Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 48 of 202
Found at i:14269952 original size:15 final size:17
Alignment explanation
Indices: 14269932--14269968 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
14269922 ATCAAGCATT
14269932 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
14269947 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
14269964 ATTAT
1 ATTAT
14269969 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:14272494 original size:12 final size:14
Alignment explanation
Indices: 14272462--14272488 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14272452 AATTGTAATA
14272462 AAATGTTTTTAGTT
1 AAATGTTTTTAGTT
14272476 AAATGTTTTTAGT
1 AAATGTTTTTAGT
14272489 AATGTTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (14 bp):
AAATGTTTTTAGTT
Found at i:14273640 original size:29 final size:29
Alignment explanation
Indices: 14273597--14273859 Score: 162
Period size: 29 Copynumber: 9.0 Consensus size: 29
14273587 TGTGCTAAAT
* * *
14273597 GATGGTTGTAACCATACCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * *
14273626 AATGGTCGAAACCATCCATTTTCATTAAAT-
1 GATGGTCGAAACCATCCCTTTTCA-T-ATTC
* ** *
14273656 GATGATCGTCACCATCCCTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
14273685 GATGGT-TAAAGCTATCCCTTTTCATATTC
1 GATGGTCGAAA-CCATCCCTTTTCATATTC
* * * *
14273714 GATAGCCGAAGCCATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
14273743 GATGGTC-ATCACCATCCCTTTTCATAGTT-
1 GATGGTCGA-AACCATCCCTTTTCATA-TTC
* *
14273772 GATGGTC-ATCACCATCCCTTTTCAAAATT-
1 GATGGTCGA-AACCATCCCTTTTC-ATATTC
* * * *
14273801 GATAGCCGAAGCTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * * *
14273830 GATAG-CTGAAGCTATCTCTTTTCATATTC
1 GATGGTC-GAAACCATCCCTTTTCATATTC
14273859 G
1 G
14273860 TTCGATTGTT
Statistics
Matches: 188, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
28 10 0.05
29 149 0.79
30 27 0.14
31 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:14273747 original size:58 final size:58
Alignment explanation
Indices: 14273667--14273855 Score: 188
Period size: 58 Copynumber: 3.3 Consensus size: 58
14273657 ATGATCGTCA
* *
14273667 CCATCCCTTTTCATAATCGATGGTTAAAGCTATCCCTTTTCATATTCGATAGCCGAAG
1 CCATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAG
* * * * *
14273725 CCATCCCTTTTCATATTTGATGGTCATCA-CCATCCCTTTTCATAGTT-GATGGTC-ATCA-
1 CCATCCCTTTTCATAATTGATGGTCA-AAGCTATCCCTTTTCATA-TTCGATAGCCGA--AG
* * * * *
14273783 CCATCCCTTTTCAAAATTGATAGCCGAAGCTATCCCTTTTCATATTCGATAGCTGAAG
1 CCATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAG
* *
14273841 CTATCTCTTTTCATA
1 CCATCCCTTTTCATA
14273856 TTCGTTCGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
57 5 0.05
58 93 0.90
59 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.37
Consensus pattern (58 bp):
CCATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAG
Found at i:14273789 original size:87 final size:86
Alignment explanation
Indices: 14273606--14273828 Score: 250
Period size: 87 Copynumber: 2.6 Consensus size: 86
14273596 TGATGGTTGT
* * * * * * ** *
14273606 AACCATACCTTTTCATATTCAATGGTCGAAACCATCCATTTTCATTAAATGATGATCGTCACCAT
1 AACCATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCA-TATTTGATGATCATCACCAT
*
14273671 CCCTTTTCATAATCGATGGTTA
65 CCCTTTTCATAATCGATGGTCA
* *
14273693 AAGCTATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATATTTGATGGTCATCACCAT
1 AA-CCATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATATTTGATGATCATCACCAT
* *
14273758 CCCTTTTCATAGTTGATGGTCA
65 CCCTTTTCATAATCGATGGTCA
* * *
14273780 TCACCATCCCTTTTCAAAATT-GATAGCCGAAGCTATCCCTTTTCATATT
1 -AACCATCCCTTTTC-ATATTCGATAGCCGAAGCCATCCCTTTTCATATT
14273829 CGATAGCTGA
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
87 75 0.65
88 40 0.35
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (86 bp):
AACCATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATATTTGATGATCATCACCATC
CCTTTTCATAATCGATGGTCA
Found at i:14279891 original size:124 final size:124
Alignment explanation
Indices: 14279671--14279920 Score: 500
Period size: 124 Copynumber: 2.0 Consensus size: 124
14279661 AATGGTGTAA
14279671 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
1 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
14279736 CATTTAGAAAATGAGGTATTAGGACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
66 CATTTAGAAAATGAGGTATTAGGACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
14279795 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
1 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
14279860 CATTTAGAAAATGAGGTATTAGGACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
66 CATTTAGAAAATGAGGTATTAGGACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
14279919 TA
1 TA
14279921 CTAAGGTTGT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (124 bp):
TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
CATTTAGAAAATGAGGTATTAGGACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
Found at i:14282445 original size:2 final size:2
Alignment explanation
Indices: 14282438--14282480 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14282428 TGTGGTCAAG
14282438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14282480 T
1 T
14282481 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14284345 original size:2 final size:2
Alignment explanation
Indices: 14284338--14284388 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
14284328 TTAGTAGTAG
14284338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14284380 TA TA TA TA T
1 TA TA TA TA T
14284389 GTTTAGGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14284692 original size:12 final size:12
Alignment explanation
Indices: 14284675--14284714 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
14284665 TCAGGCAGTT
14284675 ACACAGCCTAGC
1 ACACAGCCTAGC
14284687 ACACAGCCTAGC
1 ACACAGCCTAGC
*
14284699 ACACAGCCTGGC
1 ACACAGCCTAGC
14284711 ACAC
1 ACAC
14284715 GAGAGTGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.33, C:0.42, G:0.17, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:14290146 original size:6 final size:6
Alignment explanation
Indices: 14290137--14290191 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
14290127 TGCAGTGGAG
14290137 GTGGCT GTGGCT GTGGCT GTGGCT GTGGC- -TGGCT GTGGCT GTGGCT
1 GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT
*
14290183 GTGACT GTG
1 GTGGCT GTG
14290192 ACTGCGACTG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
4 4 0.09
6 42 0.91
ACGTcount: A:0.02, C:0.16, G:0.49, T:0.33
Consensus pattern (6 bp):
GTGGCT
Found at i:14290171 original size:10 final size:10
Alignment explanation
Indices: 14290144--14290177 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
14290134 GAGGTGGCTG
14290144 TGGCTGTGGC
1 TGGCTGTGGC
14290154 TGTGGCTGTGGC
1 --TGGCTGTGGC
14290166 TGGCTGTGGC
1 TGGCTGTGGC
14290176 TG
1 TG
14290178 TGGCTGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (10 bp):
TGGCTGTGGC
Found at i:14290172 original size:22 final size:22
Alignment explanation
Indices: 14290144--14290185 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
14290134 GAGGTGGCTG
14290144 TGGCTGTGGCTGTGGCTGTGGC
1 TGGCTGTGGCTGTGGCTGTGGC
14290166 TGGCTGTGGCTGTGGCTGTG
1 TGGCTGTGGCTGTGGCTGTG
14290186 ACTGTGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (22 bp):
TGGCTGTGGCTGTGGCTGTGGC
Found at i:14290173 original size:28 final size:28
Alignment explanation
Indices: 14290138--14290191 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
14290128 GCAGTGGAGG
*
14290138 TGGCTGTGGCTGTGGCTGTGGCTGTGGC
1 TGGCTGTGGCTGTGGCTGTGACTGTGGC
14290166 TGGCTGTGGCTGTGGCTGTGACTGTG
1 TGGCTGTGGCTGTGGCTGTGACTGTG
14290192 ACTGCGACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.17, G:0.48, T:0.33
Consensus pattern (28 bp):
TGGCTGTGGCTGTGGCTGTGACTGTGGC
Found at i:14290192 original size:6 final size:6
Alignment explanation
Indices: 14290141--14290243 Score: 75
Period size: 6 Copynumber: 17.5 Consensus size: 6
14290131 GTGGAGGTGG
* * * * * *
14290141 CTGTGG CTGTGG CTGTGG CTGTGG CTG-G- CTGTGG CTGTGG CTGTGA
1 CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA
* * * * * *
14290187 CTGTGA CTGCGA CTGCGA CTGTGA CTGAGA CTGAGA CTGAGA CTGAGA
1 CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA
*
14290235 CTGAGA CTG
1 CTGTGA CTG
14290244 AGGCTGAGGC
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
4 3 0.03
5 2 0.02
6 86 0.95
ACGTcount: A:0.15, C:0.19, G:0.40, T:0.26
Consensus pattern (6 bp):
CTGTGA
Found at i:14290273 original size:6 final size:6
Alignment explanation
Indices: 14290185--14290269 Score: 98
Period size: 6 Copynumber: 14.2 Consensus size: 6
14290175 CTGTGGCTGT
* * * *
14290185 GACTGT GACTGC GACTGC GACTGT GACTGA GACTGA GACTGA GACTGA
1 GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA
* * * *
14290233 GACTGA GACTGA GGCTGA GGCTGA GGCTGA GGCTGA G
1 GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA G
14290270 GCTGCTGCTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.24, C:0.19, G:0.39, T:0.19
Consensus pattern (6 bp):
GACTGA
Found at i:14297939 original size:124 final size:125
Alignment explanation
Indices: 14297717--14298246 Score: 761
Period size: 124 Copynumber: 4.3 Consensus size: 125
14297707 TTTATTAAGA
* * * *
14297717 AAATCGATCCCACGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTAAGTTGACG
1 AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACG
*
14297782 TTTCTAAGCAAATAGTAT-AAAAATGCTTCAAGCAAGATGCTTTATAAGAAGAATTTTTG
66 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATAAGAAGAATTTTTG
* * * *
14297841 AAATCGCTCCCACGTAGATGCGCTTTTGCTACAGTTGGTCCTG-AAAAATAATTTCAAGTTGACA
1 AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACG
* * *
14297905 TTTCTGAGCAAATAGTATAAAAAATGCTTTAAGCAAGATGC--T-T-AGAAGAATTTTTG
66 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATAAGAAGAATTTTTG
* *
14297961 AAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTG-AAAAATAATTTCGAGTTGACG
1 AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACG
* * *
14298025 TTTCTGAGTAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAA-AAGAATTTTTG
66 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTAT-AAGAAGAATTTTTG
* * *
14298085 AAATCGCTCACACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACG
1 AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACG
* * *
14298150 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAATAATTTTTG
66 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATAAGAAGAATTTTTG
* **
14298210 AAATCTCTCCCATATGGACGCGCTTTTGCTACAGTAG
1 AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
14298247 CATTTTGGGC
Statistics
Matches: 366, Mismatches: 32, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
120 108 0.30
121 1 0.00
122 2 0.01
123 37 0.10
124 110 0.30
125 108 0.30
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (125 bp):
AAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACG
TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATAAGAAGAATTTTTG
Found at i:14301620 original size:32 final size:33
Alignment explanation
Indices: 14301574--14301635 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
14301564 ATGATTTACC
* * *
14301574 AATATATACTTATAC-ATCTTTTTTATTTTGTA
1 AATATATACATATACAAACTTTTCTATTTTGTA
14301606 AATATATACATATACAAACTTTTCTATTTT
1 AATATATACATATACAAACTTTTCTATTTT
14301636 TATCTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (33 bp):
AATATATACATATACAAACTTTTCTATTTTGTA
Found at i:14302873 original size:20 final size:20
Alignment explanation
Indices: 14302836--14302873 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14302826 ATTATTTTTA
*
14302836 AAAATCTATGTAATAATTGT
1 AAAATCTATATAATAATTGT
14302856 AAAATCTAATATAA-AATT
1 AAAATCT-ATATAATAATT
14302874 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATCTATATAATAATTGT
Found at i:14303862 original size:51 final size:51
Alignment explanation
Indices: 14303807--14303906 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
14303797 AAATAATTAA
14303807 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
14303858 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
14303907 AGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:14303893 original size:22 final size:22
Alignment explanation
Indices: 14303868--14303917 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
14303858 AAATATGGAT
14303868 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAGAA-GAAA
*
14303890 TTGAGAGCAATTTGAGAAGAAA
1 TTGAGAGAAATTTGAGAAGAAA
14303912 TTGAGA
1 TTGAGA
14303918 AATGATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAAGAAA
Found at i:14305431 original size:16 final size:16
Alignment explanation
Indices: 14305412--14305465 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
14305402 ATGTATTATT
14305412 ATATTAAATTATTTAA
1 ATATTAAATTATTTAA
* * *
14305428 ATATTCATTTA-TTATT
1 ATATTAAATTATTTA-A
*
14305444 ATATTAAATCATTTAA
1 ATATTAAATTATTTAA
14305460 ATATTA
1 ATATTA
14305466 TTTATTATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTAAATTATTTAA
Found at i:14305441 original size:32 final size:32
Alignment explanation
Indices: 14305388--14305492 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
14305378 TATTTTATTG
* *
14305388 TATTTAAACATTTCATGTATTATTATATTAAAT
1 TATTTAAATA-TTCATTTATTATTATATTAAAT
14305421 TATTTAAATATTCATTTATTATTATATTAAAT
1 TATTTAAATATTCATTTATTATTATATTAAAT
*
14305453 CATTTAAATATT-ATTTATTA-TAT-TT-AAT
1 TATTTAAATATTCATTTATTATTATATTAAAT
14305481 T-TTTAAAATATT
1 TATTT-AAATATT
14305493 TTATATATCA
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
27 3 0.04
28 10 0.15
29 2 0.03
30 3 0.04
31 8 0.12
32 32 0.48
33 9 0.13
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (32 bp):
TATTTAAATATTCATTTATTATTATATTAAAT
Found at i:14305492 original size:25 final size:27
Alignment explanation
Indices: 14305464--14305532 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
14305454 ATTTAAATAT
14305464 TATTTAT-TATAT-TTAATTTTTA-AAA
1 TATTTATATATATATTAA-TTTTACAAA
14305489 TATTT-TATATATCATTAATTTTACAAA
1 TATTTATATATAT-ATTAATTTTACAAA
14305516 TAATTTATAT-TA-ATTAA
1 T-ATTTATATATATATTAA
14305533 AAATTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 1 0.03
25 10 0.26
26 10 0.26
27 8 0.21
28 6 0.16
29 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTATATATATATTAATTTTACAAA
Found at i:14305531 original size:26 final size:27
Alignment explanation
Indices: 14305455--14305532 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
14305445 TATTAAATCA
* *
14305455 TTTAAATATTATTTAT-TATATTTAATT
1 TTTAAA-ATAATTTATATATAATTAATT
* *
14305482 TTTAAAATATTTTATATATCATTAA-T
1 TTTAAAATAATTTATATATAATTAATT
14305508 TTTACAAATAATTTATAT-TAATTAA
1 TTTA-AAATAATTTATATATAATTAA
14305533 AAATTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 18 0.42
27 25 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTAAAATAATTTATATATAATTAATT
Found at i:14310681 original size:21 final size:22
Alignment explanation
Indices: 14310641--14310682 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14310631 TATATTTGAT
14310641 TTTGATATGGTAATTTATGTTA
1 TTTGATATGGTAATTTATGTTA
14310663 TTTGAT-TGAGTAA-TTATGTT
1 TTTGATATG-GTAATTTATGTT
14310683 GAAGTGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (22 bp):
TTTGATATGGTAATTTATGTTA
Found at i:14312316 original size:20 final size:20
Alignment explanation
Indices: 14312272--14312316 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14312262 CTTGTACCGG
* **
14312272 ATTTGCACTTCGGTGCTTCT
1 ATTTGCACTACGGTGCCCCT
*
14312292 GTTTGCACTACGGTGCCCCT
1 ATTTGCACTACGGTGCCCCT
14312312 ATTTG
1 ATTTG
14312317 TAGATTTGTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTGCACTACGGTGCCCCT
Found at i:14312866 original size:2 final size:2
Alignment explanation
Indices: 14312859--14312892 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14312849 GCTTAAGGGA
*
14312859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14312893 GCAAGACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14335119 original size:18 final size:18
Alignment explanation
Indices: 14335098--14335156 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
14335088 AATCTGAAAT
14335098 TACTTACAAATATTCACA
1 TACTTACAAATATTCACA
* * *
14335116 TACTTGTATAAATA-TGAAA
1 TAC-T-TACAAATATTCACA
14335135 TTACTTACAAATATTCACA
1 -TACTTACAAATATTCACA
14335154 TAC
1 TAC
14335157 CTGTATAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
18 13 0.42
19 8 0.26
20 10 0.32
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (18 bp):
TACTTACAAATATTCACA
Found at i:14335130 original size:20 final size:19
Alignment explanation
Indices: 14335105--14335164 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
14335095 AATTACTTAC
14335105 AAATATTCACATACTTGTAT
1 AAATATTCACATAC-TGTAT
* * *
14335125 AAATA-TGAAATTACT-TAC
1 AAATATTCACA-TACTGTAT
14335143 AAATATTCACATACCTGTAT
1 AAATATTCACATA-CTGTAT
14335163 AA
1 AA
14335165 GGTTATGCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
18 9 0.30
19 9 0.30
20 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATATTCACATACTGTAT
Found at i:14335136 original size:38 final size:38
Alignment explanation
Indices: 14335085--14335164 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
14335075 TTTTCTAAAC
* *
14335085 ATAAATCTGAAATTACTTACAAATATTCACATACTTGT
1 ATAAATATGAAATTACTTACAAATATTCACATACCTGT
14335123 ATAAATATGAAATTACTTACAAATATTCACATACCTGT
1 ATAAATATGAAATTACTTACAAATATTCACATACCTGT
14335161 ATAA
1 ATAA
14335165 GGTTATGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (38 bp):
ATAAATATGAAATTACTTACAAATATTCACATACCTGT
Found at i:14343418 original size:2 final size:2
Alignment explanation
Indices: 14343411--14343435 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14343401 AAAATTTAGT
14343411 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14343436 TTGTATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14344974 original size:3 final size:3
Alignment explanation
Indices: 14344966--14345000 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14344956 TTTATAATGC
* *
14344966 TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14345001 ATATAGGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:14346981 original size:124 final size:124
Alignment explanation
Indices: 14346761--14347110 Score: 592
Period size: 124 Copynumber: 2.8 Consensus size: 124
14346751 TTATTTCGAG
* * *
14346761 TTGACGTTTTTGAGTAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
14346826 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
14346885 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * * *
14346950 AAATCGTGCCCTCATGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
14347009 TTGACGTTTCTGAGCAAGTAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
14347074 AAATCGCGCCCTCGTGGATGCAATTTTACTACAGTAG
66 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAG
14347111 CAAGTTTGGG
Statistics
Matches: 210, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 210 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:14350183 original size:10 final size:10
Alignment explanation
Indices: 14350168--14350192 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14350158 CAAATCTAAC
14350168 ATTATGTAAA
1 ATTATGTAAA
14350178 ATTATGTAAA
1 ATTATGTAAA
14350188 ATTAT
1 ATTAT
14350193 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:14350243 original size:18 final size:18
Alignment explanation
Indices: 14350220--14350265 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
14350210 TTAATGGTTA
14350220 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
14350238 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
14350256 GTAAAATTAT
1 GTAAAATTAT
14350266 TAAGTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:14350253 original size:73 final size:73
Alignment explanation
Indices: 14350176--14350320 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
14350166 ACATTATGTA
14350176 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
14350241 AAATTATC
66 AAATTATC
14350249 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
14350314 AAATTAT
66 AAATTAT
14350321 TAAGTCTAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (73 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATC
Found at i:14350297 original size:55 final size:55
Alignment explanation
Indices: 14350238--14350375 Score: 233
Period size: 55 Copynumber: 2.5 Consensus size: 55
14350228 ATCAAATTAT
14350238 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
*
14350293 GTAAAATTATCAAATTATGTAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
*
14350348 GTAAAATTGA-CGGAATTATGTAAAATTA
1 GTAAAATT-ATC-AAATTATGTAAAATTA
14350376 GGTTAGGGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
55 63 0.80
56 16 0.20
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (55 bp):
GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
Found at i:14350427 original size:29 final size:29
Alignment explanation
Indices: 14350370--14350783 Score: 635
Period size: 29 Copynumber: 14.3 Consensus size: 29
14350360 GAATTATGTA
*
14350370 AAATTAGGTTAGGGTTTAGTGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
14350400 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
14350429 AAATTAGGTTAGGGTTACGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350458 AAATTAGGTTAGGGTTTAGGG-TTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
14350487 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350516 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350545 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350574 AAATTAGGTTAGGGTT----TTTAATTAAATT
1 AAATTAGGTTAGGGTTAGGGTTT--TT-AATT
**
14350602 -AATTAAATTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
14350629 AAATTAGGTTAGTGTTTATGGTTTTTAATT
1 AAATTAGGTTAG-GGTTAGGGTTTTTAATT
*
14350659 AAATTAGGTTAGGGTTTAAGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
14350689 AAATTAGTTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350718 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350747 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
14350776 AAATTAGG
1 AAATTAGG
14350784 GTTTTTATTA
Statistics
Matches: 355, Mismatches: 16, Indels: 27
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.01
26 4 0.01
27 14 0.04
28 20 0.06
29 239 0.67
30 75 0.21
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:14350609 original size:32 final size:32
Alignment explanation
Indices: 14350568--14350634 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
14350558 GTTAGGGTTT
14350568 TTAATTAAATTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAA
14350600 TTAATTAAATTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAA
14350632 TTA
1 TTA
14350635 GGTTAGTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (32 bp):
TTAATTAAATTAGGTTAGGGTTTTTAATTAAA
Found at i:14350626 original size:23 final size:23
Alignment explanation
Indices: 14350600--14350762 Score: 92
Period size: 30 Copynumber: 6.0 Consensus size: 23
14350590 TTTAATTAAA
14350600 TTAATTAAATTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTT
14350623 TTAATTAAATTAGGTTAGTGTTTATGGTTT
1 TTAATTAAATTAGGTTA--G-----GGTTT
14350653 TTAATTAAATTAGGTTAGGGTTTAAGGTTT
1 TTAATTAAATTAGGTTA--G-----GGTTT
14350683 TTAATTAAATTAGTTTAGGGTTAGGGTTT
1 TTAATTAAATT-----A-GGTTAGGGTTT
14350712 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATT-AA--A--TTA-GGTTAGGGTTT
14350741 TTAATTAAATTAGGTTAGGGTT
1 TTAATTAAATTAGGTTAGGGTT
14350763 AGGGTTTTTA
Statistics
Matches: 120, Mismatches: 2, Indels: 36
0.76 0.01 0.23
Matches are distributed among these distances:
23 27 0.22
24 3 0.03
25 1 0.01
26 1 0.01
28 2 0.02
29 30 0.25
30 46 0.38
32 1 0.01
34 3 0.03
35 1 0.01
36 5 0.04
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
TTAATTAAATTAGGTTAGGGTTT
Found at i:14350718 original size:202 final size:200
Alignment explanation
Indices: 14350412--14350783 Score: 681
Period size: 202 Copynumber: 1.9 Consensus size: 200
14350402 ATTAGGTTAG
14350412 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTACGATTTTTAATTAAATTAGGTTAGGGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTACGATTTTTAATTAAATTAGGTTAGGGTTTAG
14350477 GGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
66 GGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
14350542 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAATTA
131 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAATTA
14350607 AATTA
196 AATTA
* * *
14350612 GGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTATGGTTTTTAATTAAATTAGGTTAGGGTTTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG-GGTTACGATTTTTAATTAAATTAGGTTAGGGTTT-
* *
14350677 AGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
64 AGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
14350742 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
129 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
14350784 GTTTTTATTA
Statistics
Matches: 165, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
200 29 0.18
201 31 0.19
202 105 0.64
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (200 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTACGATTTTTAATTAAATTAGGTTAGGGTTTAG
GGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAATTA
AATTA
Found at i:14350896 original size:71 final size:71
Alignment explanation
Indices: 14350789--14350973 Score: 316
Period size: 71 Copynumber: 2.6 Consensus size: 71
14350779 TTAGGGTTTT
*
14350789 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
*
14350854 CTATGCC
65 ATATGCC
* *
14350861 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAGCTCGAAAAAATTTA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTA
*
14350926 TATGCG
66 TATGCC
14350932 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
14350974 AATTTAAATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 94 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTA
TATGCC
Found at i:14351114 original size:21 final size:21
Alignment explanation
Indices: 14351067--14351116 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
14351057 CTTCCTCTAG
* * *
14351067 CTTCCGGCGGTGGTTGTTCTT
1 CTTCCGGTGGTGATTGTGCTT
* *
14351088 CCTCCGGTGGTGATTGTGGTT
1 CTTCCGGTGGTGATTGTGCTT
14351109 CTTCCGGT
1 CTTCCGGT
14351117 TCGATATCTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.24, G:0.34, T:0.40
Consensus pattern (21 bp):
CTTCCGGTGGTGATTGTGCTT
Found at i:14351401 original size:18 final size:18
Alignment explanation
Indices: 14351374--14351408 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14351364 CGGAAAAGGA
* *
14351374 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
14351392 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
14351409 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:14353191 original size:30 final size:30
Alignment explanation
Indices: 14353157--14353221 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
14353147 GTCATTCATG
14353157 AAAATATAAAAAAAT-TAAAATTATTTTTAA
1 AAAATATAAAAAAATATAAAATTA-TTTTAA
14353187 AAAATATAAAAAAATATAAAATTATTTTAA
1 AAAATATAAAAAAATATAAAATTATTTTAA
14353217 AAAAT
1 AAAAT
14353222 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATATAAAAAAATATAAAATTATTTTAA
Found at i:14353200 original size:10 final size:10
Alignment explanation
Indices: 14353157--14353207 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
14353147 GTCATTCATG
14353157 AAAATATAAA
1 AAAATATAAA
14353167 AAAAT-TAAA
1 AAAATATAAA
* * * *
14353176 ATTATTTTTAA
1 A-AAATATAAA
14353187 AAAATATAAA
1 AAAATATAAA
14353197 AAAATATAAA
1 AAAATATAAA
14353207 A
1 A
14353208 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
9 5 0.16
10 23 0.72
11 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATATAAA
Found at i:14353290 original size:51 final size:51
Alignment explanation
Indices: 14353222--14353342 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
14353212 TTTAAAAAAT
14353222 GAAATTGAG-GGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
14353272 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
14353323 GAAATTTG-GAAGGAAATTGA
1 GAAA-TTGAG-AGGAAATTGA
14353343 GAGGATTAGA
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
50 9 0.13
51 45 0.67
52 13 0.19
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:14353332 original size:12 final size:12
Alignment explanation
Indices: 14353315--14353340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14353305 TTGAGAGAAT
14353315 TTTGGAAGGAAA
1 TTTGGAAGGAAA
14353327 TTTGGAAGGAAA
1 TTTGGAAGGAAA
14353339 TT
1 TT
14353341 GAGAGGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
TTTGGAAGGAAA
Found at i:14353613 original size:29 final size:28
Alignment explanation
Indices: 14353572--14353635 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
14353562 GATTTCCCGG
* *
14353572 AAAAT-GGACCATTCCGGTAAATAATAAA
1 AAAATCGGCCCATTCCAGTAAAT-ATAAA
* *
14353600 AAAATCGGCCCATTTCAGTAAATTTAAA
1 AAAATCGGCCCATTCCAGTAAATATAAA
14353628 AAAA-CGGC
1 AAAATCGGC
14353636 TTTTATTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 13 0.42
29 14 0.45
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (28 bp):
AAAATCGGCCCATTCCAGTAAATATAAA
Found at i:14355953 original size:14 final size:13
Alignment explanation
Indices: 14355924--14355950 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14355914 AGAAGGTAAG
14355924 ACAGATACTTAAA
1 ACAGATACTTAAA
14355937 ACAGATACTTAAA
1 ACAGATACTTAAA
14355950 A
1 A
14355951 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:14357379 original size:19 final size:19
Alignment explanation
Indices: 14357326--14357382 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
14357316 TCATCTTTCA
14357326 ATAAAAATATATA-AGAATTT
1 ATAAAAATATATATA-AA-TT
* *
14357346 ATAATAATACATATAAATT
1 ATAAAAATATATATAAATT
*
14357365 ATAAAAATATTTATAAAT
1 ATAAAAATATATATAAAT
14357383 AAATGAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 17 0.55
20 13 0.42
21 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATATATATAAATT
Found at i:14370679 original size:3 final size:3
Alignment explanation
Indices: 14370673--14370710 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14370663 AAGACTTGAG
14370673 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
14370711 GACTATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:14371916 original size:7 final size:7
Alignment explanation
Indices: 14371887--14371915 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
14371877 AAGAAAAAAT
14371887 AATGTAA
1 AATGTAA
14371894 AATGTAA
1 AATGTAA
14371901 AATGTAA
1 AATGTAA
14371908 AATG-AA
1 AATGTAA
14371914 AA
1 AA
14371916 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (7 bp):
AATGTAA
Found at i:14372238 original size:22 final size:22
Alignment explanation
Indices: 14372210--14372252 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14372200 ACTTGTGACC
*
14372210 AAAAAAAAGTTTAAATACCAAA
1 AAAAAAAAATTTAAATACCAAA
*
14372232 AAAAAAAAATTTAGATACCAA
1 AAAAAAAAATTTAAATACCAA
14372253 TACGTGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.09, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAAAAAAATTTAAATACCAAA
Found at i:14395873 original size:16 final size:16
Alignment explanation
Indices: 14395852--14395882 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14395842 AACATTTCCA
*
14395852 AAATTATAGATAAATT
1 AAATTATAAATAAATT
14395868 AAATTATAAATAAAT
1 AAATTATAAATAAAT
14395883 CCTTCAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATTATAAATAAATT
Found at i:14396792 original size:36 final size:34
Alignment explanation
Indices: 14396725--14396792 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 34
14396715 ATATGCACAG
*
14396725 TCAAAATAAGAATTATATATGGATCATTTCACCA
1 TCAAAATAAGAATTATATATGGAACATTTCACCA
14396759 TCAAAATAAGAATTATATATGGACACATATTCAC
1 TCAAAATAAGAATTATATATGGA-ACAT-TTCAC
14396793 ATTAAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 23 0.74
35 3 0.10
36 5 0.16
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (34 bp):
TCAAAATAAGAATTATATATGGAACATTTCACCA
Found at i:14404865 original size:2 final size:2
Alignment explanation
Indices: 14404858--14404891 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14404848 ATGAATGATT
*
14404858 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14404892 CATGTATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14404872 original size:12 final size:12
Alignment explanation
Indices: 14404855--14404891 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
14404845 AGTATGAATG
14404855 ATTTATATATAT
1 ATTTATATATAT
14404867 ATTTATATATAT
1 ATTTATATATAT
*
14404879 ATATATATATAT
1 ATTTATATATAT
14404891 A
1 A
14404892 CATGTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTATATATAT
Found at i:14405839 original size:41 final size:41
Alignment explanation
Indices: 14405782--14405883 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
14405772 TCAATTCAGG
*
14405782 GCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTA
1 GCAGGCTAAGTGCCGGTGAACTAAATCAGGCTATAAGCCTA
* *
14405823 GCAGGCTAAGTGCCGGTGATCTAAATCAGGCTTTAAGCCTA
1 GCAGGCTAAGTGCCGGTGAACTAAATCAGGCTATAAGCCTA
*
14405864 GCAGGCTAAGTGCTGGTGAA
1 GCAGGCTAAGTGCCGGTGAA
14405884 TCTGTTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (41 bp):
GCAGGCTAAGTGCCGGTGAACTAAATCAGGCTATAAGCCTA
Found at i:14408667 original size:101 final size:102
Alignment explanation
Indices: 14408544--14408728 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
14408534 AAAGTGATGG
* * *
14408544 TCACGTGTCTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCAAGTGTAGT
1 TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGATAGTGAT-GGTCACAAGTGTAGT
14408607 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
14408645 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTCTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGATAGTGATGGTCACAAGTGTAGTA
14408710 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
14408729 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (102 bp):
TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGATAGTGATGGTCACAAGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:14408689 original size:51 final size:50
Alignment explanation
Indices: 14408544--14408724 Score: 163
Period size: 51 Copynumber: 3.6 Consensus size: 50
14408534 AAAGTGATGG
* * * * *
14408544 TCACGTGTCTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACCACGCGTACCAGATAGT-AT-GA
* * * * *
14408594 TCGCAAGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACCACGCGTACCAGATAG-TAT-GA
* * *
14408645 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTC-TATCAGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACCACG-CGTACCAGATAGT-ATGA
14408696 TCACATGTGTAGTACTATGTGCAGGCTAC
1 TCACATGTGTAGTACTATGTGCAGGCTAC
14408725 TATGTGAACC
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
50 36 0.34
51 68 0.64
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACCACGCGTACCAGATAGTATGA
Found at i:14408736 original size:102 final size:101
Alignment explanation
Indices: 14408544--14408736 Score: 289
Period size: 102 Copynumber: 1.9 Consensus size: 101
14408534 AAAGTGATGG
* * *
14408544 TCACGTGTCTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCAAGTGTAGTAC
1 TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGAATGATAGGTCACAAGTGTAGTAC
*
14408609 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
* * *
14408645 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTCTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGA-A-TGATAGGTCACAAGTGTAGT
*
14408709 ACTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
14408737 TATCATTAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (101 bp):
TCACGTGTCTAGTACTATGTGCAGGCTACCACGTCTACCAGAATGATAGGTCACAAGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:14408813 original size:46 final size:43
Alignment explanation
Indices: 14408732--14408830 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
14408722 TACTATGTGA
* *
14408732 ACCGGTATCATTAATTATAAGGTGGTTTCTATGTGCTG-ATCGC
1 ACCGGTATCATTAATTACAAGGTGGTTGCTATGTGCTGAATC-C
* *
14408775 ACCGGATATCATTGATTACCAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-CAA-GGTGGTTGCTATGTGCTGAATCC
14408821 ACCGTGTATC
1 ACCG-GTATC
14408831 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 25 0.53
47 4 0.09
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTACAAGGTGGTTGCTATGTGCTGAATCC
Found at i:14408975 original size:16 final size:16
Alignment explanation
Indices: 14408954--14408985 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14408944 TGATTGAAAG
*
14408954 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
14408970 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
14408986 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:14423144 original size:96 final size:96
Alignment explanation
Indices: 14422969--14423145 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
14422959 ATAATGCCGT
* ** * * * *
14422969 TCACACAAGTTGATGAGTATCCGTAACAAATGTCTGAACTTAGCCATCGATAGGACATTCAGGAC
1 TCACACAAGCTGATGAGTATCCACAACAAATGCCAGAACTAAGCCATCGATAGAACATTCAGGAC
* **
14423034 TAGCATCTTTAACATGGTAACCTAGGTCTGC
66 TAGCACCTGAAACATGGTAACCTAGGTCTGC
* *
14423065 TCACACAAGCTGATGAGTATCTACAACAAATGCCAGACCTAAGCCATCGATAGAACATTCAGGAC
1 TCACACAAGCTGATGAGTATCCACAACAAATGCCAGAACTAAGCCATCGATAGAACATTCAGGAC
14423130 TAGCACCTGAAACATG
66 TAGCACCTGAAACATG
14423146 AAAACCCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (96 bp):
TCACACAAGCTGATGAGTATCCACAACAAATGCCAGAACTAAGCCATCGATAGAACATTCAGGAC
TAGCACCTGAAACATGGTAACCTAGGTCTGC
Found at i:14426420 original size:40 final size:40
Alignment explanation
Indices: 14426362--14426514 Score: 191
Period size: 40 Copynumber: 3.8 Consensus size: 40
14426352 GGTTTCAGTA
* *
14426362 CAATGCCATGTCTT-ACATGCTTACGGTACCATAATCAATT
1 CAATGGCATG-CTTAACATGCTTACGGTAACATAATCAATT
*
14426402 CAATGGCATGGTTAACATGCTTACGGTAACATAATCAATT
1 CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
* *
14426442 CAATGGCATTCTTAACATGCTTAAGGTAACATAATCAATT
1 CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
* * * * * *
14426482 CAATTGAAAGCTTATCATACTTATGGTAACATA
1 CAATGGCATGCTTAACATGCTTACGGTAACATA
14426515 TTTAGTATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (40 bp):
CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
Found at i:14426823 original size:59 final size:59
Alignment explanation
Indices: 14426752--14426869 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
14426742 ACACATTAAA
14426752 ATAATGTTAAACAAAACTTTAAACACCTTCCAAATGGTTCGACCAAATCAATGTTACAC
1 ATAATGTTAAACAAAACTTTAAACACCTTCCAAATGGTTCGACCAAATCAATGTTACAC
14426811 ATAATGTTAAACAAAACTTTAAACACCTTCCAAATGGTTCGACCAAATCAATGTTACAC
1 ATAATGTTAAACAAAACTTTAAACACCTTCCAAATGGTTCGACCAAATCAATGTTACAC
14426870 CCACCAATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (59 bp):
ATAATGTTAAACAAAACTTTAAACACCTTCCAAATGGTTCGACCAAATCAATGTTACAC
Found at i:14428462 original size:9 final size:9
Alignment explanation
Indices: 14428448--14428492 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
14428438 AACTAAATAC
14428448 TTGAGAGAA
1 TTGAGAGAA
14428457 TTGAGAGAA
1 TTGAGAGAA
*
14428466 TAT-A-TGAA
1 T-TGAGAGAA
14428474 TTGAGAGAA
1 TTGAGAGAA
14428483 TTGAGAGAA
1 TTGAGAGAA
14428492 T
1 T
14428493 ATGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 1 0.03
8 5 0.16
9 24 0.77
10 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:14434320 original size:15 final size:16
Alignment explanation
Indices: 14434289--14434322 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14434279 AAATGTTTTA
14434289 AAATATTTTAAAAAATT
1 AAATATTTT-AAAAATT
14434306 AAATATTTT-AAAATT
1 AAATATTTTAAAAATT
14434321 AA
1 AA
14434323 CTTAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTTTAAAAATT
Found at i:14436774 original size:25 final size:25
Alignment explanation
Indices: 14436718--14436786 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
14436708 TTTGCTACTA
* **
14436718 TTTTCTTATTATTT--TTTTTACTG
1 TTTTCTTATTATTTCATTATTGTTG
*
14436741 TTTTCTTATTGTTTCATTATTGTTG
1 TTTTCTTATTATTTCATTATTGTTG
* *
14436766 TTTTGTTATTATTTTATTATT
1 TTTTCTTATTATTTCATTATT
14436787 ATGTTACTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 13 0.35
25 24 0.65
ACGTcount: A:0.14, C:0.06, G:0.07, T:0.72
Consensus pattern (25 bp):
TTTTCTTATTATTTCATTATTGTTG
Found at i:14443851 original size:18 final size:18
Alignment explanation
Indices: 14443830--14443902 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 18
14443820 TTGTTTAGAG
*
14443830 TTTTACAATTTTTAATAA
1 TTTTATAATTTTTAATAA
14443848 TTTTATAATTTGTTACA-AA
1 TTTTATAATTT-TTA-ATAA
*
14443867 TTTTAATAATTTTATAATTA
1 TTTT-ATAATTTT-TAATAA
14443887 -TTTATAATATTTTAAT
1 TTTTATAAT-TTTTAAT
14443903 TACATCTAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 19 0.40
19 17 0.36
20 11 0.23
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTTATAATTTTTAATAA
Found at i:14443863 original size:28 final size:28
Alignment explanation
Indices: 14443831--14443902 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
14443821 TGTTTAGAGT
14443831 TTTACAATTTTTAATAATTTTATAATT-
1 TTTACAATTTTTAATAATTTTATAATTA
*
14443858 TGTTACAAATTTTAATAATTTTATAATTA
1 T-TTACAATTTTTAATAATTTTATAATTA
*
14443887 TTTATAATATTTTAAT
1 TTTACAAT-TTTTAAT
14443903 TACATCTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 30 0.77
29 8 0.21
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTACAATTTTTAATAATTTTATAATTA
Found at i:14456014 original size:101 final size:101
Alignment explanation
Indices: 14455839--14456036 Score: 281
Period size: 101 Copynumber: 2.0 Consensus size: 101
14455829 GCCTATCAAC
** * * **
14455839 TCTTTTAATATTTAGGATTCCAGGAGATCACATTTTCTCCTACAAGTTGATAGAAGGATTGAGGA
1 TCTTTTAATATTTAGGATTCCAAAAGATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAAA
* *
14455904 GAAACTCTAATTTGTCATAATTTATAACTCGATCTA
66 GAAACTCTAATTTGTCACAAATTATAACTCGATCTA
* *
14455940 TCTTTTAACT-TTTATGATTCCAAAATATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAA
1 TCTTTTAA-TATTTAGGATTCCAAAAGATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAA
*
14456004 AGAAGCTCTAATTTGTCACAAATTATAACTCGA
65 AGAAACTCTAATTTGTCACAAATTATAACTCGA
14456037 CCTAATAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 84 0.99
102 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (101 bp):
TCTTTTAATATTTAGGATTCCAAAAGATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAAA
GAAACTCTAATTTGTCACAAATTATAACTCGATCTA
Found at i:14459131 original size:27 final size:26
Alignment explanation
Indices: 14459093--14459149 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14459083 AAATCCCAAA
* *
14459093 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
14459119 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
14459146 TTTT
1 TTTT
14459150 GCTCTCTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:14459503 original size:13 final size:13
Alignment explanation
Indices: 14459485--14459510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14459475 AATAACTTCG
14459485 TAAATATTTATGA
1 TAAATATTTATGA
14459498 TAAATATTTATGA
1 TAAATATTTATGA
14459511 GTCCAATTTA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAAATATTTATGA
Found at i:14463604 original size:28 final size:27
Alignment explanation
Indices: 14463542--14463604 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
14463532 ACATCTAATA
* *
14463542 CTGATTCTGTAATGGGCTTAGGTCCAC
1 CTGATACTGTAATGGGCTAAGGTCCAC
*
14463569 CTGGTACTGTTAATGGGCTAAGG-CTCAC
1 CTGATACTG-TAATGGGCTAAGGTC-CAC
*
14463597 TTGATACT
1 CTGATACT
14463605 ATGCTTATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGATACTGTAATGGGCTAAGGTCCAC
Found at i:14469955 original size:22 final size:22
Alignment explanation
Indices: 14469928--14469972 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14469918 TTAAAAAACA
14469928 TTAAATATT-ATTT-TATAATTT
1 TTAAA-ATTAATTTGTATAATTT
14469949 TTAAAATTAATTTGTATAATTT
1 TTAAAATTAATTTGTATAATTT
14469971 TT
1 TT
14469973 TTGGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.41
22 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAAAATTAATTTGTATAATTT
Found at i:14474715 original size:41 final size:40
Alignment explanation
Indices: 14474606--14474788 Score: 172
Period size: 41 Copynumber: 4.5 Consensus size: 40
14474596 ATATTTTTGG
* * * * *
14474606 GCCTTTAGCGGCGTTTTTGACAAATCGCCGCTAATTCTC-C
1 GCCTTTAGCGGCGTTTTTTA-TAAGCGCCGCTAATGCTCTA
*
14474646 GACCTTTTAGCGGCGATTTTCGTA-AAGCGCCGCTAATGCTCTA
1 G-CC-TTTAGCGGCG-TTTT-TTATAAGCGCCGCTAATGCTCTA
*
14474689 GCCTTTAGCGGCGTTTTCTTATAAGCGCCGCTAATGCTCTG
1 GCCTTTAGCGGCGTTTT-TTATAAGCGCCGCTAATGCTCTA
* * *
14474730 GCCTTTAGCGGCGTTTTTTAATAAGCGCCACTAATGATCTG
1 GCCTTTAGCGGCGTTTTTT-ATAAGCGCCGCTAATGCTCTA
* * *
14474771 GTCATTAGCGGCATTTTT
1 GCCTTTAGCGGCGTTTTT
14474789 GGAAAAGCGC
Statistics
Matches: 124, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
40 10 0.08
41 81 0.65
42 27 0.22
43 5 0.04
44 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCTA
Found at i:14474797 original size:82 final size:81
Alignment explanation
Indices: 14474610--14474840 Score: 205
Period size: 82 Copynumber: 2.8 Consensus size: 81
14474600 TTTTGGGCCT
* * * *
14474610 TTAGCGGCGTTTTTGACAAATCGCCGCTAATTCTCCGACCTTTTAGCGGCGATTTTCGT-AAAGC
1 TTAGCGGCGTTTTTGA-AAAGCGCCGCTAATACTCTGACC-TTTAGCGGCGATTTT-TTAAAAGC
* * *
14474674 GCCGCTAATGCTCTAGCCT
63 GCCACTAATGATCTAGCCA
* * * *
14474693 TTAGCGGCGTTTTCTTATAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCG-TTTTTTAATAAGCG
1 TTAGCGGCGTTTT-TGAAAAGCGCCGCTAATACTCTGACCTTTAGCGGCGATTTTTTAA-AAGCG
* *
14474757 CCACTAATGATCTGGTCA
64 CCACTAATGATCTAGCCA
* * * * * * * *
14474775 TTAGCGGCATTTTTGGAAAAGCGCCGGTAATACTGTGTCATTTAGCGGCGCTTGTTTAAAAACGC
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCTAATACTCTGACCTTTAGCGGCGATTTTTTAAAAGCGC
14474840 C
65 C
14474841 GCTATTGTGT
Statistics
Matches: 121, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
80 1 0.01
81 6 0.05
82 74 0.61
83 38 0.31
84 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (81 bp):
TTAGCGGCGTTTTTGAAAAGCGCCGCTAATACTCTGACCTTTAGCGGCGATTTTTTAAAAGCGCC
ACTAATGATCTAGCCA
Found at i:14475852 original size:2 final size:2
Alignment explanation
Indices: 14475847--14475872 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14475837 ATATGCAACG
14475847 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
14475873 CATTAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14475877 original size:85 final size:85
Alignment explanation
Indices: 14475769--14475951 Score: 366
Period size: 85 Copynumber: 2.2 Consensus size: 85
14475759 CTTCTTATTT
14475769 TATATATATATATATATATCATTAGTACAGGATTATAATTAAGTATAATTGGTTATAGAAAAAGA
1 TATATATATATATATATATCATTAGTACAGGATTATAATTAAGTATAATTGGTTATAGAAAAAGA
14475834 TATATATGCAACGATATATA
66 TATATATGCAACGATATATA
14475854 TATATATATATATATATATCATTAGTACAGGATTATAATTAAGTATAATTGGTTATAGAAAAAGA
1 TATATATATATATATATATCATTAGTACAGGATTATAATTAAGTATAATTGGTTATAGAAAAAGA
14475919 TATATATGCAACGATATATA
66 TATATATGCAACGATATATA
14475939 TATATATATATAT
1 TATATATATATAT
14475952 GTTATATATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (85 bp):
TATATATATATATATATATCATTAGTACAGGATTATAATTAAGTATAATTGGTTATAGAAAAAGA
TATATATGCAACGATATATA
Found at i:14479518 original size:43 final size:43
Alignment explanation
Indices: 14479392--14479518 Score: 96
Period size: 43 Copynumber: 2.8 Consensus size: 43
14479382 AAAGATTGCT
*
14479392 TATGTAAGCTATATTTAAATTTTATTAATAATAAATTGATAACTTAAA
1 TATGTAAACTATATTTAAATTTTATTAATAAT--A-T--TAACTTAAA
* * * * * **
14479440 TAAGTATTACTATATTTTTAATATTA-TACAT-ATATTAATTTACG
1 TATGTA-AACTATA-TTTAAATTTTATTA-ATAATATTAACTTAAA
14479484 TATGTAAACTATATTTAAATTTTATTAATAATATT
1 TATGTAAACTATATTTAAATTTTATTAATAATATT
14479519 TAAACATATT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
42 11 0.18
43 13 0.21
44 11 0.18
46 1 0.02
47 1 0.02
48 5 0.08
49 9 0.15
50 11 0.18
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (43 bp):
TATGTAAACTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:14482518 original size:21 final size:21
Alignment explanation
Indices: 14482492--14482581 Score: 117
Period size: 21 Copynumber: 4.3 Consensus size: 21
14482482 CAACAACTTA
** *
14482492 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTACAGCGAGAG
14482513 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTACAGCGAGAG
14482534 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTACAGCGAGAG
** **
14482555 AAGCAGAATCCGCAGCGAGAG
1 AAGCAGAGGCTACAGCGAGAG
14482576 AAGCAG
1 AAGCAG
14482582 CGATAGAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.37, C:0.20, G:0.40, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTACAGCGAGAG
Found at i:14483132 original size:43 final size:42
Alignment explanation
Indices: 14483030--14483283 Score: 284
Period size: 43 Copynumber: 6.0 Consensus size: 42
14483020 GTTTGTGAAA
*
14483030 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* * *
14483073 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCATTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
*
14483115 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGGTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
14483157 CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGGTTTTTCCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTCC
** * *
14483200 CGAGCGCCACTAGAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* *
14483243 TTAGTC-CCGCTAAAGAACATGATCTTTGGCGGCGTTTTTTC
1 TAAG-CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
14483284 TGTAAGCGTC
Statistics
Matches: 184, Mismatches: 19, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 77 0.42
43 104 0.57
44 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:14483281 original size:85 final size:85
Alignment explanation
Indices: 14483032--14483283 Score: 264
Period size: 85 Copynumber: 3.0 Consensus size: 85
14483022 TTGTGAAATA
* * * *
14483032 AGCGCCGCTAAAGAACACT-A-CTGTTAGCGGC-GTTTTTGACCAAGCGCCGCTATAGAACATTA
1 AGCGCCACTAAAGAACA-TGATCT-TTAGCGGCGGTTTTT-CCCAAGCGCCGCTAAAGAACATGA
* * **
14483094 -CTTTTAGCGGC-ATTTTCTTCCTA
63 TC-TTTAGCGGCGGTTTT-TCCCCG
*
14483117 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGGTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
1 AGCGCCACTAAAGAACATGATCTTTAGCGGCGGTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
14483182 TTAGCGGCGGTTTTTCCCCG
66 TTAGCGGCGGTTTTTCCCCG
* * **
14483202 AGCGCCACTAGAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGTC-CCGCTAAAGAACATGAT
1 AGCGCCACTAAAGAACATGATCTTTAGCGGCGGTT-TTTCCCAAG-CGCCGCTAAAGAACATGAT
* *
14483266 CTTTGGCGGCGTTTTTTC
64 CTTTAGCGGCGGTTTTTC
14483284 TGTAAGCGTC
Statistics
Matches: 146, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
84 1 0.01
85 91 0.62
86 53 0.36
87 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (85 bp):
AGCGCCACTAAAGAACATGATCTTTAGCGGCGGTTTTTCCCAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGGTTTTTCCCCG
Found at i:14494938 original size:2 final size:2
Alignment explanation
Indices: 14494921--14494967 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
14494911 TATTATAGTT
*
14494921 TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14494962 TA TA TA
1 TA TA TA
14494968 CACTTGGACG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14503499 original size:50 final size:50
Alignment explanation
Indices: 14503406--14503547 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 50
14503396 TTTCTTGTAC
* * * * **
14503406 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* * * * * *
14503456 TGCCCATGTCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
14503506 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
14503548 TTACCCAAAT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:14508516 original size:36 final size:36
Alignment explanation
Indices: 14508476--14508548 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
14508466 ATAATGCTGA
*
14508476 ATATGTGGCTATT-ATTTTACATGTTTAATGTCGCGT
1 ATATGTGGCTATTCATTTTACATG-CTAATGTCGCGT
* * * *
14508512 ATATGTTGCTGTTCTTTTTACATGCTAGTGTCGCGT
1 ATATGTGGCTATTCATTTTACATGCTAATGTCGCGT
14508548 A
1 A
14508549 ATTATGCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (36 bp):
ATATGTGGCTATTCATTTTACATGCTAATGTCGCGT
Found at i:14511204 original size:18 final size:18
Alignment explanation
Indices: 14511183--14511220 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14511173 AATGACCTAG
14511183 TAAATATTAAATAATTAA
1 TAAATATTAAATAATTAA
14511201 TAAATATTAAATAATTAA
1 TAAATATTAAATAATTAA
14511219 TA
1 TA
14511221 TTTACGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATATTAAATAATTAA
Found at i:14517597 original size:18 final size:18
Alignment explanation
Indices: 14517537--14517598 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 18
14517527 AGGCAATTAA
14517537 AATTAAATTAAAAATTTTAG
1 AATTAAATTAAAAA-TTT-G
14517557 ATATTCAAA-TAATAAATTTG
1 A-ATT-AAATTAA-AAATTTG
14517577 AATT-AATTAAAAATCTTG
1 AATTAAATTAAAAAT-TTG
14517595 AATT
1 AATT
14517599 TTAAGATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 6 0.16
18 10 0.27
19 3 0.08
20 3 0.08
21 9 0.24
22 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (18 bp):
AATTAAATTAAAAATTTG
Found at i:14518247 original size:27 final size:27
Alignment explanation
Indices: 14518217--14518287 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 27
14518207 CTTAACAACC
*
14518217 TAGTGACTTAAAAACTTTTGAATAGTT
1 TAGTGACTTAAAAACTTTTAAATAGTT
14518244 TAGTGACTTAAATGAAAACTTTTAAATAGTT
1 TAGTGACTT--A--AAAACTTTTAAATAGTT
* *
14518275 CAGTAACTTAAAA
1 TAGTGACTTAAAA
14518288 GAAAATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 12 0.32
29 2 0.05
31 23 0.62
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (27 bp):
TAGTGACTTAAAAACTTTTAAATAGTT
Found at i:14518265 original size:31 final size:31
Alignment explanation
Indices: 14518227--14518296 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
14518217 TAGTGACTTA
* * * *
14518227 AAAACTTTTGAATAGTTTAGTGACTTAAATG
1 AAAACTTTTAAATAGTTCAGTAACTTAAAAG
14518258 AAAACTTTTAAATAGTTCAGTAACTTAAAAG
1 AAAACTTTTAAATAGTTCAGTAACTTAAAAG
14518289 AAAA-TTTT
1 AAAACTTTT
14518297 CAGTTTAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (31 bp):
AAAACTTTTAAATAGTTCAGTAACTTAAAAG
Found at i:14531809 original size:20 final size:20
Alignment explanation
Indices: 14531759--14531810 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
14531749 AAATACAAAA
*
14531759 AAAAAATCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
14531779 AAAAATTCAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
14531798 AAAAATTACAAAA
1 AAAAATT-CAAAA
14531811 CCTATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:14538659 original size:50 final size:50
Alignment explanation
Indices: 14538525--14538716 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 50
14538515 GATAATAACA
* * * *
14538525 TGCCAAAGTCATGTCCCAAACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * * * *
14538574 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATATCGG
* **
14538624 TGCCCATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACTTCAATGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCAT-A--TC---GG
* *
14538680 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
14538717 TCTCTTTACC
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
48 4 0.03
49 36 0.31
50 37 0.32
51 1 0.01
53 2 0.02
56 36 0.31
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:14539984 original size:31 final size:31
Alignment explanation
Indices: 14539942--14540010 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
14539932 GATTTAGTAT
* *
14539942 AATTATGTACAT-AAAATTTAAATTTTTATTC
1 AATTATATACATAAAAATAT-AATTTTTATTC
14539973 AATTATATACATAAAAATATAATTTTTATTC
1 AATTATATACATAAAAATATAATTTTTATTC
14540004 AATTATA
1 AATTATA
14540011 CACGTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (31 bp):
AATTATATACATAAAAATATAATTTTTATTC
Found at i:14544411 original size:3 final size:3
Alignment explanation
Indices: 14544405--14544459 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
14544395 ACCAACATCC
14544405 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
14544453 ATT ATT A
1 ATT ATT A
14544460 AGATAGTCTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14547983 original size:69 final size:69
Alignment explanation
Indices: 14547836--14548316 Score: 482
Period size: 69 Copynumber: 7.0 Consensus size: 69
14547826 AAAGATAACA
* * * *
14547836 AGCTGAGAGTTTTGCTCTCGCTAACTGTCTTGGAGGTTGTGGCTCTTTGCCTGCA-AACCTTAAT
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTG-AGAACCTTAAT
* *
14547900 ATTAT
65 ATGAC
* * * * * * * *
14547905 AGTTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTTGCTTGAGAACATTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
*
14547970 TGAT
66 TGAC
* * *
14547974 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGACTTTTTGCCT-ACAATCCTTAAT
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAA-CCTTAAT
14548038 ATGAC
65 ATGAC
* * * * * * * *
14548043 AGTTGGGAGCTTTGCTTTTGCTAACTATTTTGGAGGTTGCAGCTCTTCGTCTGCGAACCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
14548108 TGAC
66 TGAC
* * * *
14548112 AGCTGGGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
14548177 TGAC
66 TGAC
* * * * * * * * *
14548181 AACTGAGAGCTTTGCCCTCGTTAACTATTTTAGAGGTTGTGGCTCTTTG-CTGCGAATCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
14548245 TGAC
66 TGAC
* ** * * * * * * *
14548249 AGTTAAGAGCTTTGCTCTCACTAACTATTTTGGAGGTTGTGGCTCTTTACCTGCGAATCTTCATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
14548314 TGA
66 TGA
14548317 AAAAAATACT
Statistics
Matches: 346, Mismatches: 62, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
68 63 0.18
69 281 0.81
70 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (69 bp):
AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGGCTCTTTGCCTGAGAACCTTAATA
TGAC
Found at i:14548219 original size:207 final size:206
Alignment explanation
Indices: 14547841--14548287 Score: 545
Period size: 207 Copynumber: 2.2 Consensus size: 206
14547831 TAACAAGCTG
* * * ** * * *
14547841 AGAGTTTTGCTCTCGCTAACTGTCTTGGAGGTTGTGGCTCTTTGCCTGCAAACCTTAATATTATA
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGCAGCTCTTCGCCTGCAAACCTTAATATGACA
* * *
14547906 GTTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTTGCTTGAGAACATTAATAT
66 GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGAGAACATTAATAT
* * * * * * *
14547971 GATAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGCGACTTTTTGCCTAC-AATCCTT
131 GACAACTGAGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGACTCTTTG-CTACGAAT-CTT
*
14548035 AATATGACAGTTG
194 AATATGACAGTTA
* * * * *
14548048 GGAGCTTTGCTTTTGCTAACTATTTTGGAGGTTGCAGCTCTTCGTCTGCGAACCTTAATATGACA
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGCAGCTCTTCGCCTGCAAACCTTAATATGACA
* * ** * * *
14548113 GCTGGGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATAT
66 GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGAGAACATTAATAT
* * * *
14548178 GACAACTGAGAGCTTTGCCCTCGTTAACTATTTTAGAGGTTGTGGCTCTTTGCTGCGAATCTTAA
131 GACAACTGAGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGACTCTTTGCTACGAATCTTAA
14548243 TATGACAGTTA
196 TATGACAGTTA
*
14548254 AGAGCTTTGCTCTCACTAACTATTTTGGAGGTTG
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTG
14548288 TGGCTCTTTA
Statistics
Matches: 200, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
206 48 0.24
207 152 0.76
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (206 bp):
AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGCAGCTCTTCGCCTGCAAACCTTAATATGACA
GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGAGAACATTAATAT
GACAACTGAGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGACTCTTTGCTACGAATCTTAA
TATGACAGTTA
Found at i:14553506 original size:22 final size:21
Alignment explanation
Indices: 14553480--14553521 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14553470 ACTACCCAAT
*
14553480 TAACCCACCAGCCCAACTAACC
1 TAACCCACAAGCCCAA-TAACC
14553502 TAACCCACAAGCCCAATAAC
1 TAACCCACAAGCCCAATAAC
14553522 AATGGCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.45, G:0.05, T:0.10
Consensus pattern (21 bp):
TAACCCACAAGCCCAATAACC
Found at i:14554479 original size:3 final size:3
Alignment explanation
Indices: 14554471--14554514 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14554461 TTAATAAATC
14554471 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14554515 CTTTTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14561546 original size:45 final size:45
Alignment explanation
Indices: 14560866--14561552 Score: 908
Period size: 45 Copynumber: 15.3 Consensus size: 45
14560856 CAATGAATTC
*
14560866 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* * *
14560911 GCAGGTCTTGTTTTCCTGTATTGGCAGCGAAGTACA-CTGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
* *
14560956 GCAGGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAAATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
* * * *
14561001 ACAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCAAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* * * *
14561046 GTAGGTCTTGTCTTCATGTATTGGCAGTGAAGTAGA-CTGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
* *
14561091 GCATG-TCTTGTCTTCCTGTATTGGCAGCGAAATAGATTGAAGATA
1 GCA-GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* *
14561136 GCAGGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* *
14561181 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
*
14561226 GCAGGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
*
14561271 GCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGA-CTGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
* *
14561316 GCAGGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
* * ** * * *
14561361 GCGGATCTTGTCTCCCTG-AGCAGG-AGTGGAGTAGGTCGAAGATA
1 GCAGATCTTGTCTTCCTGTA-TTGGCAGCGAAGTAGATCGAAGATA
*
14561405 GCAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGA-CTGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA
14561450 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* *
14561495 GTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATTA
1 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-TA
*
14561541 -CAGATCCTGTCT
1 GCAGATCTTGTCT
14561553 CCCTAAGCGG
Statistics
Matches: 567, Mismatches: 61, Indels: 28
0.86 0.09 0.04
Matches are distributed among these distances:
44 37 0.07
45 525 0.93
46 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
GCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
Found at i:14562463 original size:22 final size:21
Alignment explanation
Indices: 14562437--14562478 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
14562427 ACTACCCAAT
14562437 TAACCCAGC-AGCCCAACTAACC
1 TAACCCA-CAAGCCCAA-TAACC
14562459 TAACCCACAAGCCCAATAAC
1 TAACCCACAAGCCCAATAAC
14562479 AATAGACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.43, G:0.07, T:0.10
Consensus pattern (21 bp):
TAACCCACAAGCCCAATAACC
Found at i:14563455 original size:8 final size:8
Alignment explanation
Indices: 14563431--14563503 Score: 57
Period size: 8 Copynumber: 9.6 Consensus size: 8
14563421 TTATACGTAC
*
14563431 ATATTTTT
1 ATATATTT
14563439 ATA-ATTT
1 ATATATTT
*
14563446 ATTTATTT
1 ATATATTT
14563454 ATATATTT
1 ATATATTT
*
14563462 ATACA--T
1 ATATATTT
*
14563468 ATATATAT
1 ATATATTT
14563476 ATATA-TT
1 ATATATTT
14563483 ATAT-TTT
1 ATATATTT
*
14563490 ATACTTTTT
1 ATA-TATTT
14563499 ATATA
1 ATATA
14563504 CATTTTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
6 5 0.10
7 15 0.29
8 26 0.50
9 6 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATATTT
Found at i:14569680 original size:19 final size:19
Alignment explanation
Indices: 14569646--14569690 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
14569636 AATGATAATT
*
14569646 AAATTAAAGTTAATTAAACC
1 AAATT-AAGGTAATTAAACC
*
14569666 AAATTAAGGTAATTAAACT
1 AAATTAAGGTAATTAAACC
14569685 AAATTA
1 AAATTA
14569691 CTTAGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATTAAGGTAATTAAACC
Found at i:14569889 original size:96 final size:96
Alignment explanation
Indices: 14569724--14569917 Score: 343
Period size: 96 Copynumber: 2.0 Consensus size: 96
14569714 AGCTTGAGAT
14569724 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
1 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
*
14569789 CTTCCAAGCTTTGCAGCATTTGGCCAAGGAG
66 CTTCCAAGCTTTGCAGCATTCGGCCAAGGAG
* * **
14569820 AATGGAAAATTCCACTATCTTCTTCTTTAAGCACCGTCCACCATTAATAAAACCAAAGAAAAATG
1 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
14569885 CTTCCAAGCTTTGCAGCATTCGGCCAAGGAG
66 CTTCCAAGCTTTGCAGCATTCGGCCAAGGAG
14569916 AA
1 AA
14569918 ACTAAGGTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (96 bp):
AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
CTTCCAAGCTTTGCAGCATTCGGCCAAGGAG
Found at i:14571544 original size:24 final size:24
Alignment explanation
Indices: 14571483--14571553 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
14571473 ATGTAACTTG
* *
14571483 CGAACCCCTATCACCAAACACATA
1 CGAACCCCTATCACCAAATACCTA
* * * * *
14571507 CGAATCCTTCTCACTAGATACCTA
1 CGAACCCCTATCACCAAATACCTA
14571531 CGAACCCCTATCACCAAATACCT
1 CGAACCCCTATCACCAAATACCT
14571554 CGTATCACTG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.35, C:0.39, G:0.06, T:0.20
Consensus pattern (24 bp):
CGAACCCCTATCACCAAATACCTA
Found at i:14572574 original size:14 final size:14
Alignment explanation
Indices: 14572555--14572584 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14572545 GTGATTATTT
14572555 TAATCTAATTTAAC
1 TAATCTAATTTAAC
*
14572569 TAATCTAATTTCAC
1 TAATCTAATTTAAC
14572583 TA
1 TA
14572585 CGAACGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:14575987 original size:17 final size:17
Alignment explanation
Indices: 14575962--14575996 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14575952 AATTAAAAAT
* *
14575962 AAATGATAAACAAGTAA
1 AAATAATAAACAAATAA
14575979 AAATAATAAACAAATAA
1 AAATAATAAACAAATAA
14575996 A
1 A
14575997 GTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (17 bp):
AAATAATAAACAAATAA
Found at i:14576007 original size:5 final size:5
Alignment explanation
Indices: 14575990--14576026 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
14575980 AATAATAAAC
*
14575990 AAATA AAGT- AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
14576027 AAAGAATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:14577039 original size:115 final size:115
Alignment explanation
Indices: 14576888--14577104 Score: 301
Period size: 115 Copynumber: 1.9 Consensus size: 115
14576878 AATTTTTAGA
* * *
14576888 AAAATTAAGTCCTAGGGTCCACACGGCCAAGGACACGCCCGTGTATCCAAGCCGTGTGGGTCATA
1 AAAACTAAGTCCTAGGATCCACACGGCCAAGAACACGCCCGTGTATCCAAGCCGTGTGGGTCATA
* * * ** * *
14576953 TGGCCATTTCGCCAGGCTGTGTAACTCACTGTCGAATTTCTTAAAATTTT
66 TGGCAATGTCGACAGGCCATATAACTCACTATCGAATTTCTTAAAATTTT
* * *
14577003 AAAACTAAGT-CTCAGGATCCACACGGCCAAGAACACGCCCGTGTGTCTAGGCCGTGTGGGTCAT
1 AAAACTAAGTCCT-AGGATCCACACGGCCAAGAACACGCCCGTGTATCCAAGCCGTGTGGGTCAT
14577067 ATGGCAATGTCGACAGGCCATATAACTCACTATCGAAT
65 ATGGCAATGTCGACAGGCCATATAACTCACTATCGAAT
14577105 CCCTTTTAGT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
114 2 0.02
115 86 0.98
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (115 bp):
AAAACTAAGTCCTAGGATCCACACGGCCAAGAACACGCCCGTGTATCCAAGCCGTGTGGGTCATA
TGGCAATGTCGACAGGCCATATAACTCACTATCGAATTTCTTAAAATTTT
Found at i:14579368 original size:43 final size:44
Alignment explanation
Indices: 14579312--14579481 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 44
14579302 TTACTGAGAG
14579312 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-T
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATAT
* * *
14579355 GTGATTACGTGTAAGACCATGTCTGAGACATTGGCATTGT-TAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATAT
* ** * * * * *
14579398 ATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCG-ATAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATAT
* *
14579441 GTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
14579482 GAGCTATTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
42 8 0.08
43 97 0.92
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATAT
Found at i:14580192 original size:26 final size:22
Alignment explanation
Indices: 14580133--14580193 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 22
14580123 ATCAGATCTT
*
14580133 ATGAGCTTACTGTTTCAGCTCG
1 ATGAGCTTACCGTTTCAGCTCG
14580155 ATAGAGCTTACCGTTCTTCAGCTCGG
1 AT-GAGCTTACCG-T-TTCAGCTC-G
14580181 AATGAGCTTACCG
1 -ATGAGCTTACCG
14580194 ATCATTGCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.06
23 9 0.27
24 1 0.03
25 8 0.24
26 11 0.33
27 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
ATGAGCTTACCGTTTCAGCTCG
Found at i:14592702 original size:25 final size:23
Alignment explanation
Indices: 14592634--14592742 Score: 68
Period size: 25 Copynumber: 4.8 Consensus size: 23
14592624 AATAGGATTA
*
14592634 TTAAATGTAATTTAATAAA-AA-
1 TTAAATATAATTTAATAAATAAT
* *
14592655 -TAAAAATAA--AAATAAATAAT
1 TTAAATATAATTTAATAAATAAT
*
14592675 TT-AATCATATTTTAATATAATAATT
1 TTAAAT-ATAATTTAATA-AATAA-T
*
14592700 TTAAATATAATTTAATAAAAAAT
1 TTAAATATAATTTAATAAATAAT
* *
14592723 AATGATATATAATTTAATAA
1 --TTAAATATAATTTAATAA
14592743 TATGAATGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
18 6 0.09
19 2 0.03
20 9 0.13
21 4 0.06
23 5 0.07
24 9 0.13
25 29 0.43
26 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAATATAATTTAATAAATAAT
Found at i:14595149 original size:12 final size:12
Alignment explanation
Indices: 14595132--14595159 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14595122 GACGTGCGAC
14595132 ATGTCAAGTTAT
1 ATGTCAAGTTAT
14595144 ATGTCAAGTTAT
1 ATGTCAAGTTAT
14595156 ATGT
1 ATGT
14595160 TTTGTAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (12 bp):
ATGTCAAGTTAT
Found at i:14603397 original size:2 final size:2
Alignment explanation
Indices: 14603390--14603415 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14603380 TTCTATTCTC
14603390 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
14603416 CAGTAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14609180 original size:13 final size:13
Alignment explanation
Indices: 14609164--14609190 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14609154 AATTTTCTTA
14609164 AAAAAATTATTTG
1 AAAAAATTATTTG
14609177 AAAAAATTATTTG
1 AAAAAATTATTTG
14609190 A
1 A
14609191 TTTTTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AAAAAATTATTTG
Found at i:14609724 original size:35 final size:33
Alignment explanation
Indices: 14609661--14609732 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 33
14609651 TTATTTCAAA
*
14609661 AATAATATTATTTTAATAGTTTAATATTAAATTT
1 AATAATATTATCTTAATAGTTTAATATT-AATTT
*
14609695 AATAATACTTATCTTAATAGTATT-TTATTAATTT
1 AATAATA-TTATCTTAATAGT-TTAATATTAATTT
14609729 AATA
1 AATA
14609733 TTAAAGTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 16 0.47
35 16 0.47
36 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (33 bp):
AATAATATTATCTTAATAGTTTAATATTAATTT
Found at i:14609755 original size:31 final size:29
Alignment explanation
Indices: 14609720--14609777 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
14609710 AATAGTATTT
*
14609720 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
14609751 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
14609778 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:14609850 original size:20 final size:21
Alignment explanation
Indices: 14609811--14609851 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14609801 AATAAGATTT
14609811 AATATTAAATTTAATCTAATA
1 AATATTAAATTTAATCTAATA
* *
14609832 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATCTAATA
14609852 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATCTAATA
Found at i:14609995 original size:31 final size:31
Alignment explanation
Indices: 14609960--14610021 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14609950 TGTAGAGAGA
*
14609960 AAATTATCTAAAGAGATTATTTTAGAAAATT
1 AAATTATCTAAAGAGATTATTCTAGAAAATT
* *
14609991 AAATTCTTTAAAGAGATTATTCTAGAAAATT
1 AAATTATCTAAAGAGATTATTCTAGAAAATT
14610022 TGTAGAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (31 bp):
AAATTATCTAAAGAGATTATTCTAGAAAATT
Done.