Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold165
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: 1947055
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.31
Warning! 52078 characters in sequence are not A, C, G, or T
File 8 of 11
Found at i:1442752 original size:166 final size:164
Alignment explanation
Indices: 1442566--1443186 Score: 548
Period size: 166 Copynumber: 3.8 Consensus size: 164
1442556 TTCTACTCCA
* * * *
1442566 TAAATATTTTCGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTTATTAAATATTATTATTTA
1 TAAATTTTTTTGG-GAGATTTTTCTTGATTTTTAATTTTTAAAATTCATTAAATATTATTATTTA
* * * *
1442631 ATCAAAATTATATTAGTTTTCAAAAATTCTTTCATTTTTATGGGTTTTTGAATTTTTTCCTTAAA
65 ATCAATATTAAATCAGTTTTCAAAAATTCTTTCATTTTCATGGGTTTTTGAATTTTTTCCTTAAA
1442696 ATTCCCTTATTTTTGAAAAATAGGGTTTTTTACT-TCG
130 ATT-CCTTA-TTTTGAAAAATAGGGTTTTTTACTCT-G
* * * *
1442733 TAATTTTTTTTGGGAGATTTTTCTTGGTTTCTAATTTTTAAAATTAATTAAATATTATTATTTAA
1 TAAATTTTTTTGGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATTAAATATTATTATTTAA
* *
1442798 T-ACATATTAAATCATTTTTCAAACATTCATTT--TTTTCATGGGTTTTTGAATTTTTTCCTTGA
66 TCA-ATATTAAATCAGTTTTCAAAAATTC-TTTCATTTTCATGGGTTTTTGAATTTTTTCCTT-A
* ** * * * * *
1442860 AATTTTCCTCCTTTCGAAAAA-CGAAGTTTTCTAGTCTG
128 AA-ATTCCTTATTTTGAAAAATAG-GGTTTTTTACTCTG
* * * *
1442898 TAAAATTTTTTGGAGGGATTTTTCTTGATTTTTAATTTTTAAAATTCATGAAATATTATTATCTA
1 TAAATTTTTTTGG-GAGATTTTTCTTGATTTTTAATTTTTAAAATTCATTAAATATTATTATTTA
* * ** * *
1442963 ATTC-ATATTAAATCAGATTTT-AAAAATTCGTTCATTTTCAT-GATTTTTTTATTTTTTTCTTG
65 A-TCAATATTAAATCAG-TTTTCAAAAATTCTTTCATTTTCATGGGTTTTTGAATTTTTTCCTTA
* * * *
1443025 AAATTTCTCTATTTTCAAAATATA-GATTTTTCTACTCTA
128 AAATTCCT-TATTTTGAAAA-ATAGGGTTTTT-TACTCTG
* * * ***
1443064 TAAATTTTTTTGAAGG-GATTTTTCTCGATTTTTAATTTTTAAAATTCATCAAATATCACCGTTT
1 TAAATTTTTTTG--GGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATTAAATATTATTATTT
* * ** * *
1443128 AACTC-ATATTAAATTAGTTTTGAAAGTTTCATTT-ATTTTCCTGAG-TTTTGAATTTTTTC
64 AA-TCAATATTAAATCAGTTTTCAAAAATTC-TTTCATTTTCATGGGTTTTTGAATTTTTTC
1443187 TACGAAATGA
Statistics
Matches: 367, Mismatches: 66, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
164 5 0.01
165 76 0.21
166 255 0.69
167 30 0.08
168 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (164 bp):
TAAATTTTTTTGGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATTAAATATTATTATTTAA
TCAATATTAAATCAGTTTTCAAAAATTCTTTCATTTTCATGGGTTTTTGAATTTTTTCCTTAAAA
TTCCTTATTTTGAAAAATAGGGTTTTTTACTCTG
Found at i:1442990 original size:332 final size:332
Alignment explanation
Indices: 1442567--1443186 Score: 738
Period size: 332 Copynumber: 1.9 Consensus size: 332
1442557 TCTACTCCAT
* * * *
1442567 AAATATTTTCGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTTATTAAATATTATTATTTAA
1 AAATATTTTCGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATGAAATATTATTATCTAA
* * * * *
1442632 TCAAAATTATATTAGTTTTCAAAAATTCTTTCATTTTTATGGGTTTTTGAATTTTTTCCTTAAAA
66 TCAAAATTAAATCAGTTTTCAAAAATTCGTTCATTTTCAT-GATTTTTGAATTTTTTCCTTAAAA
* * * *
1442697 TTCC-CTTATTTTTGAAAA-ATAGGGTTTTT-TACT-TCGTAATTTTTTTTG-GGAGATTTTTCT
130 TTCCTC-TA-TTTTCAAAATATA-GATTTTTCTACTCT-ATAAATTTTTTTGAGG-GATTTTTCT
* * * * ** *
1442757 TGGTTTCTAATTTTTAAAATTAATTAAATATTATTATTTAA-TACATATTAAATCATTTTTCAAA
190 CGATTTCTAATTTTTAAAATTAATCAAATATCACCATTTAACT-CATATTAAATCAGTTTTCAAA
*
1442821 CATTCATTT-TTTTCATGGGTTTTTGAATTTTTTCCTTGAAATTTTCCTCCTTTCGAAAAACGAA
254 CATTCATTTATTTTCATGAG-TTTTGAATTTTTTCCTTGAAATTTTCCTCCTTTCGAAAAACGAA
1442885 GTTTTCTAGTCTGTA
318 GTTTTCTAGTCTGTA
* *
1442900 AAAT-TTTTTGGAGGGATTTTTCTTGATTTTTAATTTTTAAAATTCATGAAATATTATTATCTAA
1 AAATATTTTCGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATGAAATATTATTATCTAA
* ** * *
1442964 TTC-ATATTAAATCAGATTTT-AAAAATTCGTTCATTTTCATGATTTTTTTATTTTTTTCTTGAA
66 -TCAAAATTAAATCAG-TTTTCAAAAATTCGTTCATTTTCATGATTTTTGAATTTTTTCCTTAAA
*
1443027 ATTTCTCTATTTTCAAAATATAGATTTTTCTACTCTATAAATTTTTTTGAAGGGATTTTTCTCGA
129 ATTCCTCTATTTTCAAAATATAGATTTTTCTACTCTATAAATTTTTTTG-AGGGATTTTTCTCGA
* * * * * **
1443092 TTTTTAATTTTTAAAATTCATCAAATATCACCGTTTAACTCATATTAAATTAGTTTTGAAAGTTT
193 TTTCTAATTTTTAAAATTAATCAAATATCACCATTTAACTCATATTAAATCAGTTTTCAAACATT
*
1443157 CATTTATTTTCCTGAGTTTTGAATTTTTTC
258 CATTTATTTTCATGAGTTTTGAATTTTTTC
1443187 TACGAAATGA
Statistics
Matches: 240, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
330 14 0.06
331 42 0.17
332 163 0.68
333 21 0.09
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (332 bp):
AAATATTTTCGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATGAAATATTATTATCTAA
TCAAAATTAAATCAGTTTTCAAAAATTCGTTCATTTTCATGATTTTTGAATTTTTTCCTTAAAAT
TCCTCTATTTTCAAAATATAGATTTTTCTACTCTATAAATTTTTTTGAGGGATTTTTCTCGATTT
CTAATTTTTAAAATTAATCAAATATCACCATTTAACTCATATTAAATCAGTTTTCAAACATTCAT
TTATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTTTCCTCCTTTCGAAAAACGAAGTTTTCTA
GTCTGTA
Found at i:1443305 original size:165 final size:164
Alignment explanation
Indices: 1442544--1443350 Score: 493
Period size: 166 Copynumber: 4.9 Consensus size: 164
1442534 CCCATTTCCG
* * * * * * *
1442544 AAATAGAGAGCTTTCTACTCCATAAATATTTTCGGAGAGATTTTTCTTGGTTTTTAATTTTTAAA
1 AAATATAGAGTTTTCTACTCCATAAATATATTCGAAGGGATTTTTCTCGATTTTTAATTTTTAAA
* * * * * *
1442609 ATTTATTAAATATTATTATTTAA-TCAAAATTATATTAGTTTTCAAAAATTCTTTCATTTTTATG
66 ATTCATCAAATATTATTA-TTAACTC-ATATTAAATTAGTTTT-AAAAATTCATTCATTTTCATG
* ** * *
1442673 -GGTTTTTGAATTTTTTCCTTAAAAT-TCCCTTATTTTTGA
128 ATG-TTTTGAATTTTTT-CTCGAAATATCTC-TA-TTTTCA
* * * * * * * * * * *
1442712 AAA-ATAGGGTTTTTTACTTCGTAATTTTTTTTG--GGAGATTTTTCTTGGTTTCTAATTTTTAA
1 AAATATAGAGTTTTCTACTCCATAAATATATTCGAAGG-GATTTTTCTCGATTTTTAATTTTTAA
* * * * * *
1442774 AATTAATTAAATATTATTATTTAA-TACATATTAAATCATTTTTCAAACATTCATT-TTTTTCAT
65 AATTCATCAAATATTATTA-TTAACT-CATATTAAATTAGTTTT-AAAAATTCATTCATTTTCAT
* * * **
1442837 G-GGTTTTTGAATTTTTTCCTTGAAAT-TTTCCTCCTTTCGA
127 GATG-TTTTGAATTTTTT-CTCGAAATATCT-CTATTTTC-A
* * ** * * * *
1442877 AAA-A-CGAAGTTTTCTAGTCTGTAAA-ATTTTTTGGAGGGATTTTTCTTGATTTTTAATTTTTA
1 AAATATAG-AGTTTTCTACTCCATAAATA-TATTCGAAGGGATTTTTCTCGATTTTTAATTTTTA
* * * *
1442939 AAATTCATGAAATATTATTATCTAATTCATATTAAATCAGATTTTAAAAATTCGTTCATTTTCAT
64 AAATTCATCAAATATTATTAT-TAACTCATATTAAATTAG-TTTTAAAAATTCATTCATTTTCAT
* * * * *
1443004 GATTTTTTTATTTTTTTCTTGAAATTTCTCTATTTTCA
127 GATGTTTTGAATTTTTTCTCGAAATATCTCTATTTTCA
* * * * *
1443042 AAATATAGATTTTTCTACTCTATAAATTTTTTTGAAGGGATTTTTCTCGATTTTTAATTTTTAAA
1 AAATATAGAGTTTTCTACTCCATAAATATATTCGAAGGGATTTTTCTCGATTTTTAATTTTTAAA
* * ** * *
1443107 ATTCATCAAATATCACCGT-TTAACTCATATTAAATTAGTTTTGAAAGTTTCATTTATTTTCCTG
66 ATTCATCAAATATTA--TTATTAACTCATATTAAATTAGTTTT-AAAAATTCATTCATTTTCATG
**
1443171 A-GTTTTGAATTTTTTCTACGAAATGAT-TCTATTTTTG
128 ATGTTTTGAATTTTTTCT-CGAAAT-ATCTCTATTTTCA
* * * **
1443208 AAA-ATCGAGTTTTCTATTCCATAAATATATTCGAGGGGATTTTTCTCGATTTAGAATTTTTAAA
1 AAATATAGAGTTTTCTACTCCATAAATATATTCGAAGGGATTTTTCTCGATTTTTAATTTTTAAA
* * * *
1443272 ATTCAT-ATAATATTTTTATTAAACTCTTATTAAATTAGTTTCAAGAAATTCAATT-AATTTCAT
66 ATTCATCA-AATATTATTATT-AACTCATATTAAATTAGTTTTAA-AAATTC-ATTCATTTTCAT
**
1443335 -AAATTTTGAATTTTTT
127 GATGTTTTGAATTTTTT
1443351 TTGTATACAT
Statistics
Matches: 518, Mismatches: 93, Indels: 59
0.77 0.14 0.09
Matches are distributed among these distances:
163 1 0.00
164 10 0.02
165 183 0.35
166 267 0.52
167 53 0.10
168 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (164 bp):
AAATATAGAGTTTTCTACTCCATAAATATATTCGAAGGGATTTTTCTCGATTTTTAATTTTTAAA
ATTCATCAAATATTATTATTAACTCATATTAAATTAGTTTTAAAAATTCATTCATTTTCATGATG
TTTTGAATTTTTTCTCGAAATATCTCTATTTTCA
Found at i:1445003 original size:32 final size:33
Alignment explanation
Indices: 1444941--1445004 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1444931 CACAACTAGA
1444941 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* * *
1444974 TGTATCGATATATGTT-CTTTGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
1445005 CCATAAACTG
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:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:1445576 original size:35 final size:35
Alignment explanation
Indices: 1445530--1445625 Score: 167
Period size: 35 Copynumber: 2.8 Consensus size: 35
1445520 AGTGATTAAA
1445530 AGGTTCTATCTTAGCCTTTGTAAAAGATAAGGAAG
1 AGGTTCTATCTTAGCCTTTGTAAAAGATAAGGAAG
*
1445565 AGGTTTTATCTTAGCCTTTGTAAAAGATAAGGAAG
1 AGGTTCTATCTTAGCCTTTGTAAAAGATAAGGAAG
*
1445600 AGGTTCTATCTTAGCCTTCG-AAAAGA
1 AGGTTCTATCTTAGCCTTTGTAAAAGA
1445626 AGTGTTGTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
34 6 0.10
35 52 0.90
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
AGGTTCTATCTTAGCCTTTGTAAAAGATAAGGAAG
Found at i:1447285 original size:86 final size:85
Alignment explanation
Indices: 1447034--1447270 Score: 325
Period size: 86 Copynumber: 2.8 Consensus size: 85
1447024 GACAAAGGCG
* * *
1447034 ATAGGTAAACAAAGGGTAAGAAAGGCTAACCGAGGACAAAGCCGATAGGTCACCAAAG-GATAAG
1 ATAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCTGACAGGTCACCAAAGAG-TAAG
*
1447098 AAGTTTACTGGGGACATAGCTA
65 AAGTTTAC-GGGGACATAGCCA
* * * * *
1447120 ACAGGTAAACAAAGAGTAAGAAAGGCAGACCGTGGACAAAGCTGACAGGTCACCAAGGAGTAAGA
1 ATAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCTGACAGGTCACCAAAGAGTAAGA
1447185 AGTTTATCGGGGACATAGCCA
66 AGTTTA-CGGGGACATAGCCA
* * *
1447206 ATAGGTAAACAAAGGGTAAGAATGGCTGACC-AAGACAAAGCTGACAGGTCACCAATGAGTAAGA
1 ATAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCTGACAGGTCACCAAAGAGTAAGA
1447270 A
66 A
1447271 TGGCTGACGA
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
85 31 0.23
86 100 0.75
87 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.28, T:0.14
Consensus pattern (85 bp):
ATAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCTGACAGGTCACCAAAGAGTAAGA
AGTTTACGGGGACATAGCCA
Found at i:1447286 original size:43 final size:43
Alignment explanation
Indices: 1447043--1447375 Score: 201
Period size: 42 Copynumber: 7.7 Consensus size: 43
1447033 GATAGGTAAA
* * * *
1447043 CAAAGGGTAAGAAAGGCTAACCGAGGACAAAGCCGATAGGTCAC
1 CAAAGAGTAAG-AAGGCTGACCGAGGACAAAGCTGACAGGTCAC
* * * * * * * *
1447087 CAAAG-GATAAGAA-GTTTACTGGGGACATAGCTAACAGGTAAA
1 CAAAGAG-TAAGAAGGCTGACCGAGGACAAAGCTGACAGGTCAC
* *
1447129 CAAAGAGTAAGAAAGGCAGACCGTGGACAAAGCTGACAGGTCAC
1 CAAAGAGTAAG-AAGGCTGACCGAGGACAAAGCTGACAGGTCAC
* * * * * * ** * * *
1447173 CAAGGAGTAAGAA-GTTTATCGGGGACATAGCCAATAGGTAAA
1 CAAAGAGTAAGAAGGCTGACCGAGGACAAAGCTGACAGGTCAC
* *
1447215 CAAAGGGTAAGAATGGCTGACC-AAGACAAAGCTGACAGGTCAC
1 CAAAGAGTAAGAA-GGCTGACCGAGGACAAAGCTGACAGGTCAC
* * *
1447258 CAATGAGTAAGAATGGCTGA-CGAGGACAAAGCTGATAGATCAC
1 CAAAGAGTAAGAA-GGCTGACCGAGGACAAAGCTGACAGGTCAC
* * * * * * * *
1447301 CAAGGAGTAAGAA-GTTTACCGAGGACATAGCCGATAGGTAAA
1 CAAAGAGTAAGAAGGCTGACCGAGGACAAAGCTGACAGGTCAC
* * *
1447343 CAAAGGGTAAGAATGGTTGACCGGGGACAAAGC
1 CAAAGAGTAAGAA-GGCTGACCGAGGACAAAGC
1447376 CAATAGGTTA
Statistics
Matches: 217, Mismatches: 62, Indels: 20
0.73 0.21 0.07
Matches are distributed among these distances:
41 3 0.01
42 87 0.40
43 69 0.32
44 58 0.27
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (43 bp):
CAAAGAGTAAGAAGGCTGACCGAGGACAAAGCTGACAGGTCAC
Found at i:1447396 original size:128 final size:129
Alignment explanation
Indices: 1447062--1447400 Score: 407
Period size: 128 Copynumber: 2.6 Consensus size: 129
1447052 AGAAAGGCTA
* * * * * * *
1447062 ACCGAGGACAAAGCCGATAGGTCACCAAAGGATAAGAA--GTTTACTGGGGACATAGCTAACAGG
1 ACCGAGGACATAGCCGATAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCTAACAGG
* * *
1447125 TAAACAAAGAGTAAGAAAGGCAGACCGTGGACAAAGCTGACAGGTCACCAAGGAGTAAGAAGTTT
66 T-AACCAAGAGTAAGAAAGGCAGACCGAGGACAAAGCTGACAGATCACCAAGGAGTAAGAAGTTT
* * * * ** *
1447190 ATCGGGGACATAGCCAATAGGTAAACAAAGGGTAAGAATGGCTGACC-AAGACAAAGCTGACAGG
1 ACCGAGGACATAGCCGATAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCTAACAGG
* * * *
1447254 TCACCAATGAGTAAGAATGGCTGA-CGAGGACAAAGCTGATAGATCACCAAGGAGTAAGAAGTTT
66 TAACCAA-GAGTAAGAAAGGCAGACCGAGGACAAAGCTGACAGATCACCAAGGAGTAAGAAGTTT
* *
1447318 ACCGAGGACATAGCCGATAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCAATAGG
1 ACCGAGGACATAGCCGATAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCTAACAGG
* *
1447383 TTACCAAGGGTAAGAAAG
66 TAACCAAGAGTAAGAAAG
1447401 TCTCTAAGAT
Statistics
Matches: 174, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
128 124 0.71
129 46 0.26
130 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (129 bp):
ACCGAGGACATAGCCGATAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCTAACAGG
TAACCAAGAGTAAGAAAGGCAGACCGAGGACAAAGCTGACAGATCACCAAGGAGTAAGAAGTTT
Found at i:1447729 original size:52 final size:52
Alignment explanation
Indices: 1447455--1447890 Score: 366
Period size: 51 Copynumber: 8.4 Consensus size: 52
1447445 GATAAGAATA
* * ** * * *
1447455 GTGCCAATGTGCTGATTCAAGACCAACTCCATTGGACTTAAAGATGAGAAGA
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGG
* ** * * * * * *
1447507 GTGCCAACATACTGATTCATGGCTAACAACATTAGG-TTTAAAAATGATAA-G
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAACATGATAAGG
* *
1447558 GTGCTAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAACATGATAAGG
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGG
* * * * * *
1447610 GTGCCAATG-GTTGATTCAAGGCTAACAACATTAGG-CATAAAAATGATAA-G
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAACATGATAAGG
* * *
1447660 GTGCTAATATGCTGATTCATGGCCAACGACGTTGGACTTAAACATGATAAGG
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGG
* * * * * *
1447712 GTG-TCATTGTGCTGATTCAAGGCTAGCGACATTGGGCTTAGAA-ACGAGAA-G
1 GTGCT-AATGTGCTGATTCAAGGCCAACGACATTGGACTTA-AACATGATAAGG
* * *
1447763 GTGCTAATGTGCTGATTCAAAGCCAACGACGTTGGACTTGAACATGATAAGG
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGG
* * * * *
1447815 GTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAGAAAAAGATAAAG
1 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTA-AACATGATAAGG
* * * *
1447868 GTGTTGATATGCTAATTCAAGGC
1 GTGCTAATGTGCTGATTCAAGGC
1447891 TAACAATATC
Statistics
Matches: 303, Mismatches: 68, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
50 14 0.05
51 137 0.45
52 120 0.40
53 32 0.11
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGG
Found at i:1447780 original size:103 final size:103
Alignment explanation
Indices: 1447455--1447890 Score: 498
Period size: 103 Copynumber: 4.2 Consensus size: 103
1447445 GATAAGAATA
* * * ** * * * ** *
1447455 GTGCCAATGTGCTGATTCAAGACCAACTCCATTGGACTTAAAGATGAGAAGAGTGCCAACATACT
1 GTGCTAATATGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGGGTGCCAATGTGCT
* *
1447520 GATTCATGGCTAACAACATTAGGTTTAAAAATGATAAG
66 GATTCAAGGCTAACAACATTAGGCTTAAAAATGATAAG
* *
1447558 GTGCTAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAACATGATAAGGGTGCCAATG-GTT
1 GTGCTAATATGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGGGTGCCAATGTGCT
*
1447622 GATTCAAGGCTAACAACATTAGGCATAAAAATGATAAG
66 GATTCAAGGCTAACAACATTAGGCTTAAAAATGATAAG
* * * *
1447660 GTGCTAATATGCTGATTCATGGCCAACGACGTTGGACTTAAACATGATAAGGGTGTCATTGTGCT
1 GTGCTAATATGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGGGTGCCAATGTGCT
* * * * * *
1447725 GATTCAAGGCTAGCGACATTGGGCTTAGAAACGAGAAG
66 GATTCAAGGCTAACAACATTAGGCTTAAAAATGATAAG
* * * * *
1447763 GTGCTAATGTGCTGATTCAAAGCCAACGACGTTGGACTTGAACATGATAAGGGTGCTAATGTGCT
1 GTGCTAATATGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGGGTGCCAATGTGCT
* * *
1447828 GATTCAAGGCTAGCGACATT-GGACTTAGAAAAAGATAAAG
66 GATTCAAGGCTAACAACATTAGG-CTTA-AAAATGAT-AAG
* * *
1447868 GTGTTGATATGCTAATTCAAGGC
1 GTGCTAATATGCTGATTCAAGGC
1447891 TAACAATATC
Statistics
Matches: 285, Mismatches: 44, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
102 94 0.33
103 165 0.58
104 5 0.02
105 21 0.07
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (103 bp):
GTGCTAATATGCTGATTCAAGGCCAACGACATTGGACTTAAACATGATAAGGGTGCCAATGTGCT
GATTCAAGGCTAACAACATTAGGCTTAAAAATGATAAG
Found at i:1448309 original size:50 final size:51
Alignment explanation
Indices: 1448162--1448363 Score: 268
Period size: 50 Copynumber: 4.0 Consensus size: 51
1448152 AAAGAATGAT
* * *
1448162 AAAA-GTGCTAATAT-TCTGATTCAAGGCCAACGATATTGGACTTAAGAAAGA
1 AAAAGGTGCTAATGTGT-TGATTTAAGGCCAACGACATTGGACTT-AGAAAGA
*
1448213 AAAAGGTGCTAATGTGTTGATTTAAGGCCAGCGACATTGGACTTAGAAAGA
1 AAAAGGTGCTAATGTGTTGATTTAAGGCCAACGACATTGGACTTAGAAAGA
* *
1448264 AAAAGGTTCTAATGGGTTGA-TTAAGGCCAACGACATTGGACTTAGAAAGA
1 AAAAGGTGCTAATGTGTTGATTTAAGGCCAACGACATTGGACTTAGAAAGA
* * * *
1448314 AAAAGGTGCCAATGTGCT-ATTTAAGGCCAACAACATTAGACTTAGAAAGA
1 AAAAGGTGCTAATGTGTTGATTTAAGGCCAACGACATTGGACTTAGAAAGA
1448364 GATGGTTTGA
Statistics
Matches: 135, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 71 0.53
51 29 0.21
52 33 0.24
53 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (51 bp):
AAAAGGTGCTAATGTGTTGATTTAAGGCCAACGACATTGGACTTAGAAAGA
Found at i:1448361 original size:100 final size:103
Alignment explanation
Indices: 1448178--1448363 Score: 297
Period size: 100 Copynumber: 1.8 Consensus size: 103
1448168 GCTAATATTC
* * *
1448178 TGATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAAGGTGCTAATGTGTTGATTTAAGGCCA
1 TGATTCAAGGCCAACGACATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTTAAGGCCA
* * *
1448243 GCGACATTGGACTTAGAAAGAAAAAGGTTCTAATGGGT
66 ACAACATTAGACTTAGAAAGAAAAAGGTTCTAATGGGT
1448281 TGATT-AAGGCCAACGACATTGGACTT-AGAAAGAAAAAGGTGCCAATGTGCT-ATTTAAGGCCA
1 TGATTCAAGGCCAACGACATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTTAAGGCCA
1448343 ACAACATTAGACTTAGAAAGA
66 ACAACATTAGACTTAGAAAGA
1448364 GATGGTTTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 29 0.38
101 23 0.30
102 20 0.26
103 5 0.06
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (103 bp):
TGATTCAAGGCCAACGACATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTTAAGGCCA
ACAACATTAGACTTAGAAAGAAAAAGGTTCTAATGGGT
Found at i:1448600 original size:34 final size:32
Alignment explanation
Indices: 1448546--1448766 Score: 122
Period size: 34 Copynumber: 6.7 Consensus size: 32
1448536 TGGGCTTTGT
*
1448546 AAAAAGGATGGCACCAACTTGTATAGGCTTCA
1 AAAAAGGATGACACCAACTTGTATAGGCTTCA
* *
1448578 GAAAAAGAGATGACACCAACTTGTATGGGCTTTA
1 -AAAAAG-GATGACACCAACTTGTATAGGCTTCA
* * * * *
1448612 AGAAAGGATGCCACCAACTTGTGTGGGCTCTGA
1 AAAAAGGATGACACCAACTTGTATAGGCT-TCA
* * **
1448645 AAAAATGGATG-CAACTAACTTGTATGGGCTTTG
1 AAAAA-GGATGAC-ACCAACTTGTATAGGCTTCA
** * * ** *
1448678 AAAGGGGTTGCCACCAACTTGCGTGGGCTTCGA
1 AAAAAGGATGACACCAACTTGTATAGGCTTC-A
* * *
1448711 AAAAAGGGATG-CTACCAACTTGTGTGGGCTTTGA
1 AAAAA-GGATGAC-ACCAACTTGTATAGGC-TTCA
* * *
1448745 AGAAAGGATGCCACTAACTTGT
1 AAAAAGGATGACACCAACTTGT
1448767 GTGGGCTTTG
Statistics
Matches: 151, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
32 40 0.26
33 41 0.27
34 68 0.45
35 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (32 bp):
AAAAAGGATGACACCAACTTGTATAGGCTTCA
Found at i:1448624 original size:99 final size:96
Alignment explanation
Indices: 1448432--1449304 Score: 336
Period size: 93 Copynumber: 9.2 Consensus size: 96
1448422 AGATGCATAG
* * * * * * * * * *
1448432 ACTTGTGTGAGCTTTCGAAAGA-GTTGCCACTGACTTGTATGGGCTTTAGAAAGGGGTTGCCACC
1 ACTTGTGTGGGCTTT-GAAAAAGGATGGCACTAACTTGTATAGGC-TTAGAAAAGAGATGACACC
* * * *
1448496 GACTTGTGTGGGCTTTGAGAAGGGTTGCCACCA
64 AACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* *
1448529 GCTTGTGTGGGCTTTGTAAAAAGGATGGCACCAACTTGTATAGGCTTCAGAAAAAGAGATGACAC
1 ACTTGTGTGGGCTTTG-AAAAAGGATGGCACTAACTTGTATAGGCTT-AG-AAAAGAGATGACAC
*
1448594 CAACTTGTATGGGCTTTAAGAAAGGATGCCACCA
63 CAACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* * * * * * *
1448628 ACTTGTGTGGGCTCTGAAAAAATGGAT-GCAACTAACTTGTATGGGCTTTGAAAGGGGTTGCCAC
1 ACTTGTGTGGGCTTTG-AAAAA-GGATGGC-ACTAACTTGTATAGGCTTAGAAAAGAGATGACAC
* * * *
1448692 CAACTTGCGTGGGCTTCGAAAAAAGGGATGCTACCA
63 CAACTTGTGTGGGCTT-TAAGAAA-GGATGCCACCA
* * * * *
1448728 ACTTGTGTGGGCTTTGAAGAAAGGATGCCACTAACTTGTGTGGGCTTTGAAAAAATGGATG-CGA
1 ACTTGTGTGGGCTTTGAA-AAAGGATGGCACTAACTTGTATAGGCTTAGAAAAGA--GATGAC-A
* * * * **
1448792 CTAACTTGTGTGGGCTTTCAAG--GGGTTACCACTG
62 CCAACTTGTGTGGGCTTT-AAGAAAGGATGCCACCA
* ** * * * * ***
1448826 ACTTGTGTGGCCTTTG--AAAGGATCCCATTAACTTG--TGGGCTTTA-AAAAG-GGTGCCATTG
1 ACTTGTGTGGGCTTTGAAAAAGGATGGCACTAACTTGTATAGGC-TTAGAAAAGAGATGACACCA
* * **
1448885 AC-T-TGTGGGCTTTGA-AAAGGGTGCCACTG
65 ACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* * * * * ** * * *
1448914 AC-T-TATGGGCTTTGAGAAGGGTTGCCACCGATTTGTGTAGGCTTTA-AAAAG-G-TGCCACCA
1 ACTTGTGTGGGCTTTGAAAAAGGATGGCACTAACTTGTATAGGC-TTAGAAAAGAGATGACACCA
* *
1448974 ACTTGTGTGGGCTTTAA-AAGGGTTGCCACCA
65 ACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* * * * * * * * * * * **
1449005 ACTTGTGTGGGCTTT-AAAAGGGGTTGCCAATGACTTGTGTGGGCTTTA-AAAGGGGTTGCCAAT
1 ACTTGTGTGGGCTTTGAAAA-AGGATGGCACTAACTTGTATAGGC-TTAGAAAAGAGATGACACC
* * *
1449068 GACTTGTGTGGGCTTTAA-AAAGG-TGCCATCG
64 AACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* * * ** * * * *
1449099 ACTTGTGTGGGC-TTCAAAAGGGTTACCACCT-ACTTGTGTAGGCTTTA-AAAAGGGTTGCCACC
1 ACTTGTGTGGGCTTTGAAAAAGGATGGCA-CTAACTTGTATAGGC-TTAGAAAAGAGATGACACC
* * * * **
1449161 GACTTGTGTCGGCTTTAA-AAGGGTTGCCACTG
64 AACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
* * * * * * * * * * *
1449193 ACTTGTGTGGGC-TTCAAAAGGGTTGCCACTGACTTGTGTGGGCTTTA-AAAAGGGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAAAAGGATGGCACTAACTTGTATAGGC-TTAGAAAAGAGATGACACCA
* *
1449256 ACTTGTGTGGGCTTT-A-AAAGGGTGCCACCG
65 ACTTGTGTGGGCTTTAAGAAAGGATGCCACCA
1449286 ACTTGTGTGGGCTTT-AAAA
1 ACTTGTGTGGGCTTTGAAAA
1449305 GGGTTGCCAC
Statistics
Matches: 632, Mismatches: 110, Indels: 72
0.78 0.14 0.09
Matches are distributed among these distances:
86 9 0.01
87 2 0.00
88 33 0.05
89 8 0.01
90 22 0.03
91 24 0.04
92 4 0.01
93 134 0.21
94 104 0.16
95 43 0.07
96 1 0.00
97 19 0.03
98 64 0.10
99 94 0.15
100 50 0.08
101 21 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTGAAAAAGGATGGCACTAACTTGTATAGGCTTAGAAAAGAGATGACACCAA
CTTGTGTGGGCTTTAAGAAAGGATGCCACCA
Found at i:1448632 original size:66 final size:66
Alignment explanation
Indices: 1448464--1449330 Score: 330
Period size: 61 Copynumber: 13.7 Consensus size: 66
1448454 GTTGCCACTG
* * * * * *
1448464 ACTTGTATGGGCTTT-AGAAAGGGGTTGCCACCGACTTGTGTGGGCTT-TG-AGAAGGGTTGCCA
1 ACTTGTATGGGCTTTAAGAAA--GGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAA
1448526 CCA
64 CCA
* * * * * *
1448529 GCTTGTGTGGGCTTTGTAA-AAAGGATGGCACCAACTTGTATAGGCTTCAGAAAAAGAGATG-AC
1 ACTTGTATGGGC-TT-TAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCA-
1448592 ACCA
63 ACCA
1448596 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGC-TCTGAAAAA-ATGGATGCAA
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGA--GATGCAA
*
1448659 CTA
64 CCA
* * * *
1448662 ACTTGTATGGGCTTT--GAAAGGGGTTGCCACCAACTTGCGTGGGCTTC-GAAAAAAGGGATGCT
1 ACTTGTATGGGCTTTAAGAAA--GGATGCCACCAACTTGTGTGGGCTTCTG-AAAAAGAGATGCA
1448724 ACCA
63 ACCA
* * *
1448728 ACTTGTGTGGGCTTTGAAGAAAGGATGCCACTAACTTGTGTGGGCTT-TGAAAAA-ATGGATGCG
1 ACTTGTATGGGCTTT-AAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGA--GATGCA
*
1448791 ACTA
63 ACCA
* * * * ** * * * *
1448795 ACTTGTGTGGGCTTTCAAG--GGGTTACCACTGACTTGTGTGGCCTT-TG--AAAG-GATCCCAT
1 ACTTGTATGGGCTTT-AAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAAC
*
1448854 TA
65 CA
* *** * * *
1448856 ACTTG--TGGGCTTTAA-AAAGGGTGCCATTGAC-T-TGTGGGCTT-TG-AAAAG-GGTGCCACT
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAACC
*
1448913 G
66 A
* * * * * * *
1448914 AC-T-TATGGGCTTTGAGAAGGGTTGCCACCGATTTGTGTAGGCTT-T-AAAAAG-G-TGCCACC
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAACC
1448973 A
66 A
* * * * * *
1448974 ACTTGTGTGGGCTTTAA-AAGGGTTGCCACCAACTTGTGTGGGCTT-T-AAAAGGGGTTGCCAA-
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATG-CAAC
**
1449035 TG
65 CA
* * * *** * *
1449037 ACTTGTGTGGGCTTTAA-AAGGGGTTGCCAATGACTTGTGTGGGCTT-T-AAAAAG-G-TGCCAT
1 ACTTGTATGGGCTTTAAGAA-AGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAAC
*
1449097 CG
65 CA
* * * * * * * * * *
1449099 ACTTGTGTGGGCTTCAA-AAGGGTTACCACCTACTTGTGTAGGCTT-T-AAAAAGGGTTGCCACC
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAACC
*
1449161 G
66 A
* * * * ** * * * *
1449162 ACTTGTGTCGGCTTTAA-AAGGGTTGCCACTGACTTGTGTGGGCTTC---AAAAGGGTTGCCACT
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAACC
*
1449223 G
66 A
* * * * *
1449224 ACTTGTGTGGGCTTTAA-AAAGGGTTGCCACTAACTTGTGTGGGCTT-T--AAAAG-GGTGCCAC
1 ACTTGTATGGGCTTTAAGAAA-GGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAAC
*
1449284 CG
65 CA
* * * * *
1449286 ACTTGTGTGGGCTTTAA-AAGGGTTGCCACCAGCTTGTATGGGCTT
1 ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTT
1449331 TATAGGGGTT
Statistics
Matches: 663, Mismatches: 96, Indels: 90
0.78 0.11 0.11
Matches are distributed among these distances:
57 11 0.02
58 24 0.04
59 29 0.04
60 9 0.01
61 111 0.17
62 93 0.14
63 100 0.15
64 36 0.05
65 64 0.10
66 99 0.15
67 82 0.12
68 1 0.00
69 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (66 bp):
ACTTGTATGGGCTTTAAGAAAGGATGCCACCAACTTGTGTGGGCTTCTGAAAAAGAGATGCAACC
A
Found at i:1448833 original size:31 final size:31
Alignment explanation
Indices: 1448431--1450189 Score: 1067
Period size: 32 Copynumber: 57.3 Consensus size: 31
1448421 AAGATGCATA
* * *
1448431 GACTTGTGTGAGCTTTCGAAAGAGTTGCCACT
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* *
1448463 GACTTGTATGGGCTTTAGAAAGGGGTTGCCACC
1 GACTTGTGTGGGCTTTA-AAA-GGGTTGCCACT
*
1448496 GACTTGTGTGGGCTTTGAGAAGGGTTGCCAC-
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* * * * *
1448527 CAGCTTGTGTGGGCTTTGTAAAAAGGATGGCACC
1 GA-CTTGTGTGGGC-TT-TAAAAGGGTTGCCACT
* * * * * * * *
1448561 AACTTGTATAGGCTTCAGAAAAAGAGATGACACC
1 GACTTGTGTGGGCTT---TAAAAGGGTTGCCACT
* * * * *
1448595 AACTTGTATGGGCTTTAAGAAAGGATGCCACC
1 GACTTGTGTGGGCTTTAA-AAGGGTTGCCACT
* * * * *
1448627 AACTTGTGTGGGCTCTGAAAAAATGGATGCAACT
1 GACTTGTGTGGGCT-T--TAAAAGGGTTGCCACT
* * * *
1448661 AACTTGTATGGGCTTTGAAAGGGGTTGCCACC
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* * * * * *
1448693 AACTTGCGTGGGCTTCGAAAAAAGGGATGCTACC
1 GACTTGTGTGGGCTT---TAAAAGGGTTGCCACT
* * *
1448727 AACTTGTGTGGGCTTTGAAGAAAGGATGCCACT
1 GACTTGTGTGGGCTTT-AA-AAGGGTTGCCACT
* * * *
1448760 AACTTGTGTGGGCTTTGAAAAAATGGATGCGACT
1 GACTTGTGTGGGCTTT---AAAAGGGTTGCCACT
* * * *
1448794 AACTTGTGTGGGCTTTCAAGGGGTTACCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * * *
1448825 GACTTGTGTGGCCTTTGAAA-GGATCCCATT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1448855 AAC-T-TGTGGGCTTTAAAAAGGG-TGCCATT
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
1448884 GAC-T-TGTGGGCTTTGAAAAGGG-TGCCACT
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* * *
1448913 GAC-T-TATGGGCTTTGAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* * * *
1448943 GATTTGTGTAGGCTTTAAAAAGG-TGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1448973 AACTTGTGTGGGCTTTAAAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1449004 AACTTGTGTGGGCTTTAAAAGGGGTTGCCAAT
1 GACTTGTGTGGGCTTTAAAA-GGGTTGCCACT
*
1449036 GACTTGTGTGGGCTTTAAAAGGGGTTGCCAAT
1 GACTTGTGTGGGCTTTAAAA-GGGTTGCCACT
*
1449068 GACTTGTGTGGGCTTTAAAAAGG-TGCCA-T
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1449097 CGACTTGTGTGGGCTTCAAAAGGGTTACCACCT
1 -GACTTGTGTGGGCTTTAAAAGGGTTGCCA-CT
* *
1449130 -ACTTGTGTAGGCTTTAAAAAGGGTTGCCACC
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
*
1449161 GACTTGTGTCGGCTTTAAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
*
1449192 GACTTGTGTGGGCTTCAAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
1449223 GACTTGTGTGGGCTTTAAAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* *
1449255 AACTTGTGTGGGCTTTAAAAGGG-TGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
1449285 GACTTGTGTGGGCTTTAAAAGGGTTGCCAC-
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * *
1449315 CAGCTTGTATGGGCTTTATAGGGGTTGCCACT
1 GA-CTTGTGTGGGCTTTAAAAGGGTTGCCACT
*
1449347 AAC-T-TGTGGGCTTTAAAAGGG-TGCCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * *
1449375 AAC-T-TGTAGGCATTTGAAAA--GATGCCAAT
1 GACTTGTGTGGGC-TTT-AAAAGGGTTGCCACT
* * *
1449404 AAC-T-CGTGGGCTTTAGAAAGGGTTTCCAC-
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* * *
1449433 CAGCTTGTGTGGGCTTTAGAAGAG-TGCCACT
1 GA-CTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * **
1449464 GACTTGTG-GGCCTTTGAAA-GAATGCCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1449493 AAC-T-CGTGGGCTTTGAAAAGGGTTGCCAC-
1 GACTTGTGTGGGCTTT-AAAAGGGTTGCCACT
* * ** *
1449522 CAGCTTGTGTAGGCTTTAGAAAGGGTCACCACC
1 GA-CTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* *
1449555 GACTTGTGTTGGCTTTAAAAGGG-TGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * *
1449585 GA-ATGATCTGGGCTTTAAAAGGG-TGCCACC
1 GACTTG-TGTGGGCTTTAAAAGGGTTGCCACT
* *
1449615 GACTTGTGTGGGCTTCAAAAGGGTTGCTAC-
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* *
1449645 CAGCTTGTGTGAGCTTTAAAAGGGTTGCCACT
1 GA-CTTGTGTGGGCTTTAAAAGGGTTGCCACT
1449677 GAC-T-TGTGGGCTTTAAAAGGG-TGCCACT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * *
1449705 AAC-T-TGTGGGCTTTTGAAA-GGATGCCAAT
1 GACTTGTGTGGGC-TTTAAAAGGGTTGCCACT
** *
1449734 GAC-T-CATGGGCTTTAGAAAGGGTTACCAC-
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* * * *
1449763 CAGCTTATGTGGGCTTTAGAAGGG-TGCCATT
1 GA-CTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * *
1449794 AAC-T-TGTAGGCTTTTGAAA-GGATGCCACT
1 GACTTGTGTGGGC-TTTAAAAGGGTTGCCACT
* ** *
1449823 GAC-T-CGTAAGCTTTAGAAAAGGTTGCCACT
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
*
1449853 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* * *
1449885 AACTTGTGTGGGCTTAAAAAGGG-TGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * * *
1449915 AACTTGTATGGGCTTTAAAACGG-TGCCACC
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
*
1449945 GACTTGTGTGGGCTTTAAAAGGGTTACCAC-
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
* * *
1449975 CAGCTTGTGTGGGCTTT-AAAGGAGTTGTCATT
1 GA-CTTGTGTGGGCTTTAAAAGG-GTTGCCACT
1450007 GAC-T-TGTGGGCTTTAAAAGGG-TG-CACCT
1 GACTTGTGTGGGCTTTAAAAGGGTTGCCA-CT
* * * *
1450035 -A-TCT-TATAGGCTTTTAAAA-GGATGCCAGT
1 GACT-TGTGTGGGC-TTTAAAAGGGTTGCCACT
*
1450064 GAC-T-CGTGGGCTTTAGAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* *
1450094 -AGCTTGTGTAGGCTTTAGAAA-GG-TACCACT
1 GA-CTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* *
1450124 GAC-T-CGTGGGCTTTAGAAAGGGTTACCAC-
1 GACTTGTGTGGGCTTTA-AAAGGGTTGCCACT
* *
1450153 CAGC-T-TGTGGGCTTTAAAA-GGATGCCACT
1 GA-CTTGTGTGGGCTTTAAAAGGGTTGCCACT
1450182 -AGCTTGTG
1 GA-CTTGTG
1450190 CATTTTTTAA
Statistics
Matches: 1408, Mismatches: 218, Indels: 204
0.77 0.12 0.11
Matches are distributed among these distances:
27 5 0.00
28 111 0.08
29 214 0.15
30 307 0.22
31 268 0.19
32 316 0.22
33 77 0.05
34 106 0.08
35 4 0.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (31 bp):
GACTTGTGTGGGCTTTAAAAGGGTTGCCACT
Found at i:1449489 original size:89 final size:91
Alignment explanation
Indices: 1448669--1450189 Score: 693
Period size: 89 Copynumber: 16.7 Consensus size: 91
1448659 CTAACTTGTA
* * * * * * **
1448669 TGGGCTTTGAAAGGGGTTGCCACCAACTTGCGTGGGCTTCGAAAAAAGGGATGCTACCAACTTGT
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTT---TAAAAGGG-TGCCACTGACTTGT
* *
1448734 GTGGGCTTTGAAGAAAGG-ATGCCACTAACTTGTG
62 GTGGCCTTT--A-AAAGGAATGCCACTAAC-T-CG
* * * * * * * *
1448768 TGGGCTTTGAAAAAATGGATGCGACTAACTTGTGTGGGCTTTCAAGGGGTTACCACTGACTTGTG
1 TGGGCTTT--AAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGG-TGCCACTGACTTGTG
* * * *
1448833 TGGCCTTTGAAAGG-ATCCCATTAACTTG
63 TGGCCTTTAAAAGGAATGCCACTAACTCG
** *
1448861 TGGGCTTTAAAAAGGG-TGCCA-TTGAC-T-TGTGGGCTTTGAAAAGGGTGCCACTGACTTATG-
1 TGGGCTTTAAAAAGGGTTGCCACCAG-CTTGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGT
* ** ** * *
1448921 GG-CTTTGAGAAGGGTTGCCACCGATTTG
64 GGCCTTT-AAAAGGAATGCCACTAACTCG
* **
1448949 TGTAGGCTTTAAAAA-GG-TGCCACCAACTTGTGTGGGCTTTAAAAGGGTTGCCACCAACTTGTG
1 TG--GGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGG-TGCCACTGACTTGTG
* ** * * *
1449012 TGGGCTTTAAAAGGGGTTGCCAATGACTTGTG
63 TGGCCTTTAAAA-GGAATGCCACTAAC-T-CG
* *
1449044 TGGGCTTTAAAAGGGGTTGCCA--ATGACTTGTGTGGGCTTTAAAAAGGTGCCA-TCGACTTGTG
1 TGGGCTTTAAAAAGGGTTGCCACCA-G-CTTGTGTGGGCTTTAAAAGGGTGCCACT-GACTTGTG
* * ** * *
1449106 TGGGCTTCAAAAGGGTTACCACCT-ACTTG
63 TGGCCTTTAAAAGGAATGCCA-CTAACTCG
*
1449135 TGTAGGCTTTAAAAAGGGTTGCCACC-GACTTGTGTCGGCTTTAAAAGGGTTGCCACTGACTTGT
1 TG--GGCTTTAAAAAGGGTTGCCACCAG-CTTGTGTGGGCTTTAAAAGGG-TGCCACTGACTTGT
* * ** * *
1449199 GTGGGCTTCAAAAGGGTTGCCACTGACTTGTG
62 GTGGCCTTTAAAAGGAATGCCACTAAC-T-CG
* * *
1449231 TGGGCTTTAAAAAGGGTTGCCACTAACTTGTGTGGGCTTTAAAAGGGTGCCACCGACTTGTGTGG
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGG
* ** * * *
1449296 GCTTTAAAAGGGTTGCCACCAGCTTG
66 CCTTTAAAAGGAATGCCACTAACTCG
* * * * * *
1449322 TATGGGCTTT-ATAGGGGTTGCCACTAAC-T-TGTGGGCTTTAAAAGGGTGCCACTAACTTGT-A
1 --TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGT
* *
1449383 GGCATTTGAAAA-G-ATGCCAATAACTCG
64 GGCCTTT-AAAAGGAATGCCACTAACTCG
* * * *
1449410 TGGGCTTTAGAAAGGGTTTCCACCAGCTTGTGTGGGCTTTAGAAGAGTGCCACTGACTTGTG-GG
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGG
*
1449474 CCTTTGAAA-GAATGCCACTAACTCG
66 CCTTTAAAAGGAATGCCACTAACTCG
* * * *
1449499 TGGGCTTTGAAAAGGGTTGCCACCAGCTTGTGTAGGCTTTAGAAAGGGTCACCACCGACTTGTGT
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTA-AAAGGGT-GCCACTGACTTGTG-
* * *
1449564 TGG-CTTTAAAAGG-GTGCCACCGAATGATC-
63 TGGCCTTTAAAAGGAATGCCA-CTAA--CTCG
* * *
1449593 TGGGCTTT-AAAAGGG-TGCCACC-GACTTGTGTGGGCTTCAAAAGGGTTGCTAC-CAGCTTGTG
1 TGGGCTTTAAAAAGGGTTGCCACCAG-CTTGTGTGGGCTTTAAAAGGG-TGCCACTGA-CTTGTG
** * *
1449654 TGAG-CTTTAAAAGGGTTGCCACTGACTTG
63 TG-GCCTTTAAAAGGAATGCCACTAACTCG
* * * * * **
1449683 TGGGCTTT-AAAAGGG-TGCCACTAAC-T-TGTGGGCTTTTGAAAGGATGCCAATGACTCATG-G
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGC-TTTAAAAGGGTGCCACTGACTTGTGTG
** * * * *
1449743 G-CTTTAGAAAGGGTTACCACCAGCTTATG
65 GCCTTTA-AAAGGAATGCCACTAAC-T-CG
* ** * * * * * **
1449772 TGGGCTTT-AGAAGGG-TGCCATTAAC-T-TGTAGGCTTTTGAAAGGATGCCACTGACTCGT-AA
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGC-TTTAAAAGGGTGCCACTGACTTGTGTG
* * *
1449832 G-CTTTAGAAAAGG-TTGCCACTGACTTGTG
65 GCCTTT--AAAAGGAATGCCACTAAC-T-CG
* * * ** *
1449861 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTAAAAAGGGTGCCACCAACTTGTATGG
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGG
* ** *
1449926 GCTTTAAAACGG--TGCCACCGACTTGTG
66 CCTTTAAAA-GGAATGCCACTAAC-T-CG
* * *
1449953 TGGGCTTT-AAAAGGGTTACCACCAGCTTGTGTGGGCTTT-AAAGGAGTTGTCATTGACTTGTG-
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGG-G-TGCCACTGACTTGTGT
* * **
1450015 GG-CTTTAAAAGG-GTG-CACCTATCTTA
64 GGCCTTTAAAAGGAATGCCA-CTAACTCG
* * * ** *
1450041 TAGGCTTTTAAAA-GGATGCCA-GTGAC-T-CGTGGGCTTTAGAAAGGGTTGCCACT-AGCTTGT
1 TGGGCTTTAAAAAGGGTTGCCACCAG-CTTGTGTGGGCTTTA-AAAGGG-TGCCACTGA-CTTGT
* *
1450101 GTAGG-CTTTAGAAAGG--TACCACTGACTCG
62 GT-GGCCTTTA-AAAGGAATGCCACTAACTCG
* * *
1450130 TGGGCTTTAGAAAGGGTTACCACCAGC-T-TGTGGGCTTTAAAAGGATGCCACT-AGCTTGTG
1 TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGA-CTTGTG
1450190 CATTTTTTAA
Statistics
Matches: 1151, Mismatches: 185, Indels: 183
0.76 0.12 0.12
Matches are distributed among these distances:
86 28 0.02
87 47 0.04
88 98 0.09
89 230 0.20
90 139 0.12
91 117 0.10
92 116 0.10
93 154 0.13
94 116 0.10
95 47 0.04
96 4 0.00
98 23 0.02
99 8 0.01
101 24 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (91 bp):
TGGGCTTTAAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGG
CCTTTAAAAGGAATGCCACTAACTCG
Found at i:1449627 original size:330 final size:331
Alignment explanation
Indices: 1448431--1450144 Score: 1464
Period size: 330 Copynumber: 5.1 Consensus size: 331
1448421 AAGATGCATA
* * * * *
1448431 GACTTGTGTGAGCTTTCGAAAGAGTTGCCACTGACTTGTATGGGCTTTAGAAAGGGGTTGCCACC
1 GACTTGTG-G-GCTTTAGAAAG-GATGCCACTGACTCG--TGGGCTTT-GAAAAGGGTTGCCACT
* *
1448496 GACTTGTGTGGGCTTT-GAGAAGGGTTGCCACC-AGCTTGTGTGGGCTTTGTAAAAAGGATGGCA
60 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCGA-CTTGTGTGGGC-TT-TAAAAAGGGTGCCA
* * * * * * * *
1448559 CC-AACTTGTATAGGCTTCAGAAAAAGAGATGACACCAACTTGTATGGGCTTTAAGAAAGGATGC
121 CCGAAC-TGTATGGGCTT---TAAAAG-GGTGCCACCGACTTGTGTGGGCTTTAA-AAGGGTTGC
* * * * * *
1448623 CACCAACTTGTGTGGGCTCTGAAAAAATGGATGCAACTAACTTGTATGGGCTTTGAAAGGGGTTG
180 CACCAGCTTGTGTGGGCT-T--TAAAAGGGTTGCCACTAACTTG--TGGGCTTT-AAAAGGG-TG
* * * * *** *
1448688 CCACCAACTTGCGTGGGCTTCGAAAAAAGGGATGCTACCAACTTGTGTGGGCTTTGAAGAAA-GG
238 CCACTAACTT--GTAGGCTTTG--AAAA-GGATGCCAATGAC-T-CGTGGGCTTT--AGAAAGGG
* * * * * * *
1448752 ATGCCACTAACTTGTGTGGGCTTTGAAAAAATGGATGCGACT
294 TTGCCACCAGCTTGTGTGGGCTTT-AGAAGA--G-TACCACT
* ** * * * * * * *
1448794 AACTTGTGTGGGCTTTCA-AGGGGTTACCACTGACTTGTGTGGCCTTTG-AAA-GGATCCCATTA
1 GAC-T-TGTGGGCTTT-AGAAAGGATGCCACTGACTCGTG-GG-CTTTGAAAAGGGTTGCCACTG
* ** * *
1448856 AC-T-TGTGGGCTTTAAAAAGGG-TGCCATTGAC-T-TGTGGGCTTTGAAAAGGGTGCCACTG-A
61 ACTTGTGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTGCCACCGAA
* * * * *
1448915 CT-TATGGGCTTTGAGAAGGGTTGCCACCGATTTGTGTAGGCTTTAAAAAGG-TGCCACCAACTT
126 CTGTATGGGCTTT-AAAAGGG-TGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTT
* * *
1448978 GTGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTTGCCAATGACTTGT
189 GTGTGGGCTTTAAAAGGGTTGCCACTAAC-T-TGTGGGCTTTAAAA-GGG-TGCCACTAAC-T-T
* * * * *
1449043 GTGGGCTTT-AAAAGGGGTTGCCAATGACTTGTGTGGGCTTTA-AAAAGG-TGCCATC-GACTTG
248 GTAGGCTTTGAAAA--GGATGCCAATGAC-T-CGTGGGCTTTAGAAAGGGTTGCCACCAG-CTTG
* * *
1449104 TGTGGGCTTCAAAAGGGTTACCACCT
308 TGTGGGCTTTAGAAGAG-TACCA-CT
* * * *
1449130 -ACTTGTGTAGGCTTTAAAAAGGGTTGCCACCGACTTGTGTCGGCTTT-AAAAGGGTTGCCACTG
1 GACTTGTG--GGCTTTAGAAA-GGATGCCACTGACTCGTG--GGCTTTGAAAAGGGTTGCCACTG
* * *
1449193 ACTTGTGTGGGCTTCA-AAAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAGGGTTGCCA-CTA
61 ACTTGTGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGG-TGCCACCGA
*
1449256 ACTTGTGTGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTT
125 AC-TGTATGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTT
* * *
1449321 GTATGGGCTTTATAGGGGTTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGC
189 GTGTGGGCTTTAAAAGGGTTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGC
* *
1449386 ATTTGAAAA-GATGCCAATAACTCGTGGGCTTTAGAAAGGGTTTCCACCAGCTTGTGTGGGCTTT
254 -TTTGAAAAGGATGCCAATGACTCGTGGGCTTTAGAAAGGGTTGCCACCAGCTTGTGTGGGCTTT
*
1449450 AGAAGAGTGCCACT
318 AGAAGAGTACCACT
* * *
1449464 GACTTGTGGGCCTTT-GAAAGAATGCCACTAACTCGTGGGCTTTGAAAAGGGTTGCCAC-CAGCT
1 GACTTGTGGG-CTTTAGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAGGGTTGCCACTGA-CT
* ** *
1449527 TGTGTAGGCTTTAGAAAGGGTCACCACCGACTTGTGTTGGCTTT-AAAAGGGTGCCACCGAA-TG
64 TGTGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTGCCACCGAACTG
* * *
1449590 ATCTGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTCAAAAGGGTTGCTACCAGCTTGTGT
129 -TATGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTTGTGT
* * *
1449655 GAGCTTTAAAAGGGTTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTT
193 GGGCTTTAAAAGGGTTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGC-TTT
* * *
1449720 G-AAAGGATGCCAATGACTCATGGGCTTTAGAAAGGGTTACCACCAGCTTATGTGGGCTTTAGAA
257 GAAAAGGATGCCAATGACTCGTGGGCTTTAGAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAA
* * *
1449784 GGGTGCCATT
322 GAGTACCACT
* * * **
1449794 AACTTGTAGGCTTTTGAAAGGATGCCACTGACTCGTAAGCTTTAGAAAA-GGTTGCCACTGACTT
1 GACTTGTGGGCTTTAGAAAGGATGCCACTGACTCGTGGGCTTT-GAAAAGGGTTGCCACTGACTT
*
1449858 GTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGC-TTAAAAAGGGTGCCACC-AACTTG
65 GTGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTGCCACCGAAC-TG
* *
1449921 TATGGGCTTTAAAACGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTACCACCAGCTTGTGTG
129 TATGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTTGTGTG
* * * * *
1449986 GGCTTT-AAAGGAGTTGTCATTGACTTGTGGGCTTTAAAAGGGTG-CACCTATCTTATAGGCTTT
194 GGCTTTAAAAGG-GTTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCA-CTAACTTGTAGGCTTT
* * * *
1450049 TAAAAGGATGCCAGTGACTCGTGGGCTTTAGAAAGGGTTGCCACTAGCTTGTGTAGGCTTTAGAA
257 GAAAAGGATGCCAATGACTCGTGGGCTTTAGAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAA
1450114 -AGGTACCACT
322 GA-GTACCACT
*
1450124 GACTCGTGGGCTTTAGAAAGG
1 GACTTGTGGGCTTTAGAAAGG
1450145 GTTACCACCA
Statistics
Matches: 1137, Mismatches: 155, Indels: 151
0.79 0.11 0.10
Matches are distributed among these distances:
329 23 0.02
330 473 0.42
331 45 0.04
332 39 0.03
333 9 0.01
334 18 0.02
335 30 0.03
336 58 0.05
337 22 0.02
338 32 0.03
339 34 0.03
340 8 0.01
341 53 0.05
342 38 0.03
343 84 0.07
344 11 0.01
345 4 0.00
346 21 0.02
347 6 0.01
348 24 0.02
350 8 0.01
351 1 0.00
352 14 0.01
353 2 0.00
354 7 0.01
355 1 0.00
356 6 0.01
357 16 0.01
358 2 0.00
359 8 0.01
360 4 0.00
361 3 0.00
362 18 0.02
363 9 0.01
364 2 0.00
365 4 0.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (331 bp):
GACTTGTGGGCTTTAGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAGGGTTGCCACTGACTTG
TGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTGCCACCGAACTGTA
TGGGCTTTAAAAGGGTGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGCTTGTGTGGG
CTTTAAAAGGGTTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAA
AGGATGCCAATGACTCGTGGGCTTTAGAAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAGAGT
ACCACT
Found at i:1450251 original size:30 final size:29
Alignment explanation
Indices: 1448856--1450266 Score: 833
Period size: 30 Copynumber: 46.9 Consensus size: 29
1448846 GATCCCATTA
**
1448856 ACTTGTGGGCTTTAAAAAGGG-TGCCATTG
1 ACTTGTGGGCTTT-AAAAGGGTTGCCACCG
*
1448885 ACTTGTGGGCTTTGAAAAGGG-TGCCACTG
1 ACTTGTGGGCTTT-AAAAGGGTTGCCACCG
* *
1448914 ACTTATGGGCTTTGAGAAGGGTTGCCACCG
1 ACTTGTGGGCTTT-AAAAGGGTTGCCACCG
* * *
1448944 ATTTGTGTAGGCTTTAAAAAGG-TGCCACCA
1 ACTTGTG--GGCTTTAAAAGGGTTGCCACCG
*
1448974 ACTTGTGTGGGCTTTAAAAGGGTTGCCACCA
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
**
1449005 ACTTGTGTGGGCTTTAAAAGGGGTTGCCAATG
1 AC-T-TGTGGGCTTTAAAA-GGGTTGCCACCG
**
1449037 ACTTGTGTGGGCTTTAAAAGGGGTTGCCAATG
1 AC-T-TGTGGGCTTTAAAA-GGGTTGCCACCG
* *
1449069 ACTTGTGTGGGCTTTAAAAAGG-TGCCATCG
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
* * *
1449099 ACTTGTGTGGGCTTCAAAAGGGTTACCACCT
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
1449130 ACTTGTGTAGGCTTTAAAAAGGGTTGCCACCG
1 ACTTGTG--GGCTTT-AAAAGGGTTGCCACCG
*
1449162 ACTTGTGTCGGCTTTAAAAGGGTTGCCACTG
1 ACTTGTG--GGCTTTAAAAGGGTTGCCACCG
* *
1449193 ACTTGTGTGGGCTTCAAAAGGGTTGCCACTG
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
**
1449224 ACTTGTGTGGGCTTTAAAAAGGGTTGCCACTA
1 AC-T-TGTGGGCTTT-AAAAGGGTTGCCACCG
1449256 ACTTGTGTGGGCTTTAAAAGGG-TGCCACCG
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
1449286 ACTTGTGTGGGCTTTAAAAGGGTTGCCACC-
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
* * **
1449316 AGCTTGTATGGGCTTTATAGGGGTTGCCACTA
1 A-CTTG--TGGGCTTTAAAAGGGTTGCCACCG
**
1449348 ACTTGTGGGCTTTAAAAGGG-TGCCACTA
1 ACTTGTGGGCTTTAAAAGGGTTGCCACCG
* * ***
1449376 ACTTGTAGGCATTTGAAAA--GATGCCAATA
1 ACTTGTGGGC-TTT-AAAAGGGTTGCCACCG
* *
1449405 ACTCGTGGGCTTTAGAAAGGGTTTCCACC-
1 ACTTGTGGGCTTTA-AAAGGGTTGCCACCG
* * *
1449434 AGCTTGTGTGGGCTTTAGAAGAG-TGCCACTG
1 A-C-T-TGTGGGCTTTAAAAGGGTTGCCACCG
* ** **
1449465 ACTTGTGGGCCTTTGAAA-GAATGCCACTA
1 ACTTGTGGG-CTTTAAAAGGGTTGCCACCG
*
1449494 ACTCGTGGGCTTTGAAAAGGGTTGCCACC-
1 ACTTGTGGGCTTT-AAAAGGGTTGCCACCG
**
1449523 AGCTTGTGTAGGCTTTAGAAAGGGTCACCACCG
1 A-CTTGTG--GGCTTTA-AAAGGGTTGCCACCG
1449556 ACTTGTGTTGGCTTTAAAAGGG-TGCCACCG
1 ACTTGTG--GGCTTTAAAAGGGTTGCCACCG
* *
1449586 AATGATCTGGGCTTTAAAAGGG-TGCCACCG
1 ACT--TGTGGGCTTTAAAAGGGTTGCCACCG
* *
1449616 ACTTGTGTGGGCTTCAAAAGGGTTGCTACC-
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
*
1449646 AGCTTGTGTGAGCTTTAAAAGGGTTGCCACTG
1 A-CTTGTG-G-GCTTTAAAAGGGTTGCCACCG
**
1449678 ACTTGTGGGCTTTAAAAGGG-TGCCACTA
1 ACTTGTGGGCTTTAAAAGGGTTGCCACCG
* * **
1449706 ACTTGTGGGCTTTTGAAA-GGATGCCAATG
1 ACTTGTGGGC-TTTAAAAGGGTTGCCACCG
** *
1449735 ACTCATGGGCTTTAGAAAGGGTTACCACC-
1 ACTTGTGGGCTTTA-AAAGGGTTGCCACCG
* ***
1449764 AGCTTATGTGGGCTTTAGAAGGG-TGCCATTA
1 A-C-T-TGTGGGCTTTAAAAGGGTTGCCACCG
* * * *
1449795 ACTTGTAGGCTTTTGAAA-GGATGCCACTG
1 ACTTGTGGGC-TTTAAAAGGGTTGCCACCG
* ** * *
1449824 ACTCGTAAGCTTTAGAAAAGGTTGCCACTG
1 ACTTGTGGGCTTTA-AAAGGGTTGCCACCG
*
1449854 ACTTGTGTGGGCTTTAGAAAGGGTTGCCACCA
1 AC-T-TGTGGGCTTTA-AAAGGGTTGCCACCG
* *
1449886 ACTTGTGTGGGCTTAAAAAGGG-TGCCACCA
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
*
1449916 ACTTGTATGGGCTTTAAAACGG-TGCCACCG
1 ACTTG--TGGGCTTTAAAAGGGTTGCCACCG
*
1449946 ACTTGTGTGGGCTTTAAAAGGGTTACCACC-
1 AC-T-TGTGGGCTTTAAAAGGGTTGCCACCG
* **
1449976 AGCTTGTGTGGGCTTT-AAAGGAGTTGTCATTG
1 A-C-T-TGTGGGCTTTAAAAGG-GTTGCCACCG
*
1450008 ACTTGTGGGCTTTAAAAGGG-TG-CACCT
1 ACTTGTGGGCTTTAAAAGGGTTGCCACCG
* * * **
1450035 ATCTTATAGGCTTTTAAAA-GGATGCCAGTG
1 A-CTTGTGGGC-TTTAAAAGGGTTGCCACCG
* *
1450065 ACTCGTGGGCTTTAGAAAGGGTTGCCA-CT
1 ACTTGTGGGCTTTA-AAAGGGTTGCCACCG
* *
1450094 AGCTTGTGTAGGCTTTAGAAA-GG-TACCACTG
1 A-CTTGTG--GGCTTTA-AAAGGGTTGCCACCG
* *
1450125 ACTCGTGGGCTTTAGAAAGGGTTACCACC-
1 ACTTGTGGGCTTTA-AAAGGGTTGCCACCG
* *
1450154 AGCTTGTGGGCTTTAAAA-GGATGCCA-CT
1 A-CTTGTGGGCTTTAAAAGGGTTGCCACCG
*** * * **
1450182 AGCTTGTGCATTTTTTAAA-GGATGCCATTG
1 A-CTTGTG-GGCTTTAAAAGGGTTGCCACCG
*
1450212 ACTTATGGGCTTTAAAAGAGGTTGCCACCG
1 ACTTGTGGGCTTTAAAAG-GGTTGCCACCG
* *
1450242 ACTCGTGGGCTTTGAAAGGG-TGCCA
1 ACTTGTGGGCTTTAAAAGGGTTGCCA
1450267 TTACCTTGTG
Statistics
Matches: 1136, Mismatches: 159, Indels: 175
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.00
28 120 0.11
29 231 0.20
30 314 0.28
31 226 0.20
32 235 0.21
33 5 0.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (29 bp):
ACTTGTGGGCTTTAAAAGGGTTGCCACCG
Found at i:1450284 original size:87 final size:87
Alignment explanation
Indices: 1450037--1450291 Score: 239
Period size: 87 Copynumber: 2.9 Consensus size: 87
1450027 GTGCACCTAT
* * * **
1450037 CTTATAGGCTTTTAAA-AGGATGCCAGTGACTCGTGGGCTTTAGAAAGGGTTGCCACTAGCTTGT
1 CTTATGGGCTTTAAAAGAGGTTGCCACCGACTCGTGGGCTTT-GAAAGGG-TGCCACTAGCTTGT
**
1450101 GTAGGCTTTAGAAAGG-TACCACTGA
64 G--GGCTTTTTAAAGGATACCACTGA
** * * * *
1450126 CTCGTGGGCTTTAGAAAG-GGTTACCACC-AGCTTGTGGGCTTTAAAAGGATGCCACTAGCTTGT
1 CTTATGGGCTTTA-AAAGAGGTTGCCACCGA-CTCGTGGGCTTTGAAAGGGTGCCACTAGCTTGT
*** * *
1450189 GCATTTTTTAAAGGATGCCATTGA
64 GGGCTTTTTAAAGGATACCACTGA
* *
1450213 CTTATGGGCTTTAAAAGAGGTTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCATTACCTTGTGG
1 CTTATGGGCTTTAAAAGAGGTTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCACTAGCTTGTGG
1450278 GCTTTTTGAAAGGA
66 GCTTTTT-AAAGGA
1450292 AAAAAGATTT
Statistics
Matches: 130, Mismatches: 29, Indels: 15
0.75 0.17 0.09
Matches are distributed among these distances:
86 12 0.09
87 61 0.47
88 22 0.17
89 15 0.12
90 20 0.15
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (87 bp):
CTTATGGGCTTTAAAAGAGGTTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCACTAGCTTGTGG
GCTTTTTAAAGGATACCACTGA
Found at i:1457424 original size:19 final size:19
Alignment explanation
Indices: 1457400--1457494 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
1457390 AGTGATACAT
1457400 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1457419 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1457432 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1457451 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
1457466 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1457483 TGTATCGATACA
1 TGTATCGATACA
1457495 GTTACTGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 16 0.25
14 1 0.02
15 3 0.05
16 12 0.19
17 3 0.05
18 1 0.02
19 28 0.44
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1457434 original size:32 final size:32
Alignment explanation
Indices: 1457393--1457494 Score: 195
Period size: 32 Copynumber: 3.2 Consensus size: 32
1457383 GCTTTGTAGT
1457393 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
1457425 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
1457457 GATACATTATATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
1457489 GATACA
1 GATACA
1457495 GTTACTGTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:1457437 original size:13 final size:13
Alignment explanation
Indices: 1457419--1457475 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1457409 ACAACACTTA
1457419 TGTATCGATACAT
1 TGTATCGATACAT
1457432 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1457450 ATGTATCGATACAT
1 -TGTATCGATACAT
*
1457464 TATATCGATACA
1 TGTATCGATACA
1457476 ACACTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1458374 original size:52 final size:49
Alignment explanation
Indices: 1458262--1458590 Score: 226
Period size: 49 Copynumber: 6.7 Consensus size: 49
1458252 AATAGCATTG
* * * *
1458262 TGCTGATTCATGGCCAGCGACATTTAGAC-T--AGAAAAAGAATGCCAATG
1 TGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATAAAG-ATGCCAATA
* ** * *
1458310 TGCTAAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATAAAGATGCCAATA
* * * * *
1458362 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATGATGTCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGCCAATA
* * ** **
1458411 TGCTGATTTAAGGCCAGCGACATTAGTTTTAAAGATGACAAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGATGCCAATA
* ** * * * * *
1458463 TGCTGATTCAAGGTCAGCGGTATTAGACTTAAAGATGATGGTGCTAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGCCAATA
* *
1458512 TGCTGATTCAAGGCCAACAACATTGGACTTAAAG-T-----TGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGCCAATA
* *
1458555 TGCTGACTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1458591 AGATGCCACC
Statistics
Matches: 219, Mismatches: 51, Indels: 25
0.74 0.17 0.08
Matches are distributed among these distances:
43 34 0.16
44 3 0.01
47 4 0.02
48 20 0.09
49 79 0.36
50 2 0.01
52 72 0.33
53 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGCCAATA
Found at i:1458418 original size:49 final size:49
Alignment explanation
Indices: 1458352--1458595 Score: 230
Period size: 49 Copynumber: 5.0 Consensus size: 49
1458342 GAATGTTAAA
*
1458352 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAT
* * * * ** *
1458401 GATGTCAATATGCTGATTTAAGGCCAGCGACATTAGTTTTAAAGATGACAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AT
** * * *
1458453 GGCGCCAATATGCTGATTCAAGGTCAGCGGTATTAGACTTAAAGATGAT
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAT
* * * * *
1458502 GGTGCTAATATGCTGATTCAAGGCCAACAACATTGGACTT-AA-A-G-T
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAT
* *
1458547 --TGCCAATATGCTGACTCAAGGCCAGCGATATTGGACTTAGAAGAAGAT
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGATGAT
1458595 G
1 G
1458596 CCACCAACTT
Statistics
Matches: 155, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
43 33 0.21
45 3 0.02
46 2 0.01
47 2 0.01
48 3 0.02
49 73 0.47
52 39 0.25
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (49 bp):
GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAT
Found at i:1458544 original size:101 final size:101
Alignment explanation
Indices: 1458355--1458545 Score: 267
Period size: 101 Copynumber: 1.9 Consensus size: 101
1458345 TGTTAAAGAT
* *
1458355 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATGATGTCAATATGCTGATTT
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGATGATGTCAATATGCTGATTC
* * **
1458420 AAGGCCAGCGACATTAGTTTTAAAGATGACAAAGGC
66 AAGGCCAACAACATTAGACTTAAAGATGACAAAGGC
* * * *
1458456 GCCAATATGCTGATTCAAGGTCAGCGGTATTAGACTTAAAGATGATGGTG-CTAATATGCTGATT
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGATGATGTC-AATATGCTGATT
*
1458520 CAAGGCCAACAACATTGGACTTAAAG
65 CAAGGCCAACAACATTAGACTTAAAG
1458546 TTGCCAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 77 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (101 bp):
GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGATGATGTCAATATGCTGATTC
AAGGCCAACAACATTAGACTTAAAGATGACAAAGGC
Found at i:1458674 original size:27 final size:27
Alignment explanation
Indices: 1458607--1458786 Score: 197
Period size: 27 Copynumber: 6.5 Consensus size: 27
1458597 CACCAACTTG
**
1458607 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGC-TTTG-AA-GGTTGCCACTGACT
* *
1458636 TGTGTGCTTTTGAAGGTTGCCATTGACT
1 TGTGGGC-TTTGAAGGTTGCCACTGACT
1458664 TGTGGGCTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAGGTTGCCACTGACT
*
1458691 TGTGAGCTTTGAAAAGG-TGCCAC-GACT
1 TGTGGGCTTTG--AAGGTTGCCACTGACT
1458718 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG--AAGGTTGCCACTGACT
*
1458746 TGTGGGCTTCTGAAGGTTGCCACTAACT
1 TGTGGGCTT-TGAAGGTTGCCACTGACT
1458774 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1458787 AAGGTGAGGA
Statistics
Matches: 136, Mismatches: 9, Indels: 14
0.86 0.06 0.09
Matches are distributed among these distances:
27 68 0.50
28 51 0.38
29 17 0.12
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (27 bp):
TGTGGGCTTTGAAGGTTGCCACTGACT
Found at i:1458700 original size:55 final size:55
Alignment explanation
Indices: 1458607--1458787 Score: 201
Period size: 55 Copynumber: 3.3 Consensus size: 55
1458597 CACCAACTTG
** *
1458607 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCATTGACT
1 TGTGGGC-TTTGAAA-GGTTGCCACTGACTTGTGAGCTTTTGAAGGTTGCCA-TGACT
*
1458664 TGTGGGCTTTG-AAGGTTGCCACTGACTTGTGAGC-TTTGAAAAGG-TGCCACGACT
1 TGTGGGCTTTGAAAGGTTGCCACTGACTTGTGAGCTTTTG--AAGGTTGCCATGACT
* * *
1458718 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTAACT
1 TGTGGGCTTTG-AAAGGTTGCCACTGACTTGTGAGCTTTTGAAGGTTGCCA-TGACT
1458774 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
1458788 AGGTGAGGAA
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
54 28 0.26
55 44 0.41
56 29 0.27
57 7 0.06
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (55 bp):
TGTGGGCTTTGAAAGGTTGCCACTGACTTGTGAGCTTTTGAAGGTTGCCATGACT
Found at i:1460236 original size:15 final size:15
Alignment explanation
Indices: 1460218--1460297 Score: 69
Period size: 14 Copynumber: 5.5 Consensus size: 15
1460208 CATCCGGACC
1460218 TTTTTTGTTGTTG-T
1 TTTTTTGTTGTTGTT
1460232 TTTTTTGTTTGTTTGTT
1 TTTTTTG-TTG-TTGTT
*
1460249 TTTGTT-TTGTT-TT
1 TTTTTTGTTGTTGTT
* *
1460262 TTTTTTCTTTTTGTT
1 TTTTTTGTTGTTGTT
* *
1460277 TTGTTTGTT-TTTTT
1 TTTTTTGTTGTTGTT
1460291 TTTTTTG
1 TTTTTTG
1460298 CGGAGGATGC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.13
14 23 0.43
15 15 0.28
16 3 0.06
17 6 0.11
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (15 bp):
TTTTTTGTTGTTGTT
Found at i:1460246 original size:22 final size:23
Alignment explanation
Indices: 1460221--1460297 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 23
1460211 CCGGACCTTT
*
1460221 TTTGTTGTTGTTTT-TTTGTTTG
1 TTTGTTTTTGTTTTGTTTGTTTG
*
1460243 TTTGTTTTTGTTTTGTTT-TTTT
1 TTTGTTTTTGTTTTGTTTGTTTG
* *
1460265 TTTCTTTTTGTTTTGTTTGTTTT
1 TTTGTTTTTGTTTTGTTTGTTTG
*
1460288 TTTTTTTTTG
1 TTTGTTTTTG
1460298 CGGAGGATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 33 0.67
23 16 0.33
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (23 bp):
TTTGTTTTTGTTTTGTTTGTTTG
Found at i:1460250 original size:27 final size:28
Alignment explanation
Indices: 1460219--1460297 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
1460209 ATCCGGACCT
*
1460219 TTTTTGTTGTTGTTTTTTTGTTTGTTTG
1 TTTTTGTTGTTGTTTTTTTTTTTGTTTG
*
1460247 TTTTTGTT-TTGTTTTTTTTTTCTTTTTG
1 TTTTTGTTGTTGTTTTTTTTTT-TGTTTG
1460275 -TTTTGTTTGTT-TTTTTTTTTTTG
1 TTTTTG-TTGTTGTTTTTTTTTTTG
1460298 CGGAGGATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 18 0.40
28 25 0.56
29 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (28 bp):
TTTTTGTTGTTGTTTTTTTTTTTGTTTG
Found at i:1460264 original size:41 final size:40
Alignment explanation
Indices: 1460218--1460297 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
1460208 CATCCGGACC
*
1460218 TTTTTTGTTGTTGTTT-TTTTGTTTGTTTGTTTTTGTTTTGT
1 TTTTTTGTTCTT-TTTGTTTTGTTTGTTT-TTTTTGTTTTGT
* *
1460259 TTTTTTTTTCTTTTTGTTTTGTTTGTTTTTTTTTTTTTG
1 TTTTTTGTTCTTTTTGTTTTGTTTGTTTTTTTTGTTTTG
1460298 CGGAGGATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 13 0.37
41 22 0.63
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (40 bp):
TTTTTTGTTCTTTTTGTTTTGTTTGTTTTTTTTGTTTTGT
Found at i:1460313 original size:1 final size:1
Alignment explanation
Indices: 1460231--1460296 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
1460221 TTTGTTGTTG
* * * * * * * * *
1460231 TTTTTTTGTTTGTTTGTTTTTGTTTTGTTTTTTTTTTCTTTTTGTTTTGTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1460296 T
1 T
1460297 GCGGAGGATG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:1469460 original size:43 final size:43
Alignment explanation
Indices: 1469399--1469484 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
1469389 TGAAATGCAC
*
1469399 TCACTGCTTCCTTTGACCTTAATGTGACTATCGACCCATGTTT
1 TCACTACTTCCTTTGACCTTAATGTGACTATCGACCCATGTTT
1469442 TCACTACTTCCTTTGACCTTAATGTGACTATCGACCCATGTTT
1 TCACTACTTCCTTTGACCTTAATGTGACTATCGACCCATGTTT
1469485 CCGTGGCCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.40
Consensus pattern (43 bp):
TCACTACTTCCTTTGACCTTAATGTGACTATCGACCCATGTTT
Found at i:1474274 original size:20 final size:20
Alignment explanation
Indices: 1474228--1474311 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
1474218 ATTTGCCTAC
**
1474228 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACAAAG-ATCA
*
1474248 ATTTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
*
1474268 ATGTATC----C--ATA-CA
1 ATGTATCGATACAAAGATCA
1474281 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
1474301 ATGTATCGATA
1 ATGTATCGATA
1474312 TATTGAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
13 9 0.18
14 2 0.04
16 1 0.02
17 1 0.02
19 4 0.08
20 33 0.66
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCA
Found at i:1474323 original size:20 final size:20
Alignment explanation
Indices: 1474280--1474355 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
1474270 GTATCCATAC
**
1474280 AATGTATCGATACAAAG-AT
1 AATGTATCGATACATTGAAT
*
1474299 CAATGTATCGATATATTGAAT
1 -AATGTATCGATACATTGAAT
*
1474320 AATGTATCGCTACATTGAAT
1 AATGTATCGATACATTGAAT
1474340 AATGTATCGATACATT
1 AATGTATCGATACATT
1474356 TCCTTGGTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 47 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:1480137 original size:30 final size:28
Alignment explanation
Indices: 1480079--1480788 Score: 241
Period size: 30 Copynumber: 23.8 Consensus size: 28
1480069 TTTTAATTAA
1480079 TCAAAGCACACAAGTCAGTGGCATCCTT
1 TCAAAGCACACAAGTCAGTGGCATCCTT
* **
1480107 TCAAAGCCCACAAGTCAGTTTCATATCCTT
1 TCAAAGCACACAAGTCAGTGGC--ATCCTT
* * * *
1480137 TCAAAGCTCACAAGTTAATGGCACCCTTT
1 TCAAAGCACACAAGTCAGTGGCATCC-TT
* * * *
1480166 TCAAAGCCCACAAGCCAGTGGTAACTCTTT
1 TCAAAGCACACAAGTCAGTGG-CA-TCCTT
* * * * *
1480196 TTAAAGTCCACAGAAATC-GATGGCAACTTTGT
1 TCAAAG--CACACAAGTCAG-TGGCATC-CT-T
* * *
1480228 TCAAAGCCCACATAAATC-GATGGCACCCTT
1 TCAAAG--CACACAAGTCAG-TGGCATCCTT
* *
1480258 TCACAGCCCACAAGTCAGTGGCA-CCATTT
1 TCAAAGCACACAAGTCAGTGGCATCC--TT
* * * **
1480287 TCAAAGCCCACAAGTCAATGGTAACTATTT
1 TCAAAGCACACAAGTCAGTGG-CA-TCCTT
* * *
1480317 TCAAAGTCCACACGAGTCGGTGGCAACTCTGT
1 TCAAAG--CACACAAGTCAGTGGCATC-CT-T
* *
1480349 TCAAAGCTCACACAAATCGGTGGCA-CCTT
1 TCAAAG--CACACAAGTCAGTGGCATCCTT
* *
1480378 CCAAAGCCCACAAGTCAGTGGCA-CCTTT
1 TCAAAGCACACAAGTCAGTGGCATCC-TT
* * *
1480406 TCAAAGCCCATAAGTCAGTGGCACACCCTT
1 TCAAAGCACACAAGTCAGTGG--CATCCTT
*
1480436 TCAAAGCCCACAAGTCAGTGGCA-CCTTTT
1 TCAAAGCACACAAGTCAGTGGCATCC--TT
* * * * *
1480465 TCAAAGCCCACAAGTTAATGGTAACTCTTT
1 TCAAAGCACACAAGTCAGTGG-CA-TCCTT
* ** *
1480495 TCAAAGTCCGCACAAGTTGGTGGCAACTCTAT
1 TCAAAG--CACACAAGTCAGTGGCATC-CT-T
* * *
1480527 TCAAAGCCCACACAAATCGGTGGCACCCTT
1 TCAAAG--CACACAAGTCAGTGGCATCCTT
* * *
1480557 TCAAAGC-CTACAAGTTAGTAGCACCCTTT
1 TCAAAGCAC-ACAAGTCAGTGGCATCC-TT
* * * *
1480586 TCAAAGCCCACAAGTCAATGGTAACTCTTT
1 TCAAAGCACACAAGTCAGTGG-CA-TCCTT
* * * *
1480616 TCAAATTCCACACATGTCGGTGGCAACTCTAT
1 TCAAA--GCACACAAGTCAGTGGCATC-CT-T
* *
1480648 TCAAAGCCCACACAAATCGGTGGCA-CTCTT
1 TCAAAG--CACACAAGTCAGTGGCATC-CTT
* * * *
1480678 CCAAAGCCCACAAGTCAATGGCACCCTT
1 TCAAAGCACACAAGTCAGTGGCATCCTT
*
1480706 TCAAAGC-CGACAAGTCAGTGGCACACCCTT
1 TCAAAGCAC-ACAAGTCAGTGG--CATCCTT
* * * *
1480736 TCAAAGCTCACAAGTCGGTGGTACCCTT
1 TCAAAGCACACAAGTCAGTGGCATCCTT
*
1480764 TCAAAGCCCACACAAGTCGGTGGCA
1 TCAAAG--CACACAAGTCAGTGGCA
1480789 ACTCATTTCA
Statistics
Matches: 528, Mismatches: 103, Indels: 100
0.72 0.14 0.14
Matches are distributed among these distances:
27 22 0.04
28 116 0.22
29 87 0.16
30 146 0.28
31 23 0.04
32 134 0.25
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TCAAAGCACACAAGTCAGTGGCATCCTT
Found at i:1480323 original size:121 final size:119
Alignment explanation
Indices: 1480133--1480422 Score: 393
Period size: 121 Copynumber: 2.4 Consensus size: 119
1480123 AGTTTCATAT
* * * * * * *
1480133 CCTTTCAAAGCTCACAAGTTAATGGCACCCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAATGGTAACTATTTTC
* *
1480198 AAAGTCCACA-GAAATCGATGGCAACTTTGTTCAAAGCCCACATAAATCGATGGCA
65 AAAGTCCACACG-AATCGATGGCAACTCTGTTCAAAGCCCACACAAATCGATGGCA
*
1480253 CCCTTTCACAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATTTT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAATGGTAACTATTTT
* * * *
1480318 CAAAGTCCACACGAGTCGGTGGCAACTCTGTTCAAAGCTCACACAAATCGGTGGCA
64 CAAAGTCCACACGAATCGATGGCAACTCTGTTCAAAGCCCACACAAATCGATGGCA
* *
1480374 CCTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
1480423 GTGGCACACC
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
119 19 0.13
120 29 0.19
121 101 0.67
122 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (119 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGTAACTATTTTCA
AAGTCCACACGAATCGATGGCAACTCTGTTCAAAGCCCACACAAATCGATGGCA
Found at i:1480361 original size:32 final size:30
Alignment explanation
Indices: 1480079--1480799 Score: 440
Period size: 32 Copynumber: 24.1 Consensus size: 30
1480069 TTTTAATTAA
*
1480079 TCAAAG-CACACAAGTCAGTGGCATC-CTT
1 TCAAAGCCACACAAGTCAGTGGCAACTCTT
**
1480107 TCAAAGCC-CACAAGTCAGTTTCATA-TCCTT
1 TCAAAGCCACACAAGTCAGTGGCA-ACT-CTT
* * * *
1480137 TCAAAG-CTCACAAGTTAATGGC-ACCCTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTC-TT
* *
1480166 TCAAAGCC-CACAAGCCAGTGGTAACTCTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTC-TT
* * * *
1480196 TTAAAGTCCACAGAAATC-GATGGCAACTTTGT
1 TCAAAG-CCACACAAGTCAG-TGGCAACTCT-T
* * *
1480228 TCAAAGCCCACATAAATC-GATGGC-ACCCTT
1 TCAAAG-CCACACAAGTCAG-TGGCAACTCTT
* *
1480258 TCACAGCC-CACAAGTCAGTGGCACCAT-TT
1 TCAAAGCCACACAAGTCAGTGGCAAC-TCTT
* * *
1480287 TCAAAGCC-CACAAGTCAATGGTAACTATTT
1 TCAAAGCCACACAAGTCAGTGGCAACT-CTT
* *
1480317 TCAAAGTCCACACGAGTCGGTGGCAACTCTGT
1 TCAAAG-CCACACAAGTCAGTGGCAACTCT-T
* *
1480349 TCAAAGCTCACACAAATCGGTGGC-AC-CTT
1 TCAAAGC-CACACAAGTCAGTGGCAACTCTT
* *
1480378 CCAAAGCC-CACAAGTCAGTGGCACCT-TT
1 TCAAAGCCACACAAGTCAGTGGCAACTCTT
* *
1480406 TCAAAGCC-CATAAGTCAGTGGCACACCCTT
1 TCAAAGCCACACAAGTCAGTGGCA-ACTCTT
* *
1480436 TCAAAGCC-CACAAGTCAGTGGCACCTTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTCTT
* * *
1480465 TCAAAGCC-CACAAGTTAATGGTAACTCTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTC-TT
* **
1480495 TCAAAGTCCGCACAAGTTGGTGGCAACTCTAT
1 TCAAAG-CCACACAAGTCAGTGGCAACTCT-T
* * *
1480527 TCAAAGCCCACACAAATCGGTGGC-ACCCTT
1 TCAAAG-CCACACAAGTCAGTGGCAACTCTT
* * * *
1480557 TCAAAGCC-TACAAGTTAGTAGC-ACCCTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTC-TT
* *
1480586 TCAAAGCC-CACAAGTCAATGGTAACTCTTT
1 TCAAAGCCACACAAGTCAGTGGCAACTC-TT
* * *
1480616 TCAAATTCCACACATGTCGGTGGCAACTCTAT
1 TCAAA-GCCACACAAGTCAGTGGCAACTCT-T
* *
1480648 TCAAAGCCCACACAAATCGGTGGC-ACTCTT
1 TCAAAG-CCACACAAGTCAGTGGCAACTCTT
* * *
1480678 CCAAAGCC-CACAAGTCAATGGC-ACCCTT
1 TCAAAGCCACACAAGTCAGTGGCAACTCTT
* *
1480706 TCAAAGCC-GACAAGTCAGTGGCACACCCTT
1 TCAAAGCCACACAAGTCAGTGGCA-ACTCTT
* * * *
1480736 TCAAAG-CTCACAAGTCGGTGG-TACCCTT
1 TCAAAGCCACACAAGTCAGTGGCAACTCTT
*
1480764 TCAAAGCCCACACAAGTCGGTGGCAACTCATT
1 TCAAAG-CCACACAAGTCAGTGGCAACTC-TT
1480796 TCAA
1 TCAA
1480800 GTCACCACTT
Statistics
Matches: 552, Mismatches: 98, Indels: 82
0.75 0.13 0.11
Matches are distributed among these distances:
27 12 0.02
28 117 0.21
29 104 0.19
30 140 0.25
31 31 0.06
32 148 0.27
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (30 bp):
TCAAAGCCACACAAGTCAGTGGCAACTCTT
Found at i:1480446 original size:178 final size:180
Alignment explanation
Indices: 1480251--1480602 Score: 564
Period size: 178 Copynumber: 2.0 Consensus size: 180
1480241 AAATCGATGG
*
1480251 CACCCTTTCACAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATT
* * *
1480316 TTCAAAGTCCACACGAGTCGGTGGCAACTCTGTTCAAAGCTCACACAAATCGGTGGCA-CCTTCC
66 TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGGCACCCTTCC
* *
1480380 AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCATAAGTCAGTGGCA
131 AAAGCCCACAAGTCAGTAGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1480429 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAATGGTAACTCTT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATT
* * *
1480494 TTCAAAGTCCGCACAAGTTGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGGCACCCTTTC
66 TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGGCACCCTTCC
* *
1480559 AAAGCCTACAAGTTAGTAGCACCCTTTTCAAAGCCCACAAGTCA
131 AAAGCCCACAAGTCAGTAGCACCCTTTTCAAAGCCCACAAGTCA
1480603 ATGGTAACTC
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
178 114 0.72
179 23 0.15
180 21 0.13
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (180 bp):
CACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATT
TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGGCACCCTTCC
AAAGCCCACAAGTCAGTAGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1480560 original size:121 final size:120
Alignment explanation
Indices: 1480429--1480788 Score: 478
Period size: 121 Copynumber: 3.0 Consensus size: 120
1480419 GTCAGTGGCA
*
1480429 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAATGGTAACTCTT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAATGGTAACTCTT
* *
1480494 TTCAAAGTCCGCACAAGTTGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
65 TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
* * *
1480550 CACCCTTTCAAAGCCTACAAGTTAGTAGCACCCTTTTCAAAGCCCACAAGTCAATGGTAACTCTT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAATGGTAACTCTT
* *
1480615 TTCAAATTCCACACATGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
65 TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
* * * * * * * *
1480671 CACTCTTCCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCGACAAGTCAGTGGCACAC-CCT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGTA-ACTCTT
* * * *
1480735 TTCAAAG--CTCACAAGTCGGTGG-TACCCT-TTCAAAGCCCACACAAGTCGGTGG
65 TTCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
1480787 CA
1 CA
1480789 ACTCATTTCA
Statistics
Matches: 212, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
116 25 0.12
117 4 0.02
118 13 0.06
120 32 0.15
121 136 0.64
122 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (120 bp):
CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGTAACTCTTT
TCAAAGTCCACACAAGTCGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGG
Found at i:1480628 original size:299 final size:298
Alignment explanation
Indices: 1480080--1480775 Score: 1000
Period size: 299 Copynumber: 2.3 Consensus size: 298
1480070 TTTAATTAAT
* ** * *
1480080 CAAAGCACACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTTTCATATCCTTTCAAAGCT
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACACCCTTTCAAAGCT
* * * * *
1480145 CACAAGTTAATGGCACCCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTTAAAGTCCACAGA
65 CACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGCCAATGGTAACTCTTTTCAAAGTCCACACA
* * * *
1480210 AATCGATGGCAACTTTGTTCAAAGCCCACATAAATCGATGGCACCCTTTCACAGCCCACAAGTCA
129 AATCGATGGCAACTCTATTCAAAGCCCACACAAATCGATGGCACCCTTTCAAAGCCCACAAGTCA
*
1480275 GTGGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATTTTCAAAGTCCACACGA-GTCGGTG
194 GTAGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATTTTCAAAGTCCACAC-ATGTCGGTG
* *
1480339 GCAACTCTGTTCAAAGCTCACACAAATCGGTGGCAC-CTTC
258 GCAACTCTATTCAAAGCCCACACAAATCGGTGGCACTCTTC
* *
1480379 CAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCACACCCTTTCAAAGCC
1 CAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCACACCCTTTCAAAGCT
** *
1480444 CACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAATGGTAACTCTTTTCAAAGTCCGCACA
65 CACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGCCAATGGTAACTCTTTTCAAAGTCCACACA
* * * * * *
1480509 AGTTGGTGGCAACTCTATTCAAAGCCCACACAAATCGGTGGCACCCTTTCAAAGCCTACAAGTTA
129 AATCGATGGCAACTCTATTCAAAGCCCACACAAATCGATGGCACCCTTTCAAAGCCCACAAGTCA
* * *
1480574 GTAGCACCCTTTTCAAAGCCCACAAGTCAATGGTAACTCTTTTCAAATTCCACACATGTCGGTGG
194 GTAGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATTTTCAAAGTCCACACATGTCGGTGG
1480639 CAACTCTATTCAAAGCCCACACAAATCGGTGGCACTCTTC
259 CAACTCTATTCAAAGCCCACACAAATCGGTGGCACTCTTC
* *
1480679 CAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCGACAAGTCAGTGGCACACCCTTTCAAAGCT
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACACCCTTTCAAAGCT
* * *
1480744 CACAAGTCGGTGGTACCCTTTCAAAGCCCACA
65 CACAAGTCAGTGGCACCTTTTCAAAGCCCACA
1480776 CAAGTCGGTG
Statistics
Matches: 354, Mismatches: 38, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
298 5 0.01
299 270 0.76
300 77 0.22
301 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (298 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCACACCCTTTCAAAGCTC
ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGCCAATGGTAACTCTTTTCAAAGTCCACACAAA
TCGATGGCAACTCTATTCAAAGCCCACACAAATCGATGGCACCCTTTCAAAGCCCACAAGTCAGT
AGCACCATTTTCAAAGCCCACAAGTCAATGGTAACTATTTTCAAAGTCCACACATGTCGGTGGCA
ACTCTATTCAAAGCCCACACAAATCGGTGGCACTCTTC
Found at i:1481952 original size:20 final size:20
Alignment explanation
Indices: 1481927--1482077 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
1481917 TTTTTACCCA
* * *
1481927 AATGTATCGATGCATTTTTC
1 AATGTATCGATACATGTATC
*
1481947 AATGTATCGATACATGTATG
1 AATGTATCGATACATGTATC
*
1481967 AATGTATCGATACATATA-C
1 AATGTATCGATACATGTATC
* * * *
1481986 -AT-T-TGGGTAAAAAG-A-C
1 AATGTATCGAT-ACATGTATC
*
1482002 TACATGTATCGATACATTGAAT-
1 -A-ATGTATCGATACA-TGTATC
* *
1482024 AATG-ATCGATACATTTTTC
1 AATGTATCGATACATGTATC
*
1482043 AATGTATCGATACATGTATG
1 AATGTATCGATACATGTATC
1482063 AATGTATCGATACAT
1 AATGTATCGATACAT
1482078 ATACATCTAG
Statistics
Matches: 99, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
16 5 0.05
17 3 0.03
18 4 0.04
19 15 0.15
20 66 0.67
21 5 0.05
22 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATGTATC
Found at i:1482096 original size:96 final size:97
Alignment explanation
Indices: 1481927--1482154 Score: 370
Period size: 96 Copynumber: 2.4 Consensus size: 97
1481917 TTTTTACCCA
* * *
1481927 AATGTATCGATGCATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATATACATTTGG
1 AATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATATACATCTAG
* * *
1481992 GTAAAAAGACTACATGTATCGATACATTGAAT
66 GTAAAAAGACAAAATGTATCGATACATTGAAG
1482024 AATG-ATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATATACATCTAG
1 AATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATATACATCTAG
1482088 GTAAAAAGACAAAATGTATCGATACATTGAAG
66 GTAAAAAGACAAAATGTATCGATACATTGAAG
*
1482120 AATGTATCGATACATTCTTT-AGTGTATCGATACAT
1 AATGTATCGATACATT-TTTCAATGTATCGATACAT
1482155 TCTGTCTTTT
Statistics
Matches: 122, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
96 90 0.74
97 29 0.24
98 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (97 bp):
AATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATATACATCTAG
GTAAAAAGACAAAATGTATCGATACATTGAAG
Found at i:1482195 original size:71 final size:70
Alignment explanation
Indices: 1482101--1482276 Score: 244
Period size: 71 Copynumber: 2.5 Consensus size: 70
1482091 AAAAGACAAA
*** * *
1482101 ATGTATCGATACATTGAAGAATGTATCGATACATTCTTTAGTGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATT-TTTAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1482166 ACCCAG
65 ACCCAG
1482172 ATGTATCGATACATTTTTCAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATTTTT-AATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
*
1482237 ACTCAG
65 ACCCAG
* * *
1482243 ATGTATCAATATATTATTTAATGCATCGATACAT
1 ATGTATCGATACATT-TTTAATGTATCGATACAT
1482277 CTTGTTAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 91 0.97
72 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (70 bp):
ATGTATCGATACATTTTTAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTA
CCCAG
Found at i:1482197 original size:20 final size:20
Alignment explanation
Indices: 1482172--1482228 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
1482162 TTTTACCCAG
*
1482172 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
1482192 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
1482212 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
1482229 GTCTTTTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1485564 original size:63 final size:62
Alignment explanation
Indices: 1485485--1485610 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 62
1485475 TCTTACCACC
* *
1485485 TTAATAGTGTAGGTGGCCTAATTTGTGGAACCTCCACTAATTTAGCCATCATCAACATTTTTT
1 TTAATAGTGTAGGTGGCCTAATTAGTGGAACCTCCACTAATTCAGCCATCATCAAC-TTTTTT
* * * *
1485548 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCGGCCATCATCATCTTTTTT
1 TTAATAGTGTAGGTGGCCTAATTAGTGGAACCTCCACTAATTCAGCCATCATCAACTTTTTT
1485610 T
1 T
1485611 ATTTTTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
62 7 0.12
63 50 0.88
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (62 bp):
TTAATAGTGTAGGTGGCCTAATTAGTGGAACCTCCACTAATTCAGCCATCATCAACTTTTTT
Found at i:1485645 original size:27 final size:26
Alignment explanation
Indices: 1485613--1485663 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1485603 CTTTTTTTAT
1485613 TTTTTTAATT-ATTTTTATTGATTTTGA
1 TTTTTTAATTGATTTTT-TT-ATTTTGA
*
1485640 TTTTTTTATTGATTTTTTTATTTT
1 TTTTTTAATTGATTTTTTTATTTT
1485664 TTTTGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 11 0.50
28 6 0.27
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (26 bp):
TTTTTTAATTGATTTTTTTATTTTGA
Found at i:1485646 original size:28 final size:26
Alignment explanation
Indices: 1485606--1485663 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
1485596 TCATCATCTT
*
1485606 TTTTTATTTTTTTAATT-ATTTTTATTGA
1 TTTTGATTTTTTT-ATTGATTTTT-TT-A
1485634 TTTTGATTTTTTTATTGATTTTTTTA
1 TTTTGATTTTTTTATTGATTTTTTTA
1485660 TTTT
1 TTTT
1485664 TTTTGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.18
27 5 0.18
28 18 0.64
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (26 bp):
TTTTGATTTTTTTATTGATTTTTTTA
Found at i:1485663 original size:18 final size:19
Alignment explanation
Indices: 1485606--1485669 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
1485596 TCATCATCTT
* *
1485606 TTTTTATT-TTTTTAATTA
1 TTTTTATTGATTTTGATTA
1485624 TTTTTATTGATTTTGATT-
1 TTTTTATTGATTTTGATTA
*
1485642 TTTTTATTGATTTT-TTTA
1 TTTTTATTGATTTTGATTA
*
1485660 TTTTTTTTGA
1 TTTTTATTGA
1485670 ATTTATATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
17 2 0.05
18 31 0.77
19 7 0.17
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTTTATTGATTTTGATTA
Found at i:1491607 original size:2 final size:2
Alignment explanation
Indices: 1491600--1491624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1491590 ATATTTAATT
1491600 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1491625 ATATATATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1497165 original size:34 final size:34
Alignment explanation
Indices: 1497120--1497187 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
1497110 ATTTGCCTGC
*
1497120 ATGTATCGATACATTTGAGTAATGTATCGATACA
1 ATGTATCGATACATTTAAGTAATGTATCGATACA
*
1497154 ATGTATTGATACATTTAAGTAATGTATCGATACA
1 ATGTATCGATACATTTAAGTAATGTATCGATACA
1497188 TTTTCTTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (34 bp):
ATGTATCGATACATTTAAGTAATGTATCGATACA
Found at i:1497243 original size:19 final size:19
Alignment explanation
Indices: 1497219--1497270 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1497209 AGCGATACAT
1497219 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
**
1497238 TGTATCGATACAATGCTTA
1 TGTATCGATACAAAACTTA
*
1497257 TGTATCAATACAAA
1 TGTATCGATACAAA
1497271 TTGTTGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1501276 original size:79 final size:80
Alignment explanation
Indices: 1501193--1501374 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
1501183 AACCCCTTAA
* ** * * *
1501193 AAATAACGGGGTTGGAGTACCTC-CGGTTGTGAAAAATCGATGA-TTAGGAAATAAAATCGAGAT
1 AAATAACGGGGTTAGAGTACCTCTCAATTATGAAAAATCAAT-ATTTAGGAAATAAAACCGAGAT
1501256 TGGAGTATCCCCTCGG
65 TGGAGTATCCCCTCGG
* * * * * *
1501272 AAATAACGGGGTTAGAGTA-TTCTCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTT
1 AAATAACGGGGTTAGAGTACCTCTCAATTATGAAAAATCAATATTTAGGAAATAAAACCGAGATT
1501336 GGAGTATCCCCTCGG
66 GGAGTATCCCCTCGG
** *
1501351 AGGTAACGGGGTTTGAGTATCCTC
1 AAATAACGGGGTTAGAGTA-CCTC
1501375 GATGAAATAA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 3 0.04
79 78 0.94
81 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (80 bp):
AAATAACGGGGTTAGAGTACCTCTCAATTATGAAAAATCAATATTTAGGAAATAAAACCGAGATT
GGAGTATCCCCTCGG
Found at i:1501603 original size:80 final size:79
Alignment explanation
Indices: 1501440--1501663 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 79
1501430 TAAAATCGGA
* * * * * **
1501440 GTTGGAATATCCCCGATTATGGAGAGTTGGTGTTTTAGAAATAAAACCGGGGTTCAAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* * *
1501505 TCGAGAATAATGGG
66 TCGAAAATAACGAG
* *
1501519 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAACAAAATCGGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCC
1501584 CTCGAAAATAACGAG
65 CTCGAAAATAACGAG
* *
1501599 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1501664 GATTAAAGGA
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
79 57 0.45
80 71 0.55
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACGAG
Found at i:1501662 original size:51 final size:50
Alignment explanation
Indices: 1501599--1501781 Score: 242
Period size: 51 Copynumber: 3.6 Consensus size: 50
1501589 AAATAACGAG
1501599 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAA-CGGA
* * *
1501650 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAA-C-GGA
* * * * *
1501702 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACGGA
1501752 GGTTGGAGTATCCCCGATTATGAAAAATTG
1 -GTTGGAGTATCCCCGATTATGAAAAATTG
1501782 AGAAACTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 67 0.58
52 44 0.38
53 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACGGA
Found at i:1504160 original size:13 final size:13
Alignment explanation
Indices: 1504142--1504167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1504132 ACAAAGATCG
1504142 ATGTATCGATACA
1 ATGTATCGATACA
1504155 ATGTATCGATACA
1 ATGTATCGATACA
1504168 TTCTACAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1504244 original size:19 final size:21
Alignment explanation
Indices: 1504220--1504271 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1504210 AGCGATACAC
*
1504220 TGTATCGATACA-TTACTTA-
1 TGTATCGATACATTTACTAAT
1504239 TGTATCGATACATTTACTAAT
1 TGTATCGATACATTTACTAAT
1504260 TGTATCGATACA
1 TGTATCGATACA
1504272 AATTATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTACTAAT
Found at i:1505313 original size:55 final size:55
Alignment explanation
Indices: 1505112--1505530 Score: 552
Period size: 55 Copynumber: 7.4 Consensus size: 55
1505102 ATAAAGTGCA
**
1505112 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTAATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
* ** * *
1505173 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGCAAAGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
*
1505234 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1505289 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1505344 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** * *
1505399 TCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
**
1505454 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1505509 TCCTGCTCTTTGAGGACTGAAA
1 TCCTGCTCTTTGAGGACTGAAA
1505531 GGGCGAAAGA
Statistics
Matches: 331, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
55 234 0.71
56 2 0.01
60 4 0.01
61 89 0.27
62 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1505532 original size:26 final size:26
Alignment explanation
Indices: 1505447--1505532 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
1505437 GTGGGCTTTA
1505447 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
* ** * * *
1505473 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TG
1505502 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
1505528 AAAGG
1 AAAGG
1505533 GCGAAAGAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 5 0.12
28 5 0.12
29 11 0.26
30 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (26 bp):
AAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:1505561 original size:40 final size:40
Alignment explanation
Indices: 1505506--1505608 Score: 179
Period size: 40 Copynumber: 2.5 Consensus size: 40
1505496 GCTTTGAAAG
1505506 GCGTCCTGCTCTTTGAGGACTGAAAGGGCGAAAGAAGAGA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGGCGAAAGAAGAGA
*
1505546 GCGTCCTGCTCTTTGAGGACTGAAAGGGCGAAAGGAGAGA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGGCGAAAGAAGAGA
*
1505586 GCGTCCTGCCCTTTTGAGGACTG
1 GCGTCCTGCTC-TTTGAGGACTG
1505609 GGAAGTGCCA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 49 0.82
41 11 0.18
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.20
Consensus pattern (40 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGGCGAAAGAAGAGA
Found at i:1506649 original size:1 final size:1
Alignment explanation
Indices: 1506643--1506706 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
1506633 TAGATTCTTC
* * * * * * * *
1506643 TTTTTTTCTTTCTCTTTTTTCTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1506707 GAAAAAGAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.06, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:1506662 original size:13 final size:12
Alignment explanation
Indices: 1506640--1506706 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
1506630 AAGTAGATTC
1506640 TTCTTTTTTTCT
1 TTCTTTTTTTCT
1506652 TTCTCTTTTTTCT
1 TTCT-TTTTTTCT
*
1506665 TTGTTTTTTT-T
1 TTCTTTTTTTCT
* *
1506676 TTGTTTTTTTGT
1 TTCTTTTTTTCT
*
1506688 TT-TTTTTTTAT
1 TTCTTTTTTTCT
1506699 TT-TTTTTT
1 TTCTTTTTT
1506707 GAAAAAGAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
11 27 0.53
12 13 0.25
13 11 0.22
ACGTcount: A:0.01, C:0.07, G:0.04, T:0.87
Consensus pattern (12 bp):
TTCTTTTTTTCT
Found at i:1506664 original size:24 final size:22
Alignment explanation
Indices: 1506637--1506695 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
1506627 CTTAAGTAGA
1506637 TTCTTCTTTTTTTCTTTCTCTTTT
1 TTCTT-TTTTTTTCTTTCT-TTTT
* *
1506661 TTCTTTGTTTTTTTTTTGTTTTT
1 TTCTTT-TTTTTTCTTTCTTTTT
*
1506684 TTGTTTTTTTTT
1 TTCTTTTTTTTT
1506696 TATTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 6 0.19
23 10 0.32
24 15 0.48
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (22 bp):
TTCTTTTTTTTTCTTTCTTTTT
Found at i:1506688 original size:19 final size:19
Alignment explanation
Indices: 1506659--1506704 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1506649 TCTTTCTCTT
*
1506659 TTTTCTTTGTTTTTTTTTTG
1 TTTT-TTTGTTTTTTTTTTA
1506679 TTTTTTTGTTTTTTTTTTA
1 TTTTTTTGTTTTTTTTTTA
1506698 TTTTTTT
1 TTTTTTT
1506705 TTGAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTA
Found at i:1519167 original size:79 final size:79
Alignment explanation
Indices: 1519051--1519232 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
1519041 AACCCTTTGA
* ** * * * *
1519051 AAATAACGGGGTTAGAGTATCCTCGGTTGTGAAAAATCGAT-TATTAGGAAATAAAATCGAGATT
1 AAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATAT-TTAGAAAATAAAACCGAGATT
1519115 GGAGTATCCCCTCGG
65 GGAGTATCCCCTCGG
* * * * *
1519130 AAATAACGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTG
1 AAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATATTTAGAAAATAAAACCGAGATTG
*
1519195 GAGTATCCCTTCGG
66 GAGTATCCCCTCGG
* ** *
1519209 AGATAACATGGTTGGAGTATCCCC
1 AAATAACGGGGTTAGAGTATCCCC
1519233 GATGAAATAA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 84 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
AAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATATTTAGAAAATAAAACCGAGATTG
GAGTATCCCCTCGG
Found at i:1519432 original size:52 final size:50
Alignment explanation
Indices: 1519372--1519669 Score: 244
Period size: 52 Copynumber: 5.7 Consensus size: 50
1519362 CCTCGGGAAT
1519372 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
** ** ** * *
1519422 AACCGGGGGTTGGAGTATCCCCTCGAAAAT-AACGAGGTTGGA-GTATCCCAGATGAT-T
1 AA-C-GGGGTTGGAGTAT-CCC-CGATTATGAA--AAATT-GATGT-T-TTAGA-AATAA
* * *
1519479 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAA
* * * * *
1519530 AATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAA
1 AA-CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAGAAATAA
* * *
1519582 AACTAGGGTTGGAGTATCCCCGATTGTGGAAAATT-AGTGTTTTAGAAATAA
1 AAC-GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAA
*
1519633 AACCGGGGTTGGAGTATCTCCGATTATGAAAAATTGA
1 AA-CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1519670 GAAACTTAAC
Statistics
Matches: 193, Mismatches: 35, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
50 4 0.02
51 57 0.30
52 72 0.37
53 21 0.11
54 10 0.05
55 18 0.09
56 4 0.02
57 5 0.03
58 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
Found at i:1519524 original size:238 final size:239
Alignment explanation
Indices: 1519098--1519602 Score: 669
Period size: 238 Copynumber: 2.1 Consensus size: 239
1519088 CGATTATTAG
* * * *
1519098 GAAATAAAATCGAGATTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAATTATGAG
1 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAATTATGAA
* * * *
1519163 AAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCCCTTCGGAGATAACATGGTTGGAGTA
66 AAATCAATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACATGGTTGGAGTA
* *
1519228 TCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAACTAGTGTTTTGGAAATAAA
131 TCCCAGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAACTAGTGTTTTGGAAATAAA
** * *
1519293 ATCAGAGTTGGAATATCCCCGA-TAGTGGAGAGTTGGTGTTTTA
196 ATCAGAGTTGGAATATCCCCGATTAAAGGAAAATTGGTGTTTTA
* * * *
1519336 GAAATAAAACCGGGGTTCGAGTATCCCCTCGGGAATAACGGGGTTGGAGTATCCCCGATTATGAA
1 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAATTATGAA
** *
1519401 AAATTGATGTTTT-AGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAAAATAACGA-GGTTGGA
66 AAATCAATATTTTGA-AAATAAAACC-GGGGTTGGAGTATCCCCTCGAAAATAAC-ATGGTTGGA
* * * *
1519464 GTATCCCAGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTG-AAAAATTGGTGTTTTTGGAAA
128 GTATCCCAGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAACTAGTG-TTTTGGAAA
* *
1519527 TAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTA
192 TAAAATCAGAGTTGGAATATCCCCGATTAAAGGAAAATTGGTGTTTTA
* **
1519575 AAAATAAAACTAGGGTTGGAGTATCCCC
1 GAAATAAAACCGGGGTTGGAGTATCCCC
1519603 GATTGTGGAA
Statistics
Matches: 231, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
237 10 0.04
238 136 0.59
239 84 0.36
240 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (239 bp):
GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAATTATGAA
AAATCAATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACATGGTTGGAGTA
TCCCAGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAACTAGTGTTTTGGAAATAAA
ATCAGAGTTGGAATATCCCCGATTAAAGGAAAATTGGTGTTTTA
Found at i:1527675 original size:4 final size:4
Alignment explanation
Indices: 1527666--1527726 Score: 68
Period size: 4 Copynumber: 15.0 Consensus size: 4
1527656 AATCGACCGC
* * * *
1527666 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CGCT CGCT CGCT CGCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
*
1527714 CGCT CTCAT CTCT
1 CTCT CTC-T CTCT
1527727 TTTTCCGTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
4 50 0.93
5 4 0.07
ACGTcount: A:0.02, C:0.49, G:0.08, T:0.41
Consensus pattern (4 bp):
CTCT
Found at i:1533186 original size:146 final size:142
Alignment explanation
Indices: 1532938--1533230 Score: 326
Period size: 146 Copynumber: 2.0 Consensus size: 142
1532928 TATTTATAAA
1532938 AAAAATTCAAAACTCATAAAATAAATTAAATTCTCTAAAACTAATTTACTATAAATTTAATAAAA
1 AAAAATTCAAAACTCATAAAATAAATTAAATTCTCTAAAACTAATTTAC-ATAAATTTAATAAAA
* *
1533003 ATATTTGATGAATTTTAAAAATTTTGAACTAAAAAAATCCAACTGA-AAAAATTTACCAAGTAAA
65 ATATTTGAAGAATTTTAAAAATTATGAACTAAAAAAATCCAA-TGAGAAAAATTTACCAAGTAAA
1533067 AAATCTCATATTTTGG
129 AAAT-TCATATTTT-G
* * *
1533083 AAAAATTCTAAAACTCATAAAATAAACTTAATTTTTC-AAAAC-AGATTTA-ATCGAA-TTAATC
1 AAAAATTC-AAAACTCATAAAATAAA-TTAAATTCTCTAAAACTA-ATTTACAT-AAATTTAAT-
* * ** * * * *
1533144 AATAATATTTGAAGAATTTTGAAAATTATGAACTTAGGAAAATCCTATTAGAGAAATTTACGAAG
61 AAAAATATTTGAAGAATTTTAAAAATTATGAAC-TAAAAAAATCCAATGAGAAAAATTTACCAAG
* *
1533209 TAAAAACTTTATATTTTG
125 TAAAAAATTCATATTTTG
1533227 AAAA
1 AAAA
1533231 TAAGAAAAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
144 12 0.10
145 50 0.40
146 56 0.44
147 8 0.06
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (142 bp):
AAAAATTCAAAACTCATAAAATAAATTAAATTCTCTAAAACTAATTTACATAAATTTAATAAAAA
TATTTGAAGAATTTTAAAAATTATGAACTAAAAAAATCCAATGAGAAAAATTTACCAAGTAAAAA
ATTCATATTTTG
Found at i:1534455 original size:33 final size:33
Alignment explanation
Indices: 1534412--1534476 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1534402 TTTGGGATAA
1534412 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
*
1534445 TGTATTGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
1534477 AACAGTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:1534554 original size:19 final size:20
Alignment explanation
Indices: 1534530--1534578 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1534520 ACTGTGCATG
* *
1534530 TATCGATACAATG-ATCATA
1 TATCGATACAAAGCATAATA
*
1534549 TATCGATACAAAGCATAATG
1 TATCGATACAAAGCATAATA
1534569 TATCGATACA
1 TATCGATACA
1534579 TCTAGATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (20 bp):
TATCGATACAAAGCATAATA
Found at i:1534574 original size:20 final size:19
Alignment explanation
Indices: 1534527--1534578 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1534517 ACAACTGTGC
* *
1534527 ATGTATCGATACAATGATC
1 ATGTATCGATACAAAGATA
*
1534546 ATATATCGATACAAAGCATA
1 ATGTATCGATACAAAG-ATA
1534566 ATGTATCGATACA
1 ATGTATCGATACA
1534579 TCTAGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAAAGATA
Found at i:1535631 original size:13 final size:13
Alignment explanation
Indices: 1535613--1535638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1535603 ATTTTTTTTG
1535613 TGTATCGATACAT
1 TGTATCGATACAT
1535626 TGTATCGATACAT
1 TGTATCGATACAT
1535639 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1536337 original size:39 final size:40
Alignment explanation
Indices: 1536262--1536341 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
1536252 TTTTCTTTCT
*
1536262 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCACACATTCTCC
* * *
1536302 CCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTCACACATTCTCC
1536341 C
1 C
1536342 ATTTTACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 3 0.09
39 25 0.71
40 7 0.20
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCACACATTCTCC
Found at i:1538301 original size:20 final size:19
Alignment explanation
Indices: 1538246--1538301 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1538236 AAAACCTTTA
*
1538246 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
1538266 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1538286 AATGTATCGATACATG
1 AAAGTATCGATACATG
1538302 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1538377 original size:19 final size:18
Alignment explanation
Indices: 1538353--1538416 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
1538343 TAGCCAAACT
1538353 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
1538372 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
1538385 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
1538404 TTGTATCGATACA
1 -TGTATCGATACA
1538417 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:1538389 original size:13 final size:13
Alignment explanation
Indices: 1538371--1538396 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1538361 TACACAAAAT
1538371 ATGTATCGATACA
1 ATGTATCGATACA
1538384 ATGTATCGATACA
1 ATGTATCGATACA
1538397 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1538394 original size:32 final size:33
Alignment explanation
Indices: 1538353--1538416 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1538343 TAGCCAAACT
*
1538353 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1538385 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1538417 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1542640 original size:13 final size:13
Alignment explanation
Indices: 1542622--1542646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1542612 CATAAAGTGT
1542622 TGTATCGATACAA
1 TGTATCGATACAA
1542635 TGTATCGATACA
1 TGTATCGATACA
1542647 TATTTTTTTG
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:1542644 original size:33 final size:33
Alignment explanation
Indices: 1542602--1542668 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1542592 TTCAACGATT
1542602 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1542635 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1542668 T
1 T
1542669 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1542727 original size:13 final size:13
Alignment explanation
Indices: 1542709--1542733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1542699 ATCACTTAAA
1542709 TGTATCGATACAT
1 TGTATCGATACAT
1542722 TGTATCGATACA
1 TGTATCGATACA
1542734 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1542798 original size:52 final size:52
Alignment explanation
Indices: 1542742--1542922 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
1542732 CACTGATCTT
*
1542742 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1542794 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1542846 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1542898 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1542923 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1548887 original size:22 final size:20
Alignment explanation
Indices: 1548836--1548910 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
1548826 AAAAACCCAG
1548836 ATGTATCGATACAATGATAA
1 ATGTATCGATACAATGATAA
*
1548856 ATTTATCGATACAATTTGA-AA
1 ATGTATCGATACAA--TGATAA
* * * *
1548877 CATGTATCGATATATTTATTA
1 -ATGTATCGATACAATGATAA
1548898 ATGTATCGATACA
1 ATGTATCGATACA
1548911 TATCCTTGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 27 0.61
21 3 0.07
22 14 0.32
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGATAA
Found at i:1549729 original size:61 final size:61
Alignment explanation
Indices: 1549631--1549874 Score: 231
Period size: 61 Copynumber: 4.1 Consensus size: 61
1549621 TTAAGGATAA
* * * * * *
1549631 TAAAGATAAGAAAAATGATAGAGTTGCCAATATGCTGATTCACGGCCAGCAATATTGGGCT
1 TAAAGATGAGAAGAATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCAATATTGGGCT
* * * * *
1549692 TAAAGATGAGAAGAATGATAAAGGTACTAATAGGCTGATCCAAGGCCAGCGATATTAGGC-
1 TAAAGATGAGAAGAATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCAATATTGGGCT
* * *
1549752 T-----T-A-AA-AATGATAAAGGTTCCAATATGCTGACTCAAGGCCAGCAATATTGGACT
1 TAAAGATGAGAAGAATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCAATATTGGGCT
** * *
1549805 TAATA-ATGAGAAGAATGATAAAGGTACTGATATGCT-AGTTCAAGGCCTGCAATATTGGGTT
1 TAA-AGATGAGAAGAATGATAAAGGTACCAATATGCTGA-TTCAAGGCCAGCAATATTGGGCT
1549866 TAAAGATGA
1 TAAAGATGA
1549875 AAAATGTGCT
Statistics
Matches: 146, Mismatches: 26, Indels: 22
0.75 0.13 0.11
Matches are distributed among these distances:
52 39 0.27
53 3 0.02
54 1 0.01
55 1 0.01
58 1 0.01
59 1 0.01
60 5 0.03
61 95 0.65
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (61 bp):
TAAAGATGAGAAGAATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCAATATTGGGCT
Found at i:1549788 original size:52 final size:52
Alignment explanation
Indices: 1549705--1550299 Score: 347
Period size: 52 Copynumber: 11.1 Consensus size: 52
1549695 AGATGAGAAG
* * *
1549705 AATGATAAAGGTACTAATAGGCTGATCCAAGGCCAGCGATATTAGG-CTTAAA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAA
* * *
1549757 AATGATAAAGGTTCCAATATGCTGACTCAAGGCCAGCAATATTGGACTTAATAATGAGAA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGAC----T--T-A-AA
** * * **
1549817 GAATGATAAAGGTACTGATATGCT-AGTTCAAGGCCTGCAATATTGGGTTTAAA
1 -AATGATAAAGGTACCAATATGCTGA-TTCAAGGCCAGCGATATTGGACTTAAA
* * * * * * * * * *
1549870 GATGAAAAATGTGCTAATATGCTGATTCAAAGCTAGTGATATCGGACTTAAT
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * * *
1549922 GATAACAAAGGTACCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAGA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A
* * * *
1549975 AA-GAAAAAGGTGCCAATGTGCT-AGTTCAAGGCCAGCGACATTGGACTTAAA
1 AATGATAAAGGTACCAATATGCTGA-TTCAAGGCCAGCGATATTGGACTTAAA
* * * * * * **
1550026 GATGACAAAAGTGCCAATATGTTGATTCAAGGCTAGTAATATTGGACTTAAA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * **
1550078 AATAATAAAGATACCAATATGTTGATTCAAGGCCAATGATATTGGACTTAAGA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A
* * * * * ** * *
1550131 AA-GAAAAAGGTGCCAATGTGCTGATTAAAGACCAATGACAATGGACTTAAA
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * * * * *
1550182 GATGATAAGGATGAGAAGAATGCTAATGTGCTAATTCAAGGCCAGTGACATTAGGA-TTAAA
1 -A--AT---GAT-A-AAG-GTACCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAA
* * * * *
1550243 AATGGTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAG
1 AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1550295 AATGA
1 AATGA
1550300 AGGTCTAACA
Statistics
Matches: 420, Mismatches: 94, Indels: 58
0.73 0.16 0.10
Matches are distributed among these distances:
51 8 0.02
52 307 0.73
53 11 0.03
54 3 0.01
55 3 0.01
56 1 0.00
57 1 0.00
58 5 0.01
59 2 0.00
60 7 0.02
61 69 0.16
62 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (52 bp):
AATGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
Found at i:1549849 original size:113 final size:112
Alignment explanation
Indices: 1549641--1549899 Score: 324
Period size: 113 Copynumber: 2.3 Consensus size: 112
1549631 TAAAGATAAG
* * *
1549641 AAAAATGATAGAGTTGCCAATATGCTGATTCACGGCCAGCAATATTGGGCTTAAAGATGAGAAGA
1 AAAAATGATAAAGTT-CCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAGAAGA
*
1549706 ATGATAAAGGTACTAATAGGCTGATCCAAGGCCAGCGATATTAGGCTT
65 ATGATAAAGGTACTAATAGGCTGATCCAAGGCCAGCAATATTAGGCTT
*
1549754 AAAAATGATAAAGGTTCCAATATGCTGACTCAAGGCCAGCAATATTGGACTTAATA-ATGAGAAG
1 AAAAATGATAAA-GTTCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAA-AGATGAGAAG
* * * * * *
1549818 AATGATAAAGGTACTGATATGCT-AGTTCAAGGCCTGCAATATTGGGTTT
64 AATGATAAAGGTACTAATAGGCTGA-TCCAAGGCCAGCAATATTAGGCTT
* * * *
1549867 AAAGATGAAAAATGTGCTAATATGCTGATTCAA
1 AAAAATGATAAA-GTTCCAATATGCTGATTCAA
1549900 AGCTAGTGAT
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
112 1 0.01
113 121 0.96
114 4 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (112 bp):
AAAAATGATAAAGTTCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAGAAGAA
TGATAAAGGTACTAATAGGCTGATCCAAGGCCAGCAATATTAGGCTT
Found at i:1550006 original size:156 final size:156
Alignment explanation
Indices: 1549837--1550152 Score: 463
Period size: 156 Copynumber: 2.0 Consensus size: 156
1549827 GGTACTGATA
* * ** *
1549837 TGCTAGTTCAAGGCCTGCAATATTGGGTTTAAAGATGA-AAAATGTGCTAATATGCTGATTCAAA
1 TGCTAGTTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAA-GTGCCAATATGCTGATTCAAA
* ** *
1549901 GCTAGTGATATCGGACTTAATGATAACAAAGGTACCAATATGCTGATTCAAGGCCAACGATATTG
65 GCTAGTAATATCGGACTTAAAAATAACAAAGATACCAATATGCTGATTCAAGGCCAACGATATTG
*
1549966 GATTTAAGAAAGAAAAAGGTGCCAATG
130 GACTTAAGAAAGAAAAAGGTGCCAATG
* * *
1549993 TGCTAGTTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAAGTGCCAATATGTTGATTCAAGG
1 TGCTAGTTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAAGTGCCAATATGCTGATTCAAAG
* * * *
1550058 CTAGTAATATTGGACTTAAAAATAATAAAGATACCAATATGTTGATTCAAGGCCAATGATATTGG
66 CTAGTAATATCGGACTTAAAAATAACAAAGATACCAATATGCTGATTCAAGGCCAACGATATTGG
1550123 ACTTAAGAAAGAAAAAGGTGCCAATG
131 ACTTAAGAAAGAAAAAGGTGCCAATG
1550149 TGCT
1 TGCT
1550153 GATTAAAGAC
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
156 138 0.97
157 4 0.03
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (156 bp):
TGCTAGTTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAAGTGCCAATATGCTGATTCAAAG
CTAGTAATATCGGACTTAAAAATAACAAAGATACCAATATGCTGATTCAAGGCCAACGATATTGG
ACTTAAGAAAGAAAAAGGTGCCAATG
Found at i:1550176 original size:156 final size:156
Alignment explanation
Indices: 1549865--1550186 Score: 459
Period size: 156 Copynumber: 2.1 Consensus size: 156
1549855 AATATTGGGT
* * **
1549865 TTAAAGATGAAAAATGTGCTAATATGCTGATTCAAAGCTAGTGATATCGGACTTAATGATAACAA
1 TTAAAGATGAAAAATGTGCCAATATGCTGATTCAAAGCTAGTAATATCGGACTTAAAAATAACAA
* *
1549930 AGGTACCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAGAAAGAAAAAGGTGCCAATGTG
66 AGATACCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTG
* * * *
1549995 CTAGTTCAAGGCCAGCGACATTGGAC
131 CTAGTTAAAGACCAACGACAATGGAC
* * * *
1550021 TTAAAGATGACAAAA-GTGCCAATATGTTGATTCAAGGCTAGTAATATTGGACTTAAAAATAATA
1 TTAAAGATGA-AAAATGTGCCAATATGCTGATTCAAAGCTAGTAATATCGGACTTAAAAATAACA
* *
1550085 AAGATACCAATATGTTGATTCAAGGCCAATGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGT
65 AAGATACCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGT
*
1550150 GCT-GATTAAAGACCAATGACAATGGAC
130 GCTAG-TTAAAGACCAACGACAATGGAC
1550177 TTAAAGATGA
1 TTAAAGATGA
1550187 TAAGGATGAG
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
155 1 0.01
156 142 0.97
157 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (156 bp):
TTAAAGATGAAAAATGTGCCAATATGCTGATTCAAAGCTAGTAATATCGGACTTAAAAATAACAA
AGATACCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTG
CTAGTTAAAGACCAACGACAATGGAC
Found at i:1550459 original size:33 final size:31
Alignment explanation
Indices: 1550359--1550516 Score: 165
Period size: 33 Copynumber: 5.0 Consensus size: 31
1550349 TGGAAATGGA
*
1550359 TGCCACCAACTTGTGTGGGCCTTTGAGAAGGT
1 TGCCACCGACTTGTGTGGG-CTTTGAGAAGGT
* * * * *
1550391 TGCCACCAACTTTTGTGGGATTTAAGAAGCT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGT
**
1550422 TGCCATTGACTTGTGTGGGCTTTGATGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-GAA-GGT
1550455 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAA-GGT
* * *
1550488 TGCCACCGCCTTATGTAGGCTTT-AGAAGG
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGG
1550517 GTAAGATGCA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.02
31 32 0.30
32 21 0.20
33 50 0.47
34 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGT
Found at i:1550516 original size:64 final size:63
Alignment explanation
Indices: 1550359--1550518 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 63
1550349 TGGAAATGGA
* * * *
1550359 TGCCACCAACTTGTGTGGGCCTTTGAGAA-GGTTGCCACCAACTTTTGTGGGATTTAAGAAGCT
1 TGCCACCGACTTATGTAGG-CTTTGAGAAGGGTTGCCACCAACTTGTGTGGGATTTAAGAAGCT
** * * * * *
1550422 TGCCATTGACTTGTGTGGGCTTTGATGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
1 TGCCACCGACTTATGTAGGCTTTGA-GAAGGGTTGCCACCAACTTGTGTGGGATTTA-AGAA-GC
1550487 T
63 T
*
1550488 TGCCACCGCCTTATGTAGGCTTT-AGAAGGGT
1 TGCCACCGACTTATGTAGGCTTTGAGAAGGGT
1550519 AAGATGCAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
62 6 0.07
63 19 0.23
64 31 0.38
65 5 0.06
66 20 0.25
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (63 bp):
TGCCACCGACTTATGTAGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGATTTAAGAAGCT
Found at i:1555633 original size:51 final size:51
Alignment explanation
Indices: 1555576--1555800 Score: 337
Period size: 51 Copynumber: 4.4 Consensus size: 51
1555566 AATTTTCATC
* *
1555576 ATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCACA
* *
1555627 ATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACACCAATTTTCCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACA
* *
1555678 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACA
* *
1555729 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTC-CACA
*
1555780 ATCGGGGGTACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1555801 TTATTTCCGA
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 4 0.03
51 150 0.95
52 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACA
Found at i:1555898 original size:28 final size:28
Alignment explanation
Indices: 1555858--1555928 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
1555848 TTCTCACAAT
1555858 CGGGGATACTCCAA-TCCCGTTATTTTCG
1 CGGGGATACTCCAACT-CCGTTATTTTCG
* *
1555886 CGGGGATACTCCAACTCTGTTATTTTTG
1 CGGGGATACTCCAACTCCGTTATTTTCG
* *
1555914 AGAGGATACTCCAAC
1 CGGGGATACTCCAAC
1555929 CCCAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (28 bp):
CGGGGATACTCCAACTCCGTTATTTTCG
Found at i:1556016 original size:79 final size:79
Alignment explanation
Indices: 1555889--1556056 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
1555879 ATTTTCGCGG
* *** * *
1555889 GGATACTCCAACTCTGTTATTTTTGAGAGGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
1 GGATACTCCAACCCTGTTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACAAA
* *
1555954 TTTTCTATAATTAA
66 TTTTCCATAATCAA
* * * * *
1555968 GGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAGAACATAAA
1 GGATACTCCAACCCTGTTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACAAA
1556033 TTTTCCATAATCAA
66 TTTTCCATAATCAA
*
1556047 GGATCCTCCA
1 GGATACTCCA
1556057 GCCCCGTTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCTGTTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACAAA
TTTTCCATAATCAA
Found at i:1564362 original size:33 final size:33
Alignment explanation
Indices: 1564325--1564391 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1564315 TTCAACGATG
1564325 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1564358 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1564391 T
1 T
1564392 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1564363 original size:13 final size:13
Alignment explanation
Indices: 1564345--1564369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1564335 CATAAAATGT
1564345 TGTATCGATACAA
1 TGTATCGATACAA
1564358 TGTATCGATACA
1 TGTATCGATACA
1564370 TATTTTTTTG
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:1564450 original size:13 final size:13
Alignment explanation
Indices: 1564432--1564456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1564422 ATTACTCAAA
1564432 TGTATCGATACAT
1 TGTATCGATACAT
1564445 TGTATCGATACA
1 TGTATCGATACA
1564457 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1570511 original size:4 final size:4
Alignment explanation
Indices: 1570502--1570566 Score: 76
Period size: 4 Copynumber: 16.0 Consensus size: 4
1570492 AATCGACCGC
* * * *
1570502 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCG CTCG CTCG CTCG
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
*
1570550 CTCG CTCT CTCAT CTCT
1 CTCT CTCT CTC-T CTCT
1570567 TTTTCCGTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
4 54 0.93
5 4 0.07
ACGTcount: A:0.02, C:0.49, G:0.08, T:0.42
Consensus pattern (4 bp):
CTCT
Found at i:1575329 original size:13 final size:13
Alignment explanation
Indices: 1575311--1575336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1575301 TACAGCAAGT
1575311 ATGTATCGATACA
1 ATGTATCGATACA
1575324 ATGTATCGATACA
1 ATGTATCGATACA
1575337 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1576249 original size:396 final size:396
Alignment explanation
Indices: 1575517--1576312 Score: 1583
Period size: 396 Copynumber: 2.0 Consensus size: 396
1575507 CAACAACATT
1575517 GAAGCCTATAAATAAGAGCTTCCAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAA
1 GAAGCCTATAAATAAGAGCTTCCAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAA
*
1575582 ACACCTAGCATTCAAAGATCAAAGCATTTTATATTTTTCAAGAGCTTTTGTTCATATTGTCATTA
66 ACACCTAGCATTCAAAGATCAAAGCATTTTATATTTTTCAAGAGCTTTTCTTCATATTGTCATTA
1575647 TTTTTCAAGCTCTTTGTATTTTGAGTTCGAGCTTAAATTTCCACAAACACAAGCCTAGTTAGAGG
131 TTTTTCAAGCTCTTTGTATTTTGAGTTCGAGCTTAAATTTCCACAAACACAAGCCTAGTTAGAGG
1575712 CAAACTTTGTTTGTAGTAAATCCTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATTTCT
196 CAAACTTTGTTTGTAGTAAATCCTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATTTCT
1575777 TTGGAACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAAGATAC
261 TTGGAACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAAGATAC
1575842 GAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTC
326 GAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTC
1575907 GACAAG
391 GACAAG
1575913 GAAGCCTATAAATAAGAGCTTCCAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAA
1 GAAGCCTATAAATAAGAGCTTCCAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAA
1575978 ACACCTAGCATTCAAAGATCAAAGCATTTTATATTTTTCAAGAGCTTTTCTTCATATTGTCATTA
66 ACACCTAGCATTCAAAGATCAAAGCATTTTATATTTTTCAAGAGCTTTTCTTCATATTGTCATTA
1576043 TTTTTCAAGCTCTTTGTATTTTGAGTTCGAGCTTAAATTTCCACAAACACAAGCCTAGTTAGAGG
131 TTTTTCAAGCTCTTTGTATTTTGAGTTCGAGCTTAAATTTCCACAAACACAAGCCTAGTTAGAGG
1576108 CAAACTTTGTTTGTAGTAAATCCTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATTTCT
196 CAAACTTTGTTTGTAGTAAATCCTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATTTCT
1576173 TTGGAACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAAGATAC
261 TTGGAACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAAGATAC
1576238 GAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTC
326 GAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTC
1576303 GACAAG
391 GACAAG
1576309 GAAG
1 GAAG
1576313 TGTCGAGGAG
Statistics
Matches: 399, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
396 399 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (396 bp):
GAAGCCTATAAATAAGAGCTTCCAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAA
ACACCTAGCATTCAAAGATCAAAGCATTTTATATTTTTCAAGAGCTTTTCTTCATATTGTCATTA
TTTTTCAAGCTCTTTGTATTTTGAGTTCGAGCTTAAATTTCCACAAACACAAGCCTAGTTAGAGG
CAAACTTTGTTTGTAGTAAATCCTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATTTCT
TTGGAACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAAGATAC
GAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTC
GACAAG
Found at i:1577973 original size:21 final size:21
Alignment explanation
Indices: 1577940--1577984 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1577930 TTGCAAGTTG
*
1577940 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1577962 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1577982 AAA
1 AAA
1577985 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1579807 original size:15 final size:15
Alignment explanation
Indices: 1579787--1579817 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1579777 TAAAAATGTC
*
1579787 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1579802 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1579817 C
1 C
1579818 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1581913 original size:13 final size:13
Alignment explanation
Indices: 1581895--1581920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1581885 ACATTTTTCT
1581895 TTGTATCGATACA
1 TTGTATCGATACA
1581908 TTGTATCGATACA
1 TTGTATCGATACA
1581921 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1584737 original size:13 final size:13
Alignment explanation
Indices: 1584719--1584743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1584709 CATAAAATGT
1584719 TGTATCGATACAA
1 TGTATCGATACAA
1584732 TGTATCGATACA
1 TGTATCGATACA
1584744 TATTTTTTTG
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:1584741 original size:33 final size:33
Alignment explanation
Indices: 1584699--1584767 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1584689 TTCAACGATT
1584699 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1584732 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1584765 TGT
1 TGT
1584768 TAGCTACTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1584827 original size:13 final size:13
Alignment explanation
Indices: 1584809--1584833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1584799 ATTACTCACA
1584809 TGTATCGATACAT
1 TGTATCGATACAT
1584822 TGTATCGATACA
1 TGTATCGATACA
1584834 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1584970 original size:52 final size:52
Alignment explanation
Indices: 1584842--1584962 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1584832 CACTGATCTT
*
1584842 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1584894 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1584946 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1584963 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1588213 original size:21 final size:21
Alignment explanation
Indices: 1588188--1588230 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1588178 CATGTCAGGA
1588188 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1588209 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1588230 G
1 G
1588231 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:1593253 original size:31 final size:31
Alignment explanation
Indices: 1593189--1593812 Score: 284
Period size: 33 Copynumber: 18.3 Consensus size: 31
1593179 ATACCTTTTT
* * * *
1593189 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGCCCACAACTCAGTGGC-ATTTTTTCTTC
* *
1593220 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGCCCACAACTCAGTGGCATTTTTTCTTC
* * *
1593251 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGCCCACAAC-TCAGTGGCA-TTTTTTCTTC
*
1593283 AAAGCCCACAACTCCGTGGCACCTTCTTCTT-TTC
1 AAAGCCCACAACTCAGTGGCA--TT-TT-TTCTTC
* * *
1593317 AAAGCCGACAACTCCGTGGCACTTTTTTCATCTT
1 AAAGCCCACAACTCAGTGGCA-TTTTTTC-T-TC
* * *
1593351 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGG--CA-TTTTT-TCTTC
*
1593386 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCA-T-TTTTT--C--TTC
* * *
1593423 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCAGTGGCA-TTTTTTC-TTC
* * *
1593456 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGG--CA-TTTTT-TCTTC
*
1593491 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCA-T-TTTTT--C--TTC
* * * *
1593528 AAAGCCCACAACCCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGGCA--TTTTT-TCTTC
*
1593562 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCA-T-TTTTT--C--TTC
* * *
1593599 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCAGTGGCA-T-TTTTTCTTC
*
1593632 AAAGCCCACAACT-ACGTGGCACTCTTTTCCTTC
1 AAAGCCCACAACTCA-GTGGCA-T-TTTTTCTTC
* * *
1593665 TAAGCCCACAACTCTGTGGTACTCTTTTTCCTTC
1 AAAGCCCACAACTCAGTGGCA-T-TTTTT-CTTC
* * *
1593699 TAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 AAAGCCCACAACTCAGTGGCA-TTTTTTC-TTC
* *
1593732 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCAGTGGCA-T-TTTTT--CTTC
* * *
1593767 TAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCC
1 AAAGCCCACAACTCAGTGGCA--TTTTTT-CTT--C
1593803 AAAGCCCACA
1 AAAGCCCACA
1593813 CAAGTCGGTG
Statistics
Matches: 499, Mismatches: 51, Indels: 81
0.79 0.08 0.13
Matches are distributed among these distances:
30 6 0.01
31 42 0.08
32 30 0.06
33 125 0.25
34 110 0.22
35 78 0.16
36 26 0.05
37 79 0.16
38 3 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (31 bp):
AAAGCCCACAACTCAGTGGCATTTTTTCTTC
Found at i:1593328 original size:34 final size:35
Alignment explanation
Indices: 1593213--1593812 Score: 670
Period size: 34 Copynumber: 17.5 Consensus size: 35
1593203 AGTGGCAATC
* * * *
1593213 TCTTCTCAAAGTCCACGACTCAGTGGCA-T-TTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
1593246 TC--TTCAAAGCCCACAACTTCGTGGCAC-C-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593277 TCCTTT-AAAGCCCACAACTCCGTGGCAC-CTTCT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
1593310 TCTTTTCAAAGCCGACAACTCCGTGGCACT-TTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* * *
1593344 TCATCTT-AAAGCCCACAACTCTGTGGCACACTTTT
1 TC-TTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
1593379 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
1593414 TCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593450 TCTTTT-AAAGCCCACAACTCTGTGGCACACTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593484 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
1593519 TCCCTTTTCAAAGCCCACAACCCCGTGGCAC-CTTTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593555 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
1593590 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593626 TCCTTT-AAAGCCCACAACTACGTGGCACTC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* * * *
1593659 TC-CTTCTAAGCCCACAACTCTGTGGTACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1593693 TC-CTTCTAAGCCCACAACTCCGTGGCACT-TTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
1593726 TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
1593760 TCCCTTTT--AAGTCCACAACTCCGTGGCA-TCTTTTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACTC-TTTT
**
1593795 TCCTTCCCAAAGCCCACA
1 T-CTTTTCAAAGCCCACA
1593813 CAAGTCGGTG
Statistics
Matches: 496, Mismatches: 43, Indels: 53
0.84 0.07 0.09
Matches are distributed among these distances:
31 24 0.05
32 24 0.05
33 108 0.22
34 137 0.28
35 94 0.19
36 29 0.06
37 80 0.16
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (35 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:1593486 original size:105 final size:104
Alignment explanation
Indices: 1593218--1593787 Score: 715
Period size: 105 Copynumber: 5.5 Consensus size: 104
1593208 CAATCTCTTC
* * * * *
1593218 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTCAAAGCCCACAACT-TCGTGGCAC-C-TTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCT-GTGGCACACTTTTT
* *
1593278 C-CTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
1593315 TCAAAGCCGACAACTCCGTGGCACTTTTTTCATCTTAAAGCCCACAACTCTGTGGCACACTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACACTTTTT
1593380 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTT
1593421 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTC
*
1593486 TTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
66 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTT
* *
1593526 TCAAAGCCCACAACCCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACACTTTTT
*
1593591 CCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTTTCC-TT
65 --CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * * *
1593631 T-AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCTGTGGTACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTT
* *
1593694 CCTTCT-AAGCCCACAACTCCGTGGCACT-TTTTT-CTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* *
1593731 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACTCTGTGGCA
1593788 TCTTTTTTCC
Statistics
Matches: 425, Mismatches: 30, Indels: 31
0.87 0.06 0.06
Matches are distributed among these distances:
97 19 0.04
98 7 0.02
99 1 0.00
100 77 0.18
101 5 0.01
102 26 0.06
103 52 0.12
104 28 0.07
105 111 0.26
106 67 0.16
107 4 0.01
108 28 0.07
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (104 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTC
TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
Found at i:1593984 original size:49 final size:49
Alignment explanation
Indices: 1593866--1594482 Score: 817
Period size: 49 Copynumber: 12.7 Consensus size: 49
1593856 GCAACCCCTC
* * *
1593866 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
1593918 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1593967 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1594016 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
1594068 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1594117 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1594166 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1594215 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1594264 GAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1594307 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1594356 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1594399 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
*
1594451 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
1594483 GTTGACATCC
Statistics
Matches: 502, Mismatches: 45, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
43 76 0.15
45 2 0.00
47 1 0.00
49 303 0.60
50 5 0.01
51 2 0.00
52 113 0.23
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1594047 original size:150 final size:149
Alignment explanation
Indices: 1593866--1594481 Score: 850
Period size: 150 Copynumber: 4.2 Consensus size: 149
1593856 GCAACCCCTC
*
1593866 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCCAATGTA
* * *
1593931 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1593996 CACATTGGCACCTTCATCTT
130 CACATTGGCACCTTCATCTT
1594016 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCCAATGTA
* *
1594081 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* *
1594146 CATATTGGCATCTTCATCTT
130 CACATTGGCACCTTCATCTT
* * * * *
1594166 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TTCATCTTTAAGTCCAATATCG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
* * * * * *
1594229 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTAGCTGGCCTTGACTCAAC
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
1594294 ACATTGGCA----C--CTT
131 ACATTGGCACCTTCATCTT
* *
1594307 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTTCATCTTTAAGTCCAATGTAG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
1594370 CTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
* *
1594429 ATATTGGCACATTTTCCATCTT
131 ACATTGGCAC--CTT-CATCTT
* *
1594451 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
1594482 CGTTGACATC
Statistics
Matches: 420, Mismatches: 35, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
135 37 0.09
137 1 0.00
141 82 0.20
142 1 0.00
143 1 0.00
144 31 0.07
147 83 0.20
148 2 0.00
150 182 0.43
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (149 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
ACATTGGCACCTTCATCTT
Found at i:1595443 original size:13 final size:13
Alignment explanation
Indices: 1595425--1595449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1595415 CATAAAATGT
1595425 TGTATCGATACAA
1 TGTATCGATACAA
1595438 TGTATCGATACA
1 TGTATCGATACA
1595450 TATTTTTTTG
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:1595447 original size:33 final size:33
Alignment explanation
Indices: 1595405--1595473 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1595395 TTCAACGATT
1595405 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1595438 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1595471 TGT
1 TGT
1595474 TAGCTACTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1595533 original size:13 final size:13
Alignment explanation
Indices: 1595515--1595539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1595505 ATTACTCACA
1595515 TGTATCGATACAT
1 TGTATCGATACAT
1595528 TGTATCGATACA
1 TGTATCGATACA
1595540 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1595676 original size:52 final size:52
Alignment explanation
Indices: 1595548--1595668 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1595538 CACTGATCTT
*
1595548 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1595600 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1595652 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1595669 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1598828 original size:13 final size:13
Alignment explanation
Indices: 1598810--1598835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1598800 TACAGCAAGT
1598810 ATGTATCGATACA
1 ATGTATCGATACA
1598823 ATGTATCGATACA
1 ATGTATCGATACA
1598836 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1603679 original size:22 final size:20
Alignment explanation
Indices: 1603628--1603702 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
1603618 AAAAACCCAG
1603628 ATGTATCGATACAATGATAA
1 ATGTATCGATACAATGATAA
*
1603648 ATTTATCGATACAATTTGA-AA
1 ATGTATCGATACAA--TGATAA
* * * *
1603669 CATGTATCGATATATTTATTA
1 -ATGTATCGATACAATGATAA
1603690 ATGTATCGATACA
1 ATGTATCGATACA
1603703 TTTCCTTGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 27 0.61
21 3 0.07
22 14 0.32
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGATAA
Found at i:1603755 original size:19 final size:20
Alignment explanation
Indices: 1603731--1603782 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
1603721 GGGTAGTTTT
1603731 TATCGATACAAAACT-TATG
1 TATCGATACAAAACTGTATG
** *
1603750 TATCGATACATTTACTGTTTG
1 TATCGATACA-AAACTGTATG
1603771 TATCGATACAAA
1 TATCGATACAAA
1603783 TTACAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 10 0.38
20 3 0.12
21 13 0.50
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCGATACAAAACTGTATG
Done.