Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, 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: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 17 of 31
Found at i:8482642 original size:2 final size:2
Alignment explanation
Indices: 8482635--8482662 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8482625 TGGAATTGGC
8482635 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
8482663 TACCAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8483725 original size:2 final size:2
Alignment explanation
Indices: 8483718--8483756 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8483708 TGGATTTATC
8483718 TA TA 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 TA TA T
8483757 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8484992 original size:21 final size:22
Alignment explanation
Indices: 8484957--8485003 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
8484947 CCAAGTACTG
*
8484957 TAATTAATTTTTTTTTAATATTT
1 TAATTAA-TTTTTTTTAATATAT
8484980 TAATTAA-TTTTTTTAATATAT
1 TAATTAATTTTTTTTAATATAT
8485001 TAA
1 TAA
8485004 ATATTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
23 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATTAATTTTTTTTAATATAT
Found at i:8488150 original size:28 final size:30
Alignment explanation
Indices: 8488118--8488181 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
8488108 TATCTAGTTT
* *
8488118 TATTTTATTTTATTT-TTT-TAAATATTAA
1 TATTTTATTTAATTTATTTAAAAATATTAA
8488146 TA-TTT-TTTAATTTATTTAAAAATATTAA
1 TATTTTATTTAATTTATTTAAAAATATTAA
8488174 TATTTTAT
1 TATTTTAT
8488182 AATATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 7 0.23
27 6 0.20
28 13 0.43
29 3 0.10
30 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTATTTAATTTATTTAAAAATATTAA
Found at i:8488712 original size:4 final size:4
Alignment explanation
Indices: 8488703--8488729 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8488693 TTCATAATTG
8488703 TAGA TAGA TAGA TAGA TAGA TAGA TAG
1 TAGA TAGA TAGA TAGA TAGA TAGA TAG
8488730 GGAGAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
TAGA
Found at i:8506437 original size:21 final size:22
Alignment explanation
Indices: 8506405--8506504 Score: 62
Period size: 21 Copynumber: 4.6 Consensus size: 22
8506395 GTTTTGGTGG
8506405 TTTTT-GAGTATTGTATGACT-A
1 TTTTTAGA-TATTGTATGACTAA
** * *
8506426 TTTTTAGATATTACATGATTGA
1 TTTTTAGATATTGTATGACTAA
* * * * * *
8506448 -TTATGGGTATTGCATGATTAG
1 TTTTTAGATATTGTATGACTAA
* *
8506469 TTTTTAAATATTGTGTGACTAA
1 TTTTTAGATATTGTATGACTAA
8506491 TTTTTAGATATTGT
1 TTTTTAGATATTGT
8506505 GTAACTGACT
Statistics
Matches: 58, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
21 29 0.50
22 29 0.50
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (22 bp):
TTTTTAGATATTGTATGACTAA
Found at i:8506494 original size:22 final size:22
Alignment explanation
Indices: 8506455--8506551 Score: 70
Period size: 22 Copynumber: 4.5 Consensus size: 22
8506445 TGATTATGGG
* * *
8506455 TATTGCATGATTAGTTTTTAAA
1 TATTGCGTGACTAATTTTTAAA
* *
8506477 TATTGTGTGACTAATTTTTAGA
1 TATTGCGTGACTAATTTTTAAA
* * * * *
8506499 TATTGTGTAACTGA-CTTTAGA
1 TATTGCGTGACTAATTTTTAAA
* * *
8506520 CATTACGTGACTAATTTTTAAG
1 TATTGCGTGACTAATTTTTAAA
8506542 TATTGCGTGA
1 TATTGCGTGA
8506552 TTGGTTAATA
Statistics
Matches: 56, Mismatches: 18, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
21 15 0.27
22 41 0.73
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (22 bp):
TATTGCGTGACTAATTTTTAAA
Found at i:8506631 original size:23 final size:23
Alignment explanation
Indices: 8506543--8506631 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
8506533 ATTTTTAAGT
* * * *
8506543 ATTGCGTGATTGGTTAATATGGC
1 ATTGCGTGACTAGTTAGTAAGGC
* * *
8506566 ATTGCATGACTAGTTGGT-AGGT
1 ATTGCGTGACTAGTTAGTAAGGC
* * *
8506588 ATTACGTGACTTGCTAGTAAGGC
1 ATTGCGTGACTAGTTAGTAAGGC
*
8506611 ATTGCGTGACTAGTTACTAAG
1 ATTGCGTGACTAGTTAGTAAG
8506632 ATATTATGTG
Statistics
Matches: 48, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
22 15 0.31
23 33 0.69
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (23 bp):
ATTGCGTGACTAGTTAGTAAGGC
Found at i:8506762 original size:23 final size:22
Alignment explanation
Indices: 8506714--8506762 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8506704 ACCAATCACG
* *
8506714 CAATACTTAAAAACTAGTCTTA
1 CAATACTTAAAAACTAGTATAA
8506736 CAATACTTAAAAA-TCAGTATAA
1 CAATACTTAAAAACT-AGTATAA
8506758 TCAAT
1 -CAAT
8506763 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (22 bp):
CAATACTTAAAAACTAGTATAA
Found at i:8512938 original size:15 final size:15
Alignment explanation
Indices: 8512918--8512946 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8512908 TGGATCAAGT
8512918 TTTCAAAATATCTAG
1 TTTCAAAATATCTAG
8512933 TTTCAAAATATCTA
1 TTTCAAAATATCTA
8512947 CATGGTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTCAAAATATCTAG
Found at i:8526449 original size:2 final size:2
Alignment explanation
Indices: 8526442--8526475 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8526432 TTGAGTCATT
8526442 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
8526476 ATTTTGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8535088 original size:87 final size:86
Alignment explanation
Indices: 8534962--8535127 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 86
8534952 TTTTCAATCT
** *
8534962 AAAAGATATGCTTTAAGATTTATTATTATGAGTAAGATTATTGTCACGAG-CTCACATATTAGTA
1 AAAAGATATGCTTTAAGATTTATTATTACCAGTAAGATTATTGTCACGAGCCT-ACATATGAGTA
*
8535026 TTCTTGTATAATTATTGAGTCC
65 TTCTCGTATAATTATTGAGTCC
* * *
8535048 AAAAGATATGTTTTTAA-AGTTTATTATTACCAGTATGATTATTGTCACGAGCCTACATATGATT
1 AAAAGATATG-CTTTAAGA-TTTATTATTACCAGTAAGATTATTGTCACGAGCCTACATATGAGT
*
8535112 ATTCTCGTATGATTAT
64 ATTCTCGTATAATTAT
8535128 CATCATGGAC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 11 0.16
87 56 0.81
88 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (86 bp):
AAAAGATATGCTTTAAGATTTATTATTACCAGTAAGATTATTGTCACGAGCCTACATATGAGTAT
TCTCGTATAATTATTGAGTCC
Found at i:8536219 original size:33 final size:33
Alignment explanation
Indices: 8536180--8536252 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
8536170 TTTTAATGTC
*
8536180 ATATATTTTATTTTTATTTCTTATTATAATCTT
1 ATATATTTTATTTTTATTTCTTAATATAATCTT
*
8536213 ATATATTTTATTTTTATTTCTTAATATAATTTT
1 ATATATTTTATTTTTATTTCTTAATATAATCTT
*
8536246 TTATATT
1 ATATATT
8536253 AAATATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTCTTAATATAATCTT
Found at i:8536252 original size:22 final size:22
Alignment explanation
Indices: 8536209--8536252 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8536199 CTTATTATAA
* *
8536209 TCTTATATATTTTATTTTTATT
1 TCTTATATAATTTATTTATATT
8536231 TCTTAATATAATTT-TTTATATT
1 TCTT-ATATAATTTATTTATATT
8536253 AAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TCTTATATAATTTATTTATATT
Found at i:8537941 original size:21 final size:20
Alignment explanation
Indices: 8537916--8537963 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
8537906 GACAAAATAG
8537916 AAAGTAAATAGGTTTATAT-TA
1 AAAGTAAATA--TTTATATATA
*
8537937 AAAGTATATATTTATATATA
1 AAAGTAAATATTTATATATA
*
8537957 ATAGTAA
1 AAAGTAA
8537964 TTATATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAGTAAATATTTATATATA
Found at i:8546541 original size:11 final size:11
Alignment explanation
Indices: 8546525--8546550 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8546515 ATTACTAATT
8546525 TTTAATAATAA
1 TTTAATAATAA
8546536 TTTAATAATAA
1 TTTAATAATAA
8546547 TTTA
1 TTTA
8546551 TGGTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTAATAATAA
Found at i:8546687 original size:21 final size:20
Alignment explanation
Indices: 8546615--8546685 Score: 88
Period size: 21 Copynumber: 3.5 Consensus size: 20
8546605 ATTTGTTTTC
*
8546615 ATAATTTATATAAAGTATTA
1 ATAATTTATATAAAATATTA
8546635 ATAATTTATATTAAAATATTA
1 ATAATTTATA-TAAAATATTA
* * *
8546656 AAAATTTATTATAAATTTTTA
1 ATAATTTA-TATAAAATATTA
8546677 ATAATTTAT
1 ATAATTTAT
8546686 TAATAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 11 0.25
21 31 0.70
22 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
ATAATTTATATAAAATATTA
Found at i:8546691 original size:53 final size:52
Alignment explanation
Indices: 8546630--8546790 Score: 130
Period size: 53 Copynumber: 3.1 Consensus size: 52
8546620 TTATATAAAG
8546630 TATTAATAATTTATATTAAAATATTAAAAATTTATTATAAATTTTTAATAATT
1 TATTAATAATTTATATTAAAATATTAAAAATTT-TTATAAATTTTTAATAATT
* * * * * * * *
8546683 TATTAATAATTTAAAATAAAAACATTGATAATTTGTTA-ACATTTTTAGTATTT
1 TATTAATAATTT-ATATTAAAATATTAAAAATTT-TTATAAATTTTTAATAATT
* * ** * *
8546736 TA-TAGTAATTTATTAATAATTTAATTATAAATTTTAATAAA-TTTTAATAATT
1 TATTAATAATTTA-TATTAAAAT-ATTAAAAATTTTTATAAATTTTTAATAATT
8546788 TAT
1 TAT
8546791 AATTAAAATA
Statistics
Matches: 80, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
51 1 0.01
52 24 0.30
53 36 0.45
54 19 0.24
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (52 bp):
TATTAATAATTTATATTAAAATATTAAAAATTTTTATAAATTTTTAATAATT
Found at i:8546693 original size:21 final size:21
Alignment explanation
Indices: 8546632--8546790 Score: 73
Period size: 21 Copynumber: 7.6 Consensus size: 21
8546622 ATATAAAGTA
*
8546632 TTAATAATTTATATTAA-AA-TA
1 TTAATAA-TT-TATTAATAATTT
*
8546653 TTAAAAATTTATT-ATAAATTT
1 TTAATAATTTATTAAT-AATTT
8546674 TTAATAATTTATTAATAATTT
1 TTAATAATTTATTAATAATTT
** *** *
8546695 AAAATAAAAACATTGATAATTT
1 TTAAT-AATTTATTAATAATTT
* *
8546717 GTTAA-CATTT-TTAGT-ATTT
1 -TTAATAATTTATTAATAATTT
*
8546736 TATAGTAATTTATTAATAATTT
1 T-TAATAATTTATTAATAATTT
* *
8546758 AATT-ATAAATT-TTAATAAATT
1 --TTAATAATTTATTAATAATTT
8546779 TTAATAATTTAT
1 TTAATAATTTAT
8546791 AATTAAAATA
Statistics
Matches: 100, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
18 2 0.02
19 12 0.12
20 17 0.17
21 42 0.42
22 23 0.23
23 3 0.03
24 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAATAATTTATTAATAATTT
Found at i:8546755 original size:11 final size:11
Alignment explanation
Indices: 8546741--8546821 Score: 57
Period size: 11 Copynumber: 7.7 Consensus size: 11
8546731 TATTTTATAG
8546741 TAATTTATTAA
1 TAATTTATTAA
8546752 TAATTTAATT-A
1 TAATTT-ATTAA
*
8546763 TAAATT-TTAA
1 TAATTTATTAA
*
8546773 TAAATT-TTAA
1 TAATTTATTAA
8546783 TAATTTA-TAA
1 TAATTTATTAA
**
8546793 TTAAAATATTAA
1 -TAATTTATTAA
*
8546805 TAA--TATTGA
1 TAATTTATTAA
8546814 TAATTTAT
1 TAATTTAT
8546822 AATTTTTCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
9 10 0.17
10 19 0.33
11 23 0.40
12 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (11 bp):
TAATTTATTAA
Found at i:8546821 original size:31 final size:33
Alignment explanation
Indices: 8546746--8546825 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 33
8546736 TATAGTAATT
*
8546746 TATTAATAA-TT-TAATTATAAATTTTAATAAA
1 TATTAATAATTTATAATTATAAATATTAATAAA
*
8546777 TTTTAATAATTTATAATTA-AAATATTAAT-AA
1 TATTAATAATTTATAATTATAAATATTAATAAA
*
8546808 TATTGATAATTTATAATT
1 TATTAATAATTTATAATT
8546826 TTTCATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 26 0.60
32 11 0.26
33 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
TATTAATAATTTATAATTATAAATATTAATAAA
Found at i:8550147 original size:45 final size:45
Alignment explanation
Indices: 8550083--8550175 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
8550073 GCTTATAATG
* ** * *
8550083 ATGCCTTGTTTTAGAGTTGAGTGTCAAACTCTAAGCTTTTTGTCT
1 ATGCCTTGTTTGAGAGTTGAGCATCAAACTCTAAGCATTTTCTCT
*
8550128 ATGCCTTGTTTGGGAGTTGAGCATCAAACTCTAAGCATTTTCTCT
1 ATGCCTTGTTTGAGAGTTGAGCATCAAACTCTAAGCATTTTCTCT
8550173 ATG
1 ATG
8550176 AGGACAATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (45 bp):
ATGCCTTGTTTGAGAGTTGAGCATCAAACTCTAAGCATTTTCTCT
Found at i:8552946 original size:20 final size:20
Alignment explanation
Indices: 8552921--8552971 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
8552911 TCATTTGGAT
8552921 TGTTTTATGTTGTATCCTTG
1 TGTTTTATGTTGTATCCTTG
8552941 TGTTTTATGTTGTATCCTTG
1 TGTTTTATGTTGTATCCTTG
*
8552961 TGTCTTATGTT
1 TGTTTTATGTT
8552972 CGAGGCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (20 bp):
TGTTTTATGTTGTATCCTTG
Found at i:8556155 original size:26 final size:26
Alignment explanation
Indices: 8556126--8556180 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8556116 ATTTGGAATC
* *
8556126 AATAATTATAAAAACAATTATAACAA
1 AATAATGATAAAAACAAATATAACAA
* * *
8556152 AATAATGATAACATCAAATATAATAA
1 AATAATGATAAAAACAAATATAACAA
8556178 AAT
1 AAT
8556181 TTAATATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAATGATAAAAACAAATATAACAA
Found at i:8565592 original size:60 final size:61
Alignment explanation
Indices: 8565480--8565612 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 61
8565470 AAAGAAAATG
* *
8565480 TTTAAGCA-TTTTGAGTATTTTGAAGTAATTTTTAATATACGAAGAA-AATTTTTGAACGT
1 TTTAAGCATTTTTAAGTATTTTGAAGTAATTTTTAATATACGAAGAATAATTTTTGAACAT
* * * **
8565539 TTTAAGCATTTTTAAGTATTTTGAAGTGATTTTTGATATATGAA-AATTTTTTTTTGAACAT
1 TTTAAGCATTTTTAAGTATTTTGAAGTAATTTTTAATATACGAAGAA-TAATTTTTGAACAT
*
8565600 TTTGAGCATTTTT
1 TTTAAGCATTTTT
8565613 TATATTTGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 10 0.16
60 31 0.49
61 22 0.35
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (61 bp):
TTTAAGCATTTTTAAGTATTTTGAAGTAATTTTTAATATACGAAGAATAATTTTTGAACAT
Found at i:8565749 original size:22 final size:22
Alignment explanation
Indices: 8565730--8565786 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
8565720 CGGATTTTGG
*
8565730 ATATTGTGTGACTAGTTTTTAA
1 ATATTGTGTGACTAATTTTTAA
*
8565752 ATATTGTGTGATTAATTTTTAA
1 ATATTGTGTGACTAATTTTTAA
* *
8565774 GTATTGCGTGACT
1 ATATTGTGTGACT
8565787 GGTTGATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.49
Consensus pattern (22 bp):
ATATTGTGTGACTAATTTTTAA
Found at i:8565825 original size:23 final size:23
Alignment explanation
Indices: 8565774--8565830 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
8565764 TAATTTTTAA
*
8565774 GTATTGCGTGACTGGTTGATATG
1 GTATTGCGTGACTGGTTGATAAG
**
8565797 ACATTGCGTGACTGGTT-AGTAAG
1 GTATTGCGTGACTGGTTGA-TAAG
8565820 GTATTGCGTGA
1 GTATTGCGTGA
8565831 TTTAGGCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.21, C:0.11, G:0.33, T:0.35
Consensus pattern (23 bp):
GTATTGCGTGACTGGTTGATAAG
Found at i:8565878 original size:21 final size:22
Alignment explanation
Indices: 8565844--8565906 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
8565834 AGGCATTGTT
* *
8565844 TAAAAATCAGTCACGCAATGTC
1 TAAAAACCAATCACGCAATGTC
** *
8565866 T-AAAACCAATCACATAGTGTC
1 TAAAAACCAATCACGCAATGTC
* *
8565887 TAAAAATCTATCACGCAATG
1 TAAAAACCAATCACGCAATG
8565907 ATTAAGTCAC
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
TAAAAACCAATCACGCAATGTC
Found at i:8579485 original size:17 final size:17
Alignment explanation
Indices: 8579446--8579486 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8579436 TTTGCATTAT
8579446 ATTAA-ATAAAATTAAA
1 ATTAATATAAAATTAAA
*
8579462 ATAAATATAAAA-TATAA
1 ATTAATATAAAATTA-AA
8579479 ATTAATAT
1 ATTAATAT
8579487 GTCTTTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAATATAAAATTAAA
Found at i:8586463 original size:13 final size:12
Alignment explanation
Indices: 8586443--8586478 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
8586433 TTATTTTAAT
8586443 TTATTTTATTTC
1 TTATTTTATTTC
8586455 TTAATTTTATTTC
1 TT-ATTTTATTTC
*
8586468 TTGTTTTATTT
1 TTATTTTATTT
8586479 TGGGTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (12 bp):
TTATTTTATTTC
Found at i:8587025 original size:15 final size:17
Alignment explanation
Indices: 8587007--8587039 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8586997 AACATAATTA
8587007 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
8587022 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
8587039 A
1 A
8587040 ACACAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:8588037 original size:17 final size:17
Alignment explanation
Indices: 8587990--8588037 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 17
8587980 GCTCTCTTTA
*
8587990 AGTATATATATCAT-A-
1 AGTATATATATAATAAT
*
8588005 AGTTTATATA-AATAAT
1 AGTATATATATAATAAT
8588021 AGTATATATATAATAAT
1 AGTATATATATAATAAT
8588038 TAATAATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 9 0.33
17 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (17 bp):
AGTATATATATAATAAT
Found at i:8589655 original size:3 final size:3
Alignment explanation
Indices: 8589647--8589680 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8589637 ACTACATGTT
8589647 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8589681 ATCTATTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8591494 original size:17 final size:17
Alignment explanation
Indices: 8591472--8591520 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8591462 TCAGTTTGTT
8591472 TTTTATTTATTTATTTA
1 TTTTATTTATTTATTTA
* *
8591489 TTTTATTGA-ATATTTA
1 TTTTATTTATTTATTTA
8591505 TTATTATTT-TTTATTT
1 TT-TTATTTATTTATTT
8591521 GGGATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTATTTATTTA
Found at i:8592395 original size:21 final size:21
Alignment explanation
Indices: 8592366--8592405 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8592356 AACAAATGAA
*
8592366 GAATTGAAATAGATTCTAATT
1 GAATCGAAATAGATTCTAATT
8592387 GAATCGAAATAGATTCTAA
1 GAATCGAAATAGATTCTAA
8592406 ACGAGACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (21 bp):
GAATCGAAATAGATTCTAATT
Found at i:8592647 original size:19 final size:19
Alignment explanation
Indices: 8592625--8592665 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8592615 TCTTTAAGGG
8592625 GATAAGTGTTGGTCCCAAA
1 GATAAGTGTTGGTCCCAAA
8592644 GATAAGTGTTGGTCCCAAA
1 GATAAGTGTTGGTCCCAAA
8592663 GAT
1 GAT
8592666 GTGTGATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (19 bp):
GATAAGTGTTGGTCCCAAA
Found at i:8593522 original size:72 final size:72
Alignment explanation
Indices: 8593431--8593699 Score: 276
Period size: 74 Copynumber: 3.7 Consensus size: 72
8593421 AAATAGAGTG
*
8593431 CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTGTGTCTTGTAATTGAATTCTTT
1 CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGTAATTGAATTCTTT
*
8593496 GATTGAC
66 GATTGAA
* * * * * *
8593503 CTCTTAATTGATTAACCATACTTTTTATTCGATTAAGT-TCTCTCTATCTTGTAATTGAAATCTC
1 CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCT-TCTCTGTCTTGTAATTGAATTCT-
* *
8593567 TGGCAGTGAA
64 TTG-ATTGAA
* * *
8593577 CTCTTAGTTGACTAACCATGCTTCTTAGTTGATTAAGTTCTT-TTTGTCTTGTAATTG-ATGT-T
1 CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAG-TCTTCTCTGTCTTGTAATTGAAT-TCT
* *
8593639 TCTAATAGTGAG
64 T-TGAT--TGAA
* * *
8593651 CTCTTAGTTGACTAACCATATTTCTTAATCAATTAAGTCTTCTCTGTCT
1 CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCT
8593700 CTAAACCGGC
Statistics
Matches: 158, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
71 1 0.01
72 56 0.35
73 8 0.05
74 90 0.57
75 2 0.01
76 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (72 bp):
CTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGTAATTGAATTCTTT
GATTGAA
Found at i:8594404 original size:17 final size:17
Alignment explanation
Indices: 8594382--8594422 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8594372 TTATGACATA
*
8594382 TAAAAATAA-AAAAATCT
1 TAAAAATAAGAAAAAT-G
8594399 TAAAAA-AAGAAAAATG
1 TAAAAATAAGAAAAATG
8594415 TAAAAATA
1 TAAAAATA
8594423 TAGATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
TAAAAATAAGAAAAATG
Found at i:8595081 original size:2 final size:2
Alignment explanation
Indices: 8595074--8595105 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8595064 TTCTCCATGA
8595074 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
8595106 TCTAGGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8602664 original size:26 final size:26
Alignment explanation
Indices: 8602626--8602691 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
8602616 CGAAATAATA
8602626 TATATACATATATAACAACAATTAGATT
1 TATATA-A-ATATAACAACAATTAGATT
8602654 TATATAAATATAACAACAATTAGATT
1 TATATAAATATAACAACAATTAGATT
8602680 TATATAAATATA
1 TATATAAATATA
8602692 TATACTCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 31 0.82
27 1 0.03
28 6 0.16
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (26 bp):
TATATAAATATAACAACAATTAGATT
Found at i:8604432 original size:8 final size:8
Alignment explanation
Indices: 8604419--8604470 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
8604409 AAAAATATAT
8604419 ATAATAAA
1 ATAATAAA
8604427 ATAATAAA
1 ATAATAAA
8604435 ATAAT-AA
1 ATAATAAA
*
8604442 ATAATTAA
1 ATAATAAA
* *
8604450 A-AACAAT
1 ATAATAAA
8604457 A-AATAAA
1 ATAATAAA
8604464 ATAATAA
1 ATAATAA
8604471 TCATATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 16 0.43
8 21 0.57
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:8604469 original size:25 final size:25
Alignment explanation
Indices: 8604403--8604471 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
8604393 CCCACAATCC
* *
8604403 ACAATCAAAAATATATATAA-T-AAA
1 ACAAT-AAAAAAATAAATAATTAAAA
* *
8604427 ATAATAAAATAATAAATAATTAAAA
1 ACAATAAAAAAATAAATAATTAAAA
8604452 ACAATAAATAAAAT-AATAAT
1 ACAATAAA-AAAATAAATAAT
8604472 CATATATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
23 11 0.31
24 5 0.14
25 16 0.44
26 4 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (25 bp):
ACAATAAAAAAATAAATAATTAAAA
Found at i:8612886 original size:51 final size:51
Alignment explanation
Indices: 8612827--8612927 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
8612817 AGTATATCAT
* * *
8612827 ATGTCAACATATCATATCATGTATTTTAATTATTTTTATTTTTATTTTTTC
1 ATGTCAACATACCATATCATGTATTTTAATTATTGTTATTTCTATTTTTTC
* * *
8612878 ATGTCAACATACCATATTATGTTTTTTTATTATTGTTATTTCTATTTTTT
1 ATGTCAACATACCATATCATGTATTTTAATTATTGTTATTTCTATTTTTT
8612928 GTTATTTGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (51 bp):
ATGTCAACATACCATATCATGTATTTTAATTATTGTTATTTCTATTTTTTC
Found at i:8613909 original size:2 final size:2
Alignment explanation
Indices: 8613902--8613949 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
8613892 CTAAATATTT
* * *
8613902 TA TA TA TA TA TA TA TA TT TA TA TT TA TA TA GA 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
8613944 TA TA TA
1 TA TA TA
8613950 ATCTTTAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8614330 original size:2 final size:2
Alignment explanation
Indices: 8614325--8614358 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8614315 ACACATACAA
8614325 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
8614359 CCTCTGTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8618262 original size:2 final size:2
Alignment explanation
Indices: 8618250--8618282 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8618240 AAAATACTTT
*
8618250 TA TA TA CA 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 T
8618283 GAATTCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8620751 original size:23 final size:23
Alignment explanation
Indices: 8620705--8620772 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
8620695 CAAATATATA
* * * *
8620705 TATTAAAACATAATAAACATATT
1 TATTAAAACACAACAGACACATT
***
8620728 TATTAAAATGTAACAGACACATT
1 TATTAAAACACAACAGACACATT
8620751 TATTAAAACACAACAGACACAT
1 TATTAAAACACAACAGACACAT
8620773 CTAGTGAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (23 bp):
TATTAAAACACAACAGACACATT
Found at i:8620786 original size:23 final size:23
Alignment explanation
Indices: 8620739--8620792 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8620729 ATTAAAATGT
* *
8620739 AACAGACACATTTATTAAAACAC
1 AACAGACACATCTAGTAAAACAC
* *
8620762 AACAGACACATCTAGTGAAATAC
1 AACAGACACATCTAGTAAAACAC
*
8620785 AATAGACA
1 AACAGACA
8620793 TAGCTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.19
Consensus pattern (23 bp):
AACAGACACATCTAGTAAAACAC
Found at i:8623070 original size:182 final size:182
Alignment explanation
Indices: 8622803--8623149 Score: 498
Period size: 182 Copynumber: 1.9 Consensus size: 182
8622793 TTATATATAT
* * * * * *
8622803 ATATATATGAAATTAATTATATAACTTATATGTTATAATGTTTTATATCAAAGTTTATATAAATA
1 ATATATATGAAATTAATGATACAAATTATATATTAAAATGTTTTATACCAAAGTTTATATAAATA
* ** **
8622868 ATAACTAATTATAAACAATATGTTATGAAATCTAGGGTGATGGCTAATAAACTTATTAAGTGTAA
66 ATAACTAATTATAAACAATATGTTATAAAATCTAACGTGATAACTAATAAACTTATTAAGTGTAA
* * * *
8622933 TCATATAAATAAAATTTATTATAAGTTATAGTAATACTAATGTATAAATTAA
131 TCATAAAAATAAAATCTATTATAAATTATACTAATACTAATGTATAAATTAA
* *
8622985 ATATATAT-AATATTAATGATACAAATTATTTATTAAAATGTTTTATACCAAAGTTTGTATAAAT
1 ATATATATGAA-ATTAATGATACAAATTATATATTAAAATGTTTTATACCAAAGTTTATATAAAT
** *
8623049 AATAACTAATTATTTACAATATGTTATAAAATCTAACGTGATAACTAATAAAGTTATTAAGTGTA
65 AATAACTAATTATAAACAATATGTTATAAAATCTAACGTGATAACTAATAAACTTATTAAGTGTA
8623114 ATCATAAAAATAAAATCTATTATAAATTATACTAAT
130 ATCATAAAAATAAAATCTATTATAAATTATACTAAT
8623150 GTTTATATAT
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
181 2 0.01
182 142 0.99
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (182 bp):
ATATATATGAAATTAATGATACAAATTATATATTAAAATGTTTTATACCAAAGTTTATATAAATA
ATAACTAATTATAAACAATATGTTATAAAATCTAACGTGATAACTAATAAACTTATTAAGTGTAA
TCATAAAAATAAAATCTATTATAAATTATACTAATACTAATGTATAAATTAA
Found at i:8631862 original size:17 final size:17
Alignment explanation
Indices: 8631842--8631894 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
8631832 TCATTATGAA
8631842 TTTTATTAAATTTTAAGTTT
1 TTTTATTAAATTTTAA---T
8631862 TTTTATTAAATATTTAA-
1 TTTTATTAAAT-TTTAAT
*
8631879 TTTTATTAAATATTAA
1 TTTTATTAAATTTTAA
8631895 AATAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 4 0.13
17 11 0.35
20 11 0.35
21 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATTAAATTTTAAT
Found at i:8631867 original size:20 final size:20
Alignment explanation
Indices: 8631842--8631882 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8631832 TCATTATGAA
8631842 TTTTATTAAAT-TTTAAGTTT
1 TTTTATTAAATATTTAA-TTT
8631862 TTTTATTAAATATTTAATTT
1 TTTTATTAAATATTTAATTT
8631882 T
1 T
8631883 ATTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTAAATATTTAATTT
Found at i:8634318 original size:22 final size:21
Alignment explanation
Indices: 8634292--8634332 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8634282 CAACCAGCCG
8634292 CCCACCAACCCCGACCCCCCAC
1 CCCACCAACCCC-ACCCCCCAC
**
8634314 CCCACCCGCCCCACCCCCC
1 CCCACCAACCCCACCCCCC
8634333 CACCGCCGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.78, G:0.05, T:0.00
Consensus pattern (21 bp):
CCCACCAACCCCACCCCCCAC
Found at i:8644217 original size:16 final size:17
Alignment explanation
Indices: 8644196--8644239 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
8644186 GATCGAATAG
8644196 ATCAATACAAAATA-AA
1 ATCAATACAAAATACAA
* *
8644212 ATCAATACTAAGTACAA
1 ATCAATACAAAATACAA
*
8644229 AACAATACAAA
1 ATCAATACAAA
8644240 CAAATGCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (17 bp):
ATCAATACAAAATACAA
Found at i:8645630 original size:30 final size:30
Alignment explanation
Indices: 8645596--8645663 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
8645586 TTATAATAAC
8645596 TTATTTAACTTAAAATAAAAATAAAAAAAT
1 TTATTTAACTTAAAATAAAAATAAAAAAAT
* * * *
8645626 TTATTTGATTTATAATAAAAATATAAAAAT
1 TTATTTAACTTAAAATAAAAATAAAAAAAT
8645656 TTATTTAA
1 TTATTTAA
8645664 ATGTAATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
TTATTTAACTTAAAATAAAAATAAAAAAAT
Found at i:8645670 original size:29 final size:29
Alignment explanation
Indices: 8645609--8645693 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
8645599 TTTAACTTAA
* **
8645609 AATAAAAATAAAAAAATTTATTTGATTTAT
1 AATAAAAATATAAAAATTTATTT-AAATAT
*
8645639 AATAAAAATATAAAAATTTATTTAAATGT
1 AATAAAAATATAAAAATTTATTTAAATAT
*
8645668 AATAAGAGAT-TAAAAATTTATTTAAA
1 AATAA-AAATATAAAAATTTATTTAAA
8645694 ATTTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 24 0.49
30 25 0.51
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (29 bp):
AATAAAAATATAAAAATTTATTTAAATAT
Found at i:8648092 original size:15 final size:15
Alignment explanation
Indices: 8648069--8648098 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8648059 AATTATTGTA
8648069 ATATAATATTATAAT
1 ATATAATATTATAAT
*
8648084 ATATTATATTATAAT
1 ATATAATATTATAAT
8648099 CAAGTGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATATTATAAT
Found at i:8648239 original size:15 final size:14
Alignment explanation
Indices: 8648219--8648345 Score: 79
Period size: 15 Copynumber: 9.2 Consensus size: 14
8648209 ATGTTATAAC
8648219 TAAAATAAAAAATA
1 TAAAATAAAAAATA
*
8648233 TTAAAATAAAATATA
1 -TAAAATAAAAAATA
8648248 TAAAAT-AAAAATA
1 TAAAATAAAAAATA
* *
8648261 -AAAATTTATATAATA
1 TAAAA--TAAAAAATA
*
8648276 T-GAATAAGAGAAAT-
1 TAAAATAA-A-AAATA
*
8648290 TAAAATAAAATATA
1 TAAAATAAAAAATA
*
8648304 TAATATAAAAAAT-
1 TAAAATAAAAAATA
* *
8648317 T-AGATTAAAAATA
1 TAAAATAAAAAATA
*
8648330 -AAAATAAAATATA
1 TAAAATAAAAAATA
8648343 TAA
1 TAA
8648346 GATTATAATA
Statistics
Matches: 85, Mismatches: 16, Indels: 23
0.69 0.13 0.19
Matches are distributed among these distances:
12 13 0.15
13 21 0.25
14 23 0.27
15 28 0.33
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
TAAAATAAAAAATA
Found at i:8648270 original size:21 final size:20
Alignment explanation
Indices: 8648235--8648345 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 20
8648225 AAAAAATATT
8648235 AAAATAAAATATATAAAATA
1 AAAATAAAATATATAAAATA
* *
8648255 AAAATAAAA-AT-TTATAT-
1 AAAATAAAATATATAAAATA
* * * *
8648272 AATAT-GAATA-AGAGAAATT
1 AAAATAAAATATATA-AAATA
*
8648291 AAAATAAAATATATAATATAA
1 AAAATAAAATATATAAAAT-A
* *
8648312 AAAATTAGAT-TA-AAAATA
1 AAAATAAAATATATAAAATA
8648330 AAAATAAAATATATAA
1 AAAATAAAATATATAA
8648346 GATTATAATA
Statistics
Matches: 65, Mismatches: 17, Indels: 18
0.65 0.17 0.18
Matches are distributed among these distances:
16 2 0.03
17 5 0.08
18 16 0.25
19 12 0.18
20 20 0.31
21 10 0.15
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATAAAATATATAAAATA
Found at i:8648367 original size:72 final size:75
Alignment explanation
Indices: 8648249--8648388 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 75
8648239 TAAAATATAT
* *
8648249 AAAATAAAAATAAAAATTTATATAATATGAATAAGAGAAATTAAAATAAAATATATAATATAAAA
1 AAAATAAAAATAAAAATATATATAATATGAATAAGAGAAATGAAAATAAAATATATAATATAAAA
8648314 AATTAGATTA
66 AATTAGATTA
* *
8648324 AAAATAAAAAT-AAAATATATA-AGATTAT-AAT-A-AGAAATGAAAATAAAATATATGATATTA
1 AAAATAAAAATAAAAATATATATA-A-TATGAATAAGAGAAATGAAAATAAAATATATAATATAA
8648384 AAAAT
64 AAAAT
8648389 ATATTTAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
72 30 0.51
73 2 0.03
74 13 0.22
75 14 0.24
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (75 bp):
AAAATAAAAATAAAAATATATATAATATGAATAAGAGAAATGAAAATAAAATATATAATATAAAA
AATTAGATTA
Found at i:8649886 original size:21 final size:19
Alignment explanation
Indices: 8649847--8649900 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
8649837 GTATAATTTT
*
8649847 TTTTTATGATTAATATGACC
1 TTTTTATGAATAATATGA-C
*
8649867 TTTTTATGAATAGTACTGAC
1 TTTTTATGAATAATA-TGAC
*
8649887 ATTTTATGAATAAT
1 TTTTTATGAATAAT
8649901 CATAAAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (19 bp):
TTTTTATGAATAATATGAC
Found at i:8659989 original size:19 final size:20
Alignment explanation
Indices: 8659940--8659989 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 20
8659930 GCCTTAATTC
8659940 TTTAATTTATT-TCATTATA
1 TTTAATTTATTATCATTATA
** *
8659959 TTTCCTTAATTATCATT-TA
1 TTTAATTTATTATCATTATA
*
8659978 TTTATTTTATTA
1 TTTAATTTATTA
8659990 GCAAATTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATTTATTATCATTATA
Found at i:8661867 original size:15 final size:15
Alignment explanation
Indices: 8661838--8661880 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
8661828 CTTTACAATA
* *
8661838 CAATGTGATTACAAG
1 CAATATGATTGCAAG
*
8661853 TAATATGATTGCAAG
1 CAATATGATTGCAAG
*
8661868 CAATGTGATTGCA
1 CAATATGATTGCA
8661881 GGGAATATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (15 bp):
CAATATGATTGCAAG
Found at i:8662229 original size:29 final size:28
Alignment explanation
Indices: 8662178--8662269 Score: 72
Period size: 29 Copynumber: 3.4 Consensus size: 28
8662168 TATATATTTT
* *
8662178 ATTTTAATTTTTT-TACCTATATTATATAA
1 ATTTTAATTTTTTATA-TTTTATTATAT-A
8662207 ATTTTAATTTTTTATATTTTATT-T-T-
1 ATTTTAATTTTTTATATTTTATTATATA
*
8662232 ATTTTAATTTTTGAT-TCTTATATTATAT-
1 ATTTTAATTTTTTATAT-TT-TATTATATA
8662260 ATTTT-ATTTT
1 ATTTTAATTTT
8662270 AATAGTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
24 1 0.02
25 16 0.29
26 4 0.07
27 7 0.13
28 7 0.13
29 18 0.33
30 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (28 bp):
ATTTTAATTTTTTATATTTTATTATATA
Found at i:8662280 original size:53 final size:53
Alignment explanation
Indices: 8662172--8662285 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 53
8662162 TTAGATTATA
*
8662172 TATTTTATTTTAATTTTTTTACCTATATTATATAAATTTTAATTTTTTATATTT
1 TATTTTATTTTAATTTTTTTACCTATATTATAT-AATTTTAATTTTATATATTT
*
8662226 TATTTTATTTTAATTTTTGATT-CTTATATTATAT-ATTTT-ATTTTA-ATAGTTTT
1 TATTTTATTTTAATTTTT--TTACCTATATTATATAATTTTAATTTTATATA--TTT
8662279 TATTTTA
1 TATTTTA
8662286 ATTATAACAT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
51 3 0.06
52 5 0.09
53 15 0.28
54 18 0.33
55 11 0.20
56 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (53 bp):
TATTTTATTTTAATTTTTTTACCTATATTATATAATTTTAATTTTATATATTT
Found at i:8664911 original size:649 final size:646
Alignment explanation
Indices: 8663623--8665204 Score: 2012
Period size: 649 Copynumber: 2.4 Consensus size: 646
8663613 TAAATGAAAA
* *
8663623 TCCACTCAGGCATATTCCTCCCATGTTTAAACATGATTAAC-ACTTTAACAAAATCCAACCTTTG
1 TCCACTCAGGCATAGTCCTCCCATGTTCAAACATGATTAACAAC-TTAACAAAATCCAACCTTTG
* *
8663687 CTAAGAAATTGTGGATCAGTTTACCTTGATTACCTTACCCTAGAGATTACCAATTTTCAAGAAAT
65 CTAAGAAATTGTGGACCAGTTTACCTTGATTACCTTACCCTAAAGATTACCAATTTTCAAGAAA-
* * * * * * *
8663752 TTGCCTT-ACACCCTAGATAAATGAGGAGGTTTTCAATGGTTATCAAGGGGGGATGTAATCTTTT
129 GTGGCTTCACACCATAGATGAATGAGGAGGTTTTCAATGGTTATCAAGGTGGGATATAA-CCTTT
* * *
8663816 TTTTGCCACCAGAGGGTAAAGTATAATAAATCGAAACCAATTGTTGAAAACATTGGGTAAACTCT
193 TTTTGCCACCAGAGGGTAAAGTATAATAAATCGAAACCAATTGTTGAAAAAATCGAGTAAACTCT
* *
8663881 CTAGGATGATTTTCATCTCCTCAACATCTATCTGTAGGCTTGAGTCTAGGGTGGGCCATTTACAA
258 CTAGGATGATTTTCATCTCCTCAACATATATCTGTAGACTTGAGTCTAGGGTGGGCCATTTACAA
* * *
8663946 ACCAACAAAAGGCTTTTGTTAAGCTTGGTGCAAGAAGTAAGCTTCACTAGTTTAGGCTCATTAAT
323 ACCAACAAAA-GCTTTTGTTAAGCTTAGTGCAAGAAGCAAGCTTCACTAGTCTAGGCTCATTAAT
* * * * *
8664011 GGCCCTACACCCGTTCAACTTTTAATTACCGCACCTTTGATTTTCAAATTTCAAAGGTTCCCACT
387 GGCCCTAAACCCATCCAACTTTGAATTACCGCACCTTTGATTTTCAAATTTCAAAAGTTCCCACT
* * *
8664076 CATTTATTTTGCTAGCAATTGATGTTTTAACACCACTTCCCTTATCGTTACCTTACACATCGATA
452 CATTTATTTTGCTAGCAATCGACGTTTTAACACCACTGCCCTTATCGTTACCTTACACATCGATA
** ** * * *
8664141 ACAGCCAAATCTACAGTCAAGAAATCAACACTATCAGAGGATGATTCAAGCTTACTTTCATGTTG
517 ACAGCCAAATCTACAACCAAGAAATCAACACTATCAGAGGATGATTCAAGCACACCTTCAAGGTG
**** ** *
8664206 ACTTGGGTCCTAGTTAACAATGGAGAGTTTAAGCACAACCTAACTGCTGTTTATTAACATCTCTT
582 ACCAAAGTCCTAGTTAACAATGGAGAGCCTAAGCACAACCCAACTGCTGTTTATTAACATCTCTT
* * * ** *
8664271 TCCACTCAGGCATAGTCCTCCCATGTTCAAATATGATTAACAACTTCATAAAATTTAACCTTTGT
1 TCCACTCAGGCATAGTCCTCCCATGTTCAAACATGATTAACAACTTAACAAAATCCAACCTTTGC
* * *
8664336 TAAGAAATTGTGGACCAGTCTACTTTGATTACCTTACCCTAAAGATTATCAATTTTCAAGAAAGT
66 TAAGAAATTGTGGACCAGTTTACCTTGATTACCTTACCCTAAAGATTACCAATTTTCAAGAAAGT
* * *
8664401 GGCTTCACACCATAGATGATTGAGGAGGTTTTCAACGGTTATCAAGGTGGGACATAACCTTTTTT
131 GGCTTCACACCATAGATGAATGAGGAGGTTTTCAATGGTTATCAAGGTGGGATATAACCTTTTTT
* ** * * * *
8664466 TGGCTAGTAGAGGGTAAGGTATAACAAATCAAAATCAATTGTTGAAAAAATCGAGTAAACTCTCT
196 T-GCCACCAGAGGGTAAAGTATAATAAATCGAAACCAATTGTTGAAAAAATCGAGTAAACTCTCT
* * * * ***
8664531 AGGATGGTTTTCATCTCCTCAACATATCTTTGTAGACTTGAGTCTAGTGTGGGTTTTTTTACAAA
260 AGGATGATTTTCATCTCCTCAACATATATCTGTAGACTTGAGTCTAGGGTGGG-CCATTTACAAA
** * * * **
8664596 TCGGAGAGTAA-CTTTTGTTAAGCTTAGTGTAAGAAGCAAG-TGTCACTAGTCTAGGCTTGTTAA
324 -CCAACA-AAAGCTTTTGTTAAGCTTAGTGCAAGAAGCAAGCT-TCACTAGTCTAGGCTCATTAA
* *
8664659 TGGCCCTAAACCTATCCAACTTTGAATTACCGCTA-CTTTGATTTTCAAATTTCAAAAGTTCTCA
386 TGGCCCTAAACCCATCCAACTTTGAATTACCGC-ACCTTTGATTTTCAAATTTCAAAAGTTCCCA
* * * * *
8664723 CTTATTTGTTTTGCTAGCAATCGACGTTTTAACACCACTGCCCTTATCGTTACCTTGCACATTGG
450 CTCATTTATTTTGCTAGCAATCGACGTTTTAACACCACTGCCCTTATCGTTACCTTACACATCGA
* *
8664788 TAATAGCCAAATCTACAACCGAGAAATCAACACTATCAGAGGATGATTCCAA-CACACCTTCAAG
515 TAACAGCCAAATCTACAACCAAGAAATCAACACTATCAGAGGATGATT-CAAGCACACCTTCAAG
* * * * *
8664852 GTGACCAAAGTCCTAGTTAGTC-GTGGAGAGCCTGAGCACAACCCGATTGCCTG-TTATTAACAT
579 GTGACCAAAGTCCTAGTTA-ACAATGGAGAGCCTAAGCACAACCCAACTG-CTGTTTATTAACAT
8664915 CTCTT
642 CTCTT
*
8664920 TCCACTCAGGCATAGTCCTCCCATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGC
1 TCCACTCAGGCATAGTCCTCCCATGTTCAAACATGATTAACAACTTAACAAAATCCAACCTTTGC
* * *
8664985 TAAGAAATTGTGAACTAGTTTACCTTGATTACCTTACTGC-AAAGATTACCAATTTTCAAGAAAG
66 TAAGAAATTGTGGACCAGTTTACCTTGATTACCTTAC-CCTAAAGATTACCAATTTTCAAGAAAG
* * * * * *
8665049 TTGCCTCACATCATAGATGAATGAGGAGATTTTCAATGATTAACAAGGTGGGATATAACCCTTTT
130 TGGCTTCACACCATAGATGAATGAGGAGGTTTTCAATGGTTATCAAGGTGGGATATAA-CCTTTT
* * * * * *
8665114 TTTGCCACCAGTGGATAACGTGTAATAAATCGAAACCAATTGTTGAAAAAATCCAATAAACTCTC
194 TTTGCCACCAGAGGGTAAAGTATAATAAATCGAAACCAATTGTTGAAAAAATCGAGTAAACTCTC
* *
8665179 TAAGATGATTTTCATCTCTTCAACAT
259 TAGGATGATTTTCATCTCCTCAACAT
8665205 TTTTAAAGGT
Statistics
Matches: 796, Mismatches: 125, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
647 13 0.02
648 257 0.32
649 503 0.63
650 21 0.03
651 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (646 bp):
TCCACTCAGGCATAGTCCTCCCATGTTCAAACATGATTAACAACTTAACAAAATCCAACCTTTGC
TAAGAAATTGTGGACCAGTTTACCTTGATTACCTTACCCTAAAGATTACCAATTTTCAAGAAAGT
GGCTTCACACCATAGATGAATGAGGAGGTTTTCAATGGTTATCAAGGTGGGATATAACCTTTTTT
TGCCACCAGAGGGTAAAGTATAATAAATCGAAACCAATTGTTGAAAAAATCGAGTAAACTCTCTA
GGATGATTTTCATCTCCTCAACATATATCTGTAGACTTGAGTCTAGGGTGGGCCATTTACAAACC
AACAAAAGCTTTTGTTAAGCTTAGTGCAAGAAGCAAGCTTCACTAGTCTAGGCTCATTAATGGCC
CTAAACCCATCCAACTTTGAATTACCGCACCTTTGATTTTCAAATTTCAAAAGTTCCCACTCATT
TATTTTGCTAGCAATCGACGTTTTAACACCACTGCCCTTATCGTTACCTTACACATCGATAACAG
CCAAATCTACAACCAAGAAATCAACACTATCAGAGGATGATTCAAGCACACCTTCAAGGTGACCA
AAGTCCTAGTTAACAATGGAGAGCCTAAGCACAACCCAACTGCTGTTTATTAACATCTCTT
Found at i:8666020 original size:30 final size:30
Alignment explanation
Indices: 8665959--8666021 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
8665949 ATTATAAAGG
* *
8665959 CTTATTTGACTTAAAATGAAAATATAAAAA
1 CTTATTTAACTTAAAATGAAAATACAAAAA
*
8665989 CTTATTTAACTTAAAAT-AAAAGTACAGAAA
1 CTTATTTAACTTAAAATGAAAA-TACAAAAA
8666019 CTT
1 CTT
8666022 GATTGAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (30 bp):
CTTATTTAACTTAAAATGAAAATACAAAAA
Found at i:8667112 original size:6 final size:6
Alignment explanation
Indices: 8667101--8667136 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8667091 TTTAGTAATT
8667101 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
8667137 CACTCACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TATAAA
Found at i:8672610 original size:4 final size:4
Alignment explanation
Indices: 8672601--8672639 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
8672591 TTAGGAAAAC
* *
8672601 TTTA TTTA TTTA TTTA TTTA TTAA TTTA TTAA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
8672640 CCGAAATTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:8672936 original size:3 final size:3
Alignment explanation
Indices: 8672928--8672952 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8672918 AGCTGTAAGA
8672928 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
8672953 AATTCGGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8682083 original size:21 final size:20
Alignment explanation
Indices: 8682058--8682100 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8682048 ATGTTTCATA
8682058 ATATAAAA-TGTTATGAAATAT
1 ATATAAAATTG-TAT-AAATAT
*
8682079 ATATATAATTGTATAAATAT
1 ATATAAAATTGTATAAATAT
8682099 AT
1 AT
8682101 TATACATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 10 0.50
22 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
ATATAAAATTGTATAAATAT
Found at i:8690561 original size:3 final size:3
Alignment explanation
Indices: 8690549--8690580 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
8690539 TAAATGGAGT
8690549 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
8690581 AGGGGTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8694357 original size:43 final size:43
Alignment explanation
Indices: 8694267--8694357 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
8694257 GATGAGTATG
* *** *
8694267 AAATGCTGTTTTTTGTTTGTAAAAATTAGATATTATGGGTATG
1 AAATGCTATTTTTTGTTTGTAAAAATTAGATATTATGCAAATA
*
8694310 AAATGCTATTTTTTGTTTGTAAAAATTA-ATTTTAGTGCAAATA
1 AAATGCTATTTTTTGTTTGTAAAAATTAGATATTA-TGCAAATA
8694353 AAATG
1 AAATG
8694358 AATTCCAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (43 bp):
AAATGCTATTTTTTGTTTGTAAAAATTAGATATTATGCAAATA
Found at i:8694651 original size:85 final size:85
Alignment explanation
Indices: 8694520--8694772 Score: 330
Period size: 85 Copynumber: 3.0 Consensus size: 85
8694510 GATTTAATGC
* * * * *
8694520 TAGAATTAAATATGAAGATTTATGTTT-AGGAATTAATATTTGGAATTATTATTTGAATTTGTAA
1 TAGAATTAAATATTAAGAATTATGTTTGA-GAATTAATGTTTAGAATTATTATTTGAATTTTTAA
8694584 TTAAAATGATTGGTAATATAT
65 TTAAAATGATTGGTAATATAT
* * * *
8694605 TAGAATTAAACATTAAGAATTATGTTTGAGAATGAATGTTTAGAATTATTGTGTGAATTTTTAAT
1 TAGAATTAAATATTAAGAATTATGTTTGAGAATTAATGTTTAGAATTATTATTTGAATTTTTAAT
*
8694670 TAAAATGATTGGTAATATCT
66 TAAAATGATTGGTAATATAT
* * * * *
8694690 TAGAATTAAATATTAAAAATAATATTTGAGAATTAATGTTGAGAATTATTTTTTTG-ATTTTTAA
1 TAGAATTAAATATTAAGAATTATGTTTGAGAATTAATGTTTAGAATTA-TTATTTGAATTTTTAA
*
8694754 TTAAAATGATTGGCAATAT
65 TTAAAATGATTGGTAATAT
8694773 GCTATAATTA
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
85 141 0.96
86 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (85 bp):
TAGAATTAAATATTAAGAATTATGTTTGAGAATTAATGTTTAGAATTATTATTTGAATTTTTAAT
TAAAATGATTGGTAATATAT
Found at i:8694782 original size:85 final size:84
Alignment explanation
Indices: 8694471--8694802 Score: 298
Period size: 85 Copynumber: 4.0 Consensus size: 84
8694461 TTTAAAGATT
* * * ** * *
8694471 TTAATATTGAGACTTATTATTTGGATAATTAATTAAAATGATT--TAAT-GCTAGAATTAAATAT
1 TTAATGTTGAGAATTATTATTTGAATTTTTAATTAAAATGATTGGTAATATCTAGAATTAAACAT
* * * * *
8694533 GAAGATTTATGTTT-AGGAA
66 TAAAAATAATATTTGA-GAA
* * *
8694552 TTAATATTTG-GAATTATTATTTGAATTTGTAATTAAAATGATTGGTAATATATTAGAATTAAAC
1 TTAAT-GTTGAGAATTATTATTTGAATTTTTAATTAAAATGATTGGTAATAT-CTAGAATTAAAC
* * *
8694616 ATTAAGAATTATGTTTGAGAA
64 ATTAAAAATAATATTTGAGAA
* * * * *
8694637 TGAATGTTTAGAATTATTGTGTGAATTTTTAATTAAAATGATTGGTAATATCTTAGAATTAAATA
1 TTAATGTTGAGAATTATTATTTGAATTTTTAATTAAAATGATTGGTAATATC-TAGAATTAAACA
8694702 TTAAAAATAATATTTGAGAA
65 TTAAAAATAATATTTGAGAA
* * * *
8694722 TTAATGTTGAGAATTATTTTTTTG-ATTTTTAATTAAAATGATTGGCAATATGCTATAATTAATC
1 TTAATGTTGAGAATTA-TTATTTGAATTTTTAATTAAAATGATTGGTAATAT-CTAGAATTAAAC
** *
8694786 ATTGGAATTAATATTTG
64 ATTAAAAATAATATTTG
8694803 GGTATTACTT
Statistics
Matches: 208, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
81 33 0.16
82 3 0.01
83 4 0.02
84 2 0.01
85 159 0.76
86 7 0.03
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (84 bp):
TTAATGTTGAGAATTATTATTTGAATTTTTAATTAAAATGATTGGTAATATCTAGAATTAAACAT
TAAAAATAATATTTGAGAA
Found at i:8703867 original size:35 final size:36
Alignment explanation
Indices: 8703810--8703880 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
8703800 TCTCTCTCTC
* *
8703810 TCCTCATAAGTAATTAATATCC-AAAATGCCAAAAG
1 TCCTCATAAGTAATGAACATCCAAAAATGCCAAAAG
* *
8703845 TCCTCATAATTAATGAGCATCCAAAAATGCCAAAAG
1 TCCTCATAAGTAATGAACATCCAAAAATGCCAAAAG
8703881 GATGCATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (36 bp):
TCCTCATAAGTAATGAACATCCAAAAATGCCAAAAG
Found at i:8712369 original size:30 final size:31
Alignment explanation
Indices: 8712333--8712397 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
8712323 GATTACGTAG
*
8712333 TAATATT-AAAATAATAATTTTAT-TTTTTAT
1 TAATATTAAAAAT-ATAATTTTATAATTTTAT
*
8712363 TAATATTAAAAATATTATTTTATAATTTTAT
1 TAATATTAAAAATATAATTTTATAATTTTAT
8712394 TAAT
1 TAAT
8712398 TTATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TAATATTAAAAATATAATTTTATAATTTTAT
Found at i:8715443 original size:18 final size:18
Alignment explanation
Indices: 8715417--8715466 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 18
8715407 GAGAGATTCC
8715417 AAAGTAAAAAAAAAAACAA
1 AAAG-AAAAAAAAAAACAA
*
8715436 AAAGAAAACAAAAAACAA
1 AAAGAAAAAAAAAAACAA
8715454 AATAGAAAGAAAA
1 AA-AGAAA-AAAA
8715467 TAAAGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 15 0.56
19 9 0.33
20 3 0.11
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.04
Consensus pattern (18 bp):
AAAGAAAAAAAAAAACAA
Found at i:8715455 original size:23 final size:23
Alignment explanation
Indices: 8715422--8715466 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8715412 ATTCCAAAGT
8715422 AAAAAAAAAAACAAAAAGAAAAC
1 AAAAAAAAAAACAAAAAGAAAAC
* * *
8715445 AAAAAACAAAATAGAAAGAAAA
1 AAAAAAAAAAACAAAAAGAAAA
8715467 TAAAGAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAACAAAAAGAAAAC
Found at i:8719347 original size:15 final size:15
Alignment explanation
Indices: 8719327--8719357 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8719317 ACTACCCAAA
*
8719327 AGAATAAATATTTAT
1 AGAATAAATATATAT
8719342 AGAATAAATATATAT
1 AGAATAAATATATAT
8719357 A
1 A
8719358 TATATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AGAATAAATATATAT
Found at i:8742192 original size:11 final size:11
Alignment explanation
Indices: 8742154--8742196 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
8742144 TGTTATTAAA
8742154 AATATTTTTAAT
1 AATATTTTT-AT
*
8742166 AATATTTTTTT
1 AATATTTTTAT
* *
8742177 TATATTTTTAG
1 AATATTTTTAT
8742188 AATATTTTT
1 AATATTTTT
8742197 GCACATCTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:8743101 original size:34 final size:34
Alignment explanation
Indices: 8743024--8743101 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
8743014 CGTTACACAC
* * *
8743024 CAAAGTTTCAGTAGCAAATATTACATGCCACGAA
1 CAAAGCTTCAGTACCAAATATTACATGCCAAGAA
*
8743058 CAAAACTTCAGTACCAAATATTACACT-CCAAG-A
1 CAAAGCTTCAGTACCAAATATTACA-TGCCAAGAA
8743091 CGAAAGCTTCA
1 C-AAAGCTTCA
8743102 ACACCAGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 2 0.05
34 34 0.92
35 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (34 bp):
CAAAGCTTCAGTACCAAATATTACATGCCAAGAA
Found at i:8744247 original size:51 final size:54
Alignment explanation
Indices: 8744142--8744286 Score: 188
Period size: 51 Copynumber: 2.7 Consensus size: 54
8744132 CAACAACAAC
* * *
8744142 AATACAAATTAAAACAAAAATAGAACAACACAATAACAATAATAACAATAAAATAGT
1 AATACAAATTAAAACAATAATACAAC-A-ACAATAACAAT-ATAACAATAAAATAAT
*
8744199 AATACAAATTAAAACAATAATACAACAACAA-CACAAT-T-ACAATAAAATAAT
1 AATACAAATTAAAACAATAATACAACAACAATAACAATATAACAATAAAATAAT
* *
8744250 AATACAAATTAAAAAAATAATACCACAACAATAACAA
1 AATACAAATTAAAACAATAATACAACAACAATAACAA
8744287 AAATGCAACA
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
51 41 0.51
52 5 0.06
54 5 0.06
55 4 0.05
56 1 0.01
57 24 0.30
ACGTcount: A:0.66, C:0.14, G:0.01, T:0.18
Consensus pattern (54 bp):
AATACAAATTAAAACAATAATACAACAACAATAACAATATAACAATAAAATAAT
Found at i:8744277 original size:21 final size:23
Alignment explanation
Indices: 8744173--8744277 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 23
8744163 AGAACAACAC
*
8744173 AATAACA-ATAATAACAATAAAAT
1 AATAACACA-AATTACAATAAAAT
* * * *
8744196 AGTAATACAAATTAAAACAATAATAC
1 AATAACACAAATT---ACAATAAAAT
*
8744222 AACAACAACACAATTACAATAAAAT
1 AATAAC-ACA-AATTACAATAAAAT
*
8744247 AATAATACAAATTA-AA-AAAAT
1 AATAACACAAATTACAATAAAAT
*
8744268 AATACCACAA
1 AATAACACAA
8744278 CAATAACAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
21 13 0.21
22 2 0.03
23 13 0.21
24 4 0.06
25 12 0.19
26 11 0.18
27 3 0.05
28 4 0.06
ACGTcount: A:0.66, C:0.13, G:0.01, T:0.20
Consensus pattern (23 bp):
AATAACACAAATTACAATAAAAT
Found at i:8744344 original size:26 final size:26
Alignment explanation
Indices: 8744315--8744364 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
8744305 AATAACAATA
*
8744315 ACACAACAACAATAATGCAACAACGT
1 ACACAACAACAATAATACAACAACGT
*
8744341 ACACAATAACAATAATACAACAAC
1 ACACAACAACAATAATACAACAAC
8744365 AACAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.26, G:0.04, T:0.12
Consensus pattern (26 bp):
ACACAACAACAATAATACAACAACGT
Found at i:8744347 original size:20 final size:20
Alignment explanation
Indices: 8744274--8744349 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
8744264 AAATAATACC
*
8744274 ACAACAATA-ACAAAAATGCA
1 ACAAC-ATACACAATAATGCA
8744294 ACAACATACACAATAA--CA
1 ACAACATACACAATAATGCA
* *
8744312 ATAACACAACAACAATAATGCA
1 ACAACA-TAC-ACAATAATGCA
*
8744334 ACAACGTACACAATAA
1 ACAACATACACAATAA
8744350 CAATAATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 7 0.16
19 5 0.11
20 25 0.56
21 2 0.04
22 6 0.13
ACGTcount: A:0.61, C:0.24, G:0.04, T:0.12
Consensus pattern (20 bp):
ACAACATACACAATAATGCA
Found at i:8744364 original size:43 final size:41
Alignment explanation
Indices: 8744274--8744379 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 41
8744264 AAATAATACC
* *
8744274 ACAACAATAACAAAAATGCAACAACATACACAATAACAATA
1 ACAACAACAACAATAATGCAACAACATACACAATAACAATA
*
8744315 AC-ACAACAACAATAATGCAACAACGTACACAATAACAATAA
1 ACAACAACAACAATAATGCAACAACATACACAATAACAAT-A
8744356 TACAACAACAACAATAATGCAACA
1 -ACAACAACAACAATAATGCAACA
8744380 TATACAATAG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 34 0.58
41 3 0.05
42 2 0.03
43 20 0.34
ACGTcount: A:0.60, C:0.24, G:0.04, T:0.12
Consensus pattern (41 bp):
ACAACAACAACAATAATGCAACAACATACACAATAACAATA
Found at i:8744368 original size:17 final size:17
Alignment explanation
Indices: 8744343--8744379 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8744333 AACAACGTAC
*
8744343 ACAATAACAATAATACA
1 ACAACAACAATAATACA
*
8744360 ACAACAACAATAATGCA
1 ACAACAACAATAATACA
8744377 ACA
1 ACA
8744380 TATACAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.22, G:0.03, T:0.14
Consensus pattern (17 bp):
ACAACAACAATAATACA
Found at i:8748765 original size:26 final size:28
Alignment explanation
Indices: 8748702--8748771 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
8748692 AATTATATAA
* *
8748702 TTGATTCAAAATAAAAATATAAAAATTTAT
1 TTGATTGAAAATAAAAATATAAAAA--TAC
8748732 TTGATTGAAAATAAAAATAT-AAAA-AC
1 TTGATTGAAAATAAAAATATAAAAATAC
*
8748758 TTGATTGAATATAA
1 TTGATTGAAAATAA
8748772 TACAAGTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 14 0.38
29 4 0.11
30 19 0.51
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (28 bp):
TTGATTGAAAATAAAAATATAAAAATAC
Found at i:8754750 original size:17 final size:16
Alignment explanation
Indices: 8754728--8754774 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
8754718 TAATAATTCG
8754728 AATTTAAAATGATTTAA
1 AATTTAAAATGATTT-A
* *
8754745 AATTTAAATTAATTTA
1 AATTTAAAATGATTTA
*
8754761 AATTCAAAATGATT
1 AATTTAAAATGATT
8754775 GAACTTGAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
AATTTAAAATGATTTA
Found at i:8754848 original size:20 final size:18
Alignment explanation
Indices: 8754795--8754851 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
8754785 AATCAAGTTT
**
8754795 AAAATTAATTTGGATTT-
1 AAAATTAATTTTAATTTA
*
8754812 -AAATTAATTTTATTTTA
1 AAAATTAATTTTAATTTA
8754829 AAAATTAATATTTAGATTTA
1 AAAATTAAT-TTTA-ATTTA
8754849 AAA
1 AAA
8754852 TAATTCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.41
18 8 0.25
19 4 0.12
20 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
AAAATTAATTTTAATTTA
Found at i:8756578 original size:16 final size:17
Alignment explanation
Indices: 8756542--8756579 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8756532 AAGCGTGACT
*
8756542 TAATTTCCTAAAGAATA
1 TAATTGCCTAAAGAATA
*
8756559 TAATTGCCTAAA-AGTA
1 TAATTGCCTAAAGAATA
8756575 TAATT
1 TAATT
8756580 TTTTACTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (17 bp):
TAATTGCCTAAAGAATA
Found at i:8779729 original size:56 final size:58
Alignment explanation
Indices: 8779651--8779758 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 58
8779641 TAAAATAAAA
*
8779651 TATATAATATAAGAATTAGAAATTAAAATA-AA-ATAAAATATGAA-AAATTAAAAATT
1 TATATAATATAAGAATAAGAAATTAAAATATAATATAAAATAT-AAGAAATTAAAAATT
* *
8779707 TATATAATATAGGTAA-AAGAAATTAAAATATAATATATAATATAAGAAATTA
1 TATATAATATAAG-AATAAGAAATTAAAATATAATATAAAATATAAGAAATTA
8779759 TATTAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
56 25 0.56
57 6 0.13
58 14 0.31
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (58 bp):
TATATAATATAAGAATAAGAAATTAAAATATAATATAAAATATAAGAAATTAAAAATT
Found at i:8779776 original size:40 final size:38
Alignment explanation
Indices: 8779730--8779834 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 38
8779720 TAAAAGAAAT
8779730 TAAAATATAATATATAATATAAGAAATTATATTAAAAAA
1 TAAAATATAATATAT-ATATAAGAAATTATATTAAAAAA
*
8779769 TAAAA-ATAA-A-ATATATAAG--ATTATAATAAAAAA
1 TAAAATATAATATATATATAAGAAATTATATTAAAAAA
*
8779802 TAAAAATAAAATATATGATATTAA-AAA-TATATT
1 T-AAAATATAATATAT-ATA-TAAGAAATTATATT
8779835 TAAGAGATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
33 14 0.25
34 4 0.07
35 10 0.18
36 3 0.05
37 3 0.05
38 7 0.13
39 13 0.24
40 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (38 bp):
TAAAATATAATATATATATAAGAAATTATATTAAAAAA
Found at i:8779782 original size:33 final size:33
Alignment explanation
Indices: 8779731--8779817 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
8779721 AAAAGAAATT
* * *
8779731 AAAATATAATATATAATATA-AGAAATTATATTAA
1 AAAATA-AAAATAAAATATATA-AAATTATAATAA
*
8779765 AAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTATAATAA
8779798 AAAATAAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
8779818 GATATTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
33 41 0.85
34 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATAAAATTATAATAA
Found at i:8783301 original size:19 final size:18
Alignment explanation
Indices: 8783277--8783313 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
8783267 TAGTATTTAA
*
8783277 ATAAAATTTTAAATTATTT
1 ATAAAAATTTAAA-TATTT
8783296 ATAAAAATTTAAATATTT
1 ATAAAAATTTAAATATTT
8783314 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAAAAATTTAAATATTT
Found at i:8783638 original size:29 final size:29
Alignment explanation
Indices: 8783605--8783667 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
8783595 AATTATTAAT
8783605 TATAAT-ACTTAATTGATTTAAAATAAAAA
1 TATAATAACTT-ATTGATTTAAAATAAAAA
* *
8783634 TATAATAACTTTTTTATTTAAAATAAAAA
1 TATAATAACTTATTGATTTAAAATAAAAA
8783663 TATAA
1 TATAA
8783668 AAATTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (29 bp):
TATAATAACTTATTGATTTAAAATAAAAA
Found at i:8783684 original size:29 final size:29
Alignment explanation
Indices: 8783623--8783709 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
8783613 TTAATTGATT
* **
8783623 TAAAATAAAAATATAATAACTTT-TTTATT
1 TAAAATAAAAATATAA-AAATTTATTTAAA
*
8783652 TAAAATAAAAATATAAAAATTTAATTAAA
1 TAAAATAAAAATATAAAAATTTATTTAAA
* *
8783681 TAAAGTAAAAGTATAAAAATTTATTTAAA
1 TAAAATAAAAATATAAAAATTTATTTAAA
8783710 ATTTTTAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (29 bp):
TAAAATAAAAATATAAAAATTTATTTAAA
Found at i:8825198 original size:52 final size:50
Alignment explanation
Indices: 8825102--8825200 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 50
8825092 ACAGTTTAAT
*
8825102 TTGATTTGATTTGATTTATAAAAATTACAAATTTAGCATTTTTATTTGAAC
1 TTGATTTGATTTGATTTATAAAAATTACAAATTAAG-ATTTTTATTTGAAC
*
8825153 TTGAGTTTGATTTGATTTATGAAAATTACAAATATAAG-TTATTTATTT
1 TTGA-TTTGATTTGATTTATAAAAATTACAAAT-TAAGATT-TTTATTT
8825201 TCAATCCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 6 0.14
52 34 0.79
53 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.49
Consensus pattern (50 bp):
TTGATTTGATTTGATTTATAAAAATTACAAATTAAGATTTTTATTTGAAC
Found at i:8852905 original size:24 final size:25
Alignment explanation
Indices: 8852845--8852894 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8852835 CATGCCAGGG
*
8852845 CACACTAG-CGAGCAAATCGGCGGGC
1 CACAC-AGCCGAGCAAAACGGCGGGC
8852870 CACACAGCCGAGCAAAACGGCGGGC
1 CACACAGCCGAGCAAAACGGCGGGC
8852895 ACAACACCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.30, C:0.34, G:0.32, T:0.04
Consensus pattern (25 bp):
CACACAGCCGAGCAAAACGGCGGGC
Found at i:8856104 original size:216 final size:213
Alignment explanation
Indices: 8855840--8856299 Score: 561
Period size: 216 Copynumber: 2.1 Consensus size: 213
8855830 ACAAAAATAT
* * * *
8855840 TATA-TATATATATATATTTAATTTATATATAATTATTGTTACAACTTATAATAAACTTTATTTA
1 TATATTATATATATATATATAATTTATACATAAGTATTATTACAACTTATAATAAACTTTATTTA
* * * *
8855904 TATGATTAGACTTAACAACCTTATTAATTATCACTTTAATTTTTATAATATA-TAGTTTATAATT
66 TATGATTACACTTAACAACCTTATTAATTATAACCTTAATTTTTATAACATATTA-TTTATAATT
* ** * * * *
8855968 AGTTATTATTTACAGTAATTTTGATAT-AA-AACA-TTATAACATATAAATTGTGTCATTAATTT
130 AATTATTATTTACACAAACTTTGATATAAATAAAAGTTATAACATATAAATTGTATCACTAATTT
8856030 CATATATATATATATATTAAAGTAA
195 C----ATATATATA-A-TAAAGTAA
* ** *
8856055 TATATTATACATATATATATAATTTATACATAAGTATTATTGTAACTTATAGTAAACTTTATTTA
1 TATATTATATATATATATATAATTTATACATAAGTATTATTACAACTTATAATAAACTTTATTTA
* ** *
8856120 TATGATTACACTTAATAATTTTATTAGTTATAACCTTAATTTTTATAACATATTATTTATAATTA
66 TATGATTACACTTAACAACCTTATTAATTATAACCTTAATTTTTATAACATATTATTTATAATTA
*
8856185 ATTATTATTTATACAAACTTTGATATAAAAATTAAAATGTTATAACATATAAATTGTATCACTAA
131 ATTATTATTTACACAAACTTTGATAT--AAA-TAAAA-GTTATAACATATAAATTGTATCACTAA
8856250 TTTCATATATATAATAAAGTAA
192 TTTCATATATATAATAAAGTAA
*
8856272 TATATTATATATTTATATATAATTTATA
1 TATATTATATATATATATATAATTTATA
8856300 AAAAAATATA
Statistics
Matches: 210, Mismatches: 26, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
215 4 0.02
216 127 0.60
217 36 0.17
218 1 0.00
219 11 0.05
221 3 0.01
223 28 0.13
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (213 bp):
TATATTATATATATATATATAATTTATACATAAGTATTATTACAACTTATAATAAACTTTATTTA
TATGATTACACTTAACAACCTTATTAATTATAACCTTAATTTTTATAACATATTATTTATAATTA
ATTATTATTTACACAAACTTTGATATAAATAAAAGTTATAACATATAAATTGTATCACTAATTTC
ATATATATAATAAAGTAA
Found at i:8863829 original size:32 final size:33
Alignment explanation
Indices: 8863793--8863863 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 33
8863783 AGCTAATCCT
*
8863793 GCTTGAATCTCCCCTTTTTTTTTT-GCCCAATA
1 GCTTGAACCTCCCCTTTTTTTTTTAGCCCAATA
* *
8863825 GCTTGAACCTTCCCTTTTTTTTTTAGCGCAATA
1 GCTTGAACCTCCCCTTTTTTTTTTAGCCCAATA
8863858 GCTTGA
1 GCTTGA
8863864 GCCCCCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.17, C:0.25, G:0.13, T:0.45
Consensus pattern (33 bp):
GCTTGAACCTCCCCTTTTTTTTTTAGCCCAATA
Found at i:8876016 original size:43 final size:43
Alignment explanation
Indices: 8875955--8876039 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
8875945 TTTCTATAGG
8875955 AGTATTTTTTATATAGAAATTAATGAATACCATTAACATATAA
1 AGTATTTTTTATATAGAAATTAATGAATACCATTAACATATAA
8875998 AGTATTTTTTATATAGAAATTAATGAATACCATTAACATATA
1 AGTATTTTTTATATAGAAATTAATGAATACCATTAACATATA
8876040 GCAAGCAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (43 bp):
AGTATTTTTTATATAGAAATTAATGAATACCATTAACATATAA
Found at i:8879934 original size:63 final size:63
Alignment explanation
Indices: 8879833--8879953 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
8879823 GTTCCATATC
** * *
8879833 GGTCTATTATGTTCATTTTATTCATTTGTTGCTTACTGATTTACTGATTGATTTGGTGATGTT
1 GGTCTATTATGTTCATTTTATTCATTCATTACTCACTGATTTACTGATTGATTTGGTGATGTT
*
8879896 GGTCTATTATGTTCTTTTTATTCATTCATTACTCACTGATTTACTGATTGATTTGGTG
1 GGTCTATTATGTTCATTTTATTCATTCATTACTCACTGATTTACTGATTGATTTGGTG
8879954 TTCTGTTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.18, C:0.12, G:0.17, T:0.53
Consensus pattern (63 bp):
GGTCTATTATGTTCATTTTATTCATTCATTACTCACTGATTTACTGATTGATTTGGTGATGTT
Found at i:8885678 original size:32 final size:32
Alignment explanation
Indices: 8885615--8885847 Score: 279
Period size: 32 Copynumber: 7.1 Consensus size: 32
8885605 TATTCTATCG
* *
8885615 TTATAAATATTTTATAACT-TTACACAGAATATT
1 TTATAAATA-TTTATAA-TGTTACATAAAATATT
* *
8885648 TTATAAATATTTATAATGTTAAATGAAATATT
1 TTATAAATATTTATAATGTTACATAAAATATT
* * *
8885680 TTATAAATATTTATAATGTTGCACAGAATATT
1 TTATAAATATTTATAATGTTACATAAAATATT
*
8885712 TTACTAAATATTTTATAATGTTACACAAAATATT
1 TTA-TAAATA-TTTATAATGTTACATAAAATATT
8885746 TTATAAATATTTATAATGTTACATAAAATATT
1 TTATAAATATTTATAATGTTACATAAAATATT
* ***
8885778 TTATTAAATATTTTATAACGTTATGCAAAATATT
1 TTA-TAAATA-TTTATAATGTTACATAAAATATT
* *
8885812 TTATAAATATTGATAATGTTATATAAAATATT
1 TTATAAATATTTATAATGTTACATAAAATATT
8885844 TTAT
1 TTAT
8885848 CTTAATTTCC
Statistics
Matches: 175, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.01
32 95 0.54
33 33 0.19
34 46 0.26
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (32 bp):
TTATAAATATTTATAATGTTACATAAAATATT
Found at i:8885747 original size:66 final size:65
Alignment explanation
Indices: 8885615--8885847 Score: 299
Period size: 66 Copynumber: 3.6 Consensus size: 65
8885605 TATTCTATCG
**
8885615 TTATAAATATTTTATAACT-TTACACAGAATATTTTATAAATA-TTTATAATGTTAAATGAAATA
1 TTATAAATA-TTTATAA-TGTTACACAGAATATTTTATAAATATTTTATAATGTTAAACAAAATA
8885678 TT
64 TT
* *
8885680 TTATAAATATTTATAATGTTGCACAGAATATTTTACTAAATATTTTATAATGTTACACAAAATAT
1 TTATAAATATTTATAATGTTACACAGAATATTTTA-TAAATATTTTATAATGTTAAACAAAATAT
8885745 T
65 T
* * * **
8885746 TTATAAATATTTATAATGTTACATAAAATATTTTATTAAATATTTTATAACGTTATGCAAAATAT
1 TTATAAATATTTATAATGTTACACAGAATATTTTA-TAAATATTTTATAATGTTAAACAAAATAT
8885811 T
65 T
* * * *
8885812 TTATAAATATTGATAATGTTATATAAAATATTTTAT
1 TTATAAATATTTATAATGTTACACAGAATATTTTAT
8885848 CTTAATTTCC
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
63 1 0.01
64 23 0.15
65 16 0.11
66 112 0.74
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (65 bp):
TTATAAATATTTATAATGTTACACAGAATATTTTATAAATATTTTATAATGTTAAACAAAATATT
Found at i:8885760 original size:10 final size:11
Alignment explanation
Indices: 8885615--8885795 Score: 81
Period size: 12 Copynumber: 16.5 Consensus size: 11
8885605 TATTCTATCG
8885615 TTATAAATATT
1 TTATAAATATT
*
8885626 TTATAACT-TT
1 TTATAAATATT
** *
8885636 ACACAGAATATT
1 TTATA-AATATT
8885648 TTATAAATA-T
1 TTATAAATATT
*
8885658 TTAT-AATGTT
1 TTATAAATATT
**
8885668 AAATGAAATATT
1 TTAT-AAATATT
8885680 TTATAAATA-T
1 TTATAAATATT
*
8885690 TTAT-AATGTT
1 TTATAAATATT
** *
8885700 GCACAGAATATT
1 TTATA-AATATT
8885712 TTACTAAATATT
1 TTA-TAAATATT
*
8885724 TTAT-AATGTT
1 TTATAAATATT
** *
8885734 ACACAAAATATT
1 TTA-TAAATATT
8885746 TTATAAATA-T
1 TTATAAATATT
*
8885756 TTAT-AATGTT
1 TTATAAATATT
**
8885766 ACATAAAATATT
1 TTAT-AAATATT
8885778 TTATTAAATATT
1 TTA-TAAATATT
8885790 TTATAA
1 TTATAA
8885796 CGTTATGCAA
Statistics
Matches: 119, Mismatches: 36, Indels: 30
0.64 0.19 0.16
Matches are distributed among these distances:
9 9 0.08
10 33 0.28
11 27 0.23
12 48 0.40
13 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (11 bp):
TTATAAATATT
Found at i:8885828 original size:98 final size:97
Alignment explanation
Indices: 8885615--8885847 Score: 321
Period size: 98 Copynumber: 2.4 Consensus size: 97
8885605 TATTCTATCG
* *
8885615 TTATAAATATTTTATAACT-TTACACAGAATATTTTATAAATATTTATAATGTTAAATGAAATAT
1 TTATAAATATTTTATAA-TGTTACACAAAATATTTTATAAATATTTATAATGTTAAATAAAATAT
*
8885679 TTTATAAATATTTATAATGTTGCACAGAATATT
65 TTTATAAATATTTATAACGTTGCACAGAATATT
*
8885712 TTACTAAATATTTTATAATGTTACACAAAATATTTTATAAATATTTATAATGTTACATAAAATAT
1 TTA-TAAATATTTTATAATGTTACACAAAATATTTTATAAATATTTATAATGTTAAATAAAATAT
8885777 TTTATTAAATATTTTATAACGTTATGCA-A-AATATT
65 TTTA-TAAATA-TTTATAACG-T-TGCACAGAATATT
* * *
8885812 TTATAAATA-TTGATAATGTTATATAAAATATTTTAT
1 TTATAAATATTTTATAATGTTACACAAAATATTTTAT
8885848 CTTAATTTCC
Statistics
Matches: 123, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
97 4 0.03
98 84 0.68
99 12 0.10
100 17 0.14
101 2 0.02
102 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (97 bp):
TTATAAATATTTTATAATGTTACACAAAATATTTTATAAATATTTATAATGTTAAATAAAATATT
TTATAAATATTTATAACGTTGCACAGAATATT
Found at i:8889004 original size:15 final size:16
Alignment explanation
Indices: 8888984--8889020 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8888974 TATAATTTAA
8888984 ATATTTGAA-TAATAT
1 ATATTTGAAGTAATAT
*
8888999 ATATTTGAAGTGATAT
1 ATATTTGAAGTAATAT
8889015 ATATTT
1 ATATTT
8889021 TTAATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (16 bp):
ATATTTGAAGTAATAT
Found at i:8890551 original size:96 final size:96
Alignment explanation
Indices: 8890439--8890618 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 96
8890429 GTGAAATTAG
* *
8890439 GAGTTTGAAGTATGAAATTGAAAAGTTGAAA-GGA-TAGTTGGAATATGATAAAAATAATTAAAA
1 GAGTTTGAAGTATGAAATTGAAAAGTT-AAAGGGATTA-TTAGAATATGATAAAAATAATCAAAA
*
8890502 GCTAAAAGAAAAAGAGAAGCAGCAGGTTTATGA
64 GCTAAAAGAAAAAGAAAAGCAGCAGGTTTATGA
* *
8890535 GAGTTTGAAGTTTGAAATTGAAAAGTTAAAGGGATTATTAGAGTATGATAAAAATAATCAAAAGC
1 GAGTTTGAAGTATGAAATTGAAAAGTTAAAGGGATTATTAGAATATGATAAAAATAATCAAAAGC
*
8890600 TGAAAGAAAAAGAAAAGCA
66 TAAAAGAAAAAGAAAAGCA
8890619 ACCGGAGTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
95 3 0.04
96 71 0.93
97 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.24
Consensus pattern (96 bp):
GAGTTTGAAGTATGAAATTGAAAAGTTAAAGGGATTATTAGAATATGATAAAAATAATCAAAAGC
TAAAAGAAAAAGAAAAGCAGCAGGTTTATGA
Found at i:8892027 original size:18 final size:18
Alignment explanation
Indices: 8892004--8892039 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8891994 TCAATTAAGT
8892004 TAAAAAATATAA-ATTTAA
1 TAAAAAATA-AATATTTAA
8892022 TAAAAAATAAATATTTAA
1 TAAAAAATAAATATTTAA
8892040 ATTTACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAAATAAATATTTAA
Found at i:8892352 original size:250 final size:246
Alignment explanation
Indices: 8891911--8892798 Score: 951
Period size: 250 Copynumber: 3.5 Consensus size: 246
8891901 CATAAAGTAA
* ** * * *
8891911 TAAGAATTTACATAAAAACTCATAAAGGA-GAAATAACTAATTTTTAAATCTTAATGTAATTATG
1 TAAGAATTGACATAAAAACTTGTAAA-GATGAAATAACTAAATTTTAAATCTTAACGTAAATATG
* * *
8891975 TAAGAGTTAACATAACAAGTCAATTAAGTTAAAAAATATAAATTTAATAAAAAATAAATATTTAA
65 TAAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAAATAAATATTTAA
* * * * * *
8892040 ATTTACATTATAGGGGTAAAAGTGTTTAATA-ATATAAAAATATTAATTTTTAAATAAAAAATAT
130 ATTTATA-TCT-CGGCTAAAAGTGTTTAA-AGATAT-AAAATTTTAATTTTTAAATAAAAAATAA
* *
8892104 TAAGGAT-AAAATAATTATAGTTCAAAACTAGCATAGAAAAACTTTGACGTAAAACTT
191 TAA-GATAAAAATAATTATAATTCAAAA-TAGCATAGAAAAGCTTTGACGTAAAACTT
* *
8892161 TAAGAATTGATATAAAAACTTGTAAAGATGAAATAATTAAATTTTAAATCTTAACGTAAATATGT
1 TAAGAATTGACATAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATATGT
* * * *
8892226 AAAAGTTAATGTAACAAGTCAATTAAATAAAAAATATATAAATTTAGT-AAAAATAAATACTTAA
66 AAAAGTTAACGTAACAAGTCAATTAAGTAAAAAA-ATATAAATTTAATAAAAAATAAATATTTAA
*
8892290 ATTTATATCCTCGAGCTAAAAGTGTTTAAAGATATATAAATTTTAATTTTTAAATGAAAAATAAT
130 ATTTATAT-CTCG-GCTAAAAGTGTTTAAAGATATA-AAATTTTAATTTTTAAATAAAAAATAAT
** * * *
8892355 AAGATAAAAATAATCGTAATTCAAAATTGACATAGAAAAGCTTGGACGTAAAACTG
192 AAGATAAAAATAATTATAATTCAAAATAG-CATAGAAAAGCTTTGACGTAAAACTT
* ** * * * ** ** **
8892411 TAAAAATTGATGTAAAAACTTGTAAACATAAAAAAAAAAAAATTTTAAATCTTAACACAAACGTG
1 TAAGAATTGACATAAAAACTTGTAAAGAT-GAAATAACTAAATTTTAAATCTTAACGTAAATATG
* *
8892476 TAAAAGTTAACGTAACAAGTTAATTAAGTAAAAACAATCTAAATTTAATAAAAAATAAATATTTA
65 TAAAAGTTAACGTAACAAGTCAATTAAGTAAAAA-AATATAAATTTAATAAAAAATAAATATTTA
* * * *
8892541 CATTTATAATCTCGGTTTGAAAGTGTTTAACGATATAAAATTTTTAATTTTTAAATAAAAAATAA
129 AATTTAT-ATCTCGG-CTAAAAGTGTTTAAAGATATAAAA-TTTTAATTTTTAAATAAAAAATAA
* * * * *
8892606 TAAAGATAAAAATAATTATAATTCAAAATTGGTAGAGAAAAGCCTTGATGTAAAA-TT
191 T-AAGATAAAAATAATTATAATTCAAAA-TAGCATAGAAAAGCTTTGACGTAAAACTT
* * * * * *
8892663 GTAAGAATTGACGTAAAACCTTGTAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATATT
1 -TAAGAATTGACATAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATATG
* * * *** * *
8892728 TGAGAGTTAACGTAACAAGTCAAATAAGTAAAAAAA-ATCTTTTTTAATGAAAAGTAAATATTTA
65 TAAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATAT-AAATTTAATAAAAAATAAATATTTA
8892792 AATTTAT
129 AATTTAT
8892799 NNNNNNNNNN
Statistics
Matches: 533, Mismatches: 87, Indels: 35
0.81 0.13 0.05
Matches are distributed among these distances:
249 11 0.02
250 217 0.41
251 113 0.21
252 122 0.23
253 68 0.13
254 2 0.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (246 bp):
TAAGAATTGACATAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATATGT
AAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAAATAAATATTTAAA
TTTATATCTCGGCTAAAAGTGTTTAAAGATATAAAATTTTAATTTTTAAATAAAAAATAATAAGA
TAAAAATAATTATAATTCAAAATAGCATAGAAAAGCTTTGACGTAAAACTT
Found at i:8893221 original size:18 final size:18
Alignment explanation
Indices: 8893198--8893232 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8893188 CAATTAAGTA
8893198 AAAAAATATAA-ATTTAAT
1 AAAAAATA-AATATTTAAT
8893216 AAAAAATAAATATTTAA
1 AAAAAATAAATATTTAA
8893233 ATTTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATAAATATTTAAT
Found at i:8893511 original size:690 final size:701
Alignment explanation
Indices: 8892173--8894966 Score: 1881
Period size: 690 Copynumber: 3.9 Consensus size: 701
8892163 AGAATTGATA
*
8892173 TAAAAACTTGTAAAGATGAAATAATTAAATTTTAAATCTTAACGTAAATATGTAAAAGTTAATGT
1 TAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATATGTAAAAGTTAATGT
*
8892238 AACAAGTCAATTAAATAAAAAATATATAAATTTAGTAAAAATAAATACTTAAATTTATATCCTCG
66 AACAAGTCAATTAAATAAAAAATATATAAATTTAATAAAAATAAATACTTAAATTTATATCCTCG
*
8892303 AGCTAAAAGTGTTTAAAGATATATAAATTTTAATTTTTAAATGAAAAATAATAAGATAAAAATAA
131 AGCTAAAAGTATTTAAAGATATATAAATTTTAATTTTTAAATGAAAAATAATAAGATAAAAATAA
* * * *
8892368 TCGTAATTCAAAATTGACATAGAAAAGCTTGGACGTAAAACTGTAAAAATTGATGTAAAAACTTG
196 TCATAATTCAAAATTGACATAGAAAAGCTTGGACG-AAAACTATAAAAATTGACGTAAAAACTTA
*
8892433 TAAACATAAAAAAAAAAAAATTTTAAATCTTAACACAAACGTGTAAAAGTTAACGTAACAAGTTA
260 TAAACATAAAAAAAAAAAAATTTTAAATCTTAACACAAACGTGTAAAAGTTAACGTAACAAGTCA
* * * * *
8892498 ATTAAGTAAAAACAATCTAAATTTAATAAAAAATAAATATTTACATTTATAATCTCGGTTTGAAA
325 ATTAAGTAAAAACAATATAAATTTAATAAAAAATAAATATTTAAATTTATAATATCGGGTTAAAA
* * *
8892563 GTGTTTAACGATATAAAATTTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAAT
390 GTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAATAATCATAAT
* * * * * * * * *
8892628 TCAAAATTGGTAGAGAAAAGCCTTGATGTAAAATTGTAAGAATTGACGTAAAACCTTGTAAAGGT
455 TCAAAATTGGTAGAGAAAAGCCTTAACGTAAAACTATAAAAATTGACATAAAAACTTATAAAAGT
* * ** *
8892693 GGAATAACTAAATTTTAAATCTTAATGTAAATATTTGAGAGTTAACGTAACAAGTCAAATAAGTA
520 GGAATAACAAAATTTTAAATATTAACATAAATATTTGAGAGTTAACGTAACAACTCAAATAAGTA
** ** ********** *
8892758 AAAAAAATCTTTTTTAATGAAAAGTAAATATTTAAATTTATNNNNNNNNNNTGAAAGTGTTTAAC
585 AAAAAAATCTAATTTAATGAAAAACAAATATTTAAATTTATAATCTAGGGCTGAAAATGTTTAAC
*
8892823 GATATAAAA-ATTTAATTTTCAAATAAAGAATAATAAGGATAAAAGTTGACG
650 AATATAAAATATTTAATTTTCAAATAAAGAATAATAAGGATAAAAGTTGACG
* *
8892874 TAAAAACTTTTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAGTGTATG-AAAA-TTAAT
1 TAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAA--ATATGTAAAAGTTAAT
* * * * **
8892937 GTAGCAAGTCAATTAAGT-AAAAA-A-A-AATTTTAATGAAAAATAAATATTTAAATTTATATTT
64 GTAACAAGTCAATTAAATAAAAAATATATAAATTTAAT-AAAAATAAATACTTAAATTTATATCC
*
8892998 TC-AGGCTAAAAGTATTTAATGATATATAAATTTTAA-TTTTAAAT-AAAAATAATAAAGATAAA
128 TCGA-GCTAAAAGTATTTAAAGATATATAAATTTTAATTTTTAAATGAAAAATAAT-AAGATAAA
* * * *
8893060 AATAATTATATTTCAAGATTGACATAG-AAAGTCTT-GAC-AAAACTATAAGAATT-AGCGT-AA
191 AATAATCATAATTCAAAATTGACATAGAAAAG-CTTGGACGAAAACTATAAAAATTGA-CGTAAA
* ** * ** *** * * *
8893120 AACTTATAAATAT-GGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACGTAAC
254 AACTTATAAACATAAAAAAAAAAAAATTTTAAATCTTAACACAAACGTGTAAAAGTTAACGTAAC
* *
8893184 AAGTCAATTAAGTAAAAA-AATATAAATTTAATAAAAAATAAATATTTAAATTTATATTATTGGG
319 AAGTCAATTAAGTAAAAACAATATAAATTTAATAAAAAATAAATATTTAAATTTATAATATCGGG
8893248 TTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAAT-AAAAATAATAAAAATAAAAATAAT
384 TTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAATAAT
* * * *
8893312 CATAGTTC-AAATTTG-ACGATGAAAAGTCTTAACGTAAAACTATAAAAATTTACATAAAAACTT
449 CATAATTCAAAATTGGTA-GA-GAAAAGCCTTAACGTAAAACTATAAAAATTGACATAAAAACTT
* * ** *
8893375 ATAAAAGTGGAATAACAAAATTTTAACTATTAACATAAATATATT-AGGGTTAATTTAACCACTC
512 ATAAAAGTGGAATAACAAAATTTTAAATATTAACATAAATAT-TTGAGAGTTAACGTAACAACTC
* *
8893439 AATTAAGTAACAAAAATCTAAATTTAAT-AAAAACAAATATTTAAATTTATAATCTAGGGCTGAA
576 AAATAAGTAAAAAAAATCT-AATTTAATGAAAAACAAATATTTAAATTTATAATCTAGGGCTGAA
* * * * * *
8893503 AATGTTTAACAATATAAAATTTTTTATTTTTAAATAAAGAATAATGAGGATAAAAATAATTATAA
640 AATGTTTAACAATATAAAATATTTAATTTTCAAATAAAGAATAATAAGGAT---AA-AAGT-TGA
8893568 CTCAAAATTAG
700 --C-------G
* * * * *
8893579 TATAGAAAGGCCTTGATGTAAAACTATAAGAATTAACATAAAAACTTATAAAAT-TAAAACAACT
1 TA-A-AAA---C-T--TGT-AAA-GAT--GAAATAAC-T--AAA-TT-TTAAATCT-TAAC--GT
* ** * * * * *
8893643 AAAT-TTTAAATCTTAACGTAA-ATGTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAAT
46 AAATATGTAAAAGTTAATGTAACA--AGTCA-A-TTAA-AT-A-AAA--AA-T-A-T--ATAAA-
* * * * * * *
8893706 TTTAATAAAAAGTAAATATTTAAATTTATATTCAT-GAGTTAAAAGTGTTTAACGATATACAAAA
96 TTTAATAAAAA-TAAATACTTAAATTTATA-TCCTCGAGCTAAAAGTATTTAAAGATATATAAAT
* * * *
8893770 TTTAATTTTTAAAT-AAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACTTTA-AAA
159 TTTAATTTTTAAATGAAA-AATAAT-AAGATAAAAATAATCATAATTCAAAATTGAC-ATAGAAA
* * ** * * * * * * * **
8893833 AACTTTGATATAAAACTGTTAGAATTGACATAAAAACTT-TCAAAGAT-GAAATAACTAAATTTT
221 AGCTTGGA-CGAAAACTATAAAAATTGACGTAAAAACTTAT-AAACATAAAAAAAAAAAAATTTT
* ** ** * * * *
8893896 AAATATTAACGTAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAAACAATCTAAATTT
284 AAATCTTAACACAAACGTGTAAAAGTTAACGTAACAAGTCAATTAAGTAAAAACAATATAAATTT
* * * **
8893961 AATAAAAATTAAATATTTAAATTTATATTCTCGGGTTAAAAGTGTTTAACGATATATCAATTTTA
349 AATAAAAAATAAATATTTAAATTTATAATATCGGGTTAAAAGTGTTTAACGATATAAAAATTTTA
* * * *
8894026 ATTTTTAAATAAAAAATAATAAAAATAAAAATAATTATAGTTCAAAATTGATATAGAAAAGCCTT
414 ATTTTTAAATAAAAAATAATAAAAATAAAAATAATCATAATTCAAAATTGGTAGAGAAAAGCCTT
* ** * * * ** * * * ** *
8894091 CATATAAAATTATAAAGATTAATGTAAAACCTTATAAAGGTAGAATAATTAAATTTTAAATCTTA
479 AACGTAAAACTATAAAAATTGACATAAAAACTTATAAAAGTGGAATAACAAAATTTTAAATATTA
* * * * * * * * * *
8894156 ACATAAGTGTGTGAGAATTAATGTAATAAGTCAATTAAGTAAAAATAATATAAATTTAAT--AAA
544 ACATAAATATTTGAGAGTTAACGTAACAACTCAAATAAGTAAAAAAAATCT-AATTTAATGAAAA
* * **** * * * * * *
8894219 A-AAATGTTTAAATTTATATTCTTTAACTGAAAGTATTTAACAGTAGAGAAAT-TTTGATTTTTA
608 ACAAATATTTAAATTTATAATCTAGGGCTGAAAATGTTTAACAATATA-AAATATTTAATTTTCA
* *
8894282 AATAAAAAATAATAAGGATAAAAATAATTGAAGTTCAGAATTG
672 AATAAAGAATAATAAGG------ATAA---AAGTT--G-A-CG
* * *
8894325 ATATAAAATTATAAGAATTAACATAAAAACTTGTAAAAGCGGAATATCTAAATTTTAAATCTTAA
1 -TA-AAAACT-T--G--------TAAAGA--TG----A----AATAACTAAATTTTAAATCTTAA
* * * * * * *
8894390 AGTAAATGTGTGAGAGTTAATGTAACAAGTTAATTAAGTAAAAAATTATATAAATTTAATAAAAG
43 CGTAAATATGTAAAAGTTAATGTAACAAGTCAATTAAATAAAAAA-TATATAAATTTAATAAAAA
* * * * *
8894455 TAAATATTTTAATTTATATTCTCG-GACTGAAAA-TGTTTAACA-ATATAAAAATTTTAATTTTT
107 TAAATACTTAAATTTATATCCTCGAG-CT-AAAAGTATTTAA-AGATATATAAATTTTAATTTTT
* * * * * *
8894517 AAATAAAAAATAATATAAATAAAAATAATTATAATTCAAAATTGATATAGAAAAGCCTGAAC-AT
169 AAATGAAAAATAATA-AGATAAAAATAATCATAATTCAAAATTGACATAGAAAAGCTTGGACGA-
* * * ** * * ** **
8894581 AAACTATAAGAATTAACGTAAAAACTTGTAAAGGT-GAAATAACTAAATTTTAAATCTTAACGTA
232 AAACTATAAAAATTGACGTAAAAACTTATAAACATAAAAAAAAAAAAATTTTAAATCTTAACACA
* * * * * * *
8894645 AATGTATAAGAGTTAATGTAACAAGTCAATTAAAT-AAAA-AA-A-AAATTTAATGAAAAACAAA
297 AACGTGTAAAAGTTAACGTAACAAGTCAATTAAGTAAAAACAATATAAATTTAATAAAAAATAAA
* * * *** * * *
8894706 TATTGAAATTTATATTCTCAAATTAAAAGTGTTTAATGATGTACAAATTTTAATTTTTAAATAAA
362 TATTTAAATTTATAATATCGGGTTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAA
* * * * * ** *
8894771 GAATAAT-AAGATAAAAATAATTATAATTCAAAATTGATATTA-AAAAGTTTTGACGTAAAACTA
427 AAATAATAAAAATAAAAATAATCATAATTCAAAATTGGTA-GAGAAAAGCCTTAACGTAAAACTA
** * * * * * * * * * *
8894834 TAAAAATTGATGTAAAGATTTATAAAAGTGAAAAAAACTAAATTTTAATTCTCAACGTAAATATA
491 TAAAAATTGACATAAAAACTTATAAAAGTG-GAATAACAAAATTTTAAATATTAACATAAATATT
* * * * * * *
8894899 TAAGAGTTAACTTAACAAGTTAATTAAGTAAAAAAATTATAAATTTAAT---AAA-AAA-ATTTA
555 TGAGAGTTAACGTAACAACTCAAATAAGTAAAAAAAATCT-AATTTAATGAAAAACAAATATTTA
8894959 AATTTATA
619 AATTTATA
8894967 TTCTCAAGCT
Statistics
Matches: 1687, Mismatches: 274, Indels: 235
0.77 0.12 0.11
Matches are distributed among these distances:
688 1 0.00
689 8 0.00
690 170 0.10
691 113 0.07
692 57 0.03
693 14 0.01
694 17 0.01
695 3 0.00
696 18 0.01
697 50 0.03
698 57 0.03
699 1 0.00
700 5 0.00
701 66 0.04
702 4 0.00
703 4 0.00
705 3 0.00
706 1 0.00
707 3 0.00
710 1 0.00
711 1 0.00
713 2 0.00
714 3 0.00
715 2 0.00
717 7 0.00
718 1 0.00
720 3 0.00
721 4 0.00
722 13 0.01
723 7 0.00
724 6 0.00
725 1 0.00
726 4 0.00
727 2 0.00
730 15 0.01
731 74 0.04
732 149 0.09
734 2 0.00
735 6 0.00
736 91 0.05
737 88 0.05
738 17 0.01
739 5 0.00
740 7 0.00
741 54 0.03
742 16 0.01
743 43 0.03
744 7 0.00
745 3 0.00
746 21 0.01
747 144 0.09
748 93 0.06
749 139 0.08
750 19 0.01
751 15 0.01
752 11 0.01
753 7 0.00
754 4 0.00
756 1 0.00
757 4 0.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (701 bp):
TAAAAACTTGTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATATGTAAAAGTTAATGT
AACAAGTCAATTAAATAAAAAATATATAAATTTAATAAAAATAAATACTTAAATTTATATCCTCG
AGCTAAAAGTATTTAAAGATATATAAATTTTAATTTTTAAATGAAAAATAATAAGATAAAAATAA
TCATAATTCAAAATTGACATAGAAAAGCTTGGACGAAAACTATAAAAATTGACGTAAAAACTTAT
AAACATAAAAAAAAAAAAATTTTAAATCTTAACACAAACGTGTAAAAGTTAACGTAACAAGTCAA
TTAAGTAAAAACAATATAAATTTAATAAAAAATAAATATTTAAATTTATAATATCGGGTTAAAAG
TGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAATAATCATAATT
CAAAATTGGTAGAGAAAAGCCTTAACGTAAAACTATAAAAATTGACATAAAAACTTATAAAAGTG
GAATAACAAAATTTTAAATATTAACATAAATATTTGAGAGTTAACGTAACAACTCAAATAAGTAA
AAAAAATCTAATTTAATGAAAAACAAATATTTAAATTTATAATCTAGGGCTGAAAATGTTTAACA
ATATAAAATATTTAATTTTCAAATAAAGAATAATAAGGATAAAAGTTGACG
Found at i:8893650 original size:251 final size:251
Alignment explanation
Indices: 8892874--8895288 Score: 2245
Period size: 246 Copynumber: 9.8 Consensus size: 251
8892864 AAAGTTGACG
* * * * * *
8892874 TAAAAACTT-TTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAGTGTATGAAAATTAATG
1 TAAAAACTTATAAAAG-TGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * *
8892938 TAGCAAGTCAATTAAGT-AAAAAA-A-AATTTTAATGAAAAATAAATATTTAAATTTATATTTTC
65 TAACAAGTCAATTAAGTAAAAAAATATAAATTTAAT-AAAAATAAATATTTAAATTTATATTCT-
* * *
8893000 A-GGC-TAAAAGTATTTAATGATATATAAATTTTAA-TTTTAAAT-AAAAATAATAAAGATAAAA
128 AGGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAA
* * * * * * *
8893061 ATAATTATATTTCAAGATTGACATAG-AAAGTCTTG--ACAAAACTATAAGAATTAGCG
193 ATAATTATAATTCAAAATTGATATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* *
8893117 T-AAAACTTATAAATA-TGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACG
1 TAAAAACTTATAAA-AGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* *
8893180 TAACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAAATAAATATTTAAATTTATATTATT
65 TAACAAGTCAATTAAGTAAAAAAATATAAATTTAAT-AAAAATAAATATTTAAATTTATATTCTA
* *
8893245 GGG-TTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAAT-AAAAATAATAAAAATAAAAA
129 GGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAA
* * * * * * ** * *
8893308 TAATCATAGTTCAAATTTGACGAT-GAAAAGTCTTAACGTAAAACTATAAAAATTTACA
194 TAATTATAATTCAAAATTGA-TATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * * * * * * * * **
8893366 TAAAAACTTATAAAAGTGGAATAACAAAATTTTAACTATTAACATAAATATATTAGGGTTAATTT
1 TAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* * * * *
8893431 AACCACTCAATTAAGTAACAAAAATCTAAATTTAATAAAAACAAATATTTAAATTTATAATCTAG
66 AACAAGTCAATTAAGTAA-AAAAATATAAATTTAATAAAAATAAATATTTAAATTTATATTCTAG
* * * * * *
8893496 GGCTGAAAA-TGTTTAACAATATA-AAATTTTTTATTTTTAAATAAAGAATAATGAGGATAAAAA
130 GGCTTAAAAGTGTTTAACGATATACAAA-TTTTAATTTTTAAATAAAAAATAATAAAGATAAAAA
* * *
8893559 TAATTATAACTCAAAATT-AGTATAGAAAGGCCTTGATGTAAAACTATAAGAATTAACA
194 TAATTATAATTCAAAATTGA-TATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * *
8893617 TAAAAACTTATAAAATTAAAACAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
1 TAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
*
8893682 AACAAATCAATTAAGT-AAAAAA-AT---TTTAATAAAAAGTAAATATTTAAATTTATATTC-AT
66 AACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAA-TAAATATTTAAATTTATATTCTA-
* * *
8893741 GAG-TTAAAAGTGTTTAACGATATACAAAATTTAATTTTTAAATAAAGAATAATAAAGATAAAAA
129 GGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAA
* * * * * * * *
8893805 TAATTATAGTTTAAAATTGACTTTA-AAAAACTTTGATATAAAACTGTTAGAATTGACA
194 TAATTATAATTCAAAATTGA-TATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * *
8893863 TAAAAACTT-TCAAAGATGAAATAACTAAATTTTAAATATTAACGTAAATATGTGAGAGTTAACG
1 TAAAAACTTATAAAAG-TGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* *
8893927 TAATAAGTCAATTAAGTAAAAACAATCTAAATTTAATAAAAATTAAATATTTAAATTTATATTCT
65 TAACAAGTCAATTAAGTAAAAA-AATATAAATTTAATAAAAA-TAAATATTTAAATTTATATTCT
* *
8893992 CGGG-TTAAAAGTGTTTAACGATATATC-AATTTTAATTTTTAAATAAAAAATAATAAAAATAAA
128 AGGGCTTAAAAGTGTTTAACGATATA-CAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAA
* * * **
8894055 AATAATTATAGTTCAAAATTGATATAGAAAAGCCTTCATATAAAATTATAA-AGATTAATG
192 AATAATTATAATTCAAAATTGATATAGAAAAGCCTTGATATAAAACTATAAGA-ATTAACA
* * * * * * *
8894115 TAAAACCTTATAAAGGT-AGAATAATTAAATTTTAAATCTTAACATAAGTGTGTGAGAATTAATG
1 TAAAAACTTATAAAAGTGA-AATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * *
8894179 TAATAAGTCAATTAAGTAAAAATAATATAAATTTAAT-AAAA-AAATGTTTAAATTTATATTCTT
65 TAACAAGTCAATTAAGTAAAAA-AATATAAATTTAATAAAAATAAATATTTAAATTTATATTCTA
*** * * * * * *
8894242 TAAC-TGAAAGTATTTAAC-AGTAGAGAAATTTTGATTTTTAAATAAAAAATAATAAGGAT---A
129 GGGCTTAAAAGTGTTTAACGA-TATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAA
* *
8894302 A-AA--ATAATT--GAA--G-T-TCAG--AA---TTGATATAAAATTATAAGAATTAACA
193 ATAATTATAATTCAAAATTGATAT-AGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * * * * *
8894348 TAAAAACTTGTAAAAGCGGAATATCTAAATTTTAAATCTTAAAGTAAATGTGTGAGAGTTAATGT
1 TAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* * * *
8894413 AACAAGTTAATTAAGTAAAAAATTATATAAATTTAATAAAAGTAAATATTTTAATTTATATTCTC
66 AACAAGTCAATTAAGTAAAAAA--ATATAAATTTAATAAAAATAAATATTTAAATTTATATTCTA
* * * *
8894478 GGACTGAAAA-TGTTTAACAATATAAAAATTTTAATTTTTAAATAAAAAATAATATAA-ATAAAA
129 GGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATA-AAGATAAAA
* *
8894541 ATAATTATAATTCAAAATTGATATAGAAAAGCC-TGA-ACATAAACTATAAGAATTAACG
193 ATAATTATAATTCAAAATTGATATAGAAAAGCCTTGATATA-AAACTATAAGAATTAACA
* * * * *
8894599 TAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTATAAGAGTTAATGT
1 TAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* * *
8894664 AACAAGTCAATTAAAT-AAAAAA-A-AAATTTAATGAAAAACAAATATTGAAATTTATATTCTCA
66 AACAAGTCAATTAAGTAAAAAAATATAAATTTAAT-AAAAATAAATATTTAAATTTATATTCT-A
** * * *
8894726 --AATTAAAAGTGTTTAATGATGTACAAATTTTAATTTTTAAATAAAGAATAAT-AAGATAAAAA
129 GGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAA
** ** * * **
8894788 TAATTATAATTCAAAATTGATATTA-AAAAGTTTTGACGTAAAACTATAAAAATTGATG
194 TAATTATAATTCAAAATTGATA-TAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * * * * * * * *
8894846 TAAAGATTTATAAAAGTGAAAAAAACTAAATTTTAATTCTCAACGTAAATATATAAGAGTTAACT
1 TAAAAACTTATAAAAGTG-AAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
*
8894911 TAACAAGTTAATTAAGTAAAAAAATTATAAATTTAAT--AAA-AAA-ATTTAAATTTATATTCTC
65 TAACAAGTCAATTAAGTAAAAAAA-TATAAATTTAATAAAAATAAATATTTAAATTTATATTCT-
* * * * *
8894972 A-AGCTT-TAAGTATTTAACGAGATACAAATTTTAA--TTT--A-AAAAAATAATAAAGTTAAAA
128 AGGGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAA
* *** * ** * * * **
8895030 ATAATTATAATTCAAAATTGATATAAAAAAATATCGACGTAAAATTATAACAATTGATG
193 ATAATTATAATTCAAAATTGATATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
* * * *
8895089 TTAAAACTTGA-AAATGTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAACG
1 TAAAAACTT-ATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
** * * * * *
8895153 TAATTAGTTAATTAAGTAAAAAAATTTAATTTTAATAAAAATTAAGTA-TTAATATTTATATTAT
65 TAACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAA-TAAATATTTAA-ATTTATATTCT
* *** ** *
8895217 -GAAG-TTAAAAGTACATAACGGCATACAAATTTTTATTTTTAAAT-AAAAATAATAAAGATAAA
128 AG-GGCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAA
8895279 AATAATTATA
192 AATAATTATA
8895289 GCTTAAAGTT
Statistics
Matches: 1804, Mismatches: 270, Indels: 189
0.80 0.12 0.08
Matches are distributed among these distances:
232 1 0.00
233 93 0.05
234 14 0.01
235 3 0.00
236 63 0.03
237 6 0.00
238 3 0.00
239 3 0.00
240 2 0.00
241 12 0.01
242 140 0.08
243 90 0.05
244 5 0.00
245 99 0.05
246 306 0.17
247 161 0.09
248 70 0.04
249 102 0.06
250 159 0.09
251 245 0.14
252 222 0.12
253 5 0.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (251 bp):
TAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
AACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAATAAATATTTAAATTTATATTCTAGG
GCTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATA
ATTATAATTCAAAATTGATATAGAAAAGCCTTGATATAAAACTATAAGAATTAACA
Found at i:8894535 original size:16 final size:16
Alignment explanation
Indices: 8894516--8894550 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8894506 TTTTAATTTT
8894516 TAAATAAAAAATAA-TA
1 TAAAT-AAAAATAATTA
8894532 TAAATAAAAATAATTA
1 TAAATAAAAATAATTA
8894548 TAA
1 TAA
8894551 TTCAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAATAAAAATAATTA
Found at i:8894765 original size:247 final size:247
Alignment explanation
Indices: 8894328--8895288 Score: 1024
Period size: 247 Copynumber: 3.9 Consensus size: 247
8894318 AGAATTGATA
* * * * * *
8894328 TAAAATTATAAGAATTAACATAAAAACTTGTAAAAGCGGAATATCTAAATTTTAAATCTTAAAGT
1 TAAAACTATAAGAATTAACGTAAAAACTTGTAAAAGTGAAATAACTAAATTTTAAATCTTAACGT
* * *
8894393 AAATGTGTGAGAGTTAATGTAACAAGTTAATTAAGTAAAAAATTATATAAATTTAATAAAAGTAA
66 AAATGTATAAGAGTTAATGTAACAAGTTAATTAAGTAAAAAA--ATATAAATTTAATAAAAATAA
* * * * * *
8894458 ATATTTTAATTTATATTCTCGGACTGAAAA-TGTTTAACAATATAAAAATTTTAATTTTTAAATA
129 ATA-TTAAATTTATATTCTC-AACTTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATA
** *
8894522 AAAAATAATATAA-ATAAAAATAATTATAATTCAAAATTGATATAGAAAAGCCTGAACA
192 AAAAATAATA-AAGATAAAAATAATTATAATTCAAAATTGATATA-AAAAGTATG-ACG
*
8894580 T-AAACTATAAGAATTAACGTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGT
1 TAAAACTATAAGAATTAACGTAAAAACTTGTAAAAGTGAAATAACTAAATTTTAAATCTTAACGT
* * *
8894644 AAATGTATAAGAGTTAATGTAACAAGTCAATTAAAT-AAAAAA-A-AAATTTAATGAAAAACAAA
66 AAATGTATAAGAGTTAATGTAACAAGTTAATTAAGTAAAAAAATATAAATTTAAT-AAAAATAAA
* * * *
8894706 TATTGAAATTTATATTCTCAAATTAAAAGTGTTTAATGATGTACAAATTTTAATTTTTAAATAAA
130 TATT-AAATTTATATTCTCAACTTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAA
* *
8894771 GAATAAT-AAGATAAAAATAATTATAATTCAAAATTGATATTAAAAAGTTTTGACG
194 AAATAATAAAGATAAAAATAATTATAATTCAAAATTGATA-TAAAAAG-TATGACG
* * * * * * * * *
8894826 TAAAACTATAAAAATTGATGTAAAGATTTATAAAAGTGAAAAAAACTAAATTTTAATTCTCAACG
1 TAAAACTATAAGAATTAACGTAAAAACTTGTAAAAGTG-AAATAACTAAATTTTAAATCTTAACG
*
8894891 TAAATATATAAGAGTTAACT-TAACAAGTTAATTAAGTAAAAAAATTATAAATTTAAT-AAAA-A
65 TAAATGTATAAGAGTTAA-TGTAACAAGTTAATTAAGTAAAAAAA-TATAAATTTAATAAAAATA
* *
8894953 AAT-TTAAATTTATATTCTCAAGCTT-TAAGTATTTAACGAGATACAAATTTTAA--TTT--A-A
128 AATATTAAATTTATATTCTCAA-CTTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATA
* *
8895011 AAAAATAATAAAGTTAAAAATAATTATAATTCAAAATTGATATAAAAAAATATCGACG
192 AAAAATAATAAAGATAAAAATAATTATAATTCAAAATTGATAT-AAAAAGTAT-GACG
* * * * * * *
8895069 TAAAATTATAACAATTGATGTTAAAACTTG-AAAATGTGAAATAATTAAATTTTAAATCTTAACA
1 TAAAACTATAAGAATTAACGTAAAAACTTGTAAAA-GTGAAATAACTAAATTTTAAATCTTAACG
* * * ** * *
8895133 TAAATGTGTGAGAGTTAACGTAATTAGTTAATTAAGTAAAAAAATTTAATTTTAATAAAAATTAA
65 TAAATGTATAAGAGTTAATGTAACAAGTTAATTAAGTAAAAAAATATAAATTTAATAAAAA-TAA
* * * * ** ** *
8895198 GTATTAATATTTATATTATGAAGTTAAAAGTACATAACGGCATACAAATTTTTATTTTTAAAT-A
129 ATATTAA-ATTTATATTCTCAACTTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAA
8895262 AAAATAATAAAGATAAAAATAATTATA
193 AAAATAATAAAGATAAAAATAATTATA
8895289 GCTTAAAGTT
Statistics
Matches: 601, Mismatches: 78, Indels: 62
0.81 0.11 0.08
Matches are distributed among these distances:
241 10 0.02
242 78 0.13
243 68 0.11
244 3 0.00
245 11 0.02
246 88 0.15
247 133 0.22
248 63 0.10
249 11 0.02
250 37 0.06
251 89 0.15
252 10 0.02
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.34
Consensus pattern (247 bp):
TAAAACTATAAGAATTAACGTAAAAACTTGTAAAAGTGAAATAACTAAATTTTAAATCTTAACGT
AAATGTATAAGAGTTAATGTAACAAGTTAATTAAGTAAAAAAATATAAATTTAATAAAAATAAAT
ATTAAATTTATATTCTCAACTTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAA
ATAATAAAGATAAAAATAATTATAATTCAAAATTGATATAAAAAGTATGACG
Found at i:8894950 original size:20 final size:20
Alignment explanation
Indices: 8894922--8894964 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
8894912 AACAAGTTAA
8894922 TTAAGTAAAAAAATTATAAAT
1 TTAAGTAAAAAAATT-TAAAT
8894943 TTAA-TAAAAAAATTTAAAT
1 TTAAGTAAAAAAATTTAAAT
8894962 TTA
1 TTA
8894965 TATTCTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAGTAAAAAAATTTAAAT
Found at i:8895436 original size:983 final size:970
Alignment explanation
Indices: 8892861--8895420 Score: 2479
Period size: 983 Copynumber: 2.6 Consensus size: 970
8892851 AATAATAAGG
* * * * * *
8892861 ATAAAAGTTGACGTAAAAACTTTTAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAGTGTA
1 ATAAAAATTGACATAAAAACTTTAAAAGATGAAAAAACTAAATTTTAAATCTTAACGTAAATATA
* * * *
8892926 TGAA-AATTAA-TGTAGCAAGTCAATTAAGTAAAAAAAAATTTTAA-TGAA-AAATAAATATTTA
66 T-AAGAGTTAACT-TAACAAGTCAATTAAGT--AAAAAAATTTAAATTTAATAAATAAATATTTA
* * * *
8892987 AATTTATATTTTCAGGCTAAAAGTATTTAATGATATATAAATTTTAATTTTAAATAAAAATAATA
127 AATTTATATTCTCAGGCTTAAAGTATTTAACGATATACAAATTTTAATTTTAAA-AAAAATAATA
* * * * * * *
8893052 AAGATAAAAATAATTATATTTCAAGATTGACAT-AGAAAGTCTTGAC-AAAACTATAAGAATTAG
191 AAGATAAAAATAATTATAATTCAAAATTGATATAAAAAAAT-TCGACTAAAATTATAA-AATTA-
* * * * **
8893115 CGTAAAACTTATAAATATGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACG
253 TGTAAAACTTATAAATGTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAACG
* *
8893180 TAACAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAAATAAATATTTAAATTTATATTATT
318 TAATAAGTCAATTAAGTAAAAAAATATAAATTTAAT-AAAAATAAGTA-TTAAATTTATATTA-T
* * * *
8893245 G-GGTTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAATAATAAAAATAAAAAT
380 GAAGTTAAAAGTATTTAACGGTATAAAAATTTTAATTTTTAAATAAAAATAATAAAGATAAAAAT
* * * * * * * *
8893309 AATCATAGTTCAAATTTGACGA-TGAAA-AGTCTTAACGTAAAACTATAAAAATTTACATAA-AA
445 AATTATAGTTCAAAGTT-ACAATTAAAAGAGT-TTAACATAAAATTATAAAAGTTAACATAACAA
* * **
8893371 ACTTATAAAAGTGGAATAACAAAATTTTA-ACTATTAACATAAAT-ATATTAGGGTT-AAT-TTA
508 A--TAT--AA-T--AAT----AAATTTTATA--ATTAA-ATTAATGAAATTA-ATTTAAATATTA
* * * * *
8893432 ACCACTCAATTAAGTAAC-AAAAATCTAAATTTAATAAAAACAAATATTTAAATTTATAATCTAG
558 A--AAT-AAGTAA-TAACTTATAAT-TAAATTTAAT-AAAATAAATATTTAAATTTATAATCTAG
* * * * **
8893496 GGCTGAAAATGTTTAACAATATAAAATTTTTTATTTTTAAATAAAGAATAATGAGGATAAAAATA
617 GACTGAAAATGTTTAACAATATAAAAATTTTAATTTTTAAATAAAAAATAATGAAAATAAAAATA
* **
8893561 ATTATAACTCAAAATTAGTATAGAAAGGCCTTGATGTAAAACTATAAGAATTAACATAAAAACTT
682 ATTATAACTCAAAATTAGTATAGAAAAGCCTTGACATAAAACTATAAGAATTAACATAAAAACTT
* * *
8893626 ATAAAATTAAAACAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAATCA
747 ATAAAAGTAAAACAACTAAATTTTAAATCTTAACGTAAATGTATAAGAGTTAACGTAACAAATCA
* * * * * *
8893691 ATTAAGTAAAAAAATTTTAATAAAAAGTAAATATTTAAATTTATATTCATGAGTTAAAAGTGTTT
812 ATTAAATAAAAAAAATTTAATAAAAAGCAAATATTGAAATTTATATTCATAAATTAAAAGTGTTT
* *
8893756 AACGATATACAAAATTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAA
877 AACGATATACAAAATTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAATTCAAAA
*
8893821 TTGACTTTAAAAAACTTTGATATAAAACT
942 TTGACTTTAAAAAACTTTGACATAAAACT
* * * * * * *
8893850 GTTAGAATTGACATAAAAACTTTCAAAGATGAAATAACTAAATTTTAAATATTAACGTAAATATG
1 ATAAAAATTGACATAAAAACTTTAAAAGATGAAAAAACTAAATTTTAAATCTTAACGTAAATATA
* * * *
8893915 TGAGAGTTAACGTAATAAGTCAATTAAGTAAAAACAATCTAAATTTAATAAAAATTAAATATTTA
66 TAAGAGTTAACTTAACAAGTCAATTAAGTAAAAA-AATTTAAATTTAAT--AAA-TAAATATTTA
* *
8893980 AATTTATATTCTC-GGGTTAAAAGTGTTTAACGATATATC-AATTTTAATTTTTAAATAAAAAAT
127 AATTTATATTCTCAGGCTT-AAAGTATTTAACGATATA-CAAATTTTAA-TTTT-AA-AAAAAAT
* * ** *
8894043 AATAAAAATAAAAATAATTATAGTTCAAAATTGATATAGAAAAGCCTTC-ATATAAAATTATAAA
187 AATAAAGATAAAAATAATTATAATTCAAAATTGATATA-AAAA-AATTCGA-CTAAAATTATAAA
* *
8894107 GATTAATGTAAAACCTTATAAAGGT-AGAATAATTAAATTTTAAATCTTAACATAAGTGTGTGAG
249 -ATT-ATGTAAAA-CTTATAAATGTGA-AATAATTAAATTTTAAATCTTAACATAAATGTGTGAG
* *
8894171 AATTAATGTAATAAGTCAATTAAGTAAAAATAATATAAATTTAATAAAAA-AATGT-TTAAATTT
310 AGTTAACGTAATAAGTCAATTAAGTAAAAA-AATATAAATTTAATAAAAATAA-GTATTAAATTT
* * * * * * * * *
8894234 ATATTCTTTAA-CTGAAAGTATTTAACAGTAGAGAAATTTTGATTTTTAAATAAAAAATAATAAG
373 ATATT-ATGAAGTTAAAAGTATTTAACGGTATAAAAATTTTAATTTTTAAAT-AAAAATAATAAA
* * * *
8894298 GATAAAAATAATTGA-AGTTCAGAATTGATATAAAATTATAAGA-ATTAACATAAAAACTTGTAA
436 GATAAAAATAATT-ATAGTTCA-AA--G-T-TACAATTAAAAGAGTTTAACAT-AAAA-TTATAA
*** * * * * * *
8894361 AAGCGGA-ATATCTAAAT-T--T--TAAATCTTA-AAGTAAATGT-GTGAGAGTTAATGTAACA-
493 AAGTTAACATAAC-AAATATAATAATAAATTTTATAATTAAAT-TAATGA-AATTAATTTAA-AT
* * * * * *
8894417 AGTT-AATTAAGTAAAAAATTAT-A-TAAATTTAATAAAAGTAAATATTTTAATTTATATTCTCG
554 A-TTAAAATAAGTAATAACTTATAATTAAATTTAATAAAA-TAAATATTTAAATTTATAATCTAG
8894479 GACTGAAAATGTTTAACAATATAAAAATTTTAATTTTTAAATAAAAAATAAT-ATAAATAAAAAT
617 GACTGAAAATGTTTAACAATATAAAAATTTTAATTTTTAAATAAAAAATAATGA-AAATAAAAAT
* *
8894543 AATTATAATTCAAAATT-GATATAGAAAAGCC-TGAACAT-AAACTATAAGAATTAACGTAAAAA
681 AATTATAACTCAAAATTAG-TATAGAAAAGCCTTG-ACATAAAACTATAAGAATTAACATAAAAA
* * * * * *
8894605 CTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTATAAGAGTTAATGTAACAAG
744 CTTATAAAAGTAAAACAACTAAATTTTAAATCTTAACGTAAATGTATAAGAGTTAACGTAACAAA
8894670 TCAATTAAATAAAAAAAAAATTTAATGAAAAA-CAAATATTGAAATTTATATTC-TCAAATTAAA
809 TCAATTAAAT--AAAAAAAATTTAAT-AAAAAGCAAATATTGAAATTTATATTCAT-AAATTAAA
* * *
8894733 AGTGTTTAATGATGTACAAATTTTAATTTTTAAATAAAGAATAAT-AAGATAAAAATAATTATAA
870 AGTGTTTAACGATATACAAAATTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAA
** *
8894797 TTCAAAATTGA-TATTAAAAAGTTTTGACGTAAAACT
935 TTCAAAATTGACT-TTAAAAAACTTTGACATAAAACT
** * * * *
8894833 ATAAAAATTGATGTAAAGATTTATAAAAG-TGAAAAAAACTAAATTTTAATTCTCAACGTAAATA
1 ATAAAAATTGACATAAAAACTT-TAAAAGATG-AAAAAACTAAATTTTAAATCTTAACGTAAATA
*
8894897 TATAAGAGTTAACTTAACAAGTTAATTAAGTAAAAAAATTATAAATTTAATAAA-AAA-ATTTAA
64 TATAAGAGTTAACTTAACAAGTCAATTAAGTAAAAAAATT-TAAATTTAATAAATAAATATTTAA
* * *
8894960 ATTTATATTCTCAAGCTTTAAGTATTTAACGAGATACAAATTTTAA-TTT-AAAAAAATAATAAA
128 ATTTATATTCTCAGGCTTAAAGTATTTAACGATATACAAATTTTAATTTTAAAAAAAATAATAAA
*
8895023 GTTAAAAATAATTATAATTCAAAATTGATATAAAAAAATATCGACGTAAAATTATAACAATTGAT
193 GATAAAAATAATTATAATTCAAAATTGATATAAAAAAAT-TCGAC-TAAAATTATAA-AATT-AT
8895088 GTTAAAACTTGA-AAATGTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAAC
254 G-TAAAACTT-ATAAATGTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAAC
* * * *
8895152 GTAATTAGTTAATTAAGTAAAAAAATTTAATTTTAATAAAAATTAAGTATTAATATTTATATTAT
317 GTAATAAGTCAATTAAGTAAAAAAATATAAATTTAATAAAAA-TAAGTATTAA-ATTTATATTAT
** * * *
8895217 GAAGTTAAAAGTACATAACGGCATACAAATTTTTATTTTTAAATAAAAATAATAAAGATAAAAAT
380 GAAGTTAAAAGTATTTAACGGTATAAAAATTTTAATTTTTAAATAAAAATAATAAAGATAAAAAT
* * * *
8895282 AATTATAGCTT-AAAGTTACTATTAAAAGAGTTTGACCTAAAGTTATAAAAGTTAACATAACAAA
445 AATTATAG-TTCAAAGTTACAATTAAAAGAGTTTAACATAAAATTATAAAAGTTAACATAACAAA
8895346 TGATAATAATAAATTTTATTGAATTAAATTAATGAAATATAATTTAAATATTAAAATAA-TAATA
509 T-ATAATAATAAATTTTA-T-AATTAAATTAATGAAAT-TAATTTAAATATTAAAATAAGTAATA
*
8895410 TTCTTATAATT
570 -ACTTATAATT
8895421 TATAATAAAA
Statistics
Matches: 1279, Mismatches: 199, Indels: 195
0.76 0.12 0.12
Matches are distributed among these distances:
969 13 0.01
970 17 0.01
971 7 0.01
972 2 0.00
973 24 0.02
974 135 0.11
975 53 0.04
976 42 0.03
977 13 0.01
978 28 0.02
979 42 0.03
980 7 0.01
982 100 0.08
983 183 0.14
984 154 0.12
985 8 0.01
986 9 0.01
987 13 0.01
988 11 0.01
989 89 0.07
990 2 0.00
992 6 0.00
993 47 0.04
994 4 0.00
995 41 0.03
996 2 0.00
997 52 0.04
998 49 0.04
999 79 0.06
1000 14 0.01
1002 10 0.01
1003 12 0.01
1004 8 0.01
1005 3 0.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (970 bp):
ATAAAAATTGACATAAAAACTTTAAAAGATGAAAAAACTAAATTTTAAATCTTAACGTAAATATA
TAAGAGTTAACTTAACAAGTCAATTAAGTAAAAAAATTTAAATTTAATAAATAAATATTTAAATT
TATATTCTCAGGCTTAAAGTATTTAACGATATACAAATTTTAATTTTAAAAAAAATAATAAAGAT
AAAAATAATTATAATTCAAAATTGATATAAAAAAATTCGACTAAAATTATAAAATTATGTAAAAC
TTATAAATGTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAACGTAATAAGT
CAATTAAGTAAAAAAATATAAATTTAATAAAAATAAGTATTAAATTTATATTATGAAGTTAAAAG
TATTTAACGGTATAAAAATTTTAATTTTTAAATAAAAATAATAAAGATAAAAATAATTATAGTTC
AAAGTTACAATTAAAAGAGTTTAACATAAAATTATAAAAGTTAACATAACAAATATAATAATAAA
TTTTATAATTAAATTAATGAAATTAATTTAAATATTAAAATAAGTAATAACTTATAATTAAATTT
AATAAAATAAATATTTAAATTTATAATCTAGGACTGAAAATGTTTAACAATATAAAAATTTTAAT
TTTTAAATAAAAAATAATGAAAATAAAAATAATTATAACTCAAAATTAGTATAGAAAAGCCTTGA
CATAAAACTATAAGAATTAACATAAAAACTTATAAAAGTAAAACAACTAAATTTTAAATCTTAAC
GTAAATGTATAAGAGTTAACGTAACAAATCAATTAAATAAAAAAAATTTAATAAAAAGCAAATAT
TGAAATTTATATTCATAAATTAAAAGTGTTTAACGATATACAAAATTTAATTTTTAAATAAAGAA
TAATAAAGATAAAAATAATTATAATTCAAAATTGACTTTAAAAAACTTTGACATAAAACT
Found at i:8896841 original size:16 final size:15
Alignment explanation
Indices: 8896820--8896878 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
8896810 TTAAAGTAAT
8896820 AAATAAAAATATTATA
1 AAATAAAAATA-TATA
*
8896836 AAATAATTAATA-ATAA
1 AAATAA-AAATATAT-A
*
8896852 AAATAAAAATAGATA
1 AAATAAAAATATATA
8896867 AAATAAATAATA
1 AAATAAA-AATA
8896879 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 14 0.38
16 19 0.51
17 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATAAAAATATATA
Found at i:8896871 original size:31 final size:32
Alignment explanation
Indices: 8896820--8896881 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
8896810 TTAAAGTAAT
* *
8896820 AAATAAAAATATTATAAAATAATTAATAATAA
1 AAATAAAAATATGATAAAATAAATAATAATAA
8896852 AAATAAAAATA-GATAAAATAAATAATAATA
1 AAATAAAAATATGATAAAATAAATAATAATA
8896882 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (32 bp):
AAATAAAAATATGATAAAATAAATAATAATAA
Done.