Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 275 of 295
Found at i:93885561 original size:34 final size:34
Alignment explanation
Indices: 93885523--93885589 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
93885513 ACATATTTGG
*
93885523 CATGAGTTTTAAATGGCTAATTAAGATGCCTATT
1 CATGAGTTTTAAATGGCTAATTAAGATACCTATT
93885557 CATGAGTTTTAAATGGCTAATTAAGATACCTAT
1 CATGAGTTTTAAATGGCTAATTAAGATACCTAT
93885590 GAGTACCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (34 bp):
CATGAGTTTTAAATGGCTAATTAAGATACCTATT
Found at i:93889608 original size:52 final size:52
Alignment explanation
Indices: 93889539--93889641 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
93889529 AGTACCATTC
93889539 AACAACTAGCACCAATAGCCATATATGTCATTTATAATAAATGTACCAAATT
1 AACAACTAGCACCAATAGCCATATATGTCATTTATAATAAATGTACCAAATT
*
93889591 AACAACTAGCACTAATAGCCATATATGTCATTTATAATAAATGTACCAAAT
1 AACAACTAGCACCAATAGCCATATATGTCATTTATAATAAATGTACCAAAT
93889642 CACCACATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (52 bp):
AACAACTAGCACCAATAGCCATATATGTCATTTATAATAAATGTACCAAATT
Found at i:93890379 original size:29 final size:29
Alignment explanation
Indices: 93890321--93890570 Score: 214
Period size: 29 Copynumber: 8.4 Consensus size: 29
93890311 AGCCAAAGCT
93890321 ATCCCTTTTCATAATTTTGATGGTCATCACC
1 ATCCCTTTTCAT--TTTTGATGGTCATCACC
*
93890352 ATCCCTTTTCATTTTTGATGGTCGTCACC
1 ATCCCTTTTCATTTTTGATGGTCATCACC
* * *
93890381 ATCCCTTTTCATTGTTGATGGTCGTCTCC
1 ATCCCTTTTCATTTTTGATGGTCATCACC
* * ** *
93890410 ATCCCTTTTCATAATTTGATAGTC-GGAGCT
1 ATCCCTTTTCAT-TTTTGATGGTCATCA-CC
** * ** * ** *
93890440 ATCCCTTTTCATGATTCAACGACAAAAGCG
1 ATCCCTTTTCATTTTTGATGGTCATCA-CC
*
93890470 ATCCCTTTTCATAATTTTGATGGTCACCACC
1 ATCCCTTTTCAT--TTTTGATGGTCATCACC
* * *
93890501 ATCCATTTTCATTGTTGATGGTCGTCACC
1 ATCCCTTTTCATTTTTGATGGTCATCACC
* *
93890530 ATGCCTTTTCATTGTTGATGGTCATCACC
1 ATCCCTTTTCATTTTTGATGGTCATCACC
93890559 ATCCCTTTTCAT
1 ATCCCTTTTCAT
93890571 AATTTGCTCG
Statistics
Matches: 178, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
29 111 0.62
30 36 0.20
31 24 0.13
32 7 0.04
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATTTTTGATGGTCATCACC
Found at i:93890444 original size:30 final size:30
Alignment explanation
Indices: 93890229--93890641 Score: 158
Period size: 30 Copynumber: 13.8 Consensus size: 30
93890219 ATTGTTGACA
* * *
93890229 CCATCCCTTTTTATAATTCGATAGTGGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
* * * * *
93890259 CTATACCTTTTCATAATTCGACAGCCGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
* * * * * *
93890289 CCATCCCTTTCCATAGTTTAACAGCCAAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
* *
93890319 CTATCCCTTTTCATAATTTTGATGGTC-ATCA-
1 CCATCCCTTTTCATAA-TTTGATAGTCGA--AG
* * *
93890350 CCATCCCTTTTCAT-TTTTGATGGTCGTCA-
1 CCATCCCTTTTCATAATTTGATAGTCG-AAG
* ***
93890379 CCATCCCTTTTCAT--TGTTGATGGTCGTCT
1 CCATCCCTTTTCATAAT-TTGATAGTCGAAG
*
93890408 CCATCCCTTTTCATAATTTGATAGTCGGAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
* * * * *
93890438 CTATCCCTTTTCATGA-TTCA-ACGACAAAAG
1 CCATCCCTTTTCATAATTTGATA-GTC-GAAG
* *
93890468 CGATCCCTTTTCATAATTTTGATGGTC-ACCA-
1 CCATCCCTTTTCATAA-TTTGATAGTCGA--AG
* * *
93890499 CCATCCATTTTCAT--TGTTGATGGTCGTCA-
1 CCATCCCTTTTCATAAT-TTGATAGTCG-AAG
* *
93890528 CCATGCCTTTTCAT--TGTTGATGGTC-ATCA-
1 CCATCCCTTTTCATAAT-TTGATAGTCGA--AG
* * * *
93890557 CCATCCCTTTTCATAATTTGCTCGCCGGAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
* ** * *
93890587 CTATCCCTTTTCATGTTTTGACAGCCGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAG
*
93890617 CCATCCCTTTTCATAGTTTGATAGT
1 CCATCCCTTTTCATAATTTGATAGT
93890642 TGTCGATACG
Statistics
Matches: 295, Mismatches: 63, Indels: 50
0.72 0.15 0.12
Matches are distributed among these distances:
28 3 0.01
29 102 0.35
30 150 0.51
31 33 0.11
32 7 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTTGATAGTCGAAG
Found at i:93890623 original size:149 final size:148
Alignment explanation
Indices: 93890264--93890631 Score: 506
Period size: 149 Copynumber: 2.5 Consensus size: 148
93890254 GGAAGCTATA
* * * * *
93890264 CCTTTTCATAATTCGAC-AGCCGAAGCCATCCCTTTCCATAGTTTAACAGCCAAAGCTATCCCTT
1 CCTTTTCATAATTTG-CTAGCCGGAGCTATCCCTTTTCAT-GTTTAACAGCCAAAGCCATCCCTT
* * *
93890328 TTCATAATTTTGATGGTCATCACCATCCCTTTTCATTTTTGATGGTCGTCACCATCCCTTTTCAT
64 TTCATAATTTTGATGGTCACCACCATCCATTTTCATTGTTGATGGTCGTCACCATCCCTTTTCAT
* *
93890393 TGTTGATGGTCGTCTCCATC
129 TGTTGATGGTCATCACCATC
* * * * *
93890413 CCTTTTCATAATTTGATAGTCGGAGCTATCCCTTTTCATGATTCAAC-GACAAAAGCGATCCCTT
1 CCTTTTCATAATTTGCTAGCCGGAGCTATCCCTTTTCATG-TTTAACAG-CCAAAGCCATCCCTT
*
93890477 TTCATAATTTTGATGGTCACCACCATCCATTTTCATTGTTGATGGTCGTCACCATGCCTTTTCAT
64 TTCATAATTTTGATGGTCACCACCATCCATTTTCATTGTTGATGGTCGTCACCATCCCTTTTCAT
93890542 TGTTGATGGTCATCACCATC
129 TGTTGATGGTCATCACCATC
* * *
93890562 CCTTTTCATAATTTGCTCGCCGGAGCTATCCCTTTTCATGTTTTGACAGCCGAAGCCATCCCTTT
1 CCTTTTCATAATTTGCTAGCCGGAGCTATCCCTTTTCATG-TTTAACAGCCAAAGCCATCCCTTT
93890627 TCATA
65 TCATA
93890632 GTTTGATAGT
Statistics
Matches: 191, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
148 2 0.01
149 188 0.98
150 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (148 bp):
CCTTTTCATAATTTGCTAGCCGGAGCTATCCCTTTTCATGTTTAACAGCCAAAGCCATCCCTTTT
CATAATTTTGATGGTCACCACCATCCATTTTCATTGTTGATGGTCGTCACCATCCCTTTTCATTG
TTGATGGTCATCACCATC
Found at i:93893439 original size:41 final size:40
Alignment explanation
Indices: 93893357--93893504 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 40
93893347 ATTGAAGTGT
* * *
93893357 AAACAGGGGCACTTATGTGCAATTCAGGGTACCAAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCAGGGTACCGAAGTAC
*
93893397 AAACAAGGGCACGTATGGGCAATTCAAGGGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTC-AGGGTACCGAAGTAC
*
93893438 AAACAAGGGCACGTATGTGCAATTCAGAGGTATCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCAG-GGTACCGAAGTAC
* *
93893479 AAA-TAGGAGCATGTATGTGCAATTCA
1 AAACAAGG-GCACGTATGTGCAATTCA
93893505 AGGAATAATT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 27 0.28
41 70 0.72
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
AAACAAGGGCACGTATGTGCAATTCAGGGTACCGAAGTAC
Found at i:93900561 original size:11 final size:11
Alignment explanation
Indices: 93900545--93900569 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
93900535 GATCACAAGG
93900545 TCACCATAAAA
1 TCACCATAAAA
93900556 TCACCATAAAA
1 TCACCATAAAA
93900567 TCA
1 TCA
93900570 TCACAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
TCACCATAAAA
Found at i:93910756 original size:44 final size:45
Alignment explanation
Indices: 93910692--93910785 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
93910682 CAATGTTATA
*
93910692 ATTGAATTTTAAATGCTTTATTGTTATTATTATATAAATTGTATG
1 ATTGAATTTTAAATGCTTTATTGTTATTATGATATAAATTGTATG
93910737 -TTGAATTTTAAATGCTTTATTGTTATTATGATATAAATTGTATG
1 ATTGAATTTTAAATGCTTTATTGTTATTATGATATAAATTGTATG
93910781 ATTGA
1 ATTGA
93910786 TTATACAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (45 bp):
ATTGAATTTTAAATGCTTTATTGTTATTATGATATAAATTGTATG
Found at i:93913120 original size:20 final size:20
Alignment explanation
Indices: 93913072--93913110 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
93913062 GCTGAGGACA
*
93913072 CGAGCATGTCCCAAGCCACT
1 CGAGCGTGTCCCAAGCCACT
93913092 CGAGCGTGTCCCAAGCCAC
1 CGAGCGTGTCCCAAGCCAC
93913111 ATGGGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (20 bp):
CGAGCGTGTCCCAAGCCACT
Found at i:93916217 original size:11 final size:11
Alignment explanation
Indices: 93916201--93916258 Score: 53
Period size: 12 Copynumber: 5.0 Consensus size: 11
93916191 ATGGAATTTT
*
93916201 AAATAAAATAG
1 AAATAAAATAA
93916212 AAATAAAAATAA
1 AAAT-AAAATAA
93916224 AAATAAAAATAA
1 AAAT-AAAATAA
*
93916236 AAATGGAAATAA
1 AAAT-AAAATAA
* *
93916248 TAGTAAAATAA
1 AAATAAAATAA
93916259 GCACGCCCGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
11 10 0.25
12 30 0.75
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:93916221 original size:6 final size:6
Alignment explanation
Indices: 93916201--93916239 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
93916191 ATGGAATTTT
*
93916201 AAAT-A AAATAG AAATAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
93916240 GGAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:93916785 original size:18 final size:18
Alignment explanation
Indices: 93916762--93916800 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
93916752 TTTAGATGTT
93916762 AAAAACTAAAATTTAAAG
1 AAAAACTAAAATTTAAAG
93916780 AAAAACTAAAATTTAAAG
1 AAAAACTAAAATTTAAAG
93916798 AAA
1 AAA
93916801 TCAACATCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAACTAAAATTTAAAG
Found at i:93919472 original size:14 final size:14
Alignment explanation
Indices: 93919453--93919484 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
93919443 TGGTAATGTA
93919453 GAATTATTTCCAAG
1 GAATTATTTCCAAG
93919467 GAATTATTTCCAAG
1 GAATTATTTCCAAG
93919481 GAAT
1 GAAT
93919485 GCGTATTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (14 bp):
GAATTATTTCCAAG
Found at i:93923517 original size:80 final size:78
Alignment explanation
Indices: 93923433--93923604 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
93923423 GGACTAAGAT
*
93923433 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
93923496 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
93923513 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
93923578 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
93923592 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93923605 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:93923595 original size:39 final size:39
Alignment explanation
Indices: 93923380--93923602 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
93923370 TTGAATGCTG
* * * * * *
93923380 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
93923420 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
93923460 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
93923500 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
93923540 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
93923579 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
93923603 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:93923622 original size:79 final size:80
Alignment explanation
Indices: 93923460--93923637 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
93923450 AGATACAAGT
* * * *
93923460 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
93923525 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
93923540 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
93923604 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
93923619 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93923638 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:93931464 original size:39 final size:38
Alignment explanation
Indices: 93931305--93931561 Score: 191
Period size: 40 Copynumber: 6.5 Consensus size: 38
93931295 TTGAATGCTG
* * * * *
93931305 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-ACTAAA
** *
93931345 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAG-TACTAA-A
* *
93931385 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAG-TACTAAA
*
93931425 TCCGGGTTAAGTCCCGAA-GCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGT-ACTAAA
*
93931464 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TACTAAA
* * * * *
93931503 ACCGGGCTATGTCCCGAAGGCATT-TGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTG--CGAGTA-CTAAA
*
93931543 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93931562 TACGTGATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
38 6 0.03
39 78 0.44
40 82 0.46
41 11 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
Found at i:93931546 original size:79 final size:79
Alignment explanation
Indices: 93931385--93931561 Score: 189
Period size: 78 Copynumber: 2.3 Consensus size: 79
93931375 AGATACAAGT
* * * *
93931385 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGCATTCG
** *
93931450 TGCGAGTCATTAAA
66 AACGAGTCACTAAA
* * * *
93931464 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAA-GCATTC
* *
93931528 GAACGAG-GAGCTATA
65 GAACGAGTCA-CTAAA
*
93931543 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93931562 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 47 0.57
79 35 0.43
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGCATTCG
AACGAGTCACTAAA
Found at i:93937404 original size:30 final size:31
Alignment explanation
Indices: 93937368--93937426 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
93937358 TGGCCTGGGA
* * *
93937368 CATGGCCGTGTGGCTAGCCCGTG-GGAATCC
1 CATGGCCATGTGGCCAGCCCATGTGGAATCC
93937398 CATGGCCATGTGGCCAGCCCATGTGGAAT
1 CATGGCCATGTGGCCAGCCCATGTGGAAT
93937427 TGTGACTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (31 bp):
CATGGCCATGTGGCCAGCCCATGTGGAATCC
Found at i:93938460 original size:33 final size:33
Alignment explanation
Indices: 93938411--93938526 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
93938401 ATGGATTTTT
* * *
93938411 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * * *
93938444 CCTTTTCAAGTGGTACACACGAAGTGTACATGC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
93938477 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
93938510 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
93938527 ATATAGTGTA
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
32 7 0.10
33 62 0.90
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:93938577 original size:33 final size:33
Alignment explanation
Indices: 93938510--93938684 Score: 203
Period size: 33 Copynumber: 5.3 Consensus size: 33
93938500 GTGCACATAA
* * * *
93938510 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
93938542 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
93938575 CCTTTTCATA-TGGTATACACAAAGTATACATTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
**
93938608 CCTTTTCATTTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * * **
93938641 CCTTTTCATA-TGGTATACAAAAAGTGTACATAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
93938674 CCTTTTCAAGT
1 CCTTTTCAAGT
93938685 TGTACCATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.10
33 112 0.90
34 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:93938622 original size:66 final size:66
Alignment explanation
Indices: 93938539--93938684 Score: 238
Period size: 66 Copynumber: 2.2 Consensus size: 66
93938529 ATAGTGTACC
*
93938539 TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATAC
1 TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACAAAAAGTATAC
93938604 A
66 A
** *
93938605 TTTCCTTTTCATTTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACAAAAAGTGTAC
1 TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACAAAAAGTATAC
93938670 A
66 A
**
93938671 TAACCTTTTCAAGT
1 TTTCCTTTTCAAGT
93938685 TGTACCATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (66 bp):
TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACAAAAAGTATAC
A
Found at i:93939396 original size:20 final size:22
Alignment explanation
Indices: 93939354--93939401 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
93939344 TGTAAAAGTG
*
93939354 ATTTATCTATCAACAATCTTTC
1 ATTTATCTATCAACAAACTTTC
93939376 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAACAAACTTTC
93939396 AATTTA
1 -ATTTA
93939402 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTATCTATCAACAAACTTTC
Found at i:93939871 original size:13 final size:13
Alignment explanation
Indices: 93939853--93939878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93939843 CACATAATTG
93939853 ATAAAAATTTTCA
1 ATAAAAATTTTCA
93939866 ATAAAAATTTTCA
1 ATAAAAATTTTCA
93939879 TGCAATATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAAAAATTTTCA
Found at i:93945083 original size:26 final size:26
Alignment explanation
Indices: 93945045--93945115 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
93945035 AGGAAGTGCG
* *
93945045 AAAGGGC-TATGCCTTAGTTTACCGAA
1 AAAGGGCTTTTGCCTCAGTTTACC-AA
* *
93945071 AAA-GGCTTTTGCCCCAGTTTATCAA
1 AAAGGGCTTTTGCCTCAGTTTACCAA
93945096 AAAGGGCTTTTGCCTCAGTT
1 AAAGGGCTTTTGCCTCAGTT
93945116 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 8 0.21
26 30 0.79
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAGGGCTTTTGCCTCAGTTTACCAA
Found at i:93945097 original size:25 final size:25
Alignment explanation
Indices: 93945060--93945128 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
93945050 GCTATGCCTT
*
93945060 AGTTTACCGAAAAAGGCTTTTGCCCC
1 AGTTTATC-AAAAAGGCTTTTGCCCC
*
93945086 AGTTTATCAAAAAGGGCTTTTGCCTC
1 AGTTTATCAAAAA-GGCTTTTGCCCC
*
93945112 AG-TTATTAAAAGAGGCT
1 AGTTTATCAAAA-AGGCT
93945129 AGGCCTCCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (25 bp):
AGTTTATCAAAAAGGCTTTTGCCCC
Found at i:93952943 original size:25 final size:25
Alignment explanation
Indices: 93952909--93952958 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
93952899 CCTCATAAGA
* **
93952909 TGAAAATGACTATTTTGGCCCTAGG
1 TGAAAATGACCATTTTACCCCTAGG
93952934 TGAAAATGACCATTTTACCCCTAGG
1 TGAAAATGACCATTTTACCCCTAGG
93952959 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
TGAAAATGACCATTTTACCCCTAGG
Found at i:93953387 original size:31 final size:31
Alignment explanation
Indices: 93953349--93953432 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
93953339 TTGTTACAGT
93953349 AAAGGCTTCGGCCCAGTTATATGAATAATGA
1 AAAGGCTTCGGCCCAGTTATATGAATAATGA
* *
93953380 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTTATATGAATAATGA
*
93953411 ATAGGCTTCGGCCCAG-TATATG
1 AAAGGCTTCGGCCCAGTTATATG
93953433 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTTATATGAATAATGA
Found at i:93957114 original size:33 final size:32
Alignment explanation
Indices: 93957076--93957217 Score: 153
Period size: 32 Copynumber: 4.4 Consensus size: 32
93957066 GTGCACATTC
*
93957076 CCTTTTCAAGTGGTACACATGA-AGTGTACATAG
1 CCTTTTCAAGT-GTACACAT-ATAGTGTACATAT
* * * *
93957109 CCTTTTCAATTTGTACAC-TCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACAT-ATAGTGTACATAT
* *
93957142 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATATAGTGTACATAT
* *
93957174 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATATAGTGTACATAT
93957206 CCTTTTCAAGTG
1 CCTTTTCAAGTG
93957218 GTATACACAA
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
32 61 0.64
33 34 0.35
34 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACATATAGTGTACATAT
Found at i:93957158 original size:65 final size:65
Alignment explanation
Indices: 93957044--93957220 Score: 173
Period size: 65 Copynumber: 2.7 Consensus size: 65
93957034 ATGGACTTTT
* * * **
93957044 CCTTTTCTAGTTGTACATCGAGGTGCACATTCCCTTTTCAAGTGGTACACATGA-AGTGTACATA
1 CCTTTTCAAGTTGTACATCAAAGTGCACATAACCTTTTCAAGTGGTACACAT-ATAGTGTACATA
93957108 G
65 G
* * *
93957109 CCTTTTCAATTTGTACACTCAAAGTGCACATAACCTTTTCAAGT-GTACACATATAGTGTACCTT
1 CCTTTTCAAGTTGTACA-TCAAAGTGCACATAACCTTTTCAAGTGGTACACATATAGTGTACATA
*
93957173 T
65 G
* * **
93957174 CCTTTTCAAG-TGTACA-CATATAGTGTACCTTTCCTTTTCAAGTGGTA
1 CCTTTTCAAGTTGTACATCA-A-AGTGCACATAACCTTTTCAAGTGGTA
93957221 TACACAAAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 25 0.27
65 43 0.46
66 22 0.24
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (65 bp):
CCTTTTCAAGTTGTACATCAAAGTGCACATAACCTTTTCAAGTGGTACACATATAGTGTACATAG
Found at i:93957178 original size:32 final size:31
Alignment explanation
Indices: 93957076--93957320 Score: 158
Period size: 33 Copynumber: 7.5 Consensus size: 31
93957066 GTGCACATTC
* **
93957076 CCTTTTCAAGTGGTACACATGAAGTGTACATAG
1 CCTTTTCAAGT-GTACACAT-AAGTGTACCTTT
* * * **
93957109 CCTTTTCAATTTGTACAC-TCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACAT--AAGTGTACCTTT
93957142 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATA-AGTGTACCTTT
93957174 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATA-AGTGTACCTTT
*
93957206 CCTTTTCAAGTGGTATACACA-AAGTATA-CTCTT
1 CCTTTTCAAGT-G--TACACATAAGTGTACCT-TT
* *
93957239 CCTTTTCATATGGTATACACA-AAGTATACCTTT
1 CCTTTTCA-A--GTGTACACATAAGTGTACCTTT
* * **
93957272 CCTTTTCATATGGTATACACA-AAGTGTACATAA
1 CCTTTTCA-A--GTGTACACATAAGTGTACCTTT
93957305 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
93957321 CATTTGGGTA
Statistics
Matches: 183, Mismatches: 16, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.01
31 5 0.03
32 61 0.33
33 103 0.56
34 5 0.03
35 6 0.03
36 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (31 bp):
CCTTTTCAAGTGTACACATAAGTGTACCTTT
Found at i:93957246 original size:33 final size:33
Alignment explanation
Indices: 93957142--93957315 Score: 178
Period size: 33 Copynumber: 5.3 Consensus size: 33
93957132 GTGCACATAA
* * * *
93957142 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * * *
93957174 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
93957206 CCTTTTCAAGTGGTATACACAAAGTATA-CTCTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCT-TT
93957239 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
* * **
93957272 CCTTTTCATA-TGGTATACACAAAGTGTACATAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
93957305 CCTTTTCAAGT
1 CCTTTTCAAGT
93957316 TGTACCATTT
Statistics
Matches: 129, Mismatches: 8, Indels: 9
0.88 0.05 0.06
Matches are distributed among these distances:
32 46 0.36
33 80 0.62
34 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:93957957 original size:21 final size:21
Alignment explanation
Indices: 93957928--93957975 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
93957918 TGTAAAAGTG
*
93957928 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAA-AACCTTTC
93957950 ATTT-TCTATCAAAACCTTTC
1 ATTTATCTATCAAAACCTTTC
93957970 AATTTA
1 -ATTTA
93957976 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTATCTATCAAAACCTTTC
Found at i:93961518 original size:26 final size:26
Alignment explanation
Indices: 93961488--93961539 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
93961478 AATAGTAGTT
93961488 AAATGTTA-AATATATATATTGTTATG
1 AAATGTTAGAATATATAT-TTGTTATG
*
93961514 AAATGTTAGAATTTATATTTGTTATG
1 AAATGTTAGAATATATATTTGTTATG
93961540 GAAGAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (26 bp):
AAATGTTAGAATATATATTTGTTATG
Found at i:93965991 original size:19 final size:19
Alignment explanation
Indices: 93965969--93966013 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
93965959 CACAATATAT
*
93965969 TTCACATT-TCATTTTTCAA
1 TTCACATTCTCA-TTTCCAA
*
93965988 TTCACTTTCTCATTTCCAA
1 TTCACATTCTCATTTCCAA
93966007 TTCACAT
1 TTCACAT
93966014 AATTTGCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (19 bp):
TTCACATTCTCATTTCCAA
Found at i:93972089 original size:16 final size:16
Alignment explanation
Indices: 93972070--93972100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93972060 ACTAATTTTG
*
93972070 TACATGACATTCTGCA
1 TACATGACATACTGCA
93972086 TACATGACATACTGC
1 TACATGACATACTGC
93972101 TTGGGATTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (16 bp):
TACATGACATACTGCA
Found at i:93972349 original size:32 final size:33
Alignment explanation
Indices: 93972298--93972393 Score: 146
Period size: 32 Copynumber: 3.0 Consensus size: 33
93972288 TCATATGGGT
*
93972298 TTGATTCTGA-TATGGGCTAGGCCCAATTGATA
1 TTGATTATGAGTATGGGCTAGGCCCAATTGATA
93972330 TTGGA-TATG-GTATGGGCTAGGCCCAATTGATA
1 TT-GATTATGAGTATGGGCTAGGCCCAATTGATA
93972362 TTGATTATGAG-ATGGGCTAGGCCCAATTGATA
1 TTGATTATGAGTATGGGCTAGGCCCAATTGATA
93972394 CTATGATGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
31 2 0.03
32 54 0.92
33 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (33 bp):
TTGATTATGAGTATGGGCTAGGCCCAATTGATA
Found at i:93972401 original size:26 final size:27
Alignment explanation
Indices: 93972309--93972403 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 27
93972299 TGATTCTGAT
93972309 ATGGGCTAGGCCCAATTGATATTGGATATGG
1 ATGGGCTAGGCCCAATTGATA----ATATGG
93972340 TATGGGCTAGGCCCAATTGATATTGATTATGAG
1 -ATGGGCTAGGCCCAATTGATA---A-TATG-G
*
93972373 ATGGGCTAGGCCCAATTGATACTAT-G
1 ATGGGCTAGGCCCAATTGATAATATGG
93972399 ATGGG
1 ATGGG
93972404 TTGAGACCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.10
28 3 0.05
31 3 0.05
32 46 0.78
33 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (27 bp):
ATGGGCTAGGCCCAATTGATAATATGG
Found at i:93977032 original size:26 final size:27
Alignment explanation
Indices: 93976980--93977031 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
93976970 GACCAAAATA
93976980 CCCCTAAAGGGTAAAATGACTATTTTG
1 CCCCTAAAGGGTAAAATGACTATTTTG
*
93977007 CCCCTTAAGGGT-AAATGACTGATTT
1 CCCCTAAAGGGTAAAATGACT-ATTT
93977032 GTCTGTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
CCCCTAAAGGGTAAAATGACTATTTTG
Found at i:93979392 original size:14 final size:14
Alignment explanation
Indices: 93979373--93979497 Score: 81
Period size: 14 Copynumber: 8.6 Consensus size: 14
93979363 ACCTTGCGTC
*
93979373 CCCTAAACCTTAAG
1 CCCTAAACCTTAAA
*
93979387 CCCTAAACCCTAAA
1 CCCTAAACCTTAAA
*
93979401 CCATAAAACCTTAAA
1 CCCT-AAACCTTAAA
* *
93979416 ACATAAA-CTATAAA
1 CCCTAAACCT-TAAA
*
93979430 CCCTAAACCCTAAA
1 CCCTAAACCTTAAA
* * *
93979444 ACTTAAACCCTAAA
1 CCCTAAACCTTAAA
*
93979458 CCCTAAAACCCTAAA
1 CCCT-AAACCTTAAA
** *
93979473 GCTTTAAAACTTTAAA
1 -CCCT-AAACCTTAAA
93979489 CCCTAAACC
1 CCCTAAACC
93979498 CATGGGCGAG
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
13 2 0.02
14 49 0.56
15 25 0.29
16 11 0.13
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:93979399 original size:7 final size:7
Alignment explanation
Indices: 93979373--93979472 Score: 92
Period size: 7 Copynumber: 14.0 Consensus size: 7
93979363 ACCTTGCGTC
93979373 CCCTAAA
1 CCCTAAA
* *
93979380 CCTTAAG
1 CCCTAAA
93979387 CCCTAAA
1 CCCTAAA
93979394 CCCTAAA
1 CCCTAAA
*
93979401 CCATAAAA
1 CCCT-AAA
*
93979409 CCTTAAA
1 CCCTAAA
* *
93979416 ACATAAA
1 CCCTAAA
**
93979423 CTATAAA
1 CCCTAAA
93979430 CCCTAAA
1 CCCTAAA
93979437 CCCTAAA
1 CCCTAAA
* *
93979444 ACTTAAA
1 CCCTAAA
93979451 CCCTAAA
1 CCCTAAA
93979458 CCCTAAAA
1 CCCT-AAA
93979466 CCCTAAA
1 CCCTAAA
93979473 GCTTTAAAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
7 62 0.83
8 13 0.17
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:93979399 original size:21 final size:21
Alignment explanation
Indices: 93979373--93979464 Score: 105
Period size: 21 Copynumber: 4.3 Consensus size: 21
93979363 ACCTTGCGTC
*
93979373 CCCTAAACCTTAAGCCCTAAA
1 CCCTAAACCTTAAACCCTAAA
* *
93979394 CCCTAAACCATAAAACCTTAAA
1 CCCTAAACC-TTAAACCCTAAA
* *
93979416 ACATAAA-CTATAAACCCTAAA
1 CCCTAAACCT-TAAACCCTAAA
*
93979437 CCCTAAAACTTAAACCCTAAA
1 CCCTAAACCTTAAACCCTAAA
93979458 CCCTAAA
1 CCCTAAA
93979465 ACCCTAAAGC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 42 0.71
22 16 0.27
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (21 bp):
CCCTAAACCTTAAACCCTAAA
Found at i:93980480 original size:38 final size:38
Alignment explanation
Indices: 93980414--93980486 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
93980404 TGAGAAATAT
* *
93980414 TTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAC
1 TTGGAAATGAATATGGTTTTCTCAAAAATGAAAATGAC
*
93980452 TTGGAAATGAATTATGGTTTT-TCAAAAATGGAAAT
1 TTGGAAATGAA-TATGGTTTTCTCAAAAATGAAAAT
93980487 AAATCATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 23 0.74
39 8 0.26
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (38 bp):
TTGGAAATGAATATGGTTTTCTCAAAAATGAAAATGAC
Found at i:93985882 original size:22 final size:22
Alignment explanation
Indices: 93985857--93985911 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
93985847 TCGAACTATC
93985857 TGTTTTTCAATGTTTCTTTACG
1 TGTTTTTCAATGTTTCTTTACG
*
93985879 TGTTTTTCAATGTTTCTTTATG
1 TGTTTTTCAATGTTTCTTTACG
93985901 TGTTTTTCAAT
1 TGTTTTTCAAT
93985912 TAATATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.62
Consensus pattern (22 bp):
TGTTTTTCAATGTTTCTTTACG
Found at i:93988066 original size:32 final size:32
Alignment explanation
Indices: 93988025--93988087 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
93988015 TTTTAGAAAG
93988025 AAAATATATTTTGTTTAACTTGACTTGCAAGT
1 AAAATATATTTTGTTTAACTTGACTTGCAAGT
93988057 AAAATATATTTTGTTTAACTTGACTTGCAAG
1 AAAATATATTTTGTTTAACTTGACTTGCAAG
93988088 CAATCTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (32 bp):
AAAATATATTTTGTTTAACTTGACTTGCAAGT
Found at i:93990266 original size:15 final size:14
Alignment explanation
Indices: 93990247--93990328 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
93990237 TAATTCATAT
93990247 TTTAATAATAATTA
1 TTTAATAATAATTA
*
93990261 TATTAAGAAT-ATTA
1 T-TTAATAATAATTA
* *
93990275 TTAAATTATATATTA
1 TTTAATAATA-ATTA
* *
93990290 TTTTATTAA-ATTATA
1 -TTTAATAATAAT-TA
93990305 TTTAATAATAATTA
1 TTTAATAATAATTA
93990319 TGTTAA-AATA
1 T-TTAATAATA
93990329 TGATTAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
13 5 0.10
14 21 0.41
15 20 0.39
16 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTTAATAATAATTA
Found at i:93990387 original size:62 final size:60
Alignment explanation
Indices: 93990192--93990389 Score: 255
Period size: 62 Copynumber: 3.3 Consensus size: 60
93990182 TAAATTGTAT
* *
93990192 TAATAATTATGTTAAAATATGATTAGATTATTT-TTTTATTTTTATT-AATTCATATTTTAA
1 TAATAATTATATTAAAATATGATTAAATTATTTATTTTATTTTTATTAAATT-ATA-TTTAA
* *
93990252 TAATAATTATATTAAGAATATTATTAAATTA--TATATTA-TTTTATTAAATTATATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATTTATTTTATTTTTATTAAATTATATTTAA
*
93990310 TAATAATTATGTTAAAATATGATTAAATTATTTACATTTTATTTTTATTAAATTATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTATTT--ATTTTATTTTTATTAAATTATATTTAA
93990372 TAATAATCT-TATTAAAAT
1 TAATAAT-TATATTAAAAT
93990390 TTAATAACAA
Statistics
Matches: 121, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
57 14 0.12
58 19 0.16
59 12 0.10
60 22 0.18
61 18 0.15
62 35 0.29
63 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (60 bp):
TAATAATTATATTAAAATATGATTAAATTATTTATTTTATTTTTATTAAATTATATTTAA
Found at i:93990577 original size:16 final size:16
Alignment explanation
Indices: 93990556--93990610 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
93990546 TGAATTACTG
93990556 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
93990572 ATTACAGCTT-TATTCC
1 ATTACAG-TTCTATTCC
* *
93990588 ATTACATTTCTATTTC
1 ATTACAGTTCTATTCC
93990604 ATTACAG
1 ATTACAG
93990611 CCTTACTCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.88
17 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:93990599 original size:32 final size:32
Alignment explanation
Indices: 93990556--93990622 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
93990546 TGAATTACTG
* *
93990556 ATTACAGTTCTATTCCATTACAGCTTTATTCC
1 ATTACAGTTCTATTCCATTACAGCCTTACTCC
* *
93990588 ATTACATTTCTATTTCATTACAGCCTTACTCC
1 ATTACAGTTCTATTCCATTACAGCCTTACTCC
93990620 ATT
1 ATT
93990623 CACTCCAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (32 bp):
ATTACAGTTCTATTCCATTACAGCCTTACTCC
Found at i:93991198 original size:30 final size:30
Alignment explanation
Indices: 93991164--93991220 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
93991154 CATAGCATTT
93991164 ACATACT-CATTCAAGCATATATCACATAAC
1 ACATACTCCATT-AAGCATATATCACATAAC
* * *
93991194 ACATATTCCATTAATCATGTATCACAT
1 ACATACTCCATTAAGCATATATCACAT
93991221 TTCACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (30 bp):
ACATACTCCATTAAGCATATATCACATAAC
Found at i:93992383 original size:22 final size:22
Alignment explanation
Indices: 93992345--93992442 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
93992335 CAGAACGACT
*
93992345 CAAAGCCATAGAT-AGAACGGCA
1 CAAAGCCATA-ATCAGAATGGCA
* *
93992367 CAAAACCATAATCAGAATGGTTA
1 CAAAGCCATAATCAGAATGG-CA
* *
93992390 TAAA-CCATAA-CAGGATGGCA
1 CAAAGCCATAATCAGAATGGCA
*
93992410 CACAGCCATAATCAGAATGGCA
1 CAAAGCCATAATCAGAATGGCA
*
93992432 CAGAGCCATAA
1 CAAAGCCATAA
93992443 ATACGGCACA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.05
21 15 0.24
22 40 0.65
23 4 0.06
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.14
Consensus pattern (22 bp):
CAAAGCCATAATCAGAATGGCA
Found at i:93992625 original size:32 final size:32
Alignment explanation
Indices: 93992563--93992638 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
93992553 GTAAGAAGGA
* * *
93992563 CAGCACCAAGCCATCGATAACGAGTCTATAAT
1 CAGCACAAAGCCATCAATAACGAGTATATAAT
*
93992595 CAGCACAAAGCCATCAATCACGA-TAATATAAT
1 CAGCACAAAGCCATCAATAACGAGT-ATATAAT
**
93992627 TGGCACAAAGCC
1 CAGCACAAAGCC
93992639 TTCGGTGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.41, C:0.28, G:0.14, T:0.17
Consensus pattern (32 bp):
CAGCACAAAGCCATCAATAACGAGTATATAAT
Found at i:93993048 original size:27 final size:27
Alignment explanation
Indices: 93993025--93993123 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 27
93993015 TTCCTACAGG
* *
93993025 GGTATTTCAGTAATTTTACACTACAAA
1 GGTATTTCGGTAATTTTGCACTACAAA
* * *
93993052 GGTATTTTGATAATTTTGCACTACAAG
1 GGTATTTCGGTAATTTTGCACTACAAA
* *
93993079 GGTATTTTGGTAATTTTGCACTGCAAA
1 GGTATTTCGGTAATTTTGCACTACAAA
93993106 GGTATTTCGGTAATTTTG
1 GGTATTTCGGTAATTTTG
93993124 TACGTCAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTGCACTACAAA
Found at i:93993082 original size:54 final size:54
Alignment explanation
Indices: 93993018--93993123 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
93993008 TCATTTATTC
* *
93993018 CTACAGGGGTATTTCAGTAATTTTACACTACAAAGGTATTTTGATAATTTTGCA
1 CTACAAGGGTATTTCAGTAATTTTACACTACAAAGGTATTTCGATAATTTTGCA
** * * *
93993072 CTACAAGGGTATTTTGGTAATTTTGCACTGCAAAGGTATTTCGGTAATTTTG
1 CTACAAGGGTATTTCAGTAATTTTACACTACAAAGGTATTTCGATAATTTTG
93993124 TACGTCAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (54 bp):
CTACAAGGGTATTTCAGTAATTTTACACTACAAAGGTATTTCGATAATTTTGCA
Found at i:93993390 original size:18 final size:18
Alignment explanation
Indices: 93993345--93993395 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
93993335 ATCTGTGTGG
93993345 GGCCC-ATGAGCCCATTA
1 GGCCCAATGAGCCCATTA
*
93993362 GGCCCACATGA-CCCATTTC
1 GGCCCA-ATGAGCCCA-TTA
93993381 GGCCCAATGAAGCCC
1 GGCCCAATG-AGCCC
93993396 TTAATGGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 13 0.46
20 3 0.11
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.16
Consensus pattern (18 bp):
GGCCCAATGAGCCCATTA
Found at i:93996162 original size:18 final size:19
Alignment explanation
Indices: 93996123--93996164 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
93996113 GAAATAAAAC
*
93996123 TTTAAAAATCATATGTATT
1 TTTAAAAATCATATGTAGT
93996142 TTTAAAAAT-ATAT-TGAGT
1 TTTAAAAATCATATGT-AGT
93996160 TTTAA
1 TTTAA
93996165 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 9 0.43
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTAAAAATCATATGTAGT
Found at i:93999233 original size:4 final size:4
Alignment explanation
Indices: 93999224--93999466 Score: 423
Period size: 4 Copynumber: 60.8 Consensus size: 4
93999214 GAAAGCTTAG
* * * *
93999224 GTAT GTAT GTAT GTAC GTAC GTAC ATAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
93999272 GTAT GTAT GTAT GTAT GTAT ATAC GTAC GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
93999320 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
93999368 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
93999416 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
93999464 GTA
1 GTA
93999467 AATGTTGGGA
Statistics
Matches: 231, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 231 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:94006203 original size:39 final size:40
Alignment explanation
Indices: 94006126--94006272 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
94006116 TAGCTCCTCG
* * *
94006126 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
94006166 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
94006205 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
94006245 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
94006273 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:94006283 original size:80 final size:80
Alignment explanation
Indices: 94006172--94006352 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
94006162 CTCATTCAAT
* * *
94006172 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
94006235 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
94006251 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
94006315 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
94006332 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
94006353 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:94006312 original size:40 final size:40
Alignment explanation
Indices: 94006169--94006352 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
94006159 TAACTCATTC
* *
94006169 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
94006209 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
94006249 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
94006289 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
94006330 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
94006353 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:94014072 original size:39 final size:40
Alignment explanation
Indices: 94013995--94014101 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
94013985 TAGCTCCTCG
* * *
94013995 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
94014035 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
94014074 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
94014102 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:94014100 original size:79 final size:80
Alignment explanation
Indices: 94014001--94014221 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
94013991 CTCGTTCAAG
* * * ** * *
94014001 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
94014064 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
94014080 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
94014145 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
94014160 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
94014222 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
79 36 0.31
80 75 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:94014152 original size:80 final size:80
Alignment explanation
Indices: 94014041--94014221 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
94014031 CTCATTCAAT
* * *
94014041 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
94014104 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
94014120 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
94014184 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
94014201 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
94014222 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:94014181 original size:40 final size:40
Alignment explanation
Indices: 94014038--94014221 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
94014028 TAACTCATTC
* *
94014038 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
94014078 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
94014118 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
94014158 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
94014199 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
94014222 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:94019766 original size:3 final size:3
Alignment explanation
Indices: 94019758--94019788 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94019748 GGGGAATTAG
94019758 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
94019789 GACTAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:94026722 original size:43 final size:43
Alignment explanation
Indices: 94026598--94026756 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
94026588 ATATATGTTC
* *
94026598 TCGTGTAAGACCAC-GTATGGGACGTTGGCATC-A-ACTTATGATT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATA-TT-TGATT
* *
94026641 TACGTGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATT
*
94026684 TCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATT
1 TCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATT
* * * *
94026727 ACATGTAAGACCGTATCTGGGACATTGGCA
1 TCGTGTAAGACCCTGTCTGGGACATTGGCA
94026757 CTATACGATT
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 29 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATT
Found at i:94046692 original size:46 final size:46
Alignment explanation
Indices: 94046625--94046799 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
94046615 TGTAACCCGC
94046625 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
94046671 CCATAAGTGGACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** * *
94046721 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
94046764 TCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
94046800 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 61 0.58
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:94046745 original size:93 final size:93
Alignment explanation
Indices: 94046633--94046804 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
94046623 GCCCATAAGT
** * *
94046633 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGGACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94046698 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
94046726 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGTATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94046791 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
94046805 CAAATATTCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:94046819 original size:46 final size:47
Alignment explanation
Indices: 94046630--94046819 Score: 131
Period size: 46 Copynumber: 4.1 Consensus size: 47
94046620 CCCGCCCATA
* **** * *
94046630 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATATTC-TC
* ** *
94046676 AGTGGACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATA-TTCTC
* * * * *** *
94046724 A-CGAACTCGGACTCAACTCAACGAGTTC-GA-ACATTCGTATTCATA
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATATTC-TC
*
94046769 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTC-C
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATATTCTC
94046815 AGTGA
1 AGTGA
94046820 CATGTCACTT
Statistics
Matches: 109, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
44 2 0.02
45 6 0.06
46 62 0.57
47 26 0.24
48 12 0.11
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATATTCTC
Found at i:94050579 original size:15 final size:16
Alignment explanation
Indices: 94050552--94050582 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
94050542 ACTAAATAGG
94050552 TATGTATATATATATT
1 TATGTATATATATATT
94050568 TATGTA-ATATATATT
1 TATGTATATATATATT
94050583 CGTATATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TATGTATATATATATT
Found at i:94050920 original size:18 final size:18
Alignment explanation
Indices: 94050852--94050912 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
94050842 TGGTGAATTA
*
94050852 TATTATTATGGCAAACTG
1 TATTAATATGGCAAACTG
* * * ** *
94050870 TGTTCATTTGGTGATCTG
1 TATTAATATGGCAAACTG
94050888 TATTAATATGGCAAACTG
1 TATTAATATGGCAAACTG
94050906 TATTAAT
1 TATTAAT
94050913 TTTTCAAAAT
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (18 bp):
TATTAATATGGCAAACTG
Found at i:94051553 original size:17 final size:17
Alignment explanation
Indices: 94051533--94051597 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
94051523 ATGATGGAGC
94051533 ATGAACTGTTATTTTGA-
1 ATGAACTGTTA-TTTGAT
*
94051550 ATGAACTGTTATTCGAT
1 ATGAACTGTTATTTGAT
* *
94051567 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTGAT
*
94051584 ATGAACTATTATTT
1 ATGAACTGTTATTT
94051598 TGCATGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 4 0.10
17 37 0.90
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (17 bp):
ATGAACTGTTATTTGAT
Found at i:94063839 original size:51 final size:50
Alignment explanation
Indices: 94063778--94063904 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 50
94063768 GAGGGCGGTC
* *
94063778 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATAT-GTGCATACT
1 AATTATGTAAAGTTCTATGTGTGAACAGTGAATGCAAGATATAGTG--TACT
* *
94063829 GATTATGTAAAGTTCTATGTGTAAACAGTGAATGCAAGATATACGTGTACT
1 AATTATGTAAAGTTCTATGTGTGAACAGTGAATGCAAGATATA-GTGTACT
94063880 AATTATGTAAAGTTCTATGTGTGAA
1 AATTATGTAAAGTTCTATGTGTGAA
94063905 TTAAGGTATG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 65 0.96
53 3 0.04
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (50 bp):
AATTATGTAAAGTTCTATGTGTGAACAGTGAATGCAAGATATAGTGTACT
Found at i:94074477 original size:29 final size:28
Alignment explanation
Indices: 94074439--94074535 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
94074429 TACTCTTTGT
94074439 TTAAAGAAGCCCTTATACTATTTTCGTAG
1 TTAAAGAAGCCCTTATACTATTTT-GTAG
* * ** *
94074468 TTAAATAAGCCCCTAGCCTATAATTT-T-T
1 TTAAAGAAGCCCTTATACTAT--TTTGTAG
94074496 TTAAAGAAGCCCTTATACTATTTTTGTAG
1 TTAAAGAAGCCCTTATACTA-TTTTGTAG
*
94074525 TTAAATAAGCC
1 TTAAAGAAGCC
94074536 TCTAACCTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.06
28 17 0.33
29 29 0.56
31 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (28 bp):
TTAAAGAAGCCCTTATACTATTTTGTAG
Found at i:94074506 original size:57 final size:57
Alignment explanation
Indices: 94074438--94074548 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
94074428 ATACTCTTTG
*
94074438 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAGCCTATAATTTT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
* *
94074495 TTTAAAGAAGCCCTTATACTATTTTTGTAGTTAAATAAGCCTCTAACCTATAAT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAAT
94074549 GTTTACCCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (57 bp):
TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
Found at i:94074516 original size:28 final size:28
Alignment explanation
Indices: 94074409--94074535 Score: 78
Period size: 29 Copynumber: 4.4 Consensus size: 28
94074399 GTTAATATAC
* * *
94074409 TAAAAAAGCCCTTAAACTAATACTCTTTGTT
1 TAAAGAAGCCCTTATACT-ATA-T-TTTATT
*
94074440 TAAAGAAGCCCTTATACTAT-TTTCGTAGT
1 TAAAGAAGCCCTTATACTATATTT--TATT
* * **
94074469 TAAATAAGCCCCTAGCCTATAATTTT-TT
1 TAAAGAAGCCCTTATACTAT-ATTTTATT
* *
94074497 TAAAGAAGCCCTTATACTATTTTTGTAGT
1 TAAAGAAGCCCTTATACTATATTT-TATT
*
94074526 TAAATAAGCC
1 TAAAGAAGCC
94074536 TCTAACCTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
27 5 0.07
28 19 0.26
29 29 0.39
30 2 0.03
31 19 0.26
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (28 bp):
TAAAGAAGCCCTTATACTATATTTTATT
Found at i:94075942 original size:101 final size:101
Alignment explanation
Indices: 94075767--94075971 Score: 356
Period size: 101 Copynumber: 2.0 Consensus size: 101
94075757 ACAGCAACAG
94075767 AAGGATTGCATGCCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGACTTATCTAGGATGCAA
1 AAGGATTGCATGCCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGACTTATCTAGGATGCAA
*
94075832 GATACTCTTCCCAACATAATGCATGAAACTTGAACT
66 GATACTCTTCCCAACATAATGCATGAAACTAGAACT
* * *
94075868 AAGGATTGCATGTCTGTAGGATATGCTCAATCCTAAAGTAGAAAAAAGATTTATCTAGGATGCAA
1 AAGGATTGCATGCCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGACTTATCTAGGATGCAA
* *
94075933 GATACTCTTCTCAACATAATGGATGAAACTAGAACT
66 GATACTCTTCCCAACATAATGCATGAAACTAGAACT
94075969 AAG
1 AAG
94075972 AATAAGATCA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (101 bp):
AAGGATTGCATGCCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGACTTATCTAGGATGCAA
GATACTCTTCCCAACATAATGCATGAAACTAGAACT
Found at i:94079533 original size:30 final size:29
Alignment explanation
Indices: 94079490--94079563 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
94079480 TTTAATTAAA
* * * *
94079490 AAAATTATAATTTAATTATTGAATTATTCG
1 AAAATTTTTATTTAAATACTGAATTATT-G
*
94079520 AAAATTTTTATTTAAATACTGAATTATTT
1 AAAATTTTTATTTAAATACTGAATTATTG
94079549 AAAAGTTTTTATTTA
1 AAAA-TTTTTATTTA
94079564 TGTCACTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
AAAATTTTTATTTAAATACTGAATTATTG
Found at i:94082316 original size:20 final size:20
Alignment explanation
Indices: 94082280--94082317 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94082270 AAAAAGCCCT
**
94082280 TTGACCATTAACTTTAACGG
1 TTGACCATTAAAGTTAACGG
94082300 TTGACCATTAAAGTTAAC
1 TTGACCATTAAAGTTAAC
94082318 TGCACCTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
TTGACCATTAAAGTTAACGG
Found at i:94083084 original size:10 final size:10
Alignment explanation
Indices: 94083069--94083128 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
94083059 TAATTCTAGG
94083069 ATTTAT-TTT
1 ATTTATCTTT
94083078 CATTTATCTTT
1 -ATTTATCTTT
94083089 ATTTATCTTT
1 ATTTATCTTT
*
94083099 AATTATCTTT
1 ATTTATCTTT
94083109 ATTTAT-TTAT
1 ATTTATCTT-T
94083119 ATTTATCTTT
1 ATTTATCTTT
94083129 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:94083776 original size:17 final size:18
Alignment explanation
Indices: 94083744--94083777 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94083734 TATACCTCAT
94083744 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
94083762 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
94083778 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:94086760 original size:6 final size:6
Alignment explanation
Indices: 94086749--94086794 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
94086739 AGGCAACCCA
94086749 ATTTTT ATTTTT ATTTTT A-TTTT ATCTTATT A-TTTT ATTATTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT-TT-TT ATTTTT ATT-TTT ATT
94086795 ATTTTCAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 8 0.23
6 16 0.46
7 8 0.23
8 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:94087769 original size:11 final size:11
Alignment explanation
Indices: 94087755--94087788 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
94087745 AATAGAATTT
*
94087755 AAAAAAAGAGA
1 AAAAAAAAAGA
94087766 AAAAAAAAAGA
1 AAAAAAAAAGA
*
94087777 AAAAAAGAAGA
1 AAAAAAAAAGA
94087788 A
1 A
94087789 GAATGAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:94088435 original size:20 final size:19
Alignment explanation
Indices: 94088410--94088469 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
94088400 TAATTCTAGG
94088410 ATTTATTTTCATTTATCTTT
1 ATTTATTTT-ATTTATCTTT
* *
94088430 ATTTATCTTTAATTATCTTA
1 ATTTAT-TTTATTTATCTTT
94088450 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
94088470 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:94089230 original size:17 final size:18
Alignment explanation
Indices: 94089198--94089231 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94089188 TATTCCTTAT
94089198 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
94089216 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
94089232 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:94094231 original size:28 final size:28
Alignment explanation
Indices: 94094186--94094276 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 28
94094176 CGAAGTGTCA
* *
94094186 AAGT-GCAAGATGCAAGCTGACTCCACG
1 AAGTGGCAAGATGCGAGCTGACTCCGCG
* * *
94094213 AAGTGGCAAGGTGCGAGCTGACTCTGCA
1 AAGTGGCAAGATGCGAGCTGACTCCGCG
* * * *
94094241 AAGAGGCAAGATGCGAGATGGCACCGCG
1 AAGTGGCAAGATGCGAGCTGACTCCGCG
94094269 AAGTGGCA
1 AAGTGGCA
94094277 GGGTGCGAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 4 0.08
28 46 0.92
ACGTcount: A:0.31, C:0.22, G:0.34, T:0.13
Consensus pattern (28 bp):
AAGTGGCAAGATGCGAGCTGACTCCGCG
Found at i:94094283 original size:28 final size:28
Alignment explanation
Indices: 94094211--94094284 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
94094201 GCTGACTCCA
* * *
94094211 CGAAGTGGCAAGGTGCGAGCTGACTCTG
1 CGAAGTGGCAAGGTGCGAGATGACACCG
* * * *
94094239 CAAAGAGGCAAGATGCGAGATGGCACCG
1 CGAAGTGGCAAGGTGCGAGATGACACCG
*
94094267 CGAAGTGGCAGGGTGCGA
1 CGAAGTGGCAAGGTGCGA
94094285 ACTGCAGCTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.41, T:0.12
Consensus pattern (28 bp):
CGAAGTGGCAAGGTGCGAGATGACACCG
Found at i:94100471 original size:12 final size:12
Alignment explanation
Indices: 94100450--94100483 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
94100440 TATATATTTT
*
94100450 AAAATTATATAA
1 AAAATAATATAA
94100462 AAAATAATATAA
1 AAAATAATATAA
*
94100474 AAATTAATAT
1 AAAATAATAT
94100484 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:94101545 original size:23 final size:22
Alignment explanation
Indices: 94101519--94101579 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
94101509 TATATAATAA
94101519 ATATATATTTTTTATTTTTAAT
1 ATATATATTTTTTATTTTTAAT
* * *
94101541 CATATTTATATTTTAATTTTAAT
1 -ATATATATTTTTTATTTTTAAT
*
94101564 ATA-ATTAATTTTTATT
1 ATATA-TATTTTTTATT
94101580 ATATTTTTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATATATTTTTTATTTTTAAT
Found at i:94101645 original size:40 final size:41
Alignment explanation
Indices: 94101573--94101659 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
94101563 TATAATTAAT
*
94101573 TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
* * * * *
94101614 TTTTAATATATTTTT-TATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
94101654 TTTTAA
1 TTTTAA
94101660 ATGTATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (41 bp):
TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:94102773 original size:38 final size:38
Alignment explanation
Indices: 94102637--94102770 Score: 144
Period size: 38 Copynumber: 3.5 Consensus size: 38
94102627 CACTGGTAAG
* * * **
94102637 AAGCATGCTAGGCACTAAGCCTGAATAACATCAACATT
1 AAGCCTGCTAGGCACAAAGCCTGAATAACAACGGCATT
* *
94102675 CAGCCTGCTAGGCACAAAGCCTGAATAAC-ACTGGCACT
1 AAGCCTGCTAGGCACAAAGCCTGAATAACAAC-GGCATT
* * *
94102713 AAGCCTACTAGGCATAAAGCTTGAATAACAACGGCATT
1 AAGCCTGCTAGGCACAAAGCCTGAATAACAACGGCATT
* *
94102751 AAGCCTGCTATGCACGAAGC
1 AAGCCTGCTAGGCACAAAGC
94102771 TTGTATAATA
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
37 1 0.01
38 75 0.96
39 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (38 bp):
AAGCCTGCTAGGCACAAAGCCTGAATAACAACGGCATT
Found at i:94107007 original size:3 final size:3
Alignment explanation
Indices: 94106999--94107038 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
94106989 GTTCGGGCAA
94106999 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
94107039 GTAAACAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94115980 original size:14 final size:15
Alignment explanation
Indices: 94115940--94115978 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
94115930 TTCGGCTATT
94115940 GCATATATAAATTTA
1 GCATATATAAATTTA
* *
94115955 -CATATTTCAATTTA
1 GCATATATAAATTTA
94115969 GCATATATAA
1 GCATATATAA
94115979 TTCACATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (15 bp):
GCATATATAAATTTA
Found at i:94119613 original size:46 final size:46
Alignment explanation
Indices: 94119551--94119725 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
94119541 TGTAACCCGC
*
94119551 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
* * *
94119597 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-AG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCA--T
* *** * * *
94119643 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
* *
94119690 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
94119726 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
44 4 0.04
45 1 0.01
46 66 0.63
47 30 0.29
49 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
Found at i:94119671 original size:93 final size:93
Alignment explanation
Indices: 94119559--94119730 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
94119549 GCCCATAAGT
* * *
94119559 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGAACTCAACTCAA
94119624 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
94119652 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGAACTCAACTCAA
* *
94119717 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
94119731 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:94120419 original size:29 final size:29
Alignment explanation
Indices: 94120377--94120436 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
94120367 GTACAAGTTG
94120377 TCTAACATAATTTAAAACCTCATATTCTA
1 TCTAACATAATTTAAAACCTCATATTCTA
94120406 TCTAACATAATTTAAAACCTCATATTCTA
1 TCTAACATAATTTAAAACCTCATATTCTA
94120435 TC
1 TC
94120437 ATAAAACACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (29 bp):
TCTAACATAATTTAAAACCTCATATTCTA
Found at i:94126156 original size:30 final size:29
Alignment explanation
Indices: 94126122--94126179 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
94126112 GAAACTAATC
94126122 TCAATTACTGATTCTTAGGAAATTAGGATA
1 TCAATTACTGATTCTTAGG-AATTAGGATA
*
94126152 TCAATTACTGATTCTTAGGGATTAGGAT
1 TCAATTACTGATTCTTAGGAATTAGGAT
94126180 TTATTTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (29 bp):
TCAATTACTGATTCTTAGGAATTAGGATA
Found at i:94130678 original size:25 final size:25
Alignment explanation
Indices: 94130642--94130693 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
94130632 TATATATATA
94130642 CCGTGTCCGACCCTTTCAACCACAT
1 CCGTGTCCGACCCTTTCAACCACAT
*
94130667 CCGTGTCTGACCCTTTCAACCACAT
1 CCGTGTCCGACCCTTTCAACCACAT
94130692 CC
1 CC
94130694 AAATTATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.44, G:0.12, T:0.25
Consensus pattern (25 bp):
CCGTGTCCGACCCTTTCAACCACAT
Found at i:94134302 original size:22 final size:22
Alignment explanation
Indices: 94134277--94134320 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94134267 CTTTCGATTT
94134277 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
94134299 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
94134321 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:94138465 original size:32 final size:32
Alignment explanation
Indices: 94138429--94138490 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
94138419 AGCTTTTGGT
94138429 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
94138461 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
94138491 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:94143400 original size:15 final size:15
Alignment explanation
Indices: 94143380--94143416 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
94143370 TCAAGTTCAC
94143380 ATGTATATTTTATCT
1 ATGTATATTTTATCT
94143395 ATGTATATTTTATCT
1 ATGTATATTTTATCT
94143410 ATGTATA
1 ATGTATA
94143417 ACCATAGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (15 bp):
ATGTATATTTTATCT
Found at i:94145271 original size:23 final size:21
Alignment explanation
Indices: 94145244--94145298 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
94145234 TTTTTAATGT
94145244 TTTATTATAACATATATTAACA
1 TTTATTATAACATAT-TTAACA
* *
94145266 TATTATTTAATTACATATTTAACC
1 T-TTA-TT-ATAACATATTTAACA
94145290 TTTATTATA
1 TTTATTATA
94145299 TAATATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 6 0.22
24 8 0.30
25 8 0.30
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATTATAACATATTTAACA
Found at i:94147529 original size:9 final size:9
Alignment explanation
Indices: 94147515--94147560 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
94147505 GTATGTACAC
94147515 AATATATAT
1 AATATATAT
94147524 AATATAT-T
1 AATATATAT
94147532 AAATATATAT
1 -AATATATAT
*
94147542 AATATTTAT
1 AATATATAT
*
94147551 AAAATATAT
1 AATATATAT
94147560 A
1 A
94147561 CATGGTGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATATATAT
Found at i:94147538 original size:18 final size:18
Alignment explanation
Indices: 94147515--94147560 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
94147505 GTATGTACAC
94147515 AATATATATAATATATTA-
1 AATATATATAATAT-TTAT
94147533 AATATATATAATATTTAT
1 AATATATATAATATTTAT
*
94147551 AAAATATATA
1 AATATATATA
94147561 CATGGTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATATAATATTTAT
Found at i:94148438 original size:13 final size:13
Alignment explanation
Indices: 94148420--94148449 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
94148410 TGCTATTTTT
94148420 AAATAAAAAAAGA
1 AAATAAAAAAAGA
94148433 AAATAAAAAAAGA
1 AAATAAAAAAAGA
94148446 AAAT
1 AAAT
94148450 GGATATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (13 bp):
AAATAAAAAAAGA
Found at i:94151138 original size:52 final size:49
Alignment explanation
Indices: 94151053--94151223 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 49
94151043 TTTGAGTACT
* ** *
94151053 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
94151099 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
94151151 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
94151197 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
94151224 GCTACACTTA
Statistics
Matches: 110, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
46 67 0.61
48 1 0.01
49 2 0.02
50 1 0.01
52 39 0.35
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:94151233 original size:37 final size:37
Alignment explanation
Indices: 94151186--94151332 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
94151176 TGATAGCTTC
* *
94151186 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
94151223 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
94151260 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
94151297 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
94151332 G
1 G
94151333 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:94152842 original size:13 final size:13
Alignment explanation
Indices: 94152824--94152850 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94152814 GCTCAGCAGG
94152824 GACACGCCCGTGT
1 GACACGCCCGTGT
94152837 GACACGCCCGTGT
1 GACACGCCCGTGT
94152850 G
1 G
94152851 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:94154963 original size:28 final size:26
Alignment explanation
Indices: 94154932--94155006 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
94154922 AATAATATTA
94154932 AAGAAAAATAAATAAAAAGT-ACTTAAAT
1 AAGAAAAATAAATAAAAAGTGA---AAAT
* *
94154960 AAGATAAATAAAGATAAAAGTGAAAAT
1 AAGAAAAATAAATA-AAAAGTGAAAAT
94154987 AA-AAATAATAAATAAAAAGT
1 AAGAAA-AATAAATAAAAAGT
94155007 TTTTAAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 8 0.20
27 13 0.32
28 12 0.30
29 6 0.15
30 1 0.03
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.20
Consensus pattern (26 bp):
AAGAAAAATAAATAAAAAGTGAAAAT
Found at i:94157267 original size:19 final size:19
Alignment explanation
Indices: 94157243--94157280 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
94157233 ACCTGTCAGA
94157243 AGAAAAT-AAATAAAGAATT
1 AGAAAATAAAATAAA-AATT
94157262 AGAAAATAAAATAAAAATT
1 AGAAAATAAAATAAAAATT
94157281 TAAATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AGAAAATAAAATAAAAATT
Found at i:94166066 original size:16 final size:16
Alignment explanation
Indices: 94166045--94166082 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
94166035 TAAAAATAAT
94166045 ACATAAGACTACAAAA
1 ACATAAGACTACAAAA
* *
94166061 ACATAA-ACTTCTAAA
1 ACATAAGACTACAAAA
94166076 ACATAAG
1 ACATAAG
94166083 CTGTTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.58, C:0.18, G:0.05, T:0.18
Consensus pattern (16 bp):
ACATAAGACTACAAAA
Found at i:94172998 original size:15 final size:15
Alignment explanation
Indices: 94172978--94173012 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
94172968 ATAAATTTTC
* *
94172978 ATTTTATTTTTACAT
1 ATTTTATTTATAAAT
94172993 ATTTTATTTATAAAT
1 ATTTTATTTATAAAT
94173008 ATTTT
1 ATTTT
94173013 TACATAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTATTTATAAAT
Found at i:94177547 original size:50 final size:52
Alignment explanation
Indices: 94177446--94177558 Score: 185
Period size: 50 Copynumber: 2.2 Consensus size: 52
94177436 ATGAGTTATT
* *
94177446 TAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACA
1 TAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACA
*
94177498 TAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACA
1 TAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACA
94177548 TAATGCATGAC
1 TAATGCATGAC
94177559 TTTATTAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
50 30 0.53
51 11 0.19
52 16 0.28
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (52 bp):
TAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACA
Found at i:94190103 original size:41 final size:41
Alignment explanation
Indices: 94190048--94190130 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
94190038 AGATATAAAG
* * *
94190048 ACTGCATTCTTTCACGGGGATTTGGATTGGGAAATTTATAT
1 ACTGCATTCCTTCACGGGGATTTGAATGGGGAAATTTATAT
*
94190089 ACTGTATTCCTTCACGGGGATTTGAATGGGGAAATTTATAT
1 ACTGCATTCCTTCACGGGGATTTGAATGGGGAAATTTATAT
94190130 A
1 A
94190131 TAACAACTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (41 bp):
ACTGCATTCCTTCACGGGGATTTGAATGGGGAAATTTATAT
Found at i:94191800 original size:18 final size:18
Alignment explanation
Indices: 94191779--94191813 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94191769 CTGATATTTT
*
94191779 TATCGATACCATCTTTGA
1 TATCAATACCATCTTTGA
*
94191797 TATCAATACCATTTTTG
1 TATCAATACCATCTTTG
94191814 CATTCTTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (18 bp):
TATCAATACCATCTTTGA
Found at i:94191884 original size:20 final size:21
Alignment explanation
Indices: 94191846--94191885 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
94191836 AAACAATCAT
94191846 AAAAAGTATCGATATCCTTTC
1 AAAAAGTATCGATATCCTTTC
94191867 AAAAAGTATCGATA-CCTTT
1 AAAAAGTATCGATATCCTTT
94191886 TACCGGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGTATCGATATCCTTTC
Found at i:94199702 original size:7 final size:7
Alignment explanation
Indices: 94199690--94199715 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94199680 ATTAAATTAT
94199690 TTTTTAA
1 TTTTTAA
94199697 TTTTTAA
1 TTTTTAA
94199704 TTTTTAA
1 TTTTTAA
94199711 TTTTT
1 TTTTT
94199716 GAAGTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:94203603 original size:33 final size:33
Alignment explanation
Indices: 94203535--94203635 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 33
94203525 TGATGCTATT
* * * * *
94203535 TTTTG-TGCTTTTTTGTTGCTA-TTTGGTGCTA
1 TTTTGATGCTATTTTGGTGATATTTTGCTGCTG
* *
94203566 TTTTGATGCTATTTTGGTGATGTTTTGTTGCTG
1 TTTTGATGCTATTTTGGTGATATTTTGCTGCTG
* * *
94203599 TTTTGCTGCTGTTTTGGTGCTATTTTGCTGCTG
1 TTTTGATGCTATTTTGGTGATATTTTGCTGCTG
94203632 TTTT
1 TTTT
94203636 AGTGCTGGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 5 0.09
32 12 0.21
33 40 0.70
ACGTcount: A:0.06, C:0.10, G:0.25, T:0.59
Consensus pattern (33 bp):
TTTTGATGCTATTTTGGTGATATTTTGCTGCTG
Found at i:94203641 original size:22 final size:22
Alignment explanation
Indices: 94203535--94203635 Score: 116
Period size: 22 Copynumber: 4.7 Consensus size: 22
94203525 TGATGCTATT
*
94203535 TTTTG-TGCTTTTTTGTTGCTA
1 TTTTGCTGCTGTTTTGTTGCTA
* * *
94203556 -TTTGGTGCTATTTTGATGCTA
1 TTTTGCTGCTGTTTTGTTGCTA
* * *
94203577 TTTTGGTGATGTTTTGTTGCTG
1 TTTTGCTGCTGTTTTGTTGCTA
*
94203599 TTTTGCTGCTGTTTTGGTGCTA
1 TTTTGCTGCTGTTTTGTTGCTA
94203621 TTTTGCTGCTGTTTT
1 TTTTGCTGCTGTTTT
94203636 AGTGCTGGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.06
21 14 0.21
22 50 0.74
ACGTcount: A:0.06, C:0.10, G:0.25, T:0.59
Consensus pattern (22 bp):
TTTTGCTGCTGTTTTGTTGCTA
Found at i:94203642 original size:11 final size:11
Alignment explanation
Indices: 94203535--94203635 Score: 80
Period size: 11 Copynumber: 9.4 Consensus size: 11
94203525 TGATGCTATT
*
94203535 TTTTG-TGCTT
1 TTTTGCTGCTG
*
94203545 TTTTGTTGCT-
1 TTTTGCTGCTG
* * *
94203555 ATTTGGTGCTA
1 TTTTGCTGCTG
* *
94203566 TTTTGATGCTA
1 TTTTGCTGCTG
* *
94203577 TTTTGGTGATG
1 TTTTGCTGCTG
*
94203588 TTTTGTTGCTG
1 TTTTGCTGCTG
94203599 TTTTGCTGCTG
1 TTTTGCTGCTG
* *
94203610 TTTTGGTGCTA
1 TTTTGCTGCTG
94203621 TTTTGCTGCTG
1 TTTTGCTGCTG
94203632 TTTT
1 TTTT
94203636 AGTGCTGGTT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
10 13 0.17
11 62 0.83
ACGTcount: A:0.06, C:0.10, G:0.25, T:0.59
Consensus pattern (11 bp):
TTTTGCTGCTG
Done.