Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 41 of 328
Found at i:11915032 original size:21 final size:20
Alignment explanation
Indices: 11914984--11915032 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
11914974 GAAAAGCTAT
* *
11914984 TTGAATAGCAAGTATGAGAT
1 TTGAATAGCAAGGATGAGAA
*
11915004 TTGAAATAGCAAGAGATGATAA
1 TTG-AATAGCAAG-GATGAGAA
11915026 TTGAATA
1 TTGAATA
11915033 TGTTATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 13 0.54
22 8 0.33
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (20 bp):
TTGAATAGCAAGGATGAGAA
Found at i:11916879 original size:45 final size:45
Alignment explanation
Indices: 11916809--11917073 Score: 313
Period size: 45 Copynumber: 6.0 Consensus size: 45
11916799 CCATAAGATT
* * * *
11916809 GATATATGTGTTTTTGTGTACGACCACGTCTGGTACATTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
11916854 GATATAAGTGTTTTCGTGGAAGACCACGTCTGGGACGTTAGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
*
11916899 GATATATGTGTTTTCGTGTAAGACTACGTCTGGGACGTTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
11916944 GATATATGTGTTTTTGTGTAAGACCACGTTTGGGACGTTTGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * ** * * * *
11916989 GATCTATGTGGTTAAGTGTAAGACCATGTCTGGGACATCGACATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
11917034 G-TAT-T-TG-ATTCGAGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
11917074 TGTATGATAT
Statistics
Matches: 186, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
41 25 0.13
42 2 0.01
43 1 0.01
44 2 0.01
45 156 0.84
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (45 bp):
GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:11920762 original size:20 final size:20
Alignment explanation
Indices: 11920739--11920785 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
11920729 CTGCACACGA
11920739 CCGTGTGATCCGTCACACAC
1 CCGTGTGATCCGTCACACAC
11920759 CCGTGTGATCCGTCACACAC
1 CCGTGTGATCCGTCACACAC
11920779 CCGTGTG
1 CCGTGTG
11920786 CCCACCCCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (20 bp):
CCGTGTGATCCGTCACACAC
Found at i:11922422 original size:46 final size:46
Alignment explanation
Indices: 11922337--11922492 Score: 176
Period size: 46 Copynumber: 3.3 Consensus size: 46
11922327 TTATTTCTTT
* *
11922337 TTTTTCTCTTTTTTTTTTCCAGGTGATGTTTCTTTTTCCCTATTTCCC
1 TTTTT-TCTTTCTTTTTTCCAGGTGATGTTTCTTCTTCCCTATTT-CC
*
11922385 TTTTTTCTTTCTTTTTT-CGGGTGATGTTTCTTCTTCCCTATTTCC
1 TTTTTTCTTTCTTTTTTCCAGGTGATGTTTCTTCTTCCCTATTTCC
* *
11922430 ATTTTTCTTTCTTTTTTGTCCTA-GTGATGTTTCTTC-TCCACAATTTCC
1 TTTTTTCTTTC-TTTTT-TCC-AGGTGATGTTTCTTCTTCC-CTATTTCC
*
11922478 TTTTCTC-TTCTTTTT
1 TTTTTTCTTTCTTTTT
11922493 CCTTGTGACC
Statistics
Matches: 95, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
45 12 0.13
46 34 0.36
47 18 0.19
48 31 0.33
ACGTcount: A:0.07, C:0.22, G:0.08, T:0.62
Consensus pattern (46 bp):
TTTTTTCTTTCTTTTTTCCAGGTGATGTTTCTTCTTCCCTATTTCC
Found at i:11923983 original size:18 final size:19
Alignment explanation
Indices: 11923955--11923990 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11923945 TTCACTTCAT
*
11923955 TATTATAATTTTATTATAC
1 TATTATAATTTAATTATAC
11923974 TATT-TAATTTAATTATA
1 TATTATAATTTAATTATA
11923991 GATTCGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATAATTTAATTATAC
Found at i:11928638 original size:24 final size:24
Alignment explanation
Indices: 11928610--11928660 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
11928600 AGCTTGTAAA
11928610 AACCATCACTGGAGCATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
* *
11928634 AACCATCACTGTAGTATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
11928658 AAC
1 AAC
11928661 ATATCCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (24 bp):
AACCATCACTGGAGCATCAAATTG
Found at i:11933028 original size:58 final size:59
Alignment explanation
Indices: 11932959--11933076 Score: 184
Period size: 58 Copynumber: 2.0 Consensus size: 59
11932949 TTAGGCCCTA
*
11932959 AACTTGGCAATTGTTTTCACATTGGGGCCTGAACTCTT-TTTGCCCAAGTTAGACCTTG
1 AACTTGGCAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
* * * *
11933017 AACTTGGCAATTATTTTCACATTGGGGCTTGAACTTTTATTTGTCCAAGTTAGTCCTTG
1 AACTTGGCAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
11933076 A
1 A
11933077 TGTTTCCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 35 0.65
59 19 0.35
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (59 bp):
AACTTGGCAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
Found at i:11937524 original size:12 final size:12
Alignment explanation
Indices: 11937507--11937532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11937497 TTTAATATTT
11937507 TAAAAATAATAA
1 TAAAAATAATAA
11937519 TAAAAATAATAA
1 TAAAAATAATAA
11937531 TA
1 TA
11937533 GTTGTAGGGG
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:11939116 original size:90 final size:90
Alignment explanation
Indices: 11938890--11939102 Score: 381
Period size: 90 Copynumber: 2.4 Consensus size: 90
11938880 GATCCAAAAA
* * * *
11938890 CAAATGAACAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAACGGTTGAAGGTTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
*
11938955 AGAGATGCCATAGAAAATTCTCAAG
66 AGAGAAGCCATAGAAAATTCTCAAG
11938980 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
11939045 AGAGAAGCCATAGAAAATTCTCAAG
66 AGAGAAGCCATAGAAAATTCTCAAG
11939070 CAAAGGAACAAGAAGTTGTACATTCAATGGATG
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATG
11939103 CACACAATGC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (90 bp):
CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
AGAGAAGCCATAGAAAATTCTCAAG
Found at i:11939130 original size:90 final size:90
Alignment explanation
Indices: 11938890--11939135 Score: 370
Period size: 90 Copynumber: 2.7 Consensus size: 90
11938880 GATCCAAAAA
* * *
11938890 CAAATGAACAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAAC-GGTTGAAGGTTGTCA
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTC-ACTGGTTGAAGATTGTCA
*
11938954 TAGAGATGCCATAGAAAATTCTCAAG
65 TAGAGAAGCCATAGAAAATTCTCAAG
*
11938980 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCACTGGTTGAAGATTGTCAT
11939045 AGAGAAGCCATAGAAAATTCTCAAG
66 AGAGAAGCCATAGAAAATTCTCAAG
**** *
11939070 CAAAGGAACAAGAAGTTGTACATTCAATGGATGCACACAATGCTTCACCTGG-TGATGATTGTCA
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCA-CTGGTTGAAGATTGTCA
11939134 TA
65 TA
11939136 AAGATACTCT
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
89 1 0.01
90 139 0.97
91 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (90 bp):
CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCACTGGTTGAAGATTGTCAT
AGAGAAGCCATAGAAAATTCTCAAG
Found at i:11943631 original size:3 final size:3
Alignment explanation
Indices: 11943625--11943659 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
11943615 TTAAACACTA
11943625 ATC ATC A-C ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
11943660 CTCAATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:11945714 original size:36 final size:36
Alignment explanation
Indices: 11945673--11945744 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
11945663 TAGAAAAGAG
11945673 ATAGTGATTTTTTGGGGGAAAAAAGAAAATTGTGGT
1 ATAGTGATTTTTTGGGGGAAAAAAGAAAATTGTGGT
11945709 ATAGTGATTTTTTGGGGGAAAAAAGAAAATTGTGGT
1 ATAGTGATTTTTTGGGGGAAAAAAGAAAATTGTGGT
11945745 CCCATATCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (36 bp):
ATAGTGATTTTTTGGGGGAAAAAAGAAAATTGTGGT
Found at i:11954602 original size:2 final size:2
Alignment explanation
Indices: 11954595--11954634 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
11954585 CAGTATACAA
**
11954595 AT AT AT AT A- AT GC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11954635 AACCTCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11955710 original size:16 final size:16
Alignment explanation
Indices: 11955689--11955720 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11955679 AAATTTGATT
*
11955689 ATTAAATTTTTTTTAA
1 ATTAAATTATTTTTAA
11955705 ATTAAATTATTTTTAA
1 ATTAAATTATTTTTAA
11955721 TGCTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTAAATTATTTTTAA
Found at i:11966275 original size:15 final size:16
Alignment explanation
Indices: 11966252--11966291 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
11966242 AATATTTTAT
11966252 AATTTTTTAAAAT-TA
1 AATTTTTTAAAATATA
*
11966267 AATTATTT-AAATATA
1 AATTTTTTAAAATATA
11966282 AATTTTTTAA
1 AATTTTTTAA
11966292 TAGCTTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 16 0.76
16 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTTTAAAATATA
Found at i:11973570 original size:35 final size:35
Alignment explanation
Indices: 11973526--11973692 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
11973516 TCCTCATTGA
** *
11973526 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
11973561 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
11973601 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
11973636 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
11973671 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
11973693 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:11973610 original size:75 final size:73
Alignment explanation
Indices: 11973521--11973692 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
11973511 GGTTTTCCTC
** * * **
11973521 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
11973585 TCAGTATGG
65 TCAGTATGG
*
11973594 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
11973659 CTCAGTATGG
64 CTCAGTATGG
11973669 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
11973693 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:11975553 original size:21 final size:21
Alignment explanation
Indices: 11975514--11975569 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
11975504 GTGTTTTACT
* *
11975514 TTCTGTTCAACTCTT-ATGAGT
1 TTCTGTTCAGCT-TTAATGAGC
*
11975535 TTTTGTTCAGCTTTAATGAGC
1 TTCTGTTCAGCTTTAATGAGC
11975556 TTCTGTTCAGCTTT
1 TTCTGTTCAGCTTT
11975570 CGAGGTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (21 bp):
TTCTGTTCAGCTTTAATGAGC
Found at i:11976097 original size:23 final size:27
Alignment explanation
Indices: 11976070--11976122 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 27
11976060 TACATATTGG
11976070 TATGAGAATGAG-G-TATAT-TATG-A
1 TATGAGAATGAGTGTTATATGTATGTA
*
11976093 TATGAGCATGAGTGTTATATGTATGTA
1 TATGAGAATGAGTGTTATATGTATGTA
11976120 TAT
1 TAT
11976123 AATTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 11 0.44
24 1 0.04
25 5 0.20
26 4 0.16
27 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.40
Consensus pattern (27 bp):
TATGAGAATGAGTGTTATATGTATGTA
Found at i:11981800 original size:17 final size:17
Alignment explanation
Indices: 11981778--11981815 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11981768 AACATACATG
11981778 TACATGAATTGATGGAT
1 TACATGAATTGATGGAT
11981795 TACATGAATTGATGGAT
1 TACATGAATTGATGGAT
11981812 TACA
1 TACA
11981816 ATTTTGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (17 bp):
TACATGAATTGATGGAT
Found at i:11995209 original size:33 final size:33
Alignment explanation
Indices: 11995115--11995212 Score: 103
Period size: 33 Copynumber: 3.0 Consensus size: 33
11995105 ATTTCAAACC
* *
11995115 TTCTTCTTTCTTT-TTCTCGATCAGCCTCAAATC
1 TTCTTC-TTCTTTCTTCTTGATCAGCCTCAAATA
* *
11995148 TTCTTCTTCTTTCTTC-TCAGTTAGCCTCAAATA
1 TTCTTCTTCTTTCTTCTTGA-TCAGCCTCAAATA
*
11995181 TTCTTC-TCTTTGCTTCTTGATCAACCTCAAAT
1 TTCTTCTTCTTT-CTTCTTGATCAGCCTCAAAT
11995213 TTGTCCATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.22
33 40 0.74
34 2 0.04
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.48
Consensus pattern (33 bp):
TTCTTCTTCTTTCTTCTTGATCAGCCTCAAATA
Found at i:11999800 original size:46 final size:46
Alignment explanation
Indices: 11999742--12000062 Score: 457
Period size: 46 Copynumber: 7.0 Consensus size: 46
11999732 AGTGTGCTCT
11999742 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11999788 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11999834 TTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11999880 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11999926 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** ** *
11999972 GTGATGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGAT-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
12000019 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12000063 TCATGTCGAA
Statistics
Matches: 252, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 211 0.84
47 40 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12004685 original size:5 final size:5
Alignment explanation
Indices: 12004675--12004699 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12004665 AACATAAATT
12004675 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
12004700 TATCTTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:12007277 original size:16 final size:15
Alignment explanation
Indices: 12007247--12007278 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12007237 GTTCTCCATG
12007247 TAAAAATACAATTTT
1 TAAAAATACAATTTT
*
12007262 TAAAAATACAGTTTT
1 TAAAAATACAATTTT
12007277 TA
1 TA
12007279 CATCTAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAAATACAATTTT
Found at i:12014919 original size:11 final size:11
Alignment explanation
Indices: 12014903--12014944 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
12014893 TAGCTATTTA
12014903 TAATAAAATAT
1 TAATAAAATAT
12014914 TAATAAAATATT
1 TAATAAAATA-T
*
12014926 TCATTAAAATAT
1 T-AATAAAATAT
12014938 TAATAAA
1 TAATAAA
12014945 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.56
12 4 0.15
13 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:12015319 original size:3 final size:3
Alignment explanation
Indices: 12015311--12015364 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
12015301 CTACTTCTTA
12015311 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12015359 ATT ATT
1 ATT ATT
12015365 CCTCAATATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12015607 original size:13 final size:13
Alignment explanation
Indices: 12015575--12015600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12015565 GTATCATATT
12015575 ATATAAAATTAAA
1 ATATAAAATTAAA
12015588 ATATAAAATTAAA
1 ATATAAAATTAAA
12015601 TAATAAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATTAAA
Found at i:12021493 original size:49 final size:49
Alignment explanation
Indices: 12021386--12021507 Score: 131
Period size: 49 Copynumber: 2.5 Consensus size: 49
12021376 GTGGTGTGTT
* ** * *
12021386 AGTGTAAGGCCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGCC
* * *
12021435 AGTGAAAGACCTGTCTGGGACATGGTATCAAC-CTCGCT-GTATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CGATAG-ATGAAAGCC
12021484 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACC-TGTCTGGGACAT
12021508 TGCGTTGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.03
49 47 0.77
50 12 0.20
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGCC
Found at i:12022479 original size:15 final size:15
Alignment explanation
Indices: 12022459--12022506 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12022449 TCAAAGATGG
12022459 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
12022474 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
12022488 GTTTATGGATATAAA
1 GTTTATGGATATGAA
12022503 GTTT
1 GTTT
12022507 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:12022493 original size:14 final size:14
Alignment explanation
Indices: 12022453--12022496 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12022443 AAGGATTCAA
12022453 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
12022467 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
12022482 AGATGGGTTTATGG
1 AGATGGGTTTATGG
12022496 A
1 A
12022497 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:12022522 original size:29 final size:29
Alignment explanation
Indices: 12022453--12022512 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
12022443 AAGGATTCAA
*
12022453 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
12022482 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
12022511 AG
1 AG
12022513 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:12026918 original size:10 final size:10
Alignment explanation
Indices: 12026905--12026942 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
12026895 GATTTTGTTT
12026905 TTTTTTTCAA
1 TTTTTTTCAA
12026915 TTTTTTTCAA
1 TTTTTTTCAA
*
12026925 TTTTTTTTCGA
1 -TTTTTTTCAA
12026936 TTTTTTT
1 TTTTTTT
12026943 TTAAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:12026918 original size:11 final size:11
Alignment explanation
Indices: 12026904--12026943 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
12026894 AGATTTTGTT
12026904 TTTTTTTTCAA
1 TTTTTTTTCAA
12026915 -TTTTTTTCAA
1 TTTTTTTTCAA
*
12026925 TTTTTTTTCGA
1 TTTTTTTTCAA
12026936 TTTTTTTT
1 TTTTTTTT
12026944 TAAAACTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:12027186 original size:15 final size:15
Alignment explanation
Indices: 12027166--12027213 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12027156 TCAAAGATGG
12027166 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
12027181 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
12027195 GTTTATGGATATAAA
1 GTTTATGGATATGAA
12027210 GTTT
1 GTTT
12027214 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:12027200 original size:14 final size:14
Alignment explanation
Indices: 12027160--12027203 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12027150 AAGGATTCAA
12027160 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
12027174 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
12027189 AGATGGGTTTATGG
1 AGATGGGTTTATGG
12027203 A
1 A
12027204 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:12027229 original size:29 final size:29
Alignment explanation
Indices: 12027160--12027219 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
12027150 AAGGATTCAA
*
12027160 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
12027189 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
12027218 AG
1 AG
12027220 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:12028236 original size:14 final size:14
Alignment explanation
Indices: 12028194--12028238 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
12028184 TTAAAGAAGC
12028194 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
12028208 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
12028221 AACTCATTTAATTA
1 AACTCATTAAATTA
12028235 AACT
1 AACT
12028239 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:12029914 original size:51 final size:50
Alignment explanation
Indices: 12029767--12029914 Score: 188
Period size: 51 Copynumber: 2.9 Consensus size: 50
12029757 TGACATAGGC
* * * * *
12029767 GAACCCCTAATTAACTCGAATAGAGTAGAGGAAGTATGACCAGAAATAGGA
1 GAACCCCTAATTAACCCG-ATAGAGTAGAAGATGTATGACCAGAAGTAGAA
* * *
12029818 GAATCCGTAATTAACCCGGATGGAGTAGAAGATGTATGACCAGAAGTAGAA
1 GAACCCCTAATTAACCC-GATAGAGTAGAAGATGTATGACCAGAAGTAGAA
*
12029869 GAACCCCTAATTAACCCAGATAGAGTAGATGATGTATGACCAGAAG
1 GAACCCCTAATTAACCC-GATAGAGTAGAAGATGTATGACCAGAAG
12029915 AAGGAGTACA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 82 0.99
52 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (50 bp):
GAACCCCTAATTAACCCGATAGAGTAGAAGATGTATGACCAGAAGTAGAA
Found at i:12033497 original size:48 final size:47
Alignment explanation
Indices: 12033438--12033607 Score: 223
Period size: 48 Copynumber: 3.5 Consensus size: 47
12033428 ATCGGTGCCG
* * *
12033438 ATGCCATGTCCCAAACATGGTCTTACACTAGCACACATGTCATCATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA-CATCA
* * *
12033486 ATACCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-ACATCA
* * *
12033534 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAGATGCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCACAT-CA
12033582 GATGCCATGTCCCAGACATGGTCTTA
1 -ATGCCATGTCCCAGACATGGTCTTA
12033608 TACGGGATCT
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.02
48 79 0.74
49 26 0.24
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCACATCA
Found at i:12039920 original size:22 final size:22
Alignment explanation
Indices: 12039895--12039942 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
12039885 ATTTAATTAA
* *
12039895 TTTAAGGTTAGGGTTTTTAGGG
1 TTTAAGGTTAGGATTTTTAGAG
*
12039917 TTTAGGGTTAGGATTTTTAGAG
1 TTTAAGGTTAGGATTTTTAGAG
12039939 TTTA
1 TTTA
12039943 TTTTTTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTAGGATTTTTAGAG
Found at i:12040661 original size:126 final size:126
Alignment explanation
Indices: 12040428--12040810 Score: 615
Period size: 126 Copynumber: 3.0 Consensus size: 126
12040418 TTTCTGCAAG
* * * *
12040428 AATAATTCTGAGCAGACGTTTCTGGACAAATAATGTCAAAAAACGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTC-GAAAACGCTTCAAGCAGGATGCACTGT
* *
12040493 CAGCAAAATTTTTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTATTTCGTAGAAA
65 CAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
12040555 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
12040620 AGCAAAATTTCTAGAAAAAGCTCCTACGTGGATGCTTTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
12040681 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
12040746 AGCAAAA-TTCTGGAAAAAGCTCCCACGCGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
12040806 AATAA
1 AATAA
12040811 GGGTATAAAT
Statistics
Matches: 237, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 53 0.22
126 150 0.63
127 34 0.14
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:12043753 original size:41 final size:41
Alignment explanation
Indices: 12043534--12043756 Score: 279
Period size: 41 Copynumber: 5.5 Consensus size: 41
12043524 CGTTTTACCA
** * * * *
12043534 AAAACGCCGCTAAAA-ATAGAGCAATAGTGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCG-CTTTTGGT
* * *
12043575 AAAACGCCGCTAAAA-ACAGAGCATTAGAGGCACTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
*
12043615 AAAACGCCACTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
* * * *
12043656 AAAACGCCGCTAAAAACTAGAGCATTAGCGTCGCTTTTGAT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
* *
12043697 AAAACGCCGCTAAAAGCCAGAACATTAGCGCCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
12043738 AAAACGCCGCTAAAAGCCA
1 AAAACGCCGCTAAAAGCCA
12043757 TATAACCCCT
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 20 0.12
41 141 0.88
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
Found at i:12043840 original size:23 final size:22
Alignment explanation
Indices: 12043793--12043840 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
12043783 AAAAAATCAT
* *
12043793 AAACACTAATCTATAATCCTTA
1 AAACACTAACCTATAAACCTTA
*
12043815 AAACACTAACCTTCTAAACCTTA
1 AAACACTAACC-TATAAACCTTA
12043838 AAA
1 AAA
12043841 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
AAACACTAACCTATAAACCTTA
Found at i:12044087 original size:14 final size:14
Alignment explanation
Indices: 12044055--12044108 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
12044045 TATTTTAAGT
*
12044055 TTTATGGATTATAGG
1 TTTAGGGATTAT-GG
12044070 TTTAGGGATTATGG
1 TTTAGGGATTATGG
*
12044084 TTTAGGGGTTAGTGG
1 TTTAGGGATTA-TGG
*
12044099 TCTA-GGATTA
1 TTTAGGGATTA
12044109 AGAGTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 17 0.50
15 17 0.50
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (14 bp):
TTTAGGGATTATGG
Found at i:12044358 original size:22 final size:22
Alignment explanation
Indices: 12044307--12044360 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
12044297 ATGATTAAGG
12044307 GTTTAAGGTTTATGAGTTACTA
1 GTTTAAGGTTTATGAGTTACTA
*
12044329 TTTTAAGGTTTATGTA-TTA-TA
1 GTTTAAGGTTTATG-AGTTACTA
12044350 GTTTAAAGGTT
1 GTTT-AAGGTT
12044361 AGGGGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.18
22 22 0.79
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (22 bp):
GTTTAAGGTTTATGAGTTACTA
Found at i:12044514 original size:8 final size:8
Alignment explanation
Indices: 12044501--12044537 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
12044491 GATAATTTTA
12044501 ATTTTAAT
1 ATTTTAAT
*
12044509 ATTTTAAA
1 ATTTTAAT
12044517 ATTTT-A-
1 ATTTTAAT
12044523 ATTTTAAT
1 ATTTTAAT
12044531 ATTTTAA
1 ATTTTAA
12044538 AATTATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
6 5 0.19
7 2 0.08
8 19 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTTAAT
Found at i:12044514 original size:14 final size:14
Alignment explanation
Indices: 12044493--12044537 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
12044483 GTAAAAGAGA
12044493 TAATTTTAAT-TTT
1 TAATTTTAATATTT
* *
12044506 AATATTTTAAAATTT
1 TA-ATTTTAATATTT
12044521 TAATTTTAATATTT
1 TAATTTTAATATTT
12044535 TAA
1 TAA
12044538 AATTATGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 1 0.04
14 21 0.81
15 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTTTAATATTT
Found at i:12044522 original size:22 final size:22
Alignment explanation
Indices: 12044494--12044541 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
12044484 TAAAAGAGAT
12044494 AATTTTAATTTTAATATTTTAA
1 AATTTTAATTTTAATATTTTAA
12044516 AATTTTAATTTTAATATTTTAA
1 AATTTTAATTTTAATATTTTAA
12044538 AATT
1 AATT
12044542 ATGATTATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTTAATTTTAATATTTTAA
Found at i:12045281 original size:20 final size:21
Alignment explanation
Indices: 12045253--12045292 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12045243 TTTAATTTCA
*
12045253 TATTTATTTGGTAA-ACTTTT
1 TATTCATTTGGTAAGACTTTT
*
12045273 TATTCATTTGTTAAGACTTT
1 TATTCATTTGGTAAGACTTT
12045293 GCTTGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (21 bp):
TATTCATTTGGTAAGACTTTT
Found at i:12052905 original size:45 final size:43
Alignment explanation
Indices: 12052825--12053372 Score: 231
Period size: 44 Copynumber: 12.6 Consensus size: 43
12052815 ATTCATAAGC
* ** *
12052825 CTTAACCCCCTAAGCAGTAGGGTAGC-AGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATC-GAAGA-TGA-AGAT
* * *
12052870 CTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGAA-GAT
* * * * * * *
12052914 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGAAGAT
* * * * *
12052956 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGAAG-AT
* * * *
12053000 CTTAAACCCCTAAGCAGTAGGGTAACAGGAT-TAA-ATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACA-AATCGAAGA-TGAAGAT
* * * * * * *
12053043 CTTATCTCCTTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAACCCCCTAAGCAGTAG-GGTAACAAATCGAAGATGAAG-AT
* * * * *
12053087 CTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACA-AATCGAAGATGAAGAT
* * * * * *
12053130 CTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAACCCCCTAAGCAGTAG-GGTAACAAATCGAAGATGAAG-AT
* * ** * *
12053174 CTTAAACCCCTAAGTAGTAGGGTAACAGGT-TAA-ATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGA-TGAAGAT
* * * * * * *
12053216 CTTATCTCCCTAAGCGGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAACCCCCTAAGCAGTAG-GGTAACAAATCGAAGATGAAG-AT
* ** * * * *
12053260 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-AGTTTACAGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGA-AGAT
* * * * * *
12053303 CTGAA-ACCCTAAGCAGTAGGGAAACAGATCAAAGATGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGA-AGA-T
*
12053346 CTTAATCCCCTAAGCAGTAGGGTAACA
1 CTTAACCCCCTAAGCAGTAGGGTAACA
12053373 GGCTGAAAAT
Statistics
Matches: 369, Mismatches: 108, Indels: 53
0.70 0.20 0.10
Matches are distributed among these distances:
42 81 0.22
43 92 0.25
44 156 0.42
45 38 0.10
46 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAAATCGAAGATGAAGAT
Found at i:12053072 original size:87 final size:87
Alignment explanation
Indices: 12052824--12053374 Score: 668
Period size: 86 Copynumber: 6.3 Consensus size: 87
12052814 AATTCATAAG
* * * * * * *
12052824 CCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAA-A-TTGCAGATCTTATCTCCCTAAGCAGTA
* **
12052889 GGGAAACAAATCGAAGACGAAGGG
64 GGGAAACAGATCGAAGACGAAGAA
* * * ***
12052913 TCTTAAACCCCTAATCGGTAGGGTAACA-GACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAGG
*
12052977 GAAACAGATCGAAGATGAAGAA
66 GAAACAGATCGAAGACGAAGAA
*
12052999 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCTTAAGCAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAG-
*
12053064 GG-AGCAGATCGAAGACGAAGAA
65 GGAAACAGATCGAAGACGAAGAA
*
12053086 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAG-
*
12053151 GG-AGCAGATCGAAGACGAAGAA
65 GGAAACAGATCGAAGACGAAGAA
* *
12053173 CCTTAAACCCCTAAGTAGTAGGGTAACAGG-TTAAATTGCAGATCTTATCTCCCTAAGCGGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAG-
*
12053237 GG-AGCAGATCGAAGACGAAGAA
65 GGAAACAGATCGAAGACGAAGAA
** * * * **
12053259 CCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTGAGTTTACAGGTCTGA-AACCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATT-AAATTGCAGATCTTATCTCCCTAAGCAGTAG
* * *
12053322 GGAAACAGATCAAAGATGACA-AG
65 GGAAACAGATCGAAGACGA-AGAA
*
12053345 CCTTAATCCCCTAAGCAGTAGGGTAACAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGG
12053375 CTGAAAATTA
Statistics
Matches: 413, Mismatches: 44, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
85 2 0.00
86 209 0.51
87 175 0.42
88 4 0.01
89 23 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (87 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAGG
GAAACAGATCGAAGACGAAGAA
Found at i:12053209 original size:173 final size:174
Alignment explanation
Indices: 12052824--12053374 Score: 729
Period size: 173 Copynumber: 3.2 Consensus size: 174
12052814 AATTCATAAG
* * * * * * *
12052824 CCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAA-A-TTGCAGATCTTATCTCCCTAAGCAGTA
* * *** * * **
12052889 G-GGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACA-GACCGAATTGC
64 GTGG-AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAATTGC
12052952 AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAA
128 AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAA
*
12052999 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCTTAAGCAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
12053064 GGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAATTGCAGA
66 GGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAATTGCAGA
* *
12053129 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAA
131 TCTTATCTCCCTAAGCAGTAG-GGAAACAGATCGAAGATGAAGAA
* *
12053173 CCTTAAACCCCTAAGTAGTAGGGTAACAGG-TTAAATTGCAGATCTTATCTCCCTAAGCGGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
12053237 GGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTGAGTTTACAG
66 GGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGA-ATTGCAG
* * ** * *
12053301 GTCTGA-AACCCTAAGCAGTAGGGAAACAGATCAAAGATGACA-AG
130 ATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAA
*
12053345 CCTTAATCCCCTAAGCAGTAGGGTAACAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGG
12053375 CTGAAAATTA
Statistics
Matches: 336, Mismatches: 34, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
171 2 0.01
172 59 0.18
173 159 0.47
174 83 0.25
175 33 0.10
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (174 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGATTAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGATTGAATTGCAGA
TCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAA
Found at i:12054813 original size:3 final size:3
Alignment explanation
Indices: 12054805--12054972 Score: 99
Period size: 3 Copynumber: 56.3 Consensus size: 3
12054795 TCCCATTTCT
* * * * * *
12054805 TTA TTA TTA CTA TTA TCA TTA TTA TTTG TTGC TTA ATA -TA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA
* ** * * *
12054851 TTA TTA TTT TTA TCC TCA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
12054899 TTA TTA TTA TTA TTA TTA CTA TTA TT- TGA -TA CTA TCA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
12054945 TTA TTC TAA TTA CCA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12054973 ATATATACAT
Statistics
Matches: 123, Mismatches: 37, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
2 4 0.03
3 115 0.93
4 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:12055058 original size:87 final size:87
Alignment explanation
Indices: 12054967--12055142 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
12054957 CCATTATTAC
*
12054967 TATTATATATATACATACATTTTATTATTATTCATGTACATATATTTTAAATATTATTACCATTA
1 TATTATATATATACATACATTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
12055032 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
* *
12055054 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTATCATTA
1 TATTATATATATACATACATTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
12055119 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
12055141 TA
1 TA
12055143 CTATTATTCT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (87 bp):
TATTATATATATACATACATTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
TTATTTTTATCACTTACATGGT
Found at i:12055279 original size:20 final size:20
Alignment explanation
Indices: 12055256--12055294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12055246 CTCATTTCAT
*
12055256 ATATATCACGTATATTTTTA
1 ATATATCACATATATTTTTA
*
12055276 ATATATCATATATATTTTT
1 ATATATCACATATATTTTT
12055295 TCGTTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATATCACATATATTTTTA
Found at i:12060921 original size:17 final size:18
Alignment explanation
Indices: 12060899--12060933 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12060889 GATATGATAC
*
12060899 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
12060916 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
12060934 CAGGGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:12061230 original size:23 final size:22
Alignment explanation
Indices: 12061202--12061246 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12061192 AAATTAAATA
12061202 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
12061225 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
12061247 AAGATTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:12061304 original size:36 final size:36
Alignment explanation
Indices: 12061228--12061305 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
12061218 CATATCTTCT
*
12061228 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTGTATCATATCG
12061264 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATTG--TATCATATCG
12061300 AAGATT
1 AAGATT
12061306 ATATTTCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 32 0.82
37 1 0.03
38 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTGTATCATATCG
Found at i:12061305 original size:17 final size:19
Alignment explanation
Indices: 12061225--12061297 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
12061215 AATCATATCT
12061225 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12061244 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
12061261 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12061280 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12061298 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12063395 original size:11 final size:11
Alignment explanation
Indices: 12063381--12063409 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
12063371 AGATAAATAT
12063381 TATTTTATTAA
1 TATTTTATTAA
12063392 TATTTTATTAA
1 TATTTTATTAA
12063403 TATTTTA
1 TATTTTA
12063410 ATAAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:12063420 original size:13 final size:13
Alignment explanation
Indices: 12063402--12063432 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
12063392 TATTTTATTA
12063402 ATATTTTAATAAG
1 ATATTTTAATAAG
12063415 ATATTTTAATAAG
1 ATATTTTAATAAG
12063428 ATATT
1 ATATT
12063433 CTATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:12065688 original size:60 final size:60
Alignment explanation
Indices: 12065574--12065689 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 60
12065564 AGTTATTTGT
* *
12065574 AAATTTCTTTTTTTGTCTCTAAATTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
1 AAATTTCTTTTTTTGTCCCTAAACTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
*
12065634 AAATTTCTTTTTTTGGTCACCT-AACTATGGAAAGTTACAAAATAG-TCACT-AACTAT
1 AAATTTCTTTTTTT-GTC-CCTAAACTATGAAAAGTTACAAAAT-GCTCACTCAACTAT
12065690 GCAATTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
60 20 0.40
61 27 0.54
62 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (60 bp):
AAATTTCTTTTTTTGTCCCTAAACTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
Found at i:12068457 original size:18 final size:18
Alignment explanation
Indices: 12068434--12068468 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12068424 CGTAGGCAAA
*
12068434 TCGGTTAGTTCCTCGATT
1 TCGGTTACTTCCTCGATT
*
12068452 TCGGTTCCTTCCTCGAT
1 TCGGTTACTTCCTCGAT
12068469 AACCTCGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.29, G:0.20, T:0.43
Consensus pattern (18 bp):
TCGGTTACTTCCTCGATT
Found at i:12069745 original size:26 final size:24
Alignment explanation
Indices: 12069682--12069745 Score: 58
Period size: 29 Copynumber: 2.5 Consensus size: 24
12069672 TTCCATGTAA
12069682 TAAAAATATAAAAGAATTCAGATC
1 TAAAAATATAAAAGAATTCAGATC
*
12069706 TAAACAATAGATAAAA-AATTATCCAGTTC
1 TAAA-AAT--ATAAAAGAA-T-T-CAGATC
12069735 TAAAAATATAA
1 TAAAAATATAA
12069746 TCTGATCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 4 0.12
25 3 0.09
26 6 0.18
27 7 0.21
28 4 0.12
29 9 0.27
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (24 bp):
TAAAAATATAAAAGAATTCAGATC
Found at i:12070300 original size:16 final size:16
Alignment explanation
Indices: 12070258--12070300 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
12070248 GTCACATGTG
12070258 ATAAAATAATAAAAAT
1 ATAAAATAATAAAAAT
12070274 A-AAAATCAATAAAAATT
1 ATAAAAT-AATAAAAA-T
12070291 ATAAAA-AATA
1 ATAAAATAATA
12070301 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 2 0.08
18 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAATAATAAAAAT
Found at i:12070513 original size:9 final size:9
Alignment explanation
Indices: 12070499--12070656 Score: 67
Period size: 9 Copynumber: 16.9 Consensus size: 9
12070489 TTTTTAGTAC
12070499 ATAATTTTT
1 ATAATTTTT
12070508 ATAATTTTTTT
1 ATAA--TTTTT
*
12070519 ATAAATTTT
1 ATAATTTTT
12070528 AT-ATTTCTT
1 ATAATTT-TT
12070537 -TACATTTTT
1 ATA-ATTTTT
*
12070546 ATATTTTTT
1 ATAATTTTT
* *
12070555 ACTACTTTAT
1 A-TAATTTTT
*
12070565 A-AAATTTT
1 ATAATTTTT
*
12070573 ATATTTTTT
1 ATAATTTTT
12070582 ATATATTTTGT
1 ATA-ATTTT-T
12070593 AT-ATTTTGT
1 ATAATTTT-T
*
12070602 ATATTTTTT
1 ATAATTTTT
*
12070611 ACT-ATTTTAA
1 A-TAATTTT-T
*
12070621 ATATTTTTT
1 ATAATTTTT
**
12070630 ATTAAAATTT
1 A-TAATTTTT
12070640 A-ATATTTTT
1 ATA-ATTTTT
12070649 ATAATTTT
1 ATAATTTT
12070657 ATTTATTTTT
Statistics
Matches: 111, Mismatches: 21, Indels: 34
0.67 0.13 0.20
Matches are distributed among these distances:
8 10 0.09
9 55 0.50
10 34 0.31
11 12 0.11
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
ATAATTTTT
Found at i:12070538 original size:10 final size:9
Alignment explanation
Indices: 12070503--12070631 Score: 91
Period size: 9 Copynumber: 13.8 Consensus size: 9
12070493 TAGTACATAA
12070503 TTTTTATAATT
1 TTTTTAT-A-T
*
12070514 TTTTTATAA
1 TTTTTATAT
*
12070523 ATTTTATAT
1 TTTTTATAT
*
12070532 TTCTTTACA-
1 TT-TTTATAT
12070541 TTTTTATAT
1 TTTTTATAT
*
12070550 TTTTTACTAC
1 TTTTTA-TAT
* *
12070560 TTTATA-AA
1 TTTTTATAT
*
12070568 ATTTTATAT
1 TTTTTATAT
12070577 TTTTTATAT
1 TTTTTATAT
12070586 ATTTTGTATAT
1 -TTTT-TATAT
*
12070597 TTTGTATAT
1 TTTTTATAT
12070606 TTTTTACTAT
1 TTTTTA-TAT
**
12070616 TTTAAATAT
1 TTTTTATAT
12070625 TTTTTAT
1 TTTTTAT
12070632 TAAAATTTAA
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
8 10 0.11
9 43 0.47
10 27 0.29
11 12 0.13
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAT
Found at i:12070589 original size:18 final size:17
Alignment explanation
Indices: 12070502--12070681 Score: 98
Period size: 19 Copynumber: 9.9 Consensus size: 17
12070492 TTAGTACATA
12070502 ATTTTTATAATTTTTTTAT
1 ATTTTTAT-A-TTTTTTAT
* *
12070521 AAATTTTATATTTCTTTAC
1 -ATTTTTATATTT-TTTAT
12070540 ATTTTTATATTTTTTACT
1 ATTTTTATATTTTTTA-T
* **
12070558 A-CTTTATAAAATTTTAT
1 ATTTTTAT-ATTTTTTAT
12070575 ATTTTTTATATATTTTGTAT
1 A-TTTTTATAT-TTTT-TAT
12070595 ATTTTGTATATTTTTTACT
1 ATTTT-TATATTTTTTA-T
*
12070614 ATTTTAAATATTTTTTATT
1 ATTTT-TATATTTTTTA-T
**
12070633 AAAATTTA-ATATTTTTAT
1 -ATTTTTATAT-TTTTTAT
*
12070651 AATTTTAT-TTATTTT-T
1 ATTTTTATATT-TTTTAT
*
12070667 ATTTTTATCTTTTTT
1 ATTTTTATATTTTTT
12070682 TACCACATGT
Statistics
Matches: 128, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
16 13 0.10
17 24 0.19
18 27 0.21
19 45 0.35
20 19 0.15
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTTTATATTTTTTAT
Found at i:12077215 original size:10 final size:10
Alignment explanation
Indices: 12077200--12077259 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
12077190 TAATTTTAGG
12077200 ATTTAT-TTT
1 ATTTATCTTT
12077209 CATTTATCTTT
1 -ATTTATCTTT
12077220 ATTTATCTTT
1 ATTTATCTTT
*
12077230 AATTATCTTT
1 ATTTATCTTT
12077240 ATTTAT-TTGT
1 ATTTATCTT-T
12077250 ATTTATCTTT
1 ATTTATCTTT
12077260 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12084798 original size:2 final size:2
Alignment explanation
Indices: 12084791--12084817 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12084781 CTGGTGCCTG
12084791 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 T
12084818 GTATTGGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12087019 original size:2 final size:2
Alignment explanation
Indices: 12087012--12087057 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
12087002 ATGGGATAGG
12087012 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
12087054 AT AT
1 AT AT
12087058 GGGTAAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12088377 original size:2 final size:2
Alignment explanation
Indices: 12088370--12088411 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12088360 TTAAAAATGT
12088370 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
12088412 AAGAGAAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12088647 original size:14 final size:14
Alignment explanation
Indices: 12088628--12088676 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
12088618 AATTGTTTTG
12088628 AATTTTTTTAAAAA
1 AATTTTTTTAAAAA
** *
12088642 AATTTTTGGCAAAAT
1 AATTTTT-TTAAAAA
*
12088657 GATTTTTTTAAAAA
1 AATTTTTTTAAAAA
12088671 AATTTT
1 AATTTT
12088677 GGTTTATATA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (14 bp):
AATTTTTTTAAAAA
Found at i:12089336 original size:4 final size:4
Alignment explanation
Indices: 12089327--12089387 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
12089317 TATGGAAGTT
* * * *
12089327 TTTA TTTA TTTA TGTA TTTA TTTA CTTA TGTA TTTA TTTA TTTA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
12089375 TTTA TTTA CTTA T
1 TTTA TTTA TTTA T
12089388 CATTCTTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:12089346 original size:16 final size:16
Alignment explanation
Indices: 12089327--12089387 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
12089317 TATGGAAGTT
*
12089327 TTTATTTATTTATGTA
1 TTTATTTACTTATGTA
12089343 TTTATTTACTTATGTA
1 TTTATTTACTTATGTA
*
12089359 TTTATTTATTTATGTA
1 TTTATTTACTTATGTA
12089375 TTTATTTACTTAT
1 TTTATTTACTTAT
12089388 CATTCTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTATTTACTTATGTA
Found at i:12097245 original size:24 final size:24
Alignment explanation
Indices: 12097213--12097265 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
12097203 GGTTGCAAGT
12097213 TAGAAGCAAAAATAACTGGTAATG
1 TAGAAGCAAAAATAACTGGTAATG
12097237 TAGAAGCAAAAATAACTGGTAATG
1 TAGAAGCAAAAATAACTGGTAATG
12097261 TAGAA
1 TAGAA
12097266 TTGTTTCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.08, G:0.21, T:0.21
Consensus pattern (24 bp):
TAGAAGCAAAAATAACTGGTAATG
Found at i:12097764 original size:20 final size:20
Alignment explanation
Indices: 12097733--12097770 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12097723 AAAACCCTTA
12097733 ACCCATAACCCATTTACAACT
1 ACCCATAACCCA-TTACAACT
12097754 ACCCA-AACCCATTACAA
1 ACCCATAACCCATTACAA
12097771 AACCCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.18
Consensus pattern (20 bp):
ACCCATAACCCATTACAACT
Found at i:12097851 original size:30 final size:30
Alignment explanation
Indices: 12097817--12097917 Score: 116
Period size: 36 Copynumber: 3.2 Consensus size: 30
12097807 GCCCCCCCAA
12097817 AAAAACCTAACCCAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAGAAAAAAG
12097847 AAAAACCTAACCCCAAAAAAAAAAAAGAAGAAAAAG
1 AAAAACCTAA-CCC---AAAAAAAAAG-A-AAAAAG
* *
12097883 AAAAACCTAACCCAAAAAATAA-AAATAA-
1 AAAAACCTAACCCAAAAAAAAAGAAAAAAG
12097911 AAAAACC
1 AAAAACC
12097918 CTAGCCACCT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
28 7 0.11
29 4 0.06
30 11 0.17
31 3 0.05
32 8 0.13
34 10 0.16
35 4 0.06
36 16 0.25
ACGTcount: A:0.72, C:0.18, G:0.05, T:0.05
Consensus pattern (30 bp):
AAAAACCTAACCCAAAAAAAAAGAAAAAAG
Found at i:12097881 original size:36 final size:34
Alignment explanation
Indices: 12097817--12097915 Score: 134
Period size: 35 Copynumber: 3.0 Consensus size: 34
12097807 GCCCCCCCAA
12097817 AAAAACCTAACCC---AAAAAAAAAG-AAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAAG
12097847 AAAAACCTAACCCCAAAAAAAAAAAAGAAGAAAAAG
1 AAAAACCTAA-CCCAAAAAAAAAAAAGAA-AAAAAG
* *
12097883 AAAAACCTAACCCAAAAAATAAAAATAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAA
12097916 CCCTAGCCAC
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.16
31 3 0.05
34 15 0.25
35 17 0.28
36 16 0.26
ACGTcount: A:0.74, C:0.16, G:0.05, T:0.05
Consensus pattern (34 bp):
AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAAG
Found at i:12098745 original size:3 final size:3
Alignment explanation
Indices: 12098703--12098731 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12098693 TTATTGTAGA
12098703 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12098732 CATACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12106061 original size:230 final size:227
Alignment explanation
Indices: 12105624--12106083 Score: 823
Period size: 230 Copynumber: 2.0 Consensus size: 227
12105614 TGGGCTTTCA
12105624 AGACATGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGATACATACATACATACAAA
1 AGACATGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGATACATACATACATACAAA
*
12105689 AGCTATTAAATTTTATTGAAGCAAACAGAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACT
66 AGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACT
* *
12105754 ACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGGAGAATAA
131 ACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAAGAA
12105819 TCTATTTTGGCAAATCAATTTGGATTAAACCC
196 TCTATTTTGGCAAATCAATTTGGATTAAACCC
* *
12105851 AGACTTGCAAGCCTTTAATGTAACACTCCTTCCAAAGCAAGCATGGATACATACATACATACATA
1 AGACATGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGG----ATACATACATACATA
*
12105916 CAAAAGCTATTAAATTTTATTGAAGCAGACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGG-
62 CAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGA
12105980 AACTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGA
127 AACTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGA
12106045 AGAATCTATTTTGGCAAATCAATTTGGATTAAACCC
192 AGAATCTATTTTGGCAAATCAATTTGGATTAAACCC
12106081 AGA
1 AGA
12106084 TATGAACCAT
Statistics
Matches: 223, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
227 44 0.20
230 102 0.46
231 77 0.35
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (227 bp):
AGACATGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGATACATACATACATACAAA
AGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACT
ACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAAGAA
TCTATTTTGGCAAATCAATTTGGATTAAACCC
Found at i:12106920 original size:29 final size:29
Alignment explanation
Indices: 12106866--12106922 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
12106856 TAGTTAATAG
* *
12106866 TTTTTAAAAAGTTAAATTAAATTCTTATA
1 TTTTTAAAAAGTCAAATTAAACTCTTATA
*
12106895 TTTTTAAAAAG-CAAATTTATACTCTTAT
1 TTTTTAAAAAGTCAAA-TTAAACTCTTAT
12106923 GCATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTTTAAAAAGTCAAATTAAACTCTTATA
Found at i:12112007 original size:68 final size:68
Alignment explanation
Indices: 12111895--12112022 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
12111885 TTTAACAAAA
*
12111895 TTTTTTCTCTCATTTTCTCTGTTGCCAAACACCACTTTTTTTCTTCAAAACACATGGTTGCTGCC
1 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTCTTCAAAACACATGGTTGCTGCC
12111960 TTT
66 TTT
* * *
12111963 TTTTTTCTCTCATTTTCTCTCTTGGCAAAGACCA-TTTTTCTTCTTCAAAACATATGGTTG
1 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTTTT-TTCTTCAAAACACATGGTTG
12112023 GCTCATTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 5 0.09
68 50 0.91
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (68 bp):
TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTCTTCAAAACACATGGTTGCTGCC
TTT
Found at i:12122997 original size:27 final size:27
Alignment explanation
Indices: 12122959--12123029 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
12122949 TCGAGTAGTA
* * *
12122959 GTAGTGGAAGTGAGAGTAGTGGAAGCG
1 GTAGCGGAAGTGAAAGTAGCGGAAGCG
* *
12122986 GTAGCGGTAGTGAAAGTAGCGGAAGTG
1 GTAGCGGAAGTGAAAGTAGCGGAAGCG
*
12123013 GTAGCGGAAGTGGAAGT
1 GTAGCGGAAGTGAAAGT
12123030 GAAAGCAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.18
Consensus pattern (27 bp):
GTAGCGGAAGTGAAAGTAGCGGAAGCG
Found at i:12123018 original size:12 final size:12
Alignment explanation
Indices: 12123001--12123025 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12122991 GGTAGTGAAA
12123001 GTAGCGGAAGTG
1 GTAGCGGAAGTG
12123013 GTAGCGGAAGTG
1 GTAGCGGAAGTG
12123025 G
1 G
12123026 AAGTGAAAGC
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:0.08, G:0.52, T:0.16
Consensus pattern (12 bp):
GTAGCGGAAGTG
Found at i:12128985 original size:17 final size:18
Alignment explanation
Indices: 12128951--12128985 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12128941 GTTAGAGCCT
*
12128951 ATATGTTGTGTCTTTATG
1 ATATGTTCTGTCTTTATG
12128969 ATATGTTCTGT-TTTATG
1 ATATGTTCTGTCTTTATG
12128986 TCAACATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57
Consensus pattern (18 bp):
ATATGTTCTGTCTTTATG
Found at i:12138159 original size:2 final size:2
Alignment explanation
Indices: 12138152--12138184 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12138142 AATTTCATTC
12138152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12138185 TCGGGTTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:12139704 original size:41 final size:41
Alignment explanation
Indices: 12139649--12139747 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
12139639 AATCGAGCTA
* *
12139649 TTCAAATTCAAGTTT-ATCAATTTTTCTTTTTATTATCAATT
1 TTCAAATTCAAGTTTGATCAAATTTT-TTATTATTATCAATT
* * * *
12139690 TTCAAGTTCGAGTTTGATTAAATTTTTTATTATTATTAATT
1 TTCAAATTCAAGTTTGATCAAATTTTTTATTATTATCAATT
**
12139731 TTCGTATTCAAGTTTGA
1 TTCAAATTCAAGTTTGA
12139748 ATTCAAGTTC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 39 0.83
42 8 0.17
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (41 bp):
TTCAAATTCAAGTTTGATCAAATTTTTTATTATTATCAATT
Found at i:12144306 original size:2 final size:2
Alignment explanation
Indices: 12144299--12144341 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
12144289 CTATGCTTAT
12144299 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
12144341 T
1 T
12144342 TCCCATTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12146985 original size:44 final size:44
Alignment explanation
Indices: 12146921--12147011 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
12146911 GTAGGTCAAA
*
12146921 TAATATTAAAATAACTTACACTAATCAGAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACATACACTAATCAGAGTTTAAGTGAGAAAC
* *
12146965 TAATATTAAAATAACATACACTAATCATAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACATACACTAATCAGAGTTTAAGTGAGAAAC
12147009 TAA
1 TAA
12147012 AAACAAAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACATACACTAATCAGAGTTTAAGTGAGAAAC
Found at i:12148703 original size:20 final size:21
Alignment explanation
Indices: 12148671--12148712 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12148661 ATATTTTTTT
12148671 GTGAAAAACCCCCCGAAAAGG
1 GTGAAAAACCCCCCGAAAAGG
12148692 GTGAAAAACCCCCCGAAAAGG
1 GTGAAAAACCCCCCGAAAAGG
12148713 ATAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.24, T:0.05
Consensus pattern (21 bp):
GTGAAAAACCCCCCGAAAAGG
Found at i:12148718 original size:20 final size:21
Alignment explanation
Indices: 12148672--12148719 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12148662 TATTTTTTTG
*
12148672 TGAAAAACCCCCCGAAAAGGG
1 TGAAAAACCCCCCGAAAAGGA
12148693 TGAAAAACCCCCCGAAAAGGA
1 TGAAAAACCCCCCGAAAAGGA
12148714 T-AAAAA
1 TGAAAAA
12148720 TCACGGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.50, C:0.25, G:0.19, T:0.06
Consensus pattern (21 bp):
TGAAAAACCCCCCGAAAAGGA
Found at i:12151305 original size:10 final size:10
Alignment explanation
Indices: 12151292--12151321 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12151282 TTACACTATC
12151292 ATACATATAT
1 ATACATATAT
12151302 ATACATATAT
1 ATACATATAT
*
12151312 ATATATATAT
1 ATACATATAT
12151322 GTATGTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATACATATAT
Found at i:12152564 original size:131 final size:129
Alignment explanation
Indices: 12152330--12152658 Score: 434
Period size: 131 Copynumber: 2.6 Consensus size: 129
12152320 CTATTCATTC
* * *
12152330 AAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGGAAATTCAGGGAATCGTACCCTATCGTG
1 AAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTG
* * *
12152395 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCC-TTTGGAATTTTACTCATGTGT
65 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATA-TCCGTTTAGAATTTCACTCATGT-T
*
12152459 TT
128 CT
* *
12152461 AAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTG
*
12152526 CTGGGTTGCAATTTCCCATTTGTTCAAAATAGTCGAATATCCGTTTAGAATTTCACTCATGTTCT
65 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCGTTTAGAATTTCACTCATGTTCT
** * * * *
12152591 CTAAATTC-TAAAA--AAGGCAATGTTCGATGTCTAGAAATTCGAGGAATCATGCCCTA-CTGTG
1 AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATC-GTG
12152652 CTGGGTT
65 CTGGGTT
12152659 TCGATTTTTT
Statistics
Matches: 177, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
125 1 0.01
126 47 0.27
128 4 0.02
129 1 0.01
130 13 0.07
131 111 0.63
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCGTTTAGAATTTCACTCATGTTCT
Found at i:12163972 original size:19 final size:19
Alignment explanation
Indices: 12163948--12163986 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12163938 CAATGATAGA
*
12163948 ACCCTGATTAACTATGAGC
1 ACCCTGATGAACTATGAGC
12163967 ACCCTGATGAACTATGAGC
1 ACCCTGATGAACTATGAGC
12163986 A
1 A
12163987 ATGATACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (19 bp):
ACCCTGATGAACTATGAGC
Found at i:12164327 original size:89 final size:89
Alignment explanation
Indices: 12164220--12164692 Score: 408
Period size: 86 Copynumber: 5.4 Consensus size: 89
12164210 GAAGAAAGCA
* * * *
12164220 AGCCTT-AGCCCCTAAGTAGTAGGGTAATAGGCCGAAGATTGTAGATCTTGACTCCCTAAAGTTG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
* * *
12164284 CAGTCGAATAGATCAAAGGCGGAG
66 CAGTGGAACAGATCAAAGACGGAG
**
12164308 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAA-CAG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
* * * * * *
12164372 TAGTGGAGCAAATCGAAGAAGCA-
66 CAGTGGAACAGATCAAAGACGGAG
* * * * *
12164395 AGCCTTAACCCCCTAAATAGTAGGATAAAAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
*
12164460 CAGTGGAACAGATCAAAGACGGTG
66 CAGTGGAACAGATCAAAGACGGAG
* * * * * * **
12164484 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTG-A-ATTGCAGATCTTATCT-TCTTAAGCAG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
* * * *
12164546 TAGTTGAGCGGATCAAAGACGGTA-
66 CAGTGGAACAGATCAAAGACGG-AG
* * * * * ** * **
12164570 AACCTTAATCCCCTAAGCAGTAGGGTAATAGGTTG-A-ATTACAGATCTTATCTCCCT-AAGCAG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
* * * * *
12164632 TAGTTGAGCGGATCAAAGACGGTG
66 CAGTGGAACAGATCAAAGACGGAG
* * *
12164656 AACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAA
12164693 ATTACAAGTC
Statistics
Matches: 324, Mismatches: 54, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
86 131 0.40
87 74 0.23
88 39 0.12
89 80 0.25
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (89 bp):
AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTG
CAGTGGAACAGATCAAAGACGGAG
Found at i:12164428 original size:87 final size:87
Alignment explanation
Indices: 12164167--12164692 Score: 384
Period size: 86 Copynumber: 6.0 Consensus size: 87
12164157 GCGACATCGG
* * * *
12164167 TGAAGATTACAGATATTGTCT--CTAAACAGTAGTGGAGCAGATTGAAGAAAGCAAGCCTT-AGC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAG-AAGCAAGCCTTAACC
*
12164229 CCCTAAGTAGTAGGGTAATAGGC
65 CCCTAAGTAGTAGGGTAAAAGGC
* * * ** * * ** * ** *
12164252 CGAAGATTGTAGATCTTGACTCCCTAAAGTTGCAGTCGAATAGATCAAAGGCGGAGAGCCTTAAC
1 TGAAGATTGCAGATCTTGTCTCCCTAAA-CAGTAGTGGAGCAGATCGAAGAAGCA-AGCCTTAAC
*
12164317 CCCCTAAGTAGTAGGGTAACAGGC
64 CCCCTAAGTAGTAGGGTAAAAGGC
* *
12164341 TGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAGAAGCAAGCCTTAACCC
* *
12164406 CCTAAATAGTAGGATAAAAGGC
66 CCTAAGTAGTAGGGTAAAAGGC
*** * * * * **
12164428 TGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAAC
1 TGAAGATTGCAGATCTTGTCTCCCT-AAACAGTAGTGGAGCAGATCGAAGA-AGCAAGCCTTAAC
* * *
12164493 CCTCTAAGCAGTAGGGTAACAGGC
64 CCCCTAAGTAGTAGGGTAAAAGGC
* * * * * * * * * * *
12164517 TG-A-ATTGCAGATCTTATCTTCTTAAGCAGTAGTTGAGCGGATCAAAGACGGTAAACCTTAATC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAGA-AGCAAGCCTTAACC
* * *
12164580 CCCTAAGCAGTAGGGTAATAGGT
65 CCCTAAGTAGTAGGGTAAAAGGC
* * * * * * * *
12164603 TG-A-ATTACAGATCTTATCTCCCTAAGCAGTAGTTGAGCGGATCAAAGACGGTGAA-CCTTAAC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAGA-AG-CAAGCCTTAAC
* * *
12164665 CCCCTAAGCAGTAGGGTAACAGGT
64 CCCCTAAGTAGTAGGGTAAAAGGC
12164689 TGAA
1 TGAA
12164693 ATTACAAGTC
Statistics
Matches: 361, Mismatches: 71, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
85 16 0.04
86 130 0.36
87 81 0.22
88 53 0.15
89 81 0.22
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (87 bp):
TGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAGAAGCAAGCCTTAACCC
CCTAAGTAGTAGGGTAAAAGGC
Found at i:12164489 original size:176 final size:174
Alignment explanation
Indices: 12164167--12164692 Score: 596
Period size: 176 Copynumber: 3.0 Consensus size: 174
12164157 GCGACATCGG
* * * *
12164167 TGAAGATTACAGATATTGTCT-CTAAACAGTAGTGGAGCAGATTGAAGAAAGCAAGCCTT-AGCC
1 TGAAGATTGCAGATCTTGTCTCCTAAACAGTAGTGGAGCAGATCGAAG-AAGCAAGCCTTAACCC
* * * *
12164230 CCTAAGTAGTAGGGTAATAGGCCGAAGATTGTAGATCTTGACTCCCTAAAGTTGCAGTCGAATAG
65 CCTAAGTAGTAGGGTAATAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAGTTGCAGTCGAACAG
* * *
12164295 ATCAAAGGCGGAGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
129 ATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
* *
12164341 TGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCC
1 TGAAGATTGCAGATCTTGTCT-CCTAAACAGTAGTGGAGCAGATCGAAGAAGCAAGCCTTAACCC
* * * *
12164406 CCTAAATAGTAGGATAAAAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAG
65 CCTAAGTAGTAGGGTAATAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAGTTGCAGTCGAACAG
*
12164471 ATCAAAGACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGC
129 ATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
* * * * * * * * * *
12164517 TG-A-ATTGCAGATCTTATCTTCTTAAGCAGTAGTTGAGCGGATCAAAGACGGTAAACCTTAATC
1 TGAAGATTGCAGATCTTGTC-TCCTAAACAGTAGTGGAGCAGATCGAAGA-AGCAAGCCTTAACC
* * * * ** * * * *
12164580 CCCTAAGCAGTAGGGTAATAGGTTG-A-ATTACAGATCTTATCTCCCTAAGCAGTAGTTGAGCGG
64 CCCTAAGTAGTAGGGTAATAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGTTGCAGTCGAACAG
* *
12164643 ATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGT
129 ATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
12164689 TGAA
1 TGAA
12164693 ATTACAAGTC
Statistics
Matches: 299, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
172 56 0.19
173 19 0.06
174 54 0.18
175 43 0.14
176 127 0.42
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (174 bp):
TGAAGATTGCAGATCTTGTCTCCTAAACAGTAGTGGAGCAGATCGAAGAAGCAAGCCTTAACCCC
CTAAGTAGTAGGGTAATAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGTTGCAGTCGAACAGAT
CAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
Found at i:12164586 original size:86 final size:86
Alignment explanation
Indices: 12164293--12164712 Score: 423
Period size: 86 Copynumber: 4.8 Consensus size: 86
12164283 GCAGTCGAAT
* * * *
12164293 AGATCAAAGGCGG-AGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCT
1 AGATCAAAGACGGTA-AACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTGCAGATCT
* *
12164357 TGTCTCCCTAAACAGTAGTGGAGC
63 TATCTCCCTAAGCAGTAGTGGAGC
* * * * * ** * *
12164381 AAATCGAAGA-AGCAAGCCTTAACCCCCTAAATAGTAGGATAAAAGGCTGAAGATTGCAGATCTT
1 AGATCAAAGACGGTAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTGCAGATCTT
* ** * *
12164445 GTCTCCCTGAAGTTGCAGTGGAAC
64 ATCTCCCT-AAGCAGTAGTGGAGC
* * *
12164469 AGATCAAAGACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAATTGCAGATCTTAT
1 AGATCAAAGACGGTAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTGCAGATCTTAT
* * *
12164534 CTTCTTAAGCAGTAGTTGAGC
66 CTCCCTAAGCAGTAGTGGAGC
* * * * *
12164555 GGATCAAAGACGGTAAACCTTAATCCCCTAAGCAGTAGGGTAATAGGTTGAATTACAGATCTTAT
1 AGATCAAAGACGGTAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTGCAGATCTTAT
*
12164620 CTCCCTAAGCAGTAGTTGAGC
66 CTCCCTAAGCAGTAGTGGAGC
* * * *
12164641 GGATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAATTACA-AGTCTT
1 AGATCAAAGACGGTAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-AATTGCAGA-TCTT
12164705 ATCTCCCT
64 ATCTCCCT
12164713 GAAGTTGCAA
Statistics
Matches: 283, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
86 134 0.47
87 91 0.32
88 27 0.10
89 31 0.11
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (86 bp):
AGATCAAAGACGGTAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTGCAGATCTTAT
CTCCCTAAGCAGTAGTGGAGC
Found at i:12167435 original size:14 final size:14
Alignment explanation
Indices: 12167402--12167435 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12167392 AAAAGTATAT
12167402 ATATATGTGTAATA
1 ATATATGTGTAATA
* *
12167416 AAATATGTGTACTA
1 ATATATGTGTAATA
12167430 ATATAT
1 ATATAT
12167436 AATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (14 bp):
ATATATGTGTAATA
Found at i:12167666 original size:21 final size:21
Alignment explanation
Indices: 12167629--12167686 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
12167619 ATATAAATAT
*
12167629 ATATAAATA-ATAGTATTAGAA
1 ATATACATATATA-TATTAGAA
*
12167650 ATATACCATATA-ATATTAGAT
1 ATATA-CATATATATATTAGAA
12167671 ATATACATATATATAT
1 ATATACATATATATAT
12167687 ATATATATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 4 0.12
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATACATATATATATTAGAA
Found at i:12167729 original size:21 final size:20
Alignment explanation
Indices: 12167705--12167755 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
12167695 AGTATGAAAG
12167705 AAAATATAACTAATAATAT-T
1 AAAATATAA-TAATAATATAT
12167725 AAAA-ATATATAATAATATAT
1 AAAATATA-ATAATAATATAT
12167745 AAAATATAATA
1 AAAATATAATA
12167756 TTAAGGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 12 0.43
20 13 0.46
21 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAATAATAATATAT
Found at i:12167739 original size:19 final size:20
Alignment explanation
Indices: 12167705--12167752 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
12167695 AGTATGAAAG
12167705 AAAATATAACTAATAATAT-T
1 AAAATAT-ACTAATAATATAT
12167725 AAAAATATA-TAATAATATAT
1 -AAAATATACTAATAATATAT
12167745 AAAATATA
1 AAAATATA
12167753 ATATTAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.65
20 2 0.08
21 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATACTAATAATATAT
Found at i:12167973 original size:13 final size:14
Alignment explanation
Indices: 12167957--12167987 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
12167947 ATGTATGAAT
12167957 ATATACATATA-TA
1 ATATACATATATTA
12167970 ATATACATATATTA
1 ATATACATATATTA
12167984 ATAT
1 ATAT
12167988 TAATAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:12168561 original size:14 final size:14
Alignment explanation
Indices: 12168544--12168571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12168534 AAAAAAAAAA
12168544 AAAAAGGAGAGGGG
1 AAAAAGGAGAGGGG
12168558 AAAAAGGAGAGGGG
1 AAAAAGGAGAGGGG
12168572 GAGAGGGGAG
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (14 bp):
AAAAAGGAGAGGGG
Found at i:12169944 original size:67 final size:61
Alignment explanation
Indices: 12169811--12170055 Score: 253
Period size: 61 Copynumber: 3.9 Consensus size: 61
12169801 GCAGGAACTG
* * * * * * *
12169811 GGCTCAACTCA-TTTTCGCAATATGGGTTGATTTTTGAAACATAGAATTAAAAGCAGAAATTAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAA-GTAG-ATTGAAA--AGAAATT-AA
12169875 A
61 A
12169876 GGCTCAACTCACCTCTCGCAATATGAGTTAATAATTTGAAAAGTAGATTTCGAAAAACGAAATTA
1 GGCTCAACTCACCTCTCGCAATATGAGTTAAT-ATTTG-AAAGTAGA-TT-G-AAAA-GAAATTA
12169941 AA
60 AA
* *
12169943 GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAGTAGATTGAAAAGAAATTAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAAGTAGATTGAAAAGAAATTAAA
* *
12170004 GGCTCAACTCACCTCTCGCAATATGAATTACT-TTTGAAA-TAGAATTTGAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAAGTAG-A-TTGAAAA
12170056 ACCTTAGCGT
Statistics
Matches: 159, Mismatches: 12, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
59 3 0.02
60 8 0.05
61 45 0.28
62 4 0.03
63 1 0.01
64 2 0.01
65 19 0.12
66 21 0.13
67 44 0.28
68 9 0.06
69 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (61 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAAGTAGATTGAAAAGAAATTAAA
Found at i:12170010 original size:61 final size:61
Alignment explanation
Indices: 12169811--12170029 Score: 260
Period size: 67 Copynumber: 3.4 Consensus size: 61
12169801 GCAGGAACTG
* * * * * *
12169811 GGCTCAACTCA-TTTTCGCAATATGGGTTGATTTTTGAAACATAGAATTAAAAGCAGAAATTAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAA-GTAG-ATTGAAA--AGAAATT-AA
12169875 A
61 A
*
12169876 GGCTCAACTCACCTCTCGCAATATGAGTTAATAATTTGAAAAGTAGATTTCGAAAAACGAAATTA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGAT-ATTTG-AAAGTAGA-TT-G-AAAA-GAAATTA
12169941 AA
60 AA
*
12169943 GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAGTAGATTGAAAAGAAATTAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAGTAGATTGAAAAGAAATTAAA
12170004 GGCTCAACTCACCTCTCGCAATATGA
1 GGCTCAACTCACCTCTCGCAATATGA
12170030 ATTACTTTTG
Statistics
Matches: 138, Mismatches: 9, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
61 35 0.25
62 4 0.03
63 1 0.01
64 2 0.01
65 19 0.14
66 21 0.15
67 44 0.32
68 9 0.07
69 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (61 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAGTAGATTGAAAAGAAATTAAA
Found at i:12170100 original size:130 final size:131
Alignment explanation
Indices: 12169811--12170104 Score: 327
Period size: 128 Copynumber: 2.2 Consensus size: 131
12169801 GCAGGAACTG
* * *
12169811 GGCTCAACTCA-TTTTCGCAATATGGGTTGATTTTTGAAACATAGAATTAAAAGCAGAAATTAAA
1 GGCTCAACTCACTTCTCGCAATATGAGTTGATCTTTGAAACATAGAATTAAAA-CAGAAATTAAA
* *
12169875 AGGCTCAACTCACCTCTCGCAATATGAGTTAATAATTTGAAAAGTAGATTTCGAAAAACGAAATT
65 AGGCTCAACTCACCTCTCGCAATATGAATTAAT-ATTTGAAAAGTAGATTTCGAAAAACGAAATG
12169940 AAA
129 AAA
* * *
12169943 GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAA-GTAG-ATTGAAA-AGAAATT-AAA
1 GGCTCAACTCACTTCTCGCAATATGAGTTGATCTTTGAAACATAGAATTAAAACAGAAATTAAAA
* * **
12170004 GGCTCAACTCACCTCTCGCAATATGAATTACT-TTTG-AAA-TAGAATTT-GAAAAACCTTAGCG
66 GGCTCAACTCACCTCTCGCAATATGAATTAATATTTGAAAAGTAG-ATTTCGAAAAA-C-GA-AA
*
12170065 TGCCGCAA
127 T---GAAA
12170073 GGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 GGCTCAACTCACTTCTCGCAATATGAGTTGAT
12170105 TTTAGATTTA
Statistics
Matches: 140, Mismatches: 14, Indels: 18
0.81 0.08 0.10
Matches are distributed among these distances:
124 9 0.06
125 8 0.06
126 5 0.04
127 1 0.01
128 33 0.24
129 7 0.05
130 33 0.24
131 6 0.04
132 14 0.10
133 24 0.17
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (131 bp):
GGCTCAACTCACTTCTCGCAATATGAGTTGATCTTTGAAACATAGAATTAAAACAGAAATTAAAA
GGCTCAACTCACCTCTCGCAATATGAATTAATATTTGAAAAGTAGATTTCGAAAAACGAAATGAA
A
Found at i:12170506 original size:140 final size:143
Alignment explanation
Indices: 12170072--12170617 Score: 822
Period size: 140 Copynumber: 3.8 Consensus size: 143
12170062 GCGTGCCGCA
* * *
12170072 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TTAATAGAAATTGAAAATACCTCAG
*
12170137 CGTGCCCCGAGGTTCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTAC
65 CGTGCCCCGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTAC
12170202 CTCAACGTGTCTTG
130 CTCAACGTGTCTTG
*
12170216 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT---TTAA-AGGAATTG-AAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTAATAGAAATTGAAAATACCTCAGC
12170276 GTGCCCCGAGG-TCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTACC
66 GTGCCCCGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTACC
12170340 TCAACGTGTCTTG
131 TCAACGTGTCTTG
12170353 AGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTAGATTAATAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTAATAGAAATTGAAAATACCTCAGC
12170417 GTG-CCCGAGG-TCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTACC
66 GTGCCCCGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTACC
12170480 TCAACGTGTCTTG
131 TCAACGTGTCTTG
*
12170493 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAACATGAATTAAAAAGTAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-TT------A-G-ATT---AA-TAGAAAT
*
12170558 TGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTG
51 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTG
12170618 GAAAAAAAAA
Statistics
Matches: 375, Mismatches: 4, Indels: 32
0.91 0.01 0.08
Matches are distributed among these distances:
136 7 0.02
137 94 0.25
138 22 0.06
139 12 0.03
140 112 0.30
141 18 0.05
143 2 0.01
144 37 0.10
150 1 0.00
151 1 0.00
152 3 0.01
155 2 0.01
156 25 0.07
157 6 0.02
158 33 0.09
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (143 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTAATAGAAATTGAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACTTCTCGCATATGAGTTGATTTTTGAAACATAAATTGAAATTACC
TCAACGTGTCTTG
Found at i:12181478 original size:24 final size:24
Alignment explanation
Indices: 12181187--12181476 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
12181177 GCAAAGACCA
12181187 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12181211 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12181235 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12181259 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12181283 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
12181306 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12181330 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
12181354 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12181378 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
12181402 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12181426 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
12181450 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
12181474 TAT
1 TAT
12181477 AGTCACATTC
Statistics
Matches: 257, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 22 0.09
24 235 0.91
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:12189533 original size:24 final size:24
Alignment explanation
Indices: 12189241--12189531 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
12189231 GCAAAGACCA
12189241 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12189265 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12189289 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12189313 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12189337 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
12189361 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12189385 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
12189409 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
12189433 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
12189457 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
12189481 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
12189505 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
12189529 TAT
1 TAT
12189532 AGTCACATTC
Statistics
Matches: 259, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 259 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:12193092 original size:42 final size:42
Alignment explanation
Indices: 12193046--12193185 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 42
12193036 TTTTTGAATT
*
12193046 TCATGACTTTTAGCGGGTTT-TTGAGAAAAGCGCCGCTAAAGG
1 TCATGACTTTTAGCGGGTTTGTGGA-AAAAGCGCCGCTAAAGG
* * *
12193088 TCATGA-TCTTTAGCGATGTTTGTGGAAAAAGCGTCGCTAAATG
1 TCATGACT-TTTAGCG-GGTTTGTGGAAAAAGCGCCGCTAAAGG
* * *
12193131 TCATAATTTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGG
1 TCATGACTTTTAGCGG-GTTTGTGGAAAAAGCGCCGCTAAAGG
12193174 TCATGATCTTTT
1 TCATGA-CTTTT
12193186 GTAACAGCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 13 0.16
43 59 0.73
44 8 0.10
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TCATGACTTTTAGCGGGTTTGTGGAAAAAGCGCCGCTAAAGG
Found at i:12193134 original size:43 final size:43
Alignment explanation
Indices: 12193071--12193184 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
12193061 GGTTTTTGAG
*
12193071 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGATGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGGA
* * * * *
12193114 AAAAGCGTCGCTAAATGTCATAATTTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGGA
*
12193157 AAAAGCGCCACTAAAGGTCATGATCTTT
1 AAAAGCGCCGCTAAAGGTCATGATCTTT
12193185 TGTAACAGCC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGGA
Found at i:12196318 original size:18 final size:18
Alignment explanation
Indices: 12196281--12196318 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12196271 GGAAAAGGAA
* *
12196281 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGAAT
12196299 ACATATAAGGGCTAGAAT
1 ACATATAAGGGCTAGAAT
12196317 AC
1 AC
12196319 GCACCTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGAAT
Found at i:12197999 original size:48 final size:46
Alignment explanation
Indices: 12197912--12198045 Score: 135
Period size: 48 Copynumber: 2.8 Consensus size: 46
12197902 ATGCAAACAT
* ** *
12197912 CATAAATGAAAAAAAATCAAGCAGTATTGACATTGTAATTACAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
12197959 CATAAATGAATGAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* * *
12198007 CATAAATTAAAATAATATCGAATAGTATTAAAAATTTAA
1 CATAAATGAAAA-AATATCAAATAGTATT-GAAATTTAA
12198046 AATTATCACT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
47 13 0.18
48 56 0.77
49 4 0.05
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:12198216 original size:11 final size:11
Alignment explanation
Indices: 12198177--12198208 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
12198167 TTTTAAACAA
12198177 AGAATTTTGAT
1 AGAATTTTGAT
12198188 AGAATTTTGAT
1 AGAATTTTGAT
12198199 AGAATTTTGA
1 AGAATTTTGA
12198209 GAAAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:12201665 original size:44 final size:44
Alignment explanation
Indices: 12201597--12201683 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
12201587 AGGATTAGTA
* *
12201597 GCTTCAATCTGCTCCACTGTAACTTC-AGGAAGATAAGATTTGTG
1 GCTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAGATTTGTG
12201641 GCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGT
1 GCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGT
12201684 CATAATAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 37 0.93
45 3 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTG
Found at i:12206121 original size:21 final size:21
Alignment explanation
Indices: 12206095--12206141 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
12206085 GCACACGGCT
12206095 GTGTGACAGAGGCATACGCTC
1 GTGTGACAGAGGCATACGCTC
12206116 GTGTGACAGAGGCATACGCTC
1 GTGTGACAGAGGCATACGCTC
12206137 GTGTG
1 GTGTG
12206142 GTGCAGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (21 bp):
GTGTGACAGAGGCATACGCTC
Found at i:12206776 original size:27 final size:23
Alignment explanation
Indices: 12206754--12206802 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
12206744 TCCAAAAAGT
12206754 AACAAGAAGAACACAAGAAC-AAAA
1 AACAAGAAGAA-AC-AGAACAAAAA
*
12206778 ACCAAGAAGAAACAGAACAAAAA
1 AACAAGAAGAAACAGAACAAAAA
12206801 AA
1 AA
12206803 TAACGTGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 7 0.32
24 10 0.45
ACGTcount: A:0.71, C:0.16, G:0.12, T:0.00
Consensus pattern (23 bp):
AACAAGAAGAAACAGAACAAAAA
Found at i:12206802 original size:24 final size:24
Alignment explanation
Indices: 12206756--12206800 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
12206746 CAAAAAGTAA
12206756 CAAGAAGAACACAAGAACAAAAAC
1 CAAGAAGAACACAAGAACAAAAAC
12206780 CAAGAAGAA-AC-AGAACAAAAA
1 CAAGAAGAACACAAGAACAAAAA
12206801 AATAACGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.48
23 2 0.10
24 9 0.43
ACGTcount: A:0.69, C:0.18, G:0.13, T:0.00
Consensus pattern (24 bp):
CAAGAAGAACACAAGAACAAAAAC
Done.