Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 23 of 25
Found at i:3619746 original size:16 final size:16
Alignment explanation
Indices: 3619711--3619746 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3619701 TGAAGCTAAG
*
3619711 TTTTTTTAATTTAAAA
1 TTTTTTTAATTCAAAA
*
3619727 TTTTTTTAATTCAAAC
1 TTTTTTTAATTCAAAA
3619743 TTTT
1 TTTT
3619747 GACTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTTTAATTCAAAA
Found at i:3629341 original size:88 final size:89
Alignment explanation
Indices: 3629217--3629449 Score: 319
Period size: 88 Copynumber: 2.7 Consensus size: 89
3629207 GTGATAAGTA
* * * *
3629217 CATGAGTTATCAGATTTC-TTCTGACATGATAGAAAATATTTGACTAATACATATTAAATTCCTT
1 CATGAGGTATCAAATTTCTTTCTGACATGACAGAAAATATTTGACTAATACATAATAAATTCCTT
* * * * * *
3629281 GGAGCCTGAAAGTTGTAATAGATG
66 GCAACCTGAAAGATATAACAAATG
* * * *
3629305 CATGGGGTATCAAA-TTCTTTCTGACACGACAAAAAATATTTGACTAATACATAATAAATTTCTT
1 CATGAGGTATCAAATTTCTTTCTGACATGACAGAAAATATTTGACTAATACATAATAAATTCCTT
3629369 GCAACCTGAAAGATATAACAAATG
66 GCAACCTGAAAGATATAACAAATG
3629393 CATGAGGTATCAAATTTCTTT-TGACATGACAGAAAATATTTGACTAATACATAATAA
1 CATGAGGTATCAAATTTCTTTCTGACATGACAGAAAATATTTGACTAATACATAATAA
3629450 GTTTATTGAA
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
87 3 0.02
88 117 0.93
89 6 0.05
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (89 bp):
CATGAGGTATCAAATTTCTTTCTGACATGACAGAAAATATTTGACTAATACATAATAAATTCCTT
GCAACCTGAAAGATATAACAAATG
Found at i:3629693 original size:88 final size:88
Alignment explanation
Indices: 3629477--3630296 Score: 586
Period size: 88 Copynumber: 9.4 Consensus size: 88
3629467 CACGGCTATT
* * * * * *
3629477 AGATTCTTTTTGACACGACAGAAAATATTTGACTAATGCGTAATAAATTTCTTGAAACTTGAAAG
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTCAAAG
*
3629542 ATGTGACAAATGCAT-A---ATC
66 ATGTGACAGATGCATAAGGTATC
* * *
3629561 AGATTCCTTTTGACACGATAAAAAATATTTGACTAATGTATAATAAATTTCTTGAAACCTCAAAG
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTCAAAG
3629626 ATGTGACAGATGCATAAGGTATC
66 ATGTGACAGATGCATAAGGTATC
* * * * *
3629649 AGATTCCTTCTAACACGATAGAAAATACTTGACTAATGCCTAATACATTTCTTGGAA-CTCGAAA
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTC-AAA
* * *
3629713 GATGTTACACATGCATAGGGTATC
65 GATGTGACAGATGCATAAGGTATC
* * * * * * * *
3629737 ATATTCTTTTTGAGACAACA-ACAAATATTTAACTAATGCATAATAAACTTCTT-AGAA-CTCGA
1 AGATTCCTTCTGACACGATAGA-AAATATTTGACTAATGCATAATAAATTTCTTGA-AACCTC-A
* *
3629799 AAGATGTGGCAGATGCATGAGGTATC
63 AAGATGTGACAGATGCATAAGGTATC
* * * * * *
3629825 AAATTCCTTCTGACACGATAAAAAATTTTTAACTAATGCATAATAAATTTCTT-AGAACTTAAAA
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGA-AACCTCAAA
*
3629889 GATGTG-CTAGATGCAT-GGGTATC
65 GATGTGAC-AGATGCATAAGGTATC
* * ** * * * * * *
3629912 GGAATCCTTCTGATGCGATAGAAAATACTTGACTAATGCCTAATAAATTTTTTGGAACTTGAAAG
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTCAAAG
* * * *
3629977 ATGTGATAAATGCATGAGGT-TT
66 ATGTGACAGATGCATAAGGTATC
* * * * *
3629999 AGATT--TTTTGACACAACT-GAAAATACTTGACTAATGCCTAATAAATTTCATGAAA-CTCGAA
1 AGATTCCTTCTGACACGA-TAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTC-AA
* * * **
3630060 AAATGTGACATAAGCATGGGGTATC
64 AGATGTGACAGATGCATAAGGTATC
* * * * * * * * *
3630085 AAAATT-TTTTTGGCATG--ACAAAATATTTGACTAATGCATAATAAATTTCTCGAAACTTAAAA
1 -AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTCAAA
* **
3630147 AATGTGGTAGATGCATAAGGTATC
65 GATGTGACAGATGCATAAGGTATC
* * ** * *
3630171 AGATTCCTTCTGATATGATAGAAAATACATGACGAATGTC-TAATAAATTTCTTGGAACC-CAAA
1 AGATTCCTTCTGACACGATAGAAAATATTTGACTAATG-CATAATAAATTTCTTGAAACCTC-AA
* * ** ** *
3630234 AAATATGACACTTGCATGGGGTACC
64 AGATGTGACAGATGCATAAGGTATC
* * * *
3630259 AAATTTCTTCCT-ACATGACAGAAAATATTTGACTAATG
1 AGATTCCTT-CTGACACGATAGAAAATATTTGACTAATG
3630297 ACATGACAAA
Statistics
Matches: 583, Mismatches: 127, Indels: 48
0.77 0.17 0.06
Matches are distributed among these distances:
84 73 0.13
85 65 0.11
86 62 0.11
87 83 0.14
88 295 0.51
89 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (88 bp):
AGATTCCTTCTGACACGATAGAAAATATTTGACTAATGCATAATAAATTTCTTGAAACCTCAAAG
ATGTGACAGATGCATAAGGTATC
Found at i:3629824 original size:176 final size:174
Alignment explanation
Indices: 3629477--3630228 Score: 692
Period size: 176 Copynumber: 4.3 Consensus size: 174
3629467 CACGGCTATT
* * * * * * *
3629477 AGATTCTTTTTGACACGACAGAAAATATTTGACTAATGCGTAATAAATTTCTTGAAACTTGAAAG
1 AGATTCCTTCTGACACGATAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAACTCGAAAG
* *
3629542 ATGTGACAAATGCATA----ATCAGATTCCTTTTGA-CACGATAAAAAATATTTGACTAATGTAT
66 ATGTGACAAATGCATAGGGTATCAGATTCCTTTTGAGCA--A-CAAAAATATTTGACTAATGCAT
3629602 AATAAATTTCTTGAAACCTC-AAAGATGTGACAGATGCATAAGGTATC
128 AATAAATTTCTTGAAA-CTCGAAAGATGTGACAGATGCATAAGGTATC
* *
3629649 AGATTCCTTCTAACACGATAGAAAATACTTGACTAATGCCTAATACATTTCTTGGAACTCGAAAG
1 AGATTCCTTCTGACACGATAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAACTCGAAAG
* * * * *
3629714 ATGTTACACATGCATAGGGTATCATATTCTTTTTGAGACAACAACAAATATTTAACTAATGCATA
66 ATGTGACAAATGCATAGGGTATCAGATTCCTTTTGAG-CAACAA-AAATATTTGACTAATGCATA
* * *
3629779 ATAAACTTCTT-AGAACTCGAAAGATGTGGCAGATGCATGAGGTATC
129 ATAAATTTCTTGA-AACTCGAAAGATGTGACAGATGCATAAGGTATC
* * ** * * * **
3629825 AAATTCCTTCTGACACGATAAAAAATTTTTAACTAATGCATAATAAATTTCTTAGAACTTAAAAG
1 AGATTCCTTCTGACACGATAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAACTCGAAAG
* * * * * * * *
3629890 ATGTG-CTAGATGCAT-GGGTATCGGAATCCTTCTGATGCGATAGAAAATACTTGACTAATGCCT
66 ATGTGAC-AAATGCATAGGGTATCAGATTCCTTTTGA-GCAACA-AAAATATTTGACTAATGCAT
* * * * * * *
3629953 AATAAATTTTTTGGAACTTGAAAGATGTGATAAATGCATGAGGT-TT
128 AATAAATTTCTTGAAACTCGAAAGATGTGACAGATGCATAAGGTATC
* * * *
3629999 AGATT--TTTTGACACAACT-GAAAATACTTGACTAATGCCTAATAAATTTCATGAAACTCGAAA
1 AGATTCCTTCTGACACGA-TAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAACTCGAAA
* * * *
3630061 AATGTGACATAA-GCATGGGGTATCAAAATT-TTTTTG-GCATGAC-AAAATATTTGACTAATGC
65 GATGTGACA-AATGCATAGGGTATC-AGATTCCTTTTGAGCA--ACAAAAATATTTGACTAATGC
* ** * **
3630122 ATAATAAATTTCTCGAAACTTAAAAAATGTGGTAGATGCATAAGGTATC
126 ATAATAAATTTCTTGAAACTCGAAAGATGTGACAGATGCATAAGGTATC
* * * * *
3630171 AGATTCCTTCTGATATGATAGAAAATACATGACGAATGTCTAATAAATTTCTTGGAAC
1 AGATTCCTTCTGACACGATAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAAC
3630229 CCAAAAAATA
Statistics
Matches: 464, Mismatches: 92, Indels: 46
0.77 0.15 0.08
Matches are distributed among these distances:
171 56 0.12
172 129 0.28
173 16 0.03
174 47 0.10
175 77 0.17
176 137 0.30
178 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (174 bp):
AGATTCCTTCTGACACGATAGAAAATACTTGACTAATGCCTAATAAATTTCTTGGAACTCGAAAG
ATGTGACAAATGCATAGGGTATCAGATTCCTTTTGAGCAACAAAAATATTTGACTAATGCATAAT
AAATTTCTTGAAACTCGAAAGATGTGACAGATGCATAAGGTATC
Found at i:3633059 original size:50 final size:50
Alignment explanation
Indices: 3632981--3633118 Score: 170
Period size: 50 Copynumber: 2.8 Consensus size: 50
3632971 TTTCATAATT
* * *
3632981 TGTATCGATACAGTCTTCATTGTATCGATACATTCTA-GGTTTTACCTAGA
1 TGTATCGATACATTCTCCATTGTATCGATACATTC-AGGGTTTTACCCAGA
* *
3633031 TGTATCGATACATTCTCCATTGTGTCGATCCATTCAGGGTTTTACCCAGA
1 TGTATCGATACATTCTCCATTGTATCGATACATTCAGGGTTTTACCCAGA
* * ** *
3633081 TATATCGATACATTTTTTAATGTATCGATACATTCAGG
1 TGTATCGATACATTCTCCATTGTATCGATACATTCAGG
3633119 CATTTTTGGC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (50 bp):
TGTATCGATACATTCTCCATTGTATCGATACATTCAGGGTTTTACCCAGA
Found at i:3635559 original size:78 final size:77
Alignment explanation
Indices: 3635457--3635743 Score: 267
Period size: 78 Copynumber: 3.7 Consensus size: 77
3635447 ATACTCCATC
* * *
3635457 ATCGAGGATATTCCAACC-CTGTTATTTTTGAGTGGGTACTCCAACCCCAGTTTTATTCTAAAAT
1 ATCGAGGATACTCCAACCTC-GTTATTTTTGAG-GGATACTCCAACCCCAGTTTTATTCTAAAAC
*
3635521 ACCAATTTTTCACA
64 ATCAATTTTTCACA
* * * * * ** * *
3635535 ATCGAAGATACTCCAACCTGGTTATTTTCGAAGAGATACTCTAACCTTTATTTTTTTTCTAAAAC
1 ATCGAGGATACTCCAACCTCGTTATTTTTG-AGGGATACTCCAACC-CCAGTTTTATTCTAAAAC
3635600 ATCAATTTTTCACA
64 ATCAATTTTTCACA
* * * * ** * *
3635614 ATCGAGGATACTCCAACCCCATTATTTTTTAGGAGATATTCCAACATCGGTTTTATTTTCAAAAC
1 ATCGAGGATACTCCAACCTCGTTATTTTTGAGG-GATACTCCAACCCCAGTTTTATTCT-AAAAC
*
3635679 ATCGA-TTTTCACA
64 ATCAATTTTTCACA
* *
3635692 ATCGGGGATACTCCAACCTCGTTATTTTTTAGGGGATA-TCCAACCCC-GTTTT
1 ATCGAGGATACTCCAACCTCGTTATTTTTGA-GGGATACTCCAACCCCAGTTTT
3635744 TATCTCCAAA
Statistics
Matches: 169, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
76 5 0.03
77 7 0.04
78 85 0.50
79 72 0.43
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (77 bp):
ATCGAGGATACTCCAACCTCGTTATTTTTGAGGGATACTCCAACCCCAGTTTTATTCTAAAACAT
CAATTTTTCACA
Found at i:3635617 original size:79 final size:79
Alignment explanation
Indices: 3635507--3635719 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 79
3635497 CCAACCCCAG
* * * * *
3635507 TTTTATTCTAAAATACCAATTTTTCACAATCGAAGATACTCCAACCTGGTTATTTTCGAAGAGAT
1 TTTTTTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTTCGAAGAGAT
* * **
3635572 ACTCTAACCTTTAT
66 ACTCCAACATCGAT
* * ** *
3635586 TTTTTTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCCCATTATTTTTTAGGAGAT
1 TTTTTTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTTCGAAGAGAT
* *
3635651 ATTCCAACATCGGT
66 ACTCCAACATCGAT
* *
3635665 TTTATTTTC-AAAACATCGA-TTTTCACAATCGGGGATACTCCAACCTCGTTATTTT
1 TTT-TTTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTT
3635720 TTAGGGGATA
Statistics
Matches: 113, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 33 0.29
79 75 0.66
80 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (79 bp):
TTTTTTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTTCGAAGAGAT
ACTCCAACATCGAT
Found at i:3640694 original size:18 final size:18
Alignment explanation
Indices: 3640673--3640723 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
3640663 AAGAAAAGCC
3640673 AAAATAA-AAAAAAATCAA
1 AAAATAAGAAAAAAA-CAA
3640691 AAAATAAGGAAAAAAACAA
1 AAAATAA-GAAAAAAACAA
3640710 AAAA-AAGAAAAAAA
1 AAAATAAGAAAAAAA
3640724 AAGGGAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.26
18 9 0.29
19 7 0.23
20 7 0.23
ACGTcount: A:0.84, C:0.04, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAATAAGAAAAAAACAA
Found at i:3641978 original size:30 final size:30
Alignment explanation
Indices: 3641917--3641978 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
3641907 GCAACCTTTC
* * *
3641917 TTCAAAGTCCACAACTTAGTGACATCTCTT
1 TTCAAAATCCACAACTTAGTGACACCCCTT
* * *
3641947 TTCAAAATCCACGACTTCGTGGCACCCCTT
1 TTCAAAATCCACAACTTAGTGACACCCCTT
3641977 TT
1 TT
3641979 AGCCCTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (30 bp):
TTCAAAATCCACAACTTAGTGACACCCCTT
Found at i:3642054 original size:62 final size:61
Alignment explanation
Indices: 3641982--3642829 Score: 878
Period size: 62 Copynumber: 13.8 Consensus size: 61
3641972 CCCTTTTAGC
* * * * *
3641982 CCTTTAGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
3642043 CCCTTTTGTCCTCAAAGAGTAGGATGCATTTTCTTTTTTC-AAGCCCACAAGAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGATGCCTTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
3642105 ACTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACATGAGTTGGTCGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* ** ** *
3642166 CCCTTTAGTCCTCTAAGAGCAGGACACCTTTTTCTTTTTC-AAGCCCACAAAAGTTCGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCA
* * ** * *
3642228 CCTTTAGTCCTTAAAGAGCATGACACCTTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * ** * * **
3642290 CCTTTAGTCCTTAAAGAGCCGGACACATTTTTTCTTGTCAAAGGTCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
3642352 CCTTATAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGTA
1 CCTT-TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* ** * * *
3642414 CCCTTTAGTCCTCAAAGAGTAGGATGCC-TTTTC-TTTCAAAGCCCGTACAAGCTAGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* ** * * ** * * **
3642474 CTTTTAGTTTTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCCTACACGAATTGGTGATA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * * * *
3642535 CATTTTAGTCCTTAAAGGGCAGGATGTCTTTTTCATTTCAAAACTCACACGAGTTAGCGGCA
1 C-CTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* **
3642597 CCCTTTAGTTCTCAAAGAGCAGGATGCCTTTTT-TTTTCAAAGCCCACACGAGTTGGTTACA
1 -CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * **
3642658 CCTTTTAGTCCTTAAAAAGTAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTTTTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
3642720 CCCTTTAGTCCTCAAAGAGCATGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
3642782 CTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAACCCAC
1 C-CTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCAC
3642830 TAACTTTTTT
Statistics
Matches: 642, Mismatches: 127, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
59 19 0.03
60 33 0.05
61 146 0.23
62 408 0.64
63 36 0.06
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:3642204 original size:123 final size:123
Alignment explanation
Indices: 3641982--3642829 Score: 794
Period size: 123 Copynumber: 6.9 Consensus size: 123
3641972 CCCTTTTAGC
* * *
3641982 CCTTTAGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCC-ACACGAGTTGGTGGCACCCT
* * * * *
3642047 TTTGTCCTCAAAGAGTAGGATG-CATTTTCTTTTTTC-AAGCCCACAAGAGTTGGTGGCA
65 TTAGTCCTCTAAGAGCAGGATGCCTTTTTC-TTTTTCAAAGCCCACAAGAGTTAGTGGCA
* * * *
3642105 ACTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACATGAGTTGGTCGCACCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGC-CACACGAGTTGGTGGCACCCT
** * *
3642170 TTAGTCCTCTAAGAGCAGGACACCTTTTTCTTTTTC-AAGCCCACAAAAGTTCGTGGCA
65 TTAGTCCTCTAAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCCACAAGAGTTAGTGGCA
* * * *
3642228 CCTTTAGTCCTTAAAGAGCATGACACCTTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCA-CC
1 CCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTCAAAGCC-ACACGAGTTGGTGGCACCC
* ** * * ** * *
3642292 TTTAGTCCT-TAAAGAGCCGGACACATTTTT-TCTTGTCAAAGGTCACACGAGTTGGTGGCA
64 TTTAGTCCTCT-AAGAGCAGGATGCCTTTTTCT-TTTTCAAAGCCCACAAGAGTTAGTGGCA
* * *
3642352 CCTTATAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGTACCC
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAG-CCACACGAGTTGGTGGCACCC
* * *
3642417 TTTAGTCCTCAAAGAGTAGGATGCC-TTTTC--TTTCAAAGCCCGTAC-A-AGCTAGTGGCA
64 TTTAGTCCTCTAAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCC--ACAAGAGTTAGTGGCA
* ** * * * * ** **
3642474 CTTTTAGTTTTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCCTACACGAATTGGTGATACATT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCC-ACACGAGTTGGTGGCACCCT
* * * * * * *
3642539 TTAGTCCT-TAAAGGGCAGGATGTCTTTTTC-ATTTCAAAACTCACACGAGTTAGCGGCA
65 TTAGTCCTCT-AAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCCACAAGAGTTAGTGGCA
* * ** *
3642597 CCCTTTAGTTCTCAAAGAGCAGGATGCCTTTTT-TTTTCAAAGCCCACACGAGTTGGTTACACCT
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAG-CCACACGAGTTGGTGGCACCC
* * * * **
3642661 TTTAGTCCT-TAAAAAGTAAGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTTTTGGCA
64 TTTAGTCCTCT-AAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCCACAAGAGTTAGTGGCA
* * *
3642720 CCCTTTAGTCCTCAAAGAGCATGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTC
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAG-CCACACGAGTTGGTGGCACCC
* *
3642785 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAACCCAC
64 TTTAGTCCTCTAAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCCAC
3642830 TAACTTTTTT
Statistics
Matches: 597, Mismatches: 104, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
120 2 0.00
121 68 0.11
122 27 0.05
123 274 0.46
124 185 0.31
125 41 0.07
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (123 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCACACGAGTTGGTGGCACCCTT
TAGTCCTCTAAGAGCAGGATGCCTTTTTCTTTTTCAAAGCCCACAAGAGTTAGTGGCA
Found at i:3642297 original size:185 final size:185
Alignment explanation
Indices: 3641981--3642829 Score: 913
Period size: 185 Copynumber: 4.6 Consensus size: 185
3641971 CCCCTTTTAG
* * * *
3641981 CCCTTTAGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACCC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * *
3642046 TTTTGTCCTCAAAGAGTAGGATGCATTTTCTTTTTTC-AAGCCCACAAGAGTTGGTGGCAACTTT
66 TTTAGTCCTCAAAGAGCAGGATGCCTTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
* * ** * *
3642110 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACATGAGTTGGTCGCA
130 AGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCA
* * ** *
3642166 CCCTTTAGTCCTCTAAGAGCAGGACACCTTTTTCTTTTTC-AAGCCCACAAAAGTTCGTGGCA-C
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACC
* * ** * *
3642229 CTTTAGTCCTTAAAGAGCATGACACCTTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACCTT
65 CTTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
* * ** * * *
3642294 TAGTCCTTAAAGAGCCGGACACATTTTTTCTTGTCAAAGGTCACACGAGTTGGTGGCA
129 TAGTCCTCAAAAAGCAAGACAC-CTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCA
* * *
3642352 -CCTTATAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGTACC
1 CCCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
* ** * * * *
3642416 CTTTAGTCCTCAAAGAGTAGGATGCC-TTTTC-TTTCAAAGCCCGTACAAGCTAGTGGCACTTTT
65 CTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
** * **
3642479 AGTTTTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGC-CTACACGAATTGGTGATA
130 AGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCTC-ACACGAGTTGGTGGCA
** * * * * * * * * *
3642535 CATTTTAGTCCTTAAAGGGCAGGATGTCTTTTTCATTTCAAAACTCACACGAGTTAGCGGCACCC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
3642600 TTTAGTTCTCAAAGAGCAGGATGCCTTTTT-TTTTCAAAGCCCACACGAGTTGGTTACACCTTTT
66 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC-TTT
* * ** * **
3642664 AGTCCTTAAAAAGTAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTTTTGGCA
130 AGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCA
* * *
3642720 CCCTTTAGTCCTCAAAGAGCATGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
3642785 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAACCCAC
66 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCAC
3642830 TAACTTTTTT
Statistics
Matches: 542, Mismatches: 108, Indels: 27
0.80 0.16 0.04
Matches are distributed among these distances:
182 1 0.00
183 100 0.18
184 94 0.17
185 232 0.43
186 93 0.17
187 22 0.04
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (185 bp):
CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTA
GTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCA
Found at i:3642856 original size:146 final size:147
Alignment explanation
Indices: 3642687--3642969 Score: 415
Period size: 146 Copynumber: 1.9 Consensus size: 147
3642677 TAAGATGCCT
** * *
3642687 TTTTCTTTTCAAAGCCCACACGAGTTTTTGGCACCCTTTAGTCCTCAAAGAGCATGAAGCCTTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGAAGCCTTTT
** * * ** *
3642752 TCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT
66 TCTTTTCAAAGCCCACACGAGTTAATGGCACCCTTTAGTCCTCAAAAAGCAGGACACCATTTTCT
3642817 TTTCAAAACCCACTAAC
131 TTTCAAAACCCACTAAC
* * *
3642834 TTTT-TTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGTAGGATGCCTTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGAAGCCTTTT
**
3642898 TCTTTTTGAAGCCCACACGAGTTAATGGCACCCTTTAGTCCTCAAAAAGCAGGACACCATTTTCT
66 TCTTTTCAAAGCCCACACGAGTTAATGGCACCCTTTAGTCCTCAAAAAGCAGGACACCATTTTCT
3642963 TTTCAAA
131 TTTCAAA
3642970 GCCACACGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
146 116 0.97
147 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (147 bp):
TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGAAGCCTTTT
TCTTTTCAAAGCCCACACGAGTTAATGGCACCCTTTAGTCCTCAAAAAGCAGGACACCATTTTCT
TTTCAAAACCCACTAAC
Found at i:3642913 original size:84 final size:85
Alignment explanation
Indices: 3642749--3642903 Score: 267
Period size: 84 Copynumber: 1.8 Consensus size: 85
3642739 CATGAAGCCT
* *
3642749 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGATGCCTTTT
3642814 TCTTTTCAAAACCCACTAAC
66 TCTTTTCAAAACCCACTAAC
* *
3642834 TTTT-TTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGTAGGATGCCTTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGATGCCTTTT
3642898 TCTTTT
66 TCTTTT
3642904 TGAAGCCCAC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 62 0.94
85 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (85 bp):
TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGATGCCTTTT
TCTTTTCAAAACCCACTAAC
Found at i:3642918 original size:62 final size:62
Alignment explanation
Indices: 3642834--3643009 Score: 230
Period size: 62 Copynumber: 2.9 Consensus size: 62
3642824 ACCCACTAAC
* * ** *
3642834 TTTT-TTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGTAGGATGCCT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGACACCA
** **
3642895 TTTTCTTTTTGAAGCCCACACGAGTTAATGGCACCCTTTAGTCCTCAAAAAGCAGGACACCA
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGACACCA
** *
3642957 TTTTCTTTTCAAAG-CCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCA
3643010 AAACACTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
61 38 0.39
62 60 0.61
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (62 bp):
TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAGGACACCA
Found at i:3643086 original size:65 final size:65
Alignment explanation
Indices: 3642957--3643093 Score: 175
Period size: 65 Copynumber: 2.1 Consensus size: 65
3642947 CAGGACACCA
* * * * * *
3642957 TTTTCTTTTCAAAGCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAAACACTTTTCT
1 TTTTTTTTTAAAACCCACACAAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAAAACACATTTCT
* ** *
3643022 TTTTTTTTTAAAACCCACACAAGTTGGTGGCACGTTTTAGTCTTCAAAGAGCATGACTCATTTCT
1 TTTTTTTTTAAAACCCACACAAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAAAACACATTTCT
*
3643087 TTCTTTT
1 TTTTTTT
3643094 CCCTTTGTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (65 bp):
TTTTTTTTTAAAACCCACACAAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAAAACACATTTCT
Found at i:3643142 original size:44 final size:44
Alignment explanation
Indices: 3643079--3643589 Score: 339
Period size: 44 Copynumber: 11.8 Consensus size: 44
3643069 AGAGCATGAC
* * * *
3643079 TCATTTCTTTCTTTTCCCTTTGTCCTCAAAGAGTAGGGCATATT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
** * * * *
3643123 TCATTTTTTTCTTTTCCCTTTGTTCTCAAAGAGCAGGACACATC
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
* * * * *
3643167 TCATTTCTTTATTTTCCTTTTGTCCTCAAAGTGCAAGGCATATT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
* *
3643211 TCATTTCCTTCTTTTCCCTTTGTCCTCAAACAGCATGACATATCT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATAT-T
* * *
3643256 T-ATTTCCTTCTTTTCCATTTGTCCTCAAAGAGCAAGATACATT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
** * * * **
3643299 TCATTTCCTTCTTTTCTTTTTGCCCTCAAAGAGTAGGATGTATT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
** * * * *
3643343 TTTTTCTCCTT-TTTT--CTTTATCCTCAAAGAGAAAGATACATT
1 TCATT-TCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
** ** * **
3643385 TCATTTTTTTCTTTTCCCTTCATCTTCAAAGAGCATA-ACGCACTT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCA-AGACATA-TT
* * **** *
3643430 T-A--T--TT-TTTTCCGTTTGTCCCTCAAAGAGCAGGGTGCACT
1 TCATTTCCTTCTTTTCCCTTTGT-CCTCAAAGAGCAAGACATATT
* * * *
3643469 TCATTTCATTTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATT
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
* * * *
3643513 TCGTTCTCCTT-TTTT--CTTTATCCTAAAAGAGCAAGACACATT
1 TCATT-TCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
** * *
3643555 TTGTTTTCTTCTTTTCCCTTTGTCCTTAAAGAGCA
1 TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCA
3643590 GGACGTACTC
Statistics
Matches: 372, Mismatches: 75, Indels: 40
0.76 0.15 0.08
Matches are distributed among these distances:
39 11 0.03
40 17 0.05
41 7 0.02
42 62 0.17
43 2 0.01
44 248 0.67
45 25 0.07
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.44
Consensus pattern (44 bp):
TCATTTCCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGACATATT
Found at i:3643501 original size:170 final size:169
Alignment explanation
Indices: 3643266--3643574 Score: 397
Period size: 170 Copynumber: 1.8 Consensus size: 169
3643256 TATTTCCTTC
* *
3643266 TTTTCCATTTGTCCTCAAAGAGCAAGATACATTTCATTTCCTTCTTTTCTTTTTGCCCTCAAAGA
1 TTTTCCATTTGTCCTCAAAGAGCAAGATACACTTCATTTCATTCTTTTCTTTTTGCCCTCAAAGA
* * *** ** * * *
3643331 GTAGGATGTATTTTTTTCTCCTTTTTTCTTTATCCTCAAAGAGAAAGATACATTTCATTTTTTTC
66 GCAAGACACATTTCGTTCTCCTTTTTTCTTTATCCTAAAAGAGAAAGACACATTTCATTTTCTTC
3643396 TTTTCCCTTCATCTTCAAAGAGCATAACGCACTTTATTT
131 TTTTCCCTTCATCTTCAAAGAGCATAACGCACTTTATTT
* * * * *
3643435 TTTTCCGTTTGTCCCTCAAAGAGCAGGGTGCACTTCATTTCATT-TTTT-TTCCTTTGTCCTCAA
1 TTTTCCATTTGT-CCTCAAAGAGCAAGATACACTTCATTTCATTCTTTTCTT--TTTGCCCTCAA
* **
3643498 AGAGCAAGACACATTTCGTTCTCCTTTTTTCTTTATCCTAAAAGAGCAAGACACATTTTGTTTTC
63 AGAGCAAGACACATTTCGTTCTCCTTTTTTCTTTATCCTAAAAGAGAAAGACACATTTCATTTTC
3643563 TTCTTTTCCCTT
128 TTCTTTTCCCTT
3643575 TGTCCTTAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
168 2 0.02
169 15 0.13
170 100 0.85
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (169 bp):
TTTTCCATTTGTCCTCAAAGAGCAAGATACACTTCATTTCATTCTTTTCTTTTTGCCCTCAAAGA
GCAAGACACATTTCGTTCTCCTTTTTTCTTTATCCTAAAAGAGAAAGACACATTTCATTTTCTTC
TTTTCCCTTCATCTTCAAAGAGCATAACGCACTTTATTT
Found at i:3643570 original size:42 final size:43
Alignment explanation
Indices: 3643479--3643589 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 43
3643469 TCATTTCATT
*
3643479 TTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCGTTCTCC
1 TTTTTTCCTTTGTCCTAAAAGAGCAAGACACATTTCGTTCTCC
* * *
3643522 TTTTTT-CTTTATCCTAAAAGAGCAAGACACATTTTGTT-TTC
1 TTTTTTCCTTTGTCCTAAAAGAGCAAGACACATTTCGTTCTCC
*
3643563 TTCTTTTCCCTTTGTCCTTAAAGAGCA
1 TT-TTTT-CCTTTGTCCTAAAAGAGCA
3643590 GGACGTACTC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.07
42 33 0.56
43 6 0.10
44 16 0.27
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (43 bp):
TTTTTTCCTTTGTCCTAAAAGAGCAAGACACATTTCGTTCTCC
Found at i:3646891 original size:79 final size:78
Alignment explanation
Indices: 3646634--3646999 Score: 375
Period size: 78 Copynumber: 4.7 Consensus size: 78
3646624 TTTTCCACCA
* * *
3646634 CGGGGATATTCCAACCCTGTTATTTTCAAAGGGGTACTCCAACCCCAGTTTTATTCTAAAACATC
1 CGGGGATACTCCAACCCTGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTATTCTAAAACATC
*
3646699 AATTTTCCATC-AT
66 AATTTTTCA-CAAT
* * * * *
3646712 CGAGGATAATCCAACCCCGTTATTTTC-GAGAGGATACTCCAACCCTAGTTTTATTCTAAAACAT
1 CGGGGATACTCCAACCCTGTTATTTTCAAAGA-GATACTCCAACCCCAGTTTTATTCTAAAACAT
*
3646776 AAATTTTTCACAAT
65 CAATTTTTCACAAT
* * *
3646790 TGGGGATACTCCAA-CCTCGTTATTTTCAAAGAGATACTCCATCCCCGGTTTTATTTCTAAAACA
1 CGGGGATACTCCAACCCT-GTTATTTTCAAAGAGATACTCCAACCCCAGTTTTA-TTCTAAAACA
* * *
3646854 CCAATTTTTTATAAT
64 TCAATTTTTCACAAT
* * * * * * *
3646869 TGGGGATACTCTAACCCTGTTA-TTTCTAAGGGGATACTCTAACCCCAATTTTATTTCCAAAACA
1 CGGGGATACTCCAACCCTGTTATTTTC-AAAGAGATACTCCAACCCCAGTTTTA-TTCTAAAACA
*
3646933 TCGA-TTTTCACAAT
64 TCAATTTTTCACAAT
* ** * *
3646947 CGGGGATACTCCAACCTTGTTATTTTTGAAGAGATA-TCCAACCCTATTTTTAT
1 CGGGGATACTCCAACCCTGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTAT
3647000 CTCCAAAATA
Statistics
Matches: 237, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
76 1 0.00
77 18 0.08
78 139 0.59
79 76 0.32
80 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (78 bp):
CGGGGATACTCCAACCCTGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTATTCTAAAACATC
AATTTTTCACAAT
Found at i:3646922 original size:157 final size:156
Alignment explanation
Indices: 3646634--3646999 Score: 416
Period size: 157 Copynumber: 2.3 Consensus size: 156
3646624 TTTTCCACCA
* * * *
3646634 CGGGGATATTCCAACC-CTGTTATTTTCAAAGGGGTACTCCAACCCCAGTTTTATTCTAAAACAT
1 CGGGGATACTCCAACCTC-GTTATTTTCAAAGAGATACTCCAACCCCAGTTTTATTCTAAAACAC
* * * *
3646698 CAATTTTCCATCATCGAGGATAATCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCTAGTTT
65 CAATTTTCCATAATCGAGGATAATCCAACCCCGTTATTTTCAAGAGGATACTCCAACCCCAATTT
*
3646763 TA-TTCTAAAACATAAATTTTTCACAAT
130 TATTTCCAAAACATAAA-TTTTCACAAT
* * *
3646790 TGGGGATACTCCAACCTCGTTATTTTCAAAGAGATACTCCATCCCCGGTTTTATTTCTAAAACAC
1 CGGGGATACTCCAACCTCGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTA-TTCTAAAACAC
** * * * * * * *
3646855 CAATTTTTTATAATTGGGGATACTCTAACCCTGTTA-TTTCTAAGGGGATACTCTAACCCCAATT
65 CAATTTTCCATAATCGAGGATAATCCAACCCCGTTATTTTC-AAGAGGATACTCCAACCCCAATT
**
3646919 TTATTTCCAAAACATCGATTTTCACAAT
129 TTATTTCCAAAACATAAATTTTCACAAT
* ** * *
3646947 CGGGGATACTCCAACCTTGTTATTTTTGAAGAGATA-TCCAACCCTATTTTTAT
1 CGGGGATACTCCAACCTCGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTAT
3647000 CTCCAAAATA
Statistics
Matches: 175, Mismatches: 31, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
155 1 0.01
156 61 0.35
157 102 0.58
158 11 0.06
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (156 bp):
CGGGGATACTCCAACCTCGTTATTTTCAAAGAGATACTCCAACCCCAGTTTTATTCTAAAACACC
AATTTTCCATAATCGAGGATAATCCAACCCCGTTATTTTCAAGAGGATACTCCAACCCCAATTTT
ATTTCCAAAACATAAATTTTCACAAT
Found at i:3648960 original size:21 final size:21
Alignment explanation
Indices: 3648913--3648961 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3648903 GAGACGACCT
3648913 AACAAAAAA--AATAAAGAAA
1 AACAAAAAATTAATAAAGAAA
* *
3648932 AACCAAAAATTAATAAAGCAA
1 AACAAAAAATTAATAAAGAAA
*
3648953 AATAAAAAA
1 AACAAAAAA
3648962 CAAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (21 bp):
AACAAAAAATTAATAAAGAAA
Found at i:3652874 original size:30 final size:30
Alignment explanation
Indices: 3652799--3652883 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 30
3652789 AAATAATAAG
*
3652799 TAAATATAATTTAATTA-TAATTTTAAAAAA
1 TAAATATAATTT-ATTATTAATATTAAAAAA
* * * *
3652829 TATATTTGATATATTATTAATATTAAAATAA
1 TAAATATAATTTATTATTAATATTAAAA-AA
3652860 -AAATATAATTTATTAATTATATAT
1 TAAATATAATTTATT-ATTA-ATAT
3652884 ATTCTTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
29 4 0.10
30 28 0.67
31 6 0.14
32 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
TAAATATAATTTATTATTAATATTAAAAAA
Found at i:3654883 original size:25 final size:23
Alignment explanation
Indices: 3654846--3654905 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
3654836 CGATTTAAAA
*
3654846 ATTTTTAAATATTTTGTTTAAGATT
1 ATTTTTAATTATTTT-TTT-AGATT
* *
3654871 ATTTTTACTTA-TTTTTTATATT
1 ATTTTTAATTATTTTTTTAGATT
*
3654893 ATTTTTATTTATT
1 ATTTTTAATTATT
3654906 ATTTATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 14 0.47
23 4 0.13
24 3 0.10
25 9 0.30
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (23 bp):
ATTTTTAATTATTTTTTTAGATT
Found at i:3654896 original size:22 final size:23
Alignment explanation
Indices: 3654862--3654916 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
3654852 AAATATTTTG
* *
3654862 TTTAAGATTATTTTTACTTATTT
1 TTTATGATTATTTTTACTTATTA
*
3654885 TTTAT-ATTATTTTTATTTATTA
1 TTTATGATTATTTTTACTTATTA
3654907 TTTATGATTA
1 TTTATGATTA
3654917 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTATGATTATTTTTACTTATTA
Found at i:3654910 original size:11 final size:10
Alignment explanation
Indices: 3654869--3654911 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
3654859 TTGTTTAAGA
*
3654869 TTATTTTTAC
1 TTATTTTTAT
3654879 TTATTTTTTAT
1 TTA-TTTTTAT
3654890 ATTATTTTTAT
1 -TTATTTTTAT
3654901 TTATTATTTAT
1 TTATT-TTTAT
3654912 GATTAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.28
11 18 0.62
12 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:3655145 original size:9 final size:9
Alignment explanation
Indices: 3655131--3655155 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3655121 GATGCCAAAT
3655131 ACAAGCCAC
1 ACAAGCCAC
3655140 ACAAGCCAC
1 ACAAGCCAC
3655149 ACAAGCC
1 ACAAGCC
3655156 TGGCGAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.44, G:0.12, T:0.00
Consensus pattern (9 bp):
ACAAGCCAC
Found at i:3655898 original size:18 final size:20
Alignment explanation
Indices: 3655864--3655901 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
3655854 AACTTTATCT
3655864 ATTTTGATTTGAATTTAAAA
1 ATTTTGATTTGAATTTAAAA
3655884 ATTTTGA-TT-AATTTAAAA
1 ATTTTGATTTGAATTTAAAA
3655902 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTTTGATTTGAATTTAAAA
Found at i:3655974 original size:32 final size:31
Alignment explanation
Indices: 3655891--3655976 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
3655881 AAAATTTTGA
*
3655891 TTAATTTAAAATTAAATTAAATTAAATTTAAT
1 TTAATTTAAAATTAAA-TAATTTAAATTTAAT
* *
3655923 TTGATTAAAAAAATT-AATAATTTAAATTTAAT
1 TTAATT--TAAAATTAAATAATTTAAATTTAAT
*
3655955 TTAATTTAAACTTGAAATAATT
1 TTAATTTAAAATT-AAATAATT
3655977 CGAATTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
30 5 0.11
32 31 0.70
33 2 0.05
34 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (31 bp):
TTAATTTAAAATTAAATAATTTAAATTTAAT
Found at i:3656098 original size:14 final size:14
Alignment explanation
Indices: 3656074--3656114 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
3656064 TCGATTTAAA
3656074 TTAAGTATAATTTAT
1 TTAA-TATAATTTAT
*
3656089 TTTATATAATTTAT
1 TTAATATAATTTAT
3656103 TTAATAATAATT
1 TTAAT-ATAATT
3656115 AAATTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTAATATAATTTAT
Found at i:3656608 original size:13 final size:13
Alignment explanation
Indices: 3656590--3656615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3656580 ATGTGATTTA
3656590 AAATAAAGTACAT
1 AAATAAAGTACAT
3656603 AAATAAAGTACAT
1 AAATAAAGTACAT
3656616 TTTATTAAAA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAATAAAGTACAT
Found at i:3656838 original size:12 final size:12
Alignment explanation
Indices: 3656823--3656855 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3656813 CTCATTTTTA
*
3656823 TTTTTAATTAAT
1 TTTTTTATTAAT
3656835 TTTTTTA-TAAT
1 TTTTTTATTAAT
3656846 TTTTTTATTA
1 TTTTTTATTA
3656856 TACTGTCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTATTAAT
Found at i:3657823 original size:12 final size:12
Alignment explanation
Indices: 3657806--3657870 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
3657796 TCTCTTTCTA
3657806 TTTTTTTGTTA-
1 TTTTTTTGTTAT
* **
3657817 TTTTTTTCTTGG
1 TTTTTTTGTTAT
3657829 TTTTTTTGTTAT
1 TTTTTTTGTTAT
3657841 TTTTTTTGTT-T
1 TTTTTTTGTTAT
3657852 TTTGTTTT-TTAT
1 TTT-TTTTGTTAT
3657864 TTTTTTT
1 TTTTTTT
3657871 AGGTATAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
11 19 0.41
12 27 0.59
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.85
Consensus pattern (12 bp):
TTTTTTTGTTAT
Found at i:3657870 original size:11 final size:11
Alignment explanation
Indices: 3657804--3657870 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
3657794 AATCTCTTTC
*
3657804 TATTTTTTTGT
1 TATTTTTTTTT
3657815 TATTTTTTTCTT
1 TATTTTTTT-TT
** *
3657827 GGTTTTTTTGT
1 TATTTTTTTTT
3657838 TATTTTTTTTGT
1 TATTTTTTTT-T
3657850 T-TTTTGTTTTT
1 TATTTT-TTTTT
3657861 TATTTTTTTT
1 TATTTTTTTT
3657871 AGGTATAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
11 27 0.60
12 18 0.40
ACGTcount: A:0.06, C:0.01, G:0.09, T:0.84
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:3671554 original size:20 final size:20
Alignment explanation
Indices: 3671525--3671598 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
3671515 GTAAAAAGAT
*
3671525 AGAATTTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
3671545 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
3671565 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
3671585 AAAATGTATTGATA
1 AGAATGTATCGATA
3671599 TGTTTGGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3683229 original size:14 final size:13
Alignment explanation
Indices: 3683209--3683290 Score: 69
Period size: 14 Copynumber: 6.2 Consensus size: 13
3683199 CAATTCGCCA
3683209 TTTGTCAAGAAAT
1 TTTGTCAAGAAAT
3683222 TGTTGTCAAGAAAT
1 T-TTGTCAAGAAAT
* *
3683236 TATCGTCAAGAACT
1 T-TTGTCAAGAAAT
*
3683250 TTTGTCGA-AAAT
1 TTTGTCAAGAAAT
* *
3683262 GTTCGTCAA-AAAC
1 -TTTGTCAAGAAAT
*
3683275 TTTATCAAGAAAT
1 TTTGTCAAGAAAT
3683288 TTT
1 TTT
3683291 TGTTAATACG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
12 9 0.17
13 21 0.39
14 24 0.44
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (13 bp):
TTTGTCAAGAAAT
Found at i:3683267 original size:26 final size:27
Alignment explanation
Indices: 3683212--3683288 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
3683202 TTCGCCATTT
*
3683212 GTCAAGAAATTGTTGTCAAGAAATTATC
1 GTCAAGAACTT-TTGTCAAGAAATTATC
*
3683240 GTCAAGAACTTTTGTCGA-AAATGT-TC
1 GTCAAGAACTTTTGTCAAGAAAT-TATC
* *
3683266 GTCAAAAAC-TTTATCAAGAAATT
1 GTCAAGAACTTTTGTCAAGAAATT
3683289 TTTGTTAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 7 0.17
26 18 0.43
27 7 0.17
28 10 0.24
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (27 bp):
GTCAAGAACTTTTGTCAAGAAATTATC
Found at i:3683379 original size:28 final size:28
Alignment explanation
Indices: 3683305--3683830 Score: 580
Period size: 28 Copynumber: 18.6 Consensus size: 28
3683295 AATACGACCT
* *
3683305 CCTTTT-AAAGCTCACAAGTTAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
3683332 CACTTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-C-TTTTCAAAGCCCACAAGTCAGTGGCA
*
3683362 CCTTCTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683390 CCTTCTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
3683418 TCC-TTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3683446 TCTTTTCAAAGTCCACAAGTTAGTGGTA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3683474 TCCTTCTCAAAGCCCATAAGTCAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3683503 CATTTTCAAAGCCTACAAGTTAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3683531 CCTTCTCAAAACCCACAAGTCAGTGACA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3683559 TCCATCTTTTCAAAGTCCACAACTTAGTGGCA
1 --C--CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3683591 TCCTTCTCAAAGCCCACAAGTTAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
3683620 CATTTTCAAAGCCCACAAATTAGTAGAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683648 CCTTTTCAAAGCCCACAAGTCAGTGGTA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3683676 TCTTTTTAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683704 CCTTCTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683732 TCC-TTTCAAAGCCCACAAGTTAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3683760 TCTTTTCAAAGTCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683788 TC-TTTCAAA---CACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3683812 ACTTTCTCTAAAGCCCACA
1 CCTTT-TC-AAAGCCCACA
3683831 CAAGTTGGTG
Statistics
Matches: 424, Mismatches: 57, Indels: 33
0.82 0.11 0.06
Matches are distributed among these distances:
24 16 0.04
25 2 0.00
26 2 0.00
27 13 0.03
28 289 0.68
29 55 0.13
30 25 0.06
31 1 0.00
32 21 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3684371 original size:22 final size:22
Alignment explanation
Indices: 3684344--3684388 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3684334 TTAGGCCATA
3684344 TTTGATTTGGATTTGTAAGATC
1 TTTGATTTGGATTTGTAAGATC
3684366 TTTGATTTGGATTTGTAAGATC
1 TTTGATTTGGATTTGTAAGATC
3684388 T
1 T
3684389 AGATTAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (22 bp):
TTTGATTTGGATTTGTAAGATC
Found at i:3689029 original size:28 final size:27
Alignment explanation
Indices: 3688944--3689031 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 27
3688934 TGACAAATGA
3688944 AATAATAATATTAGAGATGACAATAA-
1 AATAATAATATTAGAGATGACAATAAC
*
3688970 AA-AATAAATAAATA-A-ATG--AATAAC
1 AATAAT-AAT-ATTAGAGATGACAATAAC
3688994 AAATAATAATATTAGAGATGACAATAAC
1 -AATAATAATATTAGAGATGACAATAAC
3689022 AATCAATAAT
1 AAT-AATAAT
3689032 CAACCCGGCT
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
23 5 0.10
24 3 0.06
25 12 0.24
26 12 0.24
27 6 0.12
28 12 0.24
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (27 bp):
AATAATAATATTAGAGATGACAATAAC
Found at i:3690447 original size:4 final size:4
Alignment explanation
Indices: 3690438--3690467 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3690428 GATTATAGAA
*
3690438 ATTT ATTT ATTT ATTT GTTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
3690468 ATGATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:3691221 original size:3 final size:3
Alignment explanation
Indices: 3691213--3691248 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
3691203 TTCTCACTCA
3691213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
3691249 CAACCGTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3697447 original size:14 final size:14
Alignment explanation
Indices: 3697430--3697461 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3697420 CAGATATTTA
*
3697430 TTATCTTATTAATT
1 TTATCTTATTAATG
3697444 TTATCTTATTAATG
1 TTATCTTATTAATG
3697458 TTAT
1 TTAT
3697462 TAGTGAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATCTTATTAATG
Found at i:3698149 original size:2 final size:2
Alignment explanation
Indices: 3698142--3698173 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3698132 AGCTAATGAA
3698142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3698174 CAAAATGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3701147 original size:28 final size:28
Alignment explanation
Indices: 3701088--3701167 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
3701078 CCACCCATTT
3701088 ATTTGTCAAAAATGGTGGTTATTTTGTG
1 ATTTGTCAAAAATGGTGGTTATTTTGTG
3701116 -TTTGTCAAAAATGGTGGTT-TCCTTTG-G
1 ATTTGTCAAAAATGGTGGTTAT--TTTGTG
* *
3701143 ATTTGTCAAATATGGAGGCTTATTT
1 ATTTGTCAAAAATGGTGG-TTATTT
3701168 ATTTGTCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 1 0.02
27 20 0.44
28 21 0.47
29 2 0.04
30 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (28 bp):
ATTTGTCAAAAATGGTGGTTATTTTGTG
Found at i:3703762 original size:21 final size:22
Alignment explanation
Indices: 3703733--3703778 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
3703723 TGTTCAGACA
** *
3703733 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
3703755 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
3703776 AGT
1 AGT
3703779 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:3713193 original size:96 final size:96
Alignment explanation
Indices: 3713068--3713257 Score: 245
Period size: 96 Copynumber: 2.0 Consensus size: 96
3713058 AGTGTCTTCA
* * * ** *
3713068 ATGATGACAACTTAAGCGAAAATGATATTTAAGTCTTGACGAGTTTAAAAATGAGATTGGAGAAT
1 ATGATGACAACTTAAGCAAAAATAATATTTAAATCTTGACGAGTTTAAAAACAAGATTGAAGAAT
3713133 CCCCTCAAAAGATGGGGTTAGAGTATCCTCG
66 CCCCTCAAAAGATGGGGTTAGAGTATCCTCG
* * * * * * *
3713164 ATGATGACAATTTTATCAAAAATAATATTTAAATCTTGGCGAGTTTAGAAACAAGGTTGAAGTAT
1 ATGATGACAACTTAAGCAAAAATAATATTTAAATCTTGACGAGTTTAAAAACAAGATTGAAGAAT
* *
3713229 CCCTTCAAAAGATGGGGTTGGAGTATCCT
66 CCCCTCAAAAGATGGGGTTAGAGTATCCT
3713258 TGATAATAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (96 bp):
ATGATGACAACTTAAGCAAAAATAATATTTAAATCTTGACGAGTTTAAAAACAAGATTGAAGAAT
CCCCTCAAAAGATGGGGTTAGAGTATCCTCG
Found at i:3716447 original size:21 final size:20
Alignment explanation
Indices: 3716421--3716459 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3716411 AGGTCAAACT
3716421 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
3716442 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
3716460 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:3716508 original size:32 final size:32
Alignment explanation
Indices: 3716450--3716511 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
3716440 CACCTAGATG
3716450 TATCGATACATATTGCTTAGTATCGATACATTC
1 TATCGATACATATT-CTTAGTATCGATACATTC
*
3716483 TATCGATACATGTT-TATAGTATCGATACA
1 TATCGATACATATTCT-TAGTATCGATACA
3716512 CCTTGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 13 0.48
33 13 0.48
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (32 bp):
TATCGATACATATTCTTAGTATCGATACATTC
Found at i:3717840 original size:26 final size:27
Alignment explanation
Indices: 3717806--3717864 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
3717796 TCTATTCCAG
3717806 TTTTGTTA-TTTTTTCTGCCTTTTTCAA
1 TTTT-TTATTTTTTTCTGCCTTTTTCAA
3717833 TTTTTTATTTTTTTCTGCCTTTTTCAA
1 TTTTTTATTTTTTTCTGCCTTTTTCAA
3717860 TTTTT
1 TTTTT
3717865 GTTCTTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (27 bp):
TTTTTTATTTTTTTCTGCCTTTTTCAA
Found at i:3723717 original size:21 final size:20
Alignment explanation
Indices: 3723693--3723740 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
3723683 CAAATCTTTT
3723693 TCAAAATTCATCT-TTTTCGCA
1 TCAAAATTC-TCTGTTTT-GCA
* *
3723714 TCAAAACTCTCTGTTTTTCA
1 TCAAAATTCTCTGTTTTGCA
3723734 TCAAAAT
1 TCAAAAT
3723741 CTTCAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (20 bp):
TCAAAATTCTCTGTTTTGCA
Found at i:3725199 original size:12 final size:12
Alignment explanation
Indices: 3725182--3725213 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3725172 CCTGAGTGAC
3725182 GATTAGTCATAG
1 GATTAGTCATAG
3725194 GATTAGTCATAG
1 GATTAGTCATAG
*
3725206 GAGTAGTC
1 GATTAGTC
3725214 GTATGCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (12 bp):
GATTAGTCATAG
Found at i:3725569 original size:44 final size:45
Alignment explanation
Indices: 3725521--3725606 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
3725511 AGTATGAGTT
* *
3725521 TTATTAAAAGGGG-G-ATAATTTGTTAA-GGGAGAGTATTAAATATG
1 TTATT-AAAGGGGAGAAAAATTTGTTAACGGGA-AGTACTAAATATG
*
3725565 TTATTAAGGGGGAGAAAAATTTGTTAACGGGAAGTACTAAAT
1 TTATTAAAGGGGAGAAAAATTTGTTAACGGGAAGTACTAAAT
3725607 TGAAAAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 6 0.17
44 6 0.17
45 20 0.56
46 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (45 bp):
TTATTAAAGGGGAGAAAAATTTGTTAACGGGAAGTACTAAATATG
Found at i:3726170 original size:20 final size:20
Alignment explanation
Indices: 3726145--3726197 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3726135 ATAATTTAAA
3726145 GTATCAATACATAGGTATTT
1 GTATCAATACATAGGTATTT
*
3726165 GTATCAAAACATAGGTATTT
1 GTATCAATACATAGGTATTT
*
3726185 GTATCGATACATA
1 GTATCAATACATA
3726198 AAGGTTGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
GTATCAATACATAGGTATTT
Found at i:3726314 original size:32 final size:33
Alignment explanation
Indices: 3726255--3726318 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3726245 CACACCCAAA
*
3726255 TGTATCGATACATATTACTTAGTATCGATACAT
1 TGTATCGATACATATTACATAGTATCGATACAT
* *
3726288 TGTATCGATGCATGTT-CATAGTATCGATACA
1 TGTATCGATACATATTACATAGTATCGATACA
3726319 CCTTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTACATAGTATCGATACAT
Found at i:3726437 original size:63 final size:63
Alignment explanation
Indices: 3726370--3726597 Score: 180
Period size: 63 Copynumber: 3.6 Consensus size: 63
3726360 TATCACTGTT
*
3726370 TGTATCGATACATGGTGAAATGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGCA
1 TGTATCGATACATGGTGAAAAGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGCA
* *** * * * * * *
3726433 TGTATTGATACACCTTGAAAAGTATCGATA-AATGA----AATTGGC-AGTAGCTATCCTACCAT
1 TGTATCGATACATGGTGAAAAGTATCGATACATTGAGCCCAA-CGGCTA-TA--AAT--TTCAAA
**
3726492 TGTT
60 TGCA
* **
3726496 TGTATCGATACATGGTGAAATGTATTAATACATTGAGCCCAACGGCTATAAATTTCAAATGCA
1 TGTATCGATACATGGTGAAAAGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGCA
** *
3726559 TGTATCGATACATTATGAAAAGTATCGAAACATATGAGC
1 TGTATCGATACATGGTGAAAAGTATCGATACAT-TGAGC
3726598 GTATTTGTGT
Statistics
Matches: 118, Mismatches: 34, Indels: 25
0.67 0.19 0.14
Matches are distributed among these distances:
58 3 0.03
59 5 0.04
61 2 0.02
62 4 0.03
63 85 0.72
64 9 0.08
65 2 0.02
67 5 0.04
68 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (63 bp):
TGTATCGATACATGGTGAAAAGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGCA
Found at i:3726538 original size:126 final size:126
Alignment explanation
Indices: 3726308--3726586 Score: 461
Period size: 126 Copynumber: 2.2 Consensus size: 126
3726298 CATGTTCATA
* * *
3726308 GTATCGATACACCTTGAAAAGTATCGATACATGAAACTGGTAGTAGCTATCCTATCACTGTTTGT
1 GTATCGATACACCTTGAAAAGTATCGATAAATGAAACTGGCAGTAGCTATCCTACCACTGTTTGT
*
3726373 ATCGATACATGGTGAAATGTATCGATACATTGAGCCCAACGGCTATAAATTTCAAATGCAT
66 ATCGATACATGGTGAAATGTATCAATACATTGAGCCCAACGGCTATAAATTTCAAATGCAT
* * *
3726434 GTATTGATACACCTTGAAAAGTATCGATAAATGAAATTGGCAGTAGCTATCCTACCATTGTTTGT
1 GTATCGATACACCTTGAAAAGTATCGATAAATGAAACTGGCAGTAGCTATCCTACCACTGTTTGT
*
3726499 ATCGATACATGGTGAAATGTATTAATACATTGAGCCCAACGGCTATAAATTTCAAATGCAT
66 ATCGATACATGGTGAAATGTATCAATACATTGAGCCCAACGGCTATAAATTTCAAATGCAT
*
3726560 GTATCGATACA-TTATGAAAAGTATCGA
1 GTATCGATACACCT-TGAAAAGTATCGA
3726587 AACATATGAG
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
125 1 0.01
126 141 0.99
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (126 bp):
GTATCGATACACCTTGAAAAGTATCGATAAATGAAACTGGCAGTAGCTATCCTACCACTGTTTGT
ATCGATACATGGTGAAATGTATCAATACATTGAGCCCAACGGCTATAAATTTCAAATGCAT
Found at i:3727386 original size:27 final size:27
Alignment explanation
Indices: 3727356--3727446 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 27
3727346 TTAAAAACGA
3727356 TTAATATTTATTTTAATTATAAGAGTG
1 TTAATATTTATTTTAATTATAAGAGTG
** * *
3727383 TTAAT-TCAATTTTAATTATTTTTGAAAAATG
1 TTAATATTTATTTTAATTA----T-AAGAGTG
3727414 ATTAATATTTATTTTAATTATAAGAGTG
1 -TTAATATTTATTTTAATTATAAGAGTG
3727442 TTAAT
1 TTAAT
3727447 TCAATTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
26 11 0.22
27 10 0.20
28 5 0.10
29 1 0.02
30 1 0.02
31 5 0.10
32 5 0.10
33 11 0.22
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.52
Consensus pattern (27 bp):
TTAATATTTATTTTAATTATAAGAGTG
Found at i:3727440 original size:59 final size:60
Alignment explanation
Indices: 3727348--3727472 Score: 225
Period size: 59 Copynumber: 2.1 Consensus size: 60
3727338 ATAAAAGATT
*
3727348 AAAAACGATTAATATTTATTTTAATTATAAGAGTGTTAATTCAA-TTTTAATTATTTTTG
1 AAAAATGATTAATATTTATTTTAATTATAAGAGTGTTAATTCAATTTTTAATTATTTTTG
*
3727407 AAAAATGATTAATATTTATTTTAATTATAAGAGTGTTAATTCAATTTTTATTTATTTTTG
1 AAAAATGATTAATATTTATTTTAATTATAAGAGTGTTAATTCAATTTTTAATTATTTTTG
3727467 AAAAAT
1 AAAAAT
3727473 ATCATTTTGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 43 0.68
60 20 0.32
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (60 bp):
AAAAATGATTAATATTTATTTTAATTATAAGAGTGTTAATTCAATTTTTAATTATTTTTG
Found at i:3727461 original size:27 final size:27
Alignment explanation
Indices: 3727366--3727461 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 27
3727356 TTAATATTTA
3727366 TTTTAATTATAAGAGTGTTAATTCAA-
1 TTTTAATTATAAGAGTGTTAATTCAAT
* * **
3727392 TTTTAATTATTTTTGAAAAATGATTAATATTTA-
1 TTTTAATTA----T-AAGAGTG-TTAAT-TCAAT
3727425 TTTTAATTATAAGAGTGTTAATTCAAT
1 TTTTAATTATAAGAGTGTTAATTCAAT
*
3727452 TTTTATTTAT
1 TTTTAATTAT
3727462 TTTTGAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
26 11 0.21
27 14 0.26
28 5 0.09
29 1 0.02
30 1 0.02
31 5 0.09
32 5 0.09
33 11 0.21
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.53
Consensus pattern (27 bp):
TTTTAATTATAAGAGTGTTAATTCAAT
Found at i:3727637 original size:21 final size:22
Alignment explanation
Indices: 3727601--3727644 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3727591 AAAAAAAAAG
*
3727601 ACATCTTGCCCTTAAAATTTAA
1 ACATCTTGCCCTTAAAATATAA
*
3727623 ACATCTTTCCC-TAAAATATAA
1 ACATCTTGCCCTTAAAATATAA
3727644 A
1 A
3727645 TACTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (22 bp):
ACATCTTGCCCTTAAAATATAA
Found at i:3728530 original size:15 final size:14
Alignment explanation
Indices: 3728510--3728549 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
3728500 AGTCCAAGTA
3728510 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
3728524 CTTTTCTTTCTTTTT
1 -TTTTCTTTCTTTTT
3728539 TTCTTCTTTCT
1 TT-TTCTTTCT
3728550 CTCATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTCTTTTT
Found at i:3728683 original size:25 final size:25
Alignment explanation
Indices: 3728655--3728710 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
3728645 TTGCATTGGT
* *
3728655 TGCTGTTGTTGTTGGTTGCTTCAAC
1 TGCTGTTGGTGTAGGTTGCTTCAAC
* **
3728680 TGCTGCTGGTGTAGGTTGCTTCTGC
1 TGCTGTTGGTGTAGGTTGCTTCAAC
3728705 TGCTGT
1 TGCTGT
3728711 CGCTTGCTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.05, C:0.18, G:0.32, T:0.45
Consensus pattern (25 bp):
TGCTGTTGGTGTAGGTTGCTTCAAC
Found at i:3729077 original size:24 final size:25
Alignment explanation
Indices: 3729035--3729082 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
3729025 TCTATTTCTT
*
3729035 TTTCTTTATTTTGCTACAGCTATTAC
1 TTTCTTTA-TTTGCAACAGCTATTAC
3729061 TTTCTTTA-TTGCAACAGCTATT
1 TTTCTTTATTTGCAACAGCTATT
3729083 TAATTGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (25 bp):
TTTCTTTATTTGCAACAGCTATTAC
Found at i:3729518 original size:3 final size:3
Alignment explanation
Indices: 3729512--3729575 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
3729502 TTTTATAGTA
3729512 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3729560 ATT -TT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT
3729576 TTTTTAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:3730375 original size:127 final size:126
Alignment explanation
Indices: 3730215--3730447 Score: 290
Period size: 127 Copynumber: 1.8 Consensus size: 126
3730205 GCCAACGAGT
* * * **
3730215 AGACAAAGGATAAAGAAGTCTTCCGAGTCAAAGTCGACGGACAGAC-AAATGGTAATGAAGTCCC
1 AGACAAAGGATAAAGAAGTCTTCCAAGTCAAAGTCGACAGACAGACTAAA-AGTAAAAAAGTCCC
* *
3730279 CAAGGTCAAAGTCGACAGATAGACTAAAGGTAAAGAAGTCTTTAAGGTCAAAGTTGACAAGC
65 CAAGGTCAAAGTCGACAGACAGACTAAAGGTAAAAAAGTCTTTAAGGTCAAAGTTGACAAGC
* * * **
3730341 AGACTAAAGGATACAGAAGTC-TCCAAGGTTAAAGTCGGCAGACAGACTAAAAGTAAAAAAGTGT
1 AGAC-AAAGGATAAAGAAGTCTTCCAA-GTCAAAGTCGACAGACAGACTAAAAGTAAAAAAGTCC
* * *
3730405 CTAGGGTCAAAGTCGACAGGCAGACTAAAGGTAAAAAAGTCTT
64 CCAAGGTCAAAGTCGACAGACAGACTAAAGGTAAAAAAGTCTT
3730448 CCGAGTTGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
126 8 0.09
127 78 0.88
128 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (126 bp):
AGACAAAGGATAAAGAAGTCTTCCAAGTCAAAGTCGACAGACAGACTAAAAGTAAAAAAGTCCCC
AAGGTCAAAGTCGACAGACAGACTAAAGGTAAAAAAGTCTTTAAGGTCAAAGTTGACAAGC
Found at i:3730388 original size:85 final size:84
Alignment explanation
Indices: 3730176--3730526 Score: 309
Period size: 84 Copynumber: 4.1 Consensus size: 84
3730166 ACGAGCAAAC
* * * *
3730176 AAAGGATAAAGAAGTCTCCAAAGGTCAAAGCCAAC-GAGTAGAC-AAAGGATAAAGAAGTCT-TC
1 AAAGG-TAAAGAAGTCTCC-AAGGTTAAAGTCGACAGA-CAGACTAAAGG-TAAAGAAGTCTCT-
* * *
3730238 CGAGTCAAAGTCGAC-GGACAGAC-
61 AGGGTCAAAGTCGACAAG-CAGACT
* * * * * *
3730261 AAATGGTAATGAAGTCCCCAAGGTCAAAGTCGACAGATAGACTAAAGGTAAAGAAGTCTTTAAGG
1 AAA-GGTAAAGAAGTCTCCAAGGTTAAAGTCGACAGACAGACTAAAGGTAAAGAAGTCTCTAGGG
*
3730326 TCAAAGTTGACAAGCAGACT
65 TCAAAGTCGACAAGCAGACT
* * * * *
3730346 AAAGGATACAGAAGTCTCCAAGGTTAAAGTCGGCAGACAGACTAAAAGTAAAAAAGTGTCTAGGG
1 AAAGG-TAAAGAAGTCTCCAAGGTTAAAGTCGACAGACAGACTAAAGGTAAAGAAGTCTCTAGGG
*
3730411 TCAAAGTCGACAGGCAGACT
65 TCAAAGTCGACAAGCAGACT
* * * * * *
3730431 AAAGGTAAAAAAGTCTTCCGA-GTTGAAGCCGACAGGCAGACTAAAGATAAAGAAGTCTCTAGGG
1 AAAGGTAAAGAAGTC-TCCAAGGTTAAAGTCGACAGACAGACTAAAGGTAAAGAAGTCTCTAGGG
* * * *
3730495 TCAAAGCCGATATGTAGACT
65 TCAAAGTCGACAAGCAGACT
3730515 AAAGGTAAAGAA
1 AAAGGTAAAGAA
3730527 AGGTTGGTTG
Statistics
Matches: 220, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
84 117 0.53
85 101 0.46
86 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (84 bp):
AAAGGTAAAGAAGTCTCCAAGGTTAAAGTCGACAGACAGACTAAAGGTAAAGAAGTCTCTAGGGT
CAAAGTCGACAAGCAGACT
Found at i:3730502 original size:42 final size:42
Alignment explanation
Indices: 3730180--3730526 Score: 231
Period size: 42 Copynumber: 8.2 Consensus size: 42
3730170 GCAAACAAAG
* * * *
3730180 GATAAAGAAGTCTCCAAAGGTCAAAGCCAAC-GAGTAGAC-AAA
1 GATAAAGAAGTCT-CTAAGGTCAAAGTCGACAG-GCAGACTAAA
**
3730222 GGATAAAGAAGTCT-TCCGAGTCAAAGTCGAC-GGACAGAC-AAA
1 -GATAAAGAAGTCTCTAAG-GTCAAAGTCGACAGG-CAGACTAAA
* * * * **
3730264 TGGTAATGAAGTCCCCAAGGTCAAAGTCGACAGATAGACTAAA
1 -GATAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
* * * *
3730307 GGTAAAGAAGTCTTTAAGGTCAAAGTTGACAAGCAGACTAAA
1 GATAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
* * * * *
3730349 GGATACAGAAGTCTCCAAGGTTAAAGTCGGCAGACAGACTAAA
1 -GATAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
* * *
3730392 -AGTAAAAAAGTGTCTAGGGTCAAAGTCGACAGGCAGACTAAA
1 GA-TAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
* * ** ** *
3730434 GGTAAAAAAGTCT-TCCGAGTTGAAGCCGACAGGCAGACTAAA
1 GATAAAGAAGTCTCTAAG-GTCAAAGTCGACAGGCAGACTAAA
* * * * *
3730476 GATAAAGAAGTCTCTAGGGTCAAAGCCGATATGTAGACTAAA
1 GATAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
*
3730518 GGTAAAGAA
1 GATAAAGAA
3730527 AGGTTGGTTG
Statistics
Matches: 237, Mismatches: 57, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.02
42 179 0.76
43 53 0.22
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (42 bp):
GATAAAGAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAA
Found at i:3738043 original size:145 final size:147
Alignment explanation
Indices: 3737836--3738126 Score: 347
Period size: 148 Copynumber: 2.0 Consensus size: 147
3737826 AAAATGATAT
* * * *
3737836 AAATGGGGAGAACCTATCCTAAATACCCACTTTTGGCATGAAAACGGACTTAGTGACAACCTAAG
1 AAATGGGGAGAACCTATCCTAAATACCCACCTTCGGCATGAAAACGGACTCAGCGACAACCTAAG
*
3737901 ACTCGGTTTT-AAAAAATTACAAAAACACCCCT-AGAGGATACCTTCGACGTGAAAGTATCCCAA
66 ACTCGATTTTAAAAAAATTACAAAAACA-CCCTAAGAGGATACCTTCGACGTGAAAGTATCCCAA
*
3737964 TACCCTTAAAGGACTACA
130 TACCCCTAAAGGACTACA
* * * * * *
3737982 AAAT-GGGTGAACCTATCTTAAATACCCACCTTCGGC-TTAAAAGTGGACTCAGCGATAACCTAG
1 AAATGGGGAGAACCTATCCTAAATACCCACCTTCGGCATGAAAA-CGGACTCAGCGACAACCTAA
** * * *
3738045 GACTCGATTTTAAAAAAAAATTATGAAAATACCTTAAGAGGATACCTTCGACGTGAAATTATCCC
65 GACTCGATTTT--AAAAAAATTACAAAAACACCCTAAGAGGATACCTTCGACGTGAAAGTATCCC
**
3738110 GGTACCCCTAAAGGACT
128 AATACCCCTAAAGGACT
3738127 TAAAAAAGAC
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
144 5 0.04
145 53 0.44
146 4 0.03
147 3 0.02
148 56 0.46
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (147 bp):
AAATGGGGAGAACCTATCCTAAATACCCACCTTCGGCATGAAAACGGACTCAGCGACAACCTAAG
ACTCGATTTTAAAAAAATTACAAAAACACCCTAAGAGGATACCTTCGACGTGAAAGTATCCCAAT
ACCCCTAAAGGACTACA
Found at i:3738314 original size:155 final size:154
Alignment explanation
Indices: 3738035--3738443 Score: 473
Period size: 155 Copynumber: 2.6 Consensus size: 154
3738025 TGGACTCAGC
*
3738035 GATAACCTAGGACTCGATTTTAAAAAAAAATTATGAAAATACCTTAAGAGGATACCTTCGACGTG
1 GATAACCTAGGACTCGATTTT---AAAAAATTATAAAAATACCTT-AG-GGATACCTTCGACGTG
* * * * *
3738100 AAATTATCCCGGTACCCCTAAAGGACTTAAAAAAGACTATAAAAAGGATGAACCTATCCTAAATA
61 AAAGTATCTCGGTACCCCTAAAAGACTTAAAAAAGACTATAAAAAGGATAAACCCATCCTAAATA
* **
3738165 CCCACCTTCAATAAAAAAGCGA-ACTTGAT
126 CCCACCTTCAACAAAAAAG-GAGACCCGAT
* *
3738194 GATAACCTAGGACTCGATTTTAAAAAATTATAAAAATACCCCTAGGGATACCTTTGACGTGAAAG
1 GATAACCTAGGACTCGATTTTAAAAAATTATAAAAATA-CCTTAGGGATACCTTCGACGTGAAAG
* * * *
3738259 TATCTTGGTACCCCTAAAAGACTTAAAAAGGACTATAAAAGGGATAAACCCATCCTAAATACCTA
65 TATCTCGGTACCCCTAAAAGACTTAAAAAAGACTATAAAAAGGATAAACCCATCCTAAATACCCA
* * * *
3738324 CCTTCGACATAAAAGTAGACCCGGT
130 CCTTCAACAAAAAAGGAGACCCGAT
* * * * * *
3738349 GATAACCTAAGACTC-AGTTCTGAAAAATTATAAAAATGTCTTTAGGGGATACCTTCGATGTGAA
1 GATAACCTAGGACTCGA-TTTTAAAAAATTATAAAAAT-ACCTTA-GGGATACCTTCGACGTGAA
3738413 AGTATCTCGGTACCCCT-AAAGAACTTAAAAA
63 AGTATCTCGGTACCCCTAAAAG-ACTTAAAAA
3738444 TGTTGGCAAT
Statistics
Matches: 216, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
154 2 0.01
155 130 0.60
156 60 0.28
157 3 0.01
159 21 0.10
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (154 bp):
GATAACCTAGGACTCGATTTTAAAAAATTATAAAAATACCTTAGGGATACCTTCGACGTGAAAGT
ATCTCGGTACCCCTAAAAGACTTAAAAAAGACTATAAAAAGGATAAACCCATCCTAAATACCCAC
CTTCAACAAAAAAGGAGACCCGAT
Found at i:3739540 original size:10 final size:10
Alignment explanation
Indices: 3739525--3739560 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3739515 AGCTTGGTTT
3739525 TTTTTTTCTA
1 TTTTTTTCTA
*
3739535 TTTTTTCCTA
1 TTTTTTTCTA
*
3739545 TTTTCTTCTA
1 TTTTTTTCTA
3739555 TTTTTT
1 TTTTTT
3739561 GTTGCTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:3741816 original size:85 final size:85
Alignment explanation
Indices: 3741660--3741835 Score: 203
Period size: 85 Copynumber: 2.1 Consensus size: 85
3741650 GCCAATGGAC
* * * * * *
3741660 AGACAATTGATAAAGGGAGTCTCTCGGGACTGAGCCACCGAGTAGACGATTGATAAAAGAGCCTC
1 AGACGATTGATAAAGGAAGTCTCTCGAGACTGAGCCAACGAGCAGACGAATGATAAAAGAGCCTC
*
3741725 TTGGGTCTAAG-TCGACAGGA
66 TCGGGTCTAAGCT-GACAGGA
** * * *
3741745 AGACGATTGATAAAGGAAGTCTCTCGAGTTTGAGCCAACGGGCAGGCGAATGATGAAAA-AGTCT
1 AGACGATTGATAAAGGAAGTCTCTCGAGACTGAGCCAACGAGCAGACGAATGAT-AAAAGAGCCT
*
3741809 CTCGGGTCTAAGCTGACAGGT
65 CTCGGGTCTAAGCTGACAGGA
3741830 AGACGA
1 AGACGA
3741836 AAGATGATGA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 71 0.93
86 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (85 bp):
AGACGATTGATAAAGGAAGTCTCTCGAGACTGAGCCAACGAGCAGACGAATGATAAAAGAGCCTC
TCGGGTCTAAGCTGACAGGA
Found at i:3741858 original size:127 final size:126
Alignment explanation
Indices: 3741722--3742105 Score: 348
Period size: 127 Copynumber: 3.0 Consensus size: 126
3741712 ATAAAAGAGC
* * *
3741722 CTCTTGGGTCTAAGTCGACAGGAAGACGATTGATAAAGGAAGTCTCTCGAGTTTGAGCCAACGGG
1 CTCTCGGGTCTAAGACGACAGGAAGACGATTGATAAA-GAAGTCTCTCAAGTTTGAGCCAACGGG
** * * * *
3741787 CAGGCGAATGATGAAA-AAGTCTCTCGGGTCTAAGCTGACAGGTAGACGAAAGATGATGAAGT
65 CAGATGATTGAT-AAACGAGTCTCCCGGGTCTAAGCTGACAGGTAGACGAAAGATGAAGAAGT
* ** * * * *
3741849 CTCTCGGGTCTAA-ACTGACAAGCAA-ACGAAAGATGAA-AAGTCTCTCAAGTCTAAGCCAACGA
1 CTCTCGGGTCTAAGAC-GAC-AGGAAGACGATTGATAAAGAAGTCTCTCAAGTTTGAGCCAACGG
* * * * ** * *
3741911 GTAGATTATTGATAAAGGAGTCTCCCAGGTCTAAGCCAACAAGTAGAC-AAATGATTAAGAAGT
64 GCAGATGATTGATAAACGAGTCTCCCGGGTCTAAGCTGACAGGTAGACGAAA-GATGAAGAAGT
* * * * **
3741974 CTCTCAGGTCTAAGCCGATAGGGAGACGATTGATAAAGAAAGTCT-TCCAAGTTTGAGCTGACGG
1 CTCTCGGGTCTAAGACGACAGGAAGACGATTGATAAAG-AAGTCTCT-CAAGTTTGAGCCAACGG
* * * * *
3742038 GCAGATGATTGATAAACGAGTCTCCCGGGTCTAAACTGATAGGCAGATGAATGATGAAGAAGT
64 GCAGATGATTGATAAACGAGTCTCCCGGGTCTAAGCTGACAGGTAGACGAAAGATGAAGAAGT
3742101 CTCTC
1 CTCTC
3742106 TAAGCCGATG
Statistics
Matches: 198, Mismatches: 49, Indels: 20
0.74 0.18 0.07
Matches are distributed among these distances:
124 9 0.05
125 86 0.43
126 3 0.02
127 94 0.47
128 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (126 bp):
CTCTCGGGTCTAAGACGACAGGAAGACGATTGATAAAGAAGTCTCTCAAGTTTGAGCCAACGGGC
AGATGATTGATAAACGAGTCTCCCGGGTCTAAGCTGACAGGTAGACGAAAGATGAAGAAGT
Found at i:3742013 original size:42 final size:42
Alignment explanation
Indices: 3741660--3742150 Score: 193
Period size: 42 Copynumber: 11.8 Consensus size: 42
3741650 GCCAATGGAC
* * * * * *
3741660 AGACAATTGATAAAGGGAGTCTCTCGGGACTGAGCC-ACCGAGT
1 AGACGATTGATAAA-GAAGTCTCTCGGGTCTAAGCCGACAG-GG
* * * *
3741703 AGACGATTGATAAA-AGAGCCTCTTGGGTCTAAGTCGACAGGA
1 AGACGATTGATAAAGA-AGTCTCTCGGGTCTAAGCCGACAGGG
* * * *
3741745 AGACGATTGATAAAGGAAGTCTCTCGAGTTTGAGCCAAC-GGG
1 AGACGATTGATAAA-GAAGTCTCTCGGGTCTAAGCCGACAGGG
* * * *
3741787 CAGGCGAATGATGAAA-AAGTCTCTCGGGTCTAAGCTGACAGGT
1 -AGACGATTGAT-AAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
** * * * * * *
3741830 AGACGAAAGATGATGAAGTCTCTCGGGTCTAAACTGACAAGC
1 AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
* ** * ** * *
3741872 AAACGAAAGATGAA-AAGTCTCTCAAGTCTAAGCCAAC-GAGT
1 AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAG-GG
** * * * * * *
3741913 AGATTATTGATAAAGGAGTCTCCCAGGTCTAAGCCAACAAGT
1 AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
* * * * *
3741955 AGACAAATGATTAAGAAGTCTCTCAGGTCTAAGCCGATAGGG
1 AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
** * * *
3741997 AGACGATTGATAAAGAAAGTCT-TCCAAGTTTGAGCTGAC-GGG
1 AGACGATTGATAAAG-AAGTCTCT-CGGGTCTAAGCCGACAGGG
* * * * * *
3742039 CAGATGATTGATAAACG-AGTCTCCCGGGTCTAAACTGATAGGC
1 -AGACGATTGATAAA-GAAGTCTCTCGGGTCTAAGCCGACAGGG
* * * *
3742082 AGATGAATGATGAAGAAG--TCTC---TCTAAGCCGA-TGGG
1 AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
* *
3742118 CAAACGATTGATAAAGGAGTCTCTCGGGTCTAA
1 -AGACGATTGATAAAGAAGTCTCTCGGGTCTAA
3742151 ACCAAGAGGC
Statistics
Matches: 334, Mismatches: 90, Indels: 49
0.71 0.19 0.10
Matches are distributed among these distances:
36 2 0.01
37 21 0.06
39 4 0.01
40 3 0.01
41 29 0.09
42 197 0.59
43 73 0.22
44 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (42 bp):
AGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCGACAGGG
Found at i:3747260 original size:23 final size:24
Alignment explanation
Indices: 3747215--3747261 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
3747205 TAGAGAATTG
*
3747215 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
3747239 AACAC-AATTCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
3747262 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:3748640 original size:21 final size:21
Alignment explanation
Indices: 3748616--3748657 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3748606 AGCTATTTCT
* *
3748616 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
3748637 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
3748658 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:3749790 original size:34 final size:35
Alignment explanation
Indices: 3749752--3749818 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3749742 CCTTACAACA
3749752 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3749786 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3749819 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3750429 original size:20 final size:19
Alignment explanation
Indices: 3750374--3750429 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
3750364 ACATCTTTTT
*
3750374 CATGTATCGATACATTGCAA
1 CATGTATCGATAC-TTTCAA
3750394 CATGTATCGATACTTTCAAA
1 CATGTATCGATACTTTC-AA
*
3750414 CGTGTATCGATACTTT
1 CATGTATCGATACTTT
3750430 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (19 bp):
CATGTATCGATACTTTCAA
Found at i:3751973 original size:23 final size:23
Alignment explanation
Indices: 3751947--3751997 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
3751937 CTAACTGCAT
3751947 TTTTTCCATTTTTCCAT-TTTTTC
1 TTTTTCC-TTTTTCCATCTTTTTC
**
3751970 TTTTTCCTTTTTTTATCTTTTTC
1 TTTTTCCTTTTTCCATCTTTTTC
3751993 TTTTT
1 TTTTT
3751998 TTTTCTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCCTTTTTCCATCTTTTTC
Found at i:3751982 original size:16 final size:16
Alignment explanation
Indices: 3751963--3752004 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
3751953 CATTTTTCCA
3751963 TTTTTTCTTTTTCCTT
1 TTTTTTCTTTTTCCTT
*
3751979 TTTTTATCTTTTTCTTT
1 TTTTT-TCTTTTTCCTT
3751996 TTTTTTCTT
1 TTTTTTCTT
3752005 ATTTAGAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTCCTT
Found at i:3751983 original size:15 final size:15
Alignment explanation
Indices: 3751955--3751999 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
3751945 ATTTTTTCCA
*
3751955 TTTTTCCATTTTTTC
1 TTTTTCCTTTTTTTC
3751970 TTTTTCCTTTTTTTATC
1 TTTTTCC-TTTTTT-TC
3751987 TTTTT-CTTTTTTT
1 TTTTTCCTTTTTTT
3752000 TTCTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.04
15 13 0.48
16 6 0.22
17 7 0.26
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCCTTTTTTTC
Found at i:3751983 original size:17 final size:16
Alignment explanation
Indices: 3751963--3752004 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3751953 CATTTTTCCA
3751963 TTTTTTCTTTTTCCTTT
1 TTTTTTCTTTTT-CTTT
*
3751980 TTTTATCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
3751996 TTTTTTCTT
1 TTTTTTCTT
3752005 ATTTAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:3755537 original size:157 final size:155
Alignment explanation
Indices: 3755039--3755862 Score: 650
Period size: 156 Copynumber: 5.3 Consensus size: 155
3755029 CCCTATAGGT
* * * * * *
3755039 ATACATTCGACGTAAAAATATCTCGGCAACCCTT-AAGGACTTAAAAA-GACTAGAAAAAGGATG
1 ATACCTTCGACGTGAAAGTATCT-GG-TACCCTTAAAGGACTTAAAAATGACTATAAAAAGGGTG
*** * * * * ** * ***
3755102 AACCTATCCTAAATATTTA-CTTTCGACATAAATGTGGACCCGGTGACGACCTAGGATTTGGTTC
64 AACCTATCCTAAATACCCACCTTT-GGCATAAAAGCGGACCCGATGATAACCTAGGACTCAATTC
* *
3755166 TAAAAAATTACAAAAATATCCCTACAA-GT
128 TAAAAAATAACAAAAATATCCC--CAAGGA
* * * * * * *
3755195 ATACCTTCGATGTGAAAGTATCTTGGTAACCGTAAAGAACTGAAAAATGA-TAT-AGATGGGTTG
1 ATACCTTCGACGTGAAAGTATC-TGGTACCCTTAAAGGACTTAAAAATGACTATAAAAAGGG-TG
* * * **
3755258 AACCTATGCTAAATACCCACCTTTGGCATTAAAA-CGGA-CCTAGTGACAACCTAAAACTCAATT
64 AACCTATCCTAAATACCCACCTTTGGCA-TAAAAGCGGACCCGA-TGATAACCTAGGACTCAATT
* * * * *
3755321 TTAAAAAATTACAAAAATGTCCCTAAAGA
127 CTAAAAAATAACAAAAATATCCCCAAGGA
* * * * *
3755350 ATACCTTCAATGTGAAAGTATCTCGATACCCTTAAAGGACGTAAAAAGGACTATAAAAAGGGTGA
1 ATACCTTCGACGTGAAAGTATCT-GGTACCCTTAAAGGACTTAAAAATGACTATAAAAAGGGTGA
* * * **
3755415 ACGTATCCTAAATACCCA-TTTTCGGCATAAAAGCGGACCCGATGATAACCTAGGGCTTGATTCT
65 ACCTATCCTAAATACCCACCTTT-GGCATAAAAGCGGACCCGATGATAACCTAGGACTCAATTCT
3755479 AAAAAAATAACAAAAATATCCCCAAGGA
129 -AAAAAATAACAAAAATATCCCCAAGGA
* * * *
3755507 ATACCTTCGACGTGAAAGTATCCTAGTACCCTTAAAAGACTTAAAAATGACTATAAAAATGATGA
1 ATACCTTCGACGTGAAAGTAT-CTGGTACCCTTAAAGGACTTAAAAATGACTATAAAAAGGGTGA
* * *
3755572 ACCTATCCTAAATACCCACCCTTGGCATAAAAGCGGA-CCTAGTGGTAACCTAGGACTCAATTCT
65 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGA-TGATAACCTAGGACTCAATTCT
** * ** *
3755636 AAAAAATAATGAAAAT-GCCCCTTGGGG
129 AAAAAATAACAAAAATATCCCC-AAGGA
*
3755663 ATACCTTCGACGTGAAAGTATCTCGGTACCCTTAAAGGACTTAAAAAAGACTAT-AAAAGGGATG
1 ATACCTTCGACGTGAAAGTATCT-GGTACCCTTAAAGGACTTAAAAATGACTATAAAAAGGG-TG
* * * * * * * ** *
3755727 AACATATCCTAAATACCCACATTTGGTATAAAAACAGACCCGATGATATCCTAGAACTCGGTTTT
64 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGATGATAACCTAGGACTCAATTCT
* * ** * **
3755792 GAAAAATTATGAAAAT-GCCCTTAGG-
129 AAAAAATAACAAAAATATCCCCAAGGA
* * *
3755817 ATACCTTCGACGTAAAAGTATCCCGGTACCCCTAAAGGACTTAAAA
1 ATACCTTCGACGTGAAAGTAT-CTGGTACCCTTAAAGGACTTAAAA
3755863 GGGTTGGCAA
Statistics
Matches: 539, Mismatches: 106, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
154 44 0.08
155 74 0.14
156 270 0.50
157 147 0.27
158 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (155 bp):
ATACCTTCGACGTGAAAGTATCTGGTACCCTTAAAGGACTTAAAAATGACTATAAAAAGGGTGAA
CCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGATGATAACCTAGGACTCAATTCTAA
AAAATAACAAAAATATCCCCAAGGA
Found at i:3755669 original size:313 final size:310
Alignment explanation
Indices: 3755067--3755780 Score: 810
Period size: 313 Copynumber: 2.3 Consensus size: 310
3755057 TATCTCGGCA
* * * *** * *
3755067 ACCCTT-AAGGACTTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATATTTACTTTCGACAT
1 ACCCTTAAAGGACTTAAAAAGACTATAAAAAGGGTGAACATATCCTAAATACCCAATTTCGGCAT
* * * ** * * * *
3755131 AAATGTGGACCCGGTGACGACCTAGGATTTGGTTCTAAAAAATTACAAAAATATCCCTACAAGTA
66 AAAAGCGGACCCGATGATAACCTAGGACTTGATTCTAAAAAATAACAAAAATATCCC-ACAAGAA
* * * * ** *
3755196 TACCTTCGATGTGAAAGTATCTTGGTAACCGTAAAGAACTGAAAAATGATATAGATGGGTTGAAC
130 TACCTTCGACGTGAAAGTATCCTAGTAACCGTAAAGAACTGAAAAATGATATAAAAAGGATGAAC
* * *
3755261 CTATGCTAAATACCCACCTTTGGCATTAAAACGGACCTAGTGACAACCTAAAACTCAATTTTAAA
195 CTATCCTAAATACCCACCCTTGGCATTAAAACGGACCTAGTGACAACCTAAAACTCAATTCTAAA
* * *
3755326 AAATTACAAAAATGTCCCTAAAGAATACCTTCAATGTGAAAGTATCTCGAT
260 AAATAACAAAAATGCCCCTAAAGAATACCTTCAACGTGAAAGTATCTCGAT
* * *
3755377 ACCCTTAAAGGACGTAAAAAGGACTATAAAAAGGGTGAACGTATCCTAAATACCCATTTTCGGCA
1 ACCCTTAAAGGACTTAAAAA-GACTATAAAAAGGGTGAACATATCCTAAATACCCAATTTCGGCA
*
3755442 TAAAAGCGGACCCGATGATAACCTAGGGCTTGATTCTAAAAAAATAACAAAAATATCCC-CAAGG
65 TAAAAGCGGACCCGATGATAACCTAGGACTTGATTCT-AAAAAATAACAAAAATATCCCACAA-G
* * * *
3755506 AATACCTTCGACGTGAAAGTATCCTAGTACCCTTAAA-AGACTTAAAAATGACTATAAAAATGAT
128 AATACCTTCGACGTGAAAGTATCCTAGTAACCGTAAAGA-ACTGAAAAATGA-TATAAAAAGGAT
** **
3755570 GAACCTATCCTAAATACCCACCCTTGGCA-TAAAAGCGGACCTAGTGGTAACCTAGGACTCAATT
191 GAACCTATCCTAAATACCCACCCTTGGCATTAAAA-CGGACCTAGTGACAACCTAAAACTCAATT
** *** * * *
3755634 CTAAAAAATAATGAAAATGCCCCTTGGGGATACCTTCGACGTGAAAGTATCTCGGT
255 CTAAAAAATAACAAAAATGCCCCTAAAGAATACCTTCAACGTGAAAGTATCTCGAT
3755690 ACCCTTAAAGGACTTAAAAAAGACTAT-AAAAGGGATGAACATATCCTAAATACCCACATTT-GG
1 ACCCTTAAAGGACTT-AAAAAGACTATAAAAAGGG-TGAACATATCCTAAATACCCA-ATTTCGG
* * * *
3755753 TATAAAAACAGACCCGATGATATCCTAG
63 CATAAAAGCGGACCCGATGATAACCTAG
3755781 AACTCGGTTT
Statistics
Matches: 339, Mismatches: 55, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
310 6 0.02
311 16 0.05
312 120 0.35
313 189 0.56
314 8 0.02
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (310 bp):
ACCCTTAAAGGACTTAAAAAGACTATAAAAAGGGTGAACATATCCTAAATACCCAATTTCGGCAT
AAAAGCGGACCCGATGATAACCTAGGACTTGATTCTAAAAAATAACAAAAATATCCCACAAGAAT
ACCTTCGACGTGAAAGTATCCTAGTAACCGTAAAGAACTGAAAAATGATATAAAAAGGATGAACC
TATCCTAAATACCCACCCTTGGCATTAAAACGGACCTAGTGACAACCTAAAACTCAATTCTAAAA
AATAACAAAAATGCCCCTAAAGAATACCTTCAACGTGAAAGTATCTCGAT
Found at i:3756991 original size:11 final size:10
Alignment explanation
Indices: 3756957--3756991 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
3756947 GCTAGCTTGG
3756957 TTTTTTTCTA
1 TTTTTTTCTA
*
3756967 TTTTTTCCTA
1 TTTTTTTCTA
*
3756977 TTTTCTTCTA
1 TTTTTTTCTA
3756987 TTTTT
1 TTTTT
3756992 CCCTTGCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:3757767 original size:166 final size:163
Alignment explanation
Indices: 3757560--3758139 Score: 523
Period size: 166 Copynumber: 3.5 Consensus size: 163
3757550 GTTCAATGAC
* * ** * * * *
3757560 AATATTAGATACATTTTAAAAATTTTAGACCAAAGAAAATCCCTTCGAAAATATTTATAGATTAG
1 AATATTTGATAAATTTTAAAAATTAAAAACCAGA-AAAATCCCCTCGAAAA-ATTTA-AGAGTAG
* * *
3757625 AAAACTCGATTTTTTTAAAAAAATAGAGATTTCAAAGAAAAAA-TAAAAAACTCTTGAAAATGAA
63 AAAACTCG--TATTTCAAAAAAATAGAGATTTCAAAGAAAAAAGTCAAAAACTCTTGAAAATGAA
* * *
3757689 TGAATTTTTAAAAATTGAATTATTATGAAATAAATAAT
126 TGAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
* * * *
3757727 AATGTTTGATGAATTTTAAAAATT-AAAACCGAGAAAAATCCCCTCGAAGAATTTAAAAAGTAGA
1 AATATTTGATAAATTTTAAAAATTAAAAACC-AGAAAAATCCCCTCGAAAAATTT-AAGAGTAGA
* * *
3757791 AAACATCGTATTTCGAAAAAAT-GAGAGTTTC-AAGAAAAAAGTCAAAAACTCATGAAAATAAAT
64 AAAC-TCGTATTTCAAAAAAATAGAGA-TTTCAAAGAAAAAAGTCAAAAACTCTTGAAAATGAAT
* *
3757854 GAATTTTTGAAAACTGAATTACTATGAAATAAATGAT
127 GAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
* * * *
3757891 AATATTTTATAAAATTTT-AAAATTAAAAACCAAAAAATATCCCCTCCAAAAAATTTACGAAGTA
1 AATATTTGAT-AAATTTTAAAAATTAAAAACCAGAAAA-ATCCCCT-CGAAAAATTTAAG-AGTA
* * * * *
3757955 GAAAA-TAACGTATTTCAGAAAAAGAG-GATTTCAAGGAAAAAATTCAAAAA-TTTATGAAAATG
62 GAAAACT--CGTATTTCAAAAAAATAGAGATTTCAAAGAAAAAAGTCAAAAACTCT-TGAAAATG
* * * * * *
3758017 AATGGATTTTTGAGAACGGATTTAATATGAATTAAATAAC
124 AATGAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
* * *
3758057 AATATTTGATTAATTTTAAAAATTAAAAACCA-AGAAAATCCTCCT-GAAAAAATTTATGAAGAA
1 AATATTTGATAAATTTTAAAAATTAAAAACCAGA-AAAATCC-CCTCG-AAAAATTTAAG-AGTA
*
3758120 GAAAACTCGTAATTTGAAAA
62 GAAAACTCGT-ATTTCAAAA
3758140 CAGAAGAAAT
Statistics
Matches: 340, Mismatches: 52, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
163 13 0.04
164 90 0.26
165 76 0.22
166 138 0.41
167 23 0.07
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (163 bp):
AATATTTGATAAATTTTAAAAATTAAAAACCAGAAAAATCCCCTCGAAAAATTTAAGAGTAGAAA
ACTCGTATTTCAAAAAAATAGAGATTTCAAAGAAAAAAGTCAAAAACTCTTGAAAATGAATGAAT
TTTTGAAAACTGAATTAATATGAAATAAATAAT
Found at i:3757849 original size:164 final size:165
Alignment explanation
Indices: 3757642--3758095 Score: 528
Period size: 166 Copynumber: 2.7 Consensus size: 165
3757632 GATTTTTTTA
* * * *
3757642 AAAAAAT-AGAGATTTCAAAGAAAAAATAAAAAACTCTTGAAAATGAATGAATTTTTAAAAATTG
1 AAAAAATGAGAGATTTC-AAGAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTG
* * *
3757706 AATTATTATGAAATAAATAATAATGTTTGATGAATTTTAAAAATT-AAAACCGAGAAAA-ATCCC
65 AATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACC-AGAAAATATCCC
* * *
3757769 CT-CGAAGAATTTAAAAAGTAGAAAACATCGTATTTC
129 CTCCAAAAAATTTAAAAAGTAGAAAACAACGTATTTC
*
3757805 GAAAAAATGAGAG-TTTCAAGAAAAAAGTCAAAAACTCATGAAAATAAATGAATTTTTGAAAACT
1 -AAAAAATGAGAGATTTCAAGAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTTTGAAAACT
* * * *
3757869 GAATTACTATGAAATAAATGATAATATTTTATAAAATTTT-AAAATTAAAAACCAAAAAATATCC
64 GAATTAATATGAAATAAATAATAATATTTGAT-AAATTTTAAAAATTAAAAACCAGAAAATATCC
** *
3757933 CCTCCAAAAAATTTACGAAGTAGAAAATAACGTATTTC
128 CCTCCAAAAAATTTAAAAAGTAGAAAACAACGTATTTC
* * * *
3757971 AGAAAAA-GAG-GATTTCAAGGAAAAAATTCAAAAATTTATGAAAATGAATGGATTTTTGAGAAC
1 A-AAAAATGAGAGATTTCAA-GAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTTTGAAAAC
* * * * *
3758034 GGATTTAATATGAATTAAATAACAATATTTGATTAATTTTAAAAATTAAAAACCAAGAAAAT
63 TGAATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACC-AGAAAAT
3758096 CCTCCTGAAA
Statistics
Matches: 247, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
163 9 0.04
164 83 0.34
165 39 0.16
166 110 0.45
167 6 0.02
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (165 bp):
AAAAAATGAGAGATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGA
ATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAGAAAATATCCCCT
CCAAAAAATTTAAAAAGTAGAAAACAACGTATTTC
Found at i:3770837 original size:160 final size:162
Alignment explanation
Indices: 3770448--3770846 Score: 438
Period size: 159 Copynumber: 2.5 Consensus size: 162
3770438 ATTAATTTCA
** * *
3770448 TACCTTAATGGAAACCCGAAAAGATATG-AATTTTTTTTAA-AT-CTTTATACCCTTACAG-ACC
1 TACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTTAAGATCCTTTATACCCTTATAGAAAC
* * * * ** **
3770509 CCATGGGCATATAAAAGATTAAAAAGATTAATGTTTCTTTTGGTTATGTAAGTATTAATTTTATT
66 CCATAGGAATATAAAAGATTAAAAAGATTAATATTTATTTTAATTATGTAAGTATTAATTCAATT
* **
3770574 TTATTTATTCGTCTTTAAAGAAATACCTTTTTG
131 TTATTTATTC-TCTTTAAAGAAATACCATTCCG
* ** * ** * * *
3770607 TACTTTAATGGATGCCTGAAGCGATACGAAAAG-TTTTTAAGATCCTTTATACCCTTATGGACAC
1 TACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTTAAGATCCTTTATACCCTTATAGAAAC
* *
3770671 CCATAGGAATATAAAAGATTAAAAATGATTAATATTTATTTTAATTATGTGAGTGTTAATTCAAT
66 CCATAGGAATATAAAAGATTAAAAA-GATTAATATTTATTTTAATTATGTAAGTATTAATTCAA-
* *
3770736 TTTTATTTA-T-T-TTTGAA-AAATATCATTCCG
129 TTTTATTTATTCTCTTTAAAGAAATACCATTCCG
* *
3770766 TACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTTAAGATCCTTTATACCCCTATAGAAAA
1 TACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTTAAGATCCTTTATACCCTTATAGAAAC
3770831 CCATAGGAATATAAAA
66 CCATAGGAATATAAAA
3770847 ATATGACTCG
Statistics
Matches: 194, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
159 63 0.32
160 52 0.27
161 15 0.08
162 24 0.12
163 31 0.16
164 9 0.05
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (162 bp):
TACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTTAAGATCCTTTATACCCTTATAGAAAC
CCATAGGAATATAAAAGATTAAAAAGATTAATATTTATTTTAATTATGTAAGTATTAATTCAATT
TTATTTATTCTCTTTAAAGAAATACCATTCCG
Found at i:3774248 original size:20 final size:20
Alignment explanation
Indices: 3774194--3774249 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
3774184 ATATAATAAG
3774194 TGATGTATCGATACACTGCA
1 TGATGTATCGATACACTGCA
* ** *
3774214 AGCATGTATTAATACACT-TA
1 TG-ATGTATCGATACACTGCA
3774234 TTGATGTATCGATACA
1 -TGATGTATCGATACA
3774250 ATTTTTTCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
TGATGTATCGATACACTGCA
Found at i:3775011 original size:28 final size:28
Alignment explanation
Indices: 3774971--3775028 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
3774961 TTTCGAAAGG
* * *
3774971 TTTGAGTGCCACCAGCTTATGTGGGCTT
1 TTTGAGTGCCACCAACTCATATGGGCTT
* *
3774999 TTTGGGTGTCACCAACTCATATGGGCTT
1 TTTGAGTGCCACCAACTCATATGGGCTT
3775027 TT
1 TT
3775029 GGGAAGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (28 bp):
TTTGAGTGCCACCAACTCATATGGGCTT
Found at i:3775143 original size:67 final size:67
Alignment explanation
Indices: 3774957--3775162 Score: 184
Period size: 67 Copynumber: 3.1 Consensus size: 67
3774947 AGGTCCTATG
* * * * * *
3774957 GGCTTTTCGAAAGGTTTGAGTGCCACCAGCTTATGTGGG-CTTTTTGGG-T-GTCACCAACTCAT
1 GGCTTTTAGGAAGGTTTGAATGCCACCAACTTATGTGGGCCTTTTTGGGATACT-GCCAACTCAT
***
3775019 ATG
65 GCA
* * * *
3775022 GGCTTTTGGGAAGGTTTGAGTGCCACCAACTTATGTGGGCCTTTTTGGGGTACTGTCAACTCATG
1 GGCTTTTAGGAAGGTTTGAATGCCACCAACTTATGTGGGCCTTTTTGGGATACTGCCAACTCATG
3775087 CA
66 CA
* *** * *** *
3775089 GGTTTTTAGGAAGGTTTGAATGCTGTCAACTTATGTGGGCTTTTTTTTTATACTGCCAACTTATG
1 GGCTTTTAGGAAGGTTTGAATGCCACCAACTTATGTGGGCCTTTTTGGGATACTGCCAACTCATG
3775154 CA
66 CA
3775156 GGCTTTT
1 GGCTTTT
3775163 GAAAGGATGC
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
65 36 0.31
66 9 0.08
67 69 0.60
68 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.37
Consensus pattern (67 bp):
GGCTTTTAGGAAGGTTTGAATGCCACCAACTTATGTGGGCCTTTTTGGGATACTGCCAACTCATG
CA
Found at i:3775748 original size:142 final size:143
Alignment explanation
Indices: 3775367--3775779 Score: 424
Period size: 142 Copynumber: 2.9 Consensus size: 143
3775357 GACTCTGATG
* * *
3775367 AATTTGGTGCCCACTAGTATTGGCGGGCTTTAA-AAGAAGATTAGGTGCCACCAGCTGGTGTAGG
1 AATTTGGTG-CCACAAGTATTGGTGGGCTTTAAGAA-AAGATTAGGTGCCACCAGCTCGTGT-GG
* * *
3775431 CTTTTTTGG-GAAAAAAATTTGGAGGATTGAGATTTACTCCACTAGGGATCAACATGACTGTGAT
63 GTTTTTTGGAAAAAAAAATTTGGAGGATTGAGATTTACTCCACTAAGGATCAACATGAC--TGAT
* * *
3775495 AAATGTTTGGCTTTGACA
126 AAATCTCTGGCTCTGACA
* * **
3775513 AATTTGGTGCCACCAA-TATTGGTGGGCTTTGAGAAAAGATTAAGTGCCACTTGCTCGTGTGGGT
1 AATTTGGTGCCA-CAAGTATTGGTGGGCTTTAAGAAAAGATTAGGTGCCACCAGCTCGTGTGGGT
** * * * * * *
3775577 TTTTTAAAAAAATAATAATTTAGAAGATTGAAATTTACTCTACTAAGGATTAAC-T-A-TGATAG
65 TTTTTGGAAAAA-AA-AATTTGGAGGATTGAGATTTACTCCACTAAGGATCAACATGACTGATAA
*
3775639 GTCTCTGGCTCTGACA
128 ATCTCTGGCTCTGACA
* * * *
3775655 AATTTGGTGCCACAAGCATTGGTGGGCTTTAAGAAAAGATTGGGTGCCACCAACTTGTGTGGGTT
1 AATTTGGTGCCACAAGTATTGGTGGGCTTTAAGAAAAGATTAGGTGCCACCAGCTCGTGTGGG-T
* * **
3775720 TTTTTGGAAAAAAAAGATTTGGAGGATTGAGATTTACTCCATTAGGGATTGACATGACTG
65 TTTTTGGAAAAAAAA-ATTTGGAGGATTGAGATTTACTCCACTAAGGATCAACATGACTG
3775780 TGATAAGTGT
Statistics
Matches: 217, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
141 4 0.02
142 100 0.46
143 12 0.06
144 9 0.04
145 44 0.20
146 16 0.07
147 32 0.15
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (143 bp):
AATTTGGTGCCACAAGTATTGGTGGGCTTTAAGAAAAGATTAGGTGCCACCAGCTCGTGTGGGTT
TTTTGGAAAAAAAAATTTGGAGGATTGAGATTTACTCCACTAAGGATCAACATGACTGATAAATC
TCTGGCTCTGACA
Found at i:3775906 original size:29 final size:29
Alignment explanation
Indices: 3775853--3776002 Score: 150
Period size: 29 Copynumber: 5.2 Consensus size: 29
3775843 CATTGATTCA
*
3775853 TGAGCTTT-AAAA-GGATGCCATTAACTTG
1 TGAGCTTTAAAAATGG-TGCCACTAACTTG
* *
3775881 TGAGTTTTGAAAA-GAGTGCCACTAACTTG
1 TGAGCTTTAAAAATG-GTGCCACTAACTTG
* *
3775910 TG-GACTTTGAAAA-GGTGCCACTGACTTG
1 TGAG-CTTTAAAAATGGTGCCACTAACTTG
*
3775938 T-AGGCTTTAAAAATGGTGCCACTGACTTG
1 TGA-GCTTTAAAAATGGTGCCACTAACTTG
*
3775967 TGGGCTTTAAAAATGGTGCCACTAACTTG
1 TGAGCTTTAAAAATGGTGCCACTAACTTG
*
3775996 TGGGCTT
1 TGAGCTT
3776003 AAGAAGATTT
Statistics
Matches: 108, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
28 30 0.28
29 77 0.71
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (29 bp):
TGAGCTTTAAAAATGGTGCCACTAACTTG
Found at i:3775929 original size:57 final size:57
Alignment explanation
Indices: 3775857--3776002 Score: 165
Period size: 57 Copynumber: 2.5 Consensus size: 57
3775847 GATTCATGAG
* * *
3775857 CTTTAAAAGGATGCCATTAACTTGTGA-GTTTTGAAAA-GAGTGCCACTAACTTGTGGA
1 CTTTAAAAGG-TGCCACTAACTTGTGAGGCTTTAAAAATG-GTGCCACTAACTTGTGGA
* * *
3775914 CTTTGAAAAGGTGCCACTGACTTGT-AGGCTTTAAAAATGGTGCCACTGACTTGTGGG
1 CTTT-AAAAGGTGCCACTAACTTGTGAGGCTTTAAAAATGGTGCCACTAACTTGTGGA
3775971 CTTTAAAAATGGTGCCACTAACTTGTG-GGCTT
1 CTTT-AAAA-GGTGCCACTAACTTGTGAGGCTT
3776003 AAGAAGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
56 1 0.01
57 48 0.63
58 27 0.36
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (57 bp):
CTTTAAAAGGTGCCACTAACTTGTGAGGCTTTAAAAATGGTGCCACTAACTTGTGGA
Found at i:3776340 original size:12 final size:12
Alignment explanation
Indices: 3776311--3776392 Score: 92
Period size: 12 Copynumber: 6.6 Consensus size: 12
3776301 GATGAAATGC
*
3776311 TCTTGACACAAGT
1 TCTTGACA-AAAT
3776324 TCTTGACAAAAT
1 TCTTGACAAAAT
3776336 TCTTGACAAAAT
1 TCTTGACAAAAT
*
3776348 TCTTGACAAAGT
1 TCTTGACAAAAT
* *
3776360 TTTTGAGAAACAT
1 TCTTGACAAA-AT
*
3776373 TCTCGACAAAAGT
1 TCTTGACAAAA-T
3776386 TCTTGAC
1 TCTTGAC
3776393 GATAGTTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
12 35 0.60
13 23 0.40
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (12 bp):
TCTTGACAAAAT
Found at i:3776399 original size:13 final size:14
Alignment explanation
Indices: 3776372--3776423 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
3776362 TTGAGAAACA
* *
3776372 TTCTCGACAAAAG-
1 TTCTTGACAATAGT
*
3776385 TTCTTGACGATAGT
1 TTCTTGACAATAGT
3776399 TTCTTGACAATAGT
1 TTCTTGACAATAGT
3776413 TTCTTGACAAT
1 TTCTTGACAAT
3776424 GGCACTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.29
14 24 0.71
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (14 bp):
TTCTTGACAATAGT
Found at i:3776404 original size:14 final size:14
Alignment explanation
Indices: 3776311--3776423 Score: 75
Period size: 12 Copynumber: 8.7 Consensus size: 14
3776301 GATGAAATGC
3776311 TCTTGACACA-AG-T
1 TCTTGACA-ATAGTT
*
3776324 TCTTGACAA-A-AT
1 TCTTGACAATAGTT
*
3776336 TCTTGACAA-A-AT
1 TCTTGACAATAGTT
3776348 TCTTGACAA-AGTT
1 TCTTGACAATAGTT
* **
3776361 T-TTGAGAA-ACAT
1 TCTTGACAATAGTT
* *
3776373 TCTCGACAAAAG-T
1 TCTTGACAATAGTT
*
3776386 TCTTGACGATAGTT
1 TCTTGACAATAGTT
3776400 TCTTGACAATAGTT
1 TCTTGACAATAGTT
3776414 TCTTGACAAT
1 TCTTGACAAT
3776424 GGCACTTTGA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
12 34 0.40
13 25 0.30
14 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (14 bp):
TCTTGACAATAGTT
Found at i:3776433 original size:28 final size:28
Alignment explanation
Indices: 3776409--3776475 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
3776399 TTCTTGACAA
*
3776409 TAGTTTCTTGACAATGGCACTTTGATAG
1 TAGTTTCTTGAAAATGGCACTTTGATAG
3776437 TAGTTTCTTGAAAATGGCACTTTGATAG
1 TAGTTTCTTGAAAATGGCACTTTGATAG
3776465 TAGTTTCTTGA
1 TAGTTTCTTGA
3776476 TAAAAAAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (28 bp):
TAGTTTCTTGAAAATGGCACTTTGATAG
Found at i:3784822 original size:19 final size:18
Alignment explanation
Indices: 3784797--3784861 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
3784787 ATTTCAACGA
3784797 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3784815 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3784831 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3784847 TTTTGTATCGATACA
1 -TTTGTATCGATACA
3784862 ATATATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3784835 original size:32 final size:32
Alignment explanation
Indices: 3784799--3784869 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
3784789 TTCAACGATT
3784799 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3784831 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3784863 TATATCG
1 TGTATCG
3784870 CTATGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3784836 original size:13 final size:13
Alignment explanation
Indices: 3784818--3784842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3784808 ACATAAGTGT
3784818 TGTATCGATACAA
1 TGTATCGATACAA
3784831 TGTATCGATACA
1 TGTATCGATACA
3784843 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3784974 original size:52 final size:52
Alignment explanation
Indices: 3784893--3785042 Score: 255
Period size: 52 Copynumber: 2.9 Consensus size: 52
3784883 GCCAAGAAAG
* *
3784893 TGTATCGATACATTACTCAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTA-TGAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
3784946 TGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
3784998 TGTATCGATACACTATGAAATGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
3785043 TCATATTTCG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 78 0.85
53 14 0.15
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3787190 original size:24 final size:26
Alignment explanation
Indices: 3787163--3787216 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
3787153 TCAAAATTTT
3787163 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
3787187 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
3787214 ATT
1 ATT
3787217 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:3787380 original size:20 final size:20
Alignment explanation
Indices: 3787355--3787394 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3787345 CAATTATGAG
3787355 ATACATTACGATCATTTTCT
1 ATACATTACGATCATTTTCT
3787375 ATACATTACGATCATTTTCT
1 ATACATTACGATCATTTTCT
3787395 TTCTTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (20 bp):
ATACATTACGATCATTTTCT
Found at i:3788606 original size:66 final size:66
Alignment explanation
Indices: 3788500--3788624 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
3788490 CATCTGGTCA
**
3788500 TGTGACTCCTTAAACATTAGCTAAAGTTGCTCAATACGAGCTTCATAATCATTCTCCATTGCATC
1 TGTGACTCCTTAAACATTAGCTAAAGTCACTCAATACGAGCTTCATAATCATTCTCCATTGCATC
3788565 G
66 G
* * *
3788566 TGTGATTCCTTAAAGATTAGCTAAAGTCACTCAATACGAGCTTCATGATCATTCTCCAT
1 TGTGACTCCTTAAACATTAGCTAAAGTCACTCAATACGAGCTTCATAATCATTCTCCAT
3788625 GATTTGCTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (66 bp):
TGTGACTCCTTAAACATTAGCTAAAGTCACTCAATACGAGCTTCATAATCATTCTCCATTGCATC
G
Found at i:3795549 original size:20 final size:20
Alignment explanation
Indices: 3795517--3795570 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
3795507 AATTTCTTGC
3795517 ATGTATC-ATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
3795536 ATGTATCGATACATTGAAGG
1 ATGTATCGATACATTGAAGA
3795556 ATGTATCGATACATT
1 ATGTATCGATACATT
3795571 TGGGTCAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:3795616 original size:20 final size:19
Alignment explanation
Indices: 3795591--3795661 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
3795581 ACCCAAAATA
*
3795591 TATCGATACAATAAGTGATG
1 TATCGATACATTAAGT-ATG
3795611 TATCGATACATTGCAAGTATG
1 TATCGATACATT--AAGTATG
* * *
3795632 TATCAATACATTCACTCATG
1 TATCGATACATTAAGT-ATG
3795652 TATCGATACA
1 TATCGATACA
3795662 GTTTTTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 23 0.53
21 14 0.33
22 4 0.09
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (19 bp):
TATCGATACATTAAGTATG
Found at i:3800712 original size:19 final size:18
Alignment explanation
Indices: 3800687--3800751 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
3800677 ATTTCAATGA
3800687 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3800705 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3800721 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3800737 TTTTGTATCGATACA
1 -TTTGTATCGATACA
3800752 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3800726 original size:13 final size:13
Alignment explanation
Indices: 3800708--3800732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3800698 ACATAAGTGT
3800708 TGTATCGATACAA
1 TGTATCGATACAA
3800721 TGTATCGATACA
1 TGTATCGATACA
3800733 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3800730 original size:32 final size:32
Alignment explanation
Indices: 3800689--3800759 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
3800679 TTCAATGATT
3800689 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3800721 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3800753 TGTATCG
1 TGTATCG
3800760 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3800881 original size:52 final size:52
Alignment explanation
Indices: 3800837--3800965 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
3800827 CACTGATCTT
3800837 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
3800889 TATATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
3800941 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3800966 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:3804325 original size:91 final size:90
Alignment explanation
Indices: 3804144--3804340 Score: 225
Period size: 91 Copynumber: 2.2 Consensus size: 90
3804134 TAAATGAATT
* * * *
3804144 GATACAATG-CATGAATGTATCGATACATCTGTTGGCATTAACTAAGGAAATCCTGAAACCTTAT
1 GATACAA-GACAT-AATATATCGATACATCTATTGGCAGTAACTAAGCAAATCCTGAAACCTTAT
* *
3804208 TTGAATTAATACATCTCCAAATATATC
64 TTCAATCAATACATCTCCAAATATATC
* * *
3804235 GATACAAGACATAATATATCGATACATCTATTGGTAGTAGCTAAGCAAATCTTGAAACTCTTATT
1 GATACAAGACATAATATATCGATACATCTATTGGCAGTAACTAAGCAAATCCTGAAAC-CTTATT
* * **
3804300 TCTATCATTGTATCTCCAAATATATC
65 TCAATCAATACATCTCCAAATATATC
* *
3804326 AATACAAGATATAAT
1 GATACAAGACATAAT
3804341 GCATTGATGT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 40 0.45
91 49 0.55
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (90 bp):
GATACAAGACATAATATATCGATACATCTATTGGCAGTAACTAAGCAAATCCTGAAACCTTATTT
CAATCAATACATCTCCAAATATATC
Found at i:3806525 original size:24 final size:24
Alignment explanation
Indices: 3806497--3806545 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3806487 AGAAAAATAC
3806497 AAACTTGCATAACTCATTCTTAAG
1 AAACTTGCATAACTCATTCTTAAG
3806521 AAACTTGCATAACTCATTCTTAAG
1 AAACTTGCATAACTCATTCTTAAG
3806545 A
1 A
3806546 TTTATACAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (24 bp):
AAACTTGCATAACTCATTCTTAAG
Found at i:3809280 original size:17 final size:17
Alignment explanation
Indices: 3809258--3809291 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3809248 AAAATATACA
3809258 AAAGAGTTACTCATAAG
1 AAAGAGTTACTCATAAG
3809275 AAAGAGTTACTCATAAG
1 AAAGAGTTACTCATAAG
3809292 GCTCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
AAAGAGTTACTCATAAG
Found at i:3810389 original size:48 final size:47
Alignment explanation
Indices: 3810317--3810496 Score: 179
Period size: 48 Copynumber: 3.8 Consensus size: 47
3810307 CGATACTTTG
* * * *
3810317 AATATTGTATC-ATACATAT-GGGTTTTCTAGAACGTACTAATACTCTA
1 AATAATGTATCGATACATCTAGGTTTTTC-AGAATGTACTAATACT-TA
*
3810364 AATAATGTATCGATACATCTAGGTTTTTCAGAATGTACCAATACTTTA
1 AATAATGTATCGATACATCTAGGTTTTTCAGAATGTACTAATAC-TTA
* * *
3810412 AATAATGTATCGATATATCTGGGTTTTTCAGAATGTA-TCAATACATTG
1 AATAATGTATCGATACATCTAGGTTTTTCAGAATGTACT-AATAC-TTA
* * *
3810460 AATAATATATCAATACATCTA-GATTTTCTAGAATGTA
1 AATAATGTATCGATACATCTAGGTTTTTC-AGAATGTA
3810497 TCAATACATG
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
47 16 0.14
48 89 0.79
49 8 0.07
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (47 bp):
AATAATGTATCGATACATCTAGGTTTTTCAGAATGTACTAATACTTA
Found at i:3810476 original size:96 final size:95
Alignment explanation
Indices: 3810309--3810503 Score: 227
Period size: 96 Copynumber: 2.0 Consensus size: 95
3810299 TTTTATATCG
* * *
3810309 ATACTTTGAATATTGTATCATACATATGGGTTTTCTAGAACGTACTAATACTCTAAATAATGTAT
1 ATACTTTAAATAATGTATCATACATATGGGTTTTCTAGAACGTACTAATACTCTAAATAATATAT
* *
3810374 CGATACATCTAGGTTTT-TCAGAATGTACCA
66 CAATACATCTAGATTTTCT-AGAATGTACCA
* * * *
3810404 ATACTTTAAATAATGTATCGATATATCTGGGTTTT-TCAGAATGTA-TCAATACAT-TGAATAAT
1 ATACTTTAAATAATGTATC-ATACATATGGGTTTTCT-AGAACGTACT-AATAC-TCTAAATAAT
*
3810466 ATATCAATACATCTAGATTTTCTAGAATGTATCA
62 ATATCAATACATCTAGATTTTCTAGAATGTACCA
3810500 ATAC
1 ATAC
3810504 ATGTTTTCTA
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
95 19 0.22
96 64 0.75
97 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (95 bp):
ATACTTTAAATAATGTATCATACATATGGGTTTTCTAGAACGTACTAATACTCTAAATAATATAT
CAATACATCTAGATTTTCTAGAATGTACCA
Found at i:3810497 original size:48 final size:48
Alignment explanation
Indices: 3810362--3810505 Score: 200
Period size: 48 Copynumber: 3.0 Consensus size: 48
3810352 ACTAATACTC
* *
3810362 TAAATAATGTATCGATACATCTAGGTTTTTCAGAATGTACCAATACTT
1 TAAATAATGTATCGATACATCTAGGTTTTTCAGAATGTATCAATACAT
* *
3810410 TAAATAATGTATCGATATATCTGGGTTTTTCAGAATGTATCAATACAT
1 TAAATAATGTATCGATACATCTAGGTTTTTCAGAATGTATCAATACAT
* * * *
3810458 TGAATAATATATCAATACATCTA-GATTTTCTAGAATGTATCAATACAT
1 TAAATAATGTATCGATACATCTAGGTTTTTC-AGAATGTATCAATACAT
3810506 GTTTTCTAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 6 0.07
48 79 0.93
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (48 bp):
TAAATAATGTATCGATACATCTAGGTTTTTCAGAATGTATCAATACAT
Found at i:3810996 original size:20 final size:20
Alignment explanation
Indices: 3810971--3811009 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3810961 CCCTGCCAAG
*
3810971 CCACCATTTGCCTTAGCACC
1 CCACCATTTGCCTCAGCACC
3810991 CCACCATTTGCCTCAGCAC
1 CCACCATTTGCCTCAGCAC
3811010 TACCCAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.46, G:0.10, T:0.23
Consensus pattern (20 bp):
CCACCATTTGCCTCAGCACC
Found at i:3813064 original size:51 final size:51
Alignment explanation
Indices: 3812972--3813070 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
3812962 TTACAAGTTT
*
3812972 TGTTATGAATGTATGAATACAATGTATGAATGTATCAATACATCTATTAGC
1 TGTTATGAATGTATGAATACAATGCATGAATGTATCAATACATCTATTAGC
* * *
3813023 TGTTATGAATGTATTG-ATACAATGCATGATTTTATCGATACATCTATT
1 TGTTATGAATGTA-TGAATACAATGCATGAATGTATCAATACATCTATT
3813071 TGCAATAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (51 bp):
TGTTATGAATGTATGAATACAATGCATGAATGTATCAATACATCTATTAGC
Found at i:3813988 original size:16 final size:16
Alignment explanation
Indices: 3813967--3813999 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3813957 AAATATTTGA
3813967 TAAATTTTA-AAAATTT
1 TAAA-TTTACAAAATTT
3813983 TAAATTTACAAAATTT
1 TAAATTTACAAAATTT
3813999 T
1 T
3814000 CAACAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTTACAAAATTT
Done.