Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 27 of 210
Found at i:8804306 original size:27 final size:27
Alignment explanation
Indices: 8804287--8804395 Score: 173
Period size: 27 Copynumber: 4.0 Consensus size: 27
8804277 CAACGGCAGT
* *
8804287 CAAGGATGGTAACGTGCCAATTCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
8804314 CACGGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
8804341 CAAAGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
8804368 CAAGGATGGTAATATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
8804395 C
1 C
8804396 GTGGCTGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (27 bp):
CAAGGATGGTAACATGCCAATGCCAGG
Found at i:8804364 original size:33 final size:33
Alignment explanation
Indices: 8804354--8804509 Score: 207
Period size: 33 Copynumber: 4.9 Consensus size: 33
8804344 AGATGGTAAC
*
8804354 ATGCCAATGCCAGGCAAGGATGGTAA--T----
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
* * *
8804381 ATGCCAATGCCAGGCGTGGCTGGTAATTTGCCT
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
*
8804414 ATGCCAATGCCAGGCATGGCTGGTAATTTGCCA
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
* *
8804447 ATGCCCATGCCAGGCATGGCTGGTAATTTGCCA
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
8804480 ATGCCAATGCCAGGCATGGATGGTAATTTG
1 ATGCCAATGCCAGGCATGGATGGTAATTTG
8804510 TCTGGCATCA
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
27 23 0.20
29 1 0.01
33 91 0.79
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (33 bp):
ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
Found at i:8804404 original size:27 final size:27
Alignment explanation
Indices: 8804265--8804451 Score: 167
Period size: 27 Copynumber: 6.7 Consensus size: 27
8804255 GTGCCAGTTA
* * * *
8804265 ATGGTAATATACCAACGGCAGTCAAGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
** * *
8804292 ATGGTAACGTGCCAATTCCAGGCACGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
* *
8804319 ATGGTAACATGCCAATGCCAGGCAAAG
1 ATGGTAATATGCCAATGCCAGGCAAGG
*
8804346 ATGGTAACATGCCAATGCCAGGCAAGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
**
8804373 ATGGTAATATGCCAATGCCAGGCGTGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
* *
8804400 CTGGTAATTTGCCTATGCCAATGCCAGGCATGG
1 ATGGTAA------TATGCCAATGCCAGGCAAGG
* *
8804433 CTGGTAATTTGCCAATGCC
1 ATGGTAATATGCCAATGCC
8804452 CATGCCAGGC
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
27 109 0.81
33 26 0.19
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (27 bp):
ATGGTAATATGCCAATGCCAGGCAAGG
Found at i:8816536 original size:24 final size:24
Alignment explanation
Indices: 8816479--8816546 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
8816469 TTACTACCAA
* *
8816479 ATTGAGTGGCTTGTCCACAACAGT
1 ATTGAGTGGCTTGACCACAACAAT
*** *
8816503 AACAATTGGCTTGACCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
*
8816527 ATTGAGTGGCTTGGCCACAA
1 ATTGAGTGGCTTGACCACAA
8816547 TGTAAATGAG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACAAT
Found at i:8821709 original size:41 final size:41
Alignment explanation
Indices: 8821664--8821767 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
8821654 GACTTTAAGT
* * * *
8821664 CTAGCAGGCAAAGTGCTGGTGATCTTAACCAGGTTGTAAAC
1 CTAGCAGGCAAAGTGCCGGTGATCTGAACCAGGCTATAAAC
* * * *
8821705 CTAGCAGGCTACA-TGCCGATGATCTGAATCAGGCTATAAGC
1 CTAGCAGGC-AAAGTGCCGGTGATCTGAACCAGGCTATAAAC
*
8821746 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCAAAGTGCCGGTGA
8821768 ATATGTTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.02
41 47 0.94
42 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCAAAGTGCCGGTGATCTGAACCAGGCTATAAAC
Found at i:8831345 original size:28 final size:28
Alignment explanation
Indices: 8831309--8831365 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
8831299 ATTACAATCT
8831309 TATAACAAAGAAAACATGATTTAGATTA
1 TATAACAAAGAAAACATGATTTAGATTA
8831337 TATAACAAAGAAAACATGATTTAGATTA
1 TATAACAAAGAAAACATGATTTAGATTA
8831365 T
1 T
8831366 CTACCCTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (28 bp):
TATAACAAAGAAAACATGATTTAGATTA
Found at i:8844815 original size:9 final size:9
Alignment explanation
Indices: 8844746--8844831 Score: 59
Period size: 9 Copynumber: 9.6 Consensus size: 9
8844736 ACCAGCATAT
8844746 ACAGCAG-A
1 ACAGCAGCA
*
8844754 AGCAGCAGCT
1 A-CAGCAGCA
* *
8844764 ACTGCAACA
1 ACAGCAGCA
* *
8844773 ACAACAACA
1 ACAGCAGCA
*
8844782 ACAGCAACA
1 ACAGCAGCA
*
8844791 ACAGCGGCA
1 ACAGCAGCA
*
8844800 GCAGCAGCA
1 ACAGCAGCA
8844809 ACAGCAGCA
1 ACAGCAGCA
*
8844818 AGCA-AAGCA
1 A-CAGCAGCA
8844827 ACAGC
1 ACAGC
8844832 TGTCCACTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
8 3 0.05
9 54 0.90
10 3 0.05
ACGTcount: A:0.45, C:0.31, G:0.21, T:0.02
Consensus pattern (9 bp):
ACAGCAGCA
Found at i:8850581 original size:15 final size:15
Alignment explanation
Indices: 8850556--8850590 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8850546 GACTCTATTT
*
8850556 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8850570 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8850585 TAATTA
1 TAATTA
8850591 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8854584 original size:31 final size:34
Alignment explanation
Indices: 8854528--8854598 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 34
8854518 ATTTTTATTT
*
8854528 TTATTTATTATTTTATTATTCTATTATAT-TTACC
1 TTATTTATTACTTTATTATTCTATTATATATTA-C
*
8854562 TTATTTATTACTTTA-T-TT-TATTATTTATTAC
1 TTATTTATTACTTTATTATTCTATTATATATTAC
8854593 TTATTT
1 TTATTT
8854599 GTATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 14 0.41
32 5 0.15
33 1 0.03
34 14 0.41
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (34 bp):
TTATTTATTACTTTATTATTCTATTATATATTAC
Found at i:8854587 original size:20 final size:19
Alignment explanation
Indices: 8854520--8854598 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
8854510 GCAACCCAAT
8854520 TTTTATT-TTTATTTA-TTA
1 TTTTATTATTTA-TTACTTA
8854538 TTTTATTATTCTATTA--TA
1 TTTTATTATT-TATTACTTA
8854556 -TTTACCTTATTTATTACTTTA
1 TTTTA--TTATTTATTAC-TTA
8854577 TTTTATTATTTATTACTTA
1 TTTTATTATTTATTACTTA
8854596 TTT
1 TTT
8854599 GTATATTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.08
18 14 0.26
19 16 0.30
20 13 0.25
21 2 0.04
22 4 0.08
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTATTACTTA
Found at i:8854804 original size:22 final size:21
Alignment explanation
Indices: 8854745--8854804 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
8854735 GCCCAGAATG
*
8854745 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCCAAAC-ACCCTATC
*
8854767 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAAACACCC-TATC
8854789 CCTGCA-CCTAAACACC
1 CCTGCAGCC-AAACACC
8854805 ACCCCTCAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.27, C:0.47, G:0.08, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAAACACCCTATC
Found at i:8855917 original size:101 final size:101
Alignment explanation
Indices: 8855728--8855915 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 101
8855718 AGAACATGTG
* * * *
8855728 GGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGCCATCTCTCTTCGCTTCAAAAGGTTCGATGTGT
1 GGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGCCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
*
8855793 TCTTAAGAAAAAAATATAATAAATTAGGAGTCTGCT
66 TCTAAAGAAAAAAATATAATAAATTAGGAGTCTGCT
* * *
8855829 GGGCTGAGTAATCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
1 GGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGCCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
8855894 TCCTAAAGCATAAAAAATATAA
66 T-CTAAAG-A-AAAAAATATAA
8855916 ATAATAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
101 59 0.78
102 5 0.07
103 1 0.01
104 11 0.14
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (101 bp):
GGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGCCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
TCTAAAGAAAAAAATATAATAAATTAGGAGTCTGCT
Found at i:8855922 original size:16 final size:15
Alignment explanation
Indices: 8855903--8855957 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
8855893 TTCCTAAAGC
8855903 ATAAAAAATATAAATA
1 ATAAAAAATA-AAATA
8855919 ATAAATAAATCAAAATCA
1 ATAAA-AAAT-AAAAT-A
*
8855937 A-AATAAATAAAA-A
1 ATAAAAAATAAAATA
8855950 ATAAAAAA
1 ATAAAAAA
8855958 ATATATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 2 0.06
14 5 0.15
15 4 0.12
16 9 0.27
17 10 0.30
18 3 0.09
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAAAATAAAATA
Found at i:8855927 original size:27 final size:26
Alignment explanation
Indices: 8855897--8855954 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
8855887 AATATATTCC
*
8855897 TAAAGCATAAA-AAATATAAATAATAAA
1 TAAAGCA-AAACAAA-ATAAATAAAAAA
*
8855924 TAAATCAAAATCAAAATAAATAAAAAA
1 TAAAGCAAAA-CAAAATAAATAAAAAA
8855951 TAAA
1 TAAA
8855955 AAAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 21 0.78
28 3 0.11
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (26 bp):
TAAAGCAAAACAAAATAAATAAAAAA
Found at i:8856532 original size:15 final size:15
Alignment explanation
Indices: 8856507--8856541 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8856497 GACTCTATTT
*
8856507 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8856521 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8856536 TAATTA
1 TAATTA
8856542 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8858405 original size:15 final size:15
Alignment explanation
Indices: 8858385--8858434 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
8858375 TAATTGTAGT
8858385 GTTTAATGTGTCTTA
1 GTTTAATGTGTCTTA
* *
8858400 GTTTAATGTATGTTA
1 GTTTAATGTGTCTTA
*
8858415 --TTAATATGTCTTA
1 GTTTAATGTGTCTTA
*
8858428 GCTTAAT
1 GTTTAAT
8858435 ACCGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 10 0.36
15 18 0.64
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (15 bp):
GTTTAATGTGTCTTA
Found at i:8859206 original size:22 final size:22
Alignment explanation
Indices: 8859181--8859277 Score: 140
Period size: 22 Copynumber: 4.4 Consensus size: 22
8859171 GTTTGTTTTG
** * *
8859181 TTAGTACGTTAGCCATGAGGGT
1 TTAGTACGTTAAACATGAGAGC
*
8859203 TTAGTTCGTTAAACATGAGAGC
1 TTAGTACGTTAAACATGAGAGC
8859225 TTAGTACGTTAAACATGAGAGC
1 TTAGTACGTTAAACATGAGAGC
*
8859247 TTAGTACGTGAAACATGAGAGC
1 TTAGTACGTTAAACATGAGAGC
8859269 TTAGTACGT
1 TTAGTACGT
8859278 ACTATCAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (22 bp):
TTAGTACGTTAAACATGAGAGC
Found at i:8864810 original size:61 final size:61
Alignment explanation
Indices: 8864729--8864845 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
8864719 AAGGAATTTA
* *
8864729 ATATTAAATTAAATTAAATATTTATCTAGATAGTATTTTATTAATTTAACATTAATATGTG
1 ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAATATGTG
* * *
8864790 ATATTAAATTTAATTTAATATTTATCTACATAATATTTTATTAATTTAATATTAAT
1 ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAAT
8864846 GTGATTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAATATGTG
Found at i:8864837 original size:31 final size:31
Alignment explanation
Indices: 8864740--8864842 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
8864730 TATTAAATTA
* * *
8864740 AATTAAATATTTATCTAGATAGTATTTTATT
1 AATTTAATATTTATCTACATAATATTTTATT
* * ** * **
8864771 AATTTAACA-TTA-ATATGTGATATTAAATTT
1 AATTTAATATTTATCTACATAATATTTTA-TT
8864801 AATTTAATATTTATCTACATAATATTTTATT
1 AATTTAATATTTATCTACATAATATTTTATT
8864832 AATTTAATATT
1 AATTTAATATT
8864843 AATGTGATTA
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 13 0.25
31 23 0.43
32 9 0.17
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTAATATTTATCTACATAATATTTTATT
Found at i:8865082 original size:17 final size:17
Alignment explanation
Indices: 8865060--8865115 Score: 112
Period size: 17 Copynumber: 3.3 Consensus size: 17
8865050 TCGTGATTTT
8865060 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
8865077 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
8865094 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
8865111 GTGAA
1 GTGAA
8865116 CCCACACTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (17 bp):
GTGAAATCTCATTCGAA
Found at i:8865803 original size:12 final size:12
Alignment explanation
Indices: 8865786--8865811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8865776 TATCTCTTTA
8865786 AATTTTGAATTT
1 AATTTTGAATTT
8865798 AATTTTGAATTT
1 AATTTTGAATTT
8865810 AA
1 AA
8865812 ATATTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
AATTTTGAATTT
Found at i:8873627 original size:3 final size:3
Alignment explanation
Indices: 8873621--8873658 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8873611 TTCAAAGCAA
8873621 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8873659 GATACTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8875621 original size:46 final size:46
Alignment explanation
Indices: 8875520--8875861 Score: 613
Period size: 46 Copynumber: 7.5 Consensus size: 46
8875510 CGTATGATCG
* *
8875520 CTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
8875563 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
8875609 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGA-CTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
8875654 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
8875700 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
8875745 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
8875791 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
8875837 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
8875862 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
43 8 0.03
44 5 0.02
45 108 0.38
46 167 0.58
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
Found at i:8875638 original size:91 final size:91
Alignment explanation
Indices: 8875520--8875861 Score: 618
Period size: 91 Copynumber: 3.8 Consensus size: 91
8875510 CGTATGATCG
* *
8875520 CTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
8875583 TCAGATAAGTGTAGCTAAAGCTACCA
66 TCAGATAAGTGTAGCTAAAGCTACCA
*
8875609 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGACTACCACTTATCACTTTTTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAG-CTACCACTTATCACTTTGTCACTTG
8875673 ATCAGATAAGTGTAGCTAAAGCTACCA
65 ATCAGATAAGTGTAGCTAAAGCTACCA
8875700 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
8875765 TCAGATAAGTGTAGCTAAAGCTACCA
66 TCAGATAAGTGTAGCTAAAGCTACCA
8875791 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTG
8875856 ATCAGA
65 ATCAGA
8875862 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 4, Indels: 7
0.96 0.02 0.03
Matches are distributed among these distances:
89 8 0.03
90 6 0.02
91 194 0.80
92 36 0.15
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (91 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTGTAGCTAAAGCTACCA
Found at i:8875712 original size:137 final size:137
Alignment explanation
Indices: 8875520--8875861 Score: 611
Period size: 137 Copynumber: 2.5 Consensus size: 137
8875510 CGTATGATCG
* *
8875520 CTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
*
8875582 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAG
66 ATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
8875647 A-CTACCA
130 AGCTACCA
*
8875654 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
8875719 ATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
66 ATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
8875784 GCTACCA
131 GCTACCA
8875791 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
8875856 ATCAGA
66 ATCAGA
8875862 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
134 8 0.04
135 4 0.02
136 67 0.34
137 120 0.60
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (137 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
ATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
GCTACCA
Found at i:8880803 original size:15 final size:15
Alignment explanation
Indices: 8880785--8880815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8880775 AAAAATGACG
8880785 AAATGAAAAAATAAA
1 AAATGAAAAAATAAA
*
8880800 AAATGAAAAAGTAAA
1 AAATGAAAAAATAAA
8880815 A
1 A
8880816 TAAAGAGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAATGAAAAAATAAA
Found at i:8882313 original size:132 final size:132
Alignment explanation
Indices: 8882076--8882884 Score: 1280
Period size: 132 Copynumber: 6.1 Consensus size: 132
8882066 GTGAAACACT
*
8882076 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
*
8882141 TAGTGGAGCAGATTGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
8882206 TC
131 CC
8882208 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
* * * *
8882273 TAGTGGAGTAGATCAAAGACAGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
8882338 CC
131 CC
* * * *
8882340 AAGCCTTGTCTCCCTGAGCAGCATCGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
* *
8882405 TAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
8882470 CC
131 CC
* *
8882472 AATCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
** *
8882537 TAGTGGAGCAGATCGAAGATAGCAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
8882602 CC
131 CC
* * *
8882604 AAGCCTTGTCTCCCTGAGCAACAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG-AA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
* * *
8882668 GTAGTGGAGCAGATCGAATACGGTAAATCTTATCTTTCCAAGATGGTGGGAAGCAGATTTAAGCC
66 -TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
*
8882733 ACT
130 ACC
* * * *
8882736 AAGTCTTGTCTCCTTGAGCAGCAACAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG-AA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
* * *
8882800 GTAGTGGAGCAGATCGAAGACGACAAATCATATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCC
66 -TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
8882865 ACC
130 ACC
* *
8882868 AAACCTTATCTCCCTGA
1 AAGCCTTGTCTCCCTGA
8882885 AGTTGCAGTG
Statistics
Matches: 622, Mismatches: 54, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
131 1 0.00
132 621 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:8883090 original size:84 final size:84
Alignment explanation
Indices: 8882875--8883100 Score: 212
Period size: 84 Copynumber: 2.7 Consensus size: 84
8882865 ACCAAACCTT
* * *
8882875 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TTGGATCTTATCCTT-CTGAAGTTGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-AATCTTAT-CTTCCTGAAGTTGCAGA
* * ** * **
8882938 GAGCAGATTGCATCTAGTCTT
64 GAGCAGACTGAAGATAGGCAA
* * * *
8882959 ATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGCAAGCA-AGTCTTATCTTCCTGAAGTTGCATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CG-ATAATCTTATCTTCCTGAAGTTGCA--
8883022 GA-AGCAGACTGAAGAT-GGCAA
62 GAGAGCAGACTGAAGATAGGCAA
* *
8883043 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTATCTTCCTGAAGTT
8883101 ACAGTGGAGC
Statistics
Matches: 114, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
83 7 0.06
84 91 0.80
85 14 0.12
86 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (84 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTATCTTCCTGAAGTTGCAGAGA
GCAGACTGAAGATAGGCAA
Found at i:8883131 original size:128 final size:127
Alignment explanation
Indices: 8882958--8883197 Score: 283
Period size: 128 Copynumber: 1.9 Consensus size: 127
8882948 CATCTAGTCT
** *
8882958 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAGCAAGTCTTATCT-TCCTGAAGTTGCATT
1 TATCTCCCTGAAGTTACAGTGGAGCAGACTAA-CAAGCAAGTCTTATCTCT-CTAAAGTTGCA--
8883022 GA-AGCAGA-CTGAAGATGG-CAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAAT
62 GAGAGCAGATC-GAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAAT
8883084 CC
126 CC
* * *
8883086 TATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AATCACAGATCTTATCTCTCTAAAGTTGCAGA
1 TATCTCCCTGAAGTTACAGTGGAGCAGACTAACAAGCA-AG-TCTTATCTCTCTAAAGTTGCAGA
* ** **
8883150 GAGCAGATCGCATCTGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
64 GAGCAGATCGAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGA
8883198 CTGAGTAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
126 6 0.06
127 13 0.14
128 75 0.79
129 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGACTAACAAGCAAGTCTTATCTCTCTAAAGTTGCAGAGA
GCAGATCGAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
Found at i:8883223 original size:44 final size:45
Alignment explanation
Indices: 8882953--8883281 Score: 171
Period size: 44 Copynumber: 7.6 Consensus size: 45
8882943 GATTGCATCT
*
8882953 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-GCAAGC-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATG-AA-CAA
* * *
8882997 AGTCTTATCTTCCTGAAGTTGCATTGAAGCAGACTGAA-G----A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * ** * * *
8883037 TGGCAAATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAG-CCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAAC-A-A
* * * * *
8883082 A-TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA--AATCAC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAA-CAA
* * * * *
8883124 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCAT---C-T
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAATGAACAA
* * *
8883165 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGT-AAGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * *
8883209 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATGAACAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * *
8883254 A-TCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
8883282 TGGATTAGAA
Statistics
Matches: 217, Mismatches: 49, Indels: 38
0.71 0.16 0.12
Matches are distributed among these distances:
39 3 0.01
40 48 0.22
41 10 0.05
42 3 0.01
43 8 0.04
44 136 0.63
45 9 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
Found at i:8883618 original size:17 final size:18
Alignment explanation
Indices: 8883604--8883666 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
8883594 ATAATCTTCG
8883604 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
8883622 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
* *
8883641 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
8883660 A-GATATG
1 AGGATATG
8883667 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.14
18 1 0.02
19 35 0.83
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:8883630 original size:19 final size:19
Alignment explanation
Indices: 8883606--8883659 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
8883596 AATCTTCGAG
8883606 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8883625 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8883644 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
8883660 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8883685 original size:22 final size:22
Alignment explanation
Indices: 8883619--8883682 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
8883609 ATGCAATCTT
*
8883619 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
8883638 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
8883660 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
8883683 GATCTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:8883692 original size:22 final size:23
Alignment explanation
Indices: 8883648--8883692 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8883638 AGATATGATA
*
8883648 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
8883671 TGTAATCTTAG-AGATCTAATTT
1 TGTAATCTTAGAAGATATAATTT
8883693 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:8883695 original size:21 final size:23
Alignment explanation
Indices: 8883638--8883695 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
8883628 ATGCAATCTT
*
8883638 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
8883660 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
8883682 AGATCT-AATTTGTA
1 AGATATGAATTTGTA
8883696 GATACCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 12 0.39
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:8884118 original size:3 final size:3
Alignment explanation
Indices: 8884097--8884173 Score: 115
Period size: 3 Copynumber: 26.0 Consensus size: 3
8884087 GTTTTTAGTC
8884097 TAT T-T TAT TAAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8884140 TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
8884174 ACCTACATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.09
3 57 0.83
4 6 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8884544 original size:2 final size:2
Alignment explanation
Indices: 8884537--8884576 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8884527 TTATGTATTT
8884537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8884577 AGTTTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8892375 original size:10 final size:12
Alignment explanation
Indices: 8892347--8892389 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
8892337 AAAGATATAT
8892347 AATATATTCCTA
1 AATATATTCCTA
8892359 AATATATTCCTA
1 AATATATTCCTA
*
8892371 AATATATTCTTA
1 AATATATTCCTA
8892383 AATATAT
1 AATATAT
8892390 GGAAAGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:8902188 original size:3 final size:3
Alignment explanation
Indices: 8902180--8902233 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
8902170 TTAATTTTCC
* *
8902180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
8902225 TAT T-T TAT T
1 TAT TAT TAT T
8902234 TTTGTAGGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:8915787 original size:5 final size:5
Alignment explanation
Indices: 8915777--8915816 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
8915767 TACAGAAGCA
8915777 TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC
1 TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC
8915817 CCTACAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TTCAC
Found at i:8922098 original size:37 final size:37
Alignment explanation
Indices: 8922006--8922199 Score: 187
Period size: 37 Copynumber: 5.3 Consensus size: 37
8921996 GTGTTGTATG
* **
8922006 CTGAATGAAGCTCAAAC-GAGCAAAATCTACTAATATA
1 CTGAATAAAGCTC-AACTGAGCAAAATCTACGGATATA
* * *
8922043 CT-AA-AAAGCTTAAGTGAGCCAAATCTACGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* *
8922078 GTGAATAAAGCTCAACTGAGCAAAATCTATGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* * * *
8922115 TTGAATAAATCTCAATTGAGCGAAATCTACGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* * *** *
8922152 CTAAATAAAGCTAAACTGAGCGTTATCTACTGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
*
8922189 CTAAATAAAGC
1 CTGAATAAAGC
8922200 CCAATCGAGC
Statistics
Matches: 130, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
34 2 0.02
35 23 0.18
36 4 0.03
37 101 0.78
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (37 bp):
CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
Found at i:8922180 original size:74 final size:74
Alignment explanation
Indices: 8922013--8922197 Score: 207
Period size: 74 Copynumber: 2.5 Consensus size: 74
8922003 ATGCTGAATG
* * * *
8922013 AAGCTCAAAC-GAGCAAAATCTACTAATATACT-AA-AAAGCTTAAGTGAGCCAAATCTACGGAT
1 AAGCT-AAACTGAGCAAAATCTACTGATATACTAAATAAATCTCAATTGAGCCAAATCTACGGAT
* *
8922075 ATAGTGAATA
65 ATACTAAATA
* * * *
8922085 AAGCTCAACTGAGCAAAATCTA-TGGATATATTGAATAAATCTCAATTGAGCGAAATCTACGGAT
1 AAGCTAAACTGAGCAAAATCTACT-GATATACTAAATAAATCTCAATTGAGCCAAATCTACGGAT
8922149 ATACTAAATA
65 ATACTAAATA
***
8922159 AAGCTAAACTGAGCGTTATCTACTGATATACTAAATAAA
1 AAGCTAAACTGAGCAAAATCTACTGATATACTAAATAAA
8922198 GCCCAATCGA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
71 4 0.04
72 23 0.25
73 2 0.02
74 63 0.68
75 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (74 bp):
AAGCTAAACTGAGCAAAATCTACTGATATACTAAATAAATCTCAATTGAGCCAAATCTACGGATA
TACTAAATA
Found at i:8922215 original size:37 final size:37
Alignment explanation
Indices: 8922139--8922231 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
8922129 ATTGAGCGAA
* * *
8922139 ATCTACGGATATACTAAATAAAGCTAAACTGAGCGTT
1 ATCTACTGATATACTAAATAAAGCCAAACTGAGCATT
*
8922176 ATCTACTGATATACTAAATAAAGCCCAA-TCGAGCATT
1 ATCTACTGATATACTAAATAAAGCCAAACT-GAGCATT
* *
8922213 ATCTATTGATTATATTAAA
1 ATCTACTGA-TATACTAAA
8922232 CTACTGTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 39 0.81
38 8 0.17
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (37 bp):
ATCTACTGATATACTAAATAAAGCCAAACTGAGCATT
Found at i:8928362 original size:22 final size:22
Alignment explanation
Indices: 8928334--8928377 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8928324 AACCTAAGAA
8928334 CTCTAAGTAGAATGCACTACAC
1 CTCTAAGTAGAATGCACTACAC
8928356 CTCTAAGTAGAATGCACTACAC
1 CTCTAAGTAGAATGCACTACAC
8928378 TTAACCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (22 bp):
CTCTAAGTAGAATGCACTACAC
Found at i:8928574 original size:11 final size:11
Alignment explanation
Indices: 8928560--8928584 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8928550 AAACTTATAA
8928560 AACAATTTTAT
1 AACAATTTTAT
8928571 AACAATTTTAT
1 AACAATTTTAT
8928582 AAC
1 AAC
8928585 TGCAACTTTA
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (11 bp):
AACAATTTTAT
Found at i:8931240 original size:16 final size:16
Alignment explanation
Indices: 8931219--8931249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8931209 TAATTTCAAA
*
8931219 TTATATGTTTTATTAT
1 TTATATGTATTATTAT
8931235 TTATATGTATTATTA
1 TTATATGTATTATTA
8931250 GTTTTAATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATATGTATTATTAT
Found at i:8937775 original size:22 final size:21
Alignment explanation
Indices: 8937748--8937790 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8937738 ATAATAACAT
* *
8937748 ATGAAATATGTATAATATTAAA
1 ATGAAAAATATAT-ATATTAAA
8937770 ATGAAAAATATATATATTAAA
1 ATGAAAAATATATATATTAAA
8937791 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
ATGAAAAATATATATATTAAA
Found at i:8945349 original size:21 final size:22
Alignment explanation
Indices: 8945325--8945370 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
8945315 TTTTAATAAG
8945325 TTTTTATCA-CTTA--TTTTTA
1 TTTTTATCATCTTAGTTTTTTA
*
8945344 TATTTTATCATTTTAGTTTTTTA
1 T-TTTTATCATCTTAGTTTTTTA
8945367 TTTT
1 TTTT
8945371 CCCTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.05
20 8 0.36
21 3 0.14
22 3 0.14
23 7 0.32
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTATCATCTTAGTTTTTTA
Found at i:8950809 original size:46 final size:46
Alignment explanation
Indices: 8950751--8950875 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
8950741 TCTGAGGCCT
* * *
8950751 AGCATTTGTTGCGAACTTGAGAATACAAGAATAGGTTCCGAGCTTC
1 AGCATATGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
* * **
8950797 AGTA-AGTGTTGCGGACTCGAGAATACAAGTTTAGGTTCCGAGCTCC
1 AGCATA-TGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
* *
8950843 TGCATATGTTGCGGACTTGAGAATATAAGAATA
1 AGCATATGTTGCGGACTTGAGAATACAAGAATA
8950876 TTAAGCCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
46 63 0.98
47 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (46 bp):
AGCATATGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
Found at i:8957858 original size:2 final size:2
Alignment explanation
Indices: 8957851--8957898 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
8957841 TGAATGATGA
8957851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8957893 A- AT AT A
1 AT AT AT A
8957899 GGTAAAGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8960497 original size:7 final size:7
Alignment explanation
Indices: 8960485--8960541 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
8960475 TGGGATATAA
8960485 GGGTTAG
1 GGGTTAG
8960492 GGGTTAG
1 GGGTTAG
8960499 GGGTTAAG
1 GGGTT-AG
*
8960507 GGTTTAG
1 GGGTTAG
** *
8960514 GATTTAA
1 GGGTTAG
8960521 GGGTTAG
1 GGGTTAG
8960528 GGGTTAAG
1 GGGTT-AG
8960536 GGGTTA
1 GGGTTA
8960542 ATGATTTAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
7 29 0.69
8 13 0.31
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (7 bp):
GGGTTAG
Found at i:8960508 original size:15 final size:15
Alignment explanation
Indices: 8960485--8960541 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
8960475 TGGGATATAA
8960485 GGGTT-AGGGGTTAG
1 GGGTTAAGGGGTTAG
*
8960499 GGGTTAAGGGTTTAG
1 GGGTTAAGGGGTTAG
**
8960514 GATTTAA-GGGTTAG
1 GGGTTAAGGGGTTAG
8960528 GGGTTAAGGGGTTA
1 GGGTTAAGGGGTTA
8960542 ATGATTTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (15 bp):
GGGTTAAGGGGTTAG
Found at i:8960524 original size:29 final size:29
Alignment explanation
Indices: 8960492--8960554 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
8960482 TAAGGGTTAG
*
8960492 GGGTTAGGGGTTAA-GGGTTTAGGATTTAA
1 GGGTTAGGGGTTAAGGGGTTAAGGATTT-A
*
8960521 GGGTTAGGGGTTAAGGGGTTAATGATTTA
1 GGGTTAGGGGTTAAGGGGTTAAGGATTTA
8960550 GGGTT
1 GGGTT
8960555 TAAGAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (29 bp):
GGGTTAGGGGTTAAGGGGTTAAGGATTTA
Found at i:8960531 original size:36 final size:36
Alignment explanation
Indices: 8960444--8960558 Score: 131
Period size: 36 Copynumber: 3.2 Consensus size: 36
8960434 GCCGTGCTAT
* * * * * *
8960444 TTTAAGGATTAGGGGGTATGGATTTAGGGTTTGGGA
1 TTTAAGGGTTAGGGGTTAGGGGTTAAGGGTTTAGGA
*
8960480 TATAAGGGTTAGGGGTTAGGGGTTAAGGGTTTAGGA
1 TTTAAGGGTTAGGGGTTAGGGGTTAAGGGTTTAGGA
* * *
8960516 TTTAAGGGTTAGGGGTTAAGGGGTTAATGATTTAGGG
1 TTTAAGGGTTAGGGGTT-AGGGGTTAAGGGTTTAGGA
8960553 TTTAAG
1 TTTAAG
8960559 AATTCAAGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
36 45 0.67
37 22 0.33
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (36 bp):
TTTAAGGGTTAGGGGTTAGGGGTTAAGGGTTTAGGA
Found at i:8961446 original size:270 final size:270
Alignment explanation
Indices: 8960895--8961576 Score: 857
Period size: 270 Copynumber: 2.5 Consensus size: 270
8960885 TAGTTAAACT
* * * * * *
8960895 TTTAGTGGCGTTTTTTTGAAATCGCCGTAAATATTGGATGCATTAGTGACGTTTTTACAAG-AAA
1 TTTAGTGGCG-TTTTTGGAAAACGCCGAAAAT-TTGGAAGCAATAGTGGCGTTTTTAC-AGTAAA
* * ** * * * * *
8960959 CGCCGCAAAAGTGTCTTAAAATTTTGAGTAAACGACACCGTTTCTCTCCACGATTTTTAACTTAT
63 CGCCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAA
* * ** *
8961024 AAAAAGTTTAGAATTATTTACTTAAAACGTCACCGTTTGGCTTAAAGTACGTTAAGTATTAGTGC
128 AAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGC
* ** * * * **
8961089 CGTTTTAACATAAAATGCTAGAAATAATGCAATTTGAGAGTAGCAAAACGGCGCCGTTTCTGTTT
193 CATTTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTT
*
8961154 ACGACTTTAAATA
258 ACAACTTTAAATA
* * * *
8961167 TTT-GTGGCGTTTTTGGCAAAACGCCGGAACTTTGGAAGCAATAGCGGCGTTTGTACAGTAAACG
1 TTTAGTGGCGTTTTTGG-AAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
**
8961231 CCGCAAAAGGGTATTAAAATAATGTCTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
65 CCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
* * *
8961296 AAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTTAAAGTAAATTAAGTATTAATGGCA
130 AAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGCCA
* *
8961361 TTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCTGTTTCCCTTTAC
195 TTTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTAC
8961426 AACTTT-AATA
260 AACTTTAAATA
*
8961436 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
1 TTTAGTGGCGTTTTT-GGAAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
* * * * ** * *
8961501 CCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGCCGTTTCTGTGTACGGTTTTTAACTTAGAA
65 CCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
8961566 AAATTTTAGAA
130 AAATTTTAGAA
8961577 ATCAAGTATT
Statistics
Matches: 353, Mismatches: 53, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
269 9 0.03
270 322 0.91
271 19 0.05
272 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (270 bp):
TTTAGTGGCGTTTTTGGAAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACGC
CGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAAA
AATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGCCAT
TTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTACA
ACTTTAAATA
Found at i:8961757 original size:233 final size:233
Alignment explanation
Indices: 8961342--8961809 Score: 695
Period size: 233 Copynumber: 2.0 Consensus size: 233
8961332 GGGTTAAAGT
* * *
8961342 AAATTAAGTATTAATGGCATTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
**
8961407 CGACGCTGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
66 CGACGCTCATTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
* * * * * * **
8961472 AAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
* ** *
8961537 CGTTTCTGTGTACGGTTTTTAACTTAGAAAAATTTTAG
196 CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
* * * *
8961575 AAATCAAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
*
8961640 CGGCG-TCATTCCTCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTG
66 CGACGCTCATTCC-CTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTG
* * *
8961704 TAAGCAATAGCGGCGTTTGTACCGAAAATGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
130 GAAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
8961769 CCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
195 CCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
8961808 AA
1 AA
8961810 TTATTTATTT
Statistics
Matches: 209, Mismatches: 25, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
232 5 0.02
233 204 0.98
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
CGACGCTCATTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
AAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:8962044 original size:503 final size:503
Alignment explanation
Indices: 8961077--8962065 Score: 1272
Period size: 503 Copynumber: 2.0 Consensus size: 503
8961067 AAAGTACGTT
* * * * *
8961077 AAGTATTAGTGCCGTTTTAACATAAAATGCTAGAAATAATGCAATTTGAGAGTAGCAAAACGGCG
1 AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
* * * * * * *
8961142 CCGTTTCTGTTTACGACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGGAACTTTGGAAGCA
66 CCATTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGAAAATGTGGAAGCA
* * * *
8961207 ATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGTCTAAACGGCGCCGTTT
131 ATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGTTT
* * **
8961272 CTGTACACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTT
196 CCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
* * * *
8961337 AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAA
261 AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
*
8961402 CAAAACGACGCTGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
326 CAAAACGACGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
* *
8961467 TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAAC
391 TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAATAATGGCTAAAC
** ** *
8961532 GGTGCCGTTTCTGTGTACGGTTTTTAACTTAGAAAAATTTTAGAAATC
456 GACGCCGTTTCTCCGGACGGTTTTTAACTTAGAAAAATTTTAGAAATC
* * *
8961580 AAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
1 AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
* *
8961645 TCATTCCTCTTTACAACTTT-AATATTTAGTGGCGTTTTTAGG-AAAACGCCGAAAATGTGTAAG
66 CCATTCCTCTTTACAACTTTAAATATTT-GTGGCGTTTTT-GGCAAAACGCCGAAAATGTGGAAG
* * *
8961708 CAATAGCGGCGTTTGTACCGAAAATGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGCCGT
129 CAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGT
* *
8961773 TTCCGTAAACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACGTCACCGTTTGAC
194 TTCCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGAC
* * * * *
8961838 TTAAAGTAAATTAAGTGTTAGTGGCGTTTTTACATTAAACGCCACAAAAAATGCAATTTCAGACT
259 TTAAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACT
* * *** * * **
8961903 AACAGAACGGCGCCGTTTTTGTTTACAAGTTTAATCTATT-GTGGCGTTTTGTCTGAAAACGCCG
324 AACAAAACGACGCCGTTTCCCTTTACAACTTTAATAT-TTAGTGGCGTTTT-TAGGAAAACGCCG
* * * * * ** *
8961967 GAAATGTGGAA-TAAGTA-TGGCGTTTGTT-CGAG-AATCGCCGCAAATGTGTATTAGAATTTTT
387 AAAATGTGGAAGCAA-TAGTGGCGTTT-TTAC-AGTAAACGCCGCAAAAGGGTATTAGAATAATG
* *
8962028 GCTGAACGACGCCGTTTCTCCGGACGTTTTTTAACTTA
449 GCTAAACGACGCCGTTTCTCCGGACGGTTTTTAACTTA
8962066 TCATTTACTC
Statistics
Matches: 413, Mismatches: 66, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
502 7 0.02
503 375 0.91
504 31 0.08
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (503 bp):
AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
CCATTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGAAAATGTGGAAGCA
ATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGTTT
CCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
CAAAACGACGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAATAATGGCTAAAC
GACGCCGTTTCTCCGGACGGTTTTTAACTTAGAAAAATTTTAGAAATC
Found at i:8962590 original size:60 final size:60
Alignment explanation
Indices: 8962519--8962642 Score: 223
Period size: 60 Copynumber: 2.1 Consensus size: 60
8962509 GTGAATTTTG
* *
8962519 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAATTTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
8962579 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
8962639 -GAAT
1 TGAAT
8962643 GAATTTTGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 4 0.06
60 58 0.94
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:8963047 original size:23 final size:23
Alignment explanation
Indices: 8962995--8963047 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
8962985 TTTTTTTTTT
* *
8962995 TTTGCT-TGCATTTCTTTGCTTA
1 TTTGCTCTACATTTCTTCGCTTA
8963017 TCTT-CTCTACATTTCTTCGCTTA
1 T-TTGCTCTACATTTCTTCGCTTA
8963040 TTTGCTCT
1 TTTGCTCT
8963048 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.09, C:0.25, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTGCTCTACATTTCTTCGCTTA
Found at i:8964203 original size:52 final size:53
Alignment explanation
Indices: 8964125--8964227 Score: 133
Period size: 53 Copynumber: 1.9 Consensus size: 53
8964115 TTTTAATATA
8964125 TTTTTAAAATTTAATTTAACTTATTAC-TAATATATATATTGTTAA-TATATAAT
1 TTTTTAAAATTTAATTTAAC-TATTACTTAA-ATATATATTGTTAAGTATATAAT
*
8964178 TTTTTAAAATTTATATCTT-AC-ATTACTTAAATATATATTTTTAAGTATAT
1 TTTTTAAAATTTA-AT-TTAACTATTACTTAAATATATATTGTTAAGTATAT
8964228 TTTACATTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
52 18 0.40
53 21 0.47
54 4 0.09
55 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (53 bp):
TTTTTAAAATTTAATTTAACTATTACTTAAATATATATTGTTAAGTATATAAT
Found at i:8964281 original size:13 final size:13
Alignment explanation
Indices: 8964265--8964363 Score: 83
Period size: 13 Copynumber: 7.5 Consensus size: 13
8964255 TTACTAAAAT
*
8964265 TTACTTTAATATA
1 TTACTTAAATATA
*
8964278 TTACTTGAATATA
1 TTACTTAAATATA
*
8964291 TTACTTAAATAAA
1 TTACTTAAATATA
*
8964304 TTACTTAAATACA
1 TTACTTAAATATA
* *
8964317 TCACTTACTAAAAT-
1 TTACTTA--AATATA
** *
8964331 TTGGTTAAATTTA
1 TTACTTAAATATA
*
8964344 TTACTTAAATACA
1 TTACTTAAATATA
8964357 TTACTTA
1 TTACTTA
8964364 CTAAAATTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.85
14 4 0.06
15 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:8964339 original size:40 final size:40
Alignment explanation
Indices: 8964295--8964372 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
8964285 AATATATTAC
8964295 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
** *
8964335 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTT
8964373 AAGTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (40 bp):
TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
Found at i:8964398 original size:9 final size:9
Alignment explanation
Indices: 8964386--8964658 Score: 153
Period size: 9 Copynumber: 31.0 Consensus size: 9
8964376 TATATATTAT
*
8964386 ATAACTTAA
1 ATAACTTAC
8964395 ATAACTTAC
1 ATAACTTAC
*
8964404 ACAACTTAC
1 ATAACTTAC
8964413 ATAACTTAC
1 ATAACTTAC
8964422 ATAA--TAC
1 ATAACTTAC
*
8964429 ATAACTCT-G
1 ATAACT-TAC
*
8964438 ATAACTAAC
1 ATAACTTAC
*
8964447 ATTA--TAC
1 ATAACTTAC
*
8964454 ACAACTTAC
1 ATAACTTAC
* *
8964463 GTAA--GAC
1 ATAACTTAC
*
8964470 ATTACTTAC
1 ATAACTTAC
8964479 ATAACTTAC
1 ATAACTTAC
8964488 ATTATGCACCCTTTAC
1 A-TA---A--C-TTAC
8964504 ATAACTTAC
1 ATAACTTAC
8964513 ATAACTTAC
1 ATAACTTAC
* *
8964522 ACAGCTTAC
1 ATAACTTAC
*
8964531 AT-TC-TAC
1 ATAACTTAC
*
8964538 ACAACTTAC
1 ATAACTTAC
*
8964547 ATAACATAC
1 ATAACTTAC
* **
8964556 ATTACTTTG
1 ATAACTTAC
8964565 ATAACTTAC
1 ATAACTTAC
8964574 ATAACTTAC
1 ATAACTTAC
8964583 ATAA--TAC
1 ATAACTTAC
*
8964590 ACAACTTAC
1 ATAACTTAC
*
8964599 ATAGCTTAC
1 ATAACTTAC
*
8964608 TTAA--TAC
1 ATAACTTAC
8964615 ATAACTTAC
1 ATAACTTAC
8964624 ATAACTT--
1 ATAACTTAC
*
8964631 ATACACGTAC
1 ATA-ACTTAC
*
8964641 GTAACTTAC
1 ATAACTTAC
*
8964650 ATAATTTAC
1 ATAACTTAC
8964659 TTAATACATA
Statistics
Matches: 197, Mismatches: 43, Indels: 48
0.68 0.15 0.17
Matches are distributed among these distances:
7 34 0.17
8 5 0.03
9 142 0.72
10 6 0.03
12 1 0.01
13 1 0.01
15 3 0.02
16 5 0.03
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:8964538 original size:25 final size:26
Alignment explanation
Indices: 8964510--8964669 Score: 132
Period size: 25 Copynumber: 6.3 Consensus size: 26
8964500 TTACATAACT
* * *
8964510 TACATAACTTACACAGCTTACATT-C
1 TACATAACTTACATAACTTACATTAA
* * *
8964535 TACACAACTTACATAACATACATTACT
1 TACATAACTTACATAACTTACATTA-A
**
8964562 TTGATAACTTACATAACTTACA-TAA
1 TACATAACTTACATAACTTACATTAA
* *
8964587 TACACAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
* * *
8964612 TACATAACTTACATAACTTATA-CACG
1 TACATAACTTACATAACTTACATTA-A
* *
8964638 TACGTAACTTACATAATTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
8964663 TACATAA
1 TACATAA
8964670 ATATATATCA
Statistics
Matches: 104, Mismatches: 25, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
25 65 0.62
26 21 0.20
27 18 0.17
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATTAA
Found at i:8964557 original size:52 final size:52
Alignment explanation
Indices: 8964501--8964631 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 52
8964491 ATGCACCCTT
* **
8964501 TACATAACTTACATAACTTACACAGCTTACATTCTACACAACTTACATAACA
1 TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
* ** * * *
8964553 TACATTACTTTGATAACTTACATAACTTACATAATACACAACTTACATAGCT
1 TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
* *
8964605 TACTTAA--TACATAACTTACATAACTTA
1 TACATAACTTACATAACTTACACAACTTA
8964632 TACACGTACG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
50 18 0.27
52 48 0.73
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (52 bp):
TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
Found at i:8964607 original size:34 final size:33
Alignment explanation
Indices: 8964500--8964654 Score: 100
Period size: 34 Copynumber: 4.5 Consensus size: 33
8964490 TATGCACCCT
* *
8964500 TTACATAACTTACATAACTTACACAGCTTACATTC
1 TTACATAACTTACATAA--TACACAACTTACATAC
* ** **
8964535 -TACACAACTTACATAACATACATTACTTTGATAAC
1 TTACATAACTTACAT-A-ATACACAACTTACAT-AC
8964570 TTACATAACTTACATAATACACAACTTACATAGC
1 TTACATAACTTACATAATACACAACTTACATA-C
* * * *
8964604 TTACTTAA--TACATAACTTACATAACTTATACAC
1 TTACATAACTTACATAA--TACACAACTTACATAC
* *
8964637 GTACGTAACTTACATAAT
1 TTACATAACTTACATAAT
8964655 TTACTTAATA
Statistics
Matches: 93, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
32 7 0.08
33 9 0.10
34 53 0.57
35 10 0.11
36 14 0.15
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (33 bp):
TTACATAACTTACATAATACACAACTTACATAC
Found at i:8970612 original size:114 final size:114
Alignment explanation
Indices: 8970490--8970987 Score: 737
Period size: 114 Copynumber: 4.4 Consensus size: 114
8970480 TATTTGCAAG
* * *
8970490 CGCCGCAAAATATCTTAACCAAAACGCATCGTTAGGTCTTGAGGTATATTAGAAGTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * *
8970555 TATGCAAAAATGCCGCTAAAGCACAGTATTAGGGGCGCATTGTAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
*
8970604 CGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
*
8970669 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* *
8970718 CGCCACAAAATATCTTAATCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * *
8970783 TATGGAAAAACACCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
8970832 CACCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * * * * *
8970897 TATGAAAAAATGCCGCTAAATCACAGTATTAGCGGCGCTTTGTGAAAAG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
8970946 CGTCGCAAAATATCTTAACCAAAAC-AAAGTGTTTGGTCTTGA
1 CGCCGCAAAATATCTTAACCAAAACGCAA-CGTTTGGTCTTGA
8970988 TTTATAGAGC
Statistics
Matches: 346, Mismatches: 37, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
113 1 0.00
114 345 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
Found at i:8971485 original size:7 final size:7
Alignment explanation
Indices: 8971475--8971549 Score: 64
Period size: 7 Copynumber: 11.0 Consensus size: 7
8971465 AGAGTTTTGA
8971475 GTTTAGG
1 GTTTAGG
*
8971482 GTTTATG
1 GTTTAGG
* *
8971489 ATGTA-G
1 GTTTAGG
8971495 GTTTA-G
1 GTTTAGG
*
8971501 GTTTGGG
1 GTTTAGG
*
8971508 GTTTAAG
1 GTTTAGG
*
8971515 GTTTGGG
1 GTTTAGG
*
8971522 GTTTAAG
1 GTTTAGG
*
8971529 GTTTGGG
1 GTTTAGG
8971536 GTTTAGG
1 GTTTAGG
8971543 GTTTAGG
1 GTTTAGG
8971550 CCGCTTTAGT
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
6 9 0.17
7 43 0.83
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:8971518 original size:14 final size:14
Alignment explanation
Indices: 8971494--8971546 Score: 90
Period size: 14 Copynumber: 3.9 Consensus size: 14
8971484 TTATGATGTA
8971494 GGTTT-AGGTTTGG
1 GGTTTAAGGTTTGG
8971507 GGTTTAAGGTTTGG
1 GGTTTAAGGTTTGG
8971521 GGTTTAAGGTTTGG
1 GGTTTAAGGTTTGG
*
8971535 GGTTTAGGGTTT
1 GGTTTAAGGTTT
8971547 AGGCCGCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
13 5 0.13
14 33 0.87
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTGG
Found at i:8972139 original size:85 final size:83
Alignment explanation
Indices: 8972010--8972203 Score: 210
Period size: 85 Copynumber: 2.3 Consensus size: 83
8972000 GGAGTTGCTA
* * * * * * *** **
8972010 AAAGAATATGAGCTTTAGCGGCGTTTGTTGGTATGCGTCGCTAAAGGTCATGTTCTTTAGCGGCG
1 AAAGAACATGACCTTTAGCGGCGTTTGCTGGAAAGCGCCGCTAAAAAACATGACCTTTAGCGGCG
**
8972075 TTTGTCGTAGAATTGCCGCT
66 TTT-T-GTAGAAGCGCCGCT
*
8972095 AAAGAACATTACCTTTAGCGGCGTTT-CTGAGAAAGCGCCGCTAAAAAACATGACCTTTAGCGGC
1 AAAGAACATGACCTTTAGCGGCGTTTGCTG-GAAAGCGCCGCTAAAAAACATGACCTTTAGCGGC
* *
8972159 GTTTTTTTGAAGCGCCGCT
65 GTTTTGTAGAAGCGCCGCT
8972178 AAAGAACATGACCTTTAGCGGCGTTT
1 AAAGAACATGACCTTTAGCGGCGTTT
8972204 ATTTCTGTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
83 35 0.38
84 3 0.03
85 53 0.58
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (83 bp):
AAAGAACATGACCTTTAGCGGCGTTTGCTGGAAAGCGCCGCTAAAAAACATGACCTTTAGCGGCG
TTTTGTAGAAGCGCCGCT
Found at i:8972145 original size:42 final size:41
Alignment explanation
Indices: 8971959--8972203 Score: 188
Period size: 42 Copynumber: 5.8 Consensus size: 41
8971949 TGGAAAAAAA
* * *
8971959 CGCCGCTAAAGAACATTA-CTTGTAGCGGCGTTTGTGGAAAAGG
1 CGCCGCTAAAGAACATGACCTT-TAGCGGCGTTTCT-GAGAA-G
* ** * * * *
8972002 AGTTGCTAAAAGAATATGAGCTTTAGCGGCGTTTGTTG-GTATG
1 CGCCGCT-AAAGAACATGACCTTTAGCGGCGTTT-CTGAG-AAG
* ** ** * *
8972045 CGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTCGTAGAAT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCT-G-AGAAG
* *
8972088 TGCCGCTAAAGAACATTACCTTTAGCGGCGTTTCTGAGAAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTGAG-AAG
* * **
8972130 CGCCGCTAAAAAACATGACCTTTAGCGGCGTTTTTTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTGAGAAG
8972171 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
8972204 ATTTCTGTAA
Statistics
Matches: 160, Mismatches: 34, Indels: 18
0.75 0.16 0.08
Matches are distributed among these distances:
41 38 0.24
42 57 0.36
43 38 0.24
44 23 0.14
45 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTGAGAAG
Found at i:8975036 original size:25 final size:24
Alignment explanation
Indices: 8975008--8975072 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
8974998 TACTAAATAA
* * *
8975008 TTAATTAAATTATATAGTATTTATT
1 TTAATTAAATTATATA-AATTAAAT
* *
8975033 TTAAATAACTTATACTAAATTAAAT
1 TTAATTAAATTATA-TAAATTAAAT
*
8975058 TAAATTAAATTATAT
1 TTAATTAAATTATAT
8975073 TTTTTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 1 0.03
25 28 0.90
26 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAATTAAATTATATAAATTAAAT
Found at i:8975567 original size:3 final size:3
Alignment explanation
Indices: 8975561--8975615 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8975551 AAGAAGAGCT
8975561 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8975609 ATA ATA A
1 ATA ATA A
8975616 GTAACAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8984058 original size:24 final size:25
Alignment explanation
Indices: 8984018--8984072 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
8984008 GTTAGATGAC
*
8984018 TAAAATAATTAAGAATT-AATTAAA
1 TAAAATAATTAAAAATTAAATTAAA
8984042 TAAAAT-ATTAAAAAATTAGAATTAAA
1 TAAAATAATT-AAAAATTA-AATTAAA
8984068 -AAAAT
1 TAAAAT
8984073 TAGGTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 5 0.19
26 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAATAATTAAAAATTAAATTAAA
Found at i:8985531 original size:23 final size:22
Alignment explanation
Indices: 8985497--8985589 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 22
8985487 TATGTTGAAA
8985497 GGTATATTGGTTGTGTTTGGAG
1 GGTATATTGGTTGTGTTTGGAG
*
8985519 GGTATACTTGGTTGTGTTCGGAG
1 GGTATA-TTGGTTGTGTTTGGAG
8985542 GGTGAT-TATGGTTGTGTTTGGAG
1 GGT-ATAT-TGGTTGTGTTTGGAG
* *
8985565 GGTAGATTGGTTGTGTTTGGTG
1 GGTATATTGGTTGTGTTTGGAG
8985587 GGT
1 GGT
8985590 GATAGCTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
22 25 0.40
23 36 0.57
24 2 0.03
ACGTcount: A:0.12, C:0.02, G:0.43, T:0.43
Consensus pattern (22 bp):
GGTATATTGGTTGTGTTTGGAG
Found at i:8985590 original size:45 final size:46
Alignment explanation
Indices: 8985504--8985592 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 46
8985494 AAAGGTATAT
*
8985504 TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGAGGGTGATTA
1 TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGATTA
* *
8985550 TGGTTGTGTTTGGAGGGTAGA-TTGGTTGTGTTTGGTGGGTGAT
1 TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGAT
8985593 AGCTTTGTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.11, C:0.02, G:0.44, T:0.43
Consensus pattern (46 bp):
TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGATTA
Found at i:8988608 original size:8 final size:8
Alignment explanation
Indices: 8988587--8988618 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
8988577 TTAATTAGCT
8988587 TAATATAA
1 TAATATAA
8988595 T-A-ATAA
1 TAATATAA
8988601 TAATATAA
1 TAATATAA
8988609 TAATATAA
1 TAATATAA
8988617 TA
1 TA
8988619 TTACTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.23
7 2 0.09
8 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:8988757 original size:14 final size:13
Alignment explanation
Indices: 8988731--8988781 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
8988721 GTTTATTTGA
8988731 AATATAATAATAT
1 AATATAATAATAT
8988744 AATATAATTAATAT
1 AATATAA-TAATAT
* *
8988758 AAT-TTACAATAT
1 AATATAATAATAT
*
8988770 AATAAAATAATA
1 AATATAATAATA
8988782 ATATACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:9000986 original size:25 final size:24
Alignment explanation
Indices: 9000894--9000986 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 24
9000884 AGGATTATCT
*
9000894 ATTCTCAGCTTGTATGAGCTTACCG
1 ATTCTCAGCTCGTA-GAGCTTACCG
* *
9000919 ATT-GCAACTCGTAAGAGCTTACCG
1 ATTCTCAGCTCGT-AGAGCTTACCG
*
9000943 ATTCTCAGCTCATATGAGCTTACC-
1 ATTCTCAGCTCGTA-GAGCTTACCG
*
9000967 ATTTTACAGCTCGTGAGAGC
1 ATTCT-CAGCTCGT-AGAGC
9000987 ATACTAATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
24 24 0.44
25 30 0.55
26 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (24 bp):
ATTCTCAGCTCGTAGAGCTTACCG
Found at i:9003812 original size:24 final size:26
Alignment explanation
Indices: 9003774--9003827 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
9003764 TTATTAAAAA
9003774 TAAAAATATGAATA-TAAAAATT-AT
1 TAAAAATATGAATATTAAAAATTAAT
9003798 TAAAAATAT-ATATATTTAAAAATTAAT
1 TAAAAATATGA-ATA-TTAAAAATTAAT
9003825 TAA
1 TAA
9003828 TTGCTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
26 8 0.31
27 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
TAAAAATATGAATATTAAAAATTAAT
Found at i:9004077 original size:4 final size:4
Alignment explanation
Indices: 9004070--9004094 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9004060 AAAAAAAAAA
9004070 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
9004095 TCAAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:9004714 original size:23 final size:23
Alignment explanation
Indices: 9004653--9004712 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
9004643 ACTTGCAATT
* * *
9004653 TTAAATT-TGAAATATAAATAAA
1 TTAAATTCTAAAATAAAAAAAAA
9004675 TTAAATTCTTTAAAATAAAAAAAATA
1 TTAAATTC--TAAAATAAAAAAAA-A
9004701 TTAAATTCTAAA
1 TTAAATTCTAAA
9004713 TATGCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.23
24 4 0.13
25 11 0.35
26 9 0.29
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAATTCTAAAATAAAAAAAAA
Found at i:9007091 original size:4 final size:4
Alignment explanation
Indices: 9007082--9007164 Score: 84
Period size: 4 Copynumber: 21.0 Consensus size: 4
9007072 AGTCTTTCTC
*
9007082 CTTT CTTT CTTT CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
* *
9007128 C-TT CTTT CTGTTT CTAT CTTT CTTT CTTT ATTT CTTT
1 CTTT CTTT C--TTT CTTT CTTT CTTT CTTT CTTT CTTT
9007165 TTATTACTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
3 9 0.14
4 50 0.76
5 3 0.05
6 4 0.06
ACGTcount: A:0.02, C:0.24, G:0.01, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:9007120 original size:22 final size:22
Alignment explanation
Indices: 9007082--9007156 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
9007072 AGTCTTTCTC
*
9007082 CTTTCTTTCTTTC--TTTCTTT
1 CTTTCCTTCTTTCTGTTTCTTT
*
9007102 CTTTCCCTT-TTTCTTTTTCTTT
1 CTTT-CCTTCTTTCTGTTTCTTT
*
9007124 CTTT-CTTCTTTCTGTTTCTAT
1 CTTTCCTTCTTTCTGTTTCTTT
*
9007145 CTTTCTTTCTTT
1 CTTTCCTTCTTT
9007157 ATTTCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.24
21 18 0.39
22 17 0.37
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.72
Consensus pattern (22 bp):
CTTTCCTTCTTTCTGTTTCTTT
Found at i:9009025 original size:39 final size:39
Alignment explanation
Indices: 9008972--9009086 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
9008962 AATACACCAG
* * *
9008972 CACATAGCTTGCTAGGCACATAGCCTGAATAATCGCCGA
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
* *
9009011 CATAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGG
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
* *
9009050 CACAAAGCCTACTAGGCACATAGCCCGAATAATCACC
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACC
9009087 ATATTTCTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.17
Consensus pattern (39 bp):
CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
Found at i:9010735 original size:46 final size:46
Alignment explanation
Indices: 9010660--9010748 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
9010650 CCCTGAGAGA
* * * *
9010660 ATTCACTATTTTAGTACCTCATACCACAAGTGTATTCAAGCTCAAT
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
* *
9010706 ATTCATTATCTTAATACCTCGTACAACAAGTGTATCCAAGCTC
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTC
9010749 TAACACTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (46 bp):
ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
Found at i:9015229 original size:204 final size:204
Alignment explanation
Indices: 9014872--9015281 Score: 784
Period size: 204 Copynumber: 2.0 Consensus size: 204
9014862 AATCAAAGTT
9014872 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
1 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
* *
9014937 CTCGATATGAGTTAGATTTGGGATCACTTTATGTGAGATTAAAATAGTGTTATTTGTTCAATTAT
66 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
* *
9015002 AGGCTTTGGAGTGCCCTGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAATGCAG
131 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
9015067 AAAATGGGA
196 AAAATGGGA
9015076 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
1 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
9015141 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
66 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
9015206 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
131 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
9015271 AAAATGGGA
196 AAAATGGGA
9015280 TT
1 TT
9015282 CGGCGAAAAG
Statistics
Matches: 202, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 202 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (204 bp):
TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
AAAATGGGA
Found at i:9027725 original size:23 final size:23
Alignment explanation
Indices: 9027695--9027739 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9027685 ATAAAGACAT
9027695 GTGGCAAATAATTATCGTGCCAG
1 GTGGCAAATAATTATCGTGCCAG
*
9027718 GTGGCAAATAATTATTGTGCCA
1 GTGGCAAATAATTATCGTGCCA
9027740 AATGGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGGCAAATAATTATCGTGCCAG
Found at i:9031660 original size:29 final size:29
Alignment explanation
Indices: 9031626--9031684 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
9031616 ACTCTGAAAA
9031626 TATCCTTATTTAATATTTACGAGCTCAGT
1 TATCCTTATTTAATATTTACGAGCTCAGT
*
9031655 TATCCTTATTTAATATTTACGGGCTCAGT
1 TATCCTTATTTAATATTTACGAGCTCAGT
9031684 T
1 T
9031685 TACAAAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (29 bp):
TATCCTTATTTAATATTTACGAGCTCAGT
Found at i:9031792 original size:14 final size:15
Alignment explanation
Indices: 9031776--9031808 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9031766 GAGGAGGTAT
9031776 TATAAATATTTTATTA
1 TATAAATATTTTA-TA
9031792 TATAAATATTTTATA
1 TATAAATATTTTATA
9031807 TA
1 TA
9031809 CTTTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATATTTTATA
Found at i:9034313 original size:16 final size:16
Alignment explanation
Indices: 9034294--9034326 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9034284 GTTCTTTTTC
9034294 ATTGTCTGATGGCTGA
1 ATTGTCTGATGGCTGA
9034310 ATTGTCTGATGGCTGA
1 ATTGTCTGATGGCTGA
9034326 A
1 A
9034327 GGCACAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (16 bp):
ATTGTCTGATGGCTGA
Found at i:9041986 original size:20 final size:20
Alignment explanation
Indices: 9041948--9041987 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9041938 CCTTAAATTG
* *
9041948 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAAACTATTA
9041968 TTTTATTTATAAAACTATTA
1 TTTTATTTATAAAACTATTA
9041988 CATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTTATAAAACTATTA
Found at i:9043518 original size:2 final size:2
Alignment explanation
Indices: 9043505--9043551 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
9043495 TTTAGCTATT
*
9043505 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9043547 TA TA T
1 TA TA T
9043552 TAATTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9043785 original size:23 final size:23
Alignment explanation
Indices: 9043739--9043785 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9043729 GAAAATGAAT
*
9043739 AATTTAAAAAATAAAGAGATTAA
1 AATTTAAAAAATAAAGAGACTAA
*
9043762 AATTTAACAAATAAA-ATGACTAA
1 AATTTAAAAAATAAAGA-GACTAA
9043785 A
1 A
9043786 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATAAAGAGACTAA
Found at i:9046591 original size:9 final size:9
Alignment explanation
Indices: 9046577--9046613 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9046567 TATAGTTTGA
9046577 TATTCGAAT
1 TATTCGAAT
*
9046586 TATTCGAGT
1 TATTCGAAT
*
9046595 TATTCGAGT
1 TATTCGAAT
9046604 TATTCGAAT
1 TATTCGAAT
9046613 T
1 T
9046614 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9057705 original size:2 final size:2
Alignment explanation
Indices: 9057698--9057728 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9057688 TTTTAATTTT
9057698 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9057729 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9057836 original size:2 final size:2
Alignment explanation
Indices: 9057829--9057959 Score: 262
Period size: 2 Copynumber: 65.5 Consensus size: 2
9057819 NNNNNNNNNN
9057829 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9057871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9057913 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9057955 TA TA T
1 TA TA T
9057960 TGGTGAATTA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 129 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9060671 original size:21 final size:22
Alignment explanation
Indices: 9060640--9060696 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
9060630 TTTTAAAAAA
* *
9060640 TTAAAGAAATATAT-CAATATAT
1 TTAAA-AAATATATAAAATAAAT
9060662 TTAAAAAATATATAAAAATAAAT
1 TTAAAAAATATAT-AAAATAAAT
9060685 TTAAAAAATATA
1 TTAAAAAATATA
9060697 ATAACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 18 0.58
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATATAAAATAAAT
Found at i:9060673 original size:13 final size:13
Alignment explanation
Indices: 9060655--9060696 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
9060645 GAAATATATC
9060655 AATATATTTAAAA
1 AATATATTTAAAA
9060668 AATATA--T-AAA
1 AATATATTTAAAA
*
9060678 AATAAATTTAAAA
1 AATATATTTAAAA
9060691 AATATA
1 AATATA
9060697 ATAACAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 1 0.04
13 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATATTTAAAA
Found at i:9060681 original size:23 final size:25
Alignment explanation
Indices: 9060655--9060716 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 25
9060645 GAAATATATC
9060655 AATATATTTAAAAAATAT-ATAA-A
1 AATATATTTAAAAAATATAATAACA
*
9060678 AATAAATTTAAAAAATATAATAACA
1 AATATATTTAAAAAATATAATAACA
*
9060703 AATAT-TATAAAAAA
1 AATATATTTAAAAAA
9060717 AAGTATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.50
24 12 0.35
25 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AATATATTTAAAAAATATAATAACA
Found at i:9060697 original size:21 final size:21
Alignment explanation
Indices: 9060640--9060715 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
9060630 TTTTAAAAAA
** *
9060640 TTAAAGAAATATATCAATATAT
1 TTAAA-AAATATAAAAATAAAT
9060662 TTAAAAAATATATAAAAATAAAT
1 TT-AAAAA-ATATAAAAATAAAT
* *
9060685 TTAAAAAATATAATAACAAAT
1 TTAAAAAATATAAAAATAAAT
9060706 ATTATAAAAA
1 -TTA-AAAAA
9060716 AAAGTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.27
22 12 0.27
23 21 0.47
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (21 bp):
TTAAAAAATATAAAAATAAAT
Found at i:9062092 original size:18 final size:19
Alignment explanation
Indices: 9062064--9062102 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
9062054 TTTTTAAAAT
9062064 TTTTTATTTTGTAAA-TAAA
1 TTTTTATTTTG-AAATTAAA
9062083 TTTTTA-TTTGAAATTAAA
1 TTTTTATTTTGAAATTAAA
9062101 TT
1 TT
9062103 ATAATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATTTTGAAATTAAA
Found at i:9068833 original size:31 final size:30
Alignment explanation
Indices: 9068770--9068847 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
9068760 TAATTTTTAA
* * *
9068770 TAAATTATATTTTTATAAATTTTAAAGAAT
1 TAAATTAAAATTTTATTAATTTTAAAGAAT
* *
9068800 TAAATTAAAATTTTATTATTTTTAAGGAGAT
1 TAAATTAAAATTTTATTAATTTTAAAGA-AT
* *
9068831 TAAAATAAAAATTTATT
1 TAAATTAAAATTTTATT
9068848 TTTACTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.57
31 17 0.43
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
TAAATTAAAATTTTATTAATTTTAAAGAAT
Found at i:9069161 original size:29 final size:29
Alignment explanation
Indices: 9069122--9069207 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
9069112 AACTCCTTTA
*
9069122 AAAATAATAAAAATTTAATTTAATTTTTT
1 AAAATTATAAAAATTTAATTTAATTTTTT
*
9069151 AAAATTATAAAAATAATAAATTCT-A-TTTTT
1 AAAATTATAAAAAT--TTAATT-TAATTTTTT
**
9069181 ATTATTATAAAAATTATAATTTAATTT
1 AAAATTATAAAAATT-TAATTTAATTT
9069208 CCACCTCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
28 2 0.04
29 18 0.39
30 19 0.41
31 6 0.13
32 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
AAAATTATAAAAATTTAATTTAATTTTTT
Found at i:9069192 original size:38 final size:38
Alignment explanation
Indices: 9069120--9069199 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
9069110 TTAACTCCTT
*
9069120 TAAAAATAATAAAAATTTAATTTAATTTT-TTAAAATTA
1 TAAAAATAAT-AAAATTTAATTTAATTTTATAAAAATTA
* *
9069158 TAAAAATAAT-AAATTCTATTTTTATTATTATAAAAATTA
1 TAAAAATAATAAAATT-TAATTTAATT-TTATAAAAATTA
9069197 TAA
1 TAA
9069200 TTTAATTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 5 0.14
37 8 0.22
38 12 0.33
39 11 0.31
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (38 bp):
TAAAAATAATAAAATTTAATTTAATTTTATAAAAATTA
Found at i:9069757 original size:3 final size:3
Alignment explanation
Indices: 9069749--9069786 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9069739 TTAGCCCCTC
9069749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9069787 ATCTCAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9070261 original size:9 final size:8
Alignment explanation
Indices: 9070245--9070278 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
9070235 CATTTAGACC
9070245 ATTTTAAA
1 ATTTTAAA
9070253 ATTTATAAA
1 ATTT-TAAA
9070262 ATTTATAAA
1 ATTT-TAAA
9070271 ATTTTAAA
1 ATTTTAAA
9070279 TTAGTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:9074659 original size:17 final size:17
Alignment explanation
Indices: 9074617--9074663 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9074607 AATTCAATTT
9074617 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
9074633 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
9074651 TAATATAAATAAT
1 TAATATAAATAAT
9074664 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:9075169 original size:14 final size:14
Alignment explanation
Indices: 9075150--9075182 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
9075140 AAGCCCAAAA
9075150 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
9075164 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
9075178 CCAAA
1 CCAAA
9075183 CCAAACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:9077148 original size:98 final size:98
Alignment explanation
Indices: 9077033--9077227 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
9077023 AAAAATCATG
* *
9077033 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
9077098 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* **
9077131 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGGTCGTGCCCTAACGTATTGAGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
*
9077196 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
9077228 TTTATTGCAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:9088890 original size:132 final size:132
Alignment explanation
Indices: 9088653--9089283 Score: 1057
Period size: 132 Copynumber: 4.8 Consensus size: 132
9088643 ACTGGTGAAA
* *
9088653 CACCAAGCTTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATATTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
9088718 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
9088783 GC
131 GC
*
9088785 CACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
* *
9088850 GCTGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
9088915 GC
131 GC
* *
9088917 CACCAAGCCTTATCTTCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
9088982 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
9089047 GC
131 GC
* *
9089049 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
* *
9089114 GCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTAGGAAGCAGA-TTAG
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA-
9089178 AGC
130 AGC
* * * *** * *
9089181 CACCAAGCCTTGTCTCTCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
* *
9089246 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCT
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
9089284 CCCTGAAGTT
Statistics
Matches: 475, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
131 3 0.01
132 472 0.99
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:9089279 original size:44 final size:44
Alignment explanation
Indices: 9088709--9089287 Score: 162
Period size: 44 Copynumber: 13.2 Consensus size: 44
9088699 ATAGATATTG
*
9088709 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* ** * ** **
9088753 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTA
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAAATCTTA
* * * * **** * *
9088797 TCTCCCTGAGCAGCAGTGGAGAAGGGT-GAAGATTATAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACGGCAAATCTTA
* * *
9088841 TCTCCCTAAGCTGTAGTGGAGCAGATCAAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* ** * ** **
9088885 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTA
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAAATCTTA
* * * * * **** * *
9088929 TCTTCCTGAGCAGCAGTGGAGAAGGGT-GAAGATTATAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACGGCAAATCTTA
*
9088973 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* ** * ** ** *
9089017 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAAATCTTA
* * * * * **** *
9089061 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
**
9089105 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* * * ** ** *
9089149 TCTTTCC-AAG-A-TAGTAGGAAGCAGAT-TAGAGCCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGA-AGACGGCAAATCTTA
* * * * * * * * ** * *
9089193 TCTCTCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
*
9089237 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
9089281 TCTCCCT
1 TCTCCCT
9089288 GAAGTTGCAG
Statistics
Matches: 359, Mismatches: 146, Indels: 60
0.64 0.26 0.11
Matches are distributed among these distances:
42 16 0.04
43 28 0.08
44 275 0.77
45 29 0.08
46 11 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
Found at i:9089327 original size:44 final size:43
Alignment explanation
Indices: 9089274--9089385 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 43
9089264 GAAGATGGCA
*
9089274 AATCTTATCTCCCTGAAGTTGCAGT-GGAGGAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGGAGG-GATTAAAACC-AC
* * *
9089318 AATCCTATCTCCCTGAAGTTGCAGTGGGATGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGGAGGGATTAAAACCAC
*
9089361 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
9089386 AGAGCAGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 3 0.05
44 53 0.88
45 4 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGGAGGGATTAAAACCAC
Found at i:9091605 original size:98 final size:98
Alignment explanation
Indices: 9091482--9091676 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
9091472 AAAAATCATG
*
9091482 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
9091547 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* **
9091580 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGGTCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
9091645 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
9091677 TTTATTGCAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:9092204 original size:9 final size:9
Alignment explanation
Indices: 9092190--9092226 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9092180 TATAGTTTGA
9092190 TATTCGAAT
1 TATTCGAAT
9092199 TATTCGAAT
1 TATTCGAAT
*
9092208 TATTCGAGT
1 TATTCGAAT
9092217 TATTCGAAT
1 TATTCGAAT
9092226 T
1 T
9092227 GGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9097756 original size:3 final size:3
Alignment explanation
Indices: 9097748--9097802 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
9097738 AGCAATAAAT
9097748 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9097796 TAA TAA T
1 TAA TAA T
9097803 GAAGTTCACG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9098149 original size:13 final size:13
Alignment explanation
Indices: 9098131--9098222 Score: 114
Period size: 13 Copynumber: 7.0 Consensus size: 13
9098121 AATTTAAAAG
*
9098131 TTAAAACATTATA
1 TTAAAACAATATA
9098144 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
9098158 TTATAACAGTATA
1 TTAAAACAATATA
*
9098171 TTATAACAATATA
1 TTAAAACAATATA
*
9098184 TTAAAACCATATA
1 TTAAAACAATATA
9098197 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
9098210 TTAAAACAATATA
1 TTAAAACAATATA
9098223 ACCGAACTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 1 0.01
13 55 0.80
14 13 0.19
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:9103096 original size:41 final size:41
Alignment explanation
Indices: 9103039--9103191 Score: 207
Period size: 41 Copynumber: 3.7 Consensus size: 41
9103029 TTTTGTAAGT
9103039 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * *
9103080 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
** * * * *
9103121 TCAAACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
9103162 TCGGGCTTTGTGCCTAGCAGGCTTTATGCC
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCC
9103192 AGTGTTTTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.33
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:9103215 original size:82 final size:83
Alignment explanation
Indices: 9103041--9103215 Score: 210
Period size: 82 Copynumber: 2.1 Consensus size: 83
9103031 TTGTAAGTTC
* * *
9103041 AGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGCTTTATGCCTAGCAAGCTCTG
1 AGGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAAGCTCTA
*
9103106 TGCCGGTGAATTATATCA
66 TGCCAGTGAATTATATCA
* * * * * * *
9103124 A-ACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTATCGGGCTTTGTGCCTAGCAGGCTTTA
1 AGGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAAGCTCTA
**
9103188 TGCCAGTGTTTTATA-CA
66 TGCCAGTGAATTATATCA
*
9103205 AGGCTCTATGT
1 AGGCTTTATGT
9103216 TCTATAAATC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 3 0.04
82 72 0.95
83 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (83 bp):
AGGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAAGCTCTA
TGCCAGTGAATTATATCA
Found at i:9103860 original size:2 final size:2
Alignment explanation
Indices: 9103853--9103890 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9103843 TGATCTATTG
9103853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9103891 GATGTTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.