Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 142 of 202
Found at i:44354179 original size:13 final size:13
Alignment explanation
Indices: 44354147--44354198 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
44354137 ACATGGTTCA
*
44354147 CACATTAAGCTCG
1 CACATTGAGCTCG
* *
44354160 CATATTGAGCTTG
1 CACATTGAGCTCG
*
44354173 CACATTGGGCTCG
1 CACATTGAGCTCG
* *
44354186 CATATCGAGCTCG
1 CACATTGAGCTCG
44354199 TATGACACTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (13 bp):
CACATTGAGCTCG
Found at i:44356469 original size:32 final size:32
Alignment explanation
Indices: 44356432--44356497 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
44356422 TAATTGATAA
*
44356432 TAAAAA-ATTAATTTGTAAAT-TAAAATAAATTT
1 TAAAAACATTAA-TTATAAATATAAAAT-AATTT
*
44356464 TAAAAACTTTAATTATAAATATAAAATAATTT
1 TAAAAACATTAATTATAAATATAAAATAATTT
44356496 TA
1 TA
44356498 GATACAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
TAAAAACATTAATTATAAATATAAAATAATTT
Found at i:44357102 original size:17 final size:17
Alignment explanation
Indices: 44357080--44357165 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 17
44357070 ATCCTAAAAT
44357080 ATTATTTAAAAATCAT-A
1 ATTATTTAAAAAT-ATAA
*
44357097 ATTATTTTCAAAATTATAAA
1 ATTA-TTT-AAAAATAT-AA
*
44357117 AGTTATTAAAAAATATAA
1 A-TTATTTAAAAATATAA
*
44357135 ATTATTAAAATAATAATAA
1 ATTATTTAAA-AAT-ATAA
44357154 ATTA-TTAAAAAT
1 ATTATTTAAAAAT
44357166 TTCAAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
17 16 0.28
18 15 0.26
19 20 0.34
20 4 0.07
21 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (17 bp):
ATTATTTAAAAATATAA
Found at i:44357129 original size:38 final size:36
Alignment explanation
Indices: 44357080--44357164 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 36
44357070 ATCCTAAAAT
* *
44357080 ATTATTTAAAAATCAT-AATTATTTTCAAAATTATAA-AA
1 ATTATTAAAAAAT-ATAAATTA--TT-AAAATAATAATAA
*
44357118 GTTATTAAAAAATATAAATTATTAAAATAATAATAA
1 ATTATTAAAAAATATAAATTATTAAAATAATAATAA
44357154 ATTATTAAAAA
1 ATTATTAAAAA
44357165 TTTCAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 9 0.22
36 14 0.34
37 2 0.05
38 16 0.39
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (36 bp):
ATTATTAAAAAATATAAATTATTAAAATAATAATAA
Found at i:44358770 original size:2 final size:2
Alignment explanation
Indices: 44358757--44358796 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
44358747 TTGATTGAGT
*
44358757 GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
44358797 TGATTTGCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
GA
Found at i:44360601 original size:18 final size:18
Alignment explanation
Indices: 44360566--44360602 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44360556 ATTCAGTGGA
*
44360566 ATAAAAGCATGGTTAGTG
1 ATAAAAGCATGGTGAGTG
*
44360584 ATAAAAGCATTGTGAGTG
1 ATAAAAGCATGGTGAGTG
44360602 A
1 A
44360603 AACAGTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAAAAGCATGGTGAGTG
Found at i:44362148 original size:42 final size:42
Alignment explanation
Indices: 44362058--44362150 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
44362048 ACATACAGAA
* * * **
44362058 ATAAAGCCTGCTAGGCTCAAGGCCTAATACAATTACATCGGC
1 ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
* * * *
44362100 ACAAAGCCTTCTAGGCTCGAGGCATGATACAAATACACCAAC
1 ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
44362142 ATAAAGCCT
1 ATAAAGCCT
44362151 AATATAAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (42 bp):
ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
Found at i:44363599 original size:131 final size:131
Alignment explanation
Indices: 44363362--44363624 Score: 472
Period size: 131 Copynumber: 2.0 Consensus size: 131
44363352 TATCTTAGTG
*
44363362 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
44363427 GAAAAGGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
66 GAAAAGGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
44363492 C
131 C
*
44363493 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAATATATAAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
* * * *
44363558 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGACTTATGTCCCGTAAGTTAGGTCACTATGT
66 GAAAAGGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
44363623 C
131 C
44363624 T
1 T
44363625 TAAACCCCGA
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 126 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (131 bp):
TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
GAAAAGGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
C
Found at i:44364250 original size:17 final size:17
Alignment explanation
Indices: 44364224--44364261 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44364214 GTAGTGAAAT
*
44364224 TAAAATAAAA-AATACAA
1 TAAAAGAAAATAATA-AA
44364241 TAAAAGAAAATAATAAA
1 TAAAAGAAAATAATAAA
44364258 TAAA
1 TAAA
44364262 TAAATGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAAGAAAATAATAAA
Found at i:44364253 original size:22 final size:21
Alignment explanation
Indices: 44364225--44364265 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
44364215 TAGTGAAATT
44364225 AAAATAAAAAATACAATAAAAG
1 AAAATAAAAAATA-AATAAAAG
*
44364247 AAAATAATAAATAAATAAA
1 AAAATAAAAAATAAATAAA
44364266 TGTGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAATAAATAAAAG
Found at i:44366402 original size:18 final size:18
Alignment explanation
Indices: 44366364--44366413 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
44366354 ATCAAAACTC
44366364 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAA-TTTTAAA
*
44366383 GTTTCTCCAAATTTTCAA
1 GTTTCTCCAAATTTTAAA
*
44366401 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
44366414 AAGTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (18 bp):
GTTTCTCCAAATTTTAAA
Found at i:44366426 original size:14 final size:15
Alignment explanation
Indices: 44366399--44366427 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44366389 CCAAATTTTC
44366399 AAGTTTTCAAAATTT
1 AAGTTTTCAAAATTT
44366414 AAGTTTT-AAAATTT
1 AAGTTTTCAAAATTT
44366428 TTATTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGTTTTCAAAATTT
Found at i:44369776 original size:15 final size:15
Alignment explanation
Indices: 44369756--44369786 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44369746 ACATCTATCG
*
44369756 AAATAGATGAATTAC
1 AAATAGACGAATTAC
44369771 AAATAGACGAATTAC
1 AAATAGACGAATTAC
44369786 A
1 A
44369787 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:44370725 original size:21 final size:23
Alignment explanation
Indices: 44370683--44370725 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
44370673 TAATTAATCA
*
44370683 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
44370706 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
44370726 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:44380235 original size:157 final size:157
Alignment explanation
Indices: 44379949--44380262 Score: 522
Period size: 157 Copynumber: 2.0 Consensus size: 157
44379939 AACTATCTTA
*
44379949 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGTCCTTTTTACTTA
1 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTA
* * * *
44380014 ATTAGCTATTTAAATGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTA
66 ATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTTA
*
44380079 TGGGCTCAGTTTATAAAAACGAGGTCT
131 CGGGCTCAGTTTATAAAAACGAGGTCT
* * *
44380106 AGTTAATCAATTAACTAATAGAAA-TTAATTTTTTTAAATTTTTATGATTTAGACCTTTTTACTT
1 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTT-AACTTTTACGATTTAGACCTTTTTACTT
44380170 AATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTT
65 AATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTT
*
44380235 ACGGGCTCAGTTTATAAAAATGAGGTCT
130 ACGGGCTCAGTTTATAAAAACGAGGTCT
44380263 CGATACCTCA
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
156 10 0.07
157 136 0.93
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (157 bp):
AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTA
ATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTTA
CGGGCTCAGTTTATAAAAACGAGGTCT
Found at i:44381595 original size:52 final size:52
Alignment explanation
Indices: 44381516--44381614 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
44381506 TCAGTGATGG
* *
44381516 TTTTTGAAGTGAAGAAATCATAGCCACTACCGAGGATGTCGTAACACCTATT
1 TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGTCGCAACACCTATT
* *
44381568 TTTTTGAAGTGAAAAAATTAT-GACCACTATCGAGGATGTCGCAACAC
1 TTTTTGAAGTGAAAAAATCATAG-CCACTACCGAGGATGTCGCAACAC
44381615 TAGCTACTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 41 0.98
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGTCGCAACACCTATT
Found at i:44381931 original size:25 final size:26
Alignment explanation
Indices: 44381883--44381931 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
44381873 CTTTTCCTTT
* *
44381883 CTTTTCGTTTTTAGATTAGGTTTTTC
1 CTTTTCGTTTTTAGAATAGATTTTTC
*
44381909 CTTTTC-TTTTTAGAATATATTTT
1 CTTTTCGTTTTTAGAATAGATTTT
44381932 ATTTCTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (26 bp):
CTTTTCGTTTTTAGAATAGATTTTTC
Found at i:44384801 original size:21 final size:24
Alignment explanation
Indices: 44384776--44384819 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
44384766 TCTTATTATT
44384776 AATAT-TATTT-TT-AAGAGATAA
1 AATATATATTTATTCAAGAGATAA
44384797 AATATCATATTTATTCAAGAGAT
1 AATAT-ATATTTATTCAAGAGAT
44384820 TTTTGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 5 0.26
24 2 0.11
25 7 0.37
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
AATATATATTTATTCAAGAGATAA
Found at i:44386670 original size:28 final size:26
Alignment explanation
Indices: 44386633--44386689 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 26
44386623 AAATTTTAAA
44386633 AAATTCAAAAAACTATAAAATATATATTT
1 AAATTCAAAAAAC-ATAAAA-AT-TATTT
*
44386662 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATAAAAATTATTT
44386687 AAA
1 AAA
44386690 AAGTATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
26 2 0.07
27 5 0.19
28 7 0.26
29 5 0.19
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATTCAAAAAACATAAAAATTATTT
Found at i:44386714 original size:11 final size:11
Alignment explanation
Indices: 44386698--44386731 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
44386688 AAAAGTATAG
44386698 AAATATTTTTA
1 AAATATTTTTA
44386709 AAATATTTTT-
1 AAATATTTTTA
44386719 AAA-ATTTTTA
1 AAATATTTTTA
44386729 AAA
1 AAA
44386732 AGTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTTA
Found at i:44386740 original size:20 final size:19
Alignment explanation
Indices: 44386674--44386741 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
44386664 ATTAAAAAAC
44386674 ATTAAAATTATTTAAAAAGT
1 ATTAAAATT-TTTAAAAAGT
* *
44386694 ATAGAAATATTTTTAAAATATT
1 AT-TAAA-ATTTTTAAAA-AGT
*
44386716 TTTAAAATTTTTAAAAAGT
1 ATTAAAATTTTTAAAAAGT
44386735 AATTAAA
1 -ATTAAA
44386742 TGTTGACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 17 0.45
21 13 0.34
22 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTAAAATTTTTAAAAAGT
Found at i:44390174 original size:29 final size:30
Alignment explanation
Indices: 44390108--44390171 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
44390098 TTATGGGAGG
44390108 AAAAAAA-GAAAATAAGAGAAATAGAAAGA
1 AAAAAAAGGAAAATAAGAGAAATAGAAAGA
* * *
44390137 ATAAAAAGGAGAATAA-AGAAATA-ATAGA
1 AAAAAAAGGAAAATAAGAGAAATAGAAAGA
44390165 AAAAAAA
1 AAAAAAA
44390172 AGGGTAGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 10 0.33
29 13 0.43
30 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (30 bp):
AAAAAAAGGAAAATAAGAGAAATAGAAAGA
Found at i:44391000 original size:86 final size:86
Alignment explanation
Indices: 44390885--44391061 Score: 207
Period size: 86 Copynumber: 2.1 Consensus size: 86
44390875 TAAAAAGCCA
* * * *
44390885 CTAAAGGTCATGTTCTTTAGCGGCACTTTT-CTCACAAA-CGCCACTAAAGATCATGTTCTTTAG
1 CTAAAAGTCATGTTCTATAGCGGCACTTTTCCT-A-AAATCGCCACTAAAAATCATGATCTTTAG
* * *
44390948 -TGCCGTTTTTAGTAAATGCGCTG
64 CTG-CGTTTGTAGTAAAAGCGCCG
* * *
44390971 CTAAAAGTCATGTTCTATAGTGGCGCTTTTCCTAAAATTGCCACTAAAAATCATGATCTTTAGCT
1 CTAAAAGTCATGTTCTATAGCGGCACTTTTCCTAAAATCGCCACTAAAAATCATGATCTTTAGCT
*
44391036 GCGTTTGTGGTAAAAGCGCCG
66 GCGTTTGTAGTAAAAGCGCCG
44391057 CTAAA
1 CTAAA
44391062 GAACATGATC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
85 3 0.04
86 70 0.91
87 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (86 bp):
CTAAAAGTCATGTTCTATAGCGGCACTTTTCCTAAAATCGCCACTAAAAATCATGATCTTTAGCT
GCGTTTGTAGTAAAAGCGCCG
Found at i:44391078 original size:86 final size:86
Alignment explanation
Indices: 44390924--44391086 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 86
44390914 TCTCACAAAC
* * * * * * *
44390924 GCCACTAAAGATCATGTTCTTTAGTGCCGTTTTTAGTAAATGCGCTGCTAAAAGTCATGTTCTAT
1 GCCACTAAAAATCATGATCTTTAGTGCCGTTTGTAGTAAAAGCGCCGCTAAAAGACATGATCTAT
44390989 AGTGGCGCTTTTCCTAAAATT
66 AGTGGCGCTTTTCCTAAAATT
*
44391010 GCCACTAAAAATCATGATCTTTAGCTG-CGTTTGTGGTAAAAGCGCCGCT-AAAGAACATGATCT
1 GCCACTAAAAATCATGATCTTTAG-TGCCGTTTGTAGTAAAAGCGCCGCTAAAAG-ACATGATCT
* *
44391073 TTAGTGGCGTTTTT
64 ATAGTGGCGCTTTT
44391087 GGGAAAAGCG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 4 0.06
86 59 0.91
87 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
GCCACTAAAAATCATGATCTTTAGTGCCGTTTGTAGTAAAAGCGCCGCTAAAAGACATGATCTAT
AGTGGCGCTTTTCCTAAAATT
Found at i:44391094 original size:43 final size:43
Alignment explanation
Indices: 44390844--44391106 Score: 182
Period size: 43 Copynumber: 6.2 Consensus size: 43
44390834 AAAAACGCTG
*
44390844 CTAAAGAACATGA-CTTTTAGTGGC-TTTTTGGTAAAA-AGCCA
1 CTAAAGAACATGATC-TTTAGTGGCGTTTTTGGTAAAAGCGCCA
** * * ** *
44390885 CTAAAGGTCATGTTCTTTAGCGGCACTTTT-CTCACAAA-CGCCA
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGT-A-AAAGCGCCA
* * * * * **
44390928 CTAAAGATCATGTTCTTTAGTGCCGTTTTTAGTAAATGCGCTG
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
* * * * ** **
44390971 CTAAA-AGTCATGTTCTATAGTGGCGCTTTTCCTAAAATTGCCA
1 CTAAAGA-ACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
* *
44391014 CTAAA-AATCATGATCTTTAGCT-GCGTTTGTGGTAAAAGCGCCG
1 CTAAAGAA-CATGATCTTTAG-TGGCGTTTTTGGTAAAAGCGCCA
*
44391057 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGGAAAAGCGCCA
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
44391100 CTAAAGA
1 CTAAAGA
44391107 TTCTTTAGCG
Statistics
Matches: 172, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
41 19 0.11
42 10 0.06
43 139 0.81
44 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (43 bp):
CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
Found at i:44392559 original size:23 final size:23
Alignment explanation
Indices: 44392533--44392601 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
44392523 TTTAGAAAGT
44392533 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
* *
44392556 AAAATAT-TATGAAA-GT-----
1 AAAATATAAATGAAACTTAAACC
44392572 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
44392595 AAAATAT
1 AAAATAT
44392602 TATAAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
16 7 0.20
17 6 0.17
18 1 0.03
21 1 0.03
22 6 0.17
23 14 0.40
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.25
Consensus pattern (23 bp):
AAAATATAAATGAAACTTAAACC
Found at i:44392570 original size:39 final size:39
Alignment explanation
Indices: 44392527--44392604 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
44392517 CACAAGTTTA
44392527 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
44392566 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
44392605 AAATTACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (39 bp):
GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
Found at i:44400978 original size:41 final size:41
Alignment explanation
Indices: 44400922--44401024 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 41
44400912 TGATTCGATA
*
44400922 CACCGGC-TTATAGCCTGCTAGACCTATAGTCGGAAATGT-A-T
1 CACCGGCATTA-AGCCTGCTAGACCTAAAGTCGG-AAT-TAATT
* *
44400963 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCGGAATTAATT
44401004 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
44401025 GCACATAGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.02
40 4 0.07
41 48 0.86
42 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCGGAATTAATT
Found at i:44401038 original size:41 final size:41
Alignment explanation
Indices: 44400960--44401068 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
44400950 GTCGGAAATG
** *
44400960 TATCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TATCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
44401001 -ATTCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAATTA
1 TA-TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* **
44401042 TATCACCTGCATCCAGCCTGCTAGACA
1 TATCACCGGCATTAAGCCTGCTAGACA
44401069 ATAAGTTTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (41 bp):
TATCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:44408804 original size:41 final size:41
Alignment explanation
Indices: 44408748--44408850 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 41
44408738 TGATTCGATA
*
44408748 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGT-A-T
1 CACCGGCATTA-AGCCTGCTAGACCTAAAGTCCG-AAT-TAATT
* *
44408789 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAATTAATT
44408830 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
44408851 GCACATAGCN
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.02
40 4 0.07
41 48 0.86
42 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAATTAATT
Found at i:44419470 original size:9 final size:9
Alignment explanation
Indices: 44419456--44419484 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
44419446 TAAACAATTC
44419456 AATAATATA
1 AATAATATA
44419465 AATAATATA
1 AATAATATA
44419474 AATAATATA
1 AATAATATA
44419483 AA
1 AA
44419485 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:44419896 original size:9 final size:9
Alignment explanation
Indices: 44419882--44419918 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44419872 TATAGTTTGA
44419882 TATTCGAAT
1 TATTCGAAT
44419891 TATTCGAAT
1 TATTCGAAT
* *
44419900 TATTTGAGT
1 TATTCGAAT
44419909 TATTCGAAT
1 TATTCGAAT
44419918 T
1 T
44419919 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44419988 original size:9 final size:9
Alignment explanation
Indices: 44419971--44420001 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44419961 TCGAGTTGAT
44419971 TCGAATAAC
1 TCGAATAAC
*
44419980 TCGATTAAC
1 TCGAATAAC
44419989 TCGAATAAC
1 TCGAATAAC
44419998 TCGA
1 TCGA
44420002 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:44421593 original size:13 final size:13
Alignment explanation
Indices: 44421572--44421602 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44421562 TATTTTAATT
*
44421572 ATTTTCTAATAAA
1 ATTTCCTAATAAA
44421585 ATTTCCTAATAAA
1 ATTTCCTAATAAA
44421598 ATTTC
1 ATTTC
44421603 TGCCTGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCCTAATAAA
Found at i:44422334 original size:76 final size:75
Alignment explanation
Indices: 44422182--44422448 Score: 274
Period size: 76 Copynumber: 3.5 Consensus size: 75
44422172 TGCACATATA
* ** * *
44422182 TCGGGGAGGGCGAACTAATTTGGGGAAAAGAAATTCAGAAAAAAAAAGAAAGGGATTTTGGAAAA
1 TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATT--GGGAAAAAAAGAAAGGGGTTTGGGAAAA
44422247 AA-TTAAGGATT
64 AACTTAAGGATT
* * * * *
44422258 TTGTGGAGGGGGAATTAATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGGTCTGGGAAAGAA
1 TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGGAAA-AA
44422323 ACTT-AGAGATT
65 ACTTAAG-GATT
*
44422334 TCGGGGAGAAGGGGAACTGA-TTGTGGG-AAA-AAATTGGGAAAAAAAGAAAGGGGTTTGGGAAA
1 TCGGGGAG--GGGGAACTAATTTG-GGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGG-AA
44422396 AAAACTTAAGGATT
62 AAAACTTAAGGATT
* * * *
44422410 TCGGGGAGAGGGGGAATTGATTTGGGAAAAAGAATTTGG
1 TC-GGG-GAGGGGGAACTAATTTGGGGAAAAGAAATTGG
44422449 AGTTTTAGGG
Statistics
Matches: 159, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
74 21 0.13
75 5 0.03
76 93 0.58
77 20 0.13
78 20 0.13
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (75 bp):
TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGGAAAAAA
CTTAAGGATT
Found at i:44423430 original size:29 final size:29
Alignment explanation
Indices: 44423388--44423446 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
44423378 AAAGTGCATG
44423388 TTAGAATCATTATGAAGATAACATTTCAT
1 TTAGAATCATTATGAAGATAACATTTCAT
*
44423417 TTAGAATCATTATGCAGATAACATTTCAT
1 TTAGAATCATTATGAAGATAACATTTCAT
44423446 T
1 T
44423447 AGGTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
TTAGAATCATTATGAAGATAACATTTCAT
Found at i:44425232 original size:17 final size:19
Alignment explanation
Indices: 44425210--44425248 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
44425200 AATATTGACA
*
44425210 GATTGAA-GTTGTG-ATAT
1 GATTGAATGATGTGTATAT
44425227 GATTGAATGATGTGTATAT
1 GATTGAATGATGTGTATAT
44425246 GAT
1 GAT
44425249 GTATATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (19 bp):
GATTGAATGATGTGTATAT
Found at i:44425876 original size:138 final size:138
Alignment explanation
Indices: 44425607--44425861 Score: 352
Period size: 138 Copynumber: 1.8 Consensus size: 138
44425597 AGTTCTTGCC
* * **
44425607 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATTTAGGTTCCCAAATCCTGTA
1 TAGGTTCTCAACTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTACA
44425672 TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
66 TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
44425737 TACAGGTT
131 TACAGGTT
* * **
44425745 TAGGTTC-CAAGCTCCTGCATATGTTGCGGACTAGAGAATACAGGTTTAGGTTCCCAGCTCCTAC
1 TAGGTTCTCAA-CTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTAC
** * * * *
44425809 ATATGTTGCGAACTGGAGAATACA-AGTTTAGGTTCCCAACTCCTGCATATGTT
65 ATACATTACAAACTGGAGAATACAGA-TTCAGGTTCCCAACTCCTACATATGTT
44425862 GTGGATTGGA
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 4 0.04
138 97 0.96
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (138 bp):
TAGGTTCTCAACTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTACA
TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
TACAGGTT
Found at i:44425887 original size:46 final size:46
Alignment explanation
Indices: 44425607--44425876 Score: 272
Period size: 46 Copynumber: 5.9 Consensus size: 46
44425597 AGTTCTTGCC
* * * * * *
44425607 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATACAGGTT
* ** ** * ** * *
44425653 TAGGTTCCCAAATCCTGTATACATTACAAACTGGAGAATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATACAGGTT
* * *
44425699 CAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAATACAGGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATACAGGTT
*
44425745 TAGGTT-CCAAGCTCCTGCATATGTTGCGGACTAGAGAATACAGGTT
1 TAGGTTCCCAA-CTCCTACATATGTTGCGGACTAGAGAATACAGGTT
* * * *
44425791 TAGGTTCCCAGCTCCTACATATGTTGCGAACTGGAGAATACAAGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATACAGGTT
* * * *
44425837 TAGGTTCCCAACTCCTGCATATGTTGTGGATTGGAGAATA
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATA
44425877 GAGTAATAGG
Statistics
Matches: 187, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
45 4 0.02
46 180 0.96
47 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (46 bp):
TAGGTTCCCAACTCCTACATATGTTGCGGACTAGAGAATACAGGTT
Found at i:44427722 original size:15 final size:16
Alignment explanation
Indices: 44427704--44427739 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
44427694 ATCTGTTCTG
44427704 TTTCA-AATTTTACTT
1 TTTCATAATTTTACTT
44427719 TTTCATAATTTTACTT
1 TTTCATAATTTTACTT
44427735 TTTCA
1 TTTCA
44427740 CTTTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCATAATTTTACTT
Found at i:44428040 original size:51 final size:51
Alignment explanation
Indices: 44427964--44428154 Score: 190
Period size: 51 Copynumber: 3.8 Consensus size: 51
44427954 GATACCGTTT
* * * *
44427964 CACATAGTAGCCTGCACATAGTACTACACATGTGTCCATCA-CTAACCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCCGGTA
* *
44428015 CACATAGTAGCCTGCACATAGTACTACAAACGTGATCGA-AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCCGGTA
* * * * * * * **
44428066 CGCATAATAGCTTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTA
* *
44428116 CACGTAGTAGCCTGCACAAAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
44428155 CACTTTCTAT
Statistics
Matches: 112, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
50 40 0.36
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTA
Found at i:44432050 original size:112 final size:112
Alignment explanation
Indices: 44431851--44432067 Score: 299
Period size: 112 Copynumber: 1.9 Consensus size: 112
44431841 GTAACACGCA
* * *
44431851 TATGACGAGTTCATTAGACAAGCACTAGATAACTAGCTGTCGTAATGGTATATAATAGGGAAAGC
1 TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
** * *
44431916 TCATTCATGGTACTTTATTAGAATTCCTCCATGACTAAATAGTTTTG
66 AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTG
* * * * *
44431963 TATGATGAGGTCATTAGACAACCACTAGATAAGTAGCTTTCATTATGGTATATAATAGGGAGAGC
1 TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
* **
44432028 AAATTCATGATACTTTGGTAGAATTCCTCTGTGACTAAAT
66 AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAAT
44432068 GATCTGCCAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 90 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (112 bp):
TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTG
Found at i:44445230 original size:12 final size:13
Alignment explanation
Indices: 44445213--44445241 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44445203 CTCATACATG
44445213 AATAAATAAA-GC
1 AATAAATAAATGC
44445225 AATAAATAAATGC
1 AATAAATAAATGC
44445238 AATA
1 AATA
44445242 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:44447911 original size:27 final size:27
Alignment explanation
Indices: 44447881--44448182 Score: 345
Period size: 27 Copynumber: 11.2 Consensus size: 27
44447871 GATTCGTGGG
44447881 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* **
44447908 AAAATTATCGAAATACCCTTAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
44447935 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*** * *
44447962 AAAATTATAAAAATACCCTCAAATGCGT
1 AAAATTACCGAAATACCCTCGAA-GGGT
* *
44447990 AAAATTATCGACATACCC-CGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
** * *
44448016 AAAATTACTAAAATACCCCCAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
***
44448043 AAAATTATTAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
44448070 AAAATTACCAAAATACCCTCGAAGGCT
1 AAAATTACCGAAATACCCTCGAAGGGT
** * *
44448097 AAAATTATAGAAATACCCTTGAAGGTT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
44448124 AAAATTACCGAAATACCCTCGAAGGCT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
44448151 AAAATTACCAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
44448178 AAAAT
1 AAAAT
44448183 GACTGTTATA
Statistics
Matches: 232, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 17 0.07
27 197 0.85
28 18 0.08
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:44449108 original size:20 final size:20
Alignment explanation
Indices: 44449083--44449125 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
44449073 TTCCAAACTT
44449083 AAGAAACAAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
*
44449103 AAGAAACGAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
44449123 AAG
1 AAG
44449126 TCTAAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (20 bp):
AAGAAACAAGTTTTATCAAC
Found at i:44461724 original size:19 final size:19
Alignment explanation
Indices: 44461690--44461726 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44461680 ATAGGAAATA
* *
44461690 GATTTGTGCTCTTTGGAAC
1 GATTTGTGCACCTTGGAAC
44461709 GATTTGTGCACCTTGGAA
1 GATTTGTGCACCTTGGAA
44461727 TGAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (19 bp):
GATTTGTGCACCTTGGAAC
Found at i:44464460 original size:8 final size:9
Alignment explanation
Indices: 44464433--44464460 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44464423 TTCTAATATC
44464433 AATTATAAA
1 AATTATAAA
44464442 AATTATAAA
1 AATTATAAA
44464451 AATTATAAA
1 AATTATAAA
44464460 A
1 A
44464461 CCATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:44470771 original size:105 final size:104
Alignment explanation
Indices: 44470589--44470785 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 104
44470579 GTGTGTCAGC
* * *
44470589 CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTTAGGGTACACGCCCGTGTGGGTTGCC
1 CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTGCC
* *
44470654 TGTGCATATCACACGATCGTGTGACAGCCCATGACCCAGG
66 TGTGCA-ATCACACGACCGAGTGACAGCCCATGACCCAGG
* * * *
44470694 CCGTGTGAAAACTGT-ATCTATATTGTTTTGAAACACGTTCAGGGCACACGCCCATGTGTGTTGC
1 CCGTGTGAAAACT-TCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTG-
44470758 CCGTGTGC-ATCACACGACCGAGTGACAG
64 CC-TGTGCAATCACACGACCGAGTGACAG
44470786 TCCGTGTCCC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
105 72 0.90
106 3 0.04
107 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (104 bp):
CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTGCC
TGTGCAATCACACGACCGAGTGACAGCCCATGACCCAGG
Found at i:44474666 original size:30 final size:30
Alignment explanation
Indices: 44474632--44474694 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
44474622 ACTTATTTTA
44474632 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
44474662 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
44474692 TTG
1 TTG
44474695 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:44483918 original size:16 final size:17
Alignment explanation
Indices: 44483889--44483920 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44483879 AATTTTAGGG
44483889 GGAAAATAAAAAGTTTT
1 GGAAAATAAAAAGTTTT
44483906 GGAAAAT-AAAAGTTT
1 GGAAAATAAAAAGTTT
44483921 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GGAAAATAAAAAGTTTT
Found at i:44484052 original size:30 final size:31
Alignment explanation
Indices: 44484013--44484072 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
44484003 AAAGGTGGGA
*
44484013 TGGGAAGGGAATAAAAGTTTTAGGAGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
* * *
44484044 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAA
44484073 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
Found at i:44484374 original size:9 final size:9
Alignment explanation
Indices: 44484357--44484396 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
44484347 TCGAGTTGAT
44484357 TCGAATAAC
1 TCGAATAAC
*
44484366 TCGATTAAC
1 TCGAATAAC
44484375 TCGAATAAC
1 TCGAATAAC
*
44484384 TCAAATAAC
1 TCGAATAAC
44484393 TCGA
1 TCGA
44484397 TTCGTTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:44491486 original size:13 final size:13
Alignment explanation
Indices: 44491459--44491499 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
44491449 TTCTTTAACG
44491459 TTTTCTTTTTCTTC
1 TTTTC-TTTTCTTC
*
44491473 TTTTCTTTTGTTC
1 TTTTCTTTTCTTC
44491486 -TTTC-TTTCTTC
1 TTTTCTTTTCTTC
44491497 TTT
1 TTT
44491500 CACCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 7 0.29
14 5 0.21
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:44491520 original size:14 final size:14
Alignment explanation
Indices: 44491460--44491520 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 14
44491450 TCTTTAACGT
44491460 TTTCTTTTTC-TTC
1 TTTCTTTTTCTTTC
44491473 TTTTCTTTTGTTCTTTC
1 -TTTC-TTT-TTCTTTC
44491490 TTTCTTCTTTCACCTTTC
1 TTTCTT-TTT---CTTTC
44491508 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
44491521 TTGCTTGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.20
15 7 0.17
16 8 0.20
17 6 0.15
18 11 0.28
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:44494291 original size:40 final size:41
Alignment explanation
Indices: 44494246--44494342 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
44494236 ATCTTCAAGG
44494246 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
44494286 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
44494329 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
44494343 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 30 0.60
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:44494319 original size:19 final size:19
Alignment explanation
Indices: 44494245--44494316 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
44494235 AATCTTCAAG
44494245 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44494264 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44494283 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
44494304 GATATGCAATCTT
1 GATATGCAATCTT
44494317 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44499917 original size:15 final size:15
Alignment explanation
Indices: 44499899--44499927 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44499889 TATTCTAAAA
44499899 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
44499914 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
44499928 AAGGAGAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAG
Found at i:44502255 original size:43 final size:43
Alignment explanation
Indices: 44501312--44502305 Score: 320
Period size: 44 Copynumber: 22.6 Consensus size: 43
44501302 CATCGAAAGC
** * * *
44501312 GAAGCAGATCGAAGATACCAACCTTGCCTCCTTAGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * ** * * *
44501355 GGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGACAGC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
44501400 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * * ** * * **
44501443 GGAGCAGGTTGAATATAGCAGATCTTGTCTTCCTGTATCGACAAC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
44501488 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCG-T
* * ** * ** * ** *
44501532 G-AGCAGGTTGAAGATAGAAGATCTTGCCTTCCTGTATCGAAAGC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTG-TCGT
* * *
44501576 GAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
44501619 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * * * *
44501664 GAAGCAAATAGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
44501707 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * * * *
44501752 AAAGAAGATCAAAGATACCAG-CGTTGCCTCCCTGGGTTATAGT
1 GAAGCAGATCGAAGATACCAGTC-TTGCCTCCCTGGGTTGTCGT
* * * * * **** *
44501795 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * *
44501840 GAAGCAGATCGAAGATACCAGCCTTGCCTACCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * ** * * **
44501883 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAAC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * *
44501928 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * ** * *******
44501971 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCAAAAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTG-GGTTGTCGT
* * * * ** *
44502016 TAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGGATCATAGTT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCG-T
* * * * **** *
44502060 G-AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
44502104 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
44502147 GAAGCAGGTTGAAGGTAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
44502192 GAAGCAGATCAAAGGTACCAGTCTTGCCTCCCTGGGTTGTCGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * ** *
44502235 GAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTCGT
* *
44502279 GAAGCAGATCAAAGATAGCAGATCTTG
1 GAAGCAGATCGAAGATACCAG-TCTTG
44502306 TCTTCATGTA
Statistics
Matches: 647, Mismatches: 277, Indels: 53
0.66 0.28 0.05
Matches are distributed among these distances:
43 191 0.30
44 283 0.44
45 173 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (43 bp):
GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
Found at i:44502257 original size:88 final size:88
Alignment explanation
Indices: 44501197--44502295 Score: 1552
Period size: 88 Copynumber: 12.5 Consensus size: 88
44501187 TTGTAGTTAA
* * * *
44501197 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAAATCGAAGATACCAGCCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
44501262 CTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * * *
44501285 CAGACCTTGCCTTCCTGCATCGAAAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCTTAGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
44501350 GTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* *
44501373 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
44501438 GTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* **
44501461 CAGATCTTGTCTTCCTGTATCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
44501526 GTAGTTGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
44501549 AAGATCTTGCCTTCCTGTATCGAAAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
44501614 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
44501637 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAAATAGAAGATACCAGCCTTGCCTCCCTGGGTC
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
44501702 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * *
44501725 CAGATCTTGCCTTCCTGTACCGACAGTAAAGAAGATCAAAGATACCAGCGTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
44501790 ATAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* *
44501813 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTACCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
44501878 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* ** *
44501901 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
44501966 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * * * *
44501989 TAGATCTTGCCTTCCTGTACCAAAAGTTAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGGATC
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
44502054 ATAGTTGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
*
44502077 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
44502142 GTAGTGAAGCAGGTTGAAGGTAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
44502165 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGGTACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * * * *
44502230 GTCGTGAAGTAGATCGAAGAAAC
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * *
44502253 CAGATATTGTCTTCATGTATTGGC-GTGAAGCAGATCAAAGATA
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATA
44502296 GCAGATCTTG
Statistics
Matches: 917, Mismatches: 94, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
87 18 0.02
88 899 0.98
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
GTAGTGGAGCAGGTTGAAGATAG
Found at i:44502288 original size:44 final size:44
Alignment explanation
Indices: 44502232--44502623 Score: 407
Period size: 44 Copynumber: 8.9 Consensus size: 44
44502222 CCTGGGTTGT
* *
44502232 CGTGAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
44502276 CGTGAAGCAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * *** *
44502320 CGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * * * *
44502364 TGGCGAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATTTG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
44502409 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
44502453 TGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTTATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
44502497 CATGAAGTAGATCGAAGAGAGCATATCTTGTCTTCCCATACTGA-TGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CAT-GT-ATTGG
*
44502544 C--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT-G
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
44502585 -GTAAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTA
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
44502624 CCGGTATGAA
Statistics
Matches: 288, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 36 0.12
43 3 0.01
44 179 0.62
45 60 0.21
46 2 0.01
47 5 0.02
48 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:44502305 original size:88 final size:88
Alignment explanation
Indices: 44501312--44502624 Score: 529
Period size: 88 Copynumber: 14.9 Consensus size: 88
44501302 CATCGAAAGC
* * * * * * * *
44501312 GAAGCAGATCGAAGATACCA-ACCTTGCCTCCTTAGG-TTGTAGTGGAGCAGGTTGAATATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCAT-GGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * * *
44501375 GATCTTGCCTTCCTGCA-TCGACAGC
65 GATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * * *
44501400 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * **
44501464 ATCTTGTCTTCCTGTA-TCGACAAC
66 ATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * *
44501488 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTTG-AGCAGGTTGAAGATAGAA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAG-TGAAGTAGATCGAAGATAGCA
* * ** *
44501551 GATCTTGCCTTCCTGTA-TCGAAAGC
65 GATCTTGTCTTCATGTACT-G-GCGT
* * * * * * * *
44501576 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * * *
44501640 ATCTTGCCTTCCTGTACCGACAGT
66 ATCTTGTCTTCATGTACTGGC-GT
* * * * * * * * *
44501664 GAAGCAAAT-AGAAGATACCAG-CCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCA-AAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * *
44501727 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * * * *
44501752 AAAGAAGATCAAAGATACCAG--CGTTGCCTCCCTGGGTTATAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATC-TTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * *
44501815 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * *
44501840 GAAGCAGATCGAAGATACCAG-CCTTGCCTACC-TGGGTTGTAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCT-CCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * * **
44501903 GATCTTGCCTTCCTGCA-TCGACAAC
65 GATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * *
44501928 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * ****
44501992 ATCTTGCCTTCCTGTACCAAAAGT
66 ATCTTGTCTTCATGTA-CTGGCGT
* * * * * ** * * *
44502016 TAAGTAGATCGAAGATACCAG-CCTTGCCTCCCTGGATCATAGTTG-AGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAG-TGAAGTAGATCGAAGATAGCA
* * * *
44502079 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * * *
44502104 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGGTAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * * *
44502168 ATCTTGCCTTCCTGTACCGACAGT
66 ATCTTGTCTTCATGTACTGGC-GT
* * * * * *
44502192 GAAGCAGATCAAAGGTACCAG-TCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGAAACCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* *
44502256 ATATTGTCTTCATGTATTGGCGT
66 ATCTTGTCTTCATGTACTGGCGT
* * * * * *
44502279 GAAGCAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAG-CGTGAAATAGATCGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATT-GTAGTGAAGTAGATCGAAGATAGCA
*** * *
44502343 GATCTTGTCTTCCCATACTGGTGGC
65 GATCTTGTCTTCATGTACTGG-CGT
* ** * * ** * * *
44502368 GAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATT-TGAGTGAAGTAGATCAAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGT-AGTGAAGTAGATCGAAGATAGCA
* * *
44502432 GATCTTGTTTTCATGTATTGGTGT
65 GATCTTGTCTTCATGTACTGGCGT
* * * ** * * *
44502456 GAAGTAGATCAAAGATAGCAGATCTTGTCTTTATGTATTGGCA-TGAAGTAGATCGAAGAGAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATT-GTAGTGAAGTAGATCGAAGATAGCA
* *** *
44502520 TATCTTGTCTTCCCATACTGATG-GC
65 GATCTTGTCTTCATGTACTG--GCGT
* * * ** * * * * *
44502545 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTG--GTAAAGTAGATCGAAGAAAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
*
44502608 ATCTTATCTTCATGTAC
66 ATCTTGTCTTCATGTAC
44502625 CGGTATGAAA
Statistics
Matches: 1065, Mismatches: 131, Indels: 59
0.85 0.10 0.05
Matches are distributed among these distances:
87 65 0.06
88 881 0.83
89 118 0.11
90 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (88 bp):
GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCATGTACTGGCGT
Found at i:44502399 original size:133 final size:133
Alignment explanation
Indices: 44502235--44502486 Score: 396
Period size: 133 Copynumber: 1.9 Consensus size: 133
44502225 GGGTTGTCGT
* *
44502235 GAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGTGAAGCAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
*
44502300 ATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTAGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
44502365 GGC
131 GGC
* * * * *
44502368 GAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATTTGAGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
* * * *
44502433 ATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
66 ATCTTGTCTTCATGTATTAGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTT
44502487 TATGTATTGG
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 107 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
ATCTTGTCTTCATGTATTAGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGC
Found at i:44502414 original size:89 final size:89
Alignment explanation
Indices: 44502279--44502618 Score: 368
Period size: 89 Copynumber: 3.9 Consensus size: 89
44502269 GTATTGGCGT
* * * * * *
44502279 GAAGCAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTTGAGTGAAATAGATCGAAGATAGCAG
44502344 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * * *
44502368 GAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATTTGAGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTTGAGTGAAATAGATCGAAGATAGCAG
* *** * *
44502433 ATCTTGTTTTCATGTATTGGT-GT
66 ATCTTGTCTTCCCATACTGGTGGC
* * * * * * *
44502456 GAAGTAGATCAAAGATAGCAGATCTTGTCTTTATGTATTGGCA-TGAAGTAGATCGAAGAGAGCA
1 GAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTTG-AGTGAAATAGATCGAAGATAGCA
* *
44502520 TATCTTGTCTTCCCATACTGATGGC
65 GATCTTGTCTTCCCATACTGGTGGC
*
44502545 GAAGTAGATCGAAGAAAGT-AGATCTTGTCTTCATGTA-TTG-GT-AAAGTAGATCGAAGAAAGC
1 GAAGTAGATCGAAGAAA-TCAGATCTTGTCTTCATGTATTTGAGTGAAA-TAGATCGAAGATAGC
*
44502606 AGATCTTATCTTC
64 AGATCTTGTCTTC
44502619 ATGTACCGGT
Statistics
Matches: 204, Mismatches: 42, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
86 2 0.01
87 26 0.13
88 71 0.35
89 105 0.51
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTTGAGTGAAATAGATCGAAGATAGCAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:44502473 original size:177 final size:175
Alignment explanation
Indices: 44502233--44502662 Score: 610
Period size: 177 Copynumber: 2.4 Consensus size: 175
44502223 CTGGGTTGTC
* * * *
44502233 GTGAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGTGAAGCAGATCAAAGATAGC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGC
* *
44502298 AGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
66 AGATCTTGTCTTCATGTATTAGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACTG
* *
44502363 GTGGCGAAGTAGATTGAAGAAA-TCAGATCTTATCTTCATGTATTTG
131 ATGGCGAAGTAGATCGAAGAAAGT-AGATCTTATCTTCATGTA-TTG
* * *
44502409 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAG
1 -GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAG
* * * *
44502474 CAGATCTTGTCTTTATGTATTGGCATGAAGTAGATCGAAGAGAGCATATCTTGTCTTCCCATACT
65 CAGATCTTGTCTTCATGTATTAGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACT
*
44502539 GATGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTG
130 GATGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATTG
* * ** * * * *
44502585 GTAAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGGTATGAAATAGACCAAAGGTAGC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGC
44502650 AGATCTTGTCTTC
66 AGATCTTGTCTTC
44502663 CCATACTGGT
Statistics
Matches: 224, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
175 66 0.29
176 3 0.01
177 154 0.69
178 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (175 bp):
GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGC
AGATCTTGTCTTCATGTATTAGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACTG
ATGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATTG
Found at i:44502656 original size:131 final size:133
Alignment explanation
Indices: 44502412--44502690 Score: 375
Period size: 131 Copynumber: 2.1 Consensus size: 133
44502402 GTATTTGAGT
* * * * *
44502412 GAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
* * ** * * * *
44502477 ATCTTGTCTTTATGTATTGGCATGAAGTAGATCGAAGAGAGCATATCTTGTCTTCCCATACTGAT
66 ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGAGAGCAGATCTTGTCTTCCCATACTGAT
44502542 GGC
131 GGC
* *
44502545 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT-G-GTAAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
* *
44502608 ATCTTATCTTCATGTACCGGTATGAAATAGACCAAAG-GTAGCAGATCTTGTCTTCCCATACTGG
66 ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGAG-AGCAGATCTTGTCTTCCCATACTGA
44502672 TGGC
130 TGGC
44502676 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
44502691 TACAAGTCTT
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 1 0.01
131 91 0.71
132 1 0.01
133 35 0.27
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGAGAGCAGATCTTGTCTTCCCATACTGAT
GGC
Found at i:44503108 original size:19 final size:19
Alignment explanation
Indices: 44503038--44503105 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
44503028 CTTTAAGGAT
44503038 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
44503057 TGCAATCTTAGATATAATATA
1 TGCAATCTTAGATAT--GATA
*
44503078 TGCAATCTTGGATATGATA
1 TGCAATCTTAGATATGATA
44503097 TGCAATCTT
1 TGCAATCTT
44503106 GGAAGATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 27 0.61
21 17 0.39
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:44513584 original size:14 final size:13
Alignment explanation
Indices: 44513565--44513590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44513555 TTAGTCTTTA
44513565 TTTTTTTCTATTG
1 TTTTTTTCTATTG
44513578 TTTTTTTCTATTG
1 TTTTTTTCTATTG
44513591 AAATAAAATA
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:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTATTG
Found at i:44514410 original size:24 final size:24
Alignment explanation
Indices: 44514367--44514427 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
44514357 TTAATTGATA
*
44514367 ATGTAATTATT-TTATATATATAT
1 ATGTAATTTTTCTTATATATATAT
*
44514390 ATGTAATTTTTCTTATCTATATAT
1 ATGTAATTTTTCTTATATATATAT
* *
44514414 GTGTATATATTTCT
1 ATGTA-ATTTTTCT
44514428 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.31
24 15 0.47
25 7 0.22
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (24 bp):
ATGTAATTTTTCTTATATATATAT
Found at i:44514879 original size:15 final size:15
Alignment explanation
Indices: 44514859--44514893 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44514849 TTTCTATGAC
44514859 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
44514874 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
44514889 ATTGT
1 ATTGT
44514894 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:44525653 original size:25 final size:26
Alignment explanation
Indices: 44525606--44525654 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44525596 CAGAATTTGT
44525606 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTTATTCTTCA
44525632 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATA-CTTTATTCTT
44525655 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (26 bp):
TTGTTCTTGTAATACTTTATTCTTCA
Found at i:44526369 original size:44 final size:45
Alignment explanation
Indices: 44526319--44527112 Score: 715
Period size: 44 Copynumber: 18.0 Consensus size: 45
44526309 CTAAAAAAAA
* * *
44526319 AGCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * *
44526363 AGCAGATCCTGTCTTCCTATATTAG-C--GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * *
44526405 -GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* *
44526449 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
** * * * * * *
44526493 AATAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * * * *
44526538 -GCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * *
44526582 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAATAAATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * *
44526626 AGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * *
44526671 -GCAGATCTTGTCTTCCCT-TACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTT-CCTATATTGGTCGTGAAGTAGATCGAAGAT
* * *
44526715 AGCAGATCTCGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * * * *
44526759 AACAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * * *
44526804 -GCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* ** * * *
44526848 AACAGATCCAGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * *
44526893 -GCAGATCTTATCTTCCCATATTGG-GGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * ** *
44526936 AGAAGATCCTGTCTT-CTAATATTGGTAGCAAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCT-ATATTGGTCGTGAAGTAGATCGAAGAT
* * * * *
44526981 -GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * * * *
44527025 AGCGGATCTTGTCTTCATGTATTGG-CGTGACGTAGATAGAAAAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
* * * *
44527069 AGCAGATCTTGCCTTCCTGTACTGG-CAGTGAAGCAGATCGAAGA
1 AGCAGATCTTGTCTTCCTATATTGGTC-GTGAAGTAGATCGAAGA
44527113 CATTAGTCTT
Statistics
Matches: 603, Mismatches: 129, Indels: 35
0.79 0.17 0.05
Matches are distributed among these distances:
41 20 0.03
42 15 0.02
43 17 0.03
44 360 0.60
45 191 0.32
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGAT
Found at i:44526573 original size:89 final size:89
Alignment explanation
Indices: 44526347--44527049 Score: 678
Period size: 89 Copynumber: 8.0 Consensus size: 89
44526337 GTATTAGCGT
* * * * * *
44526347 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA-T--TAGCGAAGTGGATCGAAGAT-GCA
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACA
* * * * *
44526408 GATCTTGTCTTCCCATACTGGTGGT
65 GATCCTGTCTTCCTATATTGGTAGC
* * *** * * * *
44526433 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATA
1 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACA
*
44526497 GATCCTATCTTCCTATATTGGTAGC
65 GATCCTGTCTTCCTATATTGGTAGC
* *
44526522 GAAGTGGATCAAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCA
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAA-CA
* * * * *
44526586 GATCTTGTCTTCATGTATTGG-CGT
65 GATCCTGTCTTCCTATATTGGTAGC
* ** * * * * * * *
44526610 GAAATAAATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-GCA
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACA
* * * *
44526674 GATCTTGTCTTCCCT-TACTGGTGGT
65 GATCCTGTCTT-CCTATATTGGTAGC
* * * *** * *
44526699 GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAACA
1 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACA
*
44526763 GATCCTGTCTTCCTATATTAGTAGC
65 GATCCTGTCTTCCTATATTGGTAGC
*
44526788 GAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAG
*
44526853 ATCCAGTCTTCCTATATTGGTAGC
66 ATCCTGTCTTCCTATATTGGTAGC
* * *
44526877 GAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGG-GGTGAAGTAGATCGAAGATAGA-A
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATA-ACA
44526940 GATCCTGTCTT-CTAATATTGGTAGC
65 GATCCTGTCTTCCT-ATATTGGTAGC
* *
44526965 AAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAA-CA
* * *
44527029 GATCTTGTCTTCATGTATTGG
65 GATCCTGTCTTCCTATATTGG
44527050 CGTGACGTAG
Statistics
Matches: 511, Mismatches: 85, Indels: 39
0.80 0.13 0.06
Matches are distributed among these distances:
86 31 0.06
87 5 0.01
88 188 0.37
89 285 0.56
90 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (89 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAG
ATCCTGTCTTCCTATATTGGTAGC
Found at i:44526590 original size:133 final size:133
Alignment explanation
Indices: 44526317--44527049 Score: 931
Period size: 133 Copynumber: 5.5 Consensus size: 133
44526307 GGCTAAAAAA
*
44526317 AAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
44526382 TA-T--TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
66 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
44526444 AAG
131 AAG
** *
44526447 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
* *
44526512 TATTGGTAGCGAAGTGGATCAAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCG
66 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
44526577 AAG
131 AAG
* *
44526580 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAAATCGAAGATAGCAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
* * *
44526645 TATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCG
66 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
44526710 AAG
131 AAG
* * *
44526713 AAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
* *
44526778 TATTAGTAGCGAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
66 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
44526843 AAG
131 AAG
** * * * * * * *
44526846 ATAA-CAGATCCAGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTATCTTCC
1 A-AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCC
* * * * * * ** * * * *
44526909 CATATTGG-GGTGAAGTAGATCGAAGATAGAAGATCCTGTCTTCTAATATTGGTAGCAAAGTGGA
64 TATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
44526973 TCGAAG
128 TCGAAG
* *** * * * * * * *
44526979 -ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTCAT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
*
44527043 GTATTGG
65 ATATTGG
44527050 CGTGACGTAG
Statistics
Matches: 531, Mismatches: 64, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
130 63 0.12
131 2 0.00
132 52 0.10
133 396 0.75
134 18 0.03
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (133 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
AAG
Found at i:44526750 original size:177 final size:175
Alignment explanation
Indices: 44526347--44527049 Score: 618
Period size: 177 Copynumber: 4.0 Consensus size: 175
44526337 GTATTAGCGT
* * * * *
44526347 GAAGTAGATCGAAGATAGCAGATC-CTGTCTTCCTATATT--AGCGAAGTGGATCGAAG-ATGCA
1 GAAGTAGATCGAAGA-AGCAGATCTC-ATCTTCCCATATTGGTGCGAAGTAGATCGAAGAAAGCA
* * * * * *** *
44526408 GATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
64 GATCCTGTCTTCCTATA-TTG-GGTGAAATAGATCGAAG-ATGCAGATCTTGTCTTCCCATACTG
* * * *
44526473 G-CGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTATATTGGTAGC
126 GTGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGC
* * * * *
44526522 GAAGTGGATCAAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAGCAGATCTCATCTTCCCATATTGGT-GCGAAGTAGATCGAAGAAAGCAG
* * * * * * *
44526587 ATCTTGTCTTCATGTATTGGCGTGAAATAAATCGAAGATAGCAGATCCTGTCTTCCTATATTGGT
65 ATCCTGTCTTCCTATATTGG-GTGAAATAGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGT
* * * * * * * *
44526652 AGTGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCT-TACTGGTGGT
128 GGCGAAGTAGATCGAAGATAACAGATCCTGTCTT-CCTATATTGGTAGC
* *** *
44526699 GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAA-CA
1 GAAGTAGATCGAAG-AAGCAGATCTCATCTTCCCATATTGGTGCGAAGTAGATCGAAGA-AAGCA
* * * * *
44526763 GATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATACTGG
64 GATCCTGTCTTCCTATATT-G-GGTGAAATAGATCGAAGATGCAGATCTTGTCTTCCCATACTGG
*
44526828 TGGCGAAGTAGATCGAAGATAACAGATCCAGTCTTCCTATATTGGTAGC
127 TGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGC
* * * * * * *
44526877 GAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGGGGTGAAGTAGATCGAAGATAGAAGA
1 GAAGTAGATCGAAGAAGCAGATCTCATCTTCCCATATTGGTGCGAAGTAGATCGAAGAAAGCAGA
*
44526942 TCCTGTCTT-CTAATATT-GGTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGG
66 TCCTGTCTTCCT-ATATTGGGT-G-AAA-TAGATCGAAGATGCAGATCTTGTCTTCCCATACTGG
* * * *
44527005 TGGCGAAGTAGATCGAAGA-AAGCGGATCTTGTCTTCATGTATTGG
127 TGGCGAAGTAGATCGAAGATAA-CAGATCCTGTCTTCCTATATTGG
44527050 CGTGACGTAG
Statistics
Matches: 428, Mismatches: 79, Indels: 40
0.78 0.14 0.07
Matches are distributed among these distances:
174 18 0.04
175 14 0.03
176 9 0.02
177 281 0.66
178 106 0.25
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (175 bp):
GAAGTAGATCGAAGAAGCAGATCTCATCTTCCCATATTGGTGCGAAGTAGATCGAAGAAAGCAGA
TCCTGTCTTCCTATATTGGGTGAAATAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
GAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGC
Found at i:44529230 original size:28 final size:30
Alignment explanation
Indices: 44529166--44529224 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44529156 TATATGCATA
44529166 TATATTTCTATTTTTTAATAAATATTTTTC
1 TATATTTCTATTTTTTAATAAATATTTTTC
* *
44529196 TATATTTGT-TTTTTTAAATGAATATTTTT
1 TATATTTCTATTTTTT-AATAAATATTTTT
44529225 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTCTATTTTTTAATAAATATTTTTC
Found at i:44529231 original size:20 final size:20
Alignment explanation
Indices: 44529208--44529246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44529198 TATTTGTTTT
* *
44529208 TTTAAATGAATATTTTTATA
1 TTTAAACGAATATATTTATA
*
44529228 TTTATACGAATATATTTAT
1 TTTAAACGAATATATTTAT
44529247 GTTTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTAAACGAATATATTTATA
Found at i:44529596 original size:27 final size:27
Alignment explanation
Indices: 44529548--44529600 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
44529538 CATGTCATCG
* * *
44529548 TTTATTTTTTTTATGTATATTAGTTTCA
1 TTTATTTTATTTATATACATTA-TTTCA
44529576 TTTA-TTTATTTATATACATTATTTC
1 TTTATTTTATTTATATACATTATTTC
44529601 TATGACATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATATACATTATTTCA
Found at i:44529627 original size:15 final size:15
Alignment explanation
Indices: 44529607--44529641 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44529597 TTTCTATGAC
44529607 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
44529622 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
44529637 ATTGT
1 ATTGT
44529642 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:44532705 original size:40 final size:40
Alignment explanation
Indices: 44532649--44533087 Score: 378
Period size: 40 Copynumber: 10.7 Consensus size: 40
44532639 CTTTAACCTA
* *
44532649 CTCCACTACTGTTTAGGGAGATAAGACTTGAGGGGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
44532689 CTCCACTACTACTTAGGGAGATAAGACTTGAGGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
44532729 CTCCACTACTGCTTAAGGAGATAAGA-TATGTGGTTTTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT-TGAGG---TGATCTG
44532771 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
44532811 CTCCACTACTGCTTAGGGGGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GTGATCTG
** * *
44532853 CTCCACTACTTATTAGGGAGATAAGACTTGAGGCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
*
44532893 CTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GTGATCTG
* * * *
44532935 CTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTAATCCG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGG---TGATCTG
* *
44532978 CTCCACTGTAACT--TTAGGGAGATAGGA-TTG-GTTTTTTTCG-TCTG
1 CTCCAC--T-ACTGCTTAGGGAGATAAGACTTGAG-----GT-GATCTG
* * *
44533022 CTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
*
44533062 CTCCACTATTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
44533088 TCTGTGGTTT
Statistics
Matches: 327, Mismatches: 37, Indels: 70
0.75 0.09 0.16
Matches are distributed among these distances:
39 5 0.02
40 153 0.47
41 14 0.04
42 96 0.29
43 29 0.09
44 26 0.08
45 1 0.00
46 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
Found at i:44532788 original size:82 final size:82
Alignment explanation
Indices: 44532685--44533098 Score: 546
Period size: 82 Copynumber: 5.0 Consensus size: 82
44532675 CTTGAGGGGA
* *
44532685 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
44532750 TAAGATATGTGGTTTTG
66 TAAGATCTGTGGTTTTG
* *
44532767 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
44532832 TAAGATCTGTGGTTCTG
66 TAAGATCTGTGGTTTTG
** *
44532849 TCTGCTCCACTACTTATTAGGGAGATAAGACTTGAGGCGATCTACTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
44532914 TAAGATCTGTGGTTCTG
66 TAAGATCTGTGGTTTTG
* * ** *
44532931 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGTAACT--TTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGG---CGATCTGCTCCAC--T-ACTGCTTA
* **
44532994 GGGAGATAGGAT-TGGTTTTTTTCG
60 GGGAGATAAGATCT-GTGGTTTT-G
* * *
44533018 TCTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
44533083 TAAGATCTGTGGTTTT
66 TAAGATCTGTGGTTTT
44533099 AATCCGCTCC
Statistics
Matches: 287, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
81 2 0.01
82 187 0.65
83 20 0.07
84 11 0.04
85 10 0.03
86 19 0.07
87 35 0.12
88 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (82 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTG
Found at i:44533170 original size:127 final size:127
Alignment explanation
Indices: 44532665--44533174 Score: 392
Period size: 127 Copynumber: 4.1 Consensus size: 127
44532655 TACTGTTTAG
* * * ***
44532665 GGAGATAAGACTTGAGGGGATCTGCTCCACTACTACTTAGGGAGATAAGA-CT-TGAG--GCGAT
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTTTAAT
* * ** * * ** ** *
44532726 CTGCTCCACTACTGCTTAAG-GAGATAAGATAT-GTGGTTTT-GTCTGCTCCACTACTGCTTAG
65 CCGCTCCACTGCAACTTCAGAGAGATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACAACTTAC
* * * * *
44532787 GGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGGGATAAGATCTGTGGTTCT-GTC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
* * * * * * * **
44532851 TGCTCCACTACTTA-TT-AGGGAGATAAGACTTGAG------GCGATCTACTCCACTACTGCTTA
66 CGCTCCACTGC-AACTTCAGAGAGATAGGA-TTG-GTTTTTTTCG-TCTGCTCCACTACAACTTA
*
44532908 G
127 C
* * *
44532909 GGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTA
1 GGAGATAAGA-CT-TGATGC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTA
* * * **
44532973 ATCCGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAC
63 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
*
44533038 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
* * *
44533103 CGCTCCACTGCAACTTCAGAGAGATAGGA-TGGTTTTTTTTGTCTGCTCTACTGCAACTT-C
66 CGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
44533163 AGAGAGATAAGA
1 -G-GAGATAAGA
44533175 TCTGTTTTCT
Statistics
Matches: 325, Mismatches: 37, Indels: 47
0.79 0.09 0.11
Matches are distributed among these distances:
121 1 0.00
122 76 0.23
123 7 0.02
124 69 0.21
125 19 0.06
126 39 0.12
127 82 0.25
128 2 0.01
129 28 0.09
130 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (127 bp):
GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
CGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
Found at i:44533240 original size:44 final size:44
Alignment explanation
Indices: 44533173--44533444 Score: 233
Period size: 44 Copynumber: 6.2 Consensus size: 44
44533163 AGAGAGATAA
* * * * *
44533173 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAG
* * * **
44533218 GATCTGC-ATATTCGATCCACTTCCTAGAAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * * * *
44533261 GACCTACTATCTTCGATCTACTTCACGCCAATACATGAAAACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * *
44533305 GATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAG
* * *
44533350 GATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * * *
44533393 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
44533437 GATCTGCT
1 GATCTGCT
44533445 TTAATGACTT
Statistics
Matches: 174, Mismatches: 50, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
43 40 0.23
44 111 0.64
45 23 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
Found at i:44533341 original size:132 final size:132
Alignment explanation
Indices: 44533171--44533446 Score: 462
Period size: 132 Copynumber: 2.1 Consensus size: 132
44533161 TCAGAGAGAT
**
44533171 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
1 AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
*
44533236 ACTTCCTAGAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
66 ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
44533301 AC
131 AC
* * *
44533303 AGGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCC
1 AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
* * *
44533368 ACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
66 ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
44533433 AC
131 AC
*
44533435 AAGATCTGCTTT
1 AAGATCTACTTT
44533447 AATGACTTCA
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
AC
Found at i:44533824 original size:24 final size:25
Alignment explanation
Indices: 44533772--44533825 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
44533762 ATTGCCCCCA
44533772 CTGTAATCTTCAAAGTTCAATCCGT
1 CTGTAATCTTCAAAGTTCAATCCGT
*
44533797 -TGTAATCTTCAAGGTT-AAGTCC-T
1 CTGTAATCTTCAAAGTTCAA-TCCGT
44533820 CTGTAA
1 CTGTAA
44533826 ATTTGGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (25 bp):
CTGTAATCTTCAAAGTTCAATCCGT
Found at i:44534691 original size:12 final size:13
Alignment explanation
Indices: 44534670--44534698 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44534660 CGCCTCTCCA
44534670 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
44534683 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
44534695 TTTT
1 TTTT
44534699 TTCGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:44534700 original size:14 final size:13
Alignment explanation
Indices: 44534670--44534714 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
44534660 CGCCTCTCCA
*
44534670 TTTTCTTTTTCTT
1 TTTTCTTTTTTTT
44534683 TTTTCTTTTCTTTT
1 TTTTCTTTT-TTTT
* *
44534697 TTTTCGTTTGTTT
1 TTTTCTTTTTTTT
44534710 TTTTC
1 TTTTC
44534715 AAGTGAAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:44535161 original size:9 final size:9
Alignment explanation
Indices: 44535147--44535208 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
44535137 CCAGTAGAGG
44535147 TTTTTTGTT
1 TTTTTTGTT
*
44535156 TTTTTTGTC
1 TTTTTTGTT
*
44535165 TCTTTTGTT
1 TTTTTTGTT
*
44535174 CTTTTTTTTT
1 -TTTTTTGTT
*
44535184 TGTTTTTGTG
1 T-TTTTTGTT
*
44535194 TTTTTGGTT
1 TTTTTTGTT
44535203 TTTTTT
1 TTTTTT
44535209 TGCCTCCACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:44535189 original size:29 final size:26
Alignment explanation
Indices: 44535147--44535209 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
44535137 CCAGTAGAGG
* *
44535147 TTTTTTGTTTTTTTTGTCTCTTTTGTT
1 TTTTTTTTTTTTTTTGTCT-TTTTGGT
*
44535174 CTTTTTTTTTTGTTTTTGTGTTTTTGGT
1 -TTTTTTTTTT-TTTTTGTCTTTTTGGT
44535202 TTTTTTTT
1 TTTTTTTT
44535210 GCCTCCACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.26
28 15 0.48
29 8 0.26
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTTTTTTTGTCTTTTTGGT
Found at i:44543401 original size:12 final size:12
Alignment explanation
Indices: 44543386--44543426 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
44543376 AATAAAATAC
44543386 TTAATAATAAAA
1 TTAATAATAAAA
44543398 TTAA-ATATAATAA
1 TTAATA-ATAA-AA
44543411 TTAATAATAAAA
1 TTAATAATAAAA
44543423 TTAA
1 TTAA
44543427 ATATGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 14 0.54
13 10 0.38
14 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:44543430 original size:25 final size:25
Alignment explanation
Indices: 44543371--44543430 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
44543361 ATAATTCTGC
* *
44543371 AATTAAATAAAATACTTAATAATAA
1 AATTAAATATAATAATTAATAATAA
44543396 AATTAAATATAATAATTAATAATAA
1 AATTAAATATAATAATTAATAATAA
44543421 AATTAAATAT
1 AATTAAATAT
44543431 GTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAATATAATAATTAATAATAA
Found at i:44546714 original size:37 final size:36
Alignment explanation
Indices: 44546668--44546743 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
44546658 ATTCTAAAAA
44546668 TAATATTATTTCAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTCAATAGTATTAA-ATT-AATTTAATAT
* *
44546704 TAATACTTATTTTAATAGTATTTAATTAATTTAATAT
1 TAATA-TTATTTCAATAGTATTAAATTAATTTAATAT
44546741 TAA
1 TAA
44546744 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 19 0.54
38 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATTTCAATAGTATTAAATTAATTTAATAT
Found at i:44546751 original size:20 final size:18
Alignment explanation
Indices: 44546669--44546775 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 18
44546659 TTCTAAAAAT
*
44546669 AATATT-ATTTCAATAGTTT
1 AATATTAATTT-AATA-TTA
44546688 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
44546705 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
44546724 TTTAATTAATTTAATATTA
1 AAT-ATTAATTTAATATTA
44546743 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
44546763 AAT-TTAATTTAAT
1 AATATTAATTTAAT
44546776 GTTTATCTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
17 18 0.26
18 7 0.10
19 22 0.31
20 19 0.27
21 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:44550868 original size:23 final size:22
Alignment explanation
Indices: 44550797--44550905 Score: 143
Period size: 23 Copynumber: 5.0 Consensus size: 22
44550787 CCTGATCAGT
44550797 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
** * *
44550818 A-ACGACACACGAGGTGCCT-C
1 ATACGACACATAAAGTGCCTGA
44550838 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
44550860 GATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
44550883 AGTACGACACATAAAGTGCCTGA
1 A-TACGACACATAAAGTGCCTGA
44550906 TTGGCAAAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
20 9 0.12
21 23 0.30
22 1 0.01
23 43 0.57
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:44553129 original size:16 final size:15
Alignment explanation
Indices: 44553081--44553132 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
44553071 CTATTAGAAT
*
44553081 TTTTCCTTCCTTTCTC
1 TTTTCTTTCCTTT-TC
*
44553097 TATTTCTTCCCTCTTTC
1 T-TTTCTTTCCT-TTTC
44553114 TTTTCTTTTCCTTTTC
1 TTTTC-TTTCCTTTTC
44553130 TTT
1 TTT
44553133 GTATCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCCTTTTC
Found at i:44554084 original size:34 final size:34
Alignment explanation
Indices: 44554026--44554121 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 34
44554016 AATACATGAT
*
44554026 AAGCATGTAT-TTTCTACCGTATTGATTTACTAA
1 AAGCATGTATATTGCTACCGTATTGATTTACTAA
* * * ** *
44554059 AAGCATGTCTATTGCTATCGTATTGATCTGTTAT
1 AAGCATGTATATTGCTACCGTATTGATTTACTAA
* * *
44554093 AAGCATATTTATTGCTACCATATTGATTT
1 AAGCATGTATATTGCTACCGTATTGATTT
44554122 GTTATAAACA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 9 0.18
34 41 0.82
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (34 bp):
AAGCATGTATATTGCTACCGTATTGATTTACTAA
Found at i:44554125 original size:34 final size:34
Alignment explanation
Indices: 44554039--44554142 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
44554029 CATGTATTTT
** * *
44554039 CTACCGTATTGATTTACTAAAAGCATGTCTATTG
1 CTACCGTATTGATTTGTTATAAGCATATCTATTG
* * *
44554073 CTATCGTATTGATCTGTTATAAGCATATTTATTG
1 CTACCGTATTGATTTGTTATAAGCATATCTATTG
* * *
44554107 CTACCATATTGATTTGTTATAAACATGTCATATTG
1 CTACCGTATTGATTTGTTATAAGCATATC-TATTG
44554142 C
1 C
44554143 ATTGCATAGG
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
34 50 0.89
35 6 0.11
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (34 bp):
CTACCGTATTGATTTGTTATAAGCATATCTATTG
Found at i:44554218 original size:21 final size:21
Alignment explanation
Indices: 44554194--44554262 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
44554184 AACTTATCTG
44554194 CACCGATTAGTGGTTTATCCA
1 CACCGATTAGTGGTTTATCCA
* * * *
44554215 CACCGTACTAGCAGCTTTTATCTA
1 CACCG-ATTAG-TG-GTTTATCCA
*
44554239 CATCGATTAGTGGTTTATCCA
1 CACCGATTAGTGGTTTATCCA
44554260 CAC
1 CAC
44554263 TGTACTAACA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 5 0.14
24 11 0.31
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (21 bp):
CACCGATTAGTGGTTTATCCA
Found at i:44554251 original size:45 final size:45
Alignment explanation
Indices: 44554187--44554327 Score: 151
Period size: 45 Copynumber: 3.1 Consensus size: 45
44554177 TATAAGCAAC
* * *
44554187 TTATCTGCACCGATTAGTGGTTTATCCACACCGTACTAGCAGCTT
1 TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
* *
44554232 TTATCTACATCGATTAGTGGTTTATCCACACTGTACTAACAACTT
1 TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
* * * * * *
44554277 TAATTTGTAC-T-AATGAGTGGTTTATCCATACCATACTAGCAACTT
1 T--TATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
44554322 TTATCT
1 TTATCT
44554328 GTACTAATGA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.04
45 70 0.89
46 1 0.01
47 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (45 bp):
TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
Found at i:44554331 original size:45 final size:45
Alignment explanation
Indices: 44554202--44554360 Score: 178
Period size: 45 Copynumber: 3.5 Consensus size: 45
44554192 TGCACCGATT
* * * *
44554202 AGTGGTTTATCCACACCGTACTAGCAGCTTTTATC--TACATCGATT
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTAC-T-AATG
** * * *
44554247 AGTGGTTTATCCACACTGTACTAACAACTTTAATTTGTACTAATG
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
*
44554292 AGTGGTTTATCCATACCATACTAGCAACTTTTATCTGTACTAATG
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
* *
44554337 AGTGGTTTATTCACACTATACTAG
1 AGTGGTTTATCCACACCATACTAG
44554361 TAGTTTATCT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
45 92 0.96
46 1 0.01
47 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (45 bp):
AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
Found at i:44554948 original size:24 final size:24
Alignment explanation
Indices: 44554921--44554966 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44554911 ATTAGTAAGT
44554921 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
44554945 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
44554967 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:44556898 original size:24 final size:24
Alignment explanation
Indices: 44556871--44556916 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44556861 ATTAGTAAGT
44556871 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
44556895 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
44556917 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:44558202 original size:19 final size:18
Alignment explanation
Indices: 44558180--44558222 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
44558170 ATATTTAAAT
*
44558180 TTATTATATTTATTATTTA
1 TTATTATATTTAAT-TTTA
44558199 TTATTATATTTAATTTTA
1 TTATTATATTTAATTTTA
44558217 TTATTA
1 TTATTA
44558223 ATTAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTATATTTAATTTTA
Found at i:44558221 original size:25 final size:25
Alignment explanation
Indices: 44558188--44558241 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
44558178 ATTTATTATA
* ** *
44558188 TTTATTATTTATTATTATATTTAAT
1 TTTATTATTAATTAAAACATTTAAT
44558213 TTTATTATTAATTAAAACATTTAAT
1 TTTATTATTAATTAAAACATTTAAT
44558238 TTTA
1 TTTA
44558242 AAAAAGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTATTATTAATTAAAACATTTAAT
Found at i:44559851 original size:21 final size:22
Alignment explanation
Indices: 44559827--44559867 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44559817 CGGGTTTGGG
*
44559827 GTTTAATGATTTA-GGTTTAAA
1 GTTTAAGGATTTAGGGTTTAAA
*
44559848 GTTTAAGGGTTTAGGGTTTA
1 GTTTAAGGATTTAGGGTTTA
44559868 GGATTACGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (22 bp):
GTTTAAGGATTTAGGGTTTAAA
Found at i:44564703 original size:114 final size:114
Alignment explanation
Indices: 44564532--44565088 Score: 604
Period size: 114 Copynumber: 4.9 Consensus size: 114
44564522 GCGTTTTTCA
* * * * * **
44564532 GAAAGCGCCGC-AAAATACATAGGCCTAACGACGCCGTTTTCCGAGCTTTCGGGGGATTTAGCGG
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTC-GGGGATTTAGCGG
* * * *
44564596 CGCTTTTAAGAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCGTTTTTAC
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* * *
44564646 GAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTTTTGAGCTTTCGAGGATTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
44564711 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC-ATTTT-C
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* * * ** * *
44564758 GGTAAAGCGCAACAAAAGAACCTAAGCCCAACGATGCCGTTTACTGAGC-TTCGAGGCTTTAGCG
1 -G-AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCG
* * * * * * * *
44564822 GCTTTTTTAAGTAAGCGCCGGTAATGCTCCGGGCTTTAGCAGTGATTCTGG
64 GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* * *
44564873 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTATTGAGCTTTCGGGGCTTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
* * * * * *
44564938 ATTTTTAAGTAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGT
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* *** * *
44564987 GAAAGGCGCCGCAAAGGGACCTAAGCCCAACGACGCCGTTTTCTT-AGCTTTTGGGGATTTAGTG
1 GAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTT-TTGAGCTTTCGGGGATTTAGCG
* *
44565051 GCGTTTTT-GGTAAAGCGCCGCTAATGCTCAGGGATTTA
64 GCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCTTTA
44565089 AAATAATTTA
Statistics
Matches: 376, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
112 1 0.00
113 97 0.26
114 165 0.44
115 111 0.30
116 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
Found at i:44564889 original size:227 final size:228
Alignment explanation
Indices: 44564558--44565088 Score: 609
Period size: 227 Copynumber: 2.3 Consensus size: 228
44564548 ACATAGGCCT
* * * *
44564558 AACGACGCCGTTTTCCGAGCTTTCGGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCT
1 AACGACGCCGTTTACTGAGC-TTC-GAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCT
* * * *
44564623 CAGGGCTTTAGCGGCGTTTTTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTTT
64 CAGGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTAT
*
44564688 TGAGCTTTCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCA
129 TGAGCTTTCGAGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCA
44564753 TTTTCGGT-AAA-GCGCAACAAAAGAACCTAAGCCC
194 TTTT-GGTGAAAGGCGCAACAAAAGAACCTAAGCCC
* ** * ** *
44564787 AACGATGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCTTTTTTAAGTAAGCGCCGGTAATGCTCC
1 AACGACGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTCA
* ** * * *
44564852 GGGCTTTAGCAGTGATTCTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTATTG
66 GGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTATTG
* * * * * *
44564917 AGCTTTCGGGGCTTTAGCGGCATTTTTAAGTAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTT
131 AGCTTTCGAGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
* ** * *
44564982 TTTGTGAAAGGCGCCGCAAAGGGACCTAAGCCC
196 TTGGTGAAAGGCGCAACAAAAGAACCTAAGCCC
* * * * * * ** *
44565015 AACGACGCCGTTTTCTTAGCTTTTGGGGATTTAGTGGCG-TTTTTGGTAAAGCGCCGCTAATGCT
1 AACGACGCCGTTTACTGAGC-TTCGAGGCTTTAGCGGCGCTTTTAAG-AAAGCGCCACTAATGCT
*
44565079 CAGGGATTTA
64 CAGGGCTTTA
44565089 AAATAATTTA
Statistics
Matches: 251, Mismatches: 47, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
226 2 0.01
227 152 0.61
228 44 0.18
229 53 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (228 bp):
AACGACGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTCA
GGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTATTG
AGCTTTCGAGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
TTGGTGAAAGGCGCAACAAAAGAACCTAAGCCC
Found at i:44565618 original size:15 final size:14
Alignment explanation
Indices: 44565598--44565641 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
44565588 AAGTTTTATA
44565598 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
44565613 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
44565627 GATTCTGGTTTAAG
1 GATTATGGATTAAG
44565641 G
1 G
44565642 GTTAAGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:44565824 original size:14 final size:14
Alignment explanation
Indices: 44565800--44565834 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
44565790 TATTAAATAA
*
44565800 GGTTCAGGGGTTATG
1 GGTT-AGGGGTTAAG
44565815 GGTTAGGGGTTAAG
1 GGTTAGGGGTTAAG
44565829 GGTTAG
1 GGTTAG
44565835 AGATTTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.17, C:0.03, G:0.49, T:0.31
Consensus pattern (14 bp):
GGTTAGGGGTTAAG
Found at i:44565918 original size:7 final size:7
Alignment explanation
Indices: 44565906--44565964 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
44565896 TAAATAAAGT
44565906 TTAGGGG
1 TTAGGGG
44565913 TTAGGGG
1 TTAGGGG
44565920 TTAGGGG
1 TTAGGGG
* *
44565927 TTAAGGA
1 TTAGGGG
*
44565934 TTTGGGG
1 TTAGGGG
*
44565941 TTA-GGT
1 TTAGGGG
*
44565947 TTAGGGT
1 TTAGGGG
*
44565954 TTAGGGT
1 TTAGGGG
44565961 TTAG
1 TTAG
44565965 ATTAATTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 5 0.11
7 39 0.89
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:44565925 original size:14 final size:14
Alignment explanation
Indices: 44565904--44565964 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
44565894 ATTAAATAAA
44565904 GTTTAGGGGTTAGG
1 GTTTAGGGGTTAGG
*
44565918 GGTTAGGGGTTAAGG
1 GTTTAGGGGTT-AGG
*
44565933 ATTT-GGGGTTA-G
1 GTTTAGGGGTTAGG
*
44565945 GTTTAGGGTTTAGG
1 GTTTAGGGGTTAGG
44565959 GTTTAG
1 GTTTAG
44565965 ATTAATTAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 4 0.10
13 7 0.18
14 23 0.59
15 5 0.13
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (14 bp):
GTTTAGGGGTTAGG
Found at i:44565995 original size:97 final size:96
Alignment explanation
Indices: 44565748--44566095 Score: 457
Period size: 97 Copynumber: 3.5 Consensus size: 96
44565738 TGATGTCAGG
* * *
44565748 TTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TTATATATTAAATAAGGTTCAGGGGTT
1 TTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAAGTTTAGGGGTT
* * * *
44565812 ATGGGTTAGGGGTTAAGGGTTAGAGATTTAGGATT
65 AGGGGTTAGGGGTTAAGGATTTG-GAGTTAGG--T
*
44565847 GGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGG
1 ---TTAGGGTTTAGGGTTTAGATTAATTAGTG-TTTTTAATTTATATATTAAATAAAGTTTAGGG
*
44565912 GTTAGGGGTTAGGGGTTAAGGATTTGGGGTTAGGT
62 GTTAGGGGTTAGGGGTTAAGGATTTGGAGTTAGGT
*
44565947 TTAGGGTTTAGGGTTTAGATTAATTAGTGTTTGTTAATTTATATATTAAATAAAATTTAGGGGTT
1 TTAGGGTTTAGGGTTTAGATTAATTAGTGTTT-TTAATTTATATATTAAATAAAGTTTAGGGGTT
* *
44566012 AGGGGTTAGGGGTTAAGGATTTGGAG-TCGGG
65 AGGGGTTAGGGGTTAAGGATTTGGAGTTAGGT
* * *
44566043 TTAGGGTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 TTAGGGTTTAGGGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAATAA
44566096 GGTCTTTATA
Statistics
Matches: 225, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
96 52 0.23
97 87 0.39
100 1 0.00
102 39 0.17
103 46 0.20
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.43
Consensus pattern (96 bp):
TTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTA
GGGGTTAGGGGTTAAGGATTTGGAGTTAGGT
Found at i:44566404 original size:84 final size:84
Alignment explanation
Indices: 44566283--44566449 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
44566273 TTTTCCAAAG
* * * * *
44566283 CGGCTCCGTTTCTTTACTGGAATAAAATCATTTAGTGGCGTTTTGTAGGAAAATGCCGCAAAAGT
1 CGGCACCGTTTCTCTACTCGAATAAAATCATTTAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
44566348 GAATTAATGTTGGCCAATA
66 GAATTAATGTTGGCCAATA
* * * *
44566367 CGGCACCGTTTCTCTACTCGAATGAAATC-TTATAGTGGCGTTTTTTAAGAAAACGCTGCAAGAG
1 CGGCACCGTTTCTCTACTCGAATAAAATCATT-TAGTGGCGTTTTGTAAGAAAACGCCGCAAAAG
*
44566431 TGAATTAATGTTTGCCAAT
65 TGAATTAATGTTGGCCAAT
44566450 GTGACACCGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 2 0.03
84 70 0.97
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (84 bp):
CGGCACCGTTTCTCTACTCGAATAAAATCATTTAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
GAATTAATGTTGGCCAATA
Found at i:44566849 original size:84 final size:84
Alignment explanation
Indices: 44566761--44566972 Score: 259
Period size: 84 Copynumber: 2.5 Consensus size: 84
44566751 TTTATCTTGA
* * * * * *
44566761 GGAATGAAATATTTTTGTAGCGTTTTTGATAAAAACGCCGCAAGGA-TGTACTAAAATTTGCCAA
1 GGAATGAAATCTTATAGTGGCGTTTTTTA-AAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAA
44566825 -AGCGGCGCCGTTTCTCTACT
65 TA-CGGCGCCGTTTCTCTACT
* * * **
44566845 GGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAA-GAGTGAATTAATGTTTGCCAA
1 GGAATGAAATCTTATAGTGGCGTTTTTTA-AAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAA
*
44566909 TACGGCGCTGTTTCTCTACT
65 TACGGCGCCGTTTCTCTACT
44566929 GGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG
1 GGAATGAAATCTTATAGTGGCGTTTTTTAA-AAAACGCCGCAAG
44566973 TGTTAATTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
83 2 0.02
84 106 0.97
85 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (84 bp):
GGAATGAAATCTTATAGTGGCGTTTTTTAAAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAAT
ACGGCGCCGTTTCTCTACT
Found at i:44566981 original size:84 final size:84
Alignment explanation
Indices: 44566817--44567006 Score: 292
Period size: 84 Copynumber: 2.3 Consensus size: 84
44566807 TGTACTAAAA
*
44566817 TTTGCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAAC
1 TTTGCCAATA-CGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAAC
44566881 GCCGCAAGAGTGAATTAATG
65 GCCGCAAGAGTGAATTAATG
* *
44566901 TTTGCCAATACGGCGCTGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
1 TTTGCCAATACGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACG
* *
44566966 CCGCAAGTGTTAATTAATG
66 CCGCAAGAGTGAATTAATG
* * *
44566985 TTTGTCAATGCGGCACCGTTTC
1 TTTGCCAATACGGCGCCGTTTC
44567007 GCTTCATGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 95 0.99
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
TTTGCCAATACGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACG
CCGCAAGAGTGAATTAATG
Found at i:44567046 original size:84 final size:84
Alignment explanation
Indices: 44566817--44567038 Score: 252
Period size: 84 Copynumber: 2.7 Consensus size: 84
44566807 TGTACTAAAA
* * * * * *
44566817 TTTGCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAAC
1 TTTGCCAATA-CGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAAC
44566881 GCCGCAAGAGTGAATTAATG
65 GCCGCAAGAGTGAATTAATG
* * * * *
44566901 TTTGCCAATACGGCGCTGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
1 TTTGCCAATACGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACG
* *
44566966 CCGCAAGTGTTAATTAATG
66 CCGCAAGAGTGAATTAATG
* * * *
44566985 TTTGTCAATGCGGCACCGTTTCGCTTCATGAAATG-AAT-TTATACTGGTGTTTTT
1 TTTGCCAATACGGCACCGTTTCGCTAC-TGAAATGAAATCTTATACTGGCGTTTTT
44567039 GCTAGAAACG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
83 14 0.11
84 101 0.83
85 7 0.06
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (84 bp):
TTTGCCAATACGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACG
CCGCAAGAGTGAATTAATG
Found at i:44567423 original size:82 final size:83
Alignment explanation
Indices: 44567337--44567510 Score: 228
Period size: 84 Copynumber: 2.1 Consensus size: 83
44567327 GATTTTGATA
* *
44567337 AAAACGCCGCAAG-GATGTATTAAAATTTGCCAA-AGCGGC-CGTTTCTCTACTAGAATAAAATC
1 AAAACGCAGCAAGAG-TGAATTAAAATTTGCCAATA-CGGCGCGTTTCTCTACTAGAATAAAATC
*
44567399 TTATAGTGGCATTTTTTAGG
64 TTATAGTGGCATTTTTTAAG
** * *
44567419 AAAACGCAGCAAGAGTGAATTAATGTTTGCCAATACGGCGTCGTTTCTCTACTGGAATGAAATCT
1 AAAACGCAGCAAGAGTGAATTAAAATTTGCCAATACGGCG-CGTTTCTCTACTAGAATAAAATCT
*
44567484 TATAGTGGCGTTTTTTAAG
65 TATAGTGGCATTTTTTAAG
44567503 AAAACGCA
1 AAAACGCA
44567511 AATGCCACAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 31 0.39
83 2 0.03
84 47 0.59
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (83 bp):
AAAACGCAGCAAGAGTGAATTAAAATTTGCCAATACGGCGCGTTTCTCTACTAGAATAAAATCTT
ATAGTGGCATTTTTTAAG
Found at i:44567595 original size:90 final size:90
Alignment explanation
Indices: 44567375--44567587 Score: 219
Period size: 84 Copynumber: 2.4 Consensus size: 90
44567365 GCCAAAGCGG
* * * * *
44567375 CCGTTTCTCTACT-AGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGC--A-G---CAAGA
1 CCGTTTCGCTACTGA-AATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGA
*
44567433 GTGAATTAATGTTTGCCAATACGGCG
65 GTGAATTAATGTTTGCCAATACGGCA
* * * * *
44567459 TCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGTG
1 CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGAG
* *
44567524 TGAATTAATGTTTGTCAATGCGGCA
66 TGAATTAATGTTTGCCAATACGGCA
*
44567549 CCGTTTCGCTTCATGAAATG-AAT-TTATACTGGCGTTTTT
1 CCGTTTCGCTAC-TGAAATGAAATCTTATACTGGCGTTTTT
44567588 GCTAGAAATG
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
84 45 0.42
86 1 0.01
87 1 0.01
89 15 0.14
90 39 0.36
91 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (90 bp):
CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGAG
TGAATTAATGTTTGCCAATACGGCA
Found at i:44569266 original size:18 final size:18
Alignment explanation
Indices: 44569243--44569320 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
44569233 TGGATAACTA
* *
44569243 AAATATGTTACATTACAT
1 AAATATATTACATTACTT
*
44569261 AAATATATTAC-TTACTA
1 AAATATATTACATTACTT
44569278 AAATTTATAATTTACATTACTT
1 AAA--TAT-A-TTACATTACTT
44569300 AAATATATTACATTACTT
1 AAATATATTACATTACTT
44569318 AAA
1 AAA
44569321 ATTTATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
17 7 0.14
18 24 0.47
19 4 0.08
20 4 0.08
21 4 0.08
22 8 0.16
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.42
Consensus pattern (18 bp):
AAATATATTACATTACTT
Found at i:44569296 original size:39 final size:41
Alignment explanation
Indices: 44569250--44569327 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
44569240 CTAAAATATG
44569250 TTACATTACATAAATATATTAC-TTAC-TAAAATTTATAAT
1 TTACATTACATAAATATATTACATTACTTAAAATTTATAAT
*
44569289 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TTACATTACATAAATATATTACATTACTTAAAATTTATA
44569328 TATATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 21 0.58
40 4 0.11
41 11 0.31
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (41 bp):
TTACATTACATAAATATATTACATTACTTAAAATTTATAAT
Found at i:44569328 original size:21 final size:21
Alignment explanation
Indices: 44569264--44569345 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
44569254 ATTACATAAA
44569264 TATATTAC-TTAC-TAAAATT
1 TATATTACATTACTTAAAATT
44569283 TATAATTTACATTACTT-AAA--
1 TAT-A-TTACATTACTTAAAATT
44569303 TATATTACATTACTTAAAATT
1 TATATTACATTACTTAAAATT
* *
44569324 TATA-TATATATATTTAAAATT
1 TATATTACAT-TACTTAAAATT
44569345 T
1 T
44569346 TTATATATGG
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
18 11 0.21
19 7 0.13
20 8 0.15
21 19 0.36
22 7 0.13
23 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTACATTACTTAAAATT
Done.