43 bp):
GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:8798931 original size:127 final size:127
Alignment explanation
Indices: 8798670--8798949 Score: 359
Period size: 127 Copynumber: 2.2 Consensus size: 127
8798660 CAGCGTTTAC
* * *
8798670 GAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGATC
1 GAAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAAAAAAAAACGCCGCTAAAGATC
* * * * *
8798735 ATGTTTTTTAGCGGGGCTTAGAAAAAAAATGCCGCTAAAGAACATGATCTTTAGCGGTGATTA
65 ATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCAAAAGAACATGATCTTTAGCGGTCATTA
* *
8798798 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAGACGTCGCTAAAGATC
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAAAAAAAA-ACGCCGCTAAAGATC
* * *
8798863 ATGTTCTTTAGCGGCGCTT-GAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCGG-CACTT-
65 ATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCAAAAGAACATGATCTTTAGCGGTCA-TTA
* * *
8798924 GATAAAAAACTCCGCTATAGAACATG
1 GA-AAAAAACGCCGCTAAAGATCATG
8798950 ACTTTTAGCG
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
126 3 0.02
127 95 0.71
128 35 0.26
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (127 bp):
GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAAAAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCAAAAGAACATGATCTTTAGCGGTCATTA
Found at i:8798977 original size:85 final size:85
Alignment explanation
Indices: 8798699--8799052 Score: 299
Period size: 85 Copynumber: 4.2 Consensus size: 85
8798689 GGTCATGTTC
* ** * * * * *
8798699 TTTAGCGGCACTTAGAA-AAAAATGCCGCTAAAGATCATGTTTTTTAGCGGGGCTTAGAAAAAAA
1 TTTAGCGGCGCTTTCAACAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTA-ATAAAAA
* * *
8798763 ATGCCGCTAAAGAACATGA-T
65 ACGTCGCTATAGAACATGACT
* * ** * *
8798783 CTTTAGCGGTGATTAGAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAA
1 -TTTAGCGGCGCTTTCAACAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAA
* * *
8798847 GACGTCGCTAAAGATCATG-TT
65 -ACGTCGCTATAGAACATGACT
* * * *
8798868 CTTTAGCGGCGC-TTGAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCACTTGATAAAAA
1 -TTTAGCGGCGCTTTCAACAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAA
8798932 AC-TCCGCTATAGAACATGACT
65 ACGT-CGCTATAGAACATGACT
* ** * * * * *
8798953 TTTAGCGACGCTTTCTTCACAAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCGCTTTCATCACA
1 TTTAGCGGCGCTTTCAACAAAAACGCCGC-AAAAGATCATGTTCTTTAGCGGCGC-TTAATAAAA
*
8799017 AACGTTGCTATAGAACATGACT
64 AACGTCGCTATAGAACATGACT
8799039 TTTAGCGGCGCTTT
1 TTTAGCGGCGCTTT
8799053 TATAAAAAAT
Statistics
Matches: 228, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
83 1 0.00
84 35 0.15
85 147 0.64
86 44 0.19
87 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (85 bp):
TTTAGCGGCGCTTTCAACAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAA
CGTCGCTATAGAACATGACT
Found at i:8799040 original size:86 final size:85
Alignment explanation
Indices: 8798888--8799052 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
8798878 GCTTGAAGAA
* *
8798888 AAACGCCGCAAAAGATCATGTTCTTTAGCGGCACTTGATAAAAAACTCCGCTATAGAACATGACT
1 AAACGCCGCAAAAGATAATGTTCTTTAGCGGCACTTCATAAAAAACTCCGCTATAGAACATGACT
8798953 TTTAGCGACGCTTTCTTCAC
66 TTTAGCGACGCTTTCTTCAC
* * * *
8798973 AAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCGCTTTCATCACAAACGT-TGCTATAGAACATG
1 AAACGCCGC-AAAAGATAATGTTCTTTAGCGGCAC-TTCATAAAAAAC-TCCGCTATAGAACATG
*
8799036 ACTTTTAGCGGCGCTTT
63 ACTTTTAGCGACGCTTT
8799053 TATAAAAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 25 0.36
86 44 0.63
87 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (85 bp):
AAACGCCGCAAAAGATAATGTTCTTTAGCGGCACTTCATAAAAAACTCCGCTATAGAACATGACT
TTTAGCGACGCTTTCTTCAC
Found at i:8799043 original size:43 final size:43
Alignment explanation
Indices: 8798930--8799052 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
8798920 ACTTGATAAA
* * *
8798930 AAACTCCGCTATAGAACATGACTTTTAGCGACGCTTTCTTCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
* *
8798973 AAACGCCGCTAAAAGAA-ATG-TTCTTTAGCGGCGCTTTCATCAC
1 AAACGCCGCT-ATAGAACATGACT-TTTAGCGGCGCTTTCATCAC
**
8799016 AAACGTTGCTATAGAACATGACTTTTAGCGGCGCTTT
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTT
8799053 TATAAAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 6 0.09
43 55 0.82
44 6 0.09
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
Found at i:8799462 original size:21 final size:21
Alignment explanation
Indices: 8799438--8799509 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
8799428 TTCTTTTGAA
*
8799438 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
8799459 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
8799480 CCTTTGCTTCCCTCGCTG-ACG
1 CCTCTGCTTCTCTCGCTGCA-G
8799501 CCTCTGCTT
1 CCTCTGCTT
8799510 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:8802291 original size:25 final size:25
Alignment explanation
Indices: 8802257--8802348 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 25
8802247 TGGAACAACT
8802257 TGTAAGTTATGTATTAAGTAAATTA
1 TGTAAGTTATGTATTAAGTAAATTA
*
8802282 TGTAAGTTATGTATATATTA-TAAAAGATA
1 TGTAAGTTATGTAT-TA--AGT-AAA-TTA
* *
8802311 TGTAAGTTATGTATTATGTAAGTTA
1 TGTAAGTTATGTATTAAGTAAATTA
* *
8802336 TATAAGCTATGTA
1 TGTAAGTTATGTA
8802349 AGTTATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 27 0.49
26 4 0.07
27 2 0.04
28 6 0.11
29 16 0.29
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (25 bp):
TGTAAGTTATGTATTAAGTAAATTA
Found at i:8802412 original size:25 final size:25
Alignment explanation
Indices: 8802384--8802440 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
8802374 TATATGTTGA
*
8802384 TTATGTATTAAGTAAATTAGGTAAG
1 TTATGTATTAAGTAAATTAGATAAG
* * *
8802409 TTATGTATTATGTAAGTTATATAAG
1 TTATGTATTAAGTAAATTAGATAAG
8802434 TTATGTA
1 TTATGTA
8802441 AGTTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTAGATAAG
Found at i:8802501 original size:9 final size:9
Alignment explanation
Indices: 8802257--8802464 Score: 110
Period size: 9 Copynumber: 23.1 Consensus size: 9
8802247 TGGAACAACT
8802257 TGTAAGTTA
1 TGTAAGTTA
8802266 TGT-A-TTA
1 TGTAAGTTA
* *
8802273 AGTAAATTA
1 TGTAAGTTA
8802282 TGTAAGTTA
1 TGTAAGTTA
*
8802291 TGTATATATTA
1 TGTA-A-GTTA
** *
8802302 TAAAAGATA
1 TGTAAGTTA
8802311 TGTAAGTTA
1 TGTAAGTTA
8802320 TGT-A-TTA
1 TGTAAGTTA
8802327 TGTAAGTTA
1 TGTAAGTTA
* *
8802336 TATAAGCTA
1 TGTAAGTTA
8802345 TGTAAGTTATTA
1 TGTAAG---TTA
8802357 TGTAAGTTAA
1 TGTAAGTT-A
* *
8802367 TATATAATATA
1 TGTA-AGT-TA
*
8802378 TGT-TGATTA
1 TGTAAG-TTA
8802387 TGT-A-TTA
1 TGTAAGTTA
* *
8802394 AGTAAATTA
1 TGTAAGTTA
*
8802403 GGTAAGTTA
1 TGTAAGTTA
8802412 TGT-A-TTA
1 TGTAAGTTA
8802419 TGTAAGTTA
1 TGTAAGTTA
*
8802428 TATAAGTTA
1 TGTAAGTTA
8802437 TGTAAGTTA
1 TGTAAGTTA
* *
8802446 TATAAGCTA
1 TGTAAGTTA
*
8802455 CGTAAGTTA
1 TGTAAGTTA
8802464 T
1 T
8802465 TATGTAAGTC
Statistics
Matches: 149, Mismatches: 33, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
7 22 0.15
8 7 0.05
9 94 0.63
10 7 0.05
11 10 0.07
12 9 0.06
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:8802503 original size:110 final size:113
Alignment explanation
Indices: 8802308--8802556 Score: 266
Period size: 110 Copynumber: 2.3 Consensus size: 113
8802298 ATTATAAAAG
* *
8802308 ATATGTAAGTTATGT-A-TTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTTAATATA
1 ATATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAATATA
* * * * *
8802371 TAATATATGTTGATTATGTATTA-A-GTAAATTAGGTAAGTTATGTAT
66 GAATATATCTTGATTAAGTATTATAGGTAAATTAGGAAAGTTATATAT
* *
8802417 -TATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAG-TCATGTA
1 ATATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAATATA
** * * *
8802480 GGCTATGTCTT-ATGTAAGTTATTATAGGTAAGTTATGAAAGTTATATAT
66 GAATATATCTTGAT-TAAG-TATTATAGGTAAATTAGGAAAGTTATATAT
* *
8802529 AAAT-TTA--TATATAAGTTATGTAAGTTAT
1 ATATGTAAGTTATATAAGTTATGTAAGTTAT
8802557 TATGTAAGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
108 15 0.13
109 15 0.13
110 64 0.55
111 1 0.01
112 20 0.17
113 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (113 bp):
ATATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAATATA
GAATATATCTTGATTAAGTATTATAGGTAAATTAGGAAAGTTATATAT
Found at i:8802618 original size:13 final size:13
Alignment explanation
Indices: 8802545--8802674 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 13
8802535 ATATATAAGT
8802545 TATGTAAGTTAT-
1 TATGTAAGTTATG
8802557 TATGTAAGTTAACTG
1 TATGTAAGTT-A-TG
*
8802572 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
8802585 TATATAAATT-T-
1 TATGTAAGTTATG
* *
8802596 AATTTAAGTTATG
1 TATGTAAGTTATG
8802609 TATGTAAGTTATCTG
1 TATGTAAGTTA--TG
*
8802624 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
8802637 TATATAAATT-T-
1 TATGTAAGTTATG
* *
8802648 AATTTAAGTTATG
1 TATGTAAGTTATG
8802661 TATGTAAGTTATG
1 TATGTAAGTTATG
8802674 T
1 T
8802675 CAGTTGTGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
11 14 0.16
12 28 0.31
13 26 0.29
14 1 0.01
15 2 0.02
16 18 0.20
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (13 bp):
TATGTAAGTTATG
Found at i:8802625 original size:52 final size:52
Alignment explanation
Indices: 8802549--8802672 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
8802539 ATAAGTTATG
*
8802549 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
8802600 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
8802652 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
8802673 GTCAGTTGTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 8 0.11
52 63 0.89
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:8802638 original size:28 final size:29
Alignment explanation
Indices: 8802547--8802639 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 29
8802537 ATATAAGTTA
*
8802547 TGTAAGTTAT-TATGTAAGTTAACTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
* **
8802575 TGTAAGTT-TGTATATAA---AT-T-TAA
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
*
8802598 TTTAAGTTATGTATGTAAGTTATCTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
8802627 TGTAAGTT-TGTAT
1 TGTAAGTTATGTAT
8802640 ATAAATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 8 0.16
24 9 0.18
25 1 0.02
27 3 0.06
28 20 0.41
29 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.49
Consensus pattern (29 bp):
TGTAAGTTATGTATGTAAGTTATCTGTTG
Found at i:8802679 original size:9 final size:9
Alignment explanation
Indices: 8802661--8802741 Score: 71
Period size: 9 Copynumber: 9.4 Consensus size: 9
8802651 TTAAGTTATG
8802661 TATGTAAGT
1 TATGTAAGT
*
8802670 TATGTCAGT
1 TATGTAAGT
*
8802679 TGTGT-A-T
1 TATGTAAGT
*
8802686 AATGTAAGT
1 TATGTAAGT
* *
8802695 TATGAAATT
1 TATGTAAGT
8802704 TATGT-A-T
1 TATGTAAGT
8802711 TATGTAAGT
1 TATGTAAGT
*
8802720 TATTTAAGT
1 TATGTAAGT
*
8802729 TATTTAAGT
1 TATGTAAGT
8802738 TATG
1 TATG
8802742 AAATATAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 10 0.17
8 4 0.07
9 44 0.76
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TATGTAAGT
Found at i:8802695 original size:25 final size:25
Alignment explanation
Indices: 8802662--8802731 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
8802652 TAAGTTATGT
** *
8802662 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
8802687 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
8802712 ATGTAAGTTATTTAAGTTAT
1 ATGTAAGTTATGAAAGTTAT
8802732 TTAAGTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:8802914 original size:28 final size:27
Alignment explanation
Indices: 8802886--8802961 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 27
8802876 TTATATGTTA
8802886 AAAATATATATATTAATACGTTAAATT
1 AAAATATATATATTAATACGTTAAATT
* *
8802913 AAATTTTAATATATTAATACGTTAAATT
1 AAAATAT-ATATATTAATACGTTAAATT
*
8802941 ---ATATATATATTAATACATTAA
1 AAAATATATATATTAATACGTTAA
8802962 GTAACTACCG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.37
25 2 0.05
27 5 0.12
28 20 0.47
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (27 bp):
AAAATATATATATTAATACGTTAAATT
Found at i:8803046 original size:33 final size:28
Alignment explanation
Indices: 8803026--8803086 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
8803016 TGTTATAAAT
* *
8803026 ATATATTGATACGTTAAATTAAATTTTA
1 ATATATTAATACGTTAAATTATATTTTA
8803054 ATATATTAATACGTTAAATTATATATATTA
1 ATATATTAATACGTTAAATTATAT-T-TTA
8803084 ATA
1 ATA
8803087 CGTTAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.76
29 1 0.03
30 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATATTAATACGTTAAATTATATTTTA
Found at i:8803082 original size:22 final size:23
Alignment explanation
Indices: 8803044--8803092 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
8803034 ATACGTTAAA
*
8803044 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
8803067 TTAAATTAT-ATATATTAATACG
1 TTAAATTATAATATATTAATACG
8803089 TTAA
1 TTAA
8803093 GTAACTACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:8803162 original size:120 final size:119
Alignment explanation
Indices: 8803000--8803353 Score: 551
Period size: 120 Copynumber: 3.0 Consensus size: 119
8802990 TAAATAGCTT
* * *
8803000 ATATATTAAA-A--TTATATGTTATAAATATATAT-TGATACGTTAAATTAAATTTTAATATATT
1 ATATATTAAATAGCTTATATATTAAAAATATATATATAATACGTTAAATTAAATTTTAATATATT
8803061 AATACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTA
66 AATACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTA
8803115 ATATATTAAATAGCTTATATATTAAAAATATATATACTAATACGTTAAATTAAATTTTAATATAT
1 ATATATTAAATAGCTTATATATTAAAAATATATATA-TAATACGTTAAATTAAATTTTAATATAT
* *
8803180 TAATACGTTAAGTTATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTA
65 TAATACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTA
* *
8803235 ATATATTAAATAGCTTATATATTAAAAATATATCTATTACTACGTTAAATTAAATTTTAATATAT
1 ATATATTAAATAGCTTATATATTAAAAATATATATA-TAATACGTTAAATTAAATTTTAATATAT
* * *
8803300 TAATACGTTAAATTATAGATATCAATACGTTAAGT---TACCCAAATTAAGACTA
65 TAATACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTA
8803352 AT
1 AT
8803354 TCGAACATTT
Statistics
Matches: 221, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
115 10 0.05
116 1 0.00
117 18 0.08
118 19 0.09
120 173 0.78
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (119 bp):
ATATATTAAATAGCTTATATATTAAAAATATATATATAATACGTTAAATTAAATTTTAATATATT
AATACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTA
Found at i:8804963 original size:82 final size:83
Alignment explanation
Indices: 8804818--8805015 Score: 247
Period size: 83 Copynumber: 2.4 Consensus size: 83
8804808 TAATTACGGA
* ** *
8804818 GTTTT-CTTAAAAAACGCCACTATTAAATTATTTTCCAGTACAGAAACAGCGCCGCATA-GGGAA
1 GTTTTCCTT-AAAAACGCCACTATAAAATT-TTTTCCAACACAGAAACAGCGCCGCATACGGAAA
* *
8804881 ATTTAATTAATCATTGCGGC
64 AGTTAATCAATCATTGCGGC
* * * *
8804901 GTTTTCCTTAAAAATGCCACTATAAAATTTTTTCCAACACTGAAACGGCGCCGCATTCGGAAAAG
1 GTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATACGGAAAAG
8804966 TTAATCAATCATTGCGGC
66 TTAATCAATCATTGCGGC
* * *
8804984 GTTTCCCCTAAAAACGCCACTATCAAATTTTT
1 GTTTTCCTTAAAAACGCCACTATAAAATTTTT
8805016 ATTACTATTA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
82 23 0.23
83 73 0.74
84 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (83 bp):
GTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATACGGAAAAG
TTAATCAATCATTGCGGC
Found at i:8805835 original size:8 final size:7
Alignment explanation
Indices: 8805795--8805850 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
8805785 ACTAAAGCGG
8805795 CCTAAAC
1 CCTAAAC
*
8805802 CCCAAAC
1 CCTAAAC
8805809 CC-AAAC
1 CCTAAAC
*
8805815 CTTAAAC
1 CCTAAAC
8805822 CCTAAAC
1 CCTAAAC
8805829 TCCTAAAC
1 -CCTAAAC
*
8805837 CATAAAC
1 CCTAAAC
*
8805844 CCAAAAC
1 CCTAAAC
8805851 ACCAAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 5 0.12
7 29 0.71
8 7 0.17
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Found at i:8806860 original size:106 final size:106
Alignment explanation
Indices: 8806676--8806990 Score: 447
Period size: 107 Copynumber: 3.0 Consensus size: 106
8806666 ATTAAGATTC
* *
8806676 AAAAGGATATTTGGCTATTTAGTTCAACGAG-AAATTGAAACCCAGCACATTAGGGCACG-TTTC
1 AAAAGGATATTTGGCTATTT-GATCAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
* *
8806739 TTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATTTTT
65 -TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * *
8806781 AAAAGGTTATTTGGCTATTTGGTCAAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCAA-CGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
*
8806846 TCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAATTTT
65 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
*
8806888 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCATATTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATC-AACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
* * * * *
8806953 TCGAGTTTCCCAACGCTAAATATTGCCTTATTTAGAAA
65 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
8806991 AAATTCTTTT
Statistics
Matches: 188, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
104 5 0.03
105 23 0.12
106 41 0.22
107 117 0.62
108 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (106 bp):
AAAAGGATATTTGGCTATTTGATCAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:8807188 original size:24 final size:24
Alignment explanation
Indices: 8807142--8807190 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8807132 CATTTTAAAG
*
8807142 AATGAACATATAAATAAATAAATA
1 AATGAACATATAAATAAACAAATA
*
8807166 AATGAACAT-TAAGTAAAACAAATA
1 AATGAACATATAAAT-AAACAAATA
8807190 A
1 A
8807191 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (24 bp):
AATGAACATATAAATAAACAAATA
Found at i:8809690 original size:44 final size:45
Alignment explanation
Indices: 8809638--8809750 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 45
8809628 ATCTACTCTG
* *
8809638 CTGCAACTTCAGAGAGATAAGATATATT-ATTTCAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
* * * *
8809682 CTGCAACTTTAGGGAGATAGGAT-TATTGGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
*
8809726 CTGCAACCTCAGGGAGATAAGATAT
1 CTGCAACTTCAGGGAGATAAGATAT
8809751 GAGATTCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 4 0.07
44 53 0.91
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
Found at i:8810231 original size:14 final size:15
Alignment explanation
Indices: 8810212--8810241 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8810202 TATTTACGCA
8810212 TAAAGAAA-TTCCTC
1 TAAAGAAATTTCCTC
8810226 TAAAGAAATTTCCTC
1 TAAAGAAATTTCCTC
8810241 T
1 T
8810242 TATTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TAAAGAAATTTCCTC
Found at i:8821604 original size:106 final size:107
Alignment explanation
Indices: 8821415--8821732 Score: 446
Period size: 107 Copynumber: 3.0 Consensus size: 107
8821405 TGGATTAAGA
* *
8821415 TTTAAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAGCACATTAGGGCACG-
1 TTTAAAAGGATATTTGGCTATTT-GGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
8821477 TTTCTTCAAATTCCCAAACGC-AAACATTGCCTTATTTTGAATT
65 TTTC-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
* * * *
8821520 TTTAAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCATGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
*
8821585 TTCTCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
8821627 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
* * * * * *
8821692 TTCTCGAGTTTCCCAATGCTAAATATTGCCTTATTTAGAAA
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
8821733 AAATTCTTTT
Statistics
Matches: 188, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
104 3 0.02
105 27 0.14
106 39 0.21
107 119 0.63
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
Found at i:8821928 original size:24 final size:24
Alignment explanation
Indices: 8821882--8821930 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8821872 CATTTTAAAG
*
8821882 AATGAACATATAAATAAATAAATA
1 AATGAACATATAAATAAACAAATA
*
8821906 AATGAACAT-TAAGTAAAACAAATA
1 AATGAACATATAAAT-AAACAAATA
8821930 A
1 A
8821931 TAACAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (24 bp):
AATGAACATATAAATAAACAAATA
Found at i:8823951 original size:98 final size:99
Alignment explanation
Indices: 8823771--8823965 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 99
8823761 CTCACAAAGC
*
8823771 GCCGCTAATACTATGCGTTAGCGGTGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
*
8823836 CCAAACTCTGCGTTTT-GGTTAAGATATTTTGAG
66 CCAAACGCTGCGTTTTGGGTTAAGATATTTTGAG
* * * *
8823869 GCCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATA-CATCAAG
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGC-TCAAG
8823933 ACCAAAACGCTGCG-TTTGGGTTAAGATATTTTG
65 ACC-AAACGCTGCGTTTTGGGTTAAGATATTTTG
8823966 TGGCACTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
97 1 0.01
98 63 0.72
99 24 0.27
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (99 bp):
GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
CCAAACGCTGCGTTTTGGGTTAAGATATTTTGAG
Found at i:8824129 original size:115 final size:115
Alignment explanation
Indices: 8823870--8824348 Score: 669
Period size: 114 Copynumber: 4.2 Consensus size: 115
8823860 TATTTTGAGG
* * *
8823870 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * *
8823935 CAAAACGCTGCGTTTGGGTTAAGATATTTTGTGGCACTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* * *
8823985 CCGTTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
*
8824050 C-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* ** * *
8824099 CCGCTAATAGT-TGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * * *
8824163 CAAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* * *
8824213 CCGCTAATACTATGCATTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * *
8824278 C-AAACTCTGCGTTTTGGTTAATATATTTTGTGGCGCTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
*
8824327 CCGCTAATACT-TGTTTTAGCGG
1 CCGCTAATACTATGCTTTAGCGG
8824349 ACGATGTGTT
Statistics
Matches: 319, Mismatches: 43, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
113 57 0.18
114 155 0.49
115 107 0.34
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (115 bp):
CCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:8824279 original size:228 final size:228
Alignment explanation
Indices: 8823870--8824348 Score: 769
Period size: 228 Copynumber: 2.1 Consensus size: 228
8823860 TATTTTGAGG
*
8823870 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACT-TGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
* * * *
8823935 CAAAACGCTGCGTTTGGGTTAAGATATTTTGTGGCACTTTTCACAAAGCGCCGTTAATACTATGC
65 CAAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGC
* *
8824000 GTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTT
130 ATTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTT
8824065 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
195 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* **
8824099 CCGCTAATAGTTGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
1 CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * ** *
8824164 AAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCACCGCTAATACTATGCA
66 AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCA
8824229 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
131 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
* * *
8824294 GTTAATATATTTTGTGGCGCTTTTCACAAAGCG
196 GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
*
8824327 CCGCTAATACTTGTTTTAGCGG
1 CCGCTAATACTTGCTTTAGCGG
8824349 ACGATGTGTT
Statistics
Matches: 229, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
228 219 0.96
229 10 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (228 bp):
CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCA
TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:8825709 original size:19 final size:20
Alignment explanation
Indices: 8825682--8825727 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
8825672 TTTAGCTTTG
8825682 TTTTA-TTGATTT-CATTAT
1 TTTTAGTTGATTTACATTAT
*
8825700 TTTTAGTTGATTTAGGATTAT
1 TTTTAGTTGATTTA-CATTAT
8825721 TTTTAGT
1 TTTTAGT
8825728 AAATTCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
21 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (20 bp):
TTTTAGTTGATTTACATTAT
Found at i:8827756 original size:96 final size:96
Alignment explanation
Indices: 8827598--8827784 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
8827588 ACTGCCGACG
* * * * * * *
8827598 ATAAAAATATTGGTTGATAAACCATCTATCGGTGTAGATAAAAGTTGTTTGTACATTGTGGATGA
1 ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
** *
8827663 ATTACTAATTGTTGTAGATGAATTGCTAACA
66 ACCACTAATTGTTGTAGATAAATTGCTAACA
* * *
8827694 ATAAAAATACTGGTGGATGAACCATCCA-CTGGTGAAGATAAAAGCTGCTAGTACGTTTTGGATG
1 ATAAAAATACTGGTGGATAAACCATCCATC-GGTGAAGATAAAAGCTGCTAGTACATTGTGGATG
**
8827758 AACCACTGGTTGTTGTAGATAAATTGC
65 AACCACTAATTGTTGTAGATAAATTGC
8827785 CAACTGAAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (96 bp):
ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
ACCACTAATTGTTGTAGATAAATTGCTAACA
Found at i:8827807 original size:49 final size:49
Alignment explanation
Indices: 8827745--8827915 Score: 243
Period size: 49 Copynumber: 3.5 Consensus size: 49
8827735 AAGCTGCTAG
* * *
8827745 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * *
8827794 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * * * *
8827843 TACATTATGGATGAACCACTTGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
8827892 TACGTTGTGGATGAACCACTGGTC
1 TACGTTGTGGATGAACCACTGGTC
8827916 ATTCCAGATA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 105 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
Found at i:8827925 original size:49 final size:49
Alignment explanation
Indices: 8827745--8827936 Score: 240
Period size: 49 Copynumber: 3.9 Consensus size: 49
8827735 AAGCTGCTAG
* * * *
8827745 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAACTGCCGACTGAAA
* * * *
8827794 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAACTGCCGACTGAAA
* * * *
8827843 TACATTATGGATGAACCACTTGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAACTGCCGACTGAAA
* ** *
8827892 TACGTTGTGGATGAACCACTGGTCATTCCAGATAAACTGCTGACT
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAACTGCCGACT
8827937 CTTCCTCCGT
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 122 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAACTGCCGACTGAAA
Found at i:8831187 original size:16 final size:16
Alignment explanation
Indices: 8831168--8831204 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8831158 AAAAAATCAA
*
8831168 TTTAGGAAACTGTTAT
1 TTTAGGAAACTGTTAG
8831184 TTTAGGAAACTGTTAG
1 TTTAGGAAACTGTTAG
8831200 TTTAG
1 TTTAG
8831205 TAAATTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (16 bp):
TTTAGGAAACTGTTAG
Found at i:8832396 original size:28 final size:28
Alignment explanation
Indices: 8832364--8832421 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8832354 TTTGGTAAGT
8832364 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
8832392 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
8832420 AT
1 AT
8832422 TTTGGATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.33
Consensus pattern (28 bp):
ATAATTATTATGAGAATTAGAAGATGGA
Found at i:8832950 original size:114 final size:113
Alignment explanation
Indices: 8832664--8833339 Score: 815
Period size: 114 Copynumber: 6.0 Consensus size: 113
8832654 AAAATAAGCA
* * * *
8832664 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGA
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCATTTTCTGAGCTGA
* *
8832729 GAAGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTC-AGTCT
66 GAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
* ** * * * *
8832776 TTAGCGGCATTTTTCAGAAAGCGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCG-CAAAATACTTCAGCCCAACGACGCCATTTTCTGAGC-T
** * * *
8832841 TCG-GGGATTTAGTGGCGTTTTTATGAAAGCGTCGCTAATGCTCAAGTCC
64 GAGAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
* *
8832890 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAGTTCTTCAGCCCAACGGCGCCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAA-TACTTCAGCCCAACGACGCCATTTTCTGAGC-T
** * * * * *
8832955 TCG-GGGATTTAGTGGCGTTTTTATTAAAGCGCCGCTAATACTCAGGGCT
64 GAGAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
* *
8833004 TTAGCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGACGCCATTTTCTGAGCTG
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCATTTTCTGAGCTG
* * * *
8833069 AGAAGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCT
65 AGAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
* *
8833118 TTAGCGGCGTTTTTGGGAAAGCGCTGCAAGAATACTTCAGCCCAACGACG-CAGTTTTTTGAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCA-TTTTCTGAGCT
* *
8833182 GAGAAGGATTTAGTGGCGTTTTTATGTAAGCGCTGCTAATGCTCAAGTCT
64 GAGAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
** * *
8833232 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTTCAACCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAATACTTCAGCCCAACGACGCCATTTTCTGAGC-T
** * * *
8833297 TCG-GGGATTTAGTGGCGTTTTTATG-AAGCGCCACTAATACTCA
64 GAGAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCA
8833340 GGGATATAAA
Statistics
Matches: 492, Mismatches: 62, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
112 24 0.05
113 91 0.18
114 370 0.75
115 7 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCATTTTCTGAGCTGA
GAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCT
Found at i:8833320 original size:342 final size:339
Alignment explanation
Indices: 8832664--8833342 Score: 984
Period size: 342 Copynumber: 2.0 Consensus size: 339
8832654 AAAATAAGCA
* * * *
8832664 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGA
1 TTAGCGGCATTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGA
*
8832729 GAAGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTCAGTCTTTAGCGGCATTTTTCAGA
66 GAAGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGA
* * ** *
8832794 AAGCGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGT
131 AAGCGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGT
** * *
8832859 TTTTATGAAAGCGTCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAGTT
196 TTTTATGAAAGCGTCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
* * *
8832924 CTTCAGCCCAACGGCGCCATTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATTAAAGCGCCG
261 CTTCAACCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTA-TAAAGCGCCA
8832989 CTAATACTCAGGGCT
325 CTAATACTCAGGGCT
* *
8833004 TTAGCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGACGCCATTTTCTGAGCTG
1 TTAGCGGCATTTGTGGGAAAGCGCCACAA-AAGACTTCAGCCCAACGACGCCATTTTCTGAGCTG
* * * * * **
8833069 AGAAGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCTTTAGCGGCGTTTTTGG
65 AGAAGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCA-GTCTTTAGCGGCATTTTTCA
* * * * *
8833134 GAAAGCGCTGCAAGAATACTTCAGCCCAACGACGCAGTTTTTTGAGC-TGAGAAGGATTTAGTGG
129 GAAAGCGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAG-AGGATTTAGTGG
* *
8833198 CGTTTTTATGTAAGCG-CTGCTAATGCTCAAGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCAAA
193 CGTTTTTATGAAAGCGTC-GCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAA
* *
8833262 AATACTTCAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATGAAGCG
257 AATACTTCAACCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCG
8833327 CCACTAATACTCAGGG
322 CCACTAATACTCAGGG
8833343 ATATAAAATA
Statistics
Matches: 300, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
340 26 0.09
341 95 0.32
342 179 0.60
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (339 bp):
TTAGCGGCATTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGA
GAAGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGA
AAGCGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGT
TTTTATGAAAGCGTCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
CTTCAACCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCGCCAC
TAATACTCAGGGCT
Found at i:8833608 original size:14 final size:15
Alignment explanation
Indices: 8833575--8833608 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8833565 TAAGTTTTAT
8833575 AGATTATGGAATTAG
1 AGATTATGGAATTAG
8833590 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
8833604 GGATT
1 AGATT
8833609 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:8833695 original size:12 final size:12
Alignment explanation
Indices: 8833664--8833702 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
8833654 AGAGGTCAGG
8833664 GGTTAGGGGTTAA
1 GGTTAGGGGTT-A
8833677 GGGTTAGGGGTTA
1 -GGTTAGGGGTTA
8833690 GGTTAGGGGTTA
1 GGTTAGGGGTTA
8833702 G
1 G
8833703 ATGTTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 13 0.52
13 1 0.04
14 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:8833702 original size:7 final size:7
Alignment explanation
Indices: 8833643--8833702 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
8833633 AAGGTTTATA
*
8833643 GGTTAAG
1 GGTTAGG
*
8833650 GGTTAGA
1 GGTTAGG
*
8833657 GGTCAGG
1 GGTTAGG
8833664 GGTTAGG
1 GGTTAGG
*
8833671 GGTTAAG
1 GGTTAGG
8833678 GGTTAGG
1 GGTTAGG
8833685 GGTTA--
1 GGTTAGG
8833690 GGTTAGG
1 GGTTAGG
8833697 GGTTAG
1 GGTTAG
8833703 ATGTTAAGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
5 5 0.11
7 39 0.89
ACGTcount: A:0.20, C:0.02, G:0.50, T:0.28
Consensus pattern (7 bp):
GGTTAGG
Found at i:8833708 original size:14 final size:13
Alignment explanation
Indices: 8833665--8833708 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
8833655 GAGGTCAGGG
*
8833665 GTTAGGGGTTAAGG
1 GTTAGGGGTT-AGA
8833679 GTTAGGGGTTAG-
1 GTTAGGGGTTAGA
8833691 GTTAGGGGTTAGA
1 GTTAGGGGTTAGA
8833704 TGTTA
1 -GTTA
8833709 AGAGTTAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.43
13 2 0.07
14 14 0.50
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.34
Consensus pattern (13 bp):
GTTAGGGGTTAGA
Found at i:8833708 original size:19 final size:20
Alignment explanation
Indices: 8833642--8833718 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 20
8833632 TAAGGTTTAT
* *
8833642 AGGTTAAGGGTTAGAGGTCAG
1 AGGTTAA-GGTTAGGGGTTAG
* * *
8833663 GGGTTAGGGGTTAAGGGTTAG
1 AGGTTA-AGGTTAGGGGTTAG
*
8833684 GGGTT-AGGTTAGGGGTTAG
1 AGGTTAAGGTTAGGGGTTAG
*
8833703 ATGTTAAGAGTTAGGG
1 AGGTTAAG-GTTAGGG
8833719 ATTTAGGGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.34
20 2 0.05
21 27 0.61
ACGTcount: A:0.23, C:0.01, G:0.47, T:0.29
Consensus pattern (20 bp):
AGGTTAAGGTTAGGGGTTAG
Found at i:8833708 original size:26 final size:26
Alignment explanation
Indices: 8833664--8833717 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8833654 AGAGGTCAGG
* *
8833664 GGTTAGGGGTTAAGGGTTAGGGGTTA
1 GGTTAGGGGTTAAGGGTTAAGAGTTA
*
8833690 GGTTAGGGGTT-AGATGTTAAGAGTTA
1 GGTTAGGGGTTAAG-GGTTAAGAGTTA
8833716 GG
1 GG
8833718 GATTTAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.31
Consensus pattern (26 bp):
GGTTAGGGGTTAAGGGTTAAGAGTTA
Found at i:8833709 original size:33 final size:33
Alignment explanation
Indices: 8833656--8833718 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
8833646 TAAGGGTTAG
* *
8833656 AGGTCAGGGGTTAGGGGTTAAGGGTTAGGGGTT
1 AGGTCAGGGGTTAGAGGTTAAGAGTTAGGGGTT
* *
8833689 AGGTTAGGGGTTAGATGTTAAGAGTTAGGG
1 AGGTCAGGGGTTAGAGGTTAAGAGTTAGGG
8833719 ATTTAGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.48, T:0.29
Consensus pattern (33 bp):
AGGTCAGGGGTTAGAGGTTAAGAGTTAGGGGTT
Found at i:8833847 original size:7 final size:7
Alignment explanation
Indices: 8833802--8833849 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
8833792 TAAATAAGGT
8833802 TTAGGGG
1 TTAGGGG
*
8833809 TTATGGG
1 TTAGGGG
*
8833816 TCAGGGG
1 TTAGGGG
*
8833823 TTAAGGG
1 TTAGGGG
**
8833830 TTAAAGG
1 TTAGGGG
8833837 TTAGGGG
1 TTAGGGG
8833844 TTAGGG
1 TTAGGG
8833850 ATTGGGTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.21, C:0.02, G:0.48, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:8833918 original size:96 final size:100
Alignment explanation
Indices: 8833818--8834011 Score: 220
Period size: 103 Copynumber: 1.9 Consensus size: 100
8833808 GTTATGGGTC
* * *
8833818 AGGGGTTAAGGG-TTAAAGG-TTAGGGGTTAGGGA-TT-G-G-GTTATGGTTTAGGGTTTAGATT
1 AGGGGTT-AGGGCTT-AAGGCTTAGGGGTTAGGGATTTGGCGAGTTAGGGTTTAAGATTTAGATT
** *
8833877 AATTAGTGTTTTTTAATTTATATATTAAATAAAGTTT
64 AATTAGTACTTTTTAATTTACATATTAAATAAAGTTT
* * *
8833914 AGGGGTTAGGGCTTAGGGCTTAGGGGTTATGGATTTGGAGTCGAGTTAGGGTTTAAGATTTGGAT
1 AGGGGTTAGGGCTTAAGGCTTAGGGGTTAGGGATTT-G-G-CGAGTTAGGGTTTAAGATTTAGAT
8833979 TAATTAGTACTTTTTAATTTACATATTAAATAA
63 TAATTAGTACTTTTTAATTTACATATTAAATAA
8834012 GTTCTTTATA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
95 7 0.09
96 22 0.28
97 2 0.03
100 1 0.01
102 1 0.01
103 47 0.59
ACGTcount: A:0.28, C:0.03, G:0.29, T:0.41
Consensus pattern (100 bp):
AGGGGTTAGGGCTTAAGGCTTAGGGGTTAGGGATTTGGCGAGTTAGGGTTTAAGATTTAGATTAA
TTAGTACTTTTTAATTTACATATTAAATAAAGTTT
Found at i:8834113 original size:21 final size:21
Alignment explanation
Indices: 8834060--8834113 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
8834050 TAAAGATTAT
8834060 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
8834081 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
8834102 TAATTTAAAATT
1 TAATTTAAAATT
8834114 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:8834128 original size:8 final size:8
Alignment explanation
Indices: 8834103--8834136 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
8834093 TGAATATAAT
8834103 AATT-TAA
1 AATTGTAA
8834110 AATTGTAAA
1 AATTGT-AA
8834119 AATTGTAA
1 AATTGTAA
8834127 AATTGTAA
1 AATTGTAA
8834135 AA
1 AA
8834137 AAATTGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AATTGTAA
Found at i:8834150 original size:9 final size:9
Alignment explanation
Indices: 8834108--8834137 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8834098 ATAATAATTT
8834108 AAAATTGTA
1 AAAATTGTA
8834117 AAAATTGT-
1 AAAATTGTA
8834125 AAAATTGTA
1 AAAATTGTA
8834134 AAAA
1 AAAA
8834138 AATTGTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (9 bp):
AAAATTGTA
Found at i:8834156 original size:19 final size:19
Alignment explanation
Indices: 8834103--8834150 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
8834093 TGAATATAAT
8834103 AATT-TAAAATTGT--AAA
1 AATTGTAAAATTGTAAAAA
8834119 AATTGTAAAATTGTAAAAA
1 AATTGTAAAATTGTAAAAA
8834138 AATTGTCAAAATT
1 AATTGT-AAAATT
8834151 ACAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
19 9 0.32
20 6 0.21
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (19 bp):
AATTGTAAAATTGTAAAAA
Found at i:8834156 original size:20 final size:19
Alignment explanation
Indices: 8834116--8834156 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8834106 TTAAAATTGT
**
8834116 AAAAATTGTAAAATTGTAA
1 AAAAATTGTAAAATTACAA
8834135 AAAAATTGTCAAAATTACAA
1 AAAAATTGT-AAAATTACAA
8834155 AA
1 AA
8834157 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAATTGTAAAATTACAA
Found at i:8834263 original size:47 final size:47
Alignment explanation
Indices: 8834193--8834289 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
8834183 AAAAGAAATA
** * *
8834193 AAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACTT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
* * *
8834240 AAAAAACTGAAATTGATAATTTTATCTAATTTTTTTAAATATTACCT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
8834287 AAA
1 AAA
8834290 TTAACAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (47 bp):
AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
Found at i:8835960 original size:7 final size:7
Alignment explanation
Indices: 8835948--8835985 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
8835938 TGTTCCTTTA
8835948 TTTTCTG
1 TTTTCTG
8835955 TTTTCTG
1 TTTTCTG
8835962 TTTTCTG
1 TTTTCTG
*
8835969 TTTTGCTA
1 TTTT-CTG
8835977 TTTTCTG
1 TTTTCTG
8835984 TT
1 TT
8835986 GAATGAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:8835967 original size:14 final size:15
Alignment explanation
Indices: 8835946--8835985 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
8835936 TATGTTCCTT
8835946 TATTTTCTGTTTT-C
1 TATTTTCTGTTTTGC
*
8835960 TGTTTTCTGTTTTGC
1 TATTTTCTGTTTTGC
8835975 TATTTTCTGTT
1 TATTTTCTGTT
8835986 GAATGAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.05, C:0.12, G:0.12, T:0.70
Consensus pattern (15 bp):
TATTTTCTGTTTTGC
Found at i:8836377 original size:44 final size:44
Alignment explanation
Indices: 8836322--8836405 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
8836312 AGTTTTTATT
8836322 TAACTTATTAATATTAAAAA-AGTATATATTGATATATTTTATCA
1 TAACTTATTAATATTAAAAATA-TATATATTGATATATTTTATCA
**
8836366 TAACTTATTAATATTAAAAATATATATATTTTTATATTTT
1 TAACTTATTAATATTAAAAATATATATATTGATATATTTT
8836406 TACAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (44 bp):
TAACTTATTAATATTAAAAATATATATATTGATATATTTTATCA
Found at i:8836580 original size:13 final size:13
Alignment explanation
Indices: 8836558--8836715 Score: 88
Period size: 13 Copynumber: 12.0 Consensus size: 13
8836548 ATTTACTCTT
* *
8836558 AATATGTTACTTG
1 AATATATTACTTA
8836571 AATATATTACTTA
1 AATATATTACTTA
*
8836584 AATAAATTACTTA
1 AATATATTACTTA
* *
8836597 AATACAATACTTA
1 AATATATTACTTA
*
8836610 CTAA-A-ATTTCGTTA
1 --AATATATTAC-TTA
*
8836624 AATTTATTACTTA
1 AATATATTACTTA
* *
8836637 AATATGTTACTCA
1 AATATATTACTTA
* *
8836650 GATACATTACTTA
1 AATATATTACTTA
* **
8836663 CTAAAAT-TTGGTTA
1 --AATATATTACTTA
* *
8836677 AATTTTTTACTTA
1 AATATATTACTTA
*
8836690 AATATGTTACTTA
1 AATATATTACTTA
*
8836703 AATACATTACTTA
1 AATATATTACTTA
8836716 CTAAAATTGA
Statistics
Matches: 108, Mismatches: 29, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
12 5 0.05
13 86 0.80
14 13 0.12
15 4 0.04
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:8836635 original size:53 final size:53
Alignment explanation
Indices: 8836575--8836723 Score: 235
Period size: 53 Copynumber: 2.8 Consensus size: 53
8836565 TACTTGAATA
** *
8836575 TATTACTTAAATAAATTACTTAAATACAATACTTACTAAAATTTCGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
* * *
8836628 TATTACTTAAATATGTTACTCAGATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
*
8836681 TTTTACTTAAATATGTTACTTAAATACATTACTTACTAAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATT
8836724 GAAGTATATA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
Found at i:8836880 original size:9 final size:9
Alignment explanation
Indices: 8836856--8837003 Score: 123
Period size: 9 Copynumber: 17.1 Consensus size: 9
8836846 TATGTACAAG
8836856 AACTTACAT
1 AACTTACAT
* *
8836865 AATTTACAC
1 AACTTACAT
8836874 AACTTACAT
1 AACTTACAT
*
8836883 AACCTACAT
1 AACTTACAT
8836892 AACTTACAT
1 AACTTACAT
8836901 AA--TACA-
1 AACTTACAT
*
8836907 AAGCTTACAC
1 AA-CTTACAT
8836917 AACTTACAT
1 AACTTACAT
8836926 AACTTACAT
1 AACTTACAT
*
8836935 AAC-TA-AC
1 AACTTACAT
8836942 AACTTA-AGT
1 AACTTACA-T
*
8836951 AACATACAT
1 AACTTACAT
* **
8836960 TACTTTGAT
1 AACTTACAT
8836969 AACTTACAT
1 AACTTACAT
*
8836978 AAGTTACAT
1 AACTTACAT
*
8836987 AA--TACAC
1 AACTTACAT
8836994 AACTTACAT
1 AACTTACAT
8837003 A
1 A
8837004 GTTTACTTAA
Statistics
Matches: 110, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
6 2 0.02
7 14 0.13
8 5 0.05
9 86 0.78
10 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:8836958 original size:52 final size:51
Alignment explanation
Indices: 8836856--8837003 Score: 151
Period size: 52 Copynumber: 2.9 Consensus size: 51
8836846 TATGTACAAG
* * *
8836856 AACTTACATAATTTACACAACTTACATAACCTACATAACTTACATAATACA-
1 AACTTACATAACTTACATAACTTACATAA-CTACACAACTTACATAATACAT
*
8836907 AAGCTTACACAACTTACATAACTTACATAACTA-ACAACTTA-AGTAACATACAT
1 AA-CTTACATAACTTACATAACTTACATAACTACACAACTTACA-T-A-ATACAT
* ** *
8836960 TACTTTGATAACTTACATAAGTTACATAA-TACACAACTTACATA
1 AACTTACATAACTTACATAACTTACATAACTACACAACTTACATA
8837004 GTTTACTTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
49 1 0.01
50 8 0.10
51 9 0.11
52 61 0.75
53 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (51 bp):
AACTTACATAACTTACATAACTTACATAACTACACAACTTACATAATACAT
Found at i:8837002 original size:43 final size:42
Alignment explanation
Indices: 8836868--8837003 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 42
8836858 CTTACATAAT
* *
8836868 TTACACAACTTACATAACCTACATAACTTACATAATACAAAGC
1 TTACATAACTTACATAACTTACATAACTTACATAATACAAA-C
* * *
8836911 TTACACAACTTACATAACTTACATAACTAACA-ACTTA-AGTAAC
1 TTACATAACTTACATAACTTACATAACTTACATA-ATACA--AAC
* * ** *
8836954 ATACATTACTTTGATAACTTACATAAGTTACATAATACACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAATACA-AAC
8836997 TTACATA
1 TTACATA
8837004 GTTTACTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.03
43 68 0.92
44 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (42 bp):
TTACATAACTTACATAACTTACATAACTTACATAATACAAAC
Found at i:8837009 original size:25 final size:25
Alignment explanation
Indices: 8836912--8837022 Score: 75
Period size: 25 Copynumber: 4.4 Consensus size: 25
8836902 ATACAAAGCT
*
8836912 TACACAACTTACATAACTTACATAA
1 TACACAACTTACATAAGTTACATAA
** *
8836937 CTA-ACAACTTA-AGTAACATACATTACT
1 -TACACAACTTACA-TAAGTTACA-TA-A
** *
8836964 TTGATAACTTACATAAGTTACATAA
1 TACACAACTTACATAAGTTACATAA
*
8836989 TACACAACTTACAT-AGTTTACTTAA
1 TACACAACTTACATAAG-TTACATAA
*
8837014 TACATAACT
1 TACACAACT
8837023 CATTTATACT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
24 3 0.04
25 42 0.63
26 7 0.10
27 14 0.21
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
TACACAACTTACATAAGTTACATAA
Found at i:8838013 original size:15 final size:15
Alignment explanation
Indices: 8837993--8838023 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8837983 CATGTCATCG
8837993 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
8838008 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
8838023 A
1 A
8838024 TTCAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (15 bp):
AAGACAGCGGAGTCT
Found at i:8840269 original size:21 final size:21
Alignment explanation
Indices: 8840243--8840313 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
8840233 CTACAACTTA
*
8840243 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCTGCAGCAAGGG
* *
8840264 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGGG
* *
8840285 AAGCAGAGGCTGCAACAAGAG
1 AAGCAGAGGCTGCAGCAAGGG
8840306 AAGCAGAG
1 AAGCAGAG
8840314 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGGG
Found at i:8840739 original size:42 final size:42
Alignment explanation
Indices: 8840650--8840841 Score: 253
Period size: 42 Copynumber: 4.6 Consensus size: 42
8840640 AGAACATGCA
* * *
8840650 GCTAAA-AACATGTTCTTTAGCTGCGTTTAG-AAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
*
8840690 GCTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * * * *
8840732 ACTAAAGAACATGGTCTTTAGCGGCGCTAAGAAAAAAATGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * *
8840774 GCTAAAGACCATGTTCTTTAGAGGCGCTTACAGAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
*
8840816 GCTAAAGATCATGTTCTTTAGCGGCG
1 GCTAAAGACCATGTTCTTTAGCGGCG
8840842 TTTTTGTTTG
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 6 0.05
41 20 0.15
42 104 0.80
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
Found at i:8847189 original size:35 final size:35
Alignment explanation
Indices: 8847150--8847220 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
8847140 GGATTCCTTG
8847150 TTTTT-CTATCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACT-TCTTAATTATTTGTTTTATTTGATAAA
8847185 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
8847220 T
1 T
8847221 CTCACTTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (35 bp):
TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
Found at i:8856519 original size:62 final size:62
Alignment explanation
Indices: 8856374--8856592 Score: 179
Period size: 62 Copynumber: 3.5 Consensus size: 62
8856364 GGCTCCACAT
* * * * * ** *
8856374 GGCCTGGACACACACCCATGTGTCAGCCCGTGTGTCTCAGATCCGTAGTCAGTAAGTTACAA
1 GGCCTAGACAGACACCCGTGTGTCAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTTACAA
* * * * ** * * * *
8856436 GGCTTGGACATACGCTTGTGTGTTAGCCCGTGTGTTTCATATCCAAAGTCAGTGATTTACAC
1 GGCCTAGACAGACACCCGTGTGTCAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTTACAA
* * ** * * *
8856498 GGCCTAGACAGACACCCGTGTGTTAGCCCGGGTAATACAAATCCAAATTCAGTGAGTTACAT
1 GGCCTAGACAGACACCCGTGTGTCAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTTACAA
* *
8856560 GGCCTAGA-TGCACGCCCGTGTGTCAGCCCGTGT
1 GGCCTAGACAG-ACACCCGTGTGTCAGCCCGTGT
8856593 AACATCTATA
Statistics
Matches: 124, Mismatches: 32, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
61 1 0.01
62 123 0.99
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (62 bp):
GGCCTAGACAGACACCCGTGTGTCAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTTACAA
Found at i:8871445 original size:2 final size:2
Alignment explanation
Indices: 8871438--8871463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8871428 CTACATTTTC
8871438 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8871464 GTAAATCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8872545 original size:19 final size:19
Alignment explanation
Indices: 8872482--8872554 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
8872472 AAATTACAAA
*
8872482 AAAAAAATTCAAAA-ATTCA
1 AAAAAAATTCAAAATATT-T
8872501 AAAAAAATTCAAAATAATTT
1 AAAAAAATTCAAAAT-ATTT
**
8872521 -TTAAAATTCAAAATATTT
1 AAAAAAATTCAAAATATTT
8872539 AAAAAAATTCCAAAAT
1 AAAAAAATT-CAAAAT
8872555 TTATATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.09
19 32 0.71
20 6 0.13
21 3 0.07
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAAATTCAAAATATTT
Found at i:8876999 original size:30 final size:31
Alignment explanation
Indices: 8876930--8877001 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
8876920 AAAATGTTAA
* * *
8876930 TGAGTGACCGATTTGTCACTTTTCGATAATG
1 TGAGTGACTGATTTATCACTTTTCGATAAGG
* * *
8876961 TTAGTGACTGATTTATTATTTTTCGA-AAGG
1 TGAGTGACTGATTTATCACTTTTCGATAAGG
8876991 TGAGTGACTGA
1 TGAGTGACTGA
8877002 ATTGAAATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (31 bp):
TGAGTGACTGATTTATCACTTTTCGATAAGG
Found at i:8882416 original size:16 final size:17
Alignment explanation
Indices: 8882391--8882424 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8882381 ATATATTTTC
8882391 ATATAATTTATA-AAAA
1 ATATAATTTATATAAAA
*
8882407 ATATATTTTATATAAAA
1 ATATAATTTATATAAAA
8882424 A
1 A
8882425 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTATATAAAA
Found at i:8882570 original size:16 final size:15
Alignment explanation
Indices: 8882549--8882578 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
8882539 TTTTTTTAGA
8882549 ATATTTTATATTTTTT
1 ATATTTT-TATTTTTT
8882565 ATATTTTTATTTTT
1 ATATTTTTATTTTT
8882579 CAGATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATATTTTTATTTTTT
Found at i:8887702 original size:16 final size:16
Alignment explanation
Indices: 8887666--8887731 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 16
8887656 TCCTTTCGCT
8887666 TTTTTGCTCCTTTTTA
1 TTTTTGCTCCTTTTTA
*
8887682 GTTTTG-TCCTATTTTA
1 TTTTTGCTCCT-TTTTA
* *
8887698 TTTTT-AT-TTTCTTTA
1 TTTTTGCTCCTT-TTTA
*
8887713 TTTTTAC-CCTTTTTA
1 TTTTTGCTCCTTTTTA
8887728 TTTT
1 TTTT
8887732 ATTCTTGTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 1 0.03
15 22 0.55
16 17 0.43
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTGCTCCTTTTTA
Found at i:8887898 original size:43 final size:43
Alignment explanation
Indices: 8887813--8887899 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
8887803 GATAATGGTG
* * *
8887813 AATCTTATCTCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACA
1 AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
*
8887856 AATCTTATACCCCTAAAGTTGCAGTGG-GTCAGAAT-AAACTACA
1 AATCTTAT-CCCCTAAAGTTGCAGTGGAGTAAG-ATGAAACTACA
8887899 A
1 A
8887900 CAACAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 20 0.53
44 18 0.47
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (43 bp):
AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
Found at i:8890020 original size:17 final size:17
Alignment explanation
Indices: 8889991--8890032 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
8889981 ATAAATAAAT
*
8889991 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGAA
8890007 AATTAAATTAAATTGAA
1 AATTAAATTAAATTGAA
8890024 AATTAAATT
1 AATTAAATT
8890033 CAGATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGAA
Found at i:8894806 original size:17 final size:16
Alignment explanation
Indices: 8894752--8894814 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
8894742 TATTATTTTG
8894752 AAAAATATATATAA-TA
1 AAAAATATATA-AATTA
*
8894768 TAAAAT-TATAAATTTA
1 AAAAATATATAAA-TTA
*
8894784 TGAAAATATATACAATTA
1 -AAAAATATATA-AATTA
8894802 AAAAATATATAAA
1 AAAAATATATAAA
8894815 AAAAACCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 9 0.23
17 15 0.38
18 7 0.18
19 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAAATATATAAATTA
Found at i:8895273 original size:14 final size:14
Alignment explanation
Indices: 8895254--8895280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8895244 GATATTAGTA
8895254 TGAATATACCAACC
1 TGAATATACCAACC
8895268 TGAATATACCAAC
1 TGAATATACCAAC
8895281 AAAATCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (14 bp):
TGAATATACCAACC
Found at i:8899325 original size:13 final size:14
Alignment explanation
Indices: 8899292--8899326 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8899282 AATTTATTTT
*
8899292 TTAAAAATTTAAAA
1 TTAATAATTTAAAA
8899306 TTAATAATTTAAAA
1 TTAATAATTTAAAA
8899320 -TAATAAT
1 TTAATAAT
8899327 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAATAATTTAAAA
Found at i:8899353 original size:20 final size:20
Alignment explanation
Indices: 8899330--8899387 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
8899320 TAATAATATT
*
8899330 TTTTTAAAAAAAATTCCAAG
1 TTTTTAAAATAAATTCCAAG
*
8899350 TTTTTATAATATAAATTCCATG
1 TTTTTA-AA-ATAAATTCCAAG
*
8899372 TTTTTTAAATAAATTC
1 TTTTTAAAATAAATTC
8899388 GAGTGGGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 14 0.42
21 4 0.12
22 15 0.45
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTTAAAATAAATTCCAAG
Found at i:8900894 original size:20 final size:21
Alignment explanation
Indices: 8900869--8900914 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
8900859 AAAAATTAAA
8900869 AAAATT-AAAAAAAGTATTTT
1 AAAATTAAAAAAAAGTATTTT
8900889 AAAATTAAAAAAAAGTATTTT
1 AAAATTAAAAAAAAGTATTTT
8900910 AAAAT
1 AAAAT
8900915 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATTAAAAAAAAGTATTTT
Found at i:8900924 original size:11 final size:11
Alignment explanation
Indices: 8900898--8900976 Score: 94
Period size: 11 Copynumber: 7.4 Consensus size: 11
8900888 TAAAATTAAA
8900898 AAAAAGTATTTT
1 AAAAA-TATTTT
8900910 -AAAATATTTT
1 AAAAATATTTT
8900920 AAAAATATTTT
1 AAAAATATTTT
8900931 AAAAATATTTT
1 AAAAATATTTT
**
8900942 --AAAT-TTAA
1 AAAAATATTTT
8900950 AAAAAGTATTTT
1 AAAAA-TATTTT
8900962 AAAAATATTTT
1 AAAAATATTTT
8900973 AAAA
1 AAAA
8900977 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
8 2 0.03
9 4 0.07
10 9 0.16
11 36 0.62
12 7 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:8900963 original size:31 final size:30
Alignment explanation
Indices: 8900920--8900986 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 30
8900910 AAAATATTTT
*
8900920 AAAAATATTTTAAAAATATTTTAAATTTAA
1 AAAAATATTTTAAAAATATTTTAAAATTAA
8900950 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAA-TATTTTAAAAATATTTTAAAATTAA
8900981 AAAAAT
1 AAAAAT
8900987 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:8900999 original size:31 final size:31
Alignment explanation
Indices: 8900931--8901005 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
8900921 AAAATATTTT
* ***
8900931 AAAAATATTTTAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAGTATAAA
*
8900962 AAAAATATTTTAAAATTAAAAAAATTA-AAA
1 AAAAATATTTTAAAATTAAAAAAAGTATAAA
8900992 AATAAATATATTTA
1 AA-AAATAT-TTTA
8901006 TTATATCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 2 0.05
31 31 0.84
32 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (31 bp):
AAAAATATTTTAAAATTAAAAAAAGTATAAA
Found at i:8904221 original size:17 final size:17
Alignment explanation
Indices: 8904199--8904232 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8904189 ATGTCATATA
*
8904199 CTTAAAATAAAATAGTG
1 CTTAAAACAAAATAGTG
8904216 CTTAAAACAAAATAGTG
1 CTTAAAACAAAATAGTG
8904233 GAGATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (17 bp):
CTTAAAACAAAATAGTG
Found at i:8904691 original size:29 final size:29
Alignment explanation
Indices: 8904623--8904692 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
8904613 GTACATGGAT
*
8904623 GCACCGAAGTGCTATAACAGAACAGAATA
1 GCACCGAAGTGCCATAACAGAACAGAATA
* * ** *
8904652 GCACTGGAGTGCCATGTCAGAATAGAATA
1 GCACCGAAGTGCCATAACAGAACAGAATA
*
8904681 TCACCGAAGTGC
1 GCACCGAAGTGC
8904693 TTAATCAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (29 bp):
GCACCGAAGTGCCATAACAGAACAGAATA
Found at i:8907288 original size:177 final size:176
Alignment explanation
Indices: 8906848--8907369 Score: 730
Period size: 176 Copynumber: 3.0 Consensus size: 176
8906838 TTGAGGCATC
* * *
8906848 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGTGCGAAATATGGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* *
8906913 CTAAAATTTAGCTATTCTTATATACTCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATATA-TCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
* * *
8906978 AATTTTCTATGACAATAGAAAA-GAAAAAAAGAATGGATATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* *
8907024 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTAAGCTAAATATAGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * *
8907089 ATGAAATTTAGCCATTCTTATATCATCTTTAAAAATTTGATGGATTAGAATTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATAT-ATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
*
8907154 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGCCATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* * * *
8907201 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGCAAAATACAGAGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * * * *
8907266 TTAAAATTT-GACCATACTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCC
66 ATAAAATTTAG-CCATTCTTATAT-ATCTTTAAAAA-GTTGATGGATTAGAACTGAAATTTAGCC
* *
8907329 ACTATTTTTTTATGTCAAAAGAAAAGG--AAAAAGAATGGACA
128 A-TAATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACA
8907370 AGTATAGAAA
Statistics
Matches: 310, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
176 160 0.52
177 127 0.41
178 23 0.07
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
ATAAAATTTAGCCATTCTTATATATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCATA
ATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
Found at i:8909899 original size:30 final size:30
Alignment explanation
Indices: 8909858--8909925 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
8909848 ACCAAAAAAA
* *
8909858 GCCGGTTTTTTTCAAAATTTATCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
* ** *
8909888 GCCGATTTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
8909918 GCC-ATTTT
1 GCCGATTTT
8909926 CTGGGAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:8910012 original size:13 final size:13
Alignment explanation
Indices: 8909994--8910020 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8909984 ACGTCAGCGC
8909994 GACCTGCTGACGT
1 GACCTGCTGACGT
8910007 GACCTGCTGACGT
1 GACCTGCTGACGT
8910020 G
1 G
8910021 GATGCGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACCTGCTGACGT
Found at i:8910195 original size:22 final size:22
Alignment explanation
Indices: 8910168--8910218 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
8910158 CTCTCTAATC
8910168 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
8910190 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
8910212 CTCTCAA
1 CTCTCAA
8910219 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:8910251 original size:51 final size:51
Alignment explanation
Indices: 8910190--8910302 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
8910180 TTCCAAAATT
8910190 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* *
8910241 CTCTTAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
8910292 CCCTCAATTTC
1 CTCTCAATTTC
8910303 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:8910337 original size:30 final size:30
Alignment explanation
Indices: 8910303--8910367 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
8910293 CCTCAATTTC
8910303 ATTTTTT-AAAATAATTTTAATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTAA-TTTTTTTAT
8910333 ATTTTTTAAAAATAATTTTAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAATTTTTTTAT
8910363 ATTTT
1 ATTTT
8910368 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTTTTAAAAATAATTTTAATTTTTTTAT
Found at i:8912130 original size:29 final size:29
Alignment explanation
Indices: 8912097--8912179 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
8912087 CCACGCAAAC
8912097 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACTCTAA
* * *
8912126 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACTCTAA
8912155 CCTAACTTAATTAAAAACCCTAACT
1 CCTAACTTAATTAAAAACCCTAACT
8912180 TAATTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACTCTAA
Found at i:8912174 original size:23 final size:23
Alignment explanation
Indices: 8912147--8912202 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 23
8912137 TAAAAACCTT
8912147 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
8912170 AA--C---CCTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTAAA
8912188 AACCCTAACCCTAAC
1 AACCCTAA-CCTAAC
8912203 CCTAACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
18 17 0.63
20 1 0.04
21 1 0.04
23 2 0.07
24 6 0.22
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.23
Consensus pattern (23 bp):
AACCCTAACCTAACTTAATTAAA
Found at i:8912182 original size:34 final size:32
Alignment explanation
Indices: 8912097--8912657 Score: 127
Period size: 29 Copynumber: 17.9 Consensus size: 32
8912087 CCACGCAAAC
8912097 CCTAACTTAATTAAAAACCCTAAC-T--CTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * *
8912126 CCTAATTTAATTAAAAACCTTAAC---CCTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
*
8912155 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAA
1 CCTAACTTAATTAAAAACCCTAACTTAACT---AA
* **** * *
8912190 CCCTAACCCTAA-CCCTAACCCTAATTTAATTAAAA
1 -CCTAA-CTTAATTAAAAACCCTAACTTAACT--AA
* *
8912225 CCCCTAACTTAATTAAAAACTCTAAC---CCTAA
1 --CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * *
8912256 CCTAATTTAATTAAAAACTCTAACTTAATTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * **** *
8912288 --AAACCCTAA-CCCTAA-CCTAACTTAATTAAAAA
1 CCTAA-CTTAATTAAAAACCCTAACTTAACT---AA
* *
8912320 CCTTAACTTAATTAAAAACTCTAAC---CCTAA
1 CC-TAACTTAATTAAAAACCCTAACTTAACTAA
* *
8912350 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAA-CTTAA--CTAA
* *
8912385 CCTAATTTAATTAAAAACCCTAA-TTAATTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * **** *
8912416 --AAACACTAA-CCCTAA-CCTAACTTAATTAAAAA
1 CCTAAC-TTAATTAAAAACCCTAACTTAACT---AA
* *
8912448 CCCCAACTTAATTAAAAACCCTAAC---CCTAA
1 -CCTAACTTAATTAAAAACCCTAACTTAACTAA
* *
8912478 CCTAATTTAATTAAAAACCCTAACCT---TAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
* *
8912507 CCTAATTTAATTAAAAACCCTAACTTAATTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * **** *
8912539 --AAACCCTAA-CCCTAA-CCTAACTTAATTAAAAA
1 CCTAA-CTTAATTAAAAACCCTAACTTAACT---AA
*
8912571 CCCTAACTTAATTAAAAACCCTAAC---CCTAA
1 -CCTAACTTAATTAAAAACCCTAACTTAACTAA
* * *
8912601 CCTAATTTATTTAAAAACCCTAAC---CCTAA
1 CCTAACTTAATTAAAAACCCTAACTTAACTAA
*
8912630 CCTAATTTAATTAAAAACCCTAACTTAA
1 CCTAACTTAATTAAAAACCCTAACTTAA
8912658 TTAAAAACCC
Statistics
Matches: 393, Mismatches: 83, Indels: 109
0.67 0.14 0.19
Matches are distributed among these distances:
28 5 0.01
29 223 0.57
30 20 0.05
31 11 0.03
32 13 0.03
33 7 0.02
34 11 0.03
35 50 0.13
36 49 0.12
37 4 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (32 bp):
CCTAACTTAATTAAAAACCCTAACTTAACTAA
Found at i:8912183 original size:47 final size:47
Alignment explanation
Indices: 8912126--8912710 Score: 511
Period size: 47 Copynumber: 12.3 Consensus size: 47
8912116 CTAACTCTAA
* *
8912126 CCTAATTTAATTAAAAACCTTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
8912173 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCCTAATTTAATTAAAACC
1 CCTAACTTAATTAAAAA-CCT-----TAACCCTAA-CCTAATTTAATTAAAAAC
8912227 CCTAACTTAATTAAAAA-CTCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCT-TAACCCTAACCTAATTTAATTAAAAAC
* * *
8912274 TCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
8912321 CTTAACTTAATTAAAAA-CTCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCT-TAACCCTAACCTAATTTAATTAAAAAC
8912368 CCTAAC-----------CC-TAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
8912403 CCTAA-TTAATTAAAAACAC-TAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC-CTTAACCCTAACCTAATTTAATTAAAAAC
* *
8912449 CCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
* * * *
8912496 CCTAACCTTAACCTAATTTAA--TTAA---AAACCCTAACTTAATTAAAAAC
1 CCTAA-CTTAA-TTAA--AAACCTTAACCCTAA-CCTAATTTAATTAAAAAC
* * * *
8912543 CCTAACCCTAACCTAACTTAA--TTAAAAACCCTAACTTAA-TTAA--AAACCCTAAC
1 CCTAA-CTTAA-TTAA--AAACCTT---AACCCTAACCTAATTTAATTAAA----AAC
* *
8912596 CCTAACCTAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
8912648 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
8912695 TCTAACTTAATTAAAA
1 CCTAACTTAATTAAAA
8912711 GCCCTAACTT
Statistics
Matches: 457, Mismatches: 33, Indels: 96
0.78 0.06 0.16
Matches are distributed among these distances:
35 32 0.07
37 1 0.00
45 1 0.00
46 35 0.08
47 256 0.56
48 19 0.04
49 9 0.02
50 2 0.00
51 7 0.02
52 14 0.03
53 33 0.07
54 39 0.09
56 7 0.02
57 2 0.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
Found at i:8912199 original size:6 final size:6
Alignment explanation
Indices: 8912188--8912213 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8912178 CTTAATTAAA
8912188 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
8912214 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:8912316 original size:76 final size:77
Alignment explanation
Indices: 8912226--8912765 Score: 422
Period size: 76 Copynumber: 7.3 Consensus size: 77
8912216 TAATTAAAAC
* *
8912226 CCCTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTCTAACTTAATTAAAAA
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
8912291 CCCTAACCCTAA
66 CCCTAACCCTAA
* * * * * *
8912303 -CCTAACTTAATTAAAAACCTTAA-CTTAA-TTAA--AAACTCTAACCCTAA-CCTAATTTAATT
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAA-T-TAA---AAACCCTAACTTAATT
8912362 AAAAACCCTAACCCTAA
61 AAAAACCCTAACCCTAA
* * * *
8912379 CCCTAACCTAATTTAATTAAA----AACCCTAA-TTAA-TTAA-AAACACTAACCCTAACCTAAC
1 CCCTAACTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAA-A--AACCCTAACTTAA-
* *
8912437 TT---AA--TTAA---AAA
59 TTAAAAACCCTAACCCTAA
* *
8912448 CCCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACCTAAT
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA-
* * *
8912513 TTAA--TTAA---AAA
63 -AAACCCTAACCCTAA
*
8912524 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAA
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
8912589 CCCTAACCCTAA
66 CCCTAACCCTAA
* *
8912601 -CCTAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
8912665 CCCTAACCCTAA
66 CCCTAACCCTAA
* *
8912677 -CCTAATTTAATTAAAAA--CT----CTAA-C----TTAATTAAAAGCCCTAACTTAATTAAAAA
1 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
8912730 CCCTAACCCTAA
66 CCCTAACCCTAA
* *
8912742 -CCTAATTTAATTAAAAATCCTAAC
1 CCCTAACTTAATTAAAAACCCTAAC
8912766 TTAATTAAAA
Statistics
Matches: 391, Mismatches: 34, Indels: 83
0.77 0.07 0.16
Matches are distributed among these distances:
65 57 0.15
66 3 0.01
67 2 0.01
68 4 0.01
69 12 0.03
70 20 0.05
71 9 0.02
72 12 0.03
73 4 0.01
74 16 0.04
75 13 0.03
76 207 0.53
77 23 0.06
78 6 0.02
80 3 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (77 bp):
CCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
CCCTAACCCTAA
Found at i:8912336 original size:17 final size:17
Alignment explanation
Indices: 8912153--8912783 Score: 120
Period size: 18 Copynumber: 39.5 Consensus size: 17
8912143 CCTTAACCCT
8912153 AACCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
8912170 AACCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
* ****
8912188 AACCCTAACCCTAACCCTA
1 AA-CCTAA-CTTAATTAAA
* *
8912207 ACCCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
*
8912224 ACCCCTAACTTAATTAAA
1 A-ACCTAACTTAATTAAA
**
8912242 AACTCTAAC---CCT---
1 AAC-CTAACTTAATTAAA
*
8912254 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912271 AACTCTAACTTAATTAAA
1 AAC-CTAACTTAATTAAA
**
8912289 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
8912301 AACCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
8912318 AACCTTAACTTAATTAAA
1 AACC-TAACTTAATTAAA
**
8912336 AACTCTAAC---CCT---
1 AAC-CTAACTTAATTAAA
*
8912348 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
* ****
8912365 AACCCTAACCCTAA-CCCT
1 AA-CCTAA-CTTAATTAAA
*
8912383 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912400 AACCCTAA-TTAATTAAA
1 AA-CCTAACTTAATTAAA
**
8912417 AACACTAAC---CCT---
1 AAC-CTAACTTAATTAAA
8912429 AACCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
*
8912446 AACCCCAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
8912464 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
*
8912476 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
*
8912493 AACCCTAAC---CTT---
1 AA-CCTAACTTAATTAAA
*
8912505 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912522 AACCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
8912540 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
8912552 AACCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
8912569 AACCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
8912587 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
* *
8912599 AACCTAATTTATTTAAA
1 AACCTAACTTAATTAAA
**
8912616 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
*
8912628 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912645 AACCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
8912663 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
*
8912675 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912692 AACTCTAACTTAATTAAA
1 AAC-CTAACTTAATTAAA
*
8912710 AGCCCTAACTTAATTAAA
1 A-ACCTAACTTAATTAAA
**
8912728 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
*
8912740 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
8912757 AATCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
8912775 AACCCTAAC
1 AA-CCTAAC
8912784 CCTAACATAA
Statistics
Matches: 436, Mismatches: 88, Indels: 179
0.62 0.13 0.25
Matches are distributed among these distances:
11 55 0.13
12 25 0.06
14 12 0.03
15 12 0.03
16 4 0.01
17 56 0.13
18 260 0.60
19 12 0.03
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (17 bp):
AACCTAACTTAATTAAA
Found at i:8912361 original size:29 final size:29
Alignment explanation
Indices: 8912318--8912407 Score: 99
Period size: 35 Copynumber: 2.9 Consensus size: 29
8912308 CTTAATTAAA
*
8912318 AACCTTAACTTAATTAAAAACTCTAACCCT
1 AACC-TAATTTAATTAAAAACTCTAACCCT
8912348 AACCTAATTTAATTAAAAACCCTAACCCTAACCCT
1 AACCTAATTTAATTAAAAA--CT----CTAACCCT
*
8912383 AACCTAATTTAATTAAAAACCCTAA
1 AACCTAATTTAATTAAAAACTCTAA
8912408 TTAATTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
29 18 0.35
30 4 0.08
31 2 0.04
33 1 0.02
35 27 0.52
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCTAATTTAATTAAAAACTCTAACCCT
Found at i:8912379 original size:35 final size:35
Alignment explanation
Indices: 8912340--8912407 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
8912330 ATTAAAAACT
8912340 CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
8912375 CTAACCCTAACCTAATTTAATTAAAAACCCTAA
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAA
8912408 TTAATTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (35 bp):
CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
Found at i:8912430 original size:123 final size:125
Alignment explanation
Indices: 8912246--8912812 Score: 693
Period size: 123 Copynumber: 4.6 Consensus size: 125
8912236 ATTAAAAACT
*
8912246 CTAACCCTAACCTAATTTAATTAAAAACTCTAACTTAATTAAAAACCCTAACCCTAACCTAACTT
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAA-CC--ACCTAACTT
* *
8912311 AATTAAAAACCTTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
63 AATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-C
*
8912375 CTAACCCTAACCTAATTTAATTAAAAACCCTAA-TTAATTAAAAACACTAACCCTAACCTAACTT
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAA-CC--ACCTAACTT
*
8912439 AATTAAAAACCCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
63 AATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
8912502 CT-----TAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTT
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAA-CC--ACCTAACTT
*
8912562 AATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTATTTAAAAA--C---C
63 AATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
*
8912620 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAA-CC--ACCTAACTT
* *
8912685 AATTAAAAACTCTAACTTAATT--AAA----AGCCCTAA-C----TTAATTAAAAA--C---C
63 AATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
* * *
8912732 CTAACCCTAACCTAATTTAATTAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACATAATTT
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAA-CC--ACCTAACTT
8912797 AATTAAAAACCCTAAC
63 AATTAAAAACCCTAAC
8912813 CCTAACCCTA
Statistics
Matches: 417, Mismatches: 15, Indels: 29
0.90 0.03 0.06
Matches are distributed among these distances:
112 90 0.22
116 1 0.00
117 7 0.02
118 3 0.01
121 4 0.01
122 26 0.06
123 162 0.39
127 3 0.01
128 89 0.21
129 32 0.08
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (125 bp):
CTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCACCTAACTTAAT
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
Found at i:8912497 original size:29 final size:29
Alignment explanation
Indices: 8912455--8912653 Score: 165
Period size: 29 Copynumber: 6.6 Consensus size: 29
8912445 AAACCCCAAC
8912455 TTAATTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
*
8912484 TTAATTAAAAACCCTAACCTTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
* *
8912513 TTAATTAAAAACCCTAA-CTTAA-TTAA-
1 TTAATTAAAAACCCTAACCCTAACCTAAT
* * * ** *
8912539 -AAACCCTAACCCTAA-CCTAACTTAATTAAAAACCCTAAC
1 TTAA--TTAA---AAACCCTAAC---CCT---AA-CCTAAT
8912578 TTAATTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
*
8912607 TTATTTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
8912636 TTAATTAAAAACCCTAAC
1 TTAATTAAAAACCCTAAC
8912654 TTAATTAAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
25 2 0.01
27 6 0.04
28 5 0.04
29 100 0.72
30 4 0.03
33 3 0.02
35 2 0.01
36 8 0.06
38 6 0.04
40 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
TTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:8912680 original size:29 final size:29
Alignment explanation
Indices: 8912648--8912765 Score: 119
Period size: 29 Copynumber: 3.8 Consensus size: 29
8912638 AATTAAAAAC
8912648 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * **
8912677 CCTAATTTAATTAAAAACTCTAACTTAATTAAAA
1 CCTAACTTAATTAAAAACCCTAAC---CCT--AA
8912711 GCCCTAACTTAATTAAAAACCCTAACCCTAA
1 --CCTAACTTAATTAAAAACCCTAACCCTAA
* *
8912742 CCTAATTTAATTAAAAATCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
8912766 TTAATTAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
29 44 0.61
31 2 0.03
32 1 0.01
33 1 0.01
34 2 0.03
36 22 0.31
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.29
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:8912716 original size:65 final size:65
Alignment explanation
Indices: 8912630--8912783 Score: 274
Period size: 65 Copynumber: 2.4 Consensus size: 65
8912620 CTAACCCTAA
*
8912630 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA-
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAT
*
8912694 CTCTAACTTAATTAAAAGCCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 C-CTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
8912759 T
65 T
8912760 CCTAACTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
8912784 CCTAACATAA
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
64 1 0.01
65 83 0.98
66 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (65 bp):
CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAT
Found at i:8912752 original size:47 final size:47
Alignment explanation
Indices: 8912696--8912812 Score: 198
Period size: 47 Copynumber: 2.5 Consensus size: 47
8912686 ATTAAAAACT
* *
8912696 CTAACTTAATTAAAAGCCCTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
*
8912743 CTAATTTAATTAAAAATCCTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
*
8912790 ATAATTTAATTAAAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAC
8912813 CCTAACCCTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (47 bp):
CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
Found at i:8912795 original size:112 final size:112
Alignment explanation
Indices: 8912601--8912812 Score: 379
Period size: 112 Copynumber: 1.9 Consensus size: 112
8912591 CTAACCCTAA
* *
8912601 CCTAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
* *
8912666 CCTAACCCTAACCTAATTTAATTAAAAACTCTAACTTAATTAAAAGC
66 CCTAACCCTAACATAATTTAATTAAAAACCCTAACTTAATTAAAAGC
*
8912713 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
8912778 CCTAACCCTAACATAATTTAATTAAAAACCCTAAC
66 CCTAACCCTAACATAATTTAATTAAAAACCCTAAC
8912813 CCTAACCCTA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 95 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.29
Consensus pattern (112 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAACATAATTTAATTAAAAACCCTAACTTAATTAAAAGC
Found at i:8916305 original size:20 final size:20
Alignment explanation
Indices: 8916282--8916328 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8916272 GGGTTAAGAT
*
8916282 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
8916302 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
8916322 TGAGCTG
1 TGAGCTG
8916329 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:8918054 original size:48 final size:47
Alignment explanation
Indices: 8917998--8918103 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 47
8917988 TTGTCTTTTC
*
8917998 TTTCTTTTTCAATTT--TCTCTTTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCATCTC-TTTT--TCACATCCTTT-TTCAATCTCAA
*
8918046 TTTCTTTTTCGATTTCATTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCA-TCTCTTTTTCACATCCTTTTTCAATCTCAA
8918094 TTTCTTTTTC
1 TTTCTTTTTC
8918104 CATGACACTC
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
48 40 0.77
49 4 0.08
50 4 0.08
51 4 0.08
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.58
Consensus pattern (47 bp):
TTTCTTTTTCAATTTCATCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:8918102 original size:18 final size:17
Alignment explanation
Indices: 8918035--8918192 Score: 69
Period size: 18 Copynumber: 9.1 Consensus size: 17
8918025 CACACTTTTG
8918035 TTCAATCTCAATTTCTTT
1 TTCAATCTC-ATTTCTTT
* *
8918053 TTCGATTTCATTCTCTTT
1 TTCAATCTCATT-TCTTT
*
8918071 TTC-A---CA-TCCTTT
1 TTCAATCTCATTTCTTT
8918083 TTCAATCTCAATTTCTTT
1 TTCAATCTC-ATTTCTTT
* *
8918101 TTCCATGACACTCGTTTCTTT
1 TT-CA--A-TCTCATTTCTTT
* * *
8918122 TACACTCTCGTTTCTTT
1 TTCAATCTCATTTCTTT
*
8918139 CTTCAATCTCACTCTCTTT
1 -TTCAATCTCA-TTTCTTT
* *
8918158 TTCAATTTCTTGTTCTTT
1 TTCAATCTCAT-TTCTTT
*
8918176 TTC--TTTCATTTCTTT
1 TTCAATCTCATTTCTTT
8918191 TT
1 TT
8918193 TTCATCTCTC
Statistics
Matches: 109, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
12 7 0.06
13 2 0.02
14 2 0.02
15 8 0.07
16 6 0.06
17 17 0.16
18 45 0.41
19 8 0.07
20 2 0.02
21 9 0.08
22 3 0.03
ACGTcount: A:0.15, C:0.25, G:0.03, T:0.57
Consensus pattern (17 bp):
TTCAATCTCATTTCTTT
Found at i:8919148 original size:19 final size:19
Alignment explanation
Indices: 8919121--8919163 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8919111 CTCACAAGAC
*
8919121 TTTTCACTTTTTTGTT-TTT
1 TTTTTACTTTTTT-TTCTTT
8919140 TTTTTACTTTTTTTTCTTT
1 TTTTTACTTTTTTTTCTTT
8919159 TTTTT
1 TTTTT
8919164 GCTCACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTACTTTTTTTTCTTT
Found at i:8920717 original size:20 final size:20
Alignment explanation
Indices: 8920694--8920740 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8920684 GGGTTAAGAT
*
8920694 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
8920714 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
8920734 TGAGCTG
1 TGAGCTG
8920741 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:8921514 original size:124 final size:124
Alignment explanation
Indices: 8921227--8921571 Score: 631
Period size: 124 Copynumber: 2.8 Consensus size: 124
8921217 AACTTGCTAT
*
8921227 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCTCAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
*
8921292 GGCGATTTTATACTATTTGCTCAAAAACGTC-AAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
8921350 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
8921415 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
*
8921474 TGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
*
8921539 AGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 GGCGATTTTATACTATTTG-CTCAGAAACGTCAA
8921572 CTCGAAATAA
Statistics
Matches: 216, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
123 94 0.44
124 121 0.56
125 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (124 bp):
TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
Found at i:8921828 original size:29 final size:27
Alignment explanation
Indices: 8921779--8921838 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
8921769 GATTTCCCGG
*
8921779 AAAATGGCCCATTCTGGTAAATAATAAA
1 AAAATGGCCCATTCTGATAAAT-ATAAA
*
8921807 AAAATTGGCCCATT-TCGATAAATTTAAA
1 AAAA-TGGCCCATTCT-GATAAATATAAA
8921835 AAAA
1 AAAA
8921839 AAACGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCTGATAAATATAAA
Found at i:8924789 original size:32 final size:32
Alignment explanation
Indices: 8924743--8924835 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
8924733 TGTCAATCAT
*
8924743 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
*
8924775 TTCAATATCTAACAAGCCTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
8924807 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCTAACAAGCTTAAAACATAAT
8924836 CAATATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:8924859 original size:27 final size:27
Alignment explanation
Indices: 8924744--8924864 Score: 82
Period size: 32 Copynumber: 4.1 Consensus size: 27
8924734 GTCAATCATT
* *
8924744 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
**
8924775 TTCAATATCTAACAAGCCTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
8924807 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
8924835 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
8924862 TCA
1 TCA
8924865 TTTCAAAATC
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
26 2 0.02
27 25 0.30
28 2 0.02
29 2 0.02
32 52 0.63
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:8924870 original size:59 final size:62
Alignment explanation
Indices: 8924737--8924880 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 62
8924727 TGTCATTGTC
8924737 AATCATTTCAATATCCAACAAGCTTAAAACATAATAAATTCAATATCTAACAAGCCTAAAACAT
1 AATCATTTCAATATCCAACAAGCTTAAAAC--AATAAATTCAATATCTAACAAGCCTAAAACAT
* * * ** *
8924801 AATAAATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACAT
1 AATCATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCCT-AAAACAT
*
8924860 AATCATTTCAAAATCCAACAA
1 AATCATTTCAATATCCAACAA
8924881 ACTAAAATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 1 0.01
59 37 0.54
60 2 0.03
61 2 0.03
64 27 0.39
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.26
Consensus pattern (62 bp):
AATCATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCCTAAAACAT
Done.