Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 82 of 163
Found at i:26835338 original size:17 final size:17
Alignment explanation
Indices: 26835308--26835365 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
26835298 ATAAAACAAC
**
26835308 TAAAAATAAAAATAATCA
1 TAAAAAT-AAAATAAAAA
*
26835326 TAAACATAAAATAAAAA
1 TAAAAATAAAATAAAAA
26835343 TAAAAATAAAACTAAAAA
1 TAAAAATAAAA-TAAAAA
*
26835361 GAAAA
1 TAAAA
26835366 CAAATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (17 bp):
TAAAAATAAAATAAAAA
Found at i:26835358 original size:23 final size:22
Alignment explanation
Indices: 26835305--26835359 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
26835295 ACAATAAAAC
**
26835305 AACTAAAAATAAAAATAATCATA
1 AACT-AAAATAAAAATAAAAATA
26835328 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAATAAAAATAAAAAT-A
26835352 AACTAAAA
1 AACTAAAA
26835360 AGAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (22 bp):
AACTAAAATAAAAATAAAAATA
Found at i:26835365 original size:23 final size:21
Alignment explanation
Indices: 26835305--26835373 Score: 50
Period size: 23 Copynumber: 3.1 Consensus size: 21
26835295 ACAATAAAAC
**
26835305 AACTAAAAATAAAAATAATCATA
1 AACT-AAAA-AAAAATAAAAATA
26835328 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAA-AAAAATAAAAAT-A
* *
26835352 AACTAAAAAGAAA-ACAAATA
1 AACTAAAAAAAAATAAAAATA
26835372 AA
1 AA
26835374 ATTAATGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.08
21 5 0.12
22 4 0.10
23 23 0.57
24 5 0.12
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.16
Consensus pattern (21 bp):
AACTAAAAAAAAATAAAAATA
Found at i:26836798 original size:29 final size:31
Alignment explanation
Indices: 26836744--26836807 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 31
26836734 AAAAGAATCC
* **
26836744 AATAGAAATATGAATAATCAATAATAGTAAT
1 AATAGAAATACGAATAATCAATAATAAAAAT
26836775 AATA-AAATACGAA-AATC-ATAAATAAAAAT
1 AATAGAAATACGAATAATCAAT-AATAAAAAT
26836804 AATA
1 AATA
26836808 CTAATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 15 0.52
30 8 0.28
31 4 0.14
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (31 bp):
AATAGAAATACGAATAATCAATAATAAAAAT
Found at i:26836829 original size:19 final size:19
Alignment explanation
Indices: 26836771--26836836 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
26836761 TCAATAATAG
*
26836771 TAATAAT-AAAATACGAAAA
1 TAATAATAAAAATACG-AAC
*
26836790 TCATAAATAAAAATA--ATAC
1 TAAT-AATAAAAATACGA-AC
26836809 TAATAATAAAAATACGAAC
1 TAATAATAAAAATACGAAC
*
26836828 TAAAAATAA
1 TAATAATAA
26836837 TACGAGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 11 0.29
19 17 0.45
20 4 0.11
21 6 0.16
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (19 bp):
TAATAATAAAAATACGAAC
Found at i:26851053 original size:21 final size:22
Alignment explanation
Indices: 26851001--26851053 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
26850991 TTGTTTCTTT
26851001 TAATTATTTTAACTTATAAAATA
1 TAATTA-TTTAACTTATAAAATA
* *
26851024 TAATAATTTAA-TTATAACATA
1 TAATTATTTAACTTATAAAATA
26851045 -ACATTATTT
1 TA-ATTATTT
26851054 TAAAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 15 0.58
22 5 0.19
23 5 0.19
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTATTTAACTTATAAAATA
Found at i:26852552 original size:11 final size:11
Alignment explanation
Indices: 26852527--26852564 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26852517 TAACATGTTG
26852527 AATTTTA-ATT
1 AATTTTATATT
*
26852537 AATTTTATAAT
1 AATTTTATATT
*
26852548 AATTTTTTATT
1 AATTTTATATT
26852559 AATTTT
1 AATTTT
26852565 GATTATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:26853252 original size:25 final size:25
Alignment explanation
Indices: 26853198--26853252 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
26853188 GGCCCGGCCC
* * *
26853198 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAA-T
26853224 ATTTTAAAAATAAAAAAATAAAAAA-
1 ATTTTAAAAAT-AAAAAATAAAAAAT
26853249 ATTT
1 ATTT
26853253 ATTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTTAAAAATAAAAAATAAAAAAT
Found at i:26853261 original size:28 final size:25
Alignment explanation
Indices: 26853200--26853261 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 25
26853190 CCCGGCCCAT
* *
26853200 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
26853225 TTTTAAAAATAAAAAAATAAAAAAATTTA
1 TTTT-AAAAT--AAAAATAAAAAAA-TTA
26853254 TTTTAAAA
1 TTTTAAAA
26853262 GTATTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
28 15 0.48
29 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:26860540 original size:16 final size:15
Alignment explanation
Indices: 26860513--26860546 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
26860503 ACAACTAGTA
*
26860513 TATAATTATATTTAT
1 TATAATTATATTAAT
26860528 TATAATATATATTAAT
1 TATAAT-TATATTAAT
26860544 TAT
1 TAT
26860547 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:26862727 original size:50 final size:50
Alignment explanation
Indices: 26862652--26862828 Score: 212
Period size: 51 Copynumber: 3.5 Consensus size: 50
26862642 GTGAAGCTGC
*
26862652 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGAA
* * * **
26862702 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GAA
* * * * *
26862753 TCGATCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAA
*
26862803 AATGGTCACATGTGTAGTACTATGTG
1 TA-GGTCACATGTGTAGTACTATGTG
26862829 AACCGGGTAT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 43 0.41
51 59 0.57
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAA
Found at i:26863459 original size:26 final size:26
Alignment explanation
Indices: 26863423--26863474 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
26863413 TTTTCAAAGG
*
26863423 AAACAAACAGAAATATCATCTTAATT
1 AAACAAACAGAAATATCATCTGAATT
26863449 AAACAAACAGAAATATCATCTGAATT
1 AAACAAACAGAAATATCATCTGAATT
26863475 CTGTACAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (26 bp):
AAACAAACAGAAATATCATCTGAATT
Found at i:26865498 original size:3 final size:3
Alignment explanation
Indices: 26865490--26865533 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26865480 CGAGGATCTT
26865490 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
26865534 TCCCATAGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:26867717 original size:21 final size:23
Alignment explanation
Indices: 26867679--26867723 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
26867669 ATTATGTGTA
*
26867679 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
26867701 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
26867723 T
1 T
26867724 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:26871964 original size:29 final size:29
Alignment explanation
Indices: 26871930--26871985 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
26871920 TTAAAATTTT
26871930 AATAAAAGGAAAAAATTA-ATAAAATAAAA
1 AATAAAAGG-AAAAATTAGATAAAATAAAA
* *
26871959 AATAAAATGAAATATTAGATAAAATAA
1 AATAAAAGGAAAAATTAGATAAAATAA
26871986 TATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (29 bp):
AATAAAAGGAAAAATTAGATAAAATAAAA
Found at i:26877215 original size:4 final size:4
Alignment explanation
Indices: 26877206--26877230 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26877196 TTGATGAAGA
26877206 GAAT GAAT GAAT GAAT GAAT GAAT G
1 GAAT GAAT GAAT GAAT GAAT GAAT G
26877231 GATTAATAAA
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:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:26881802 original size:90 final size:89
Alignment explanation
Indices: 26881664--26881880 Score: 260
Period size: 90 Copynumber: 2.4 Consensus size: 89
26881654 TCGGATACGG
* * * *
26881664 AAAGGGATAGCTCCGGCTATC-GATTATAAAAAGGGATGGTGACAACCATCGAACTATGAAAAAG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACAATGAAAAAG
* *
26881728 GATGGCT-TCGACTAT-AGATCTATGA
66 GATGG-TAT-GACCATCAAAT-TATGA
* * * *
26881753 AAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAGCAATGAAAAGG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACAATGAAAAAG
26881818 GATGGTGATGACCATCAAATTATGA
66 GATGGT-ATGACCATCAAATTATGA
* * *
26881843 AAAGGGATAGCTTTGGCTGTCAAACTATGAAAAGGGAT
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT
26881881 AACTTCGGTT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
89 20 0.18
90 86 0.78
91 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (89 bp):
AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACAATGAAAAAG
GATGGTATGACCATCAAATTATGA
Found at i:26881843 original size:30 final size:30
Alignment explanation
Indices: 26881686--26881850 Score: 122
Period size: 30 Copynumber: 5.5 Consensus size: 30
26881676 CCGGCTATCG
* * *
26881686 ATTATAAAAAGGGATGGTGACAACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* * * * *
26881716 ACTATGAAAAAGGATGGCT-TCGACTAT-AG
1 ATTATGAAAAGGGATGG-TGACGACCATCAA
* * *
26881745 ATCTATGAAAAGGGATAGCT-TC-AGCTATCAA
1 AT-TATGAAAAGGGAT-GGTGACGA-CCATCAA
*
26881776 ATTATGAAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
*** *
26881806 GCAATGAAAAGGGATGGTGATGACCATCAA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
26881836 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
26881851 AGCTTTGGCT
Statistics
Matches: 104, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
29 4 0.04
30 94 0.90
31 6 0.06
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGACGACCATCAA
Found at i:26884158 original size:25 final size:25
Alignment explanation
Indices: 26884094--26884162 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
26884084 GTTGTAAATT
** *
26884094 GGTAAGCTCATACAAGCTGAGAATC
1 GGTAAGCTCATATGAGCTGAGAACC
26884119 GGTAAGCTCATATGAGCTGAGAACC
1 GGTAAGCTCATATGAGCTGAGAACC
26884144 GGTAAGCTC-TCATGAGCTG
1 GGTAAGCTCAT-ATGAGCTG
26884163 CAAATTGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAGAACC
Found at i:26886904 original size:15 final size:15
Alignment explanation
Indices: 26886884--26886914 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26886874 AGGTGAAGTA
26886884 AGACCCACTACTATG
1 AGACCCACTACTATG
26886899 AGACCCACTACTATG
1 AGACCCACTACTATG
26886914 A
1 A
26886915 CACTCTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.19
Consensus pattern (15 bp):
AGACCCACTACTATG
Found at i:26898495 original size:14 final size:14
Alignment explanation
Indices: 26898476--26898503 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26898466 CGATTGTGCC
26898476 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
26898490 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
26898504 GTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAGAAGCTACAA
Found at i:26899622 original size:50 final size:50
Alignment explanation
Indices: 26899568--26899665 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
26899558 ATATCACTTG
* *
26899568 GAAAGCCTTTGTGGCGAATTC-TTTGGAAAGCCATTGTAGTGAATTCTCAA
1 GAAAGCCTTTATGGCGAA-TCATTTGGAAAGCCATTGTAGAGAATTCTCAA
* * * *
26899618 GAAAGCCTTTATGGTGTATCATTTGGAAAGCCCTTGTGGAGAATTCTC
1 GAAAGCCTTTATGGCGAATCATTTGGAAAGCCATTGTAGAGAATTCTC
26899666 TTGAAATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (50 bp):
GAAAGCCTTTATGGCGAATCATTTGGAAAGCCATTGTAGAGAATTCTCAA
Found at i:26899671 original size:25 final size:26
Alignment explanation
Indices: 26899534--26899668 Score: 104
Period size: 25 Copynumber: 5.4 Consensus size: 26
26899524 TAAACTCAAA
26899534 AATTCTC-TGGAAAGCCTTTGT-G-G
1 AATTCTCTTGGAAAGCCTTTGTGGTG
* * *
26899557 CATATCACTTGGAAAGCCTTTGTGGCG
1 AAT-TCTCTTGGAAAGCCTTTGTGGTG
* *
26899584 AATTCT-TTGGAAAGCCATTGTAGTG
1 AATTCTCTTGGAAAGCCTTTGTGGTG
** *
26899609 AATTCTC-AAGAAAGCCTTTATGGTG
1 AATTCTCTTGGAAAGCCTTTGTGGTG
* * *
26899634 TA-TCAT-TTGGAAAGCCCTTGTGGAG
1 AATTC-TCTTGGAAAGCCTTTGTGGTG
26899659 AATTCTCTTG
1 AATTCTCTTG
26899669 AAATTCATTG
Statistics
Matches: 84, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 5 0.06
25 66 0.79
26 8 0.10
27 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (26 bp):
AATTCTCTTGGAAAGCCTTTGTGGTG
Found at i:26900832 original size:13 final size:13
Alignment explanation
Indices: 26900814--26900838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26900804 ATTTTCCCTC
26900814 TTTTTCTTCTTCG
1 TTTTTCTTCTTCG
26900827 TTTTTCTTCTTC
1 TTTTTCTTCTTC
26900839 CCTTTCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTCTTCTTCG
Found at i:26910591 original size:23 final size:24
Alignment explanation
Indices: 26910538--26910584 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
26910528 CAAGCACCGA
26910538 AAAAGTATATTATCGGGCCTCCGT
1 AAAAGTATATTATCGGGCCTCCGT
26910562 AAAAGTATA-TATCGGGCCTCCGT
1 AAAAGTATATTATCGGGCCTCCGT
26910585 CTTAGTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGTATATTATCGGGCCTCCGT
Found at i:26910854 original size:14 final size:14
Alignment explanation
Indices: 26910837--26910882 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
26910827 TAAAAAAATG
26910837 TTATTAAATTATTA
1 TTATTAAATTATTA
*
26910851 TTATTAAATTAGTA
1 TTATTAAATTATTA
26910865 TTATTAAATTATTA
1 TTATTAAATTATTA
26910879 TTAT
1 TTAT
26910883 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:26915293 original size:93 final size:94
Alignment explanation
Indices: 26915175--26915364 Score: 373
Period size: 93 Copynumber: 2.0 Consensus size: 94
26915165 AAATTTGACT
26915175 AAAATAGGAGTCATACTTAACATGTAGTGTTTCTAATGTCTTATTTATTGTTTTCACGTCCATTT
1 AAAATAGGAGTCATACTTAACATGTAGTGTTTCTAATGTCTTATTTATTGTTTTCACGTCCATTT
26915240 AAAGTTTTTTAAACTGTTAAAAAAAAAGA
66 AAAGTTTTTTAAACTGTTAAAAAAAAAGA
26915269 AAAATAGGAG-CATACTTAACATGTAGTGTTTCTAATGTCTTATTTATTGTTTTCACGTCCATTT
1 AAAATAGGAGTCATACTTAACATGTAGTGTTTCTAATGTCTTATTTATTGTTTTCACGTCCATTT
26915333 AAAGTTTTTTAAACTGTTAAAAAAAAAGA
66 AAAGTTTTTTAAACTGTTAAAAAAAAAGA
26915362 AAA
1 AAA
26915365 TGAACATTAG
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 86 0.90
94 10 0.10
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (94 bp):
AAAATAGGAGTCATACTTAACATGTAGTGTTTCTAATGTCTTATTTATTGTTTTCACGTCCATTT
AAAGTTTTTTAAACTGTTAAAAAAAAAGA
Found at i:26918157 original size:23 final size:23
Alignment explanation
Indices: 26918106--26918157 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
26918096 AGTAATCAAA
* * *
26918106 ATTTAACTGGGAAAAGATAGCAG
1 ATTTAACTGGAAAAAGAAACCAG
*
26918129 AGTTTAACTGGAAAAAGAAACCCG
1 A-TTTAACTGGAAAAAGAAACCAG
26918153 ATTTA
1 ATTTA
26918158 TATGGGGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (23 bp):
ATTTAACTGGAAAAAGAAACCAG
Found at i:26921017 original size:31 final size:31
Alignment explanation
Indices: 26920982--26921042 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
26920972 TTAACAACCA
26920982 AGTGACTTAAATAAAAACTTT-GAAATAGTTC
1 AGTGACTTAAATAAAAACTTTCG-AATAGTTC
*
26921013 AGTGACTTAAATGAAAACTTTCGAATAGTT
1 AGTGACTTAAATAAAAACTTTCGAATAGTT
26921043 AGAAACCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCGAATAGTTC
Found at i:26928142 original size:2 final size:2
Alignment explanation
Indices: 26928135--26928160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26928125 AACTTGCTAC
26928135 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
26928161 CATAATACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26931652 original size:10 final size:10
Alignment explanation
Indices: 26931637--26931661 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26931627 TAGTACTGTT
26931637 TAAGTTACTG
1 TAAGTTACTG
26931647 TAAGTTACTG
1 TAAGTTACTG
26931657 TAAGT
1 TAAGT
26931662 CACGTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (10 bp):
TAAGTTACTG
Found at i:26932982 original size:14 final size:13
Alignment explanation
Indices: 26932945--26932983 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
26932935 GTTGTGTGAA
*
26932945 AAATTTATGAAAC
1 AAATTTATAAAAC
*
26932958 AAATTTATAAAAG
1 AAATTTATAAAAC
26932971 AAATTATATAAAA
1 AAATT-TATAAAA
26932984 ATTAAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATTTATAAAAC
Found at i:26935233 original size:14 final size:14
Alignment explanation
Indices: 26935214--26935255 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
26935204 CGACCTGTCC
26935214 ATATTAATTTTTTT
1 ATATTAATTTTTTT
26935228 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
*
26935242 ATATAAATTTTTTT
1 ATATTAATTTTTTT
26935256 TAAAAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:26935481 original size:21 final size:22
Alignment explanation
Indices: 26935455--26935496 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
26935445 AAATAGTGGC
*
26935455 AAAACAACACCAAAAA-CAGTG
1 AAAACAACAACAAAAAGCAGTG
*
26935476 AAAACAGCAACAAAAAGCAGT
1 AAAACAACAACAAAAAGCAGT
26935497 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAACAACAACAAAAAGCAGTG
Found at i:26941195 original size:5 final size:5
Alignment explanation
Indices: 26941185--26941228 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
26941175 GCCTAAGATG
* * *
26941185 TGAAT TGAAT TGAAT TGAAT TGAACA TGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAA-T TGAAT TGAAT TGAAT TGA
26941229 GTTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:26941800 original size:24 final size:24
Alignment explanation
Indices: 26941772--26941856 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
26941762 TGACTATCCA
26941772 GAGCTTCCCGTTAATGGCTCTTAG
1 GAGCTTCCCGTTAATGGCTCTTAG
* * **
26941796 GAGCTACCCGTTATTGGCTCGCAG
1 GAGCTTCCCGTTAATGGCTCTTAG
* * *
26941820 GAACTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCCG-TTAATGGCTCTTAG
*
26941844 GAGCTTCCTGTTA
1 GAGCTTCCCGTTA
26941857 TACAGCCCGA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTAG
Found at i:26943994 original size:41 final size:43
Alignment explanation
Indices: 26943918--26944032 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 43
26943908 TCCTAGACGT
* **
26943918 GGTCTTACATGTAATCACATATCGATGCCTTTGTCCCAAACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAAACAG
*
26943961 GGTCTTACATG-AATCAAATA-CGATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAAACAG
* *
26944002 GGTCTTACACGTAAACACAA-ATCGATGCCAA
1 GGTCTTACATGTAATCA-AATATCGATGCCAA
26944033 CATCCCAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 28 0.44
42 13 0.21
43 22 0.35
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAAACAG
Found at i:26951908 original size:41 final size:43
Alignment explanation
Indices: 26951826--26951923 Score: 119
Period size: 41 Copynumber: 2.3 Consensus size: 43
26951816 TCCCAGATGT
* * *
26951826 GGTCTTACATGTAATCACATATTGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATTGATGCCAATGTCCCAGACAG
* * *
26951869 GGTCTTACACG-AATCAAATA-TGATGCTAATGTCCTAGACAT
1 GGTCTTACACGTAATCAAATATTGATGCCAATGTCCCAGACAG
*
26951910 GGTCTCACACGTAA
1 GGTCTTACACGTAA
26951924 ACACCAACCA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 27 0.57
42 10 0.21
43 10 0.21
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATTGATGCCAATGTCCCAGACAG
Found at i:26955281 original size:311 final size:311
Alignment explanation
Indices: 26954718--26955310 Score: 1087
Period size: 311 Copynumber: 1.9 Consensus size: 311
26954708 TGAATCTGAA
26954718 AAAACTGAGAGCAATGCTCAAGCTTCAGTTTAAAGAGCAACTCAAGTAGTAGAAAGCCCGTACCT
1 AAAACTGAGAGCAATGCTCAAGCTTCAGTTTAAAGAGCAACTCAAGTAGTAGAAAGCCCGTACCT
**
26954783 GAGGGCCTAGGAGGAGTGGCTAAAGAAGCCTTATTCCAAATGATGAACGAATGGTTTACAGAATT
66 GAGGGCCTAGGAGGAGAAGCTAAAGAAGCCTTATTCCAAATGATGAACGAATGGTTTACAGAATT
* *
26954848 CATAAGAACAAATTTGGCTATACAACAACCTCCACCCCCTCCTGTCTCTCAACTGATTCTCGATA
131 CATAAGAACAAATTCGGCTATACAACAACCTCCACCCCCTCCTGTCTCTCAACCGATTCTCGATA
26954913 TGCCACAAGGTACAGAACTTGTTAGAACTGATAAGCCTCCTATAGATAAAATTCATAAATATGGG
196 TGCCACAAGGTACAGAACTTGTTAGAACTGATAAGCCTCCTATAGATAAAATTCATAAATATGGG
*
26954978 ACAGAAGAATTCAGAGCAACAGCCGAAAATGATCCTGTTAAAAGAAATCAT
261 ACAGAAAAATTCAGAGCAACAGCCGAAAATGATCCTGTTAAAAGAAATCAT
* *
26955029 AAAACTGAGAGCAATGCTCAAGCTTCAGTTTAAAGAGCAACTCAAGTAGTAGAAGGCCCGTATCT
1 AAAACTGAGAGCAATGCTCAAGCTTCAGTTTAAAGAGCAACTCAAGTAGTAGAAAGCCCGTACCT
26955094 GAGGGCCTAGGAGGAGAAGCTAAAGAAGCCTTATTCCAAATGATGAACGAATGGTTTACAGAATT
66 GAGGGCCTAGGAGGAGAAGCTAAAGAAGCCTTATTCCAAATGATGAACGAATGGTTTACAGAATT
* *
26955159 CGTAAGAACAAATTCGGCTGTACAACAACCTCCACCCCCTCCTGTCTCTCAACCGATTCTCGATA
131 CATAAGAACAAATTCGGCTATACAACAACCTCCACCCCCTCCTGTCTCTCAACCGATTCTCGATA
*
26955224 TGCTACAAGGTACAGAACTTGTTAGAACTGATAAGCCTCCTATAGATAAAATTCATAAATATGGG
196 TGCCACAAGGTACAGAACTTGTTAGAACTGATAAGCCTCCTATAGATAAAATTCATAAATATGGG
*
26955289 GCAGAAAAATTCAGAGCAACAG
261 ACAGAAAAATTCAGAGCAACAG
26955311 AAGAATTCAT
Statistics
Matches: 271, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
311 271 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (311 bp):
AAAACTGAGAGCAATGCTCAAGCTTCAGTTTAAAGAGCAACTCAAGTAGTAGAAAGCCCGTACCT
GAGGGCCTAGGAGGAGAAGCTAAAGAAGCCTTATTCCAAATGATGAACGAATGGTTTACAGAATT
CATAAGAACAAATTCGGCTATACAACAACCTCCACCCCCTCCTGTCTCTCAACCGATTCTCGATA
TGCCACAAGGTACAGAACTTGTTAGAACTGATAAGCCTCCTATAGATAAAATTCATAAATATGGG
ACAGAAAAATTCAGAGCAACAGCCGAAAATGATCCTGTTAAAAGAAATCAT
Found at i:26959881 original size:19 final size:19
Alignment explanation
Indices: 26959857--26959905 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
26959847 TGAGAGTTTC
* *
26959857 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCAG
*
26959876 TTTTATTAGTTCCTCTTCAG
1 TTTTA-TATTTCCTCTTCAG
*
26959896 TTTAATATTT
1 TTTTATATTT
26959906 TGAAGTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.16, C:0.14, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCAG
Found at i:26959928 original size:11 final size:11
Alignment explanation
Indices: 26959912--26959941 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
26959902 ATTTTGAAGT
26959912 TGTTGATTTAC
1 TGTTGATTTAC
*
26959923 TGTTGATTTGC
1 TGTTGATTTAC
26959934 TGTTGATT
1 TGTTGATT
26959942 AAGAGTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.07, G:0.23, T:0.57
Consensus pattern (11 bp):
TGTTGATTTAC
Found at i:26965710 original size:11 final size:11
Alignment explanation
Indices: 26965686--26965744 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
26965676 CCATATCAGC
*
26965686 AAAAATTAA-A
1 AAAAATTAATT
26965696 AAAAATTAATT
1 AAAAATTAATT
26965707 AAAAATT--TCT
1 AAAAATTAAT-T
*
26965717 -AAAATATATTT
1 AAAAAT-TAATT
26965728 AAAAATTAATT
1 AAAAATTAATT
26965739 AAAAAT
1 AAAAAT
26965745 ACACATCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.15
10 11 0.27
11 18 0.44
12 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:26979966 original size:30 final size:31
Alignment explanation
Indices: 26979931--26980001 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
26979921 TCACATGTTT
*
26979931 ATACCCTATAATTATCCACATTTACATA-TC
1 ATACCCTATAATCATCCACATTTACATATTC
* * * * *
26979961 CTACCCTGTGATCATTCACATTTTCATATTC
1 ATACCCTATAATCATCCACATTTACATATTC
26979992 ATACCCTATA
1 ATACCCTATA
26980002 CCATTTCATA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (31 bp):
ATACCCTATAATCATCCACATTTACATATTC
Found at i:26985470 original size:20 final size:19
Alignment explanation
Indices: 26985432--26985469 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
26985422 ATTGATGTAT
26985432 TTTACTATACTATTTAAAA
1 TTTACTATACTATTTAAAA
26985451 TTTATCTATAC-ATTTAAAA
1 TTTA-CTATACTATTTAAAA
26985470 AAGATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTACTATACTATTTAAAA
Found at i:26995019 original size:6 final size:6
Alignment explanation
Indices: 26994995--26995070 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
26994985 TTTGCGTCTG
* * *
26994995 TTTCTT TCTTCTT TCTCTT TTTCTT TTTCTT TGCTTC-C TTTCTG TTTCATT
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT T--TTCTT TTTCTT TTTC-TT
* * *
26995046 TTACTT TCTCTC TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
26995071 ATTTCTTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
5 3 0.06
6 37 0.69
7 11 0.20
8 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:26995023 original size:25 final size:24
Alignment explanation
Indices: 26994995--26995070 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 24
26994985 TTTGCGTCTG
26994995 TTTCTTTCTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTCTTT-TCTTTTTCTT
* *
26995020 TTTCTTTGCTTCCTTTCTGTTTCATT
1 TTTCTTT-CTTCTTTTCTTTTTC-TT
*
26995046 TTACTTTC-TCTCTTTCTTTTTCTT
1 TTTCTTTCTTCT-TTTCTTTTTCTT
26995070 T
1 T
26995071 ATTTCTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
24 5 0.12
25 24 0.56
26 14 0.33
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTCTTTCTTCTTTTCTTTTTCTT
Found at i:26995579 original size:5 final size:6
Alignment explanation
Indices: 26995561--26995588 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26995551 AATTTTGTGG
26995561 AATAAA AATAAA AATAAA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATA
26995589 TAATAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:26998540 original size:112 final size:111
Alignment explanation
Indices: 26998356--26998680 Score: 377
Period size: 112 Copynumber: 2.9 Consensus size: 111
26998346 AATACATTCA
* * * * * * * * *
26998356 AAAAAAAATTTTTGCGTGGTGGCCAGTAGATGGCCGGCACCAGGTATATTTTTTGGGTCCCCAGA
1 AAAAAAAA-TTTTGGGTGCTGGACAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCCCAAG-
** * * *
26998421 CACTTTTTTTTTACTTTGGGACACTGATGGTAGGCACCAGTGTCATTT
64 TGCTTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGTCATTT
*
26998469 AAAAAAAATTTTGGGTGCTGGACAATAGATGGTCGGCACCAAGTACATTTTTCGGCTCCCAAGGT
1 AAAAAAAATTTTGGGTGCTGGACAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCCCAA-GT
* *
26998534 GTTTTTTTTTTACTTTGGGACACTGATGGCCGACACCAATGTCATTT
65 GCTTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGTCATTT
** *
26998581 AAAAAAAAACTTGGGTGCT-GACAAGTAGATGGCCGGCA-CAAGTACATTTTTCGGCTCTCAA-T
1 AAAAAAAATTTTGGGTGCTGGACAA-TAGATGGCCGGCACCAAGTACATTTTTCGGCTCCCAAGT
* ** *
26998643 GCATTTTTTTTACTTTAAGACACTGATGGCTGACACCA
65 GCTTTTTTTTTACTTTGGGACACTGATGGCAGACACCA
26998681 CCTTTTTCGG
Statistics
Matches: 184, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
109 34 0.18
111 27 0.15
112 114 0.62
113 9 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (111 bp):
AAAAAAAATTTTGGGTGCTGGACAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCCCAAGTG
CTTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGTCATTT
Found at i:26999468 original size:89 final size:89
Alignment explanation
Indices: 26999375--26999765 Score: 373
Period size: 90 Copynumber: 4.4 Consensus size: 89
26999365 TTTCTTAGAA
* * *
26999375 TGTTTGTATTTTTTATATCTGTAAATTTAATTTAGTCCGTATTATATGTAGTGTGAATTTAAAAT
1 TGTTTGTATTTTTTGTGTCTGTAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAAT
*
26999440 TTTCGAGTATTAATTTTACCTATC
66 TTTCGTGTATTAATTTTACCTATC
* * * * ** * *
26999464 TGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTGTGTGTTATATATAGTTTGAATTTAAAA
1 TGTTTGTA-TTTTTTGTGTCTGTAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTT-AAA
* *
26999529 ATTTT-GTGCACTAATTTTATCC-ATC
64 ATTTTCGTGTATTAATTTTA-CCTATC
* * * * * *
26999554 TGTTTGTAGTTTATTGGGTGTTTAAATTTAATTTAGTCCGTATTATATGTAATTTGAATTTAGAA
1 TGTTTGTA-TTTTTTGTGTCTGTAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAA
*
26999619 TTTTCGTGTATTAATTTTACCCATC
65 TTTTCGTGTATTAATTTTACCTATC
* * * *
26999644 TGTTTGTATTTTGTTG-G-CTGTTTAAATTTAATTTAGTGCGTATTAT-TTTTGTTTGAATTTTA
1 TGTTTGTATTTT-TTGTGTCTG--TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAA
* * * **
26999706 TATTTTTGTGTATTAATATT--CTAGAA
63 AATTTTCGTGTATTAATTTTACCTA-TC
*
26999732 TGTTTGTATTTTATTGTATCTGTAAATTTAATTT
1 TGTTTGTATTTT-TTGTGTCTGTAAATTTAATTT
26999766 GTTGTGTACT
Statistics
Matches: 251, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
87 2 0.01
88 28 0.11
89 49 0.20
90 162 0.65
91 10 0.04
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (89 bp):
TGTTTGTATTTTTTGTGTCTGTAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAAT
TTTCGTGTATTAATTTTACCTATC
Found at i:26999510 original size:90 final size:89
Alignment explanation
Indices: 26999396--26999722 Score: 433
Period size: 90 Copynumber: 3.7 Consensus size: 89
26999386 TTTATATCTG
* *
26999396 TAAATTTAATTTAGTCCGTATTATATGTAGTGTGAATTTAAAATTTTCGAGTATTAATTTTACCT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACC-
26999461 ATCTGTTTGTAGTTTGTTGGGTGTT
65 ATCTGTTTGTAGTTTGTTGGGTGTT
** * * * *
26999486 TAAATTTAATTTAGTGTGTGTTATATATAGTTTGAATTTAAAAATTTT-GTGCACTAATTTTATC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTT-AAAATTTTCGTGTATTAATTTTA-C
*
26999550 CATCTGTTTGTAGTTTATTGGGTGTT
64 CATCTGTTTGTAGTTTGTTGGGTGTT
* *
26999576 TAAATTTAATTTAGTCCGTATTATATGTAATTTGAATTTAGAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTA-CC
* *
26999641 ATCTGTTTGTATTTTGTTGGCTGTT
65 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * * *
26999666 TAAATTTAATTTAGTGCGTATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
26999723 ATTCTAGAAT
Statistics
Matches: 205, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
89 33 0.16
90 162 0.79
91 10 0.05
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.53
Consensus pattern (89 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCA
TCTGTTTGTAGTTTGTTGGGTGTT
Found at i:27002235 original size:11 final size:11
Alignment explanation
Indices: 27002183--27002236 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
27002173 TCAACTTTTT
27002183 TTTCTCATTTCA
1 TTTC-CATTTCA
27002195 TTT-CATTTTCA
1 TTTCCA-TTTCA
27002206 TTTCCATTTCCA
1 TTTCCATTT-CA
*
27002218 TTT-CATTTGA
1 TTTCCATTTCA
27002228 TTTCCATTT
1 TTTCCATTT
27002237 AAATTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 6 0.16
11 21 0.57
12 10 0.27
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTCCATTTCA
Found at i:27002236 original size:6 final size:5
Alignment explanation
Indices: 27002187--27002236 Score: 55
Period size: 5 Copynumber: 9.2 Consensus size: 5
27002177 CTTTTTTTTC
*
27002187 TCATT TCATT TCATTT TCATT TCCATT TCCATT TCATT TGATT TCCATT
1 TCATT TCATT TCA-TT TCATT T-CATT T-CATT TCATT TCATT T-CATT
27002236 T
1 T
27002237 AAATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 20 0.50
6 20 0.50
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.58
Consensus pattern (5 bp):
TCATT
Found at i:27002242 original size:28 final size:29
Alignment explanation
Indices: 27002183--27002242 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
27002173 TCAACTTTTT
* **
27002183 TTTCTCATTTCATTTCATTTTCATTTCCA
1 TTTCTCATTTCATTTCATTTCCATTTAAA
*
27002212 TTTC-CATTTCATTTGATTTCCATTTAAA
1 TTTCTCATTTCATTTCATTTCCATTTAAA
27002240 TTT
1 TTT
27002243 ATTTAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTCTCATTTCATTTCATTTCCATTTAAA
Found at i:27002246 original size:10 final size:10
Alignment explanation
Indices: 27002233--27002267 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
27002223 TTTGATTTCC
27002233 ATTTAAATTT
1 ATTTAAATTT
*
27002243 ATTTAATTTCT
1 ATTTAAATT-T
27002254 ATTTAAATTT
1 ATTTAAATTT
27002264 ATTT
1 ATTT
27002268 TTTCCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:27002251 original size:21 final size:21
Alignment explanation
Indices: 27002205--27002267 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
27002195 TTTCATTTTC
** *
27002205 ATTTCCATTTCCATTTCATTTG
1 ATTTCCATTTAAATTT-ATTTA
27002227 ATTTCCATTTAAATTTATTTA
1 ATTTCCATTTAAATTTATTTA
*
27002248 ATTTCTATTTAAATTTATTT
1 ATTTCCATTTAAATTTATTT
27002268 TTTCCTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.27, C:0.13, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTCCATTTAAATTTATTTA
Found at i:27002447 original size:22 final size:21
Alignment explanation
Indices: 27002401--27002440 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
27002391 TCTCAATTAC
27002401 ATTTTATTTAAAATTTTTCAT
1 ATTTTATTTAAAATTTTTCAT
27002422 ATTTTATTTAAAATTTTTC
1 ATTTTATTTAAAATTTTTC
27002441 TCAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATTTAAAATTTTTCAT
Found at i:27002448 original size:21 final size:21
Alignment explanation
Indices: 27002403--27002448 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27002393 TCAATTACAT
*
27002403 TTTATTTAAAATTTTTCATAT
1 TTTATTTAAAATTTTTCATAA
27002424 TTTATTTAAAATTTTTC-TCAA
1 TTTATTTAAAATTTTTCAT-AA
27002445 TTTA
1 TTTA
27002449 AATATCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTTAAAATTTTTCATAA
Found at i:27002683 original size:17 final size:15
Alignment explanation
Indices: 27002660--27002717 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 15
27002650 TCAACTTTTT
27002660 TTTCATTTCATTTCTA
1 TTTCATTTCATTTC-A
27002676 TTTCCATTTCATTTCA
1 TTT-CATTTCATTTCA
27002692 TTTTCATTTCCATTTCCA
1 -TTTCATTT-CATTT-CA
27002710 TTTCATTT
1 TTTCATTT
27002718 AAATTATCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.24
17 27 0.71
18 2 0.05
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCATTTCATTTCA
Found at i:27002684 original size:6 final size:5
Alignment explanation
Indices: 27002660--27002717 Score: 71
Period size: 5 Copynumber: 10.6 Consensus size: 5
27002650 TCAACTTTTT
27002660 TTTCA TTTCA TTTCTA TTTCCA TTTCA TTTCA TTTTCA TTTCCA TTTCCA
1 TTTCA TTTCA TTTC-A TTT-CA TTTCA TTTCA -TTTCA TTT-CA TTT-CA
27002710 TTTCA TTT
1 TTTCA TTT
27002718 AAATTATCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 24 0.49
6 24 0.49
7 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:27002685 original size:22 final size:22
Alignment explanation
Indices: 27002660--27002717 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
27002650 TCAACTTTTT
27002660 TTTCATTTCA-TTTCTATTTCCA
1 TTTCATTTCATTTTC-ATTTCCA
27002682 TTTCATTTCATTTTCATTTCCA
1 TTTCATTTCATTTTCATTTCCA
27002704 TTTCCATTTCATTT
1 TTT-CATTTCATTT
27002718 AAATTATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.59
23 14 0.41
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTCATTTCATTTTCATTTCCA
Found at i:27002749 original size:20 final size:20
Alignment explanation
Indices: 27002710--27002752 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
27002700 TCCATTTCCA
*
27002710 TTTCATTTAAATTATCTTTT
1 TTTCATTTAAATTATATTTT
*
27002730 TTTCATTTAAATT-TAATTT
1 TTTCATTTAAATTATATTTT
27002749 TTTC
1 TTTC
27002753 CTCGTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCATTTAAATTATATTTT
Found at i:27002784 original size:21 final size:21
Alignment explanation
Indices: 27002710--27002790 Score: 74
Period size: 21 Copynumber: 3.6 Consensus size: 21
27002700 TCCATTTCCA
27002710 TTTCATTTAAATTATCTTT-T
1 TTTCATTTAAATTATCTTTCT
*
27002730 TTTCATTTAAATTTAATTTTTTCCT
1 TTTCATTTAAA-TT-A-TCTTT-CT
27002755 CGTTTCATTTAAATTATCTTTCT
1 --TTTCATTTAAATTATCTTTCT
* *
27002778 TTCCATTTTAATT
1 TTTCATTTAAATT
27002791 TACGTTTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 11 0.22
21 13 0.26
22 1 0.02
23 6 0.12
24 4 0.08
25 2 0.04
26 2 0.04
27 11 0.22
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTCATTTAAATTATCTTTCT
Found at i:27002809 original size:21 final size:20
Alignment explanation
Indices: 27002710--27002812 Score: 64
Period size: 21 Copynumber: 4.7 Consensus size: 20
27002700 TCCATTTCCA
* *
27002710 TTTCATTTAAATTATCTTTT
1 TTTCATTTAATTTATCTTTC
*
27002730 TTTCATTTAAATTTAATTTTTTCCTC
1 TTTCATTT-AATTT-A--TCTT--TC
*
27002756 GTTTCATTTAAATTATCTTTC
1 -TTTCATTTAATTTATCTTTC
27002777 TTTCCATTTTAATTTA-CGTTTC
1 TTT-CA-TTTAATTTATC-TTTC
27002799 TTTCATATTAATTT
1 TTTCAT-TTAATTT
27002813 TTCTCTTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
20 12 0.18
21 18 0.27
22 16 0.24
23 3 0.05
24 3 0.05
25 1 0.02
26 5 0.08
27 8 0.12
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTCATTTAATTTATCTTTC
Found at i:27002865 original size:22 final size:22
Alignment explanation
Indices: 27002840--27002909 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
27002830 ATTTCATTTA
27002840 ATGTGTTTTAAATTAAATATGT
1 ATGTGTTTTAAATTAAATATGT
* * **
27002862 ATGTATATTGTATTATAAT-T-T
1 ATGTGTTTTAAATTA-AATATGT
* *
27002883 AATGTGCTTTAAATTAAATATGC
1 -ATGTGTTTTAAATTAAATATGT
27002906 ATGT
1 ATGT
27002910 ATATTGTATT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
21 4 0.12
22 27 0.79
23 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (22 bp):
ATGTGTTTTAAATTAAATATGT
Found at i:27002885 original size:44 final size:44
Alignment explanation
Indices: 27002835--27002942 Score: 189
Period size: 44 Copynumber: 2.5 Consensus size: 44
27002825 AATTTATTTC
*
27002835 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
*
27002879 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
*
27002923 ATTTAAGGTGTTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
27002943 GGAATAAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
Found at i:27002920 original size:22 final size:22
Alignment explanation
Indices: 27002851--27002920 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
27002841 TGTGTTTTAA
*
27002851 ATTAAATATGTATGTATATTGT
1 ATTAAATATGAATGTATATTGT
* * **
27002873 ATTATAAT-TTAATGTGCT-TTAA
1 ATTA-AATATGAATGT-ATATTGT
*
27002895 ATTAAATATGCATGTATATTGT
1 ATTAAATATGAATGTATATTGT
27002917 ATTA
1 ATTA
27002921 TAATTTAAGG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
21 4 0.12
22 26 0.76
23 4 0.12
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTAAATATGAATGTATATTGT
Found at i:27004436 original size:12 final size:12
Alignment explanation
Indices: 27004419--27004444 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27004409 TTCAACTAAT
27004419 AAAGCAAACAAA
1 AAAGCAAACAAA
27004431 AAAGCAAACAAA
1 AAAGCAAACAAA
27004443 AA
1 AA
27004445 CTTAAATGGA
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:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:27004844 original size:109 final size:108
Alignment explanation
Indices: 27004658--27004940 Score: 333
Period size: 109 Copynumber: 2.6 Consensus size: 108
27004648 CCGAAAAAGG
* * *
27004658 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAAACGCATTGGGAGCCGAAAAATGTACTTG
1 TGGTGCCAACCATCAGTGTCCCAAAGT--AAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTG
*
27004723 GTGCCAGCCATCTACTT-GCCAGCACAAAAAATTTTTTAAATGACAT
64 GTGCCAGCCATCTA-TTGGCCAGCAC-AAAAATTTTTTAAATGACAC
** * *
27004769 TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAATGCCTTAGGAGTCGAAAAATATACTTGGT
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTGGT
* **
27004834 GCC-GACCATCTATTGGCCAGCACCAATTTTTTTTAAATGACAC
66 GCCAG-CCATCTATTGGCCAGCACAAAAATTTTTTAAATGACAC
* * * * *
27004877 TGGTGCTATCCATTAGTGTCCCAAA--ATAAAAAAATGCCTTGGGA-TCTGAAAAATGTACATGG
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCCTTGGGAGTC-GAAAAATGTACTTGG
27004939 TG
65 TG
27004941 TTGGCTATCT
Statistics
Matches: 150, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.01
106 32 0.21
108 40 0.27
109 51 0.34
111 25 0.17
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (108 bp):
TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTGGT
GCCAGCCATCTATTGGCCAGCACAAAAATTTTTTAAATGACAC
Found at i:27004907 original size:108 final size:108
Alignment explanation
Indices: 27004658--27004991 Score: 336
Period size: 108 Copynumber: 3.1 Consensus size: 108
27004648 CCGAAAAAGG
* * * *
27004658 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAAACGCATTGGGAGCCGAAAAATGTACTTG
1 TGGTGCCAACCATCAGTGTCCCAAA--ATAAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTG
* ** *
27004723 GTGCC-AGCCATCTACTT-GCCAGCACAAAAAATTTTTTAAATGACAT
64 GTGCCGA-CCATCTA-TTGGCCAGCAC-CAATTTTTTTTAAATGACAC
** * * *
27004769 TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAATGCCTTAGGAGTCGAAAAATATACTTGGT
1 TGGTGCCAACCATCAGTGTCCCAAAATAAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTGGT
27004834 GCCGACCATCTATTGGCCAGCACCAATTTTTTTTAAATGACAC
66 GCCGACCATCTATTGGCCAGCACCAATTTTTTTTAAATGACAC
* * * *
27004877 TGGTGCTATCCATTAGTGTCCCAAAAT--AAAAAAATGCCTTGGGA-TCTGAAAAATGTACATGG
1 TGGTGCCAACCATCAGTGTCCCAAAATAAAAAAAAATGCCTTGGGAGTC-GAAAAATGTACTTGG
** * * * * * *
27004939 TGTTGGCTATCTACTGGCCAGTACCAAATTTTTTTTTAAATGTCTC
65 TGCCGACCATCTATTGGCCAGCACC-AA-TTTTTTTTAAATGACAC
27004985 TGGTGCC
1 TGGTGCC
27004992 GGCTATTACA
Statistics
Matches: 188, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
105 2 0.01
106 48 0.26
107 2 0.01
108 61 0.32
109 51 0.27
110 1 0.01
111 23 0.12
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (108 bp):
TGGTGCCAACCATCAGTGTCCCAAAATAAAAAAAAATGCCTTGGGAGTCGAAAAATGTACTTGGT
GCCGACCATCTATTGGCCAGCACCAATTTTTTTTAAATGACAC
Found at i:27008734 original size:43 final size:43
Alignment explanation
Indices: 27008674--27008848 Score: 350
Period size: 43 Copynumber: 4.1 Consensus size: 43
27008664 GAGAACAAAG
27008674 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
1 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
27008717 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
1 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
27008760 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
1 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
27008803 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
1 AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
27008846 AAG
1 AAG
27008849 TTGTTTCATA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (43 bp):
AAGAAAATTGTTTGAATTTTGGTTTGCAGAATCATGAAGTTTA
Found at i:27012478 original size:4 final size:4
Alignment explanation
Indices: 27012464--27012531 Score: 52
Period size: 4 Copynumber: 17.0 Consensus size: 4
27012454 AATACATTAC
* *
27012464 CTTT TTTT CTTT CTTT CTTT C-TT C-TT C-TT CTTT TTTT CTTCT CCTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T -CTTT
* *
27012511 CTCT CTTTT CTTT CTCT CTTT
1 CTTT C-TTT CTTT CTTT CTTT
27012532 TCTTCCCTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
3 9 0.17
4 35 0.67
5 5 0.10
6 3 0.06
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:27012496 original size:13 final size:13
Alignment explanation
Indices: 27012464--27012535 Score: 69
Period size: 13 Copynumber: 5.6 Consensus size: 13
27012454 AATACATTAC
*
27012464 CTTTT-TTTCTTT
1 CTTTTCTTTCTCT
27012476 C-TTTCTTTCT-T
1 CTTTTCTTTCTCT
* *
27012487 CTTCTTCTTTTTTT
1 CTT-TTCTTTCTCT
*
27012501 CTTCTCCTTTCTCT
1 CTT-TTCTTTCTCT
27012515 CTTTTCTTTCTCT
1 CTTTTCTTTCTCT
27012528 CTTTTCTT
1 CTTTTCTT
27012536 CCCTACACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.10
12 7 0.14
13 24 0.47
14 15 0.29
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTCTTTCTCT
Found at i:27012502 original size:14 final size:14
Alignment explanation
Indices: 27012464--27012523 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
27012454 AATACATTAC
27012464 CTTTTTTTCTTTCTT
1 CTTTTTTTC-TTCTT
*
27012479 -TCTTTCTTCTTCTT
1 CT-TTTTTTCTTCTT
*
27012493 CTTTTTTTCTTCTC
1 CTTTTTTTCTTCTT
* *
27012507 CTTTCTCTCTT-TT
1 CTTTTTTTCTTCTT
27012520 CTTT
1 CTTT
27012524 CTCTCTTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.14
14 25 0.68
15 7 0.19
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
CTTTTTTTCTTCTT
Found at i:27013119 original size:37 final size:37
Alignment explanation
Indices: 27013069--27013146 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
27013059 ATACATGAAA
27013069 CATATGATTCATCTATATCATGCACATAAATTAAAAC
1 CATATGATTCATCTATATCATGCACATAAATTAAAAC
27013106 CATATGATTCATCTATATCATGCACATAAATTAAAAC
1 CATATGATTCATCTATATCATGCACATAAATTAAAAC
27013143 CATA
1 CATA
27013147 GTAACTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (37 bp):
CATATGATTCATCTATATCATGCACATAAATTAAAAC
Found at i:27013775 original size:25 final size:25
Alignment explanation
Indices: 27013747--27013796 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27013737 AACTTAATCA
*
27013747 ATATACAAACCTACTAAAACTAAAC
1 ATATACAAACCTACTAAAACAAAAC
27013772 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
27013797 CGATTACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (25 bp):
ATATACAAACCTACTAAAACAAAAC
Found at i:27021020 original size:16 final size:16
Alignment explanation
Indices: 27020981--27021012 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27020971 TAATAATTGG
27020981 ATATTTTTTAAAATAT
1 ATATTTTTTAAAATAT
27020997 ATATTTTTTAAAATAT
1 ATATTTTTTAAAATAT
27021013 TTTCTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTTTTTAAAATAT
Found at i:27021180 original size:3 final size:3
Alignment explanation
Indices: 27021172--27021196 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27021162 GTAGTGATAG
27021172 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
27021197 AGGAAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:27022322 original size:78 final size:78
Alignment explanation
Indices: 27022191--27022343 Score: 288
Period size: 78 Copynumber: 2.0 Consensus size: 78
27022181 AACCAATTTT
* *
27022191 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTAGTACAGTCCAAAGAGCCAGACCTGGAGGAGCA
27022256 ACCTCAACAAGCG
66 ACCTCAACAAGCG
27022269 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTAGTACAGTCCAAAGAGCCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTAGTACAGTCCAAAGAGCCAGACCTGGAGGAGCA
27022334 ACCTCAACAA
66 ACCTCAACAA
27022344 TCGGAAGACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (78 bp):
GTGCAAGCCAAAGAAAATAAGGACTCAACCCTAGTACAGTCCAAAGAGCCAGACCTGGAGGAGCA
ACCTCAACAAGCG
Found at i:27026766 original size:37 final size:37
Alignment explanation
Indices: 27026706--27026780 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
27026696 ACTACTGATG
* *
27026706 TTTGTTTACAGTTTGGAAAAACTAAATATGGAGTCAT
1 TTTGCTTACAGTTTAGAAAAACTAAATATGGAGTCAT
*
27026743 TTTGCTTACAGTTTAGAAGAACTAAATATGGAGTCAT
1 TTTGCTTACAGTTTAGAAAAACTAAATATGGAGTCAT
27026780 T
1 T
27026781 GGGTATGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (37 bp):
TTTGCTTACAGTTTAGAAAAACTAAATATGGAGTCAT
Found at i:27028242 original size:21 final size:21
Alignment explanation
Indices: 27028218--27028263 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27028208 GTGGGGGTCT
27028218 ACACG-CCATTGTAGAGGCCAC
1 ACACGCCCA-TGTAGAGGCCAC
*
27028239 ACACGCCCATGTGGAGGCCAC
1 ACACGCCCATGTAGAGGCCAC
27028260 ACAC
1 ACAC
27028264 ACCCGTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.28, C:0.37, G:0.24, T:0.11
Consensus pattern (21 bp):
ACACGCCCATGTAGAGGCCAC
Found at i:27028272 original size:21 final size:21
Alignment explanation
Indices: 27028231--27028272 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27028221 CGCCATTGTA
*
27028231 GAGGCCACACACGCCCATGTG
1 GAGGCCACACACACCCATGTG
*
27028252 GAGGCCACACACACCCGTGTG
1 GAGGCCACACACACCCATGTG
27028273 AGCAGCCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.10
Consensus pattern (21 bp):
GAGGCCACACACACCCATGTG
Found at i:27052921 original size:27 final size:27
Alignment explanation
Indices: 27052891--27052959 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
27052881 CTATCGAGAT
* *
27052891 AGTAAATACGGGGTAGTCCACTATGAC
1 AGTAAATACGAGGTAGTCCACTAGGAC
* * *
27052918 AGTAAACATGAGGTAGTCCGCTAGGAC
1 AGTAAATACGAGGTAGTCCACTAGGAC
* *
27052945 ATTAAATATGAGGTA
1 AGTAAATACGAGGTA
27052960 AAAGGGTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
AGTAAATACGAGGTAGTCCACTAGGAC
Found at i:27055452 original size:41 final size:40
Alignment explanation
Indices: 27055407--27055535 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
27055397 AGCGGCACTT
* *
27055407 TTAGCGGCATTTGGATAAAAAACGTCGCTAAAAATCGAACA
1 TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAAT-GAGCA
* * * * *
27055448 TTAGCGGCGCTTT--ATGAAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGC-ATTTGGATAAAAAACGCCGCTAAA-AATGAGCA
* *
27055488 ATAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATGAGCA
1 TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAATGAGCA
27055528 TTAGCGGC
1 TTAGCGGC
27055536 GTTTTCTGAA
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
39 3 0.04
40 39 0.56
41 25 0.36
42 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (40 bp):
TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAATGAGCA
Found at i:27055560 original size:39 final size:39
Alignment explanation
Indices: 27055424--27055560 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
27055414 CATTTGGATA
* * * *
27055424 AAAAACGTCGCTAAAAATCGAACATTAGCGGCGCTTTATG
1 AAAAACGCCGCAAAAAAT-GAGCATTAGCGGCGTTTTATG
* * * * * * *
27055464 AAAATCGCCACTAAAGATTGAGCAATAGCGGCGTTTGGATA
1 AAAAACGCCGC-AAAAAATGAGCATTAGCGGCGTTT-TATG
* *
27055505 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTTCTG
1 AAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTATG
27055544 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCAAAAAA
27055561 CCTAAGCCCA
Statistics
Matches: 74, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
39 17 0.23
40 42 0.57
41 15 0.20
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (39 bp):
AAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTATG
Found at i:27055577 original size:80 final size:81
Alignment explanation
Indices: 27055408--27055567 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
27055398 GCGGCACTTT
* * *
27055408 TAGCGGCATTTGGATAAAAAACGTCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAATCGCC
1 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
* * * *
27055473 ACTAAAGATTGAGCAA
66 ACAAAAAACTAAGCAA
* * *
27055489 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTCTGAAAAACGCC
1 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
*
27055553 GCAAAAAACCTAAGC
66 ACAAAAAA-CTAAGC
27055568 CCAACGGCGT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 31 0.46
81 36 0.54
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (81 bp):
TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
ACAAAAAACTAAGCAA
Found at i:27055675 original size:41 final size:41
Alignment explanation
Indices: 27055621--27056008 Score: 506
Period size: 41 Copynumber: 9.4 Consensus size: 41
27055611 TTTTGGATTA
*** *
27055621 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCAATGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
*
27055662 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * *
27055703 GAAAAGCGCTGCTAATGCTCTGGTATTTAGTGGCGTTTTCG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * * * * ** *
27055744 AAAAAACACCACGAATGCTCTGGTCTTTAGTGTTGTTTTCG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
27055785 AAAAAGCGCCGCGAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
27055826 GCAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * *
27055867 GAAAAGCGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
27055908 AAAAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTTTTG
*
27055950 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGACGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
*
27055991 CAAAAGCGCCGCTAATGC
1 GAAAAGCGCCGCTAATGC
27056009 AAAATACTAT
Statistics
Matches: 304, Mismatches: 42, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 267 0.88
42 37 0.12
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
Found at i:27056267 original size:22 final size:22
Alignment explanation
Indices: 27056226--27056267 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27056216 GAGTTACTAT
*
27056226 TTTAAGGTTTAGGGAATATGAA
1 TTTAAGGATTAGGGAATATGAA
* *
27056248 TTTAAGGATTATGGATTATG
1 TTTAAGGATTAGGGAATATG
27056268 GATTATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.40
Consensus pattern (22 bp):
TTTAAGGATTAGGGAATATGAA
Found at i:27056318 original size:15 final size:15
Alignment explanation
Indices: 27056291--27056346 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
27056281 AGGTTGGAAT
*
27056291 TTAA-GGTTTAGGGG
1 TTAAGGGTTAAGGGG
* *
27056305 TTAGGGGTTAAGGGT
1 TTAAGGGTTAAGGGG
*
27056320 TTAAGGGTT-AGAGG
1 TTAAGGGTTAAGGGG
27056334 TTATAGGGTTAAG
1 TTA-AGGGTTAAG
27056347 AGTTAGGGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.27
15 22 0.67
16 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.34
Consensus pattern (15 bp):
TTAAGGGTTAAGGGG
Found at i:27056327 original size:22 final size:22
Alignment explanation
Indices: 27056291--27056354 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27056281 AGGTTGGAAT
*
27056291 TTAA-GGTTTAGGGGTTAGGGG
1 TTAAGGGTTTAAGGGTTAGGGG
*
27056312 TTAAGGGTTTAAGGGTTAGAGG
1 TTAAGGGTTTAAGGGTTAGGGG
*
27056334 TTATAGGG-TTAAGAGTTAGGG
1 TTA-AGGGTTTAAGGGTTAGGG
27056355 ATTCAGGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 4 0.11
22 29 0.78
23 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
TTAAGGGTTTAAGGGTTAGGGG
Found at i:27059669 original size:19 final size:19
Alignment explanation
Indices: 27059645--27059692 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
27059635 AATTTATAAG
*
27059645 AAATAAAATTAAAATACAA
1 AAATAAAATTAAAATAAAA
* *
27059664 AAATAAAAATGAAATAAAA
1 AAATAAAATTAAAATAAAA
27059683 AAATAAAATT
1 AAATAAAATT
27059693 TATAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATAAAATTAAAATAAAA
Found at i:27061304 original size:19 final size:18
Alignment explanation
Indices: 27061280--27061333 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
27061270 TAATGTTTAC
*
27061280 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
27061299 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
27061316 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
27061334 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:27063944 original size:43 final size:43
Alignment explanation
Indices: 27063896--27064013 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 43
27063886 GTTTGTTCTA
*
27063896 TAGCGGCGTTTTTAACAAAAGCG-CAGCTAAAGGTCATGAG-CTT
1 TAGCGGCGTTTTTAACAAAAGCGCCA-CTAAAGGTCATG-GTCCT
* * *
27063939 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGGTCCT
1 TAGCGGCGTTTTTAACAAAAGCGCCACTAAAGGTCATGGTCCT
*
27063982 TAGCGGCGCTTTTGTCAC-AAA-CGCCACTAAAG
1 TAGCGGCG-TTTT-TAACAAAAGCGCCACTAAAG
27064014 CGCCGCTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 1 0.02
43 53 0.83
44 8 0.12
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTTAACAAAAGCGCCACTAAAGGTCATGGTCCT
Found at i:27064075 original size:43 final size:43
Alignment explanation
Indices: 27064009--27064184 Score: 298
Period size: 43 Copynumber: 4.1 Consensus size: 43
27063999 CAAACGCCAC
*
27064009 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
*
27064052 TAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
* *
27064095 TAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
* *
27064138 TAAAGCGCCGCTAAATGTCGTGGTCTTTAGCGGCGTTTGTGGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
27064181 TAAA
1 TAAA
27064185 AATGCCGCAA
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.31
Consensus pattern (43 bp):
TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
Found at i:27065507 original size:9 final size:9
Alignment explanation
Indices: 27065493--27065518 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27065483 CTAAATTTTT
27065493 AAATTAAAA
1 AAATTAAAA
27065502 AAATTAAAA
1 AAATTAAAA
27065511 AAATTAAA
1 AAATTAAA
27065519 TATCTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATTAAAA
Found at i:27068200 original size:7 final size:7
Alignment explanation
Indices: 27068184--27068239 Score: 94
Period size: 7 Copynumber: 7.9 Consensus size: 7
27068174 AGAAACTTTC
*
27068184 TTAGGAT
1 TTAGGGT
27068191 TTAGGGT
1 TTAGGGT
27068198 TTAGGGT
1 TTAGGGT
27068205 TTAGGGT
1 TTAGGGT
27068212 TTAGGGTT
1 TTAGGG-T
27068220 TTAGGGT
1 TTAGGGT
27068227 TTAGGGT
1 TTAGGGT
27068234 TTAGGG
1 TTAGGG
27068240 GTTATTAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
7 40 0.85
8 7 0.15
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:27068225 original size:22 final size:22
Alignment explanation
Indices: 27068190--27068239 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
27068180 TTTCTTAGGA
27068190 TTTAGGGTTTAGGGTTTAGGG-
1 TTTAGGGTTTAGGGTTTAGGGT
27068211 TTTAGGGTTTTAGGGTTTAGGG-
1 TTTAGGG-TTTAGGGTTTAGGGT
27068233 TTTAGGG
1 TTTAGGG
27068240 GTTATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (22 bp):
TTTAGGGTTTAGGGTTTAGGGT
Found at i:27074310 original size:43 final size:43
Alignment explanation
Indices: 27074262--27074427 Score: 233
Period size: 43 Copynumber: 3.9 Consensus size: 43
27074252 TTATGTGAAA
* *
27074262 AAACGCCGCTAAAGAACATGCCCTTTAGCGGCGCTTTACCCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
27074305 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * * * * *
27074348 AAATGTCGCTAAAGAACATGACCTTTAGTGGTGCTTTAACTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
** *
27074391 AAAAACCGCTAAAGAACATGATCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT
27074428 TATCATAAAC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:27077886 original size:20 final size:20
Alignment explanation
Indices: 27077861--27077903 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
27077851 GGGAAAAAAA
27077861 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
27077881 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
27077901 GAT
1 GAT
27077904 TCTTCTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (20 bp):
GATAGATGAGTACTTGAAAC
Found at i:27078550 original size:20 final size:20
Alignment explanation
Indices: 27078525--27078567 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
27078515 GGGAAAAAAA
27078525 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
27078545 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
27078565 GAT
1 GAT
27078568 TCTTCTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (20 bp):
GATAGATGAGTACTTGAAAC
Found at i:27078714 original size:664 final size:664
Alignment explanation
Indices: 27077446--27078773 Score: 2620
Period size: 664 Copynumber: 2.0 Consensus size: 664
27077436 AGATAAACGA
27077446 AAAATTGTTACAAGAATTGTATTTATGAATATCAGTGAAACTCCAAAACCATTTCATCCTCAACA
1 AAAATTGTTACAAGAATTGTATTTATGAATATCAGTGAAACTCCAAAACCATTTCATCCTCAACA
27077511 TATAAACATCCTTGACTTTTTTTTTTTAAATACCAACTGTTAAAAGAGGAAAAAATAAGTTCTAA
66 TATAAACATCCTTGACTTTTTTTTTTTAAATACCAACTGTTAAAAGAGGAAAAAATAAGTTCTAA
27077576 AAGTTGGTACCTTAGTTTGAGACCCTTGAACTGCAGCGATTCCTTTCCTTTGTGTACTATCTGAC
131 AAGTTGGTACCTTAGTTTGAGACCCTTGAACTGCAGCGATTCCTTTCCTTTGTGTACTATCTGAC
27077641 ATAGTATGCATCCCAAGTCCATTATCTATTGTCGCAGACTTCCCTACTTCCTAAGCTCCTTGCAT
196 ATAGTATGCATCCCAAGTCCATTATCTATTGTCGCAGACTTCCCTACTTCCTAAGCTCCTTGCAT
27077706 AGACTTTTTTATAACCCCTGATACCTTCTGCAGAATTTCCTGGGATTGATAAATCAAAATATAAG
261 AGACTTTTTTATAACCCCTGATACCTTCTGCAGAATTTCCTGGGATTGATAAATCAAAATATAAG
27077771 CTATCCATAGTGCAGTTCAGATTCAACTAAATTGAACAAAGTTTTAAGAAATTTCAGACCCTAAA
326 CTATCCATAGTGCAGTTCAGATTCAACTAAATTGAACAAAGTTTTAAGAAATTTCAGACCCTAAA
** **
27077836 AAGCGAAAGTAAGAAGGGAAAAAAAGATAGATGAGTACTTGAAACGATAGATGAGTACTTGAAAC
391 AAGAAAAAAAAAGAAGGGAAAAAAAGATAGATGAGTACTTGAAACGATAGATGAGTACTTGAAAC
27077901 GATTCTTCTTTGTTTTTTTAGTCGATATCGGAGTCATCAAAATTGTCTTCGAAGTTGTTGAAGGA
456 GATTCTTCTTTGTTTTTTTAGTCGATATCGGAGTCATCAAAATTGTCTTCGAAGTTGTTGAAGGA
27077966 ATCGGCATAGGCGAGCTTGTTGTCGGAAGCGATGACGCCTTCACCGAAGATCTCCGGTGTGTCAA
521 ATCGGCATAGGCGAGCTTGTTGTCGGAAGCGATGACGCCTTCACCGAAGATCTCCGGTGTGTCAA
27078031 CATCGTCAACTTCCATGGTTGAACCTTGGTCGTCTGTGTCCGTCACGAATTCCATCGGCATCGGC
586 CATCGTCAACTTCCATGGTTGAACCTTGGTCGTCTGTGTCCGTCACGAATTCCATCGGCATCGGC
27078096 CTCATCTTTCCCCC
651 CTCATCTTTCCCCC
27078110 AAAATTGTTACAAGAATTGTATTTATGAATATCAGTGAAACTCCAAAACCATTTCATCCTCAACA
1 AAAATTGTTACAAGAATTGTATTTATGAATATCAGTGAAACTCCAAAACCATTTCATCCTCAACA
27078175 TATAAACATCCTTGACTTTTTTTTTTTAAATACCAACTGTTAAAAGAGGAAAAAATAAGTTCTAA
66 TATAAACATCCTTGACTTTTTTTTTTTAAATACCAACTGTTAAAAGAGGAAAAAATAAGTTCTAA
27078240 AAGTTGGTACCTTAGTTTGAGACCCTTGAACTGCAGCGATTCCTTTCCTTTGTGTACTATCTGAC
131 AAGTTGGTACCTTAGTTTGAGACCCTTGAACTGCAGCGATTCCTTTCCTTTGTGTACTATCTGAC
27078305 ATAGTATGCATCCCAAGTCCATTATCTATTGTCGCAGACTTCCCTACTTCCTAAGCTCCTTGCAT
196 ATAGTATGCATCCCAAGTCCATTATCTATTGTCGCAGACTTCCCTACTTCCTAAGCTCCTTGCAT
27078370 AGACTTTTTTATAACCCCTGATACCTTCTGCAGAATTTCCTGGGATTGATAAATCAAAATATAAG
261 AGACTTTTTTATAACCCCTGATACCTTCTGCAGAATTTCCTGGGATTGATAAATCAAAATATAAG
27078435 CTATCCATAGTGCAGTTCAGATTCAACTAAATTGAACAAAGTTTTAAGAAATTTCAGACCCTAAA
326 CTATCCATAGTGCAGTTCAGATTCAACTAAATTGAACAAAGTTTTAAGAAATTTCAGACCCTAAA
27078500 AAGAAAAAAAAAGAAGGGAAAAAAAGATAGATGAGTACTTGAAACGATAGATGAGTACTTGAAAC
391 AAGAAAAAAAAAGAAGGGAAAAAAAGATAGATGAGTACTTGAAACGATAGATGAGTACTTGAAAC
27078565 GATTCTTCTTTGTTTTTTTAGTCGATATCGGAGTCATCAAAATTGTCTTCGAAGTTGTTGAAGGA
456 GATTCTTCTTTGTTTTTTTAGTCGATATCGGAGTCATCAAAATTGTCTTCGAAGTTGTTGAAGGA
27078630 ATCGGCATAGGCGAGCTTGTTGTCGGAAGCGATGACGCCTTCACCGAAGATCTCCGGTGTGTCAA
521 ATCGGCATAGGCGAGCTTGTTGTCGGAAGCGATGACGCCTTCACCGAAGATCTCCGGTGTGTCAA
27078695 CATCGTCAACTTCCATGGTTGAACCTTGGTCGTCTGTGTCCGTCACGAATTCCATCGGCATCGGC
586 CATCGTCAACTTCCATGGTTGAACCTTGGTCGTCTGTGTCCGTCACGAATTCCATCGGCATCGGC
27078760 CTCATCTTTCCCCC
651 CTCATCTTTCCCCC
27078774 CTTTTCTTTA
Statistics
Matches: 660, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
664 660 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (664 bp):
AAAATTGTTACAAGAATTGTATTTATGAATATCAGTGAAACTCCAAAACCATTTCATCCTCAACA
TATAAACATCCTTGACTTTTTTTTTTTAAATACCAACTGTTAAAAGAGGAAAAAATAAGTTCTAA
AAGTTGGTACCTTAGTTTGAGACCCTTGAACTGCAGCGATTCCTTTCCTTTGTGTACTATCTGAC
ATAGTATGCATCCCAAGTCCATTATCTATTGTCGCAGACTTCCCTACTTCCTAAGCTCCTTGCAT
AGACTTTTTTATAACCCCTGATACCTTCTGCAGAATTTCCTGGGATTGATAAATCAAAATATAAG
CTATCCATAGTGCAGTTCAGATTCAACTAAATTGAACAAAGTTTTAAGAAATTTCAGACCCTAAA
AAGAAAAAAAAAGAAGGGAAAAAAAGATAGATGAGTACTTGAAACGATAGATGAGTACTTGAAAC
GATTCTTCTTTGTTTTTTTAGTCGATATCGGAGTCATCAAAATTGTCTTCGAAGTTGTTGAAGGA
ATCGGCATAGGCGAGCTTGTTGTCGGAAGCGATGACGCCTTCACCGAAGATCTCCGGTGTGTCAA
CATCGTCAACTTCCATGGTTGAACCTTGGTCGTCTGTGTCCGTCACGAATTCCATCGGCATCGGC
CTCATCTTTCCCCC
Found at i:27080062 original size:20 final size:20
Alignment explanation
Indices: 27080037--27080075 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27080027 AATAAAGAAT
27080037 AATTTTTCCCATCTATTTTC
1 AATTTTTCCCATCTATTTTC
*
27080057 AATTTTTCCTATCTATTTT
1 AATTTTTCCCATCTATTTT
27080076 GAGCTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTTCCCATCTATTTTC
Found at i:27080417 original size:40 final size:40
Alignment explanation
Indices: 27080347--27080584 Score: 192
Period size: 41 Copynumber: 5.8 Consensus size: 40
27080337 TTTAAATCCC
* * *
27080347 TGAGCATTAGCGGCGCTT-TTTAGAACACGCCGCTAAA-AA
1 TGAGCATTAGCGGCGCTTCCTCA-AAAACGCCGCTAAACAA
* **
27080386 TAGAGCATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
1 T-GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* **
27080428 TGATCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* ** * * **
27080469 TGATCATTAGCAACGCTTCCACAAAAACGTCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* * * * **
27080510 TGAACATTAGCGGCGCTTTCTCGAAAACCCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* *
27080551 TGATCATTAGCGACGCTTCCTCAAAAACGCCGCT
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCT
27080585 GAAGCCCTGT
Statistics
Matches: 170, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 29 0.17
41 139 0.82
42 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAACAA
Found at i:27080444 original size:41 final size:41
Alignment explanation
Indices: 27080391--27080670 Score: 328
Period size: 41 Copynumber: 6.8 Consensus size: 41
27080381 AAAAATAGAG
* *
27080391 CATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
*
27080432 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * *
27080473 CATTAGCAACGCTTCCACAAAAACGTCGCTAAAGCCCTGAA
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * *
27080514 CATTAGCGGCGCTTTCTCGAAAACCCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
*
27080555 CATTAGCGACGCTTCCTCAAAAACGCCGCTGAAGCCCTG-T
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * * * * *
27080595 GCATCAACGACACTTCCTCAAAAAACGCAGTTAAAGCCTTGAG
1 -CATTAGCGACGCTTCCTC-AAAAACGCCGCTAAAGCCCTGAT
* * * *
27080638 CAATAGCGACGCTTTCTCAAAAACACTGCTAAA
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAA
27080671 ACCTCGAAAG
Statistics
Matches: 201, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
40 1 0.00
41 170 0.85
42 30 0.15
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (41 bp):
CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
Found at i:27081337 original size:49 final size:49
Alignment explanation
Indices: 27081265--27081383 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
27081255 CCCGAAAAAT
* * *
27081265 TAAGACAGGCCGCTGGTAAGGCATATTAGTTGCTAAAAAGATTGGCGGA
1 TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
* * **
27081314 TAAGACGGGCCGCTAGTAGGGCATGTTAGTTGCTAACCAGATTGGCAGA
1 TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
* * *
27081363 TAAAATAGGCCACTAGTAGGG
1 TAAGACAGGCCGCTAGTAGGG
27081384 ATGTTAATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (49 bp):
TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
Found at i:27081411 original size:48 final size:48
Alignment explanation
Indices: 27081321--27081450 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 48
27081311 GGATAAGACG
* * * * *
27081321 GGCCGCTAGTAGGGCATGTTAGTTGCTAACCAGATTGGCAGATAAAATA
1 GGCCACTAGTAGGG-ATGTTAATTGTTAACCAGAATGACAGATAAAATA
* ***
27081370 GGCCACTAGTAGGGATGTTAATTGTTAACCATAATGACAGATATGCTA
1 GGCCACTAGTAGGGATGTTAATTGTTAACCAGAATGACAGATAAAATA
* * * *
27081418 GGTCTCTAGTAAGGCATGTTATTTGTTAACCAG
1 GGCCACTAGT-AGGGATGTTAATTGTTAACCAG
27081451 TCTGGCGATT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
48 34 0.52
49 32 0.48
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
GGCCACTAGTAGGGATGTTAATTGTTAACCAGAATGACAGATAAAATA
Found at i:27083191 original size:19 final size:20
Alignment explanation
Indices: 27083167--27083207 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
27083157 ATATTAGTAA
*
27083167 TAATAATAGACAA-TAATAG
1 TAATAATAAACAAGTAATAG
27083186 TAATAATAAACAAGTAATAG
1 TAATAATAAACAAGTAATAG
27083206 TA
1 TA
27083208 CCATAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.27
Consensus pattern (20 bp):
TAATAATAAACAAGTAATAG
Found at i:27086046 original size:14 final size:14
Alignment explanation
Indices: 27086029--27086076 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27086019 CTTATTTAAT
27086029 TATTATTCTTTA-AA
1 TATTATT-TTTACAA
* *
27086043 TATTTATATTTACTA
1 TA-TTATTTTTACAA
27086058 TATTATTTTTACAA
1 TATTATTTTTACAA
27086072 TATTA
1 TATTA
27086077 ATTAAAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTTTTACAA
Found at i:27086073 original size:29 final size:28
Alignment explanation
Indices: 27086021--27086075 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
27086011 ACAAAACCCT
27086021 TATTTAATTATTATTCTTTAAATATTTA
1 TATTTAATTATTATTCTTTAAATATTTA
*
27086049 TATTTACTATATTATT-TTTACAATATT
1 TATTTAAT-TATTATTCTTTA-AATATT
27086076 AATTAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTTAATTATTATTCTTTAAATATTTA
Found at i:27091230 original size:18 final size:16
Alignment explanation
Indices: 27091209--27091242 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
27091199 ACAACATGAC
27091209 AACAGTAAACAACAACAT
1 AACAGT-AACAA-AACAT
27091227 AACAGTAACAAAACAT
1 AACAGTAACAAAACAT
27091243 GTAAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.12
Consensus pattern (16 bp):
AACAGTAACAAAACAT
Found at i:27109986 original size:22 final size:23
Alignment explanation
Indices: 27109948--27109991 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
27109938 TATTGTAAAA
*
27109948 TTTAATTAATATATAACTTATAT
1 TTTAATTAATATATAACGTATAT
27109971 TTTAA-TAAT-TATTAACGTATA
1 TTTAATTAATATA-TAACGTATA
27109992 ACCATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 12 0.63
23 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATTAATATATAACGTATAT
Found at i:27110718 original size:22 final size:22
Alignment explanation
Indices: 27110675--27110730 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
27110665 TAGTCATATA
* * *
27110675 ATAAATTATTAATATAACAAAT
1 ATAATTTATTATTTTAACAAAT
*
27110697 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAACAAAT
*
27110719 -T-ATTTAATATTT
1 ATAATTTATTATTT
27110731 CAATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAACAAAT
Found at i:27110802 original size:23 final size:22
Alignment explanation
Indices: 27110773--27110822 Score: 77
Period size: 20 Copynumber: 2.3 Consensus size: 22
27110763 AATTCTAAAT
27110773 AATATTCTTCACATATTATTGAA
1 AATATT-TTCACATATTATTGAA
27110796 AATA--TTCACATATTATTGAA
1 AATATTTTCACATATTATTGAA
27110816 AATATTT
1 AATATTT
27110823 GTTAAACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 20 0.80
22 1 0.04
23 4 0.16
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (22 bp):
AATATTTTCACATATTATTGAA
Found at i:27110805 original size:20 final size:20
Alignment explanation
Indices: 27110780--27110821 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
27110770 AATAATATTC
27110780 TTCACATATTATTGAAAATA
1 TTCACATATTATTGAAAATA
27110800 TTCACATATTATTGAAAATA
1 TTCACATATTATTGAAAATA
27110820 TT
1 TT
27110822 TGTTAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (20 bp):
TTCACATATTATTGAAAATA
Found at i:27111208 original size:14 final size:13
Alignment explanation
Indices: 27111189--27111229 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
27111179 CCAAAAAAGC
27111189 AAATCATTTTCTAG
1 AAATCATTTTC-AG
*
27111203 AAATCATTTTCCG
1 AAATCATTTTCAG
27111216 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
27111230 TGAAACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:27115229 original size:13 final size:13
Alignment explanation
Indices: 27115211--27115235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27115201 ATAAACGATA
27115211 AAATTTTCACACG
1 AAATTTTCACACG
27115224 AAATTTTCACAC
1 AAATTTTCACAC
27115236 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27116286 original size:12 final size:12
Alignment explanation
Indices: 27116269--27116293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27116259 AACTTATGTA
27116269 TAATTCGTACTG
1 TAATTCGTACTG
27116281 TAATTCGTACTG
1 TAATTCGTACTG
27116293 T
1 T
27116294 TTTTGGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TAATTCGTACTG
Found at i:27117372 original size:13 final size:13
Alignment explanation
Indices: 27117354--27117378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27117344 ATAAACGATA
27117354 AAATTTTCACACG
1 AAATTTTCACACG
27117367 AAATTTTCACAC
1 AAATTTTCACAC
27117379 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27140802 original size:27 final size:27
Alignment explanation
Indices: 27140739--27140840 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
27140729 CGAAAGGGGT
* *
27140739 GTGGTGCCTATCTGATAGGCGACACCA
1 GTGGTGCCTATCTGATAGGCGGCACTA
*** *
27140766 GTGACCCCTATCTGATAGGCGGCACTG
1 GTGGTGCCTATCTGATAGGCGGCACTA
*
27140793 GTTGTGCCTATCTGATAGGCGGCACTA
1 GTGGTGCCTATCTGATAGGCGGCACTA
* *
27140820 GTGGTGTCTATCTAATAGGCG
1 GTGGTGCCTATCTGATAGGCG
27140841 ACACACCTAG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (27 bp):
GTGGTGCCTATCTGATAGGCGGCACTA
Found at i:27140921 original size:14 final size:15
Alignment explanation
Indices: 27140896--27140924 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27140886 GGAGAAGAGA
27140896 AGAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
27140911 AGAAA-AAAGAAAAG
1 AGAAAGAAAGAAAAG
27140925 GTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAG
Found at i:27144289 original size:33 final size:33
Alignment explanation
Indices: 27144232--27144294 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
27144222 AGGAATGCCA
27144232 TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
1 TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
27144265 TACTGCAGTGGAT-TCAGACC-AGGAGGAGTG
1 TACTGCAGTGGATAT--GACCTAGGAGGAGTG
27144295 TTATACTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 1 0.04
33 23 0.82
34 4 0.14
ACGTcount: A:0.27, C:0.14, G:0.38, T:0.21
Consensus pattern (33 bp):
TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
Done.