Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_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: 2551150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:2009942 original size:22 final size:22
Alignment explanation
Indices: 2009890--2009944 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2009880 TGGTTGTGAG
**
2009890 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2009912 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2009934 GGATTTCTTCG
1 GGATTTCTTCG
2009945 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:2010115 original size:20 final size:20
Alignment explanation
Indices: 2010090--2010282 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
2010080 CTTTAAATAT
2010090 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2010110 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2010132 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2010151 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2010171 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2010191 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2010211 CACGTTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2010231 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2010251 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2010271 CGCGTTGCGATT
1 CGCGTTGCGATT
2010283 ATGGAAAATC
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2010277 original size:60 final size:60
Alignment explanation
Indices: 2010090--2010282 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
2010080 CTTTAAATAT
**
2010090 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2010151 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * * ** *
2010211 CACGTTGTGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2010271 CGCGTTGCGATT
1 CGCGTTGCGATT
2010283 ATGGAAAATC
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 81 0.74
61 28 0.26
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2010363 original size:20 final size:20
Alignment explanation
Indices: 2010338--2010389 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2010328 AAGAATCGCG
*
2010338 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2010358 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2010378 TTGCGATTCTGG
1 TTGCGATTCTGG
2010390 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2013721 original size:156 final size:156
Alignment explanation
Indices: 2013426--2013733 Score: 465
Period size: 156 Copynumber: 2.0 Consensus size: 156
2013416 TTAAATGAGC
*
2013426 ATGTTCGTGAATGTTAAGTGAATATGTTTACAAACATTAAACGAATATGTTCGTGAACGCTAAAC
1 ATGTTCGTGAATGTTAAGTGAACATGTTTACAAACATTAAACGAATATGTTCGTGAACGCTAAAC
* * *
2013491 AAATGAACACAAATAATTTAAAAAATAAGTAACCAAACACGATATTGAAAATTTAAACAAACACG
66 AAATGAACACAAATAATTTAAAAAATAAGTAAACAAACACGATATTAAAAATTTAAACAAACACA
2013556 AACAAAAACATGAATACGAAATGGAT
131 AACAAAAACATGAATACGAAATGGAT
* * *
2013582 ATGTTTGTGAATGTTAAGTGTACATGTTTACAAACATTAAACGAATATGTTCGTGAATGCTAAAC
1 ATGTTCGTGAATGTTAAGTGAACATGTTTACAAACATTAAACGAATATGTTCGTGAACGCTAAAC
* * * * * * *
2013647 GAATGAACACGAATAATTTTAAAAATAAGTAAACGAACACGATATTAAAAATTTAAATAGACCCT
66 AAATGAACACAAATAATTTAAAAAATAAGTAAACAAACACGATATTAAAAATTTAAACAAACAC-
*
2013712 AAAC-CAAACATGAATACGAAAT
130 AAACAAAAACATGAATACGAAAT
2013734 ACTATTAAAA
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
156 133 0.98
157 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.26
Consensus pattern (156 bp):
ATGTTCGTGAATGTTAAGTGAACATGTTTACAAACATTAAACGAATATGTTCGTGAACGCTAAAC
AAATGAACACAAATAATTTAAAAAATAAGTAAACAAACACGATATTAAAAATTTAAACAAACACA
AACAAAAACATGAATACGAAATGGAT
Found at i:2015005 original size:18 final size:19
Alignment explanation
Indices: 2014959--2015003 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2014949 AATTTTAGAG
2014959 TATAAAAATAAATTTTCAA
1 TATAAAAATAAATTTTCAA
*
2014978 TATAAAAATAAATTTTTAA
1 TATAAAAATAAATTTTCAA
2014997 TATAAAA
1 TATAAAA
2015004 TACATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAAAAATAAATTTTCAA
Found at i:2015874 original size:2 final size:2
Alignment explanation
Indices: 2015869--2015897 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2015859 TTCTTTTTTA
2015869 AT AT AT AT AT 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 A
2015898 ATTTTAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2019806 original size:2 final size:2
Alignment explanation
Indices: 2019799--2019833 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2019789 TGTTTACAGG
2019799 AT AT AT AT AT AT AT AT 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 AT A
2019834 ATCTTGCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2021700 original size:21 final size:19
Alignment explanation
Indices: 2021665--2021718 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
2021655 CTATAATGTT
2021665 TAATTTTTATTTTTATAAA
1 TAATTTTTATTTTTATAAA
2021684 TAATTTTTACTTTTT-T--A
1 TAATTTTTA-TTTTTATAAA
*
2021701 TATTTTTATATTTTTATA
1 TAATTTT-TATTTTTATA
2021719 TAATGGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 12 0.40
18 3 0.10
19 10 0.33
20 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTATTTTTATAAA
Found at i:2021706 original size:8 final size:8
Alignment explanation
Indices: 2021686--2021719 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
2021676 TTTATAAATA
2021686 ATTTTTACT
1 ATTTTTA-T
2021695 -TTTTTAT
1 ATTTTTAT
2021702 ATTTTTAT
1 ATTTTTAT
2021710 ATTTTTAT
1 ATTTTTAT
2021718 AT
1 AT
2021720 AATGGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 1 0.04
8 23 0.96
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:2022887 original size:15 final size:15
Alignment explanation
Indices: 2022867--2022908 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
2022857 AATAAAATTA
2022867 TTTGATTAATTCAGT
1 TTTGATTAATTCAGT
2022882 TTTGATTAATTCAGT
1 TTTGATTAATTCAGT
2022897 TTTGATTAATTC
1 TTTGATTAATTC
2022909 GATTTAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTGATTAATTCAGT
Found at i:2030185 original size:16 final size:16
Alignment explanation
Indices: 2030164--2030197 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2030154 ATTACTATCA
*
2030164 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
2030180 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
2030196 CG
1 CG
2030198 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:2036833 original size:117 final size:117
Alignment explanation
Indices: 2036634--2036868 Score: 330
Period size: 117 Copynumber: 2.0 Consensus size: 117
2036624 TACACGGACA
* *
2036634 ACCATTAAACTATAATAAAAAATAATTTGAACCATTGATGTTTTGATTTAATCAATTAGACTAAC
1 ACCATTAAACTATAATAAAAAATAATTTGAACCACTGATGTTTCGATTTAATCAATTAGACTAAC
*
2036699 CAACTATTTAAATGTTTCAATCAAACCACTAACCGTTAACTTTTAACGGAAG
66 CAACTATTTAAATGTTTCAATCAAACCACTAACCGCTAACTTTTAACGGAAG
* * * * * *
2036751 ACCATTCAACTGTGATAAAAAATCATTTGGACCACT-ATTGTTTCGATTTAATCAATTAGAC-CA
1 ACCATTAAACTATAATAAAAAATAATTTGAACCACTGA-TGTTTCGATTTAATCAATTAGACTAA
* * *
2036814 CCAAATTATTTAAATGTTTCAATCAAGCCACTGACCGCTAACTTTTAACGGAAG
65 CC-AACTATTTAAATGTTTCAATCAAACCACTAACCGCTAACTTTTAACGGAAG
2036868 A
1 A
2036869 GATGAAGCGG
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
116 4 0.04
117 100 0.96
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (117 bp):
ACCATTAAACTATAATAAAAAATAATTTGAACCACTGATGTTTCGATTTAATCAATTAGACTAAC
CAACTATTTAAATGTTTCAATCAAACCACTAACCGCTAACTTTTAACGGAAG
Found at i:2037315 original size:22 final size:24
Alignment explanation
Indices: 2037287--2037342 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
2037277 CTTCAAATAG
2037287 TATATTTTT-TA-TTAACTTAAAA
1 TATATTTTTATAGTTAACTTAAAA
*
2037309 TATATTTGTTATATGTTAACTTCAAA
1 TATATTT-TTATA-GTTAACTTAAAA
2037335 TATATTTT
1 TATATTTT
2037343 ATTTAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 2 0.07
25 1 0.03
26 17 0.59
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (24 bp):
TATATTTTTATAGTTAACTTAAAA
Found at i:2037411 original size:2 final size:2
Alignment explanation
Indices: 2037404--2037456 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2037394 CTTCTTAACT
2037404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2037446 TA TA TA TA TA T
1 TA TA TA TA TA T
2037457 TATTTTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2037586 original size:29 final size:27
Alignment explanation
Indices: 2037512--2037671 Score: 108
Period size: 30 Copynumber: 5.6 Consensus size: 27
2037502 TAAATAAAAG
* * * *
2037512 AATAAATATATAATTTGAAGATAAAT-T
1 AATAAA-ATATATTTTTAAGTTAAATAA
2037539 AATAACATATATATTTTTAAGTTAATATAA
1 AATAA-A-ATATATTTTTAAGTTAA-ATAA
2037569 GAATAAAATATATTTTTAAAGTTAAGATAA
1 -AATAAAATATATTTTT-AAGTTAA-ATAA
** * *
2037599 GAATAAAATGCAGTTTTAAATTAAAATTAA
1 -AATAAAATATATTTTTAAGTT-AAA-TAA
* *
2037629 AATAAAATATATTTAATAAGTTGAATAA
1 AATAAAATATATTT-TTAAGTTAAATAA
*
2037657 AA-AATATATATTTTT
1 AATAAAATATATTTTT
2037672 CTGTCATTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.01
27 15 0.14
28 21 0.19
29 30 0.28
30 36 0.33
31 5 0.05
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (27 bp):
AATAAAATATATTTTTAAGTTAAATAA
Found at i:2037593 original size:30 final size:30
Alignment explanation
Indices: 2037547--2037642 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 30
2037537 TTAATAACAT
*
2037547 ATATATTTTT-AAGTTAATATAAGAATAAA
1 ATATATTTTTAAAGTTAAAATAAGAATAAA
*
2037576 ATATATTTTTAAAGTTAAGATAAGAATAAA
1 ATATATTTTTAAAGTTAAAATAAGAATAAA
** *
2037606 ATGCAGTTTTAAA-TTAAAATTAA-AATAAA
1 ATATATTTTTAAAGTTAAAA-TAAGAATAAA
2037635 ATATATTT
1 ATATATTT
2037643 AATAAGTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
29 26 0.46
30 31 0.54
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (30 bp):
ATATATTTTTAAAGTTAAAATAAGAATAAA
Found at i:2046420 original size:17 final size:19
Alignment explanation
Indices: 2046398--2046434 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
2046388 ACATAGTATT
2046398 AAATAAAA-ATA-ATAGAA
1 AAATAAAATATATATAGAA
2046415 AAATAAAATATATATAGAA
1 AAATAAAATATATATAGAA
2046434 A
1 A
2046435 CATATAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATAAAATATATATAGAA
Found at i:2048119 original size:105 final size:107
Alignment explanation
Indices: 2047978--2048183 Score: 326
Period size: 105 Copynumber: 1.9 Consensus size: 107
2047968 GTTCTGGAAC
**
2047978 TGGGAAATTGTTTTGTTGACAGTCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGA
1 TGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGA
2048043 GTCCAAT-GCCCTCAATGTGAAGTTGAAATTGGCTCCGAAAT
66 GTCCAATAGCCCTCAATGTGAAGTTGAAATTGGCTCCGAAAT
* *
2048084 TGGGAAATTG-TTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGA
1 TGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGA
* * **
2048148 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 GTCCAATAGCCCTCAATGTGAAGTTGAAATTGGCTC
2048184 TAGCTAAAAC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 57 0.63
106 34 0.37
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (107 bp):
TGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGA
GTCCAATAGCCCTCAATGTGAAGTTGAAATTGGCTCCGAAAT
Found at i:2048680 original size:66 final size:67
Alignment explanation
Indices: 2048509--2048687 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 67
2048499 CAGAATTCGT
* * * *
2048509 TTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAAGGGCCTCAAGGGAGACAAAA
1 TTTCAAGGGAAAC-ATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCAAGGGAGACAAAA
2048574 TTTTG
63 TTTTG
* * * * * * *
2048579 TTTTAA-GGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGTAGACGAAA-T
1 TTTCAAGGGAAA-CATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAGGGAGACAAAATT
2048642 TTG
65 TTG
*
2048645 TTTCAAGGGAAACATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 TTTCAAGGGAAACATCTCAAAGATTTTGTGTTTCAAGAGAAAC
2048688 ATTTTCAAAG
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
66 37 0.40
67 33 0.36
68 3 0.03
69 14 0.15
70 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (67 bp):
TTTCAAGGGAAACATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAGGGAGACAAAATTT
TG
Found at i:2048747 original size:36 final size:33
Alignment explanation
Indices: 2048643--2048756 Score: 153
Period size: 33 Copynumber: 3.5 Consensus size: 33
2048633 AGACGAAATT
* *
2048643 TGTTTCAAGGGAAAC-ATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
2048673 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
2048706 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
2048742 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
2048757 TGTATCAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
30 14 0.19
31 8 0.11
33 30 0.41
35 1 0.01
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:2048837 original size:36 final size:37
Alignment explanation
Indices: 2048797--2049131 Score: 159
Period size: 36 Copynumber: 9.9 Consensus size: 37
2048787 CAAGGATTGA
2048797 TGTTTCAAGAGAAACTGTCTCAA-AGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
2048833 TGTTT-AAGAAAAACATGTCTTAAGAGAGAC-AAA-TT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATTT
*
2048868 TGTTTCAAGAGAAACTGTCTCAAGAGAGACTAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
2048904 TGTTT-AATGTA-AAACATAT-TC-A-A-AG-----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATTT
* *
2048933 TGTTTCAAGGGAAACTGTTTC-A-A-AG------TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
2048961 ATGTTTCAATAGAAACTATCTCAA-AGGAGACAAAA-TT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATTT
* *
2048998 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
** *** **
2049034 CATTTCAAG-GAAA-TGT-T------TTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
2049062 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
2049100 TGTTTCAAGGGAAACTATCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
2049132 TTTATTTCAA
Statistics
Matches: 234, Mismatches: 32, Indels: 65
0.71 0.10 0.20
Matches are distributed among these distances:
27 3 0.01
28 8 0.03
29 42 0.18
30 8 0.03
31 3 0.01
32 3 0.01
33 3 0.01
34 3 0.01
35 36 0.15
36 79 0.34
37 40 0.17
38 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:2048947 original size:29 final size:28
Alignment explanation
Indices: 2048915--2048986 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
2048905 GTTTAATGTA
*
2048915 AAACATATTCAAAGATTT-TGTTTCAAGGG
1 AAAC-TATTCAAAG-TTTATGTTTCAAGAG
* *
2048944 AAACTGTTTCAAAGTTTATGTTTCAATAG
1 AAACT-ATTCAAAGTTTATGTTTCAAGAG
2048973 AAACTATCTCAAAG
1 AAACTAT-TCAAAG
2048987 GAGACAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (28 bp):
AAACTATTCAAAGTTTATGTTTCAAGAG
Found at i:2049076 original size:101 final size:100
Alignment explanation
Indices: 2048935--2049210 Score: 402
Period size: 101 Copynumber: 2.8 Consensus size: 100
2048925 AAAGATTTTG
* * * *
2048935 TTTCAAGGGAAACTG-TTTCAAAGTTTATGTTTCAATAGAAACTATCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGCTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAAGGAGACAAAATTT
2048998 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTCA
* *
2049036 TTTCAA-GGAAATGTTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAATG-CTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAAGGAGACAAAATTT
*
2049100 TGTTTCAAGGGAAACTATCTCAAGAGAGACAATTTA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAATTCA
2049136 TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAG-AATTGTCTC-AAGG-GACAAAATTTT
1 TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAAGGAGACAAAATTTT
*
2049198 GTTCCAAGGGAAA
66 GTTTCAAGGGAAA
2049211 TGTTTTCAAT
Statistics
Matches: 162, Mismatches: 9, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
97 23 0.14
98 3 0.02
99 11 0.07
100 39 0.24
101 54 0.33
102 32 0.20
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (100 bp):
TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAAGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAATTCA
Found at i:2049145 original size:34 final size:36
Alignment explanation
Indices: 2049065--2049147 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
2049055 AATGTTTATG
* * * * *
2049065 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTTTA
2049102 TTTCAAGGGAAACTATCTCAAGAGAGAC-AA-TTTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAATTTTA
2049136 TTTCAAGGGAAA
1 TTTCAAGGGAAA
2049148 TGCTTTCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 15 0.37
35 2 0.05
37 24 0.59
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAATTTTA
Found at i:2049170 original size:63 final size:64
Alignment explanation
Indices: 2049100--2049272 Score: 217
Period size: 63 Copynumber: 2.7 Consensus size: 64
2049090 GACAAAATTT
* * *
2049100 TGTTTCAAGGGAAACTATCTCAAGAGAGACAATTTAT-TT-CAAGGGAAATGCTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATTT-TGTTCCAAGGGAAATGCTTTCAATGTTTA
* * * *
2049163 TGTTTCAAGAG-AATTGTCTCAAGGGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATTTTGTTCCAAGGGAAATGCTTTCAATGTTTA
* *
2049226 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGAC--AATTTTGTTCCAAGG
2049273 AAACTATCTC
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
61 1 0.01
62 20 0.22
63 43 0.46
64 15 0.16
66 14 0.15
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (64 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATTTTGTTCCAAGGGAAATGCTTTCAATGTTTA
Found at i:2049326 original size:162 final size:164
Alignment explanation
Indices: 2049042--2049337 Score: 517
Period size: 163 Copynumber: 1.8 Consensus size: 164
2049032 TTCATTTCAA
* *
2049042 GGAAATGTTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCA
1 GGAAATGTTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCA
* * *
2049107 AGGGAAACTATCTCAAGAGAGACAATTTATTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAG
66 AGGGAAACTATCTCAAGAGAGAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAG
2049172 AGAATTGTCTCAAGGGACAAAATTTTGTTCCAAG
131 AGAATTGTCTCAAGGGACAAAATTTTGTTCCAAG
2049206 GGAAATG-TTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCA
1 GGAAATGTTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCA
2049270 A-GGAAACTATCTCAAGAGAGATAAATTCATTTCAAGGGAAATG-TTTCAATGTTTATGTTTAAA
66 AGGGAAACTATCTCAAGAGAGA-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAA
2049333 GAGAA
130 GAGAA
2049338 ACTGTCCTCA
Statistics
Matches: 126, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
162 44 0.35
163 75 0.60
164 7 0.06
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (164 bp):
GGAAATGTTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCA
AGGGAAACTATCTCAAGAGAGAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAG
AGAATTGTCTCAAGGGACAAAATTTTGTTCCAAG
Found at i:2049342 original size:99 final size:103
Alignment explanation
Indices: 2049202--2049396 Score: 335
Period size: 99 Copynumber: 1.9 Consensus size: 103
2049192 AATTTTGTTC
2049202 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGT-CTCAAGGGAGACAAAA-TTT-T
1 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCCTCAAGGGAGACAAAACTTTCT
2049264 GTTTCAAGGAAACTATCTCAAGAGAGATAAATTCATTT
66 GTTTCAAGGAAACTATCTCAAGAGAGATAAATTCATTT
*
2049302 CAAGGGAAATG-TTTCAATGTTTATGTTTAAAGAGAAACTGTCCTCAAGTGAGACAAAACTTTCT
1 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCCTCAAGGGAGACAAAACTTTCT
* *
2049366 GTTTCGAGGAAACTATCTCAAGCGAGATAAA
66 GTTTCAAGGAAACTATCTCAAGAGAGATAAA
2049397 ATCTTGTTTT
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
99 30 0.34
100 26 0.29
101 3 0.03
102 30 0.34
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (103 bp):
CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCCTCAAGGGAGACAAAACTTTCT
GTTTCAAGGAAACTATCTCAAGAGAGATAAATTCATTT
Found at i:2055152 original size:2 final size:2
Alignment explanation
Indices: 2055145--2055171 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2055135 GTATACTTAA
2055145 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2055172 ATACTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2056474 original size:15 final size:16
Alignment explanation
Indices: 2056446--2056475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2056436 AAAAAATATA
2056446 AAAAAAAATCTAAAAC
1 AAAAAAAATCTAAAAC
2056462 AAAAAAAAT-TAAAA
1 AAAAAAAATCTAAAA
2056476 TTTTCAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAAATCTAAAAC
Found at i:2061066 original size:17 final size:16
Alignment explanation
Indices: 2061038--2061071 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2061028 ACCAATGATA
2061038 ATTGATAACGACAACG
1 ATTGATAACGACAACG
*
2061054 ATTGATCAACGACGACG
1 ATTGAT-AACGACAACG
2061071 A
1 A
2061072 AAATTGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (16 bp):
ATTGATAACGACAACG
Found at i:2061151 original size:16 final size:16
Alignment explanation
Indices: 2061102--2061151 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
2061092 AATTGACAAT
2061102 AAATTAAAGTATTTAA
1 AAATTAAAGTATTTAA
* **
2061118 AAATT-GA-TACAT-A
1 AAATTAAAGTATTTAA
2061131 AAATTAAAGTATTTAA
1 AAATTAAAGTATTTAA
2061147 AAATT
1 AAATT
2061152 GAAAAATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 6 0.24
14 4 0.16
15 4 0.16
16 11 0.44
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (16 bp):
AAATTAAAGTATTTAA
Found at i:2067045 original size:31 final size:27
Alignment explanation
Indices: 2066999--2067073 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 27
2066989 AGCGTCGAGC
*
2066999 TTAACGAGTAACGAGTCAAGCCACAAGTTT
1 TTAACGAGCAACGAGTCAAG-CA-AAG-TT
*
2067029 TCTCAACGAGC-ACGAGTCGAGCAAAGTT
1 T-T-AACGAGCAACGAGTCAAGCAAAGTT
2067057 TTAACGAGCAACGAGTC
1 TTAACGAGCAACGAGTC
2067074 GAGTTGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 7 0.17
27 8 0.20
28 3 0.08
29 3 0.08
30 3 0.08
31 10 0.25
32 6 0.15
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
TTAACGAGCAACGAGTCAAGCAAAGTT
Found at i:2067074 original size:27 final size:30
Alignment explanation
Indices: 2066999--2067076 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 30
2066989 AGCGTCGAGC
* *
2066999 TTAACGAGTAACGAGTCAAGCCACAAGTTT
1 TTAACGAGCAACGAGTCGAGCCACAAGTTT
2067029 TCTCAACGAGC-ACGAGTCGAG-CA-AAG-TT
1 T-T-AACGAGCAACGAGTCGAGCCACAAGTTT
2067057 TTAACGAGCAACGAGTCGAG
1 TTAACGAGCAACGAGTCGAG
2067077 TTGAACAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
26 7 0.16
27 11 0.26
28 3 0.07
29 3 0.07
30 3 0.07
31 10 0.23
32 6 0.14
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (30 bp):
TTAACGAGCAACGAGTCGAGCCACAAGTTT
Found at i:2072009 original size:60 final size:61
Alignment explanation
Indices: 2071888--2072027 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 61
2071878 TTTGGATGAA
* * * * **
2071888 TTTGGGGAT-AAAATTGAAAGATCTAAAAGTTTAGGGACCAATTTAGAATGAGATTTGTAG
1 TTTGGGGATGAAATTTGAAAGATCTAAAAGTTAAAGGACCAATTTAGAATGAGAGTCATAG
* * * *
2071948 TTTGGGGATGAAATTTGAATGTTC-AAAAGTTAAAGGACTAGTTTAGAATGAGAGTCATAG
1 TTTGGGGATGAAATTTGAAAGATCTAAAAGTTAAAGGACCAATTTAGAATGAGAGTCATAG
** *
2072008 TTTAAGGATGAAATTGGAAA
1 TTTGGGGATGAAATTTGAAA
2072028 TTTAAAAATT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
60 54 0.83
61 11 0.17
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (61 bp):
TTTGGGGATGAAATTTGAAAGATCTAAAAGTTAAAGGACCAATTTAGAATGAGAGTCATAG
Found at i:2072226 original size:22 final size:24
Alignment explanation
Indices: 2072195--2072251 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
2072185 ATGAGAAAAT
*
2072195 AAAATTACTTAAATTTA-A-TATA
1 AAAATAACTTAAATTTATACTATA
**
2072217 AAAATAACTTATTTTTATACTATA
1 AAAATAACTTAAATTTATACTATA
*
2072241 CAAATAACTTA
1 AAAATAACTTA
2072252 TTTTTACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 14 0.48
23 1 0.03
24 14 0.48
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATAACTTAAATTTATACTATA
Found at i:2072269 original size:24 final size:24
Alignment explanation
Indices: 2072216--2072270 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
2072206 AATTTAATAT
* *
2072216 AAAAATAACTTATTTTTATACTAT
1 AAAAATAACTTATTTTTACACTAA
* *
2072240 ACAAATAACTTATTTTTACATTAA
1 AAAAATAACTTATTTTTACACTAA
2072264 AAAAATA
1 AAAAATA
2072271 TGTATTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAATAACTTATTTTTACACTAA
Found at i:2072905 original size:112 final size:112
Alignment explanation
Indices: 2072682--2072905 Score: 272
Period size: 112 Copynumber: 2.0 Consensus size: 112
2072672 ATAATTCTAT
* * * *
2072682 ATAATTTAACTTATATCAAACTCAACCTGAATTGACATGAATATCCAAAGTTGACTCAATCCGAA
1 ATAATTTAACATATACCAAACTCAACCTGAATTGACATGAAGATCCAAAGTTGACTCAAGCCGAA
* * * * * *
2072747 AATAATTGATCAGATATTGTCCCGAATCTAAAATCAATCGATCCGAC
66 AATAATTGATCAGATATTGACCCGAACCTAAAACCAACCAACCCGAC
* * *
2072794 ATAATTTAACATATACCCAACTCAACCTGAATTGACCTGAAGATCCTAAGTTGACTCAAGCCGAA
1 ATAATTTAACATATACCAAACTCAACCTGAATTGACATGAAGATCCAAAGTTGACTCAAGCCGAA
* * *
2072859 AATAATTGATCGGA-ATTGACCC-AACCTTATACCCAAACCAACCCGAC
66 AATAATTGATCAGATATTGACCCGAACC-TAAAACC-AACCAACCCGAC
2072906 TTACTGTAGA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 3 0.03
111 11 0.12
112 80 0.85
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (112 bp):
ATAATTTAACATATACCAAACTCAACCTGAATTGACATGAAGATCCAAAGTTGACTCAAGCCGAA
AATAATTGATCAGATATTGACCCGAACCTAAAACCAACCAACCCGAC
Found at i:2073299 original size:13 final size:13
Alignment explanation
Indices: 2073281--2073307 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2073271 ATAATTATAG
2073281 ACACATATTTTTA
1 ACACATATTTTTA
2073294 ACACATATTTTTA
1 ACACATATTTTTA
2073307 A
1 A
2073308 TGTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ACACATATTTTTA
Found at i:2083860 original size:41 final size:42
Alignment explanation
Indices: 2083805--2083913 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
2083795 ATCCTACCCG
* * * *
2083805 AAGGTCTTATGGATGACCCGAAGGACTT-ATCATCCTGCTCTA
1 AAGG-CTTACGGATGACCCGAAGGACTTAAGCATCATGCTCAA
* *
2083847 AAGGCTTACGGATGACCCAAAGGATTTAAGCATCATGCTCAA
1 AAGGCTTACGGATGACCCGAAGGACTTAAGCATCATGCTCAA
* * *
2083889 AAGACTTACTGATGGCCCGAAGGAC
1 AAGGCTTACGGATGACCCGAAGGAC
2083914 ATACAAATCG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 20 0.36
42 35 0.64
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (42 bp):
AAGGCTTACGGATGACCCGAAGGACTTAAGCATCATGCTCAA
Found at i:2083946 original size:215 final size:215
Alignment explanation
Indices: 2083575--2084603 Score: 963
Period size: 213 Copynumber: 4.8 Consensus size: 215
2083565 ATCCTGGTGA
* * * * * *
2083575 AAAACATCCTGCTCGAAGGTCTTATTGATGGCCCGAAAGACTTATCATCCTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * *
2083640 CGGATGACCCGAAGGATTTAAGTACCATGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAA
*
2083705 ACCGTGAAATTTT-AAAACTCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
131 ATCGTGAAATTTTGAAAA-TCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
**
2083769 TTTAATTTTCAAATTCTTGTG
195 TTTAATTTTCAAATTAATGTG
*
2083790 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCCTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
2083855 CGGATGACCCAAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACATACAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAA
2083920 ATCGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TTT
*
2083985 TTTCATTTTCAAATTAATGTG
195 TTTAATTTTCAAATTAATGTG
* * * *
2084006 AAAACATCATACCCTAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * ** ** * * *** **
2084071 CAGATGACCCGAAAGACTTATAA--ATTATG----AAA-TTTTGA-AAATCGCATTC-TTCGTTT
66 CAGATGACCCGAAGGA-TT-TAAGCATCATGCTCAAAAGACTT-ACTGATGGC--CCGAAGGACT
* ** * * * * * *
2084127 TCAAAAAT--T-CCATCTTCTTAAAA-CATCATT-TTTCATTTTC--AAA-TT-A--ATGTGAAA
126 T-ACAAATCGTGAAAT-TT-TGAAAATC-GCATTCTTT-GTTTTCAAAAATTTCATCTTCTTAAA
* ***** ** ** ** *
2084181 ACATCCTACCCGAA-GGTCTTATGGATGGCCCG
186 ACATCATTTTTTAATTTTCAAATTAAT-G--TG
* * * * * * **
2084213 AAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTATCATCTTGCTCTAAA
1 AA--A---A-CATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAA
*
2084278 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGAC
60 GGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGAC
* * * *
2084343 TTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACAT
125 TTACAAATCGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACAT
*
2084408 CA-TTTTTCATTTTCAAATTAATGTG
190 CATTTTTTAATTTTCAAATTAATGTG
* ** * *
2084433 AAAACATCCTACCCAAAGGTCTTATGGATG-GTCGAAGGACTTATCATCTTTCTCTAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
2084497 CAGATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGCACTTACAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAA
* *
2084562 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATT
131 ATCGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATT
2084604 CCAACATCAT
Statistics
Matches: 650, Mismatches: 122, Indels: 86
0.76 0.14 0.10
Matches are distributed among these distances:
204 6 0.01
205 3 0.00
206 10 0.02
207 3 0.00
208 1 0.00
209 3 0.00
210 5 0.01
211 16 0.02
212 23 0.04
213 210 0.32
214 18 0.03
215 175 0.27
216 109 0.17
217 23 0.04
218 16 0.02
219 5 0.01
220 5 0.01
221 1 0.00
222 2 0.00
223 16 0.02
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAA
ATCGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
TTAATTTTCAAATTAATGTG
Found at i:2084227 original size:172 final size:173
Alignment explanation
Indices: 2083877--2084263 Score: 623
Period size: 172 Copynumber: 2.2 Consensus size: 173
2083867 AGGATTTAAG
* * * * * * *
2083877 CATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACATACAAATCGTGAAATTTTGAAAATCGC
1 CATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTATAAATCATGAAATTTTGAAAATCGC
* *
2083942 ATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTAATGTGA
66 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTTCATTTTCAAATTAATGTGA
* *
2084007 AAACATCATACCCTAAGGTTTTATGGATGGCCCGAAGGACTTAT
130 AAACATCATACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
* * *
2084051 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAAGACTTATAAATTATGAAATTTTGAAAATCGC
1 CATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTATAAATCATGAAATTTTGAAAATCGC
2084116 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTCATTTTCAAATTAATGTGAA
66 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAA
*
2084180 AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
131 AACATCATACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
2084223 CATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTAT
1 CATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTAT
2084264 CATCTTGCTC
Statistics
Matches: 196, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 104 0.53
174 92 0.47
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (173 bp):
CATCTTGCTCTAAAGACTTACAGATGACCCGAAGGACTTATAAATCATGAAATTTTGAAAATCGC
ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAA
AACATCATACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
Found at i:2084241 original size:21 final size:21
Alignment explanation
Indices: 2084216--2084283 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
2084206 TGGCCCGAAG
2084216 GACTTATCATCTTGCTCTAAA
1 GACTTATCATCTTGCTCTAAA
** * * *
2084237 GACTTA-CA-GATGACCCGAAG
1 GACTTATCATCTTG-CTCTAAA
2084257 GACTTATCATCTTGCTCTAAA
1 GACTTATCATCTTGCTCTAAA
2084278 GACTTA
1 GACTTA
2084284 CAGATGACCC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 18 0.53
22 2 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (21 bp):
GACTTATCATCTTGCTCTAAA
Found at i:2084262 original size:20 final size:20
Alignment explanation
Indices: 2084237--2084299 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
2084227 TTGCTCTAAA
2084237 GACTTACAGATGACCCGAAG
1 GACTTACAGATGACCCGAAG
** * * *
2084257 GACTTATCATCTTG-CTCTAAA
1 GACTTA-CA-GATGACCCGAAG
2084278 GACTTACAGATGACCCGAAG
1 GACTTACAGATGACCCGAAG
2084298 GA
1 GA
2084300 TTTAAGCATC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 12 0.40
22 2 0.07
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (20 bp):
GACTTACAGATGACCCGAAG
Found at i:2084337 original size:42 final size:41
Alignment explanation
Indices: 2084204--2084346 Score: 214
Period size: 41 Copynumber: 3.5 Consensus size: 41
2084194 AGGTCTTATG
*
2084204 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGACCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
2084245 GATGACCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGACCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
* * * * *
2084286 GATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACT
1 GATGACCCGAAGGACTT-ATCATCTTGCTCTAAAGACTTACA
*
2084328 GATGGCCCGAAGGACTTAT
1 GATGACCCGAAGGACTTAT
2084347 AAATTGTGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 57 0.62
42 35 0.38
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
Found at i:2084536 original size:255 final size:254
Alignment explanation
Indices: 2084032--2084558 Score: 831
Period size: 255 Copynumber: 2.1 Consensus size: 254
2084022 AGGTTTTATG
* * * *
2084032 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAAGACTTATAAATT
1 GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACAGATGACCCGAAAGACTTATAAATT
*
2084097 ATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCA
66 ATGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCA
*
2084162 TTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATC
131 TTTTCAAATTAATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATC
* * * *
2084227 TTGCTCTAAAGACTTACAGATGACCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
196 TTGCTCTAAAGACTTACAGATAACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * * * *
2084286 GATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCAAAAGACTTACAGATGACCCGAAAGACTTATAAAT
* *
2084351 TGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
65 TATGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTC
*
2084416 ATTTTCAAATTAATGTGAAAACATCCTACCCAAAGGTCTTATGGATGG-TCGAAGGACTTATCAT
130 ATTTTCAAATTAATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCAT
* * *
2084480 CTTTCTCTAAAGACTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
195 CTTGCTCTAAAGACTTACAGATAACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
*
2084541 GATGGCCCGAAGCACTTA
1 GATGGCCCGAAGGACTTA
2084559 CAAATTGTGA
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
254 64 0.26
255 183 0.74
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (254 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACAGATGACCCGAAAGACTTATAAATT
ATGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCA
TTTTCAAATTAATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATC
TTGCTCTAAAGACTTACAGATAACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:2095440 original size:7 final size:7
Alignment explanation
Indices: 2095430--2095481 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
2095420 GGAAAAAATG
2095430 AATAATA
1 AATAATA
2095437 AATAATA
1 AATAATA
2095444 AATAAT-
1 AATAATA
2095450 AATAAT-
1 AATAATA
2095456 -ATAATA
1 AATAATA
2095462 AATAA-A
1 AATAATA
2095468 TAATAATA
1 -AATAATA
2095476 AATAAT
1 AATAAT
2095482 GTATTATCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.12
6 7 0.17
7 28 0.68
8 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:2095443 original size:3 final size:3
Alignment explanation
Indices: 2095430--2095481 Score: 52
Period size: 3 Copynumber: 16.0 Consensus size: 3
2095420 GGAAAAAATG
2095430 AAT AAT AAAT AAT AAAT AAT AAT AAT -AT AAT AAAT AAAT AAT AAT AAAT
1 AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT -AAT
2095479 AAT
1 AAT
2095482 GTATTATCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.05
3 26 0.59
4 16 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2096051 original size:3 final size:3
Alignment explanation
Indices: 2096031--2096088 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
2096021 GTGTGGGCCT
*
2096031 ATA AAA ATA AT- ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2096076 ATA A-A TATA ATA A
1 ATA ATA -ATA ATA A
2096089 AATGTTTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.88
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2097280 original size:110 final size:106
Alignment explanation
Indices: 2097073--2097330 Score: 329
Period size: 110 Copynumber: 2.4 Consensus size: 106
2097063 GTATTGCTCC
* * * * *
2097073 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAAATAGAAAATTGTTTGTTGACAA
* * *
2097138 TCAGTCACCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 TCAGCCACACCTTCGTCGTGAAGTCGAGCTTGTGTTGTCTT
* * *
2097179 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGACTCTGAATAAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG---AAAATAGAAAA-TTGTTTGTTG
*
2097244 ACAATCAGCCGCACCTTCGTCGTGAAGTCGAGCTTGTGTTGTCTT
62 ACAATCAGCCACACCTTCGTCGTGAAGTCGAGCTTGTGTTGTCTT
* * * *
2097289 GGGTCCAATATCATTCGCTGTGAATTTGAAATTGGCTC-GAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAA
2097331 TTGGGAAGCC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
106 38 0.29
109 9 0.07
110 83 0.64
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAAATAGAAAATTGTTTGTTGACAA
TCAGCCACACCTTCGTCGTGAAGTCGAGCTTGTGTTGTCTT
Found at i:2101318 original size:3 final size:3
Alignment explanation
Indices: 2101305--2101364 Score: 59
Period size: 3 Copynumber: 18.3 Consensus size: 3
2101295 GGAAAAAATG
2101305 AAT AAT AAAT AAT AAAT AAT AAT AAT AA- AAT AAAT AAT AAT AAT AAAT
1 AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT
2101353 AAAT AAAT AAT A
1 -AAT -AAT AAT A
2101365 GTAAATAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.04
3 30 0.58
4 20 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2101337 original size:21 final size:20
Alignment explanation
Indices: 2101305--2101364 Score: 97
Period size: 18 Copynumber: 3.0 Consensus size: 20
2101295 GGAAAAAATG
2101305 AATAATAAATAATAAATAAT
1 AATAATAAATAATAAATAAT
2101325 AATAAT-AA-AATAAATAAT
1 AATAATAAATAATAAATAAT
2101343 AATAATAAATAAATAAATAAT
1 AATAATAAAT-AATAAATAAT
2101364 A
1 A
2101365 GTAAATAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 16 0.43
19 4 0.11
20 6 0.16
21 11 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAATAAATAATAAATAAT
Found at i:2101370 original size:18 final size:17
Alignment explanation
Indices: 2101300--2101372 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 17
2101290 AAAAAGGAAA
2101300 AAATGAATAATAA-ATAAT
1 AAAT-AATAATAATA-AAT
2101318 AAATAATAATAATAAAAT
1 AAATAATAATAAT-AAAT
2101336 AAATAATAATAATAAAT
1 AAATAATAATAATAAAT
*
2101353 AAATAAATAATAGTAAAT
1 AAAT-AATAATAATAAAT
2101371 AA
1 AA
2101373 TGTATTATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.31
18 34 0.67
19 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:2101883 original size:33 final size:33
Alignment explanation
Indices: 2101845--2101926 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
2101835 AGTCCTACTT
*
2101845 GGACTCAAATGC-TTCGGTTTTAGTGTTTCAATA
1 GGACTCAAATACGTT-GGTTTTAGTGTTTCAATA
* *
2101878 TGACTCAAATACGTTGGTTTTAGTGTTTTAATA
1 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
2101911 GGACTCAAATACGTTG
1 GGACTCAAATACGTTG
2101927 ATTTATTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 42 0.95
34 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (33 bp):
GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
Found at i:2101994 original size:3 final size:3
Alignment explanation
Indices: 2101980--2102016 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
2101970 GGCCTACAAA
2101980 AAT AAT AA- AAT AAT AAT AAT AAT AAT AA- ATAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AA
2102017 AATGTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.10
3 27 0.87
4 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2103140 original size:106 final size:106
Alignment explanation
Indices: 2102955--2103168 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 106
2102945 GAACAACAAA
2102955 AAATGTATGTTTCATGAGATGATAAAAAGTATAGGTTTATTGCTAAAGATGTTTACAAGGTACTA
1 AAATGTATGTTTCATGAGATGATAAAAAGTATAGGTTTATTGCTAAAGATGTTTACAAGGTACTA
2103020 TTATATGGGGTAAGATTATAAAGAGACATGATTGAGCAGAT
66 TTATATGGGGTAAGATTATAAAGAGACATGATTGAGCAGAT
*
2103061 AAATGTATGTTTCATGAGATGATAAAAAGTATAGGTTTATTGCTAAAGATGTTTACAATGTACTA
1 AAATGTATGTTTCATGAGATGATAAAAAGTATAGGTTTATTGCTAAAGATGTTTACAAGGTACTA
*
2103126 TTATATGGGGTAAGATTATAAAGAGACATGATTGAGTAGAT
66 TTATATGGGGTAAGATTATAAAGAGACATGATTGAGCAGAT
2103167 AA
1 AA
2103169 GAATTTATTA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (106 bp):
AAATGTATGTTTCATGAGATGATAAAAAGTATAGGTTTATTGCTAAAGATGTTTACAAGGTACTA
TTATATGGGGTAAGATTATAAAGAGACATGATTGAGCAGAT
Found at i:2104806 original size:8 final size:8
Alignment explanation
Indices: 2104772--2104865 Score: 87
Period size: 8 Copynumber: 12.5 Consensus size: 8
2104762 GATTTTAGTG
2104772 AAAAAGAA
1 AAAAAGAA
*
2104780 AAACAGAGA
1 AAAAAGA-A
2104789 AAAAAG-A
1 AAAAAGAA
2104796 AAAAAGAA
1 AAAAAGAA
2104804 AAAAAG--
1 AAAAAGAA
*
2104810 AAAGAGAA
1 AAAAAGAA
2104818 AACAAAG--
1 AA-AAAGAA
2104825 AAAAAGAA
1 AAAAAGAA
2104833 AAAAAG--
1 AAAAAGAA
2104839 AAAAA-AA
1 AAAAAGAA
*
2104846 AAAGAGAA
1 AAAAAGAA
2104854 AAAAAGAA
1 AAAAAGAA
2104862 AAAA
1 AAAA
2104866 GACTATATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
6 14 0.20
7 13 0.19
8 34 0.49
9 9 0.13
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:2104819 original size:21 final size:22
Alignment explanation
Indices: 2104784--2104865 Score: 93
Period size: 21 Copynumber: 3.8 Consensus size: 22
2104774 AAAGAAAAAC
2104784 AGAG-AAAAAAGAAAA-AAGAA
1 AGAGAAAAAAAGAAAAAAAGAA
2104804 A-A-AAAGAAAGAGAAAACAAAGAA
1 AGAGAAA-AAA-AGAAAA-AAAGAA
*
2104827 AAAGAAAAAAAGAAAAAAA-AA
1 AGAGAAAAAAAGAAAAAAAGAA
2104848 AGAGAAAAAAAGAAAAAA
1 AGAGAAAAAAAGAAAAAA
2104866 GACTATATTG
Statistics
Matches: 54, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
19 3 0.06
20 4 0.07
21 25 0.46
22 3 0.06
23 12 0.22
24 4 0.07
25 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (22 bp):
AGAGAAAAAAAGAAAAAAAGAA
Found at i:2104824 original size:11 final size:10
Alignment explanation
Indices: 2104772--2104865 Score: 57
Period size: 9 Copynumber: 10.2 Consensus size: 10
2104762 GATTTTAGTG
2104772 AAAA-AGAAA
1 AAAAGAGAAA
*
2104781 AACAGAG-AA
1 AAAAGAGAAA
2104790 AAAAGA-AAA
1 AAAAGAGAAA
2104799 AAGAA-A-AAA
1 AA-AAGAGAAA
2104808 AGAAAGAGAAA
1 A-AAAGAGAAA
*
2104819 ACAA-AG---
1 AAAAGAGAAA
2104825 AAAA-AGAAA
1 AAAAGAGAAA
*
2104834 AAAAGAAAAAA
1 AAAAG-AGAAA
2104845 AAAAGAGAAA
1 AAAAGAGAAA
2104855 AAAAGA-AAA
1 AAAAGAGAAA
2104864 AA
1 AA
2104866 GACTATATTG
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
6 5 0.07
9 32 0.47
10 18 0.26
11 13 0.19
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAGAGAAA
Found at i:2104829 original size:29 final size:28
Alignment explanation
Indices: 2104784--2104867 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
2104774 AAAGAAAAAC
2104784 AGAG-AAAAAAGAAAAAAGAAAAAAAGAA
1 AGAGAAAAAAAG-AAAAAGAAAAAAAGAA
2104812 AGAGAAAACAAAGAAAAAGAAAAAAAGAA
1 AGAGAAAA-AAAGAAAAAGAAAAAAAGAA
*
2104841 A-A-AAAAAAGAGAAAAAAAGAAAAAAGA
1 AGAGAAAAAA-AGAAAAAGA-AAAAAAGA
2104868 CTATATTGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
26 2 0.04
27 12 0.24
28 13 0.25
29 20 0.39
30 4 0.08
ACGTcount: A:0.82, C:0.01, G:0.17, T:0.00
Consensus pattern (28 bp):
AGAGAAAAAAAGAAAAAGAAAAAAAGAA
Found at i:2104865 original size:36 final size:37
Alignment explanation
Indices: 2104772--2104867 Score: 146
Period size: 36 Copynumber: 2.7 Consensus size: 37
2104762 GATTTTAGTG
*
2104772 AAAAAGA-AAAACAGAGAAAAAAG-AAAAAAGAAAAA
1 AAAAAGAGAAAACAAAGAAAAAAGAAAAAAAGAAAAA
2104807 AAGAAAGAGAAAACAAAG-AAAAAGAAAAAAAGAAAAA
1 AA-AAAGAGAAAACAAAGAAAAAAGAAAAAAAGAAAAA
2104844 AAAAAGAGAAAA-AAAGAAAAAAGA
1 AAAAAGAGAAAACAAAGAAAAAAGA
2104868 CTATATTGCA
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
35 6 0.11
36 28 0.50
37 22 0.39
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (37 bp):
AAAAAGAGAAAACAAAGAAAAAAGAAAAAAAGAAAAA
Found at i:2113584 original size:74 final size:74
Alignment explanation
Indices: 2113463--2113610 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
2113453 TGACTTTTTC
2113463 ACCTGTGCTTAACTAGTGACATTTCACATGTCACATCATCACTTTGGGTGACATGGTATGTGACA
1 ACCTGTGCTTAACTAGTGACATTTCACATGTCACATCATCACTTTGGGTGACATGGTATGTGACA
2113528 TGTTATCAA
66 TGTTATCAA
2113537 ACCTGTGCTTAACTAGTGACATTTCACATGTCACATCATCACTTTGGGTGACATGGTATGTGACA
1 ACCTGTGCTTAACTAGTGACATTTCACATGTCACATCATCACTTTGGGTGACATGGTATGTGACA
2113602 TGTTATCAA
66 TGTTATCAA
2113611 GTAAGCATAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (74 bp):
ACCTGTGCTTAACTAGTGACATTTCACATGTCACATCATCACTTTGGGTGACATGGTATGTGACA
TGTTATCAA
Found at i:2113603 original size:37 final size:37
Alignment explanation
Indices: 2113488--2113604 Score: 96
Period size: 37 Copynumber: 3.2 Consensus size: 37
2113478 GTGACATTTC
2113488 ACATGTCACATCATCACTTTGGGTGACATGGTATGTG
1 ACATGTCACATCATCACTTTGGGTGACATGGTATGTG
* * * ** * ** * *
2113525 ACATGT--TATCA-AACCTGTGCTTAACTAGTGACATTTC
1 ACATGTCACATCATCA-CTTTGGGTGAC-A-TGGTATGTG
2113562 ACATGTCACATCATCACTTTGGGTGACATGGTATGTG
1 ACATGTCACATCATCACTTTGGGTGACATGGTATGTG
2113599 ACATGT
1 ACATGT
2113605 TATCAAGTAA
Statistics
Matches: 54, Mismatches: 20, Indels: 12
0.63 0.23 0.14
Matches are distributed among these distances:
34 1 0.02
35 11 0.20
36 1 0.02
37 28 0.52
38 1 0.02
39 11 0.20
40 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (37 bp):
ACATGTCACATCATCACTTTGGGTGACATGGTATGTG
Found at i:2122094 original size:4 final size:4
Alignment explanation
Indices: 2122085--2122109 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2122075 TTAGAAAATT
2122085 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
2122110 AGGTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:2122882 original size:22 final size:22
Alignment explanation
Indices: 2122857--2122905 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
2122847 ACCGTTGATT
*
2122857 GGTCTGACCATTGACCTTGACC
1 GGTCAGACCATTGACCTTGACC
** *
2122879 GGTCAGACTGTTGACTTTGACC
1 GGTCAGACCATTGACCTTGACC
*
2122901 AGTCA
1 GGTCA
2122906 TATGTTGACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (22 bp):
GGTCAGACCATTGACCTTGACC
Found at i:2122913 original size:21 final size:22
Alignment explanation
Indices: 2122867--2122918 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
2122857 GGTCTGACCA
* *
2122867 TTGACCTTGACCGGTCAGACTG
1 TTGACTTTGACCAGTCAGACTG
*
2122889 TTGACTTTGACCAGTCATA-TG
1 TTGACTTTGACCAGTCAGACTG
2122910 TTGACTTTG
1 TTGACTTTG
2122919 CTCGGTCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (22 bp):
TTGACTTTGACCAGTCAGACTG
Found at i:2123778 original size:31 final size:31
Alignment explanation
Indices: 2123677--2123784 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
2123667 ACCTTGAGAT
* * *
2123677 CTTTCTTGGGTAGGTCCTACG-A-CCCCTAGAT
1 CTTTCTTGGGTAGG-CC-ACGTAGCTCCAAGAA
* * *
2123708 CTTTCTTGAGTAGTCCCCGTAGCTCCAAGAA
1 CTTTCTTGGGTAGGCCACGTAGCTCCAAGAA
*
2123739 CTTTCTTGGGTAGGCCATGTAGCTCCAAGAA
1 CTTTCTTGGGTAGGCCACGTAGCTCCAAGAA
*
2123770 CTTTCTTGGATAGGC
1 CTTTCTTGGGTAGGC
2123785 TCTTAAAACC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 59 0.92
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.31
Consensus pattern (31 bp):
CTTTCTTGGGTAGGCCACGTAGCTCCAAGAA
Found at i:2123798 original size:31 final size:31
Alignment explanation
Indices: 2123730--2123799 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
2123720 GTCCCCGTAG
* ** *
2123730 CTCCAAGAACTTTCTTGGGTAGGCCATGTAG
1 CTCCAAGAACTTTCTTGGATAGGCCATAAAA
*
2123761 CTCCAAGAACTTTCTTGGATAGGCTCTTAAAA
1 CTCCAAGAACTTTCTTGGATAGGC-CATAAAA
2123793 C-CCAAGA
1 CTCCAAGA
2123800 TGCTCTTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (31 bp):
CTCCAAGAACTTTCTTGGATAGGCCATAAAA
Found at i:2130534 original size:20 final size:21
Alignment explanation
Indices: 2130509--2130560 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2130499 TCAATTCCTT
2130509 TTTTGCATTTACA-TTTTGCA
1 TTTTGCATTTACATTTTTGCA
** *
2130529 TTTTGCATTCCCATTTTTTCA
1 TTTTGCATTTACATTTTTGCA
2130550 TCTTTGCATTT
1 T-TTTGCATTT
2130561 GCATGTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTTGCATTTACATTTTTGCA
Found at i:2134429 original size:214 final size:209
Alignment explanation
Indices: 2134047--2134469 Score: 792
Period size: 214 Copynumber: 2.0 Consensus size: 209
2134037 CTTTAAAAGA
*
2134047 GAAGATATTAAAATTGATATCTACATAGCTTGACGAGAAGGAATACGTTCTTCCAGATTTTAAGA
1 GAAGATATTAAAATTGATATCTACATAGCTTGACGAGAAGGAATACGTTATTCCAGATTTTAAGA
2134112 GTCGAAATATTGATAATACCAAAAACGATGATTTGTAGGACCATGATGATGAAACATAAATTTTG
66 GTCGAAATATTGATAATACCAAAAACGATGATTTGTAGGACCATGATGATGAAACATAAATTTTG
2134177 GATAGTCAAGTTAGGATCAATGGGATTAGGATTAGAAATTGGAATAGGAGGAGGATTTGGAGGTG
131 GATAGTCAAGTTAGGATCAATGGGATTAGGATTAGAAATTGGAATAGGAGGAGGATTTGGAGGTG
2134242 GATTTGGTTGACGG
196 GATTTGGTTGACGG
2134256 GAAGATATTTAAAATTGATATCTACATAGCTTGACGAGAAGGAATACGTTATTCCCAGATTTTGT
1 GAAGATA-TTAAAATTGATATCTACATAGCTTGACGAGAAGGAATACGTTATT-CCAGA-TTT-T
2134321 AAGAGTCGAAATATTGATAATACCAAAAACGATGATTTGTAGGACCATGATGATTGAAACATAAA
62 AAGAGTCGAAATATTGATAATACCAAAAACGATGATTTGTAGGACCATGATGA-TGAAACATAAA
2134386 TTTTGGATAGTCAAGTTAGGATCAATGGGATTAGGATTAGAAATTGGAATAGGAGGAGGATTTGG
126 TTTTGGATAGTCAAGTTAGGATCAATGGGATTAGGATTAGAAATTGGAATAGGAGGAGGATTTGG
2134451 AGGTGGATTTGGTTGACGG
191 AGGTGGATTTGGTTGACGG
2134470 TGTGAGCGAC
Statistics
Matches: 208, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
209 7 0.03
210 44 0.21
211 5 0.02
212 3 0.01
213 54 0.26
214 95 0.46
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (209 bp):
GAAGATATTAAAATTGATATCTACATAGCTTGACGAGAAGGAATACGTTATTCCAGATTTTAAGA
GTCGAAATATTGATAATACCAAAAACGATGATTTGTAGGACCATGATGATGAAACATAAATTTTG
GATAGTCAAGTTAGGATCAATGGGATTAGGATTAGAAATTGGAATAGGAGGAGGATTTGGAGGTG
GATTTGGTTGACGG
Found at i:2137183 original size:88 final size:89
Alignment explanation
Indices: 2137077--2137254 Score: 333
Period size: 88 Copynumber: 2.0 Consensus size: 89
2137067 ATCCTTCCTC
2137077 GGAAGGGATTATCATCGAAAACAACATGTGTAGACTCTTATACAACTAAAG-TTTTTTATTAAAT
1 GGAAGGGATTATCATCGAAAACAACATGTGTAGACTCTTATACAACTAAAGTTTTTTTATTAAAT
2137141 ACACGATAAGCTTTAGAA-TTAAG
66 ACACGATAAGCTTTAGAATTTAAG
2137164 GGAAGGGGATTATCATCGAAAACAACATGTGTAGACTCTTATACAACTAAAGTTTTTTTATTAAA
1 GGAA-GGGATTATCATCGAAAACAACATGTGTAGACTCTTATACAACTAAAGTTTTTTTATTAAA
2137229 TACACGATAAGCTTTAGAATTTAAG
65 TACACGATAAGCTTTAGAATTTAAG
2137254 G
1 G
2137255 AATAACCCAG
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
87 4 0.05
88 47 0.53
89 31 0.35
90 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (89 bp):
GGAAGGGATTATCATCGAAAACAACATGTGTAGACTCTTATACAACTAAAGTTTTTTTATTAAAT
ACACGATAAGCTTTAGAATTTAAG
Found at i:2141073 original size:13 final size:13
Alignment explanation
Indices: 2141052--2141092 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2141042 ATGCGAGGAT
*
2141052 AAAAGCAAAGAAA
1 AAAAACAAAGAAA
2141065 AAAAACAAAGAAA
1 AAAAACAAAGAAA
*
2141078 AAAGA-AAAGAAA
1 AAAAACAAAGAAA
2141090 AAA
1 AAA
2141093 TATGACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAACAAAGAAA
Found at i:2141078 original size:11 final size:12
Alignment explanation
Indices: 2141052--2141092 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
2141042 ATGCGAGGAT
*
2141052 AAAAGCAAAGAA
1 AAAAGAAAAGAA
*
2141064 AAAAAACAAAGAA
1 AAAAGA-AAAGAA
2141077 AAAAGAAAAGAA
1 AAAAGAAAAGAA
2141089 AAAA
1 AAAA
2141093 TATGACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:2143060 original size:101 final size:99
Alignment explanation
Indices: 2142875--2143231 Score: 432
Period size: 101 Copynumber: 3.5 Consensus size: 99
2142865 CTTTGAGATT
* * **
2142875 GTTTCCTTTGAAACAAAGTTTTGTCTCTCTTGAGACA-ATTCTTTTCGAAACAAAAGTCTTTGAA
1 GTTTCC-TTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCCCTT-GAAACAAAA-TCTTTGAA
2142939 TATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
62 TATG-TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
2142978 ATTTCTCTTGAAACAAGTTTTTTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATCTTTGAATAT
1 GTTTC-CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* *
2143043 GTTCCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
65 GTT-CCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
2143079 GTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTCAAACACAAATCTTTGAGAT-
1 GTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGA-ATA
* *
2143143 CGTATCCCTTGAAACGAAA-TTTGTATCTCTTGAGACA
64 TGT-TCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* * *
2143180 GTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCATGAAACAA
1 GTTT-CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
2143232 GTTTTGTCTC
Statistics
Matches: 221, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
100 42 0.19
101 88 0.40
102 72 0.33
103 18 0.08
104 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (99 bp):
GTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:2143094 original size:35 final size:35
Alignment explanation
Indices: 2143048--2143128 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
2143038 AATATGTTCC
2143048 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
1 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
*
2143083 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTT
1 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
*
2143118 CTCTTCAAACA
1 C-CTTGAAACA
2143129 CAAATCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 35 0.81
36 8 0.19
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (35 bp):
CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
Found at i:2143187 original size:36 final size:35
Alignment explanation
Indices: 2142942--2143537 Score: 464
Period size: 36 Copynumber: 17.4 Consensus size: 35
2142932 CTTTGAATAT
2142942 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * * * * *
2142978 ATTTCTCTTGAAACAAGTTTTTTCTCCCTTGAGATA
1 GTTTCCCTTGAAACAA-ATTTGTCTCTCTTGAGACA
* *
2143014 GTTTCCCTTGAAACAAA-----ATCT-TTGA-ATA
1 GTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACA
* *
2143042 TGTTCCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 -GTTTCCCTTGAAACAAATTT-GTCTCTCTTGAGACA
*
2143079 GTTT-CCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * *
2143114 GTTTCTCTTCAAACACAA-----ATCT-TTGAGATC-
1 GTTTCCCTTGAAACA-AATTTGTCTCTCTTGAGA-CA
* *
2143144 GTATCCCTTGAAACGAAATTTGTATCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTGTCTCTCTTGAGACA
*
2143180 GTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * *
2143216 GTTTCCCATGAAACAAGTTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAA-ATTTGTCTCTCTTGAGACA
** * *
2143252 G-TTCATGTTGAAACAAA-----ATCT-TTGA-ATA
1 GTTTC-CCTTGAAACAAATTTGTCTCTCTTGAGACA
* *
2143280 TGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACA
1 -GTTTCCCTTGAAACAAATTT-GTCTCTCTTGAGACA
2143317 GTTTCCC-TGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * *
2143352 GTTTCCCTTGAAACAAGTTTTGTCTCCCTAGAGACA
1 GTTTCCCTTGAAACAA-ATTTGTCTCTCTTGAGACA
* * **
2143388 GTTTCTCTTGAAAC--A--CGAATCT-TTGAGATC-
1 GTTTCCCTTGAAACAAATTTGTCTCTCTTGAGA-CA
* *
2143418 GTTTCCCTTGAAACAAATTTTGTCTCTCTTAAAACA
1 GTTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACA
2143454 GTTTCCCTT-AAA-AAATTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACA
* *
2143487 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAA-ATTTGTCTCTCTTGAGACA
*
2143523 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
2143538 CCAATATTTG
Statistics
Matches: 446, Mismatches: 65, Indels: 98
0.73 0.11 0.16
Matches are distributed among these distances:
28 5 0.01
29 35 0.08
30 44 0.10
31 8 0.02
32 1 0.00
33 25 0.06
34 6 0.01
35 85 0.19
36 231 0.52
37 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (35 bp):
GTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACA
Found at i:2143271 original size:137 final size:137
Alignment explanation
Indices: 2142942--2143606 Score: 754
Period size: 136 Copynumber: 4.9 Consensus size: 137
2142932 CTTTGAATAT
* * * **
2142942 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA-AGTTTTTTCTCCC
1 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACA----AATCT---
* * * * *
2143006 TTGAGATAGTTTCCCTTGAAACAAA-----ATCT-TTGA-ATATGTTCCCCTTGAAACAAATTTC
59 TTGAGATCGTATCCCTTGAAACAAATTTGTATCTCTTGAGACA-GTTTCCCTTGAAACAAATTTT
*
2143064 GTCTCCCTTGAGACA
123 GTCTCTCTTGAGACA
* *
2143079 GTTT-CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTCAAACACAAATCTTTGAGAT
1 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGAT
*
2143143 CGTATCCCTTGAAACGAAATTTGTATCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTC
66 CGTATCCCTTGAAAC-AAATTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTC
2143208 TTGAGACA
130 TTGAGACA
* *
2143216 GTTTCCCATGAAACAAGTTTTGTCTCCCTTGAGACAG-TTCATGTTGAAACA-AAATCTTTGA-A
1 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTC-TCTTGAAACACAAATCTTTGAGA
* * *
2143278 TATGTTTCCCTTGAAACAAATTT-CATCTCCCTTGAGACAGTTTCCC-TGAAACAAATTTTGTCT
65 T-CGTATCCCTTGAAACAAATTTGTATCT--CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCT
2143341 CTCTTGAGACA
127 CTCTTGAGACA
* *
2143352 GTTTCCCTTGAAACAAGTTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACACGAATCTTTGAGAT
1 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGAT
* * * *
2143417 CGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAAACAGTTTCCCTT-AAA-AAA-TTTGTCTCTC
66 CGTATCCCTTGAAACAAA-TTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTC
2143479 TTGAGACA
130 TTGAGACA
* *
2143487 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCAATATTTGAGAT
1 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGAT
* * * * * *
2143552 -TTATTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAA
66 CGTA--TCCCTTGAAACAA-ATTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAA
2143607 ATCTTTAAAT
Statistics
Matches: 463, Mismatches: 40, Indels: 49
0.84 0.07 0.09
Matches are distributed among these distances:
130 20 0.04
131 3 0.01
133 3 0.01
134 1 0.00
135 84 0.18
136 164 0.35
137 136 0.29
138 49 0.11
139 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (137 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGAT
CGTATCCCTTGAAACAAATTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
TGAGACA
Found at i:2143424 original size:238 final size:234
Alignment explanation
Indices: 2142875--2143502 Score: 713
Period size: 238 Copynumber: 2.6 Consensus size: 234
2142865 CTTTGAGATT
* * * *
2142875 GTTTCCTTTGAAACAAAGTTTTGTCTCTCTTGAGACA-ATTCTTTTCGAAACAAAAGTCTTTGA-
1 GTTTCCCTTGAAAC-AAGTTTTGTCTC-CTTGAGACAGTTTCTCTT-GAAACAGAA-TCTTTGAG
* * * *
2142938 ATATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAGTTTTTTCT
62 AT-CGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC-CCTGAAACAAGTTTTGTCT
* *
2143003 CCCTTGAGATAGTTTCCCTTGAAACAAAATCTTTGAATATGTTCCCCTTGAAACAAATTTCGTCT
125 CCCTTGAGACAG-TTCCCTTGAAACAAAATCTTTGAATATGTTCCCCTTGAAACAAATTTCATCT
*
2143068 CCCTTGAGACAGTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACA
189 CCCTTGAGACAGTTTCCCTGAAACAAATTTTGTCTCCCTTGAGACA
* * ** * * *
2143114 GTTTCTCTTCAAACACA----AATCT--TTGAGATC-GTATCCCTTGAAACGAAATTTGTATCTC
1 GTTTCCCTTGAAACA-AGTTTTGTCTCCTTGAGA-CAGTTTCTCTTGAAAC---A---GAATCT-
*
2143172 TTGAGA-CAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCATGAAACAAGTTT
57 TTGAGATC-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC-TGAAACAAGTTT
** *
2143236 TGTCTCCCTTGAGACAGTTCATGTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTT
120 TGTCTCCCTTGAGACAGTTC-CCTTGAAACAAAATCTTTGAATATGTTCCCCTTGAAACAAATTT
*
2143301 CATCTCCCTTGAGACAGTTTCCCTGAAACAAATTTTGTCTCTCTTGAGACA
184 CATCTCCCTTGAGACAGTTTCCCTGAAACAAATTTTGTCTCCCTTGAGACA
*
2143352 GTTTCCCTTGAAACAAGTTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACACGAATCTTTGAGAT
1 GTTTCCCTTGAAACAAGTTTTGTCT-CCTTGAGACAGTTTCTCTTGAAACA-GAATCTTTGAGAT
* * * * *
2143417 CGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAAACAGTTTCCCTTAAA-AA-ATTTGTCTCTCT
64 CGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTGAAACAAGTTTTGTCTCCCT
2143480 TGAGACAGTTTCCCTTGAAACAA
129 TGAGACAG-TTCCCTTGAAACAA
2143503 GTTTTGTCTC
Statistics
Matches: 325, Mismatches: 40, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
232 11 0.03
233 5 0.02
235 31 0.10
236 5 0.02
237 12 0.04
238 220 0.68
239 19 0.06
241 4 0.01
243 1 0.00
244 17 0.05
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (234 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCCTTGAGACAGTTTCTCTTGAAACAGAATCTTTGAGATCG
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTGAAACAAGTTTTGTCTCCCTTG
AGACAGTTCCCTTGAAACAAAATCTTTGAATATGTTCCCCTTGAAACAAATTTCATCTCCCTTGA
GACAGTTTCCCTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:2143572 original size:67 final size:64
Alignment explanation
Indices: 2143488--2143670 Score: 217
Period size: 67 Copynumber: 2.8 Consensus size: 64
2143478 CTTGAGACAG
* * * *
2143488 TTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCAATATTTGAGATT
1 TTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTC-CTTGAAACA-AAATATTT-AAATA
2143553 TA
63 TA
* *
2143555 TTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATCTTTAAATATA
1 TTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTT-CCTTGAAACAAAATATTTAAATATA
* *
2143620 TTTCCCTTT-AAACGAA-TTTTGTCTCACTAGAGACAGTTTCCTTTGAAACAA
1 TTT-CCTTTGAAAC-AAGTTTTGTCTCCCTTGAGACAGTTTCC-TTGAAACAA
2143671 TAAATTTTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
64 2 0.02
65 41 0.40
66 13 0.13
67 46 0.45
68 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (64 bp):
TTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCCTTGAAACAAAATATTTAAATATA
Found at i:2143770 original size:73 final size:73
Alignment explanation
Indices: 2143640--2143853 Score: 211
Period size: 73 Copynumber: 2.9 Consensus size: 73
2143630 AACGAATTTT
* * *
2143640 GTCTCACT-AGAGACAGTTT-CCTTTGAAACAATAAATTTTATCTTACTCGAGATGGTTTTTCTT
1 GTCTCACTGA-AGACAGTTTCCCTTCGAAAC-A-AAA-TCTATCTCACTCGAGATGGTTTTTCTT
2143703 AAAACCAACTTC
62 AAAACCAACTTC
* * * *
2143715 GTCTCTCTTG-AGACAGTTTTCCC-TCGAAACAAAATCTATCTCACTTGAGATGGTTTTGCCTAA
1 GTCTCAC-TGAAGACAG-TTTCCCTTCGAAACAAAATCTATCTCACTCGAGATGGTTTTTCTTAA
* *
2143778 ATCCAACTTT
64 AACCAACTTC
* * * * * *
2143788 GTCTCACTGAATATAGTTTCCCTTCGAAACAAAATTTATCTCACTCGAGATAGCTTCTCTTAAAA
1 GTCTCACTGAAGACAGTTTCCCTTCGAAACAAAATCTATCTCACTCGAGATGGTTTTTCTTAAAA
2143853 C
66 C
2143854 AAGTTTCTTA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
72 8 0.07
73 77 0.68
74 3 0.03
75 13 0.12
76 10 0.09
77 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (73 bp):
GTCTCACTGAAGACAGTTTCCCTTCGAAACAAAATCTATCTCACTCGAGATGGTTTTTCTTAAAA
CCAACTTC
Found at i:2144359 original size:133 final size:134
Alignment explanation
Indices: 2144111--2144600 Score: 531
Period size: 133 Copynumber: 3.6 Consensus size: 134
2144101 AGGTAAATCA
* *
2144111 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCAAATGGAGAGTTCATAAT--GAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
** * * *
2144176 TAATGAGAAGAGTTTGTTCGACCTATCACTCGATTCACGACATTTAGAATCAGTGACACCTCACT
64 TAATGAGAAGAACTTGTTCGACTTATCACTCGATTCATGGCATTTAGAATCAGTGACACCTCACT
2144241 TGAGGG
129 TGAGGG
** *
2144247 ATTGACATTTCAAATAGAGAGTTCATAAT-AAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
1 ATCAACATTTCAAATGGAGAGTTCATAATGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
* * * ** **
2144311 ATGAGAAGAGCTTGTTCGGCTTATCACTCGATTCATGGCATTTCGAATCAGTGACTTCTTGCTTG
66 ATGAGAAGAACTTGTTCGACTTATCACTCGATTCATGGCATTTAGAATCAGTGACACCTCACTTG
2144376 AGGG
131 AGGG
* * ** * *
2144380 ATCAACATTCCAAATTGAGAGTTCATAATGAAAAGAACTCATCAAATA-AGGGAGAAAAAGTTCA
1 ATCAACATTTCAAATGGAGAGTTCATAATG--AAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
* * * * * *
2144444 TAATGAGAAGAACTTGTTCAACCTTA--GCTCGATTCATCGTATATGGAGTTGAATCAGTAACAC
64 TAATGAGAAGAACTTGTTCGA-CTTATCACTCGATTCATGGCAT-T----TAGAATCAGTGACAC
*
2144507 CTCACTCGAGGG
123 CTCACTTGAGGG
* * * *
2144519 ATCAACATTTCAAGTGGAGAGTTTATAATGAGAATAACTCATCCGA-TGAGGGAGAAGAAGTTCA
1 ATCAACATTTCAAATGGAGAGTTCATAAT--GAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
2144583 TAATGAGAAGAACTTGTT
64 TAATGAGAAGAACTTGTT
2144601 TAACCTTAGC
Statistics
Matches: 297, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
133 118 0.40
134 13 0.04
135 34 0.11
136 42 0.14
139 89 0.30
141 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (134 bp):
ATCAACATTTCAAATGGAGAGTTCATAATGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCGACTTATCACTCGATTCATGGCATTTAGAATCAGTGACACCTCACTTG
AGGG
Found at i:2145985 original size:20 final size:21
Alignment explanation
Indices: 2145962--2146001 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2145952 ATGTCTTTGT
2145962 ATTTAATAGTA-ATTTTCAAC
1 ATTTAATAGTATATTTTCAAC
* *
2145982 ATTTACTCGTATATTTTCAA
1 ATTTAATAGTATATTTTCAA
2146002 GTTTCTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTTAATAGTATATTTTCAAC
Found at i:2152160 original size:21 final size:21
Alignment explanation
Indices: 2152136--2152184 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2152126 ATCAGATATC
2152136 CGGATATTCGATCCGAAATTT
1 CGGATATTCGATCCGAAATTT
2152157 CGGATATTCGATCCGAAATTT
1 CGGATATTCGATCCGAAATTT
2152178 CGGATAT
1 CGGATAT
2152185 CCGAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (21 bp):
CGGATATTCGATCCGAAATTT
Found at i:2152188 original size:16 final size:16
Alignment explanation
Indices: 2152167--2152231 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
2152157 CGGATATTCG
2152167 ATCCGAAATTTCGGAT
1 ATCCGAAATTTCGGAT
**
2152183 ATCCGAAATTT-TAAT
1 ATCCGAAATTTCGGAT
* *
2152198 GATCCAAAATTTTTGGAT
1 -ATCCGAAA-TTTCGGAT
2152216 ATCCGAAATTTCGGAT
1 ATCCGAAATTTCGGAT
2152232 CGAATGCATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 2 0.05
16 25 0.64
17 10 0.26
18 2 0.05
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (16 bp):
ATCCGAAATTTCGGAT
Found at i:2157037 original size:21 final size:21
Alignment explanation
Indices: 2157007--2157168 Score: 138
Period size: 21 Copynumber: 7.8 Consensus size: 21
2156997 GATTTACATA
*
2157007 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2157028 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
2157049 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
2157070 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
2157089 TTTGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
2157112 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2157131 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
2157154 TT--CGTTGCGATAGTC
1 TTCGCGTTGCGATAGTC
2157169 TAAAATCGCA
Statistics
Matches: 113, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
19 27 0.24
21 70 0.62
23 16 0.14
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2157059 original size:42 final size:41
Alignment explanation
Indices: 2157032--2157168 Score: 240
Period size: 42 Copynumber: 3.3 Consensus size: 41
2157022 TCCAAGTTCG
2157032 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
*
2157072 CGTTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
2157114 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
2157156 CGTTGCGATAGTC
1 CGTTGCGATAGTC
2157169 TAAAATCGCA
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 28 0.30
41 2 0.02
42 63 0.68
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:2157810 original size:6 final size:6
Alignment explanation
Indices: 2157799--2157829 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2157789 TCTCGGGTCG
2157799 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA T
2157830 ACGTATCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
TGGTAA
Found at i:2157950 original size:21 final size:21
Alignment explanation
Indices: 2157924--2158077 Score: 108
Period size: 21 Copynumber: 7.4 Consensus size: 21
2157914 ATTTTGGACT
2157924 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
2157945 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
2157966 ATCGCTACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * * *
2157987 ATTGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2158008 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
2158027 ATCGCAACGCGAAATTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2158048 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
2158069 ATCGCAACG
1 ATCGCAACG
2158078 CGAACTTCGA
Statistics
Matches: 99, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
19 33 0.33
21 47 0.47
23 19 0.19
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:2157976 original size:42 final size:42
Alignment explanation
Indices: 2157920--2158140 Score: 315
Period size: 42 Copynumber: 5.3 Consensus size: 42
2157910 TGCGATTTTG
*
2157920 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
2157962 GACTATCGCTACGAATTTGGAATAAATTGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
2158004 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAATTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2158044 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * * * *
2158086 GACTAACGCAACGCGAACTTCGACT--ATCGCAATGCGAACTTC
1 GACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTC
2158128 GACTATCGCAACG
1 GACTATCGCAACG
2158141 CGAACTTCGA
Statistics
Matches: 162, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
40 39 0.24
41 2 0.01
42 112 0.69
44 9 0.06
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:2158095 original size:21 final size:21
Alignment explanation
Indices: 2157945--2158226 Score: 274
Period size: 21 Copynumber: 13.6 Consensus size: 21
2157935 TTTGGAATAA
*
2157945 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
2157966 ATCGCTA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
2157985 AAATTGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
2158008 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
2158027 ATCGCAACGCGAAATTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
2158048 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
2158067 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
*
2158090 AACGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
2158111 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
2158132 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
2158153 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
2158172 ATCGCAACGCGAACTTCAACT
1 ATCGCAACGCGAACTTCGACT
2158193 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
2158214 ATCGCAATGCGAA
1 ATCGCAACGCGAA
2158227 TATGTAAATC
Statistics
Matches: 211, Mismatches: 38, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
19 49 0.23
21 144 0.68
23 18 0.09
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:2158176 original size:124 final size:123
Alignment explanation
Indices: 2157924--2158226 Score: 321
Period size: 124 Copynumber: 2.4 Consensus size: 123
2157914 ATTTTGGACT
* * * *
2157924 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCTA-CGAATTTGGAATAAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAGCGAACTTCGAAT-AA
* * * **
2157988 TTGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAATTCGACT
65 TCGCAACGCGAACTTCGACTATCGCAACGAACTTCGAAAATCGCAAC-CGAAATTCGAAA
* *
2158048 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTAACGCAACGCGAACTTCGACT-A
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA-GCGAACTTCGAATAA
* ** * *
2158112 TCGCAATGCGAACTTCGACTATCGCAACGCGAACTTCGACTATCGCAA-CGAATTTGGAAA
65 TCGCAACGCGAACTTCGACTATCGCAA--CGAACTTCGAAAATCGCAACCGAAATTCGAAA
* *
2158172 ATCGCAACGCGAACTT-CAACT--ATCGCAACGCGAACTTCGACTATCGCAATGCGAA
1 ATCGCAA--CGAATTTGGAA-TAAATCGCAACGCGAACTTCGACTATCGCAA-GCGAA
2158227 TATGTAAATC
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
124 119 0.78
125 2 0.01
126 31 0.20
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (123 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAGCGAACTTCGAATAAT
CGCAACGCGAACTTCGACTATCGCAACGAACTTCGAAAATCGCAACCGAAATTCGAAA
Found at i:2158221 original size:103 final size:105
Alignment explanation
Indices: 2157990--2158226 Score: 383
Period size: 103 Copynumber: 2.3 Consensus size: 105
2157980 GGAATAAATT
* *
2157990 GCAACGCGAACTTCGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAAATTCGACTATCGC
1 GCAACGCGAACTTCGACTATCGCAATGCGAACTTCGAAAATCGCAACGCGAAATTCGACTATCGC
*
2158053 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTAAC
66 AACGAATTTGGAATAAATCGCAACGCGAACTTCAACTAAC
** *
2158093 GCAACGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAACGCGAACTTCGACTATCGC
1 GCAACGCGAACTTCGACTATCGCAATGCGAACTTCGAAAATCGCAACGCGAAATTCGACTATCGC
*
2158158 AACGAATTTGG-A-AAATCGCAACGCGAACTTCAACTATC
66 AACGAATTTGGAATAAATCGCAACGCGAACTTCAACTAAC
2158196 GCAACGCGAACTTCGACTATCGCAATGCGAA
1 GCAACGCGAACTTCGACTATCGCAATGCGAA
2158227 TATGTAAATC
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
103 80 0.64
104 1 0.01
105 44 0.35
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (105 bp):
GCAACGCGAACTTCGACTATCGCAATGCGAACTTCGAAAATCGCAACGCGAAATTCGACTATCGC
AACGAATTTGGAATAAATCGCAACGCGAACTTCAACTAAC
Found at i:2169114 original size:20 final size:20
Alignment explanation
Indices: 2169089--2169140 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2169079 TTTATAAACT
2169089 TAACTTGATTTAAAAAAATA
1 TAACTTGATTTAAAAAAATA
*
2169109 TAACTTGATTTAAAAATATA
1 TAACTTGATTTAAAAAAATA
2169129 TAACTTGATTTA
1 TAACTTGATTTA
2169141 GTAACTAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (20 bp):
TAACTTGATTTAAAAAAATA
Found at i:2169844 original size:22 final size:22
Alignment explanation
Indices: 2169807--2169892 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 22
2169797 TACGTATATA
2169807 ACAAAAGTGC-CTTAGCACTGAT
1 ACAAAAGTGCAC-TAGCACTGAT
* *
2169829 ACAAAAGTGCACTAGCATTGGCT
1 ACAAAAGTGCACTAGCACT-GAT
* * *
2169852 -CAAAAGTACAATCGCACTGAT
1 ACAAAAGTGCACTAGCACTGAT
*
2169873 ATAAAAGTGTCA-TAGCACTG
1 ACAAAAGTG-CACTAGCACTG
2169893 GGGGGAGATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.04
22 43 0.86
23 5 0.10
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (22 bp):
ACAAAAGTGCACTAGCACTGAT
Found at i:2170193 original size:20 final size:20
Alignment explanation
Indices: 2170168--2170212 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2170158 GGGCCTATCA
* *
2170168 GTATCGATACTGGTCTTAGG
1 GTATCGATACTGGCCCTAGG
*
2170188 GTATCGATATTGGCCCTAGG
1 GTATCGATACTGGCCCTAGG
2170208 GTATC
1 GTATC
2170213 TATATCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (20 bp):
GTATCGATACTGGCCCTAGG
Found at i:2172579 original size:23 final size:23
Alignment explanation
Indices: 2172514--2172582 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2172504 CACCACAGCT
* *
2172514 CGTATAAATGCACCGAAGTACCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
2172537 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
2172560 CTTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2172583 TATAAGATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2177500 original size:45 final size:45
Alignment explanation
Indices: 2177322--2177676 Score: 601
Period size: 45 Copynumber: 8.0 Consensus size: 45
2177312 GGTAAACATG
* *
2177322 AAAATAAGCTTACGAGCTTATAGAA-AAATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2177366 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2177410 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
2177454 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
2177499 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
2177544 AAAATAAGCATACAAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
2177589 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
2177634 AAAATAAGCTTACAAGCTTATGGAATAAACGGTAA-AATATTGG
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGG
2177677 ATATGTTGGT
Statistics
Matches: 300, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
44 119 0.40
45 181 0.60
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:2177549 original size:24 final size:24
Alignment explanation
Indices: 2177522--2177595 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
2177512 GAGCTTATGG
2177522 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
**
2177546 AATAAGCAT-ACAAGCT-TA-TGG---
1 AATAA--ATGGTAAG-TATATTGGTAA
2177567 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
2177591 AATAA
1 AATAA
2177596 GCTTACGAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 8 0.22
24 13 0.35
25 5 0.14
26 3 0.08
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (24 bp):
AATAAATGGTAAGTATATTGGTAA
Found at i:2182546 original size:23 final size:23
Alignment explanation
Indices: 2182511--2182574 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
2182501 CAGCTTATAT
2182511 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * *
2182534 AATTGCACTGAAGTACCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
2182557 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
2182575 TATAAGATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:2197500 original size:9 final size:9
Alignment explanation
Indices: 2197451--2197482 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2197441 TAAAAATTAA
2197451 TATTTTCTT
1 TATTTTCTT
2197460 TATTTTCTT
1 TATTTTCTT
2197469 TATTTT-TT
1 TATTTTCTT
2197477 TATTTT
1 TATTTT
2197483 TAACATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (9 bp):
TATTTTCTT
Found at i:2197510 original size:26 final size:26
Alignment explanation
Indices: 2197461--2197510 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2197451 TATTTTCTTT
* *
2197461 ATTTTCTTTATTTTTTTATTTTTAAC
1 ATTTTCTTCATTTTTTTATATTTAAC
2197487 ATTTTCTTCATTTTTATT-TATTTA
1 ATTTTCTTCATTTTT-TTATATTTA
2197511 TCTTGTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (26 bp):
ATTTTCTTCATTTTTTTATATTTAAC
Found at i:2198589 original size:32 final size:34
Alignment explanation
Indices: 2198548--2198627 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
2198538 TTTAAATAGT
*
2198548 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTTATATTAAATAATATTTATATAAA
* *
2198580 TATTATTTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATATT-AAATAATATTTATATAAA
2198615 TATTATTTATTTA
1 TATTATTT-TTTA
2198628 GAATTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 15 0.38
34 3 0.08
35 19 0.47
36 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTATATTAAATAATATTTATATAAA
Found at i:2198591 original size:34 final size:33
Alignment explanation
Indices: 2198515--2198622 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 33
2198505 GTGGTAAGAA
* *
2198515 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
2198549 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
2198584 ATTTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
2198619 ATTT
1 ATTT
2198623 ATTTAGAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
33 1 0.02
34 27 0.43
35 28 0.44
36 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:2200379 original size:21 final size:21
Alignment explanation
Indices: 2200349--2200396 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2200339 GCAGGGGTAC
* *
2200349 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2200370 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2200391 ATGCCA
1 ATGCCA
2200397 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2200426 original size:21 final size:21
Alignment explanation
Indices: 2200400--2200472 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
2200390 TATGCCATCT
*
2200400 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
2200421 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
2200442 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
*
2200463 CCGTAGGGTT
1 CCGCAGGGTT
2200473 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:2201054 original size:33 final size:34
Alignment explanation
Indices: 2200994--2201091 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
2200984 TAAATGTTTT
*
2200994 TAAAAA-ACAAATTATATTATTCAAAATTTAAAA
1 TAAAAATAAAAATTATATTATTCAAAATTTAAAA
* *
2201027 TAAAAATAAAAATAATATTATTC-AAATTTAAAT
1 TAAAAATAAAAATTATATTATTCAAAATTTAAAA
* * * *
2201060 TTAAAATATAAATTATAGTATTCGAAATTTAA
1 TAAAAATAAAAATTATATTATTCAAAATTTAA
2201092 CATTAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
33 34 0.61
34 22 0.39
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
TAAAAATAAAAATTATATTATTCAAAATTTAAAA
Found at i:2201098 original size:34 final size:32
Alignment explanation
Indices: 2200993--2201098 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 32
2200983 ATAAATGTTT
2200993 TTAAAA-AACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAA-AAATTATATTATTC-AAATTT-AAA
* *
2201027 TAAAAATAAAAATAATATTATTCAAATTTAAA
1 TTAAAATAAAAATTATATTATTCAAATTTAAA
* *
2201059 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTC-AAATTTAA-A
2201094 TTAAA
1 TTAAA
2201099 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 31 0.50
35 3 0.05
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (32 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAA
Found at i:2201719 original size:128 final size:128
Alignment explanation
Indices: 2201491--2202117 Score: 1017
Period size: 128 Copynumber: 4.9 Consensus size: 128
2201481 TTATCTGATT
*
2201491 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
** **
2201556 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATAGG
2201619 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* ** *
2201684 TGATGAAATAATGGAAGGCGCGCCCCAGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATATG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATAGG
*
2201747 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
2201812 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCATGTGAATAGTGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGG
2201875 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
2201940 TGATGAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGG
* * *
2202003 TACTGATATATCTAGTGT-CCTGTGGGACATGAGTTACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
2202067 TGACGAAATAATGGAAGGCGCACCCCCGGGAACGCGCCTTCATGTGAATAG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAG
2202118 TACTCCGATT
Statistics
Matches: 476, Mismatches: 22, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
127 92 0.19
128 384 0.81
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGG
Found at i:2202202 original size:8 final size:8
Alignment explanation
Indices: 2202189--2202229 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2202179 TCACAATCTT
2202189 TCAAATTC
1 TCAAATTC
2202197 TCAAATTC
1 TCAAATTC
* *
2202205 CCAAACTC
1 TCAAATTC
2202213 T-AAATTC
1 TCAAATTC
2202220 TCAAATTC
1 TCAAATTC
2202228 TC
1 TC
2202230 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:2203110 original size:36 final size:36
Alignment explanation
Indices: 2203063--2203134 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
2203053 TGATGATGAC
2203063 GAGGCTGATTATGATGTAATGTATGAGCCTGAATTT
1 GAGGCTGATTATGATGTAATGTATGAGCCTGAATTT
2203099 GAGGCTGATTATGATGTAATGTATGAGCCTGAATTT
1 GAGGCTGATTATGATGTAATGTATGAGCCTGAATTT
2203135 CCAGATCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (36 bp):
GAGGCTGATTATGATGTAATGTATGAGCCTGAATTT
Found at i:2208652 original size:26 final size:26
Alignment explanation
Indices: 2208623--2208712 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
2208613 TTAAATTCAT
*
2208623 AATATTTTATATAGATTAACTTTAAA
1 AATATTTTATATACATTAACTTTAAA
*
2208649 AATATTTT-T-TATATTAACTTATTAAA
1 AATATTTTATATACATTAAC-T-TTAAA
* *
2208675 TATATTTTATTATTCATTCAA-TTTAAAA
1 AATATTTTA-TATACATT-AACTTT-AAA
2208703 AATATTTTAT
1 AATATTTTAT
2208713 TTTATTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
24 8 0.15
25 2 0.04
26 20 0.38
27 3 0.06
28 13 0.25
29 4 0.08
30 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (26 bp):
AATATTTTATATACATTAACTTTAAA
Found at i:2208722 original size:22 final size:25
Alignment explanation
Indices: 2208672--2208742 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
2208662 TTAACTTATT
* *
2208672 AAATATATTTTATTATTCATTCAATTTA
1 AAATATATATT-TTATTC-TT-ATTTTA
2208700 AAA-A-ATATTTTATT-TTATTTTA
1 AAATATATATTTTATTCTTATTTTA
2208722 AAATATATATTTTATTCTTAT
1 AAATATATATTTTATTCTTAT
2208743 CAAAACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 8 0.21
23 3 0.08
24 10 0.26
25 9 0.24
26 4 0.11
27 1 0.03
28 3 0.08
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
AAATATATATTTTATTCTTATTTTA
Found at i:2211229 original size:25 final size:25
Alignment explanation
Indices: 2211143--2211235 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
2211133 TTAAATTCAT
*
2211143 AATATTTTA-TA-TATATTAACTTAAA
1 AATATTTTATTATTA-ATTAA-TTTAA
*
2211168 AATATTTTTATTATTAAATT--GTTAA
1 AATA-TTTTATTATT-AATTAATTTAA
2211193 ATATATTTTATTATTAATTAATTTAA
1 A-ATATTTTATTATTAATTAATTTAA
2211219 AATATTTTATT-TTAATT
1 AATATTTTATTATTAATT
2211236 TAAAAATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
24 10 0.17
25 28 0.48
26 13 0.22
27 2 0.03
28 4 0.07
29 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (25 bp):
AATATTTTATTATTAATTAATTTAA
Found at i:2211238 original size:25 final size:26
Alignment explanation
Indices: 2211189--2211270 Score: 84
Period size: 25 Copynumber: 3.2 Consensus size: 26
2211179 TATTAAATTG
2211189 TTAAATATATTTTATTATTAA-TTAAT
1 TTAAATATATTTTATT-TTAATTTAAT
2211215 TTAAA-ATATTTTATTTTAATTTAA-
1 TTAAATATATTTTATTTTAATTTAAT
*
2211239 -AAATATATATTTTATATTATAATTT-AT
1 TTAA-ATATATTTTAT-TT-TAATTTAAT
2211266 TTAAA
1 TTAAA
2211271 AGTATAACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
23 2 0.04
24 5 0.11
25 23 0.49
26 8 0.17
27 7 0.15
28 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAAATATATTTTATTTTAATTTAAT
Found at i:2211249 original size:20 final size:20
Alignment explanation
Indices: 2211210--2211252 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2211200 TTATTATTAA
*
2211210 TTAATTTAAAATATTTTATT
1 TTAATTTAAAATATTATATT
2211230 TTAATTTAAAA-ATATATATT
1 TTAATTTAAAATAT-TATATT
2211250 TTA
1 TTA
2211253 TATTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTTAAAATATTATATT
Found at i:2211262 original size:51 final size:52
Alignment explanation
Indices: 2211144--2211271 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 52
2211134 TAAATTCATA
* ***
2211144 ATATTTTATA-TAT-ATTAACTTAAAAATATTTTTATTATTAAATTGTTAAAT
1 ATATTTTATATTATAATTAA-TTTAAAATATTTTTATTATTAAATTAAAAAAT
*
2211195 ATA-TTT-TATTATTAATTAATTTAAAATA-TTTTATT-TTAATTTAAAAATAT
1 ATATTTTATATTA-TAATTAATTTAAAATATTTTTATTATTAAATTAAAAA-AT
*
2211245 ATATTTTATATTATAATTTATTTAAAA
1 ATATTTTATATTATAATTAATTTAAAA
2211272 GTATAACTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
49 10 0.15
50 17 0.26
51 28 0.43
52 10 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (52 bp):
ATATTTTATATTATAATTAATTTAAAATATTTTTATTATTAAATTAAAAAAT
Found at i:2211409 original size:28 final size:28
Alignment explanation
Indices: 2211376--2211430 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2211366 ATTAACCTAT
2211376 AATAATTACATCTTAATTAAATAAAAAA
1 AATAATTACATCTTAATTAAATAAAAAA
* *
2211404 AATAATTATATTTTAATTAAATAAAAA
1 AATAATTACATCTTAATTAAATAAAAA
2211431 TGAAAGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
AATAATTACATCTTAATTAAATAAAAAA
Found at i:2211766 original size:21 final size:20
Alignment explanation
Indices: 2211730--2211769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2211720 TGGTAAAAAA
2211730 TTATTAAAAAATTATTATTT
1 TTATTAAAAAATTATTATTT
*
2211750 TTATTAGAAATATTATTATT
1 TTATTA-AAAAATTATTATT
2211770 GGAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATTAAAAAATTATTATTT
Found at i:2214627 original size:22 final size:23
Alignment explanation
Indices: 2214601--2214653 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2214591 TTAAAATTTT
*
2214601 TATATAAGTTTTAAAAAATAAAAA
1 TATAT-AGTTTTAAAAAAGAAAAA
*
2214625 TATATATTTTTAAAAAAGAAAAA
1 TATATAGTTTTAAAAAAGAAAAA
*
2214648 AATATA
1 TATATA
2214654 AAATTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
TATATAGTTTTAAAAAAGAAAAA
Found at i:2214639 original size:23 final size:23
Alignment explanation
Indices: 2214609--2214653 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2214599 TTTATATAAG
* *
2214609 TTTTAAAAAATAAAAATATATAT
1 TTTTAAAAAAGAAAAAAATATAT
2214632 TTTTAAAAAAGAAAAAAATATA
1 TTTTAAAAAAGAAAAAAATATA
2214654 AAATTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTTTAAAAAAGAAAAAAATATAT
Done.