Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 62
Found at i:579150 original size:14 final size:16
Alignment explanation
Indices: 579114--579150 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
579104 TATTAATGTA
579114 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
579131 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
579146 T-AATA
1 TGAATA
579151 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:579812 original size:130 final size:130
Alignment explanation
Indices: 579609--579856 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
579599 AATTTTCTTC
* * * *
579609 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
*
579674 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
579739 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTAAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
579804 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
579857 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:585938 original size:26 final size:26
Alignment explanation
Indices: 585891--585941 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
585881 TGCTTAAATG
*
585891 ATATCATGCTGCTAACCGCTTAAACA
1 ATATCATGCTGCTAACCACTTAAACA
* *
585917 ATATCATGCTGCTTATCACTTAAAC
1 ATATCATGCTGCTAACCACTTAAAC
585942 CAACCCAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (26 bp):
ATATCATGCTGCTAACCACTTAAACA
Found at i:597578 original size:23 final size:23
Alignment explanation
Indices: 597543--597589 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
597533 TAATATATCC
597543 TTAATTTTATTTAATAAAAA-TAA
1 TTAATTTTATTTAA-AAAAAGTAA
597566 TTAAGTTTT-TTTAAAAAAAGTAA
1 TTAA-TTTTATTTAAAAAAAGTAA
597589 T
1 T
597590 AATATTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAATTTTATTTAAAAAAAGTAA
Found at i:602986 original size:3 final size:3
Alignment explanation
Indices: 602980--603014 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
602970 AATAATTTTT
602980 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
603015 TCTCATTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:610111 original size:39 final size:39
Alignment explanation
Indices: 610057--610139 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
610047 ACATAAATAC
610057 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
1 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
610096 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
1 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
610135 TAAAA
1 TAAAA
610140 AAATAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (39 bp):
TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
Found at i:610159 original size:32 final size:35
Alignment explanation
Indices: 610057--610159 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 35
610047 ACATAAATAC
610057 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
1 TAAAA-TAAATT-AAA-AAAA-TTTAGATATTTAATTTT
610096 TAAAATTAAATTAAAACAAAACTTTAGATATTTAATTTT
1 TAAAA-TAAATT-AAA-AAAA-TTTAGATATTTAATTTT
*
610135 TAAAA-AAA-T-AAAAAATTTAAATATT
1 TAAAATAAATTAAAAAAATTTAGATATT
610160 AAAACGGATC
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
32 9 0.14
33 4 0.06
34 2 0.03
36 1 0.02
37 3 0.05
39 44 0.70
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (35 bp):
TAAAATAAATTAAAAAAATTTAGATATTTAATTTT
Found at i:613863 original size:76 final size:76
Alignment explanation
Indices: 613730--613874 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 76
613720 TCAGTGATAT
*
613730 AATCGAAACAAAAATTAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
1 AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
613795 CACACCATCTA
66 CACACCATCTA
* * * *
613806 AATCGAAACAAAAAATAAAGTTATTATTATAATTAAAACAATTAAAAGTTTAGTGATATGAACAA
1 AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
613871 CACA
66 CACA
613875 TCATACACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (76 bp):
AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
CACACCATCTA
Found at i:616234 original size:60 final size:60
Alignment explanation
Indices: 616168--616325 Score: 194
Period size: 60 Copynumber: 2.6 Consensus size: 60
616158 ATATATCCTC
* * *
616168 AAACTATGACCCTCATT-TCAAATTATTCCTTCAACTTTTAAACATTCCAATTTCATCTCA
1 AAACTATGACCCTCATTCT-AAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATCCCA
* * *
616228 AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCT
1 AAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATCCCA
* *** *
616288 AAACTATAAATATCATTCTAAATTGGTCC-TAAACTTTT
1 AAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTT
616326 GCATCTTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
59 9 0.10
60 77 0.89
61 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (60 bp):
AAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATCCCA
Found at i:616589 original size:59 final size:59
Alignment explanation
Indices: 616508--616650 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 59
616498 TTGGGGGACC
**
616508 AATTTAGAATGAAGATTGTAGTTTGAGGATGAAAATAAAATG-TTAAAAGTTTGAAA-ACT
1 AATTTAGAATGAAG-TCATAGTTTGAGGATGAAAATAAAATGTTTAAAAGTTT-AAAGACT
* * * * *
616567 AATTTAGAATGATAGTCATAGTTT-AGGGTGAGATTGAAATGTTTAAATGTTTAAAGACT
1 AATTTAGAATGA-AGTCATAGTTTGAGGATGAAAATAAAATGTTTAAAAGTTTAAAGACT
* *
616626 AATTTAAAATGAGCGTCATAGTTTG
1 AATTTAGAATGA-AGTCATAGTTTG
616651 GGGACATATG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
58 16 0.23
59 52 0.74
60 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (59 bp):
AATTTAGAATGAAGTCATAGTTTGAGGATGAAAATAAAATGTTTAAAAGTTTAAAGACT
Found at i:617887 original size:21 final size:21
Alignment explanation
Indices: 617861--617954 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
617851 GTTTCCAGAT
*
617861 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
617882 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
*
617902 TCGCAATGCGAACTTGAACTA
1 TCGCAATGCGAACTTGGACTA
* * *
617923 TCGCAACGCGAATTTCGACTA
1 TCGCAATGCGAACTTGGACTA
617944 TCGCAATGCGA
1 TCGCAATGCGA
617955 TAGTCGACTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 17 0.28
21 43 0.72
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:617961 original size:21 final size:20
Alignment explanation
Indices: 617877--617976 Score: 80
Period size: 21 Copynumber: 4.8 Consensus size: 20
617867 CGCGAACTTG
617877 GACTATCGCAATGCGAATAT-
1 GACTATCGCAATGCG-ATATC
* *
617897 GTA-AATCGCAATGCGA-ACTT
1 G-ACTATCGCAATGCGATA-TC
* *
617917 GAACTATCGCAACGCGAATTTC
1 G-ACTATCGCAATGCG-ATATC
617939 GACTATCGCAATGCGATAGTC
1 GACTATCGCAATGCGATA-TC
*
617960 GACTATCGCATTGCGAT
1 GACTATCGCAATGCGAT
617977 TTACATATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 16 0.25
21 42 0.66
22 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTATCGCAATGCGATATC
Found at i:618647 original size:6 final size:6
Alignment explanation
Indices: 618638--618676 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
618628 CTCGGGTCAG
618638 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
618677 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:618826 original size:21 final size:21
Alignment explanation
Indices: 618802--618889 Score: 158
Period size: 21 Copynumber: 4.2 Consensus size: 21
618792 AAATCACAAC
618802 GCGAACTTGGACTATCGCAAT
1 GCGAACTTGGACTATCGCAAT
618823 GCGAACTTGGACTATCGCAAT
1 GCGAACTTGGACTATCGCAAT
*
618844 GCGAACTTGGACTATCGCAAC
1 GCGAACTTGGACTATCGCAAT
*
618865 GCGAACTTGGACTATCGCATT
1 GCGAACTTGGACTATCGCAAT
618886 GCGA
1 GCGA
618890 TTTACATATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (21 bp):
GCGAACTTGGACTATCGCAAT
Found at i:618925 original size:21 final size:21
Alignment explanation
Indices: 618874--618937 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
618864 CGCGAACTTG
618874 GACTATCGCATTGCGAT--T-
1 GACTATCGCATTGCGATAGTC
*
618892 TACATATTCGCATTGCGATAGTC
1 GAC-TA-TCGCATTGCGATAGTC
618915 GACTATCGCATTGCGATAGTC
1 GACTATCGCATTGCGATAGTC
618936 GA
1 GA
618938 AGTTCGCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 12 0.31
21 18 0.46
22 3 0.08
23 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
GACTATCGCATTGCGATAGTC
Found at i:618944 original size:21 final size:20
Alignment explanation
Indices: 618898--618951 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
618888 GATTTACATA
618898 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCGAC
*
618918 TATCGCATTGCGATAGTCGAAG
1 T-TCGCATTGCGATAGTCG-AC
*
618940 TTCGCGTTGCGA
1 TTCGCATTGCGA
618952 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCGAC
Found at i:624388 original size:20 final size:20
Alignment explanation
Indices: 624365--624402 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
624355 AGTTTTCGAA
624365 TTCGCAACAAGAATTTACAT
1 TTCGCAACAAGAATTTACAT
**
624385 TTCGCAACGCGAATTTAC
1 TTCGCAACAAGAATTTAC
624403 CGAAAACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGCAACAAGAATTTACAT
Found at i:627412 original size:288 final size:288
Alignment explanation
Indices: 626889--627416 Score: 795
Period size: 288 Copynumber: 1.8 Consensus size: 288
626879 ATCATCTTTC
* * * *
626889 TGGTGAAATTCCTGCTTCTATAGGAAACATGACAGACCTGCTGTTTCTTTACTTATACAAAAATG
1 TGGTGAAATTCATCCTTCCATAGGAAACATGACAAACCTGCTGTTTCTTTACTTATACAAAAATG
* ** *
626954 GACTCTCTGGTTCTATACCTCAACAAATTGGAATGTTGATGTGTTTGAATGGACTTGACCTCTCT
66 GACTCTCTGGTTCTATACCTCAACAAATTGGAATGTTGAAGTCCTTGAATGGACTTCACCTCTCT
* * ** *
627019 GAAAATAATCTGATCGGTTCTCTCCCTCCATCTGTTGGAAATTTGGCCAACTTATCTTATCTTAG
131 GAAAATAATCTGATCGGTTCTCTCCCTCCATCTATCGGAAATTTAACCAACTTATCTGATCTTAG
* *
627084 CCTTTTTAACAATAAAATTTCAGGGTCCATACCTAAAGAAATTGGAATGTTGGGTTCCCTTGAAA
196 CCTTTCTAACAATAAAATTTCAGGGTCCATACCAAAAGAAATTGGAATGTTGGGTTCCCTTGAAA
627149 CGCTTTATTTGTACAACAATAGTCTTAT
261 CGCTTTATTTGTACAACAATAGTCTTAT
* * *
627177 TGGTGAAATTCATCCTTCCATTGGAAACTTGACAAACCTGCTGTTTCTTTACTTATATAAAAATG
1 TGGTGAAATTCATCCTTCCATAGGAAACATGACAAACCTGCTGTTTCTTTACTTATACAAAAATG
627242 GACTCTCTGGTTCTATACCTCAACAAATTGGAATGTTGAAGTCCTTGAATGGACTTCACCTCTCT
66 GACTCTCTGGTTCTATACCTCAACAAATTGGAATGTTGAAGTCCTTGAATGGACTTCACCTCTCT
* * * * * *
627307 GAAAATAATCTGGTGGGTTCTCTCCCTGCATCTATCGGAAATTTAACCGATTTATCTGATCTTCG
131 GAAAATAATCTGATCGGTTCTCTCCCTCCATCTATCGGAAATTTAACCAACTTATCTGATCTTAG
* ** **
627372 TCTTTCTGGCAATAAAATTTTGGGGTCCATACCAAAAGAAATTGG
196 CCTTTCTAACAATAAAATTTCAGGGTCCATACCAAAAGAAATTGG
627417 GATGCTAGGT
Statistics
Matches: 211, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
288 211 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (288 bp):
TGGTGAAATTCATCCTTCCATAGGAAACATGACAAACCTGCTGTTTCTTTACTTATACAAAAATG
GACTCTCTGGTTCTATACCTCAACAAATTGGAATGTTGAAGTCCTTGAATGGACTTCACCTCTCT
GAAAATAATCTGATCGGTTCTCTCCCTCCATCTATCGGAAATTTAACCAACTTATCTGATCTTAG
CCTTTCTAACAATAAAATTTCAGGGTCCATACCAAAAGAAATTGGAATGTTGGGTTCCCTTGAAA
CGCTTTATTTGTACAACAATAGTCTTAT
Found at i:630005 original size:11 final size:11
Alignment explanation
Indices: 629989--630018 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
629979 AACTATTTTT
629989 ATAATTATTTA
1 ATAATTATTTA
*
630000 ATAATTATTTT
1 ATAATTATTTA
630011 ATAATTAT
1 ATAATTAT
630019 AATAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:630330 original size:39 final size:39
Alignment explanation
Indices: 630276--630356 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
630266 TCGGTACGCC
*
630276 TTGCGTATTTTAAAAGTCAGTAC-AGAAGTAATAGTTGGA
1 TTGCGTATTTTAAAAGTAAGT-CTAGAAGTAATAGTTGGA
630315 TTGCGTATTTTAAAAGTAAGTCTAGAAGTAATAGTTGGA
1 TTGCGTATTTTAAAAGTAAGTCTAGAAGTAATAGTTGGA
630354 TTG
1 TTG
630357 ATGATCTGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (39 bp):
TTGCGTATTTTAAAAGTAAGTCTAGAAGTAATAGTTGGA
Found at i:643354 original size:72 final size:72
Alignment explanation
Indices: 643210--643359 Score: 165
Period size: 72 Copynumber: 2.1 Consensus size: 72
643200 GAACCTAGCA
* * * *
643210 TTCCAATTTCTTTTGGTATGGACCCCAAAATTTTATTGTCAGGAAGAAGAAGATCAGATAAATCA
1 TTCCAATTTCTTTAGGTATGGACCCCAAAATTTTATTGACAGAAAGAAGAAGATAAGATAAATCA
**
643275 GTTAAAT
66 GCCAAAT
* ** *** * **
643282 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGACAGAAAGGCTAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCCAAAATTTTATTGACAGAAAGAAGAAGATAAGATAAATCA
643347 GCCAAAT
66 GCCAAAT
643354 TTCCAA
1 TTCCAA
643360 CAGATGGAGG
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (72 bp):
TTCCAATTTCTTTAGGTATGGACCCCAAAATTTTATTGACAGAAAGAAGAAGATAAGATAAATCA
GCCAAAT
Found at i:643714 original size:72 final size:72
Alignment explanation
Indices: 643570--643719 Score: 210
Period size: 72 Copynumber: 2.1 Consensus size: 72
643560 GAACCCAACA
*
643570 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAATCG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGAAAAGATAAATCG
***
643635 GTTAAAT
66 ACCAAAT
* * ** * *
643642 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGAAAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGAAAAGATAAATCG
643707 ACCAAAT
66 ACCAAAT
643714 TTCCAA
1 TTCCAA
643720 CAGATGGAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (72 bp):
TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGAAAAGATAAATCG
ACCAAAT
Found at i:643869 original size:360 final size:360
Alignment explanation
Indices: 643208--644243 Score: 1786
Period size: 360 Copynumber: 2.9 Consensus size: 360
643198 GAGAACCTAG
* ** ** *** *
643208 CATTCCAATTTCTTTTGGTATGGACCCCAAAATTTTATTG-TCAGGAAGAAGAAGATCAGATAAA
1 CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCT-AAAAAGGCCAAGATAAGATAAA
* **
643272 TCAGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGACAGAAAGGCTAAGATA
65 TCGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATA
* **
643337 AGATAAGTTGGCCAAATTTCCAACAGATGGAGGGAGAGCGCCGATCAGATTATTTTCAGAGAGGT
130 AGATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGT
*
643402 CAAGTTCATTCAAACACTTCAACTTTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTA
195 CAAGTTCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTA
643467 TATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACT
260 TATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACT
643532 ATTGTTGTACAAACAAAGCTTTTCAAGGGAACCCAA
325 ATTGTTGTACAAACAAAGCTTTTCAAGGGAACCCAA
643568 CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAAT
1 CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAAT
* * *
643633 CGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGAAAA
66 CGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAA
643698 GATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTC
131 GATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTC
643763 AAGTTCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTAT
196 AAGTTCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTAT
643828 ATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTA
261 ATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTA
643893 TTGTTGTACAAACAAAGCTTTTCAAGGGAACCCAA
326 TTGTTGTACAAACAAAGCTTTTCAAGGGAACCCAA
643928 CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAAT
1 CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAAT
643993 CGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAA
66 CGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAA
644058 GATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTC
131 GATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTC
* * *
644123 AAGTCCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTGTGT
196 AAGTTCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTAT
* * ** * * * *
644188 ACAAGTAAAGAAACAGCAGGTCAGTCATGTTTCCTATAGAAGCAGGAATTTCACCA
261 ATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCA
644244 GAAAGATGAT
Statistics
Matches: 642, Mismatches: 33, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
360 641 1.00
361 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (360 bp):
CATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAAT
CGGTTAAATTTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAA
GATAAGTTGACCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTC
AAGTTCATTCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTAT
ATAAGTAAAGAAACTGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTA
TTGTTGTACAAACAAAGCTTTTCAAGGGAACCCAA
Found at i:644074 original size:72 final size:72
Alignment explanation
Indices: 643930--644079 Score: 219
Period size: 72 Copynumber: 2.1 Consensus size: 72
643920 GAACCCAACA
643930 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAATCG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAATCG
***
643995 GTTAAAT
66 ACCAAAT
* * * * * *
644002 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAATCG
644067 ACCAAAT
66 ACCAAAT
644074 TTCCAA
1 TTCCAA
644080 CAGATGGAGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (72 bp):
TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCCAAGATAAGATAAATCG
ACCAAAT
Found at i:645295 original size:256 final size:257
Alignment explanation
Indices: 644814--646468 Score: 3179
Period size: 256 Copynumber: 6.5 Consensus size: 257
644804 GACTTTGACG
644814 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
644879 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
644944 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
645009 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
196 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645071 -TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645135 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
645200 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTCG
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGGTGACCACTTGCTTCG
645265 TATCCTGCTCTTTGAGTACCATTA-TTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
195 TATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645327 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTG-AACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645391 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
645456 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
645521 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
196 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645583 TTTCAAGCATGCAGCCAACCGGGTC-TCATCGGGGTTGAAACTTATGGGGG-GACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645646 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
645711 TTCAAGCATGC--CCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTCG
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGGTGACCACTTGCTTCG
645774 TATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCA-TTTCTGAAATAACCTTAGGGTTA
195 TATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645836 TTTCAAGCATGCAGCCAACCGGGTCTTCATC-GGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645900 GTATCCTGCTCTTTGAGTACCATTA-TTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
645964 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGG-GACCACTTGCTTCGT
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
646028 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
196 ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
646090 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
646155 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
646220 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTCG
131 TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGGTGACCACTTGCTTCG
*
646285 TATCTTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
195 TATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
*
646348 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACCTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
*
646413 GTATCCTGCTTTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCT
646469 AAACAGAGGG
Statistics
Matches: 1381, Mismatches: 3, Indels: 27
0.98 0.00 0.02
Matches are distributed among these distances:
253 202 0.15
254 159 0.12
255 234 0.17
256 507 0.37
257 84 0.06
258 195 0.14
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (257 bp):
TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTAT
TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGTGACCACTTGCTTCGT
ATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
Found at i:645707 original size:127 final size:129
Alignment explanation
Indices: 644814--646468 Score: 3185
Period size: 129 Copynumber: 12.9 Consensus size: 129
644804 GACTTTGACG
644814 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
644879 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
644943 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645007 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645071 -TTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645135 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645199 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645264 GTATCCTGCTCTTTGAGTACCATTA-TTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645327 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTG-AACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645391 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645455 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645519 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645583 TTTCAAGCATGCAGCCAACCGGGTC-TCATCGGGGTTGAAACTTATGGGGG-GACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645646 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645710 TTTCAAGCATGC--CCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645773 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCA-TTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645836 TTTCAAGCATGCAGCCAACCGGGTCTTCATC-GGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
645900 GTATCCTGCTCTTTGAGTACCATTA-TTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
645963 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTAT-GGGG-GACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
646026 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
646090 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
646155 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
646219 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
*
646284 GTATCTTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
*
646348 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACCTGCTTC
1 TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
*
646413 GTATCCTGCTTTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCT
66 GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCT
646469 AAACAGAGGG
Statistics
Matches: 1508, Mismatches: 4, Indels: 28
0.98 0.00 0.02
Matches are distributed among these distances:
125 11 0.01
126 112 0.07
127 458 0.30
128 462 0.31
129 465 0.31
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (129 bp):
TTTCAAGCATGCAGCCAACCGGGTCTTCATCGGGGTTGAAACTTATGGGGGTGACCACTTGCTTC
GTATCCTGCTCTTTGAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCTTAGGGTTA
Found at i:648185 original size:23 final size:23
Alignment explanation
Indices: 648159--648214 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
648149 GGTTACTTTG
* *
648159 AAATTTATATGTTTTCTTTTTTA
1 AAATTTATATATTTTATTTTTTA
*
648182 AAATATATA-ATTTTATTTTTTA
1 AAATTTATATATTTTATTTTTTA
648204 AAATTTATATA
1 AAATTTATATA
648215 AAATTCTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
AAATTTATATATTTTATTTTTTA
Found at i:652133 original size:22 final size:22
Alignment explanation
Indices: 652107--652179 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
652097 ATACAAATTG
**
652107 TATAAATATATTTTATTA-ATAT
1 TATAAATATATAATATTATA-AT
*
652129 TATAACTATATAATATTATAAT
1 TATAAATATATAATATTATAAT
* * **
652151 TATAAAAATAATTATAAAATAAT
1 TATAAATAT-ATAATATTATAAT
652174 TATAAA
1 TATAAA
652180 AATAGTTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 24 0.59
23 17 0.41
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAAATATATAATATTATAAT
Found at i:652142 original size:16 final size:16
Alignment explanation
Indices: 652123--652154 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
652113 TATATTTTAT
652123 TAATATTATAACTATA
1 TAATATTATAACTATA
*
652139 TAATATTATAATTATA
1 TAATATTATAACTATA
652155 AAAATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATTATAACTATA
Found at i:652163 original size:12 final size:12
Alignment explanation
Indices: 652146--652189 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
652136 ATATAATATT
652146 ATAATTATAAAA
1 ATAATTATAAAA
652158 ATAATTAT-AAA
1 ATAATTATAAAA
652169 ATAATTATAAAA
1 ATAATTATAAAA
*
652181 ATAGTTATA
1 ATAATTATA
652190 TATATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAATTATAAAA
Found at i:652171 original size:11 final size:11
Alignment explanation
Indices: 652146--652180 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
652136 ATATAATATT
652146 ATAATTATAAAA
1 ATAATTAT-AAA
652158 ATAATTATAAA
1 ATAATTATAAA
652169 ATAATTATAAA
1 ATAATTATAAA
652180 A
1 A
652181 ATAGTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATTATAAA
Found at i:652175 original size:23 final size:23
Alignment explanation
Indices: 652146--652189 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
652136 ATATAATATT
652146 ATAATTATAAAAATAATTATAAA
1 ATAATTATAAAAATAATTATAAA
*
652169 ATAATTATAAAAATAGTTATA
1 ATAATTATAAAAATAATTATA
652190 TATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATTATAAAAATAATTATAAA
Found at i:654940 original size:72 final size:72
Alignment explanation
Indices: 654801--654943 Score: 162
Period size: 72 Copynumber: 2.0 Consensus size: 72
654791 TAGCATCCCA
* * * **
654801 ATTTCTTTTGGTATGGACCCCAAAATTTTATTGCTAGAAAGATAAAGATCAGATAAATCGGTTAA
1 ATTTCTTTAGGTATGGACCCCAAAATTTTATTGCTAAAAAGATAAAGATAAGATAAATCGGCCAA
654866 ATTTCCG
66 ATTTCCG
** * * ** *
654873 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGCT-AAGATAAGATATGTTGGCCA
1 ATTTCTTTAGGTATGGACCCCAAAATTTTATTGCTAAAAA-GATAAAGATAAGATAAATCGGCCA
654937 AATTTCC
65 AATTTCC
654944 AACAGATGGA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
72 56 0.97
73 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (72 bp):
ATTTCTTTAGGTATGGACCCCAAAATTTTATTGCTAAAAAGATAAAGATAAGATAAATCGGCCAA
ATTTCCG
Found at i:671125 original size:21 final size:21
Alignment explanation
Indices: 671087--671126 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
671077 AGACAAGTAG
* * *
671087 TACTCCACAGCAGGTGGAGCA
1 TACTCCAAAACAGATGGAGCA
671108 TACTCCAAAACAGATGGAG
1 TACTCCAAAACAGATGGAG
671127 TTTCAGCAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (21 bp):
TACTCCAAAACAGATGGAGCA
Found at i:674869 original size:18 final size:19
Alignment explanation
Indices: 674846--674882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
674836 TTAATCTAAG
674846 TTAATCAA-AAAATATTAT
1 TTAATCAACAAAATATTAT
674864 TTAATCAATCAAAATATTA
1 TTAATCAA-CAAAATATTA
674883 ACATAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATCAACAAAATATTAT
Found at i:680923 original size:41 final size:42
Alignment explanation
Indices: 680866--680984 Score: 206
Period size: 41 Copynumber: 2.9 Consensus size: 42
680856 TTTCCCCGAA
*
680866 TTCCCGTGTTTGTTTCACGT-ATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
680907 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCC-GAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
680948 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTT-CCGGAA
680985 TGTAATTCAT
Statistics
Matches: 74, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
41 58 0.78
42 13 0.18
43 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:681191 original size:20 final size:23
Alignment explanation
Indices: 681160--681201 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
681150 CAAATATTAA
681160 TTATTAAATATT-TA-AATATAT
1 TTATTAAATATTATATAATATAT
681181 TTATT-AATATTATATAATATA
1 TTATTAAATATTATATAATATA
681202 ATATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTAAATATTATATAATATAT
Found at i:681296 original size:28 final size:27
Alignment explanation
Indices: 681265--681323 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
681255 TATATATTTT
* *
681265 TATTAATAATATATATAAT-TTTTTTATA
1 TATTAATAAT-GA-ATAATATTATTTATA
681293 TATTAATAATGAATAATATTATTTATA
1 TATTAATAATGAATAATATTATTTATA
681320 TATT
1 TATT
681324 TTCAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 13 0.46
28 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
TATTAATAATGAATAATATTATTTATA
Found at i:681562 original size:19 final size:20
Alignment explanation
Indices: 681494--681561 Score: 113
Period size: 19 Copynumber: 3.5 Consensus size: 20
681484 TTTCCAGATG
681494 TTTTCCAGAAATGTAA-TCA
1 TTTTCCAGAAATGTAATTCA
681513 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
681533 TTTTACAG-AATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
681552 TTTTCCAGAA
1 TTTTCCAGAA
681562 TTCAAATTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 34 0.76
20 11 0.24
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:681570 original size:39 final size:39
Alignment explanation
Indices: 681494--681570 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
681484 TTTCCAGATG
* **
681494 TTTTCCAGAAATGTAATCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATCATTTTCCAGAAATCAAATTCA
*
681533 TTTTACAG-AATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAA-TCATTTTCCAGAAATCAAATTC
681571 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (39 bp):
TTTTACAGAAATGTAATCATTTTCCAGAAATCAAATTCA
Found at i:681580 original size:15 final size:15
Alignment explanation
Indices: 681544--681625 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
681534 TTTACAGAAT
**
681544 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
681559 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
681573 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
681588 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
681603 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
681618 GTAATTCA
1 GTAATTCA
681626 TTTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:681596 original size:30 final size:30
Alignment explanation
Indices: 681544--681625 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
681534 TTTACAGAAT
681544 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
681573 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
681603 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
681626 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:681618 original size:45 final size:44
Alignment explanation
Indices: 681544--681630 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
681534 TTTACAGAAT
**
681544 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
681588 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
681631 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:682615 original size:19 final size:19
Alignment explanation
Indices: 682551--682679 Score: 89
Period size: 19 Copynumber: 6.5 Consensus size: 19
682541 AATCGCGACG
*
682551 CGTTGCGATTTTCC-ATTT
1 CGTTGCGATTTTCCAAATT
** *
682569 CGCGTTGCGATAGTCTACAATGT
1 --CGTTGCGATTTTCCA-AAT-T
682592 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
* * **
682611 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAAAT-T
* *
682633 CGTTGCAATTTTTCAAATT
1 CGTTGCGATTTTCCAAATT
*
682652 CGTTGCGATATTCCAAATT
1 CGTTGCGATTTTCCAAATT
682671 CGTTGCGAT
1 CGTTGCGAT
682680 AGTTTAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
19 36 0.43
20 19 0.23
21 17 0.20
22 11 0.13
23 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:682634 original size:41 final size:40
Alignment explanation
Indices: 682551--682679 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 40
682541 AATCGCGACG
*
682551 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAATGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAATGT
*
682592 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACA-ATGT
* * * *
682633 CGTTGCAATTTTTCAAATTCGTTGCGATATTCCA-AAT-T
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATGT
682671 CGTTGCGAT
1 CGTTGCGAT
682680 AGTTTAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
38 9 0.12
39 1 0.01
40 18 0.23
41 47 0.60
42 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATGT
Found at i:682680 original size:19 final size:19
Alignment explanation
Indices: 682571--682680 Score: 94
Period size: 19 Copynumber: 5.5 Consensus size: 19
682561 TTCCATTTCG
* *
682571 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATATTCCA-AAT-T
*
682592 CGTTGCGATTTTCCAAATT
1 CGTTGCGATATTCCAAATT
* **
682611 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATA-T-TCCAAAT-T
* * *
682633 CGTTGCAATTTTTCAAATT
1 CGTTGCGATATTCCAAATT
682652 CGTTGCGATATTCCAAATT
1 CGTTGCGATATTCCAAATT
682671 CGTTGCGATA
1 CGTTGCGATA
682681 GTTTAAAAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
19 37 0.52
20 8 0.11
21 17 0.24
22 9 0.13
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (19 bp):
CGTTGCGATATTCCAAATT
Found at i:682787 original size:5 final size:5
Alignment explanation
Indices: 682765--682804 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
682755 CGTATTACCA
682765 CGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGA
682805 GTCGGACGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.25, C:0.55, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:683295 original size:5 final size:5
Alignment explanation
Indices: 683280--683326 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
683270 GCCGCCGCCG
683280 TCGTC -CGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCG
1 TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCG
683327 GGTCGTGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.00, C:0.40, G:0.21, T:0.38
Consensus pattern (5 bp):
TCGTC
Found at i:683338 original size:6 final size:6
Alignment explanation
Indices: 683327--683431 Score: 210
Period size: 6 Copynumber: 17.5 Consensus size: 6
683317 TCTCGTCTCG
683327 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
683375 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
683423 GGTCGT GGT
1 GGTCGT GGT
683432 AATACGTGTC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 99 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:689154 original size:22 final size:21
Alignment explanation
Indices: 689081--689160 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 21
689071 GAACCGCATG
*
689081 GGGGGTATCAGTTCCCC-T-A
1 GGGGGTATCGGTTCCCCTTCA
*
689100 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGTATCGGTTCCCCTTC-A
*
689122 AGGGGTAATCGGTTCCCCTTCA
1 GGGGGT-ATCGGTTCCCCTTCA
*
689144 CGGGGGTATCGATTCCC
1 -GGGGGTATCGGTTCCC
689161 TCTGCCCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 15 0.30
20 1 0.02
22 15 0.30
23 19 0.38
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (21 bp):
GGGGGTATCGGTTCCCCTTCA
Found at i:695496 original size:20 final size:19
Alignment explanation
Indices: 695453--695505 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
695443 AAAAAGCTTG
695453 TTGTCTTCAGTTTGCCATA
1 TTGTCTTCAGTTTGCCATA
*
695472 CTGTCTTCAGTGTTGCCCA-A
1 TTGTCTTCAGT-TTG-CCATA
*
695492 TTGTCTTTAGTTTG
1 TTGTCTTCAGTTTG
695506 ACAATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGTCTTCAGTTTGCCATA
Found at i:695581 original size:2 final size:2
Alignment explanation
Indices: 695574--695603 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
695564 ATTAAATGAT
*
695574 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
695604 CTTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:698813 original size:6 final size:6
Alignment explanation
Indices: 698802--698827 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
698792 ATCATCGTCC
698802 CCATGA CCATGA CCATGA CCATGA CC
1 CCATGA CCATGA CCATGA CCATGA CC
698828 GTATCCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (6 bp):
CCATGA
Found at i:700690 original size:29 final size:30
Alignment explanation
Indices: 700658--700715 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
700648 GGTATGATTT
* *
700658 TGAA-AAAATTGAAAGTTTAGGTATTAAAA
1 TGAATAAAACTGAAAGTTTAGGTACTAAAA
* *
700687 TGAATCAAACTGATAGTTTAGGTACTAAA
1 TGAATAAAACTGAAAGTTTAGGTACTAAA
700716 CGTGTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.31
Consensus pattern (30 bp):
TGAATAAAACTGAAAGTTTAGGTACTAAAA
Found at i:704954 original size:45 final size:44
Alignment explanation
Indices: 704879--704982 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 44
704869 AATTTCTGGT
* **
704879 AAAAAAATAATATTTAAGTAATGTTTAATAT-TAACATTTCTAATA
1 AAAAAAATAATATTTAAGTAAGGTCCAATATAT-ACATTTC-AATA
* *
704924 AAAAAAATAATATTTAAGTAGGGTCCAATATATACATTTCGATA
1 AAAAAAATAATATTTAAGTAAGGTCCAATATATACATTTCAATA
* *
704968 GAATAAATAATATTT
1 AAAAAAATAATATTT
704983 TAAATAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 16 0.31
45 34 0.67
46 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (44 bp):
AAAAAAATAATATTTAAGTAAGGTCCAATATATACATTTCAATA
Found at i:704988 original size:12 final size:12
Alignment explanation
Indices: 704971--704996 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
704961 TTCGATAGAA
704971 TAAATAATATTT
1 TAAATAATATTT
704983 TAAATAATATTT
1 TAAATAATATTT
704995 TA
1 TA
704997 TCAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:715455 original size:32 final size:31
Alignment explanation
Indices: 715414--715605 Score: 273
Period size: 32 Copynumber: 6.1 Consensus size: 31
715404 GAGTCGAAGG
715414 TTACCTATGTTCTTCGGGACATATGGACAAGA
1 TTACCTATGTTCTTCGGGACATATGGAC-AGA
*
715446 TTACCTATG-TCTTTCGGGACATATGGACATTA
1 TTACCTATGTTC-TTCGGGACATATGGACA-GA
* *
715478 TTATCTATG-TCTTTTGGGACATATGGACAGTA
1 TTACCTATGTTC-TTCGGGACATATGGACAG-A
715510 TTACCTATGTTCTTCGGGACATATGGACA-A
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
715540 TTTACCTATGTTCTTCGGGACATATGGACAGT
1 -TTACCTATGTTCTTCGGGACATATGGACAGA
715572 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
715603 TTA
1 TTA
715606 TTATACGAGC
Statistics
Matches: 146, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
30 1 0.01
31 65 0.45
32 78 0.53
33 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:716379 original size:19 final size:19
Alignment explanation
Indices: 716334--716380 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
716324 ACACTGTAGC
716334 ATTGTTCATACAATATAGT
1 ATTGTTCATACAATATAGT
* * *
716353 ACTATTCATACCATATAGT
1 ATTGTTCATACAATATAGT
716372 ATTGTTCAT
1 ATTGTTCAT
716381 GAAAACGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTGTTCATACAATATAGT
Found at i:732669 original size:31 final size:31
Alignment explanation
Indices: 732633--732691 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
732623 AACTTAAAAG
* *
732633 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
732664 AGTTTTACAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
732692 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:732835 original size:18 final size:17
Alignment explanation
Indices: 732812--732869 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
732802 TCAATATTTA
732812 AAATAAATCAATTAATAC
1 AAATAAATCAATT-ATAC
*
732830 AAATAAAT-TATT-TA-
1 AAATAAATCAATTATAC
732844 AAATAAATCAATTCATAC
1 AAATAAATCAATT-ATAC
*
732862 TAATAAAT
1 AAATAAAT
732870 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
17 5 0.15
18 15 0.45
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATCAATTATAC
Found at i:732842 original size:32 final size:32
Alignment explanation
Indices: 732806--732884 Score: 131
Period size: 32 Copynumber: 2.5 Consensus size: 32
732796 AATCAATCAA
732806 TATTTAAAATAAATCAATTAATACAAATAAAT
1 TATTTAAAATAAATCAATTAATACAAATAAAT
* *
732838 TATTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTAAAATAAATCAATTAATACAAATAAAT
*
732870 TATTTAAAATCAATC
1 TATTTAAAATAAATC
732885 CATATTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (32 bp):
TATTTAAAATAAATCAATTAATACAAATAAAT
Found at i:732847 original size:14 final size:15
Alignment explanation
Indices: 732806--732901 Score: 61
Period size: 17 Copynumber: 6.0 Consensus size: 15
732796 AATCAATCAA
732806 TATTTAAAATAAATC
1 TATTTAAAATAAATC
*
732821 AATTAATACAAATAAAT-
1 TATT--TA-AAATAAATC
732838 TATTTAAAATAAATC
1 TATTTAAAATAAATC
* *
732853 AATTCATACTAATAAAT-
1 TATT--TA-AAATAAATC
*
732870 TATTTAAAATCAATCC
1 TATTTAAAATAAAT-C
*
732886 ATATTTTAAATAAATC
1 -TATTTAAAATAAATC
732902 AATCTATACT
Statistics
Matches: 62, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
14 14 0.23
15 10 0.16
16 1 0.02
17 22 0.35
18 15 0.24
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TATTTAAAATAAATC
Found at i:732992 original size:149 final size:152
Alignment explanation
Indices: 732723--733634 Score: 442
Period size: 156 Copynumber: 5.9 Consensus size: 152
732713 TATTTAAAAT
732723 AAATCAATCCATATTTTAAAATAATCAATTCATACTAATGATTTAAAATAAATCAATCCATACAA
1 AAATCAATCCATATTTTAAAATAATCAATTCATACTAATGATTTAAAATAAATCAATCCATACAA
732788 CTACAATAAATCAATCAATATTTAAAATAAATCAATTAATACAAATAAATTATTTAAAATAAATC
66 CTACAATAAATCAATCAATATTTAAAATAAATCAATTAATACAAATAAATTATTTAAAAT-AATC
732853 AATTCATACTAATAAATTATTTA
130 AATTCATACTAATAAATTATTTA
*
732876 AAATCAATCCATATTTT-AAATAAATCAA-TCTATACTAAT-ATTT-AAA-AAATC-ATTCATAC
1 AAATCAATCCATATTTTAAAAT-AATCAATTC-ATACTAATGATTTAAAATAAATCAATCCATAC
** * *
732935 AACTGTAATATAATCAAT-ACATATTT-AAATAAATCAATTCATACTAATAAATTATTTAAAATA
64 AACTACAATA-AATCAATCA-ATATTTAAAATAAATCAATTAATACAAATAAATTATTTAAAATA
** * *
732998 ATCAA-TCTATA-TTTTAAATAATTCA
127 ATCAATTC-ATACTAATAAATTATTTA
* ** *
733023 ATCTATACTAATAAAT-TATTTAAAATAAATCAA-TC-CA-T-AT--TTTAAAAT-AATCAATGT
1 A--AAT-C-AATCCATAT-TTTAAAAT-AATCAATTCATACTAATGATTTAAAATAAATCAA--T
*** * * ** *
733080 TTTTA-AAATA-AATTAATCCATACAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
58 CCATACAACTACAA-TAA---AT-CAATCAA-TATTTAAAATAAATCAATTAATACAAATAAATT
* * ** * **
733143 ATTTAAAATAAATCAATCCATATTTTTAAAATAAAT-
117 ATTTAAAAT-AATCAATTCATACTAATAAATTATTTA
* * * * *
733179 CAATCTATACTAATAAATTATTAAAATAAATCAA-TC---C--AT-ATTTTAAAT-AATCAATCT
1 AAATCAAT-C-CAT--ATT-TTAAAAT-AATCAATTCATACTAATGATTTAAAATAAATCAATCC
* * * * * * *
733236 ATACTAA-TAAATTATTTAAAATAAATCAAT-TCATACAACT--ATAAATAAAT-C-AATACA-T
60 ATAC-AACTACA--A--T-AAATCAATCAATAT-TTA-AAATAAATCAATTAATACAAATAAATT
*
733294 ATTTTAAATAAATCAATTCATACTAATAAATTATTTA
117 ATTTAAAAT-AATCAATTCATACTAATAAATTATTTA
* * * * *
733331 AAATAAATCAATCTATATTTAAAATAATTCGA-TCTATGCTAATAATTATTTAAAATAAATCAAT
1 AAATCAATCCA--TAT-TTTAAAATAA-TCAATTC-A---TACTAATGATTTAAAATAAATCAAT
*** *
733395 CCATA-TTTTA-AATAAATTAATC-ATATTTTAAAATAAATCAATCT-ATAC-AA-AAATTATTT
58 CCATACAACTACAATAAATCAATCAATA-TTTAAAATAAATCAAT-TAATACAAATAAATTATTT
733454 AAAATAAATCAA-TCTATACTAATAAATTATTTAAA
121 AAAAT-AATCAATTC-ATACTAATAAATTATTT--A
*
733489 TAAATCAATCCATATTTTAAAATAAATCAATAT-ATACTAATAAATTATTTAAAATAAATCAATC
1 -AAATCAATCCATATTTTAAAAT-AATCAAT-TCATAC---T-AATGATTTAAAATAAATCAATC
* * *
733553 CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAAT--ATTATT
59 CATACAACTAC---AATAAATCAATCAATA-TTTAAAATAAATCAATTAATACAAATAAATTATT
*
733616 TAAAATAAATCAATCCATA
120 TAAAAT-AATCAATTCATA
733635 TTTTATAATA
Statistics
Matches: 598, Mismatches: 72, Indels: 168
0.71 0.09 0.20
Matches are distributed among these distances:
147 16 0.03
148 18 0.03
149 59 0.10
150 42 0.07
151 46 0.08
152 38 0.06
153 45 0.08
154 33 0.06
155 55 0.09
156 83 0.14
157 60 0.10
158 5 0.01
159 14 0.02
160 12 0.02
161 11 0.02
162 12 0.02
163 46 0.08
164 3 0.01
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (152 bp):
AAATCAATCCATATTTTAAAATAATCAATTCATACTAATGATTTAAAATAAATCAATCCATACAA
CTACAATAAATCAATCAATATTTAAAATAAATCAATTAATACAAATAAATTATTTAAAATAATCA
ATTCATACTAATAAATTATTTA
Found at i:733016 original size:20 final size:21
Alignment explanation
Indices: 732987--733029 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
732977 ACTAATAAAT
732987 TATTTAAAATAA-TCAATCTA
1 TATTTAAAATAATTCAATCTA
*
733007 TATTTTAAATAATTCAATCTA
1 TATTTAAAATAATTCAATCTA
733028 TA
1 TA
733030 CTAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAAAATAATTCAATCTA
Found at i:733043 original size:32 final size:32
Alignment explanation
Indices: 733007--733214 Score: 195
Period size: 32 Copynumber: 6.6 Consensus size: 32
732997 AATCAATCTA
* *
733007 TATTTTAAATAATTCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATCTATACTAATAAAT
* *
733039 TATTTAAAATAAATCAATCCATATTTTAAAATAATCAAT
1 TATTTAAAATAAATCAAT-C-TA---T--ACTAATAAAT
* * *
733078 GTTTTTAAAATAAATTAATCCATAC-AATAAAT
1 -TATTTAAAATAAATCAATCTATACTAATAAAT
*
733110 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCTATACTAATAAAT
733142 TATTTAAAATAAATCAATC----C--AT--AT
1 TATTTAAAATAAATCAATCTATACTAATAAAT
733166 T-TTTAAAATAAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATCTATACTAATAAAT
733197 TA-TTAAAATAAATCAATC
1 TATTTAAAATAAATCAATC
733215 CATATTTTAA
Statistics
Matches: 147, Mismatches: 11, Indels: 37
0.75 0.06 0.19
Matches are distributed among these distances:
23 17 0.12
24 3 0.02
26 2 0.01
27 1 0.01
28 1 0.01
29 2 0.01
31 41 0.28
32 48 0.33
33 2 0.01
34 2 0.01
35 1 0.01
37 1 0.01
38 1 0.01
39 9 0.06
40 16 0.11
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCTATACTAATAAAT
Found at i:733112 original size:71 final size:74
Alignment explanation
Indices: 732989--733367 Score: 289
Period size: 77 Copynumber: 5.3 Consensus size: 74
732979 TAATAAATTA
* *
732989 TTTAAAATAATCAATCTATATTTTAAATAATTCAATCTATACTAATAAATTATTTAAAATAAATC
1 TTTAAAATAATCAATCTATATTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAAATC
733054 AATCCATAT
66 AATCCATAT
*
733063 TTTAAAATAATCAATGT-T-TTTAAAATAAATT-AATCCATAC-AATAAATTATTTAAAATAAAT
1 TTTAAAATAATCAATCTATATTTAAAAT-AATTCAATCCATACTAATAAATTATTTAAAATAAAT
733124 CAATCCATA-
65 CAATCCATAT
* * * ** *
733133 -CT--AAT-A--AA--T-TATTTAAAATAAATCAATCCATATTTTTAAA--A--T-AAATCAATC
1 TTTAAAATAATCAATCTATATTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAAATC
* *
733184 TATACTAATAAAT
66 AAT-C-CAT--AT
* * *
733197 TATTAAAATAAATCAATCCATATTTTAAATAA-TCAATCTATACTAATAAATTATTTAAAATAAA
1 T-TTAAAAT-AATCAATCTATATTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAAA
* *
733261 TCAATTCATACA
64 TCAATCCATA-T
** * * *
733273 ACTATAAATAAATCAATAC-ATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAA
1 TTTA-AAAT-AATCAAT-CTATATTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAA
*
733337 ATCAATCTATA-
63 ATCAATCCATAT
*
733348 TTTAAAATAATTCGATCTAT
1 TTTAAAATAA-TCAATCTAT
733368 GCTAATAATT
Statistics
Matches: 242, Mismatches: 32, Indels: 62
0.72 0.10 0.18
Matches are distributed among these distances:
59 10 0.04
60 2 0.01
61 2 0.01
62 6 0.02
63 17 0.07
64 6 0.02
66 2 0.01
67 3 0.01
68 3 0.01
69 1 0.00
70 1 0.00
71 30 0.12
72 17 0.07
73 8 0.03
74 40 0.17
75 16 0.07
76 26 0.11
77 41 0.17
78 1 0.00
79 10 0.04
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.38
Consensus pattern (74 bp):
TTTAAAATAATCAATCTATATTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAAATC
AATCCATAT
Found at i:733127 original size:103 final size:104
Alignment explanation
Indices: 733007--733600 Score: 383
Period size: 103 Copynumber: 5.7 Consensus size: 104
732997 AATCAATCTA
* *
733007 TATTTTAAATAATTCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAAT
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAAT
*
733071 -AATCAATGTTTTTAAAATAAATTAATCCATACAATAAAT
66 AAATCAAT-TTTTTAAAATAAATTAATACATACAATAAAT
* *
733110 TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTTAAAAT
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAAT
* * * * * *
733175 AAATCAA-TCTATACTAATAAATTATTAAAATA-AATCAAT
66 AAATCAATTTTTTA-AAATAAATTAAT-ACATACAATAAAT
* * ***
733214 CCATATTTTAAAT-AATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATACAACTAT
1 ---TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTTTTA-
* *
733278 AAATAAATCAATACATATTTT-AAATAAATCAATTCATACTAATAAAT
62 AAATAAATCAAT---T-TTTTAAAATAAATTAATACATAC-AATAAAT
* * * ***
733325 TATTTAAAATAAATCAATCTATATTTAAAATAATTCGATCTATGCT-AAT-AAT---TA--TTTA
1 TATTTAAAATAAATCAATCTATA-CTAATA-AATT--ATTTAAAATAAATCAATCCATACTTTTA
733383 AAATAAATCAATCCATATTTT-AAATAAA-T--TA-AT-C-AT--A-
62 AAATAAATCAAT---T-TTTTAAAATAAATTAATACATACAATAAAT
*
733420 T-TTTAAAATAAATCAATCTATAC-AA-AAATTATTTAAAATAAATCAATCTATACTAATAAATT
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACT--T---TT
* *
733482 ATTTAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAAT
61 A---AAATAAATCAAT---T-TTTTAAAATAAATTAATACATAC-AATAAAT
* *
733534 TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATA-TTTTAAAA
1 TATTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATACTTTTAAAA
733591 TAAATCAATT
65 TAAATCAATT
733601 CATACTAATA
Statistics
Matches: 396, Mismatches: 46, Indels: 102
0.73 0.08 0.19
Matches are distributed among these distances:
88 5 0.01
89 3 0.01
90 7 0.02
91 1 0.00
92 2 0.01
93 2 0.01
94 21 0.05
95 1 0.00
96 1 0.00
97 1 0.00
98 2 0.01
99 1 0.00
100 4 0.01
101 2 0.01
102 13 0.03
103 77 0.19
104 32 0.08
105 39 0.10
106 46 0.12
107 22 0.06
108 14 0.04
109 16 0.04
110 14 0.04
111 31 0.08
112 5 0.01
113 7 0.02
114 1 0.00
115 24 0.06
117 2 0.01
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (104 bp):
TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAAT
AAATCAATTTTTTAAAATAAATTAATACATACAATAAAT
Found at i:733195 original size:23 final size:23
Alignment explanation
Indices: 733146--733195 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
733136 ATAAATTATT
* **
733146 TAAAATAAATCAATCCATATTTT
1 TAAAATAAATCAATCCATACTAA
*
733169 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATACTAA
733192 TAAA
1 TAAA
733196 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:733298 original size:286 final size:284
Alignment explanation
Indices: 732992--733646 Score: 823
Period size: 286 Copynumber: 2.3 Consensus size: 284
732982 TAAATTATTT
*
732992 AAAAT-AATCAATCTATATTTTAAATAATTCAA-TCTATACTAATAAATTATTTAAAATAAATCA
1 AAAATAAATCAATC-ATATTTTAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCA
* ** *
733055 ATCCATATTTTAAAATAATCAATGT-TTTTAA-AATAAATTAATCCATACAATAAAT-TATTTAA
64 ATCCATATTTTAAAATAATCAATCTATGCTAATAATAAATTAA--AATA-AATAAATCTATTTAA
* ** *
733117 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CAATCCATATT-TTTAAAATAAATC
126 AATAAATCAAT-CATA-TAATAAAATAAAT-AAATAAATACAA---AAATTATTTAAAATAAATC
*
733180 AATCTATACTAATAAATTATTAAAATAAATCAATCCATATTTT-AAAT-AATCAATCTATACTAA
185 AATCTATACTAATAAATTATTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAA
*
733243 TAAATTATTTAAAATAAATCAATTCATACAACTA-
250 TAAATTATTTAAAATAAATCAATCCATACAACTAC
*
733277 TAAATAAATCAATACATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
1 AAAATAAATCAAT-CATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
* * * * * *
733342 TCTATA-TTTAAAATAATTCGATCTATGCTAATAATTATTTAAAATAAATCAATCCATATTTTAA
65 TCCATATTTTAAAATAA-TCAATCTATGCTAATAATAAATTAAAATAAATAAAT-C-TATTTAAA
* ** * **
733406 ATAAATTAATCATATTTTAAAATAAATCAATCTATACAAAAATTATTTAAAATAAATCAATCTAT
127 ATAAATCAATCATATAATAAAATAAATAAATAAATACAAAAATTATTTAAAATAAATCAATCTAT
*
733471 ACTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTA
192 ACTAATAAATTATTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTA
733536 TTTAAAATAAATCAATCCATACAACTAC
257 TTTAAAATAAATCAATCCATACAACTAC
733564 AATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAAT--ATTATTTAAAATAAATC
1 AA-AATAAATCAAT-CATATTTT-AAATAAATCAATTCATACTAATAAATTATTTAAAATAAATC
*
733627 AATCCATATTTTATAATAAT
63 AATCCATATTTTAAAATAAT
733647 TTATTTAAAA
Statistics
Matches: 324, Mismatches: 29, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
283 4 0.01
284 55 0.17
285 29 0.09
286 125 0.39
287 37 0.11
288 52 0.16
289 22 0.07
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (284 bp):
AAAATAAATCAATCATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAATCAATCTATGCTAATAATAAATTAAAATAAATAAATCTATTTAAAATAA
ATCAATCATATAATAAAATAAATAAATAAATACAAAAATTATTTAAAATAAATCAATCTATACTA
ATAAATTATTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTA
AAATAAATCAATCCATACAACTAC
Found at i:733338 original size:53 final size:52
Alignment explanation
Indices: 733278--733556 Score: 289
Period size: 53 Copynumber: 5.3 Consensus size: 52
733268 ATACAACTAT
*
733278 AAATAAATCAATACATATTTTAAATAAATCAATTCATACTAATAAATTATTTA
1 AAATAAATCAATCCATATTTTAAATAAATCAA-TCATACTAATAAATTATTTA
* * * * *
733331 AAATAAATCAATCTATATTTAAAATAATTCGATCTATGCTAAT-AATTATTTA
1 AAATAAATCAATCCATATTTTAAATAAATCAATC-ATACTAATAAATTATTTA
* ** * **
733383 AAATAAATCAATCCATATTTTAAATAAATTAATCATA-TTTTAAAATAAAT-
1 AAATAAATCAATCCATATTTTAAATAAATCAATCATACTAATAAATTATTTA
* ** ** *
733433 CAATCTATACAA-AAATTATTTAAAATAAATCAATCTATACTAATAAATTATTT-
1 AAATAAAT-CAATCCA-TATTTTAAATAAATCAATC-ATACTAATAAATTATTTA
*
733486 AAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTA
1 AAATAAATCAATCCATATTTT-AAATAAATCAAT-CATACTAATAAATTATTTA
733540 AAATAAATCAATCCATA
1 AAATAAATCAATCCATA
733557 CAACTACAAT
Statistics
Matches: 180, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
50 8 0.04
51 27 0.15
52 51 0.28
53 77 0.43
54 17 0.09
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (52 bp):
AAATAAATCAATCCATATTTTAAATAAATCAATCATACTAATAAATTATTTA
Found at i:733351 original size:21 final size:21
Alignment explanation
Indices: 733325--733367 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
733315 ACTAATAAAT
733325 TATTTAAAATAAATCAATCTA
1 TATTTAAAATAAATCAATCTA
* *
733346 TATTTAAAATAATTCGATCTA
1 TATTTAAAATAAATCAATCTA
733367 T
1 T
733368 GCTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCTA
Found at i:733401 original size:338 final size:328
Alignment explanation
Indices: 732897--733556 Score: 1035
Period size: 338 Copynumber: 2.0 Consensus size: 328
732887 TATTTTAAAT
*
732897 AAATCAATCTATACTAATATTTAAAAAATCATTCATACAACTGTAATATAATCAATACATATTTA
1 AAATCAATCTATACTAATATTTAAAAAATCATTCATACAACTATAATATAATCAATACATATTTA
*
732962 AATAAATCAATTCATACTAATAAATTATTTAAAATAATCAATCTATATTTTAAATAATTCAATCT
66 AATAAATCAATTCATACTAATAAATTATTTAAAATAATCAATCTATATTTAAAATAATTCAATCT
*
733027 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAA-ATAATCAAT-GT-TTTTAAAAT
131 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAATA-AATCAATCATATTTTAAAAT
*
733089 AAATTAATCCATACAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
195 AAATCAATCCATACAA-AAATTATTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAA
733154 ATCAATCCATATTTTTAAAATAAATCAATCTATACTAATAAATTATTAAAATAAATCAATCCATA
258 ATCAATCCATA-TTTTAAAATAAATCAAT-TATACTAATAAATTATTAAAATAAATCAATCCATA
733219 TTTTAAAT
321 TTTTAAAT
733227 -AATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATACAACTATAA-ATAAATCAAT
1 AAATCAATCTATAC---T-AA-TATTT-AAA-AAATC-ATTCATACAACTATAATAT-AATCAAT
733290 ACATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTAAAA
57 ACATA-TTTAAATAAATCAATTCATACTAATAAATTATTTAAAAT-AATCAATCTATATTTAAAA
* * *
733355 TAATTCGATCTATGCTAAT-AATTATTTAAAATAAATCAATCCATATTTTAAATAAATTAATCAT
120 TAATTCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAATAAATCAATCAT
* *
733419 ATTTTAAAATAAATCAATCTATACAAAAATTATTTAAAATAAATCAATCTATACTAATAAATTAT
185 ATTTTAAAATAAATCAATCCATACAAAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
733484 TTAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATC
250 TTAAATAAATCAATCCATATTTTAAAATAAATCAAT-TATACTAATAAATTA-TTAAAATAAATC
733549 AATCCATA
313 AATCCATA
733557 CAACTACAAT
Statistics
Matches: 305, Mismatches: 10, Indels: 22
0.91 0.03 0.07
Matches are distributed among these distances:
329 13 0.04
332 1 0.00
333 2 0.01
334 5 0.02
335 3 0.01
336 7 0.02
337 59 0.19
338 115 0.38
339 77 0.25
340 23 0.08
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (328 bp):
AAATCAATCTATACTAATATTTAAAAAATCATTCATACAACTATAATATAATCAATACATATTTA
AATAAATCAATTCATACTAATAAATTATTTAAAATAATCAATCTATATTTAAAATAATTCAATCT
ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAATAAATCAATCATATTTTAAAATA
AATCAATCCATACAAAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATC
AATCCATATTTTAAAATAAATCAATTATACTAATAAATTATTAAAATAAATCAATCCATATTTTA
AAT
Found at i:733407 original size:21 final size:21
Alignment explanation
Indices: 733377--733437 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
733367 TGCTAATAAT
*
733377 TATTTAAAATAAATCAATCCA
1 TATTTTAAATAAATCAATCCA
*
733398 TATTTTAAATAAATTAAT-CA
1 TATTTTAAATAAATCAATCCA
733418 TATTTTAAAATAAATCAATC
1 TATTTT-AAATAAATCAATC
733438 TATACAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
TATTTTAAATAAATCAATCCA
Found at i:733486 original size:32 final size:31
Alignment explanation
Indices: 733421--733559 Score: 165
Period size: 32 Copynumber: 4.8 Consensus size: 31
733411 TTAATCATAT
733421 TTTAAAATAAATCAATCTATACAA-AAATTA
1 TTTAAAATAAATCAATCTATACAATAAATTA
733451 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATAC-AATAAATTA
733483 TTT-AAATAAATCAATC----C-AT--A-T-
1 TTTAAAATAAATCAATCTATACAATAAATTA
*
733504 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCTATAC-AATAAATTA
*
733536 TTTAAAATAAATCAATCCATACAA
1 TTTAAAATAAATCAATCTATACAA
733560 CTACAATAAT
Statistics
Matches: 93, Mismatches: 3, Indels: 25
0.77 0.02 0.21
Matches are distributed among these distances:
21 3 0.03
22 13 0.14
23 1 0.01
25 2 0.02
26 1 0.01
27 1 0.01
28 2 0.02
30 23 0.25
31 18 0.19
32 29 0.31
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAATAAATCAATCTATACAATAAATTA
Found at i:733593 original size:48 final size:50
Alignment explanation
Indices: 733536--733645 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 50
733526 TAATAAATTA
*
733536 TTTAAAATAAATCAATCCATAC-AACTA-CA-ATAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAA-TATCATAAAATAAATCAATCCATAT
* *
733584 TTTAAAATAAATCAATTCATACTAATATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATATCA--TAAAATAAATCAATCCATAT
*
733636 TTTATAATAA
1 TTTAAAATAA
733646 TTTATTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 23 0.43
49 3 0.06
52 27 0.51
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (50 bp):
TTTAAAATAAATCAATCCATACTAATATCATAAAATAAATCAATCCATAT
Found at i:733662 original size:15 final size:15
Alignment explanation
Indices: 733633--733777 Score: 183
Period size: 15 Copynumber: 10.0 Consensus size: 15
733623 AATCAATCCA
* *
733633 TATTTTATAATAATT
1 TATTTTAAAATAAAT
733648 TA-TTTAAAATAAAT
1 TATTTTAAAATAAAT
*
733662 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
*
733677 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
*
733692 TATTTTATAATAAA-
1 TATTTTAAAATAAAT
733706 -ATTTTAAAATAAAT
1 TATTTTAAAATAAAT
* *
733720 TGTTTTATAATAAAT
1 TATTTTAAAATAAAT
*
733735 TA-TTT-ATATAAAT
1 TATTTTAAAATAAAT
733748 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
733763 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
733778 AACATTATTA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
13 20 0.17
14 18 0.16
15 77 0.67
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:733720 original size:58 final size:56
Alignment explanation
Indices: 733633--733777 Score: 209
Period size: 58 Copynumber: 2.5 Consensus size: 56
733623 AATCAATCCA
**
733633 TATTTTATAATAATTTATTTAAAATAAATTATTTTATAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAAAT-TTTAAAATAAATTATTTTATAATAAATTA-TTTAT-ATAAAT
*
733692 TATTTTATAATAAAATTTTAAAATAAATTGTTTTATAATAAATTATTTATATAAAT
1 TATTTTATAATAAAATTTTAAAATAAATTATTTTATAATAAATTATTTATATAAAT
*
733748 TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAA--ATTTTAAAATAAAT
733778 AACATTATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
56 19 0.24
57 5 0.06
58 42 0.52
59 14 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (56 bp):
TATTTTATAATAAAATTTTAAAATAAATTATTTTATAATAAATTATTTATATAAAT
Found at i:733737 original size:286 final size:279
Alignment explanation
Indices: 732992--733740 Score: 799
Period size: 286 Copynumber: 2.6 Consensus size: 279
732982 TAAATTATTT
* *
732992 AAAAT-AATCAATCTATATTTTAAATAATTCAA-TCTATACTAATAAATTATTTAAAATAAATCA
1 AAAATAAATCAATCCATATTTTAAATAAATCAATTC-ATACTAAT-AATTATTTAAAATAAATCA
** * *
733055 ATCCATATTTTAAAATAATCAATGTT-TTTAAAATAAATTAATCCATACAATAAATTA-TTTAAA
64 ATCCATATTTT---ATAAT-AAT-TTATTTAAAATAAATT-AT-TTTAAAATAAATTATTTTATA
* * * * *
733118 ATAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAATCCAT--ATT-TTTAAAATAAAT
122 ATAAAT-TAT-AATA-TAATAAAAT-TTTAAAATAAATTCTAT-AATAAATTATTTAAAATAAAT
*
733179 CAATCTATACTAATAAATTATTAAAATAAATCAATCCATATTTTAAATAATCAATCTATACTAAT
182 CAATCTATACTAATAAATTATTAAAATAAATCAATCCATATTTTAAATAATCAATATATACTAAT
*
733244 AAATTATTTAAAATAAATCAATTCATACAACTA
247 AAATTATTTAAAATAAATCAATCCATACAACTA
* *
733277 TAAATAAATCAATACATATTTTAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
1 AAAATAAATCAATCCATATTTTAAATAAATCAATTCATACTAAT-AATTATTTAAAATAAATCAA
* * * ** * ** **
733342 TCTATA-TTTAAAATAATTCGATCTATGCTAAT-AATTA-TTTAAAATAAATCAATCCATATTTT
65 TCCATATTTTATAATAATT-TAT-T-T-AAAATAAATTATTTTAAAATAAAT-TAT-TTTATAAT
* * *
733404 AAA-TA-AAT-TAATCATATTTTAAAATAAATCAATCTATACAAAAATTATTTAAAATAAATCAA
124 AAATTATAATATAATAAAATTTTAAAATAAAT---TCTATA-ATAAATTATTTAAAATAAATCAA
*
733466 TCTATACTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATA
185 TCTATACTAATAAATTATTAAAATAAATCAATCCATATTTT-AAAT-AATCAATATATACTAATA
733531 AATTATTTAAAATAAATCAATCCATACAACTA
248 AATTATTTAAAATAAATCAATCCATACAACTA
733563 CAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAAT-ATTATTTAAAATAAATC
1 -AA-AATAAATCAATCCATATTTT-AAATAAATCAATTCATACTAATAATTATTTAAAATAAATC
*
733627 AATCCATATTTTATAATAATTTATTTAAAATAAATTATTTTATAATAAATTATTTTATAATAAAT
63 AATCCATATTTTATAATAATTTATTTAAAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
** *
733692 TATTTTATAATAAAATTTTAAAATAAATTGTTTTATAATAAATTATTTA
128 TATAATATAATAAAATTTTAAAATAAA---TTCTATAATAAATTATTTA
733741 TATAAATTAT
Statistics
Matches: 384, Mismatches: 48, Indels: 63
0.78 0.10 0.13
Matches are distributed among these distances:
277 11 0.03
278 6 0.02
280 3 0.01
281 17 0.04
282 7 0.02
283 5 0.01
284 76 0.20
285 24 0.06
286 130 0.34
287 52 0.14
288 30 0.08
289 22 0.06
290 1 0.00
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.39
Consensus pattern (279 bp):
AAAATAAATCAATCCATATTTTAAATAAATCAATTCATACTAATAATTATTTAAAATAAATCAAT
CCATATTTTATAATAATTTATTTAAAATAAATTATTTTAAAATAAATTATTTTATAATAAATTAT
AATATAATAAAATTTTAAAATAAATTCTATAATAAATTATTTAAAATAAATCAATCTATACTAAT
AAATTATTAAAATAAATCAATCCATATTTTAAATAATCAATATATACTAATAAATTATTTAAAAT
AAATCAATCCATACAACTA
Found at i:733790 original size:43 final size:43
Alignment explanation
Indices: 733633--733800 Score: 209
Period size: 43 Copynumber: 3.9 Consensus size: 43
733623 AATCAATCCA
* * *
733633 TATTTTATAATAATTTATTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTT-ATATAAATTATTTTAAAATAAAT
733677 TATTTTATAATAAATTATTTTATAATAAA--ATTTTAAAATAAAT
1 TATTTTATAATAAATTA-TTTAT-ATAAATTATTTTAAAATAAAT
*
733720 TGTTTTATAATAAATTATTTATATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTATATAAATTATTTTAAAATAAAT
* * *
733763 TATTTTAAAATAAATAACATTAT-TAAATTA-TTTAAAAT
1 TATTTTATAATAAATTA-TTTATATAAATTATTTTAAAAT
733801 TATTTTAATA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
41 5 0.05
42 13 0.12
43 64 0.58
44 21 0.19
45 8 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (43 bp):
TATTTTATAATAAATTATTTATATAAATTATTTTAAAATAAAT
Found at i:734759 original size:23 final size:24
Alignment explanation
Indices: 734714--734768 Score: 103
Period size: 23 Copynumber: 2.3 Consensus size: 24
734704 TAGAAGTTCG
734714 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
734738 ATTGAAGCCTAAAA-TTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
734761 ATTGAAGC
1 ATTGAAGC
734769 GAAAGAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:738036 original size:27 final size:27
Alignment explanation
Indices: 737965--738057 Score: 140
Period size: 25 Copynumber: 3.6 Consensus size: 27
737955 TCTATTTACA
*
737965 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
737992 AAAT--TATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
738017 AAATCATAACTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
738044 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
738058 ATTCCTACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
25 32 0.52
27 29 0.48
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:741738 original size:27 final size:27
Alignment explanation
Indices: 741708--741786 Score: 87
Period size: 25 Copynumber: 3.1 Consensus size: 27
741698 CCATATCCTT
* * *
741708 TAGGACTGATAACAAATCAT-ATTTCTA
1 TAGGAATGGTAACAAATCATGA-CTCTA
741735 TAGGAATGGTAAC--ATCATGACTCTA
1 TAGGAATGGTAACAAATCATGACTCTA
741760 TAGGAATGGTAACAAATCAT--CTCTA
1 TAGGAATGGTAACAAATCATGACTCTA
741785 TA
1 TA
741787 ATTCCTACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 29 0.63
26 1 0.02
27 16 0.35
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (27 bp):
TAGGAATGGTAACAAATCATGACTCTA
Found at i:743486 original size:22 final size:21
Alignment explanation
Indices: 743446--743501 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
743436 GTAATATTTT
743446 TTTTATAAAAGTTAATGATCA
1 TTTTATAAAAGTTAATGATCA
* * *
743467 TTTTATAACAGTATAGTGATTA
1 TTTTATAAAAGT-TAATGATCA
*
743489 TTTTATAATAGTT
1 TTTTATAAAAGTT
743502 TCTGAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.48
Consensus pattern (21 bp):
TTTTATAAAAGTTAATGATCA
Found at i:757693 original size:14 final size:14
Alignment explanation
Indices: 757674--757702 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
757664 AATAAACGAG
757674 TATGAACATAAAAT
1 TATGAACATAAAAT
757688 TATGAACATAAAAT
1 TATGAACATAAAAT
757702 T
1 T
757703 TTATGTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (14 bp):
TATGAACATAAAAT
Found at i:759611 original size:54 final size:53
Alignment explanation
Indices: 759550--759657 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 53
759540 GGTGAGACTT
*
759550 AATTTCATTTAACTTTAAAATCGATAATGTCTTAAAAAATAATTAAACTAAAAA
1 AATTTCATTTAACTTTAAAATCGAAAATGTCTT-AAAAATAATTAAACTAAAAA
759604 AATTTCATTTAACTTTAAAATCGAAAATGTCTTAAAAATAATTAAACTAAAAA
1 AATTTCATTTAACTTTAAAATCGAAAATGTCTTAAAAATAATTAAACTAAAAA
759657 A
1 A
759658 TTTTTAGAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 21 0.40
54 32 0.60
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (53 bp):
AATTTCATTTAACTTTAAAATCGAAAATGTCTTAAAAATAATTAAACTAAAAA
Found at i:761490 original size:42 final size:42
Alignment explanation
Indices: 761430--761512 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
761420 CCCGAAATCG
* * * *
761430 CGTGTTTGTTTCATGTAATTCGTTTTTCGGAAAATGTTTTCT
1 CGTGTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTCT
*
761472 CGTGTTTGTTTTACGTAATTCATTTTCCAGAAAATGTTTTC
1 CGTGTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTC
761513 CAGAGTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTCT
Found at i:761521 original size:42 final size:42
Alignment explanation
Indices: 761433--761521 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
761423 GAAATCGCGT
* * * * *
761433 GTTTGTTTCATGTAATTCGTTTTTCGGAAAATGTTTTCTCGT
1 GTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTCTCGA
*
761475 GTTTGTTTTACGTAATTCATTTTCCAGAAAATGTTTTC-CAGA
1 GTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTCTC-GA
761517 GTTTG
1 GTTTG
761522 GTTGGAGGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.49
Consensus pattern (42 bp):
GTTTGTTTCACGTAATTCATTTTCCAGAAAATGTTTTCTCGA
Found at i:761782 original size:22 final size:22
Alignment explanation
Indices: 761736--761790 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
761726 AATTATTAAA
*
761736 ATATTTAAAAT-ATATTTATTG
1 ATATTTATAATAATATTTATTG
761757 ATATTTATAATAATATTATATT-
1 ATATTTATAATAATATT-TATTG
*
761779 ATATTTTTAATA
1 ATATTTATAATA
761791 TTTTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 16 0.53
23 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTTATAATAATATTTATTG
Found at i:761812 original size:32 final size:32
Alignment explanation
Indices: 761746--761825 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
761736 ATATTTAAAA
* * *
761746 TATATTTATTGATATTTATAATAATATTATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
761778 TATATTT-TTAATATTT-TAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
761810 TATATTATAATAATAT
1 TATATT-TATTAATAT
761826 AAGATATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 10 0.25
31 8 0.20
32 15 0.38
33 1 0.03
34 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:761878 original size:30 final size:28
Alignment explanation
Indices: 761810--761919 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 28
761800 AATAATCAAT
761810 TATATTATAATAATATA-AGATATTATATT-
1 TATATT-TAATAATATATA-ATATTAT-TTA
* * *
761839 TTTGTTTTAATAAATATATAATAATTTTTTA
1 TAT-ATTTAAT-AATATATAAT-ATTATTTA
761870 TATATTTAATAATGA-ATAATATTATTTA
1 TATATTTAATAAT-ATATAATATTATTTA
761898 TATATTTAATTAATATAATAAT
1 TATATTTAA-TAATAT-ATAAT
761920 CTAATAATAG
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
28 17 0.26
29 18 0.27
30 24 0.36
31 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TATATTTAATAATATATAATATTATTTA
Found at i:761911 original size:29 final size:29
Alignment explanation
Indices: 761856--761919 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
761846 TAATAAATAT
*
761856 ATAATAATTTTTTATATATTTAATAATGA
1 ATAATAATTATTTATATATTTAATAATGA
761885 ATAAT-ATTATTTATATATTTAATTAAT--
1 ATAATAATTATTTATATATTTAA-TAATGA
761912 ATAATAAT
1 ATAATAAT
761920 CTAATAATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.16
28 18 0.56
29 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATAATAATTATTTATATATTTAATAATGA
Found at i:762349 original size:15 final size:15
Alignment explanation
Indices: 762314--762395 Score: 82
Period size: 15 Copynumber: 5.5 Consensus size: 15
762304 TTCCATAAAT
**
762314 GTAATTCATTTTTCA
1 GTAATTCAAATTTCA
762329 -TAATTCAAATTTCA
1 GTAATTCAAATTTCA
*
762343 GTAATTC-ATTTTCCA
1 GTAATTCAAATTT-CA
762358 GTAATTCAAA-TTCTA
1 GTAATTCAAATTTC-A
762373 GTAATTCAAA-TTCTA
1 GTAATTCAAATTTC-A
762388 GTAATTCA
1 GTAATTCA
762396 TTTTCCAGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.29
15 41 0.69
16 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (15 bp):
GTAATTCAAATTTCA
Found at i:762365 original size:30 final size:30
Alignment explanation
Indices: 762314--762395 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
762304 TTCCATAAAT
*
762314 GTAATTCATTTTTCA-TAATTCAAATT-TCA
1 GTAATTCATTTTCCAGTAATTCAAATTCT-A
762343 GTAATTCATTTTCCAGTAATTCAAATTCTA
1 GTAATTCATTTTCCAGTAATTCAAATTCTA
** *
762373 GTAATTCAAATTCTAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
762396 TTTTCCAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 14 0.30
30 32 0.68
31 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCTA
Found at i:767436 original size:2 final size:2
Alignment explanation
Indices: 767429--767510 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
767419 GGTTATTACT
767429 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
767471 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
767511 GAATAAAGGG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:767778 original size:31 final size:32
Alignment explanation
Indices: 767737--767797 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
767727 AAGGTAAAAA
767737 TATGTGTTTAAT-ATTTAAATTATT-AATTTTGG
1 TATGTGTTTAATCA-TTAAATT-TTCAATTTTGG
767769 TATGT-TTTAATCATTAAATTTTCAATTTT
1 TATGTGTTTAATCATTAAATTTTCAATTTT
767798 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 2 0.07
31 19 0.70
32 6 0.22
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (32 bp):
TATGTGTTTAATCATTAAATTTTCAATTTTGG
Found at i:768277 original size:20 final size:20
Alignment explanation
Indices: 768252--768290 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
768242 ATATCTAAAT
768252 TTTTATTTTTATTTTTCAAC
1 TTTTATTTTTATTTTTCAAC
768272 TTTTATTTTTATTTTTCAA
1 TTTTATTTTTATTTTTCAA
768291 AACTATGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTTTTCAAC
Found at i:768483 original size:35 final size:34
Alignment explanation
Indices: 768422--768499 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 34
768412 ATCTAAACGT
768422 TAAATTTTGAACAGTACTAAAATAAAATAAAAAC
1 TAAATTTTGAACAGTACTAAAATAAAATAAAAAC
*
768456 TAAAGTTTTTAACAGTATAATACTAAAATAAAATAAAAAC
1 TAAA-TTTTGAACAG-----TACTAAAATAAAATAAAAAC
768496 TAAA
1 TAAA
768500 CTTTAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 4 0.11
35 9 0.24
40 24 0.65
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (34 bp):
TAAATTTTGAACAGTACTAAAATAAAATAAAAAC
Found at i:771910 original size:2 final size:2
Alignment explanation
Indices: 771903--771937 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
771893 ACAATACTTC
771903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
771938 TTCAATTAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:774324 original size:2 final size:2
Alignment explanation
Indices: 774319--774364 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
774309 AGAATTTATC
774319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
774361 AT AT
1 AT AT
774365 GATAAATTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:780075 original size:2 final size:2
Alignment explanation
Indices: 780068--780106 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
780058 AAACCTCTAC
780068 TA TA TA TA TA TA TA TA TA TA TA T- 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
780107 AAAACACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:781889 original size:14 final size:14
Alignment explanation
Indices: 781870--781896 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
781860 AGTTTAGTTT
781870 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
781884 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
781897 TATGTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:785972 original size:28 final size:29
Alignment explanation
Indices: 785933--785989 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
785923 CGAGAGCAGG
785933 AGGAGTGCATGG-GACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
785961 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
785990 CGCATGGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.25, C:0.26, G:0.35, T:0.14
Consensus pattern (29 bp):
AGGAGTGCATGGCGACCTACAAGGTCGCC
Found at i:797771 original size:22 final size:22
Alignment explanation
Indices: 797727--797767 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
797717 AAAACTCAAG
*
797727 AAAAAACAAAAGACATAATATA
1 AAAAAACAAAAGACAAAATATA
*
797749 AAAAAATAAAAGA-AAAATA
1 AAAAAACAAAAGACAAAATA
797768 ATAATCACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAAACAAAAGACAAAATATA
Found at i:805295 original size:21 final size:21
Alignment explanation
Indices: 805271--805312 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
805261 AGTTTATTTT
*
805271 TAAATTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
* *
805292 TAAACTTTGTTTTAATTATCG
1 TAAACTTTATTTCAATTATCG
805313 AACTTGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:805349 original size:33 final size:32
Alignment explanation
Indices: 805305--805377 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 32
805295 ACTTTGTTTT
* *
805305 AATTATCGAACTTGGAAGTTTTTAAGTATTTG
1 AATTATCGAACTTGGAAGTATTTAAGTATTTC
805337 AATTTATCGAACTTGGAAGTATTTAAGTATTTC
1 AA-TTATCGAACTTGGAAGTATTTAAGTATTTC
805370 AATTATCG
1 AATTATCG
805378 TAAACTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 8 0.21
33 30 0.79
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.42
Consensus pattern (32 bp):
AATTATCGAACTTGGAAGTATTTAAGTATTTC
Found at i:822302 original size:76 final size:74
Alignment explanation
Indices: 822151--822293 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 74
822141 AGTATTCTAC
* *
822151 ATTCTCTGTCATCTAATCCTCCCTTAATAATATTTCAAAAAATAGATCGGAGTCAAAATCATAAG
1 ATTCTCTGTCATCTAATCCTCCCTTAATAATATTTCAAAAAATAGATCGGAGTCAAAATCACAAA
822216 TTGACATTG
66 TTGACATTG
* * * *
822225 ATTCTCTTCGTCATCTAATCCTCCCTTAATAGTATTTCAAATAATAGGTCGGAGTTAAAATCACA
1 ATTCTC-T-GTCATCTAATCCTCCCTTAATAATATTTCAAAAAATAGATCGGAGTCAAAATCACA
822290 AATT
64 AATT
822294 ATTATTGATG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 6 0.10
75 1 0.02
76 54 0.89
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (74 bp):
ATTCTCTGTCATCTAATCCTCCCTTAATAATATTTCAAAAAATAGATCGGAGTCAAAATCACAAA
TTGACATTG
Found at i:824667 original size:25 final size:25
Alignment explanation
Indices: 824633--824683 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
824623 AGCGACATGA
824633 ATGAACTTTTAGTGAGTCTTAAATT
1 ATGAACTTTTAGTGAGTCTTAAATT
824658 ATGAACTTTTAGTGAGTCTTAAATT
1 ATGAACTTTTAGTGAGTCTTAAATT
824683 A
1 A
824684 CTTTCTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (25 bp):
ATGAACTTTTAGTGAGTCTTAAATT
Found at i:829177 original size:218 final size:218
Alignment explanation
Indices: 828799--829234 Score: 854
Period size: 218 Copynumber: 2.0 Consensus size: 218
828789 TCCCAGGTAT
828799 GCTCTCCTTAATATCGTAATTCTAGTTTACATGTGACACGGTAGACAAACTTGTCGATGCTATAA
1 GCTCTCCTTAATATCGTAATTCTAGTTTACATGTGACACGGTAGACAAACTTGTCGATGCTATAA
*
828864 GCTTTTTAGCCAAGTCAATTGTGCTTTTTCAAAACATTTTCGTAGAAGAGTGATGTTTTGTTCAC
66 GCTTTTTAGCCAAGTCAATTGTGCTTTTTCAAAACATTTTCATAGAAGAGTGATGTTTTGTTCAC
828929 TCAGAAGAAACACCAGTCAGATTCCTAGCATCTCACTTAGGCCTTGCTTTAGCAGGTAGTAGATG
131 TCAGAAGAAACACCAGTCAGATTCCTAGCATCTCACTTAGGCCTTGCTTTAGCAGGTAGTAGATG
828994 CGCTAGATCTGGCACAAGCAACA
196 CGCTAGATCTGGCACAAGCAACA
829017 GCTCTCCTTAATATCGTAATTCTAGTTTACATGTGACACGGTAGACAAACTTGTCGATGCTATAA
1 GCTCTCCTTAATATCGTAATTCTAGTTTACATGTGACACGGTAGACAAACTTGTCGATGCTATAA
*
829082 GCTTTTTAGCCAAGTCAATTGTGCTTTTTCATAACATTTTCATAGAAGAGTGATGTTTTGTTCAC
66 GCTTTTTAGCCAAGTCAATTGTGCTTTTTCAAAACATTTTCATAGAAGAGTGATGTTTTGTTCAC
829147 TCAGAAGAAACACCAGTCAGATTCCTAGCATCTCACTTAGGCCTTGCTTTAGCAGGTAGTAGATG
131 TCAGAAGAAACACCAGTCAGATTCCTAGCATCTCACTTAGGCCTTGCTTTAGCAGGTAGTAGATG
829212 CGCTAGATCTGGCACAAGCAACA
196 CGCTAGATCTGGCACAAGCAACA
829235 ATGTCGAAAG
Statistics
Matches: 216, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 216 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (218 bp):
GCTCTCCTTAATATCGTAATTCTAGTTTACATGTGACACGGTAGACAAACTTGTCGATGCTATAA
GCTTTTTAGCCAAGTCAATTGTGCTTTTTCAAAACATTTTCATAGAAGAGTGATGTTTTGTTCAC
TCAGAAGAAACACCAGTCAGATTCCTAGCATCTCACTTAGGCCTTGCTTTAGCAGGTAGTAGATG
CGCTAGATCTGGCACAAGCAACA
Found at i:832287 original size:21 final size:22
Alignment explanation
Indices: 832240--832287 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
832230 TTAGTTGTTG
**
832240 ATAAAAAAAGTGTTTTCTACTA
1 ATAAAAAAAGTGTTTTCTAAAA
*
832262 TTAAAAAAA-TGTTTTCTAAAA
1 ATAAAAAAAGTGTTTTCTAAAA
832283 ATAAA
1 ATAAA
832288 TTAAGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAAAAAAAGTGTTTTCTAAAA
Found at i:833107 original size:81 final size:80
Alignment explanation
Indices: 832680--833439 Score: 371
Period size: 81 Copynumber: 9.4 Consensus size: 80
832670 ATCTCTATAG
* * * * *
832680 GTGACATTCTCTTAATAAAATAAAATCTTAAGAT-TAGATCTTT-TAAATCTTATGCATCGATTA
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAA-TTCTAGAT-TTTCTAAATCTTATGCATTGATTA
*
832743 TTGTATAAATC-CTGACAC
64 -TATATAAATCTC-GACAC
* * ** * * ** * * * * * *
832761 ATAATGTTCTCTCAACAACGTAAAGTCTTAACACTATATTTTCCAAATCATAAGTATTGATTTGT
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGA-TTAT
*
832826 ATATAAATCTTGACAC
65 ATATAAATCTCGACAC
** ** * * * ** * * *
832842 ACGATTTTCTCTTAATAAAGTAAGGTCCTAAGACTAAATCTTCTAAATCTTATGCATCGATTCAT
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGATT-AT
* * *
832907 GTATAAATC-CTAAAAC
65 ATATAAATCTC-GACAC
* * * * * * * * **
832923 GTGACATT-T-GTATGCATGATTAAAGTGTTAATTATTAG-TATTTCTTAAAGCTTGTGTGTTGT
1 GTGACATTCTCTTA-ACA-AAGTAAAGTCTTAATT-CTAGAT-TTTC-TAAATCTTATGCATTG-
* * * * *
832985 CTTATTTGTAAATTTTGACAC
60 ATTATATATAAATCTCGACAC
*
833006 GTGACATTTTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGATCTAT
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGAT-TAT
833071 ATATAAATCTCGACAC
65 ATATAAATCTCGACAC
* * * * * * *
833087 GTGATATTCTTTTAATAAAGTAAAATCTTAATAT-TAGATTTTCTAAATTTTATGTATCGATTCA
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAAT-TCTAGATTTTCTAAATCTTATGCATTGATT-A
*
833151 TATATATATC-CTGACAC
64 TATATAAATCTC-GACAC
* * * * * * * * * * *
833168 GTAACATCCTCTTGACAACA-TAAA-TATTAATACTATATATTCCAAATCATAAGCATTGATTTG
1 GTGACATTCTCTTAACAA-AGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGA-TTA
*
833231 TATATAAATCTTGACAC
64 TATATAAATCTCGACAC
* * * * ** * *
833248 GTGATATTCTCTTAATAAAGTAAGGTTTTAAGACTAGATTTTCTGAATCTTATGCATCGATTCAT
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGATT-AT
* *
833313 GTAAAAATC-CTGACAC
65 ATATAAATCTC-GACAC
* * * * * *
833329 GTGAAATTCTCTTAACAAAGTAAAATTTTAATATC-ATG-CTTTC-AAATCATAAGCATTGATTT
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAAT-TCTA-GATTTTCTAAATCTTATGCATTGA-TT
* *
833391 GTATATAAATCTTGACAC
63 ATATATAAATCTCGACAC
* *
833409 GTGACATTCTCTTAATAAAGTAAGGTCTTAA
1 GTGACATTCTCTTAACAAAGTAAAGTCTTAA
833440 GAATAGATTT
Statistics
Matches: 495, Mismatches: 152, Indels: 65
0.70 0.21 0.09
Matches are distributed among these distances:
79 3 0.01
80 117 0.24
81 306 0.62
82 18 0.04
83 44 0.09
84 5 0.01
85 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (80 bp):
GTGACATTCTCTTAACAAAGTAAAGTCTTAATTCTAGATTTTCTAAATCTTATGCATTGATTATA
TATAAATCTCGACAC
Found at i:833473 original size:161 final size:161
Alignment explanation
Indices: 833000--833490 Score: 550
Period size: 161 Copynumber: 3.0 Consensus size: 161
832990 TTGTAAATTT
* * * * * *
833000 TGACACGTGACATTTTCTTAACAAAGTAAAGTCTTAAT-TC-TAGATTTTCTAAATCTTATGCAT
1 TGACACGTGAAATTCTCTTAACAAAGTAAAATATTAATATCAT-GA-TTTC-AAATCATAAGCAT
* * * * ** * *
833063 TGATCTATATATAAATCTCGACACGTGATATTCTTTTAATAAAGTAAAATCTTAATATTAGATTT
63 TGATTTGTATATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTCTTAAGAATAGATTT
* * * * *
833128 TCTAAATTTTATGTATCGATTCATATATATATCC
128 TCCAGATCTTATGTATCGATTCATGTATAAATCC
* *
833162 TGACACGT-AACATCCTCTTGACAACA-T-AAATATTAATA-CTAT-ATATTCCAAATCATAAGC
1 TGACACGTGAA-ATTCTCTTAACAA-AGTAAAATATTAATATC-ATGAT-TT-CAAATCATAAGC
* *
833222 ATTGATTTGTATATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTTTTAAGACTAGAT
61 ATTGATTTGTATATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTCTTAAGAATAGAT
* * *
833287 TTT-CTGAATCTTATGCATCGATTCATGTAAAAATCC
126 TTTCCAG-ATCTTATGTATCGATTCATGTATAAATCC
* *
833323 TGACACGTGAAATTCTCTTAACAAAGTAAAATTTTAATATCATGCTTTCAAATCATAAGCATTGA
1 TGACACGTGAAATTCTCTTAACAAAGTAAAATATTAATATCATGATTTCAAATCATAAGCATTGA
*
833388 TTTGTATATAAATCTTGACACGTGACATTCTCTTAATAAAGTAAGGTCTTAAGAATAGATTTTCC
66 TTTGTATATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTCTTAAGAATAGATTTTCC
* * *
833453 AGATCTTGTATATGGATTCATGTATAAAT-C
131 AGATCTTATGTATCGATTCATGTATAAATCC
833483 TGACACGT
1 TGACACGT
833491 TATATTTGTA
Statistics
Matches: 277, Mismatches: 38, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
160 11 0.04
161 224 0.81
162 38 0.14
163 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (161 bp):
TGACACGTGAAATTCTCTTAACAAAGTAAAATATTAATATCATGATTTCAAATCATAAGCATTGA
TTTGTATATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTCTTAAGAATAGATTTTCC
AGATCTTATGTATCGATTCATGTATAAATCC
Found at i:833487 original size:80 final size:79
Alignment explanation
Indices: 833233--833490 Score: 227
Period size: 81 Copynumber: 3.2 Consensus size: 79
833223 TTGATTTGTA
* * *
833233 TATAAATCTTGACACGTGATATTCTCTTAATAAAGTAAGGTTTTAAGACTAGATTTTCTGAATCT
1 TATAAATCTTGACACGTGAAATTCTCTTAATAAAGTAAGGTTTTAAGAATAGATTTTCAG-ATCT
* **
833298 TATGCATCGATTCATG
65 TGTATAT-GATTCATG
* * * ** * * *
833314 TAAAAATCCTGACACGTGAAATTCTCTTAACAAAGTAAAATTTTAA-TATCATG-CTTTCAAATC
1 TATAAATCTTGACACGTGAAATTCTCTTAATAAAGTAAGGTTTTAAGAAT-A-GATTTTCAGATC
* * ** *
833377 ATAAGCAT-TGATTTGTA
64 -T-TGTATATGATTCATG
* *
833394 TATAAATCTTGACACGTGACATTCTCTTAATAAAGTAAGGTCTTAAGAATAGATTTTCCAGATCT
1 TATAAATCTTGACACGTGAAATTCTCTTAATAAAGTAAGGTTTTAAGAATAGATTTT-CAGATCT
833459 TGTATATGGATTCATG
65 TGTATAT-GATTCATG
833475 TATAAATC-TGACACGT
1 TATAAATCTTGACACGT
833491 TATATTTGTA
Statistics
Matches: 134, Mismatches: 34, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
79 4 0.03
80 62 0.46
81 67 0.50
82 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (79 bp):
TATAAATCTTGACACGTGAAATTCTCTTAATAAAGTAAGGTTTTAAGAATAGATTTTCAGATCTT
GTATATGATTCATG
Found at i:836118 original size:31 final size:31
Alignment explanation
Indices: 836083--836155 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
836073 AATCAAAAGC
* * * *
836083 TATAAAATAATCCTTACA-TTTATCGAACTAT
1 TATAAAATAA-CATTAAATTTTATCAAACCAT
836114 TATAAAATTAACATTAAATTTTATCAAACCAT
1 TATAAAA-TAACATTAAATTTTATCAAACCAT
836146 TATAAAATAA
1 TATAAAATAA
836156 ACTTTTACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.37
Consensus pattern (31 bp):
TATAAAATAACATTAAATTTTATCAAACCAT
Found at i:836285 original size:22 final size:22
Alignment explanation
Indices: 836257--836302 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
836247 ACAAAACGAT
836257 CATTCAATCATAGTTAACTAAC
1 CATTCAATCATAGTTAACTAAC
836279 CATTCAATCATAGTTAACTAAC
1 CATTCAATCATAGTTAACTAAC
836301 CA
1 CA
836303 CTGATGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.30
Consensus pattern (22 bp):
CATTCAATCATAGTTAACTAAC
Found at i:842888 original size:20 final size:21
Alignment explanation
Indices: 842852--842912 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
842842 TTTTGGTGCA
*
842852 GAGGGAA-TCGATACCCCC-AT
1 GAGGGAACT-GATTCCCCCTAT
*
842872 GAGGGAACTGATTCCCCCTTT
1 GAGGGAACTGATTCCCCCTAT
*
842893 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACTGATTCCCCC
842913 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 15 0.44
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACTGATTCCCCCTAT
Found at i:842921 original size:21 final size:21
Alignment explanation
Indices: 842895--842934 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
842885 CCCCCTTTGA
*
842895 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
842916 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
842935 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:846438 original size:35 final size:37
Alignment explanation
Indices: 846370--846440 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 37
846360 AGGATATGTA
846370 TTTAAATAAAATAATGATAATTAATTTCAAATATTTT
1 TTTAAATAAAATAATGATAATTAATTTCAAATATTTT
* *
846407 TTTAAA-AAAAT-ATG-TAGTTGAATTTCGAATATTT
1 TTTAAATAAAATAATGATAATT-AATTTCAAATATTT
846441 CCAACTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.13
35 16 0.52
36 5 0.16
37 6 0.19
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTAAATAAAATAATGATAATTAATTTCAAATATTTT
Found at i:850622 original size:15 final size:15
Alignment explanation
Indices: 850602--850652 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
850592 GAATTTTATT
*
850602 ATTTATGTACATATG
1 ATTTATGTACATGTG
850617 ATTTATGT-CATGT-
1 ATTTATGTACATGTG
850630 ATTTATGTACATGTG
1 ATTTATGTACATGTG
*
850645 ATATATGT
1 ATTTATGT
850653 TATATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (15 bp):
ATTTATGTACATGTG
Found at i:850663 original size:28 final size:29
Alignment explanation
Indices: 850598--850691 Score: 102
Period size: 28 Copynumber: 3.2 Consensus size: 29
850588 TTATGAATTT
* *
850598 TATTATTTATGTACATATGATTTATGTCA
1 TATTATTTATGTACATGTGATATATGTCA
* *
850627 T-GTATTTATGTACATGTGATATATGTTA
1 TATTATTTATGTACATGTGATATATGTCA
* *
850655 TATTATTATTTGAACATGTGA-AGTATGTCA
1 TATTATT-TATGTACATGTGATA-TATGTCA
850685 TATTATT
1 TATTATT
850692 ACTTTGATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 24 0.44
29 6 0.11
30 24 0.44
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (29 bp):
TATTATTTATGTACATGTGATATATGTCA
Found at i:850674 original size:30 final size:32
Alignment explanation
Indices: 850637--850728 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 32
850627 TGTATTTATG
*
850637 TACATGTGATA-TATGTTATATTATTA-TTTGA
1 TACATGTGA-AGTATGTCATATTATTACTTTGA
850668 -ACATGTGAAGTATGTCATATTATTACTTTGA
1 TACATGTGAAGTATGTCATATTATTACTTTGA
* *
850699 TACATAT--AGTATGTGTCATATTATCACTTT
1 TACATGTGAAGTA--TGTCATATTATTACTTT
850729 AGACATATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
29 1 0.02
30 26 0.49
31 5 0.09
32 21 0.40
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (32 bp):
TACATGTGAAGTATGTCATATTATTACTTTGA
Done.