Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 62
Found at i:1746382 original size:29 final size:29
Alignment explanation
Indices: 1746350--1746413 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1746340 AAAAATTCGG
1746350 TTAATTCGGTTC-GATTAATAATTTTCAAA
1 TTAATTCGGTTCAG-TTAATAATTTTCAAA
*
1746379 TTAATTTGGTTCAGTTAATAATTTTCAAA
1 TTAATTCGGTTCAGTTAATAATTTTCAAA
*
1746408 TAAATT
1 TTAATT
1746414 TTAGATCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (29 bp):
TTAATTCGGTTCAGTTAATAATTTTCAAA
Found at i:1746501 original size:140 final size:140
Alignment explanation
Indices: 1746338--1746671 Score: 463
Period size: 140 Copynumber: 2.4 Consensus size: 140
1746328 ATGGTTAAAG
1746338 AAAAAAATTCGGTTAATTCGGTTCGATTAATAATTTTCAAATTAATTTGGTTCAGTTAATAATTT
1 AAAAAAATT-GGTTAATTCGGTTCGATTAATAATTTTCAAATTAATTTGGTTCAGTTAATAATTT
* * *
1746403 TCAAATAAATTTTAGATCTATTAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTC-GA
65 TCAAATAAATTTTAGATCGATTAACCGAACCAAATTAACCGAATTTTTGCTTCAATTAATTCAG-
*
1746467 TTAATAATTTTT
129 TTAATAATTTTC
* * * * *
1746479 AAAAAAATTAGTTAATTTGGTTCGATTAATAATTTTTAAATTAATTCGGTTCGGTTAATAATTTT
1 AAAAAAATTGGTTAATTCGGTTCGATTAATAATTTTCAAATTAATTTGGTTCAGTTAATAATTTT
* * * * *
1746544 TAAATAAATTTTGGTTCGGTTAACCGAACCAAATTAACCGAATTTTTGTTTCAATTAATTCAGTT
66 CAAATAAATTTTAGATCGATTAACCGAACCAAATTAACCGAATTTTTGCTTCAATTAATTCAGTT
1746609 AATAATTTTC
131 AATAATTTTC
* * * * *
1746619 AAAAAAATCGGTTAATTCGGTTTGGTTAATAATTTTGAAATAAATTTTGGTTC
1 AAAAAAATTGGTTAATTCGGTTCGATTAATAATTTTCAAATTAA-TTTGGTTC
1746672 GATTAACCGA
Statistics
Matches: 169, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
140 152 0.90
141 17 0.10
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (140 bp):
AAAAAAATTGGTTAATTCGGTTCGATTAATAATTTTCAAATTAATTTGGTTCAGTTAATAATTTT
CAAATAAATTTTAGATCGATTAACCGAACCAAATTAACCGAATTTTTGCTTCAATTAATTCAGTT
AATAATTTTC
Found at i:1746524 original size:29 final size:29
Alignment explanation
Indices: 1746490--1746566 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
1746480 AAAAAATTAG
*
1746490 TTAATTTGGTTCGATTAATAATTTTTAAA
1 TTAATTTGGTTCGGTTAATAATTTTTAAA
*
1746519 TTAATTCGGTTCGGTTAATAATTTTTAAA
1 TTAATTTGGTTCGGTTAATAATTTTTAAA
*
1746548 TAAATTTTGGTTCGGTTAA
1 TTAA-TTTGGTTCGGTTAA
1746567 CCGAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 30 0.70
30 13 0.30
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.49
Consensus pattern (29 bp):
TTAATTTGGTTCGGTTAATAATTTTTAAA
Found at i:1746786 original size:110 final size:111
Alignment explanation
Indices: 1746519--1746811 Score: 444
Period size: 111 Copynumber: 2.6 Consensus size: 111
1746509 AATTTTTAAA
* *
1746519 TTAATTCGGTTCGGTTAATAATTTTTAAATAAATTTTGGTTCGGTTAACCGAACCAAATTAACCG
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAACCAAATTAACCG
* * * *
1746584 AATTTTTGTTTCAATTAATTCAGTTAATAATTTTCAAAAAAATCGG
66 AATTTTTGATTCAATTAATTCACTTAATAATTTTAAAAAAAATAGG
* * *
1746630 TTAATTCGGTTTGGTTAATAATTTTGAAATAAATTTTGGTTCGATTAACCGAACCAAATTAATCG
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAACCAAATTAACCG
*
1746695 AATTTTTGATTCAATTAATTCACTTGATAA-TTTAAAAAAAATAGG
66 AATTTTTGATTCAATTAATTCACTTAATAATTTTAAAAAAAATAGG
* * * **
1746740 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTTGATTAACTGAACCGAATTAACTT
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAACCAAATTAACCG
1746805 AATTTTT
66 AATTTTT
1746812 TTCTTTAACT
Statistics
Matches: 165, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 77 0.47
111 88 0.53
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (111 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAACCAAATTAACCG
AATTTTTGATTCAATTAATTCACTTAATAATTTTAAAAAAAATAGG
Found at i:1747366 original size:30 final size:29
Alignment explanation
Indices: 1747326--1747390 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
1747316 TTAACGATCA
*
1747326 GTGGTTTGATTGA-ATCAATTAAATAGTTAG
1 GTGGTCTGATTGATA-CAATTAAA-AGTTAG
* *
1747356 GTGGTCTGATTGATACAATTGAAAGTTCG
1 GTGGTCTGATTGATACAATTAAAAGTTAG
1747385 GTGGTC
1 GTGGTC
1747391 ACATTGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.35
30 19 0.61
31 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.37
Consensus pattern (29 bp):
GTGGTCTGATTGATACAATTAAAAGTTAG
Found at i:1747396 original size:29 final size:30
Alignment explanation
Indices: 1747341--1747398 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
1747331 TTGATTGAAT
**
1747341 CAATTAAATAGTTAGGTGGTCTGATTGATA
1 CAATTAAATAGTTAGGTGGTCACATTGATA
* *
1747371 CAATTGAA-AGTTCGGTGGTCACATTGAT
1 CAATTAAATAGTTAGGTGGTCACATTGAT
1747399 TTTTGACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.34
Consensus pattern (30 bp):
CAATTAAATAGTTAGGTGGTCACATTGATA
Found at i:1747420 original size:15 final size:15
Alignment explanation
Indices: 1747400--1747431 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1747390 CACATTGATT
1747400 TTTGACCATAGTTTA
1 TTTGACCATAGTTTA
1747415 TTTGACCATAGTTTA
1 TTTGACCATAGTTTA
1747430 TT
1 TT
1747432 GGTCTCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
TTTGACCATAGTTTA
Found at i:1766385 original size:31 final size:31
Alignment explanation
Indices: 1766301--1766424 Score: 112
Period size: 31 Copynumber: 4.0 Consensus size: 31
1766291 GTCGAGGGTT
1766301 TACCTATGTTCTACGGAACATATGGACA-TAA
1 TACCTATGTTCTACGGAACATATGGACAGT-A
1766332 TTACCTATGCCTT-T-C-GAGACATATGGACAGTA
1 -TACCTATG--TTCTACGGA-ACATATGGACAGTA
* * *
1766364 TACCTATGTTCTAAGGAACATATGGATAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * * *
1766395 TACCTAGGTTCTTCGGGACCTATGGACAGT
1 TACCTATGTTCTACGGAACATATGGACAGT
1766425 TGCTGAGGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
29 2 0.03
30 1 0.01
31 46 0.61
32 23 0.30
33 2 0.03
34 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:1772227 original size:12 final size:12
Alignment explanation
Indices: 1772207--1772246 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1772197 GTATTACAAC
*
1772207 GACCACGACCAT
1 GACCTCGACCAT
*
1772219 GACCTCGACCTT
1 GACCTCGACCAT
*
1772231 GACCTCGACCAC
1 GACCTCGACCAT
1772243 GACC
1 GACC
1772247 ACAAGCCGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.45, G:0.17, T:0.12
Consensus pattern (12 bp):
GACCTCGACCAT
Found at i:1773024 original size:21 final size:21
Alignment explanation
Indices: 1772998--1773042 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1772988 GATTTCTGGG
* *
1772998 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1773019 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1773040 CAA
1 CAA
1773043 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1773903 original size:31 final size:31
Alignment explanation
Indices: 1773840--1773961 Score: 171
Period size: 31 Copynumber: 4.0 Consensus size: 31
1773830 AAGAGTCGGG
1773840 GTTTACCTATGTTCTTCGGGACATA--GACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1773869 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1773900 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1773931 G-ATACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1773961 G
1 G
1773962 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
29 25 0.29
30 24 0.28
31 36 0.42
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1777123 original size:21 final size:21
Alignment explanation
Indices: 1777097--1777141 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1777087 GATTTCTGGG
* *
1777097 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1777118 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1777139 CAA
1 CAA
1777142 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1778000 original size:29 final size:31
Alignment explanation
Indices: 1777940--1778048 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
1777930 AGAGTCGAGG
*
1777940 GTTTACCTATGTTCTTCGGGACATATGTACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1777971 GTTTACCTATGTTC-T-GGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1778000 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1778031 GATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
1778049 AATCTATGGA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
29 26 0.37
30 2 0.03
31 43 0.61
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1781487 original size:53 final size:51
Alignment explanation
Indices: 1781375--1781499 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 51
1781365 GAGATATGAG
* * * *
1781375 TGGTGAAAGGAGAAGGGAGAAGGATCGAGAGAGTAGGGAGAGAGAACTAGA
1 TGGTGAAAGGAGAAGGGAGAAAGAGCGAGAGAGCAGGGACAGAGAACTAGA
1781426 TAGG-GAAAGGAGAAGGGA-AAAGAGCGAGGCAGGAGCAGGGACA-AGAATCTAGA
1 T-GGTGAAAGGAGAAGGGAGAAAGAGCGA-G-A-GAGCAGGGACAGAGAA-CTAGA
1781479 TGGTGAAAGGAGAAGGGAGAA
1 TGGTGAAAGGAGAAGGGAGAA
1781500 GGTGCATGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
50 7 0.11
51 16 0.25
52 9 0.14
53 29 0.46
54 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.44, T:0.08
Consensus pattern (51 bp):
TGGTGAAAGGAGAAGGGAGAAAGAGCGAGAGAGCAGGGACAGAGAACTAGA
Found at i:1787405 original size:20 final size:20
Alignment explanation
Indices: 1787380--1787423 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
1787370 TTTATTTTTA
1787380 TTATTAAA-ATTTATCTATAT
1 TTATTAAATATTTATCTAT-T
1787400 TTATTAAATTATTTATCTATT
1 TTATTAAA-TATTTATCTATT
1787421 TTA
1 TTA
1787424 AATTGTGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 4 0.18
22 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTAAATATTTATCTATT
Found at i:1788606 original size:175 final size:179
Alignment explanation
Indices: 1788380--1788738 Score: 649
Period size: 175 Copynumber: 2.0 Consensus size: 179
1788370 ATTTTTTAGA
1788380 AAAACGTCCCAAATGTCAGCTATTTCTTTAAAGTAAATACGTCCAAGATTTTTTATATTCTAAGA
1 AAAACGTCCCAAATGTCAGCTATTTCTTTAAAGTAAATACGTCCAAGATTTTTTATATTCTAAGA
1788445 GCTTTATAG-TCTCTTTTCAATTTAATAAATTTTAGTA-TTTGTAATAACAAAGTATAACA-ACG
66 GCTTTATAGTTCTCTTTTCAATTTAATAAATTTTAGTATTTTGTAATAACAAAGTATAACACACG
1788507 TTTCCAAAATATGAATTTTG-AACTTTGAGATTTGTAAATGGGG-TATT
131 TTTCCAAAATATGAATTTTGAAACTTTGAGATTTGTAAATGGGGTTATT
1788554 AAAACGTCCCAAAATGTCAGCTATTT-TTTAAAGTAAATACTGTCCAAGATTTTTTATATTCTAA
1 AAAACGTCCC-AAATGTCAGCTATTTCTTTAAAGTAAATAC-GTCCAAGATTTTTTATATTCTAA
1788618 GAGCTTTATAGTTCTCTTTTCAATTTAATAAATTTTAGTATTTTGTAATAACAAAGTATAACACA
64 GAGCTTTATAGTTCTCTTTTCAATTTAATAAATTTTAGTATTTTGTAATAACAAAGTATAACACA
*
1788683 CGTTTCCAACATATGAATTTTGAAACTTTGAGATTTGTAAATGGGGTTATT
129 CGTTTCCAAAATATGAATTTTGAAACTTTGAGATTTGTAAATGGGGTTATT
1788734 AAAAC
1 AAAAC
1788739 ACATTGGGCA
Statistics
Matches: 177, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
174 24 0.14
175 49 0.28
176 28 0.16
177 22 0.12
178 22 0.12
179 23 0.13
180 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (179 bp):
AAAACGTCCCAAATGTCAGCTATTTCTTTAAAGTAAATACGTCCAAGATTTTTTATATTCTAAGA
GCTTTATAGTTCTCTTTTCAATTTAATAAATTTTAGTATTTTGTAATAACAAAGTATAACACACG
TTTCCAAAATATGAATTTTGAAACTTTGAGATTTGTAAATGGGGTTATT
Found at i:1797248 original size:4 final size:4
Alignment explanation
Indices: 1797239--1797269 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1797229 CATACCATGG
1797239 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1797270 GGAGAGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1798547 original size:26 final size:26
Alignment explanation
Indices: 1798511--1798563 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1798501 GAAACAGAAC
*
1798511 ACTGCAATGACAACTCAAGGTGAGTT
1 ACTGCAATGACAACTCAAGATGAGTT
1798537 ACTGCAATGACAACTCAAGATGAGTT
1 ACTGCAATGACAACTCAAGATGAGTT
1798563 A
1 A
1798564 ACATCATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
ACTGCAATGACAACTCAAGATGAGTT
Found at i:1803878 original size:16 final size:16
Alignment explanation
Indices: 1803846--1803886 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1803836 GTTTACTTCA
*
1803846 GAATGATT-AAGTGCT
1 GAATGATTCAAATGCT
1803861 GAATGATTCAAATGCT
1 GAATGATTCAAATGCT
1803877 GAATGATTCA
1 GAATGATTCA
1803887 GAGGCTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAATGCT
Found at i:1807049 original size:5 final size:5
Alignment explanation
Indices: 1806993--1807048 Score: 94
Period size: 5 Copynumber: 11.2 Consensus size: 5
1806983 AAAAAATGAG
*
1806993 ATACA ATACA ATACA ATATA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
*
1807043 AAACA A
1 ATACA A
1807049 AGCAACAGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.20
Consensus pattern (5 bp):
ATACA
Found at i:1807529 original size:22 final size:22
Alignment explanation
Indices: 1807504--1807546 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
1807494 TTCTCGGTGG
1807504 AATGCAAC-CTAGCCATTTTATA
1 AATGCAACTC-AGCCATTTTATA
*
1807526 AATGTAACTGCAGCCATTTTA
1 AATGCAACT-CAGCCATTTTA
1807547 GTCTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 10 0.56
24 1 0.06
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
AATGCAACTCAGCCATTTTATA
Found at i:1809029 original size:21 final size:20
Alignment explanation
Indices: 1808943--1809100 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
1808933 AAATGACCAA
**
1808943 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1808962 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1808982 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1809002 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1809023 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1809044 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
1809064 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
1809086 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1809101 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1809091 original size:20 final size:20
Alignment explanation
Indices: 1809003--1809119 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
1808993 ATCAGTTTCC
* *
1809003 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
1809023 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
1809043 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
1809064 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
1809086 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
1809105 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
1809120 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:1809129 original size:20 final size:20
Alignment explanation
Indices: 1809087--1809336 Score: 256
Period size: 20 Copynumber: 12.5 Consensus size: 20
1809077 GCGAATATTA
* *
1809087 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1809107 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1809127 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1809147 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1809167 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1809187 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1809207 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1809227 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1809247 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1809267 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1809287 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1809307 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1809327 AAATCACAAC
1 AAATCGCAAC
1809337 ACTGAAATTT
Statistics
Matches: 194, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 191 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1810047 original size:24 final size:24
Alignment explanation
Indices: 1810008--1810054 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1809998 AAATTTGGTC
1810008 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1810032 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1810055 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1810244 original size:12 final size:12
Alignment explanation
Indices: 1810227--1810251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1810217 ATATAATCCT
1810227 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1810239 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1810251 G
1 G
1810252 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1810468 original size:24 final size:23
Alignment explanation
Indices: 1810429--1810474 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1810419 AAATTTGGTC
1810429 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
1810453 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
1810475 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:1810664 original size:12 final size:12
Alignment explanation
Indices: 1810647--1810671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1810637 ATATAATCCT
1810647 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1810659 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1810671 G
1 G
1810672 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1813001 original size:33 final size:34
Alignment explanation
Indices: 1812950--1813180 Score: 235
Period size: 33 Copynumber: 6.7 Consensus size: 34
1812940 CGGAAATTAC
*
1812950 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
1812983 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
* *
1813017 AATCGCAACGA-GAGAATCGCAATGCAAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
1813050 AATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCG-C
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
1813089 AAT-GCGAA--ATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACGATGAAAATCGCAATGCGAAATGAA
*
1813121 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
1813154 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--CG--ATGAAAATCGCAA
1813181 CGAGAGAATC
Statistics
Matches: 165, Mismatches: 13, Indels: 35
0.77 0.06 0.16
Matches are distributed among these distances:
31 1 0.01
32 9 0.05
33 84 0.51
34 30 0.18
35 5 0.03
37 2 0.01
38 25 0.15
39 8 0.05
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:1813053 original size:19 final size:19
Alignment explanation
Indices: 1812964--1813180 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
1812954 GCAACGAGAG
1812964 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1812983 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1812997 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1813017 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1813031 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
1813050 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1813069 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
1813083 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1813102 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1813121 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1813135 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1813154 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1813173 AATCGCAA
1 AATCGCAA
1813181 CGAGAGAATC
Statistics
Matches: 167, Mismatches: 10, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 43 0.26
15 3 0.02
16 5 0.03
17 5 0.03
18 4 0.02
19 94 0.56
20 13 0.08
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1813191 original size:33 final size:33
Alignment explanation
Indices: 1813050--1813202 Score: 150
Period size: 33 Copynumber: 4.5 Consensus size: 33
1813040 GCAAAATGAA
*
1813050 AATCGCAATGCGAAATGAAAATCGCAATGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
1813083 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
1813115 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
1813154 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1813187 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1813203 TATAAACGCA
Statistics
Matches: 99, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 57 0.58
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:1813218 original size:52 final size:52
Alignment explanation
Indices: 1812992--1813202 Score: 395
Period size: 52 Copynumber: 4.0 Consensus size: 52
1812982 AAATCCCAAC
*
1812992 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
1813045 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1813097 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1813149 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1813201 AT
1 AT
1813203 TATAAACGCA
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 139 0.90
53 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:1813321 original size:52 final size:53
Alignment explanation
Indices: 1813209--1813324 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
1813199 AAATTATAAA
1813209 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1813262 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1813314 CGCATTGCGAT
1 CGCATTGCGAT
1813325 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:1813332 original size:19 final size:19
Alignment explanation
Indices: 1813227--1813324 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1813217 GATTCTCTCG
1813227 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1813247 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1813266 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1813280 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1813299 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1813318 TTGCGAT
1 TTGCGAT
1813325 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1813450 original size:14 final size:14
Alignment explanation
Indices: 1813431--1813467 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1813421 CATCAATTAC
1813431 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1813445 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1813459 ACAAATCAA
1 ACAAATCAA
1813468 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1814718 original size:19 final size:18
Alignment explanation
Indices: 1814670--1814725 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
1814660 ACCGATCAAT
1814670 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
1814688 -CGAAA-G--AATCGCAA
1 GCGAAATGAAAATCGCAA
1814702 CGCGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
1814721 TGCGA
1 -GCGA
1814726 TTTTGGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 8 0.25
16 6 0.19
17 6 0.19
19 12 0.38
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (18 bp):
GCGAAATGAAAATCGCAA
Found at i:1814743 original size:19 final size:19
Alignment explanation
Indices: 1814721--1814779 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
1814711 AAAATCGCAA
1814721 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1814740 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1814754 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1814773 TGCGATT
1 TGCGATT
1814780 CTGTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.55
ACGTcount: A:0.07, C:0.17, G:0.31, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1814763 original size:33 final size:33
Alignment explanation
Indices: 1814721--1814810 Score: 146
Period size: 33 Copynumber: 2.7 Consensus size: 33
1814711 AAAATCGCAA
1814721 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1814754 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1814787 TGCGATTTTCATTTCGCGTTGCGA
1 TGCGATTTTGGTTTCGCGTTGCGA
1814811 AAGTAAACTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.44
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1814808 original size:19 final size:18
Alignment explanation
Indices: 1814751--1814810 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
1814741 GCGATCTTGT
*
1814751 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-CTTTCG
*
1814770 CGTTGCGA--TTCTGT--
1 CGTTGCGATTTTCTTTCG
1814784 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTC-TTTCG
1814803 CGTTGCGA
1 CGTTGCGA
1814811 AAGTAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 4 0.12
19 16 0.48
ACGTcount: A:0.08, C:0.20, G:0.28, T:0.43
Consensus pattern (18 bp):
CGTTGCGATTTTCTTTCG
Found at i:1814994 original size:93 final size:93
Alignment explanation
Indices: 1814858--1815418 Score: 1081
Period size: 93 Copynumber: 6.1 Consensus size: 93
1814848 ATGGATTGCA
1814858 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1814922 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1814950 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1815015 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
1815043 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1815108 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1815136 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1815200 TAGCATAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1815228 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1815293 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1815321 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1815386 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1815414 TTACT
1 TTACT
1815419 AAGCAATCTA
Statistics
Matches: 462, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 94 0.20
93 368 0.80
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1815264 original size:185 final size:186
Alignment explanation
Indices: 1814858--1815418 Score: 1081
Period size: 185 Copynumber: 3.0 Consensus size: 186
1814848 ATGGATTGCA
1814858 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1814922 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1814987 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
1815043 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1815108 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
1815172 ATTTCACAGTGTTAAAGAATACACAGTTTAGCATAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1815228 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1815293 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
1815358 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1815414 TTACT
1 TTACT
1815419 AAGCAATCTA
Statistics
Matches: 369, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
185 187 0.51
186 182 0.49
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1815374 original size:278 final size:279
Alignment explanation
Indices: 1814858--1815418 Score: 1081
Period size: 278 Copynumber: 2.0 Consensus size: 279
1814848 ATGGATTGCA
1814858 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1814922 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1814987 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
1815052 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTTTAGCAGAAT
1815117 TGGCAGCAACCGAACAAAT
261 TGGCAGCAACCGAACAAAT
1815136 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1815200 TAGCATAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1815265 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
*
1815330 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTTTAGCAGAAT
*
1815395 TGGCAGCAACCGAATAAAT
261 TGGCAGCAACCGAACAAAT
1815414 TTACT
1 TTACT
1815419 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
278 265 0.95
279 14 0.05
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (279 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
ACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACACAGTTTAGCAGAAT
TGGCAGCAACCGAACAAAT
Found at i:1817125 original size:14 final size:14
Alignment explanation
Indices: 1817106--1817162 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1817096 TTGAAATGAA
1817106 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1817120 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1817139 AATCGTAACGAGAG
1 AATCGCAACGAGAG
1817153 AATCGCAACG
1 AATCGCAACG
1817163 CGAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1817138 original size:33 final size:33
Alignment explanation
Indices: 1817098--1817179 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
1817088 TCTTTTGGTT
1817098 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1817131 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1817164 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
1817180 TGCGATTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1817215 original size:14 final size:14
Alignment explanation
Indices: 1817196--1817252 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1817186 TTTGGTTTCG
1817196 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1817210 CGTTGCGATTTTCATTTCT
1 CGTTGCGA--TTC---TCT
*
1817229 TGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1817243 CGTTGCGATT
1 CGTTGCGATT
1817253 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1817234 original size:33 final size:35
Alignment explanation
Indices: 1817196--1817312 Score: 157
Period size: 33 Copynumber: 3.2 Consensus size: 35
1817186 TTTGGTTTCG
1817196 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCT-T
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCTCT
1817230 -GTTGCGATTCTCTCGTTGCGATTTTCATTTCTCT
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCTCT
*
1817264 CGTTGCGACAGTCATTCTCTCGTTGCGATTTTCATTTATCT
1 CGTT--G-C-G--ATTCTCTCGTTGCGATTTTCATTTCTCT
1817305 CGTTGCGA
1 CGTTGCGA
1817313 CTCTTCTGCA
Statistics
Matches: 74, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
33 32 0.43
34 1 0.01
35 4 0.05
37 2 0.03
38 2 0.03
39 2 0.03
41 31 0.42
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (35 bp):
CGTTGCGATTCTCTCGTTGCGATTTTCATTTCTCT
Found at i:1817263 original size:21 final size:21
Alignment explanation
Indices: 1817237--1817312 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1817227 CTTGTTGCGA
1817237 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1817258 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1817278 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1817299 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1817313 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1817293 original size:41 final size:41
Alignment explanation
Indices: 1817236--1817313 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1817226 TCTTGTTGCG
*
1817236 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1817277 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1817314 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1817434 original size:33 final size:33
Alignment explanation
Indices: 1817392--1817462 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1817382 AATACTAACT
*
1817392 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1817425 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1817458 TGAAA
1 TGAAA
1817463 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1817696 original size:22 final size:22
Alignment explanation
Indices: 1817644--1817698 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1817634 TGGTTGTGAG
**
1817644 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1817666 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1817688 GGATTTCTTCG
1 GGATTTCTTCG
1817699 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1817870 original size:20 final size:20
Alignment explanation
Indices: 1817845--1818038 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
1817835 CTTTAAATAT
1817845 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1817865 CGCGTTGCAATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1817887 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1817906 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1817926 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1817946 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1817966 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1817986 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1818006 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1818026 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1818039 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.88
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1818032 original size:60 final size:60
Alignment explanation
Indices: 1817845--1818038 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1817835 CTTTAAATAT
* **
1817845 CGCGTTGCGATTTACGGATACGCGTTGCAATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1817906 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1817966 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1818026 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1818039 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 84 0.76
61 27 0.24
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1818055 original size:21 final size:21
Alignment explanation
Indices: 1818025--1818142 Score: 73
Period size: 21 Copynumber: 5.7 Consensus size: 21
1818015 ATTTTCATAT
*
1818025 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1818046 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
* *
1818067 TCACATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
1818088 TCGCGTTGCGATTTTGGAAAC
1 TCGCATTGCGATTTTGGAAAA
**
1818109 T-G-ATTTGCGATTTTGG-GGA
1 TCGCA-TTGCGATTTTGGAAAA
*
1818128 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
1818143 TATTTCGCGT
Statistics
Matches: 71, Mismatches: 21, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.35
21 43 0.61
22 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1818512 original size:20 final size:20
Alignment explanation
Indices: 1818487--1818539 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1818477 GACCAATTAA
1818487 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
1818507 TTCGCAACTC-AGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
*
1818527 TTCGTAACGCGAA
1 TTCGCAACGCGAA
1818540 AGTCAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:1818632 original size:40 final size:40
Alignment explanation
Indices: 1818560--1818687 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
1818550 ACAATTCGAT
* * *
1818560 AGTCAAATTCGTAACGCGAATTTGT-AAA-TCGCAACACAGA
1 AGTCAAATTCGCAACGCG-A-TAGTAAAATTCGCAACGCAGA
1818600 AGTCAAATTCGCAACGCGATAGTAAAATTCGCAACGCA-A
1 AGTCAAATTCGCAACGCGATAGTAAAATTCGCAACGCAGA
*
1818639 TAGTAAAATTCGCAACGCGATAGTAAAATTCGCAACGC-GAA
1 -AGTCAAATTCGCAACGCGATAGTAAAATTCGCAACGCAG-A
1818680 AGTCAAAT
1 AGTCAAAT
1818688 GTTTTTACGC
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.04
39 5 0.06
40 69 0.88
41 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (40 bp):
AGTCAAATTCGCAACGCGATAGTAAAATTCGCAACGCAGA
Found at i:1818636 original size:60 final size:59
Alignment explanation
Indices: 1818539--1818687 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 59
1818529 CGTAACGCGA
* ** * *
1818539 AAGTCAAATTCACAATTCGATAGTCAAATTCGTAACGCGAATTTGT-AAA-TCGCAACACAG
1 AAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGC-AA-TAGTAAAATTCGCAACAC-G
* *
1818599 AAGTCAAATTCGCAACGCGATAGTAAAATTCGCAACGCAATAGTAAAATTCGCAACGCG
1 AAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAATAGTAAAATTCGCAACACG
* *
1818658 ATAGTAAAATTCGCAACGCGAAAGTCAAAT
1 A-AGTCAAATTCGCAACGCGATAGTCAAAT
1818688 GTTTTTACGC
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
58 3 0.04
59 7 0.09
60 66 0.87
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (59 bp):
AAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAATAGTAAAATTCGCAACACG
Found at i:1818687 original size:20 final size:20
Alignment explanation
Indices: 1818527--1818687 Score: 141
Period size: 20 Copynumber: 8.1 Consensus size: 20
1818517 AGTTTCCAAT
*
1818527 TTCGTAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
* ** *
1818547 TTCACAATTCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
* *
1818567 TTCGTAACGCGAATTTGT-AAA
1 TTCGCAACGCGAA--AGTCAAA
*
1818588 -TCGCAACAC-AGAAGTCAAA
1 TTCGCAACGCGA-AAGTCAAA
* *
1818607 TTCGCAACGCGATAGTAAAA
1 TTCGCAACGCGAAAGTCAAA
*
1818627 TTCGCAACGC-AATAGTAAAA
1 TTCGCAACGCGAA-AGTCAAA
* *
1818647 TTCGCAACGCGATAGTAAAA
1 TTCGCAACGCGAAAGTCAAA
1818667 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
1818687 T
1 T
1818688 GTTTTTACGC
Statistics
Matches: 112, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.02
19 5 0.04
20 98 0.88
21 5 0.04
22 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:1819091 original size:13 final size:13
Alignment explanation
Indices: 1819073--1819104 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1819063 AGTATTTGTC
1819073 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
1819086 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
1819099 TTTGTT
1 TTTGTT
1819105 GAAGTAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:1821384 original size:42 final size:42
Alignment explanation
Indices: 1821337--1821432 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
1821327 GATGCACCTA
* ** * * *
1821337 TCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTCCCACCGTGCAAGAGGCCCCTC
* *
1821379 TCATCA-TCGAAGAAGCCCCTCCCACCGTGCAAGAGGCCTCTG
1 TCATCATTC-AAGAAGCCCCTCCCACCGTGCAAGAGGCCCCTC
1821421 TCATCATTCAAG
1 TCATCATTCAAG
1821433 TGGTCCCGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.05
42 40 0.91
43 2 0.05
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTCCCACCGTGCAAGAGGCCCCTC
Found at i:1821802 original size:21 final size:21
Alignment explanation
Indices: 1821767--1821837 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
1821757 CCTATCATCA
**
1821767 TTCAAGAGGTGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
1821788 TTCAAGAGGCCCCT-CTCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * * *
1821808 ATCGAAGAAGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCTATCG
1821830 TTCAAGAG
1 TTCAAGAG
1821838 ACCCATGTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 31 0.82
22 3 0.08
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:1822121 original size:424 final size:424
Alignment explanation
Indices: 1821329--1822175 Score: 1457
Period size: 424 Copynumber: 2.0 Consensus size: 424
1821319 ATAAGCCCGA
1821329 TGCACCTATCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAAG
1 TGCACCTATCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAAG
* *
1821394 CCCCTCCCACCGTGCAAGAGGCCTCTGTCATCATTCAAGTGGTCCCGCCCGCGGTTCAAGAGCCT
66 CCCCTCCCACCGTGCAAGAGACCTCTGTCATCATTCAAGTGGTCCCGCCCGCCGTTCAAGAGCCT
* *
1821459 GATTCACATGGCGTCATATGTCGACATATTGATAAACCCCCTTCCGTGCCTGATATGATAGATGC
131 GATTCACATGGCGTCATATGTCAACATATTGATAAACCCCCTTCCGTGCCCGATATGATAGATGC
*
1821524 GAGTTGGGTTTCGTATGTGTTACCGGCCAGTACCATTCCTCAGGAGGAGAGGGAAACACTACCGG
196 GAGTTGGATTTCGTATGTGTTACCGGCCAGTACCATTCCTCAGGAGGAGAGGGAAACACTACCGG
1821589 AAACAATTACGGATAATACACTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGAGC
261 AAACAATTACGGATAATACACTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGAGC
* * * * *
1821654 AAGGGGTGTTATTTTGACCTATGCCAAATCGATGATGCATATCATTTGTTTATTGATCGGTCTTG
326 AAGGGGTGTTATTCTGACCTAAGCCAAATCGACGATACATATCATGTGTTTATTGATCGGTCTTG
*
1821719 GTGGGGTATTTTATTAGGGGTTGAAGATAATGGT
391 GTGGGATATTTTATTAGGGGTTGAAGATAATGGT
1821753 TGCACCTATCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAAG
1 TGCACCTATCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAAG
* *
1821818 CCCCTCCCACCGTTCAAGAGACC-CATGTCATCGTTCAAGTGGTCCCGCCCGCCGTTCAAGAGTC
66 CCCCTCCCACCGTGCAAGAGACCTC-TGTCATCATTCAAGTGGTCCCGCCCGCCGTTCAAGAG-C
* *
1821882 C-GATTCACATGGCGTCATATGTCAACATATTGATAAACCCCC-TCTCGTTCCCGATATGATGGA
129 CTGATTCACATGGCGTCATATGTCAACATATTGATAAACCCCCTTC-CGTGCCCGATATGATAGA
* * *
1821945 TGCGAGTTGGATTTCGTATGTGTTATCGGCCAGTACCATTCTTCAGGAGGAGAGGGAAATACTAC
193 TGCGAGTTGGATTTCGTATGTGTTACCGGCCAGTACCATTCCTCAGGAGGAGAGGGAAACACTAC
* *
1822010 CGGAAACAATTATGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGG
258 CGGAAACAATTACGGATAATACACTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGG
*
1822075 AGCAAGGGGTGTTATTCTGACCTAAGCCAAATCGACGATACATATCATGTGTTTCTTGATCGGTC
323 AGCAAGGGGTGTTATTCTGACCTAAGCCAAATCGACGATACATATCATGTGTTTATTGATCGGTC
1822140 TTGGTGGGATATTTTATTAGGGGTTGAAGATAATGG
388 TTGGTGGGATATTTTATTAGGGGTTGAAGATAATGG
1822176 CTATCTCGAA
Statistics
Matches: 399, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
423 3 0.01
424 394 0.99
425 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (424 bp):
TGCACCTATCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAAG
CCCCTCCCACCGTGCAAGAGACCTCTGTCATCATTCAAGTGGTCCCGCCCGCCGTTCAAGAGCCT
GATTCACATGGCGTCATATGTCAACATATTGATAAACCCCCTTCCGTGCCCGATATGATAGATGC
GAGTTGGATTTCGTATGTGTTACCGGCCAGTACCATTCCTCAGGAGGAGAGGGAAACACTACCGG
AAACAATTACGGATAATACACTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGAGC
AAGGGGTGTTATTCTGACCTAAGCCAAATCGACGATACATATCATGTGTTTATTGATCGGTCTTG
GTGGGATATTTTATTAGGGGTTGAAGATAATGGT
Found at i:1823307 original size:14 final size:14
Alignment explanation
Indices: 1823288--1823323 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1823278 TTTGATTAAT
1823288 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1823302 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1823316 TGATTTGT
1 TGATTTGT
1823324 TTAATTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1823333 original size:75 final size:79
Alignment explanation
Indices: 1823236--1823389 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 79
1823226 TTTTATATTG
*
1823236 AAAGTTGATTTTTTTTAATTGATGAGGAAATAAG-A-T-TTATCTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTTGTTTAATTGATGAGGAAATAAGAATTATTATCTTCTTGATTAATTGATTTGTA
1823297 AAAGATGATTTGTA
66 AAAGATGATTTGTA
** * * * *
1823311 AAAGTTGA-TTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTTGTTTAA-TTGATGAGGAAATAAGAATTATTATCTT-CTTGATTAATTGATTTG
*
1823375 TAAAAGTTGATTTGT
64 TAAAAGATGATTTGT
1823390 TGTTTTAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
74 8 0.12
75 21 0.32
76 1 0.02
77 1 0.02
78 5 0.08
80 29 0.45
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (79 bp):
AAAGTTGATTTTGTTTAATTGATGAGGAAATAAGAATTATTATCTTCTTGATTAATTGATTTGTA
AAAGATGATTTGTA
Found at i:1823582 original size:20 final size:20
Alignment explanation
Indices: 1823553--1823602 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1823543 GCAACGCTTA
*
1823553 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTTGCAAATTTAAC
* *
1823573 TTTTGCGTTGCGAATTTAAC
1 TTTCGCGTTGCAAATTTAAC
1823593 TTTCGCGTTG
1 TTTCGCGTTG
1823603 ATCGCAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTAAC
Found at i:1823815 original size:39 final size:39
Alignment explanation
Indices: 1823761--1823847 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1823751 TGAAGTTGTA
*
1823761 GATTTTGAATTCCTTTTGCTTGACACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
* *
1823800 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
1823839 GATTTTGAT
1 GATTTTGAT
1823848 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:1824181 original size:18 final size:18
Alignment explanation
Indices: 1824158--1824194 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1824148 CGAAATTTAT
1824158 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1824176 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
1824194 A
1 A
1824195 CTCTAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1824640 original size:25 final size:25
Alignment explanation
Indices: 1824581--1824630 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1824571 ATTATTTTTC
*
1824581 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1824606 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1824631 TAATTGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1824714 original size:20 final size:20
Alignment explanation
Indices: 1824691--1824732 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1824681 AGACCTGTTG
1824691 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
*
1824711 AAGGTAAATTCGTAACGCGA
1 AAGGTAAATTCGCAACGCGA
1824731 AA
1 AA
1824733 TAAGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:1824839 original size:20 final size:20
Alignment explanation
Indices: 1824814--1824877 Score: 128
Period size: 20 Copynumber: 3.2 Consensus size: 20
1824804 GTTTGCGATT
1824814 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
1824834 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
1824854 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
1824874 TCGC
1 TCGC
1824878 AACGCTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:1825217 original size:6 final size:6
Alignment explanation
Indices: 1825208--1825242 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1825198 TTGTGATTGA
**
1825208 GATTTT GATTTT GATTAC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
1825243 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:1827313 original size:3 final size:3
Alignment explanation
Indices: 1827305--1827331 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1827295 TCTTCGAGGA
1827305 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1827332 TAGGGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:1827541 original size:24 final size:24
Alignment explanation
Indices: 1827507--1827574 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
1827497 CCATCACATC
1827507 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1827531 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
1827555 ATCAAATTTCGAATATTGAC
1 ATCAAAATCCGAGTATTGAC
1827575 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1831630 original size:4 final size:4
Alignment explanation
Indices: 1831621--1831646 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1831611 ATCAAAGAAA
1831621 AAAC AAAC AAAC AAAC AAAC AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AA
1831647 TTAGTGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:1831717 original size:3 final size:3
Alignment explanation
Indices: 1831711--1831748 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1831701 CATCATCATC
1831711 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1831749 GAAAGCTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1836091 original size:22 final size:19
Alignment explanation
Indices: 1836063--1836106 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
1836053 AATTTCATCC
1836063 TTATATTATATAATATATATAT
1 TTATATTATA-AA-AT-TATAT
1836085 TTATATTATAAAATTATAT
1 TTATATTATAAAATTATAT
1836104 TTA
1 TTA
1836107 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 2 0.09
21 2 0.09
22 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATATTATAAAATTATAT
Found at i:1848827 original size:106 final size:106
Alignment explanation
Indices: 1848560--1849099 Score: 964
Period size: 105 Copynumber: 5.1 Consensus size: 106
1848550 ACCCGGAGCC
1848560 AATTTCAACTTCACAACGAAGGATA-TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1848624 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAG-CC
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
*
1848664 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1848729 GACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGTCA
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
*
1848770 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAATG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1848835 AACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
*
1848876 AATTTCAACTTCACAACGAAGGATATTGGACTCCCGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1848941 GACCGCTGGTTGTCAACAAACATTTCTC-AATTCAGAGTCA
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
*
1848981 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1849046 GACCGCTGGTTGTCAACAAACCA-TTCTCAGA-TCAGAGTCA
66 GACCGCTGGTTGTCAACAAA-CATTTCTCAAATTCAGAGTCA
1849086 AATTTCAACTTCAC
1 AATTTCAACTTCAC
1849100 GCAAGTTCAG
Statistics
Matches: 419, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
104 25 0.06
105 198 0.47
106 196 0.47
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCA
Found at i:1848976 original size:211 final size:212
Alignment explanation
Indices: 1848560--1849099 Score: 973
Period size: 211 Copynumber: 2.6 Consensus size: 212
1848550 ACCCGGAGCC
1848560 AATTTCAACTTCACAACGAAGGATA-TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1848624 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAG-CCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCAAATTTCAACTTCACAACGAAGGAT
*
1848688 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACATT
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATT
1848753 TCTCAGATTCAGAGTCA
196 TCTCAGATTCAGAGTCA
*
1848770 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAATG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1848835 AACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCAAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCAAATTTCAACTTCACAACGAAGGAT
*
1848900 ATTGGACTCCCGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATT
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATT
1848965 TCTCA-ATTCAGAGTCA
196 TCTCAGATTCAGAGTCA
*
1848981 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
1849046 GACCGCTGGTTGTCAACAAACCA-TTCTCAGA-TCAGAGTCAAATTTCAACTTCAC
66 GACCGCTGGTTGTCAACAAA-CATTTCTCAAATTCAGAGTCAAATTTCAACTTCAC
1849100 GCAAGTTCAG
Statistics
Matches: 318, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
210 48 0.15
211 175 0.55
212 95 0.30
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (212 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGTCAAATTTCAACTTCACAACGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATT
TCTCAGATTCAGAGTCA
Found at i:1849238 original size:20 final size:20
Alignment explanation
Indices: 1849213--1849255 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1849203 TCCAGAACTC
1849213 CGAGTTCGATTTCAACTTCA
1 CGAGTTCGATTTCAACTTCA
*
1849233 CGAGTTCGATTTCAATTTCA
1 CGAGTTCGATTTCAACTTCA
1849253 CGA
1 CGA
1849256 CGAAGGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (20 bp):
CGAGTTCGATTTCAACTTCA
Found at i:1856114 original size:17 final size:17
Alignment explanation
Indices: 1856087--1856125 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1856077 AATTTACAAT
1856087 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
1856103 TAATTATAAATAATATC
1 TAATTATAAATAATATC
1856120 TAATTA
1 TAATTA
1856126 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:1856254 original size:9 final size:9
Alignment explanation
Indices: 1856240--1856274 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1856230 TATATTTAAA
1856240 GGTTAATTC
1 GGTTAATTC
1856249 GGTTAATTC
1 GGTTAATTC
*
1856258 AGTTAATTC
1 GGTTAATTC
*
1856267 GATTAATT
1 GGTTAATT
1856275 AATCGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:1861008 original size:7 final size:7
Alignment explanation
Indices: 1860998--1861026 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1860988 TAAAAATAAA
1860998 ACTAATT
1 ACTAATT
1861005 ACTAATT
1 ACTAATT
1861012 ACTAATT
1 ACTAATT
1861019 ACTAATT
1 ACTAATT
1861026 A
1 A
1861027 ATTGAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (7 bp):
ACTAATT
Found at i:1862338 original size:3 final size:3
Alignment explanation
Indices: 1862330--1862425 Score: 138
Period size: 3 Copynumber: 32.0 Consensus size: 3
1862320 TTAATATATT
* *
1862330 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1862378 TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1862426 AATGGATAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1862433 original size:12 final size:11
Alignment explanation
Indices: 1862338--1862438 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 11
1862328 TTTAATAATA
*
1862338 ATAATAATAATA
1 ATAATAA-AATG
1862350 ATAATAAAA--
1 ATAATAAAATG
*
1862359 ATAATAATAATA
1 ATAATAA-AATG
* *
1862371 ATACTAATAATA
1 ATAATAA-AATG
*
1862383 ATATTAATAATG
1 ATAATAA-AATG
1862395 ATAATAATAAT-
1 ATAATAA-AATG
1862406 ATTAATAATAATG
1 A-TAATAA-AATG
1862419 ATAATAAAATGG
1 ATAATAAAAT-G
1862431 ATAA-AAAA
1 ATAATAAAA
1862439 AATAGTATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
9 7 0.09
10 2 0.03
11 10 0.13
12 59 0.75
13 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (11 bp):
ATAATAAAATG
Found at i:1863158 original size:226 final size:231
Alignment explanation
Indices: 1862675--1863222 Score: 876
Period size: 226 Copynumber: 2.4 Consensus size: 231
1862665 GCTTTTGATG
* *
1862675 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T
* * *
1862740 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCA
62 TCCTCTGGAAAAGAATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCA
1862805 TTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAA
127 TTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAA
1862870 TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
190 TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
1862912 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCT
* * *
1862976 CTGGAAAAG-CTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTAT
66 CTGGAAAAGAATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
*
1863040 GAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAAC-CTT-CTCTGGAACTGTTGA
131 GAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGTTGA
1863102 TCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
196 TCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
* *
1863138 AGTTCTTCTCATTATGAACTTCTTCTTCTTTTTTCAGATGAGTTCTTCTCATTATGAAC-TT-AT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCT
* *
1863201 CTGGTAATGAATGATCCATCAA
66 CTGGAAAAGAATGATCCATCAA
1863223 GTGGATTTGA
Statistics
Matches: 296, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
225 10 0.03
226 119 0.40
227 3 0.01
228 20 0.07
231 73 0.25
232 11 0.04
233 2 0.01
234 21 0.07
237 37 0.12
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (231 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCT
CTGGAAAAGAATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGTTGA
TCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
Found at i:1863216 original size:113 final size:113
Alignment explanation
Indices: 1862675--1863222 Score: 765
Period size: 113 Copynumber: 4.8 Consensus size: 113
1862665 GCTTTTGATG
*
1862675 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CT
* * * *
1862740 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
62 T-CTCTGGAAATG-ATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
1862794 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CT
* *
1862859 TCCTCTGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
62 T-CTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
* *
1862912 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * * * ** *
1862977 TGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
*
1863025 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * *
1863090 TGGAACTGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
* * *
1863138 AGTTCTTCTCATTATGAACTTCTTCTTCTTTTTTCAGATGAGTTCTTCTCATTATGAA-CTTATC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
1863202 TGGTAATGAATGATCCATCAA
66 TGGAAATG-ATGATCCATCAA
1863223 GTGGATTTGA
Statistics
Matches: 392, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
112 11 0.03
113 210 0.54
114 2 0.01
115 20 0.05
118 73 0.19
119 76 0.19
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:1863988 original size:52 final size:52
Alignment explanation
Indices: 1863866--1864472 Score: 1116
Period size: 52 Copynumber: 11.8 Consensus size: 52
1863856 TATGCCCAAT
*
1863866 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGTTCT-TCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1863917 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
*
1863969 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCT-TCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864020 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864072 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864124 CAGATCAGATAACTC-AA-AACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864174 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864226 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
* *
1864278 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTTCTGTCCAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
* *
1864330 CAGATCAGATAATTCAAAGAAAACTTCCAGAAGATGCTATGTTCT-TCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
*
1864381 CATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864433 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1864473 TGAGCACATA
Statistics
Matches: 538, Mismatches: 13, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
50 48 0.09
51 145 0.27
52 345 0.64
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (52 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
Found at i:1864026 original size:103 final size:104
Alignment explanation
Indices: 1863866--1864472 Score: 1116
Period size: 103 Copynumber: 5.9 Consensus size: 104
1863856 TATGCCCAAT
*
1863866 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGTTCT-TCTAACCAGATCAGATAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1863930 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
66 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
*
1863969 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCT-TCTAACCAGATCAGATAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1864033 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
66 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864072 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1864137 TC-AA-AACACTTCCAGAAGATGCTATGTTCTGTCTAAC
66 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1864174 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1864239 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
66 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
* * *
1864278 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTTCTGTCCAACCAGATCAGATAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
*
1864343 TCAAAGAAAACTTCCAGAAGATGCTATGTTCT-TCTAAC
66 TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
*
1864381 CATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
1864446 TCAAAGAACACTTCCAGAAGATGCTAT
66 TCAAAGAACACTTCCAGAAGATGCTAT
1864473 TGAGCACATA
Statistics
Matches: 489, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
102 100 0.20
103 242 0.49
104 147 0.30
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (104 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAGATCAGATAAC
TCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
Found at i:1865042 original size:18 final size:18
Alignment explanation
Indices: 1865019--1865066 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
1865009 TATGTTAATA
*
1865019 AAAAATAAATTGAATTTC
1 AAAAATAAATTGAATCTC
1865037 AAAAATAAATTGAATCTC
1 AAAAATAAATTGAATCTC
1865055 --AAATAAATTGAA
1 AAAAATAAATTGAA
1865067 CTTGAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.41
18 17 0.59
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATAAATTGAATCTC
Found at i:1875666 original size:13 final size:15
Alignment explanation
Indices: 1875644--1875680 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1875634 TTTGACATAA
1875644 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
1875656 AAATAAAATACTTGC
1 AAATAAAATACTTGC
1875671 AAATAAAATA
1 AAATAAAATA
1875681 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:1875719 original size:18 final size:17
Alignment explanation
Indices: 1875671--1875721 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
1875661 AAATACTTGC
*
1875671 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
1875689 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
1875707 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
1875722 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:1876530 original size:7 final size:7
Alignment explanation
Indices: 1876518--1876546 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1876508 ATAAAAATAA
1876518 ACTAATT
1 ACTAATT
1876525 ACTAATT
1 ACTAATT
1876532 ACTAATT
1 ACTAATT
1876539 ACTAATT
1 ACTAATT
1876546 A
1 A
1876547 ATTGAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (7 bp):
ACTAATT
Found at i:1877732 original size:3 final size:3
Alignment explanation
Indices: 1877724--1877802 Score: 133
Period size: 3 Copynumber: 26.3 Consensus size: 3
1877714 ATTTAATATA
*
1877724 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1877772 AAT AAT -AT AAT AAT ATAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A
1877803 TGGATAAAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1888006 original size:16 final size:17
Alignment explanation
Indices: 1887978--1888010 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1887968 ATTGCCGATA
1887978 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
1887995 AAATTT-ACTATTCACG
1 AAATTTCACTATTCACG
1888011 TGAATAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:1891816 original size:17 final size:16
Alignment explanation
Indices: 1891794--1891833 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1891784 TTGATAAACA
1891794 ATAAAAATAAAAATATT
1 ATAAAAAT-AAAATATT
**
1891811 ATAAAAATACGATATT
1 ATAAAAATAAAATATT
1891827 ATAAAAA
1 ATAAAAA
1891834 GACAATGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAAAAATAAAATATT
Found at i:1891960 original size:18 final size:18
Alignment explanation
Indices: 1891937--1891985 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
1891927 ATCACTAGGA
1891937 TTATCATCGTCATTGTTT
1 TTATCATCGTCATTGTTT
1891955 TTATCATCGTCATTGTTT
1 TTATCATCGTCATTGTTT
*
1891973 TTATCATCTTCAT
1 TTATCATCGTCAT
1891986 CGATATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (18 bp):
TTATCATCGTCATTGTTT
Found at i:1909003 original size:16 final size:18
Alignment explanation
Indices: 1908985--1909018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1908975 TGTTGTTTCT
1908985 CCCCT-GTTTTTTCTCTC
1 CCCCTCGTTTTTTCTCTC
1909002 CCCCTCGTTTTTTCTCT
1 CCCCTCGTTTTTTCTCT
1909019 GTCTTATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.00, C:0.41, G:0.06, T:0.53
Consensus pattern (18 bp):
CCCCTCGTTTTTTCTCTC
Found at i:1909969 original size:40 final size:42
Alignment explanation
Indices: 1909920--1910108 Score: 122
Period size: 40 Copynumber: 4.4 Consensus size: 42
1909910 GTGACGCGAC
1909920 TCCTACGTGATGAGGA-GATCTAG-TCAGGGGATGACACGGT
1 TCCTACGTGATGAGGACGATCTAGTTCAGGGGATGACACGGT
* * * * * *
1909960 TCCTACGTGATGAGGATGGTTGGCCATGTTTAGGGATGATAACATGGT
1 TCCTACGTGATGAGGA-CGAT--CTA-GTTCAGGG--GATGACACGGT
* * * *
1910008 TCCTACGTGATGAGGACGA-CTAGTTATCTA-AGGTTGACGCGGC
1 TCCTACGTGATGAGGACGATCTAG-T-TC-AGGGGATGACACGGT
* * *
1910051 TCTTACGTAATGAGGA-GATCT-GGT-AGGTGGATGACACGGT
1 TCCTACGTGATGAGGACGATCTAGTTCAGG-GGATGACACGGT
1910091 TCCTACGTGATGAGGACG
1 TCCTACGTGATGAGGACG
1910109 CCTAGTCATC
Statistics
Matches: 110, Mismatches: 24, Indels: 29
0.67 0.15 0.18
Matches are distributed among these distances:
38 1 0.01
40 40 0.36
41 1 0.01
42 5 0.05
43 23 0.21
44 5 0.05
45 3 0.03
46 6 0.05
47 1 0.01
48 25 0.23
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.26
Consensus pattern (42 bp):
TCCTACGTGATGAGGACGATCTAGTTCAGGGGATGACACGGT
Found at i:1910083 original size:131 final size:133
Alignment explanation
Indices: 1909783--1910126 Score: 435
Period size: 131 Copynumber: 2.6 Consensus size: 133
1909773 AGAGTGGCGT
* * * *
1909783 GGCTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATGATTCCTACGCGATGAGGACGGTTG
1 GGCTCCTACGTGATGAGGAGATCTGGTAGGTGGATGACACGGTTCCTACGTGATGAGGACGGTTG
* * * *
1909848 GCCATCTTTAGGGATGATGATAACACAGTTCCTACGCGATGAGTACAGTTGGTTATCTAGGGGTG
66 GCCATCTTTAGGGA-GATGATAACACAGTTCCTACGCGATGAGGACAGCTAGTTATCTAAGGGTG
1909913 ACGC
130 ACGC
* * *
1909917 GACTCCTACGTGATGAGGAGATCTAGTCAGG-GGATGACACGGTTCCTACGTGATGAGGATGGTT
1 GGCTCCTACGTGATGAGGAGATCTGGT-AGGTGGATGACACGGTTCCTACGTGATGAGGACGGTT
* ** * *
1909981 GGCCATGTTTA-GG-GATGATAACATGGTTCCTACGTGATGAGGAC-GACTAGTTATCTAAGGTT
65 GGCCATCTTTAGGGAGATGATAACACAGTTCCTACGCGATGAGGACAG-CTAGTTATCTAAGGGT
1910043 GACGC
129 GACGC
* * ** *
1910048 GGCTCTTACGTAATGAGGAGATCTGGTAGGTGGATGACACGGTTCCTACGTGATGAGGACGCCTA
1 GGCTCCTACGTGATGAGGAGATCTGGTAGGTGGATGACACGGTTCCTACGTGATGAGGACGGTTG
*
1910113 GTCATCTTTAGGGA
66 GCCATCTTTAGGGA
1910127 TTTGTTTCAA
Statistics
Matches: 179, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
130 4 0.02
131 105 0.59
132 2 0.01
133 2 0.01
134 64 0.36
135 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (133 bp):
GGCTCCTACGTGATGAGGAGATCTGGTAGGTGGATGACACGGTTCCTACGTGATGAGGACGGTTG
GCCATCTTTAGGGAGATGATAACACAGTTCCTACGCGATGAGGACAGCTAGTTATCTAAGGGTGA
CGC
Found at i:1911617 original size:5 final size:5
Alignment explanation
Indices: 1911607--1911722 Score: 64
Period size: 5 Copynumber: 22.6 Consensus size: 5
1911597 GTTCTTCTTG
*
1911607 TTTTC TTTTC TTTATT TCTTTC TTCTT- TGTTTC TTTTC TCTGTGT- TTTTC
1 TTTTC TTTTC TTT-TC T-TTTC TT-TTC T-TTTC TTTTC T-T-T-TC TTTTC
* * * *
1911657 TTTTC TTTGC --TTC TTTTC TTTTC TTTTT TTTTC TCTTT- TTTTT TCTTTA
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC T-TTTC
1911706 TTTT- TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTT
1911723 GATTTGATCT
Statistics
Matches: 89, Mismatches: 7, Indels: 30
0.71 0.06 0.24
Matches are distributed among these distances:
3 2 0.02
4 8 0.09
5 57 0.64
6 17 0.19
7 4 0.04
8 1 0.01
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:1911624 original size:8 final size:7
Alignment explanation
Indices: 1911612--1911718 Score: 58
Period size: 8 Copynumber: 14.3 Consensus size: 7
1911602 TCTTGTTTTC
1911612 TTTTCTT
1 TTTTCTT
1911619 TATTTCTT
1 T-TTTCTT
*
1911627 TCTTCTT
1 TTTTCTT
1911634 TGTTTCTT
1 T-TTTCTT
*
1911642 TTCTCTGTGT
1 TT-T-TCT-T
1911652 TTTTCTTT
1 TTTTC-TT
1911660 TCTTTGCTT
1 T-TTT-CTT
1911669 CTTTTCTT
1 -TTTTCTT
*
1911677 TTCTTTTT
1 TT-TTCTT
1911685 TTTTC-T
1 TTTTCTT
*
1911691 CTTT-TT
1 TTTTCTT
1911697 TTTTCTT
1 TTTTCTT
*
1911704 TATT-TT
1 TTTTCTT
1911710 TTTTCTT
1 TTTTCTT
1911717 TT
1 TT
1911719 CTTTGATTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
6 13 0.17
7 21 0.27
8 26 0.34
9 12 0.16
10 5 0.06
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:1911630 original size:28 final size:26
Alignment explanation
Indices: 1911598--1911718 Score: 102
Period size: 28 Copynumber: 4.4 Consensus size: 26
1911588 TCTTTGCATG
1911598 TTCTTCTTGTTTTCTTTTCTTTATTTCT
1 TTCTTCTT-TTTTCTTTTCTTTATTT-T
*
1911626 TTCTTCTTTGTTTCTTTTCTCTGTGTTTT
1 TTCTTCTTT-TTTCTTTTCT-T-TATTTT
* * *
1911655 TCTTTTCTTTGCTTCTTTTCTTTTCTTTT
1 T-TCTTCTTT-TTTCTTTTC-TTTATTTT
*
1911684 TTTTTCTCTTTTT-TTTTCTTTATTTT
1 TTCTTCT-TTTTTCTTTTCTTTATTTT
1911710 TT-TTCTTTT
1 TTCTTCTTTT
1911719 CTTTGATTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
24 3 0.04
25 4 0.05
26 9 0.11
27 6 0.07
28 26 0.32
29 11 0.14
30 21 0.26
31 1 0.01
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.78
Consensus pattern (26 bp):
TTCTTCTTTTTTCTTTTCTTTATTTT
Found at i:1911652 original size:15 final size:13
Alignment explanation
Indices: 1911608--1911717 Score: 71
Period size: 13 Copynumber: 7.9 Consensus size: 13
1911598 TTCTTCTTGT
*
1911608 TTTCTTTTCTTTA
1 TTTCTTTTCTTTG
1911621 TTTCTTTCTTCTTTG
1 TTTC-TT-TTCTTTG
1911636 TTTCTTTTCTCTGTG
1 TTTCTTTTCT-T-TG
1911651 TTTTTCTTTTCTTTG
1 --TTTCTTTTCTTTG
* *
1911666 CTTCTTTTCTTTTCT
1 TTTCTTTTC-TTT-G
*
1911681 TTTTTTTTCTCTT-
1 TTTCTTTTCT-TTG
*
1911694 TTT-TTTTCTTTA
1 TTTCTTTTCTTTG
*
1911706 TTTTTTTTCTTT
1 TTTCTTTTCTTT
1911718 TCTTTGATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.02
12 9 0.11
13 27 0.33
14 9 0.11
15 23 0.28
16 1 0.01
17 10 0.12
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTCTTTTCTTTG
Found at i:1911657 original size:45 final size:44
Alignment explanation
Indices: 1911607--1911722 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
1911597 GTTCTTCTTG
1911607 TTTTCTTTTCTTTATTTCTTTCTTCTT-TGTTTCTTTTCTCTGTGT
1 TTTTCTTTTCTTTATTTCTTTCTT-TTCT-TTTCTTTTCTCTGTGT
** * * *
1911652 TTTTCTTTTCTTTGCTTCTTTTCTTTTCTTTTTTTTTCTCTTTTT
1 TTTTCTTTTCTTTATTTC-TTTCTTTTCTTTTCTTTTCTCTGTGT
*
1911697 TTTTCTTTAT-TTTTTTTCTTTTCTTT
1 TTTTCTTT-TCTTTATTTC-TTTCTTT
1911723 GATTTGATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
45 53 0.87
46 8 0.13
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.78
Consensus pattern (44 bp):
TTTTCTTTTCTTTATTTCTTTCTTTTCTTTTCTTTTCTCTGTGT
Found at i:1911693 original size:12 final size:12
Alignment explanation
Indices: 1911678--1911718 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1911668 TCTTTTCTTT
1911678 TCTTTTTTTTTC
1 TCTTTTTTTTTC
1911690 TCTTTTTTTTTC
1 TCTTTTTTTTTC
1911702 T-TTATTTTTTT-
1 TCTT-TTTTTTTC
1911713 TCTTTT
1 TCTTTT
1911719 CTTTGATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TCTTTTTTTTTC
Found at i:1911694 original size:35 final size:34
Alignment explanation
Indices: 1911607--1911718 Score: 88
Period size: 35 Copynumber: 3.3 Consensus size: 34
1911597 GTTCTTCTTG
* *
1911607 TTTTCTTTTCTTTATT-TCTTTC-TT-CTTTGTTTC
1 TTTTCTTTTGTTT-TTCT-TTTCTTTGCTTTATTTC
*
1911640 TTTTCTCTGTGTTTTTCTTTTCTTTGCTTCT-TTTC
1 TTTTCT-TTTGTTTTTCTTTTCTTTGCTT-TATTTC
* * * *
1911675 TTTTCTTTTTTTTTCTCTTTTTTTTTCTTTATTTT
1 TTTTCTTTTGTTTT-TCTTTTCTTTGCTTTATTTC
1911710 TTTTCTTTT
1 TTTTCTTTT
1911719 CTTTGATTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
33 12 0.18
34 15 0.23
35 37 0.57
36 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (34 bp):
TTTTCTTTTGTTTTTCTTTTCTTTGCTTTATTTC
Found at i:1911713 original size:58 final size:63
Alignment explanation
Indices: 1911607--1911723 Score: 156
Period size: 58 Copynumber: 1.9 Consensus size: 63
1911597 GTTCTTCTTG
1911607 TTTTCTTTTCTTTATTTCTTTCTTCTTTGTTTCTTTTCTCTGTGTTTTTCTTTTCTTTGCTTC
1 TTTTCTTTTCTTTATTTCTTTCTTCTTTGTTTCTTTTCTCTGTGTTTTTCTTTTCTTTGCTTC
* * *
1911670 TTTTCTTTTCTTT-TTT-TTTC-TC-TT-TTT-TTTTCTTTATTTTTTTTCTTTTCTTTG
1 TTTTCTTTTCTTTATTTCTTTCTTCTTTGTTTCTTTTCTCT-GTGTTTTTCTTTTCTTTG
1911724 ATTTGATCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
57 7 0.14
58 19 0.38
59 2 0.04
60 2 0.04
61 4 0.08
62 3 0.06
63 13 0.26
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (63 bp):
TTTTCTTTTCTTTATTTCTTTCTTCTTTGTTTCTTTTCTCTGTGTTTTTCTTTTCTTTGCTTC
Found at i:1911718 original size:22 final size:22
Alignment explanation
Indices: 1911652--1911722 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 22
1911642 TTCTCTGTGT
**
1911652 TTTTCTTTTCTTTGCTTCTTTTC
1 TTTTCTTTT-TTTTTTTCTTTTC
* *
1911675 TTTTCTTTTTTTTTCTCTTTTT
1 TTTTCTTTTTTTTTTTCTTTTC
1911697 TTTTCTTTATTTTTTTTCTTTTC
1 TTTTCTTT-TTTTTTTTCTTTTC
1911720 TTT
1 TTT
1911723 GATTTGATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.41
23 24 0.59
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.82
Consensus pattern (22 bp):
TTTTCTTTTTTTTTTTCTTTTC
Found at i:1911734 original size:40 final size:41
Alignment explanation
Indices: 1911651--1911734 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 41
1911641 TTTCTCTGTG
* ** **
1911651 TTTTTCTTTTCTTTGCTTCTTTTCTTTTCTTTTTTTTTCTC
1 TTTTTCTTTTCTTTACTTCTTTTCTTTTCTTTGATTTGATC
* *
1911692 TTTTT-TTTTCTTTATTTTTTTTCTTTTCTTTGATTTGATC
1 TTTTTCTTTTCTTTACTTCTTTTCTTTTCTTTGATTTGATC
1911732 TTT
1 TTT
1911735 ACATTGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.86
41 5 0.14
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (41 bp):
TTTTTCTTTTCTTTACTTCTTTTCTTTTCTTTGATTTGATC
Found at i:1921910 original size:21 final size:21
Alignment explanation
Indices: 1921886--1921925 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1921876 TAGAATTCGC
1921886 TAAGTAGT-ATCGATACCAATT
1 TAAGTAGTAAT-GATACCAATT
*
1921907 TAAGTGGTAATGATACCAA
1 TAAGTAGTAATGATACCAA
1921926 GATGGGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
TAAGTAGTAATGATACCAATT
Found at i:1922045 original size:22 final size:21
Alignment explanation
Indices: 1922001--1922057 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
1921991 TGGTACCGTA
* *
1922001 ATAGAGTATCGGTACTATAGT
1 ATAGAGTATCGATACCATAGT
*
1922022 ATAGTAGTATCGATACCATGGT
1 ATAG-AGTATCGATACCATAGT
*
1922044 AT-GGGTATCGATAC
1 ATAGAGTATCGATAC
1922058 TATTGAGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 10 0.32
21 5 0.16
22 16 0.52
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (21 bp):
ATAGAGTATCGATACCATAGT
Found at i:1922524 original size:45 final size:45
Alignment explanation
Indices: 1922469--1922977 Score: 766
Period size: 45 Copynumber: 11.3 Consensus size: 45
1922459 GAATGAAAAT
* *
1922469 AATAATAATGCATATGGGTGAATTATTGGCATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
*
1922514 AATAATAATGCATATGGGTGCATTATCCGCATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
** *
1922559 AATAATAATGCATATGGGTGCATTATCCACATGAAAAGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* * * *
1922604 AATAATAACGCGTATGGGTGCATTATCCGCATGAAATGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* *
1922649 AATAATAATGCATATTGGTGCATTATCAGCATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* *
1922694 AATAATAATGCATATTGGTGCATTATCAGCATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* * * * *
1922739 AATAATAACGCAAATGGGTGCATTATCGGCACGAAATGATACCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
1922784 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
*
1922829 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATTCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* *
1922874 AATAATAATACATATGGGTGCATTATCGACATGAAAGGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
* * *
1922919 AATAATAATACATATGGGTGCATTATCGTCATAAAAGGATGCCATA
1 AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCA-A
* *
1922965 ACTAAAAATGCAT
1 AATAATAATGCAT
1922978 GAACAGATGC
Statistics
Matches: 428, Mismatches: 35, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 417 0.97
46 11 0.03
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (45 bp):
AATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAA
Found at i:1923012 original size:47 final size:47
Alignment explanation
Indices: 1922952--1923061 Score: 159
Period size: 47 Copynumber: 2.3 Consensus size: 47
1922942 TATCGTCATA
* * **
1922952 AAAGGATGCCATAACTAAAAATGCATGAAC-AGATGCATTAAGACATG
1 AAAGGATGTCATAAATAAAAATGCATGAACGA-ATGCAAAAAGACATG
1922999 AAAGGATGTCATAAATAAAAATGCATGAACGAATGCAAAAAGACATG
1 AAAGGATGTCATAAATAAAAATGCATGAACGAATGCAAAAAGACATG
*
1923046 AAATGATGTCATAAAT
1 AAAGGATGTCATAAAT
1923062 GAAATTAACG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 56 0.98
48 1 0.02
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (47 bp):
AAAGGATGTCATAAATAAAAATGCATGAACGAATGCAAAAAGACATG
Found at i:1923520 original size:81 final size:81
Alignment explanation
Indices: 1923428--1923576 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
1923418 TAAGGGTCTA
* * * * * *
1923428 GCTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTA
1 GCTGTGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTA
1923493 AAAGATTAATTGTATT
66 AAAGATTAATTGTATT
* *
1923509 GCTGTGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCGTTGGGTA
1 GCTGTGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTA
1923574 AAA
66 AAA
1923577 TACTAAAGGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
GCTGTGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTA
AAAGATTAATTGTATT
Found at i:1923598 original size:81 final size:81
Alignment explanation
Indices: 1923432--1923600 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
1923422 GGTCTAGCTG
* * * * * *
1923432 TGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
1 TGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTAAAAG
* ** * * *
1923497 ATTAATTGTATTGCTG
66 ACTAAAGGAATTGATA
* * *
1923513 TGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCGTTGGGTAAAAT
1 TGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTAAAAG
1923578 ACTAAAGGAATT-ATAA
66 ACTAAAGGAATTGAT-A
1923594 TGCATTT
1 TGCATTT
1923601 TGATATAAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (81 bp):
TGCATTTGGCAAAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCGTTGAGTAAAAG
ACTAAAGGAATTGATA
Found at i:1926036 original size:15 final size:14
Alignment explanation
Indices: 1926016--1926053 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
1926006 TTTAAGATTT
1926016 TCTTTGAAAAAAACA
1 TCTTTGAAAAAAA-A
*
1926031 TCTTTGAAAAACAA
1 TCTTTGAAAAAAAA
1926045 T-TTTGAAAA
1 TCTTTGAAAA
1926054 TTACTCCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 2 0.09
15 12 0.55
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (14 bp):
TCTTTGAAAAAAAA
Found at i:1926364 original size:2 final size:2
Alignment explanation
Indices: 1926357--1926398 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1926347 TCAAAGCCAA
1926357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1926399 TAACATTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1928386 original size:20 final size:20
Alignment explanation
Indices: 1928361--1928415 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1928351 AAACCCCGAA
1928361 GAGTGTATCGATACACTCCT
1 GAGTGTATCGATACACTCCT
1928381 GAGTGTATC-AGTACACTCCT
1 GAGTGTATCGA-TACACTCCT
* *
1928401 AAATGTATCGATACA
1 GAGTGTATCGATACA
1928416 AATTCAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (20 bp):
GAGTGTATCGATACACTCCT
Found at i:1934126 original size:22 final size:22
Alignment explanation
Indices: 1934098--1934156 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
1934088 GGGAGTGTGA
1934098 GTGTATCGGTACACTCTCAAGG
1 GTGTATCGGTACACTCTCAAGG
*
1934120 GTGTATCGATACACTCTCAAGG
1 GTGTATCGGTACACTCTCAAGG
*
1934142 GTGCATCGGTACACT
1 GTGTATCGGTACACT
1934157 GTGTGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (22 bp):
GTGTATCGGTACACTCTCAAGG
Found at i:1935258 original size:2 final size:2
Alignment explanation
Indices: 1935251--1935282 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1935241 TGTCAAAAAG
1935251 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1935283 ACTTTTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1938062 original size:78 final size:80
Alignment explanation
Indices: 1937961--1938108 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
1937951 AGATTATGGG
* * * *
1937961 CTAGTTGTGCATTTGGCATAAAGG-GTCAATTATGC-AGTTAGATGAAAGGTTAAATACCTTTGA
1 CTAGCTGTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGA
1938024 GTAAAGATTAATTGC
66 GTAAAGATTAATTGC
* * *
1938039 CTAGCTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGG
1 CTAGCTGTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGA
1938104 GTAAA
66 GTAAA
1938109 AACTAAAGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 21 0.34
79 10 0.16
80 30 0.49
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (80 bp):
CTAGCTGTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGA
GTAAAGATTAATTGC
Done.