Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 30 of 332
Found at i:9142302 original size:39 final size:38
Alignment explanation
Indices: 9142218--9142434 Score: 170
Period size: 39 Copynumber: 5.6 Consensus size: 38
9142208 TCCTCGTTCA
* * *
9142218 AATGCCTTCGGACAT-AGCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9142254 AATGCCTTCGGACTTAAACCGGATTTAATAACTCGCAC
1 AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9142292 GAATGCCTTCGGACTTTACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCAC
* * * * *
9142331 AAAGGCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 AATGCCTTC-GGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
9142370 AAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
9142411 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAACCCGGA
9142435 CAGCATTCAA
Statistics
Matches: 145, Mismatches: 26, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
36 14 0.10
37 5 0.03
38 20 0.14
39 60 0.41
40 38 0.26
41 8 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:9142443 original size:41 final size:41
Alignment explanation
Indices: 9142366--9142443 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
9142356 CTTGTATCTC
* * *
9142366 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
9142407 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
9142444 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:9153875 original size:39 final size:39
Alignment explanation
Indices: 9153671--9153893 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
9153661 TTGAATGCTG
* * * * * *
9153671 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
9153711 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
9153751 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
9153791 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
9153831 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
9153870 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9153894 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:9153913 original size:79 final size:80
Alignment explanation
Indices: 9153751--9153928 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
9153741 AGATACAAGT
* * * *
9153751 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
9153816 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
9153831 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
9153895 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
9153910 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
9153929 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
GAACGAGTGACTAAA
Found at i:9156923 original size:40 final size:41
Alignment explanation
Indices: 9156846--9157026 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 41
9156836 ACCCAAGTAT
* *
9156846 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
9156885 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
9156925 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
* * *
9156965 CTTCGGATCTTAGTCCGGATATAGTC-ACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
9157005 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
9157027 CATTCGAATA
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 110 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
Found at i:9156983 original size:80 final size:80
Alignment explanation
Indices: 9156846--9157026 Score: 285
Period size: 80 Copynumber: 2.3 Consensus size: 80
9156836 ACCCAAGTAT
*
9156846 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAG
* *
9156909 TCACTAGCATAAATGC
65 TCACTAGCACAAAAGC
* *
9156925 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
9156990 CACTAGCACAAAAGC
66 CACTAGCACAAAAGC
*
9157005 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
9157027 CATTCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.12
80 82 0.87
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
CACTAGCACAAAAGC
Found at i:9159019 original size:46 final size:44
Alignment explanation
Indices: 9158891--9159019 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 44
9158881 GGACTGTCAC
*
9158891 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACA
* * * ** *
9158937 AGTGCTAGTTTAAGACATGTCTAGGACATGTTTCGGCCTCGAGACGTA
1 A--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC--A
*
9158985 AGCCGGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
9159020 TACGCGATGT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
46 41 0.62
47 13 0.20
48 12 0.18
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACA
Found at i:9170207 original size:16 final size:17
Alignment explanation
Indices: 9170186--9170219 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9170176 ACATTTAATC
9170186 ATGTTATAT-TATTTTA
1 ATGTTATATGTATTTTA
9170202 ATGTTATATGTATTTTA
1 ATGTTATATGTATTTTA
9170219 A
1 A
9170220 GGTTTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
ATGTTATATGTATTTTA
Found at i:9176549 original size:23 final size:23
Alignment explanation
Indices: 9176523--9176569 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9176513 TCAAATTGAA
9176523 AGTCCTTAAATGGTAATTAGACC
1 AGTCCTTAAATGGTAATTAGACC
9176546 AGTCCTTAAATGGTAATTAGACC
1 AGTCCTTAAATGGTAATTAGACC
9176569 A
1 A
9176570 TTATACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (23 bp):
AGTCCTTAAATGGTAATTAGACC
Found at i:9185399 original size:14 final size:14
Alignment explanation
Indices: 9185326--9185399 Score: 66
Period size: 14 Copynumber: 5.3 Consensus size: 14
9185316 TCCAAGCCGT
9185326 GTGAGTCACACGGG
1 GTGAGTCACACGGG
*
9185340 GTGA--CAACATGGGG
1 GTGAGTC-ACA-CGGG
9185354 GTGAGTCACACGGG
1 GTGAGTCACACGGG
*
9185368 GTGA--CAACATGGG
1 GTGAGTC-ACACGGG
9185381 TGTGAGTCACACGGG
1 -GTGAGTCACACGGG
9185396 GTGA
1 GTGA
9185400 CGACACGGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
12 2 0.04
13 9 0.19
14 26 0.54
15 9 0.19
16 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.42, T:0.16
Consensus pattern (14 bp):
GTGAGTCACACGGG
Found at i:9185409 original size:28 final size:28
Alignment explanation
Indices: 9185324--9185412 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
9185314 TGTCCAAGCC
9185324 GTGTGAGTCACACGGGGTGACAACATGG
1 GTGTGAGTCACACGGGGTGACAACATGG
*
9185352 GGGTGAGTCACACGGGGTGACAACATGG
1 GTGTGAGTCACACGGGGTGACAACATGG
* *
9185380 GTGTGAGTCACACGGGGTGACGACACGG
1 GTGTGAGTCACACGGGGTGACAACATGG
9185408 GTGTG
1 GTGTG
9185413 TCATGGAGAC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.22, C:0.18, G:0.43, T:0.17
Consensus pattern (28 bp):
GTGTGAGTCACACGGGGTGACAACATGG
Found at i:9187310 original size:30 final size:30
Alignment explanation
Indices: 9187276--9187336 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9187266 TATTATTCTA
9187276 TTGATCTTATTATTTTTAGGTTGGATTTGG
1 TTGATCTTATTATTTTTAGGTTGGATTTGG
9187306 TTGATCTTATTATTTTTAGGTTGGATTTGG
1 TTGATCTTATTATTTTTAGGTTGGATTTGG
9187336 T
1 T
9187337 ATGTTGGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.23, T:0.57
Consensus pattern (30 bp):
TTGATCTTATTATTTTTAGGTTGGATTTGG
Found at i:9187372 original size:45 final size:45
Alignment explanation
Indices: 9187311--9187429 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
9187301 TTTGGTTGAT
* * * * *
9187311 CTTATTATTTTTAGGTTGGATTTGGTATGTTGGTGTTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
*
9187356 CTTATTGTTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
*
9187401 CTTATTATTTTAAGGTTGGTTTTTGTATG
1 CTTATTATTTTAAGGTTGGTTTTGGTATG
9187430 CTAAAATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (45 bp):
CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
Found at i:9187443 original size:45 final size:45
Alignment explanation
Indices: 9187311--9187444 Score: 151
Period size: 45 Copynumber: 3.0 Consensus size: 45
9187301 TTTGGTTGAT
* * * ****
9187311 CTTATTATTTTTAGGTTGGATTTGGTATGTTGGTGTTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
* * *
9187356 CTTATTGTTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
* * *
9187401 CTTATTATTTTAAGGTTGGTTTTTGTATGCTAAAATTTATTTTT
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTT
9187445 AGAAATTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.18, C:0.03, G:0.22, T:0.57
Consensus pattern (45 bp):
CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
Found at i:9208873 original size:5 final size:5
Alignment explanation
Indices: 9208865--9208911 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
9208855 ATACTTTAAT
9208865 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
9208912 ATATTTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:9210709 original size:21 final size:21
Alignment explanation
Indices: 9210685--9210745 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
9210675 GGCACATAAA
9210685 GTGCTTAAAACGACACACGAG
1 GTGCTTAAAACGACACACGAG
* *
9210706 GTGCTTGATACGACACACGAG
1 GTGCTTAAAACGACACACGAG
*
9210727 GTGCCTGAAATACGACACA
1 GTG-CTTAAA-ACGACACA
9210746 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 22 0.67
22 3 0.09
23 8 0.24
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (21 bp):
GTGCTTAAAACGACACACGAG
Found at i:9210753 original size:23 final size:23
Alignment explanation
Indices: 9210671--9210755 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 23
9210661 CCTGATCAGT
* * *
9210671 ATACGGCACATAAAGTG-CTTAA
1 ATACGACACACAAAGTGCCTGAA
* * *
9210693 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
* *
9210713 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
9210736 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
9210756 AATCAGTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.02
21 29 0.59
22 2 0.04
23 17 0.35
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:9212052 original size:25 final size:24
Alignment explanation
Indices: 9211996--9212068 Score: 92
Period size: 25 Copynumber: 3.0 Consensus size: 24
9211986 TACGAGTCAT
* * *
9211996 AATCGGTAAGCTCATTCAAGCAGA
1 AATCGGTAAGCTCATACGAGCTGA
9212020 AATACGGTAAGCTCATACGAGCTGA
1 AAT-CGGTAAGCTCATACGAGCTGA
*
9212045 GAATCGGTAAACTCATACGAGCTG
1 -AATCGGTAAGCTCATACGAGCTG
9212069 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 3 0.07
25 37 0.86
26 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:9214178 original size:46 final size:46
Alignment explanation
Indices: 9214121--9214216 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
9214111 TGCATATTTC
9214121 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
1 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
9214167 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
1 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
9214213 TTTT
1 TTTT
9214217 AGTTACAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (46 bp):
TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
Found at i:9217436 original size:16 final size:16
Alignment explanation
Indices: 9217390--9217442 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
9217380 TGATTTATTG
* *
9217390 TAATGGAATAGAACTA
1 TAATAGAATAGAATTA
* * *
9217406 CAATGGAATAAAATTA
1 TAATAGAATAGAATTA
*
9217422 TAATAGAATAGAATTG
1 TAATAGAATAGAATTA
9217438 TAATA
1 TAATA
9217443 ACAATTTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (16 bp):
TAATAGAATAGAATTA
Found at i:9217715 original size:26 final size:26
Alignment explanation
Indices: 9217619--9217716 Score: 64
Period size: 26 Copynumber: 3.8 Consensus size: 26
9217609 TATGATTATT
9217619 AATAA-ATATAATTTAATAA---AAGC
1 AATAATATATAATTTAATAATTTAA-C
*
9217642 AATAATATATAATTTAACCTATTTTAA-
1 AATAATATATAATTTAA--TAATTTAAC
* * * *
9217669 TA-AATTTATTATTAAATATAATTTAAC
1 AATAATATATAATT-TA-ATAATTTAAC
9217696 AATAATATATAATTTAATAAT
1 AATAATATATAATTTAATAAT
9217717 ATTCTTAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
23 5 0.09
24 11 0.20
26 23 0.42
27 4 0.07
28 10 0.18
29 2 0.04
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (26 bp):
AATAATATATAATTTAATAATTTAAC
Found at i:9223835 original size:130 final size:131
Alignment explanation
Indices: 9223501--9224019 Score: 546
Period size: 132 Copynumber: 4.0 Consensus size: 131
9223491 ATTGTTCATT
* * * *
9223501 TAAAAATTCTTTAAAACGAAGGCAATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAAT-G
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCT-ATCG
* * * * * * *
9223565 TGTTGGGTTTCAATTTCTCATTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTCATTCATGTT
65 TGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTT-GAATTTCACTCATGTT
9223630 TTC
129 TTC
* * * * *
9223633 TAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGAAATTCG-GGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
* * * * * *
9223697 GCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGAAATTTCACCCATGTCT
66 GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTTG-AATTTCACTCATGTTT
9223762 T-
130 TC
* * ** *
9223763 TAAAAATTCTTT-AAGCGAAGGCGGTGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
* * * *
9223827 GCTGGGTTGCAATTTCTCGTTGGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCACGTTT
66 GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCC-TTTGAATTTCACTCATGTTT
9223892 TC
130 TC
* * * * * * *
9223894 TAAAAACTCTTCAAAACGAAGGTAATATTTGATGTTTAGCAATTCGGAGAATCGTGCTCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
** * * *
9223959 GCTGGGTTGCAATTTCCTATTTG-TCAAAAATGATCGAA-GATTCCTTTAGAATTTCACTCAT
66 GCTGGGTTGCAATTTCCCGTTCGTTC-AAAATAATCGAATG-TCCCTTT-GAATTTCACTCAT
9224020 ACTCTCTAAA
Statistics
Matches: 317, Mismatches: 61, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
129 25 0.08
130 82 0.26
131 85 0.27
132 125 0.39
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTTGAATTTCACTCATGTTTT
C
Found at i:9224033 original size:261 final size:261
Alignment explanation
Indices: 9223503--9224100 Score: 716
Period size: 261 Copynumber: 2.3 Consensus size: 261
9223493 TGTTCATTTA
*
9223503 AAAATTCTTTAAAACGAAGGCAATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGT
1 AAAATTCTTTAAAACGAAGGCAATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGC
* * * * *
9223568 TGGGTTTCAATTTCTCATTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTCATTCATGTTTTC
66 TGGGTTGCAATTTCTCATTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTTTC
* *
9223633 TAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGAAATTCGGGAATCGTGCCCTATCGTG
131 TAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGAAATTCGGGAATCGTGCCCTATCGTG
* * * * *
9223698 CTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGAAATTTCACCCATGTCTT
196 CTGGGTTGCAATTTCCCATTCGTTCAAAACAATCGAAGATTCCTTTGAAATTTCACCCATCTCTC
9223763 T
261 T
* ** * *
9223764 AAAAATTCTTT-AAGCGAAGGCGGTGTTCGATATTTGGCAATTCGCAGAATCGTGCCCT-ATCGT
1 -AAAATTCTTTAAAACGAAGGCAATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAAT-GT
* * *
9223827 GCTGGGTTGCAATTTCTCGTTGGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCACGTTT
64 GCTGGGTTGCAATTTCTCATTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTT
* * * *
9223892 TCTAAAAACTCTTCAAAACGAAGGTAATATTTGATGTTTAGCAATTCGGAGAATCGTGCTCTATC
129 TCTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGAAATTCGG-GAATCGTGCCCTATC
* * *
9223957 GTGCTGGGTTGCAATTTCCTATTTG-TCAAAA-ATGATCGAAGATTCCTTT-AGAATTTCACTCA
193 GTGCTGGGTTGCAATTTCCCATTCGTTCAAAACA--ATCGAAGATTCCTTTGA-AATTTCACCCA
9224019 TACTCTCT
255 T-CTCTCT
* * * *
9224027 -AAATTC--TAAAA-TAAGGCAATG-TCTGATATTTAGA-AATTCG-AGGAGTCGTGCCCTACTG
1 AAAATTCTTTAAAACGAAGGCAATGTTC-AATATTT-GACAATTCGCA-GAATCGTGCCCTAATG
* *
9224085 TGCTAGGTTTCAATTT
63 TGCTGGGTTGCAATTT
9224101 TCTCGTTAGA
Statistics
Matches: 288, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
258 3 0.01
259 47 0.16
260 7 0.02
261 157 0.55
262 70 0.24
263 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (261 bp):
AAAATTCTTTAAAACGAAGGCAATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGC
TGGGTTGCAATTTCTCATTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTTTC
TAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGAAATTCGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCATTCGTTCAAAACAATCGAAGATTCCTTTGAAATTTCACCCATCTCTC
T
Found at i:9225573 original size:16 final size:17
Alignment explanation
Indices: 9225552--9225586 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
9225542 TGATATTTGG
9225552 ATGATTAAATT-TTTTT
1 ATGATTAAATTATTTTT
9225568 ATGATTAAATTATTTTT
1 ATGATTAAATTATTTTT
9225585 AT
1 AT
9225587 TAAATATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
ATGATTAAATTATTTTT
Found at i:9227304 original size:3 final size:3
Alignment explanation
Indices: 9227288--9227438 Score: 114
Period size: 3 Copynumber: 51.0 Consensus size: 3
9227278 TATTTATTTC
* * * *
9227288 TAT TAT TTT CTAT TAT TGT CAT TAT TAA TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * *
9227335 TAC TAA TAT CAC TAT TAC TAT T-T T-T TAT TAC TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
9227381 TAT TAT T-T T-T TAC TAT CTAA TA- TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
9227424 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
9227439 ATTTTCTTTT
Statistics
Matches: 116, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
2 10 0.09
3 99 0.85
4 7 0.06
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:9227621 original size:3 final size:3
Alignment explanation
Indices: 9227600--9227982 Score: 157
Period size: 3 Copynumber: 127.7 Consensus size: 3
9227590 CAAACTTTAG
* * * **
9227600 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT CTT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * ** *
9227647 ATT ATT ATT ACT ATT ATT TTT GCT -TT ATT ATT ATT ACT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
9227693 ATT ATT TTCT ATT ACT ATT ATC ATT ATT ATT AAT ACT AAT ATT AAT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
9227739 ATT CTT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT CTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
9227787 -TT -TT ACTG A-T AAT ATTT ATT ATC ATT ATT GTT ACT ATT ATT -TT
1 ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
9227830 -TT ACT ATT ATT ATT -TT -TT ATT TTT TTT ACT ACT ATT ACTT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * * *
9227872 ATT CGTT AGT ATC ATT ATT AATT -TT ATCT -GT ATT -TT ATTT ACT ATT
1 ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT A-TT ATT ATT
* * * *
9227918 ATT TTT ATT CTC ATT ATTT ATTT ATTT ATTT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT A-TT A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT
* *
9227967 ATT GTC A-T ATT ATT AT
1 ATT ATT ATT ATT ATT AT
9227983 ATATGTTTTA
Statistics
Matches: 284, Mismatches: 72, Indels: 48
0.70 0.18 0.12
Matches are distributed among these distances:
2 25 0.09
3 220 0.77
4 39 0.14
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9227844 original size:41 final size:41
Alignment explanation
Indices: 9227749--9227849 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
9227739 ATTCTTATTA
* *
9227749 TTACTATTATTA-TTATTATTATTATTCTTATTATTATTTT
1 TTACTATTATTATTTATTATCATTATTCTTACTATTATTTT
* *
9227789 TTACTGA-TAATATTTATTATCATTATTGTTACTATTATTTT
1 TTACT-ATTATTATTTATTATCATTATTCTTACTATTATTTT
*
9227830 TTACTATTATTATTTTTTAT
1 TTACTATTATTATTTATTAT
9227850 TTTTTTTACT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
40 10 0.19
41 42 0.81
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (41 bp):
TTACTATTATTATTTATTATCATTATTCTTACTATTATTTT
Found at i:9229907 original size:25 final size:25
Alignment explanation
Indices: 9229875--9229936 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
9229865 AACGAAACAA
9229875 ATCA-AACAGAACAAAAAT-GAATAG
1 ATCAGAACAGAAC-AAAATGGAATAG
* *
9229899 ATCAGAACATAACAGAATGGAATAG
1 ATCAGAACAGAACAAAATGGAATAG
* *
9229924 AGCAGAGCAGAAC
1 ATCAGAACAGAAC
9229937 TGAACTGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (25 bp):
ATCAGAACAGAACAAAATGGAATAG
Found at i:9236401 original size:16 final size:17
Alignment explanation
Indices: 9236372--9236405 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9236362 CAATTTAAGC
*
9236372 TAAAATATATTTAAAAA
1 TAAAATATAATTAAAAA
9236389 TAAAAT-TAATTAAAAA
1 TAAAATATAATTAAAAA
9236405 T
1 T
9236406 TCCAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATATAATTAAAAA
Found at i:9241520 original size:14 final size:14
Alignment explanation
Indices: 9241501--9241527 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9241491 GAGAGTGGAG
9241501 ATAAAATAAAAAAA
1 ATAAAATAAAAAAA
9241515 ATAAAATAAAAAA
1 ATAAAATAAAAAA
9241528 TGATGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAAATAAAAAAA
Found at i:9243771 original size:17 final size:17
Alignment explanation
Indices: 9243749--9243798 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
9243739 AGTAATAATA
*
9243749 ATTAAAATTTTAAAAAT
1 ATTAAAAATTTAAAAAT
9243766 ATTAAAAATTTAAAAAT
1 ATTAAAAATTTAAAAAT
** *
9243783 AACAAAAATTCAAAAA
1 ATTAAAAATTTAAAAA
9243799 AAATGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAAAAATTTAAAAAT
Found at i:9248694 original size:44 final size:45
Alignment explanation
Indices: 9248618--9248702 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
9248608 AATCCACCAC
*
9248618 ATTTATGAAGTTTCTTTAATGAATTCATATATATG-GTTCGCTAT
1 ATTTATGAAGTTTCTTTAATGAATTCACATATATGAGTTCGCTAT
* * *
9248662 ATTTATGAATTTTCTTTTATGAGTTCACATATATGAGTTCG
1 ATTTATGAAGTTTCTTTAATGAATTCACATATATGAGTTCG
9248703 TATCCATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 31 0.86
45 5 0.14
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.48
Consensus pattern (45 bp):
ATTTATGAAGTTTCTTTAATGAATTCACATATATGAGTTCGCTAT
Found at i:9250265 original size:18 final size:19
Alignment explanation
Indices: 9250242--9250278 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9250232 AAATTAAAAT
9250242 ATTAATTAAACTAA-TTAA
1 ATTAATTAAACTAACTTAA
*
9250260 ATTAATTAACCTAACTTAA
1 ATTAATTAAACTAACTTAA
9250279 CCTAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAATTAAACTAACTTAA
Found at i:9252860 original size:25 final size:25
Alignment explanation
Indices: 9252807--9252860 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
9252797 CTTTCCATTC
* *
9252807 TTTTTCTTTTCATTTTTAGTTAAGG
1 TTTTTCTTTTCATTTTTAGGTAAGA
9252832 TTTTCTCTTTTC-TTTTTAGAGT-AGA
1 TTTT-TCTTTTCATTTTTAG-GTAAGA
9252857 TTTT
1 TTTT
9252861 ATTCTTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.15, C:0.09, G:0.11, T:0.65
Consensus pattern (25 bp):
TTTTTCTTTTCATTTTTAGGTAAGA
Found at i:9253469 original size:11 final size:12
Alignment explanation
Indices: 9253440--9253470 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9253430 AAATTTTAGG
9253440 TTAGTTTAATTA
1 TTAGTTTAATTA
9253452 TTAGTTTAATTA
1 TTAGTTTAATTA
9253464 -TAGTTTA
1 TTAGTTTA
9253471 TAAGCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (12 bp):
TTAGTTTAATTA
Found at i:9257900 original size:46 final size:46
Alignment explanation
Indices: 9257831--9257943 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 46
9257821 GCTAGTGTAG
9257831 GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
1 GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
** * * * *
9257877 GACATGTCTGGGACATGTGTCAGCCAGATCATGAGAGCTAGTGTAA
1 GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
9257923 GACATGTCTGGGACATGCATC
1 GACATGTCTGGGACATGCATC
9257944 GGCGTCGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
Found at i:9258066 original size:49 final size:49
Alignment explanation
Indices: 9258007--9258130 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
9257997 TGTTGTATGT
* *
9258007 CAGTGTAAGACCTGTTTGGGATATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
9258056 CAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTTGCTATATGAAAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
*
9258105 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTTTGGGACATG
9258131 ACGTTGGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.02
49 53 0.80
50 12 0.18
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:9263572 original size:19 final size:19
Alignment explanation
Indices: 9263548--9263585 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9263538 TGCGAATGAA
9263548 TCATTTCTCATTTTC-TTTT
1 TCATTTC-CATTTTCATTTT
9263567 TCATTTCCATTTTCATTTT
1 TCATTTCCATTTTCATTTT
9263586 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (19 bp):
TCATTTCCATTTTCATTTT
Found at i:9268010 original size:6 final size:6
Alignment explanation
Indices: 9267999--9268025 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9267989 ACAGCAATGA
9267999 CTCACT CTCACT CTCACT CTCACT CTC
1 CTCACT CTCACT CTCACT CTCACT CTC
9268026 TTACATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCACT
Found at i:9270979 original size:12 final size:12
Alignment explanation
Indices: 9270962--9271014 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
9270952 ATGGTTGCCC
*
9270962 TCATCATTGTCA
1 TCATCATTATCA
9270974 TCATCATTATCA
1 TCATCATTATCA
* * *
9270986 TTATCATCAACA
1 TCATCATTATCA
*
9270998 TCATCGTTATCA
1 TCATCATTATCA
9271010 TCATC
1 TCATC
9271015 TTCTACTTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:9270987 original size:18 final size:18
Alignment explanation
Indices: 9270962--9271014 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
9270952 ATGGTTGCCC
*
9270962 TCATCATTGTCATCATCA
1 TCATCATTATCATCATCA
* *
9270980 TTATCATTATCATCAACA
1 TCATCATTATCATCATCA
*
9270998 TCATCGTTATCATCATC
1 TCATCATTATCATCATC
9271015 TTCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:9272901 original size:2 final size:2
Alignment explanation
Indices: 9272894--9272922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9272884 CAAGACCAGA
9272894 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9272923 CTGTGCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9276843 original size:12 final size:13
Alignment explanation
Indices: 9276826--9276855 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9276816 AGCCTTTATG
9276826 GAAAAGAAA-AAA
1 GAAAAGAAAGAAA
9276838 GAAAAGAAAGAAA
1 GAAAAGAAAGAAA
9276851 GAAAA
1 GAAAA
9276856 TCACTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGAAA
Found at i:9290531 original size:17 final size:15
Alignment explanation
Indices: 9290499--9290528 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9290489 ACTTTGAGTA
9290499 ATGGTGTGCAATGGG
1 ATGGTGTGCAATGGG
*
9290514 ATGGTGTGTAATGGG
1 ATGGTGTGCAATGGG
9290529 GGAGTGTGAG
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:0.20, C:0.03, G:0.47, T:0.30
Consensus pattern (15 bp):
ATGGTGTGCAATGGG
Found at i:9320993 original size:24 final size:24
Alignment explanation
Indices: 9320966--9321063 Score: 56
Period size: 24 Copynumber: 4.0 Consensus size: 24
9320956 TCCAAGCCAA
9320966 ATAACAGAAAGCTCATGTGAGCTT
1 ATAACAGAAAGCTCATGTGAGCTT
** * * *
9320990 ATAATGGGAAGCTTATCT-AGGCTT
1 ATAACAGAAAGCTCATGTGA-GCTT
* * **
9321014 AATAACAGGAAGCTCTTAAGAGCTT
1 -ATAACAGAAAGCTCATGTGAGCTT
* *
9321039 A-AATCAAAAAGCTCATGCGAGCTT
1 ATAA-CAGAAAGCTCATGTGAGCTT
9321063 A
1 A
9321064 ATGGGTAACT
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
23 3 0.06
24 34 0.63
25 16 0.30
26 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (24 bp):
ATAACAGAAAGCTCATGTGAGCTT
Found at i:9322323 original size:21 final size:21
Alignment explanation
Indices: 9322299--9322341 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9322289 CCATATAAGG
9322299 ACCTCAATTTTTGAATTCCAT
1 ACCTCAATTTTTGAATTCCAT
9322320 ACCTCAATTTTTGAATTCCAT
1 ACCTCAATTTTTGAATTCCAT
9322341 A
1 A
9322342 ACTGTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (21 bp):
ACCTCAATTTTTGAATTCCAT
Found at i:9324278 original size:22 final size:21
Alignment explanation
Indices: 9324248--9324313 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
9324238 TACAAATTAA
9324248 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
9324270 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
9324291 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
9324310 ATCT
1 ATCT
9324314 AAGACTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:9324300 original size:19 final size:19
Alignment explanation
Indices: 9324265--9324362 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
9324255 AGATTACAAG
9324265 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9324286 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
9324305 ATCATATCTAAGACTG--T
1 ATCATATCTAAGATTGCAT
9324322 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9324341 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9324360 ATC
1 ATC
9324363 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9324329 original size:36 final size:36
Alignment explanation
Indices: 9324285--9324353 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
9324275 CAAGATTGCA
9324285 TATCATATCTAAGATTGCATATCATATCTAAGACTG
1 TATCATATCTAAGATTGCATATCATATCTAAGACTG
9324321 TATCATATCTAAGATTGCATATCATATCTAAGA
1 TATCATATCTAAGATTGCATATCATATCTAAGA
9324354 TTGCATATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGACTG
Found at i:9324371 original size:36 final size:35
Alignment explanation
Indices: 9324265--9324372 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
9324255 AGATTACAAG
*
9324265 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
*
9324305 ATCATATCTAAGACTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGA-T-T-GCATATCCTTAAGATTGCAT
9324341 ATCATATCTAAGATTGCATATCCTTAAAGATT
1 ATCATATCTAAGATTGCATATCCTT-AAGATT
9324373 ATATTTCCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 5 0.08
34 2 0.03
35 2 0.03
36 30 0.51
38 4 0.07
39 2 0.03
40 9 0.15
41 5 0.08
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:9324783 original size:45 final size:45
Alignment explanation
Indices: 9324717--9324828 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
9324707 GAAAGGCAAT
* *
9324717 ATATGCTATCTTTGATTTGCTCCCCATCTAATACAGAGACGCCAA
1 ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* * *
9324762 ATATGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* *
9324807 ATTTGCT-TCTTCAATCTGCTCC
1 ATATGCTATCTTCGATCTGCTCC
9324829 TTACAAACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 14 0.24
45 45 0.76
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (45 bp):
ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
Found at i:9325254 original size:205 final size:205
Alignment explanation
Indices: 9324902--9325616 Score: 1250
Period size: 205 Copynumber: 3.5 Consensus size: 205
9324892 AAATCTACTT
* *
9324902 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
9324967 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGCTCCTTGTAAGTACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
9325032 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
9325097 AGATGCCAGA
196 AGATGCCAGA
*
9325107 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
9325172 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
9325237 GGATCTATTTCAGTATAAACATCTGAAGTTTAGATCTGCTATGTGTCTGCCCTTTGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
9325302 AGATGCCAGA
196 AGATGCCAGA
* *
9325312 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAAAGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
9325377 GTGAAATCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTGAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
9325442 GGATTTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
9325507 AGATGCCAGA
196 AGATGCCAGA
* *
9325517 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
9325582 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
9325617 TCCGCCAATA
Statistics
Matches: 482, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 482 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
AGATGCCAGA
Found at i:9325657 original size:44 final size:44
Alignment explanation
Indices: 9325588--9325697 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
9325578 ACACGTGAAA
* * *
9325588 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCAATCTGCTCTCCGACAATACAGAGAT
* *
9325634 GCCAAATCTGGTATCTTCAATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCAATCTGCTCTCCGACAATACAGAGAT
9325678 GCCAAATCTGCTATCTTCAA
1 GCCAAATCTGCTATCTTCAA
9325698 CTTGTTCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 47 0.81
46 11 0.19
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCAATCTGCTCTCCGACAATACAGAGAT
Found at i:9325825 original size:44 final size:44
Alignment explanation
Indices: 9325626--9326082 Score: 308
Period size: 44 Copynumber: 10.4 Consensus size: 44
9325616 CTCCGCCAAT
* * * * * * *
9325626 ACAGAGATGCCAAATCTGGTATCTTCAATCTGCTCTCTGA-CAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* *
9325670 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* ** * ** * *
9325714 ACAGGGATGTC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* ** * *
9325758 ACA-GAAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
9325802 AAAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * * *
9325846 ACAGGGATGCC--ATGCTGAAATCCTCAATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
9325890 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
9325934 ATAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * *
9325978 ACAGGGATGCC--ATGCTGAAATCTTCGATCTATTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCT-GTTCCCTATAAAC
* * *
9326022 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
9326066 ACAGGGATGTCAAATCT
1 ACAGGGATGCCAAATCT
9326083 TGTTTCTTTG
Statistics
Matches: 319, Mismatches: 71, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
42 6 0.02
43 42 0.13
44 219 0.69
45 46 0.14
46 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:9325863 original size:132 final size:132
Alignment explanation
Indices: 9325675--9326082 Score: 692
Period size: 132 Copynumber: 3.1 Consensus size: 132
9325665 ACAATACAGA
*
9325675 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
* *
9325740 ATCTGCTTCGTTGTAAGCACAGAAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAACAAA
66 ATCTGCTTCGCTGTAAGCACAGAAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACAAA
9325805 GG
131 GG
*
9325807 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCA
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
* *
9325872 ATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACATA
66 ATCTGCTTCGCTGTAAGCACAGAAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACAAA
9325937 GG
131 GG
*
9325939 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
** * *
9326004 ATCTATTTCGCTGTAAGCACAGGAA-TGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACAC
66 ATCTGCTTCGCTGTAAGCACA-GAAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACAA
9326068 AGG
130 AGG
*
9326071 GATGTCAAATCT
1 GATGCCAAATCT
9326083 TGTTTCTTTG
Statistics
Matches: 261, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 259 0.99
133 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
ATCTGCTTCGCTGTAAGCACAGAAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACAAA
GG
Found at i:9326985 original size:8 final size:8
Alignment explanation
Indices: 9326972--9327032 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
9326962 GGCCTCTCCA
9326972 TTTTTCTT
1 TTTTTCTT
9326980 TTTTTCTCT
1 TTTTTCT-T
*
9326989 TTTTTATT
1 TTTTTCTT
*
9326997 TTTTTATT
1 TTTTTCTT
9327005 ATTTTT-TT
1 -TTTTTCTT
9327013 CTTTTTCTT
1 -TTTTTCTT
9327022 TTCTTT-TT
1 TT-TTTCTT
9327030 TTT
1 TTT
9327033 GAAATAGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
7 1 0.02
8 29 0.62
9 17 0.36
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:9327010 original size:19 final size:19
Alignment explanation
Indices: 9326988--9327031 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
9326978 TTTTTTTCTC
9326988 TTTTTTATTTTT-TTATTAT
1 TTTTTTATTTTTCTT-TTAT
* *
9327007 TTTTTTCTTTTTCTTTTCT
1 TTTTTTATTTTTCTTTTAT
9327026 TTTTTT
1 TTTTTT
9327032 TGAAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTATTTTTCTTTTAT
Found at i:9327017 original size:17 final size:18
Alignment explanation
Indices: 9326972--9327018 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
9326962 GGCCTCTCCA
* *
9326972 TTTTTCTTTTTTTCTCTT
1 TTTTTCTTTTTATCTATT
*
9326990 TTTTATTTTTTTAT-TATT
1 TTTT-TCTTTTTATCTATT
9327008 TTTTTCTTTTT
1 TTTTTCTTTTT
9327019 CTTTTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.25
18 11 0.46
19 7 0.29
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTTATCTATT
Found at i:9327028 original size:17 final size:16
Alignment explanation
Indices: 9326972--9327032 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
9326962 GGCCTCTCCA
*
9326972 TTTTTCTTTTTTTCTC
1 TTTTTCTTTTTTTTTC
* *
9326988 TTTTT-TATTTTTTTA
1 TTTTTCTTTTTTTTTC
9327003 TTATTT-TTTTCTTTTTC
1 TT-TTTCTTTT-TTTTTC
9327020 -TTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
9327033 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 16 0.43
16 16 0.43
17 5 0.14
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:9333814 original size:19 final size:19
Alignment explanation
Indices: 9333779--9333876 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
9333769 AGATTATAAG
9333779 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9333800 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
9333819 ATCATATCTAAGACTG--T
1 ATCATATCTAAGATTGCAT
9333836 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9333855 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9333874 ATC
1 ATC
9333877 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9333843 original size:36 final size:36
Alignment explanation
Indices: 9333799--9333867 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
9333789 CAAGATTGCA
9333799 TATCATATCTAAGATTGCATATCATATCTAAGACTG
1 TATCATATCTAAGATTGCATATCATATCTAAGACTG
9333835 TATCATATCTAAGATTGCATATCATATCTAAGA
1 TATCATATCTAAGATTGCATATCATATCTAAGA
9333868 TTGCATATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGACTG
Found at i:9333885 original size:36 final size:35
Alignment explanation
Indices: 9333779--9333886 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
9333769 AGATTATAAG
*
9333779 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
*
9333819 ATCATATCTAAGACTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGA-T-T-GCATATCCTTAAGATTGCAT
9333855 ATCATATCTAAGATTGCATATCCTTAAAGATT
1 ATCATATCTAAGATTGCATATCCTT-AAGATT
9333887 ATATTTCCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 5 0.08
34 2 0.03
35 2 0.03
36 30 0.51
38 4 0.07
39 2 0.03
40 9 0.15
41 5 0.08
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:9335865 original size:54 final size:54
Alignment explanation
Indices: 9335772--9335889 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
9335762 TCCAGTTAGC
* * * *
9335772 GAGTTACATGGCCTAGCACACGGCCTAGCACACAGGCGTGTGTGGCAACTCAGA
1 GAGTTACACGACCTAGCACACGGCCTAGCACACAGGCGTGTGGGGAAACTCAGA
* * *
9335826 GAGTTACACGACCTAGCACGCTGCCT-G-ACACATGCGCGTGTGGGGAAACTCAGT
1 GAGTTACACGACCTAGCACACGGCCTAGCACACA-G-GCGTGTGGGGAAACTCAGA
9335880 GAGTTACACG
1 GAGTTACACG
9335890 GGTGAAGACA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 5 0.09
53 2 0.04
54 48 0.87
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.18
Consensus pattern (54 bp):
GAGTTACACGACCTAGCACACGGCCTAGCACACAGGCGTGTGGGGAAACTCAGA
Found at i:9336633 original size:58 final size:58
Alignment explanation
Indices: 9336532--9336647 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
9336522 TGAAATGGAG
* *
9336532 AAATGGAGAAATAGTAAACATTTGAAAATGATTATGGATTTCTCCAAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCC-AAAATGAAAATGA
* * * * *
9336591 AAATGGAGAAAT-GGAATCTTTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCCAAAATGAAAATGA
9336648 CCTGAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 13 0.26
58 25 0.50
59 12 0.24
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (58 bp):
AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCCAAAATGAAAATGA
Found at i:9338165 original size:35 final size:35
Alignment explanation
Indices: 9338126--9338216 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
9338116 ACTGATACTT
9338126 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
1 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
** * * * *
9338161 TGATTTGCATGTTGAGCATGTTATTATTTTGATTC
1 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
* * *
9338196 TGAATCACTTGTTAAACATGT
1 TGATTCACATGTTAAGCATGT
9338217 CATTGTGTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGTTACTATTCTGATTA
Found at i:9340202 original size:28 final size:28
Alignment explanation
Indices: 9340142--9340204 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
9340132 AGCCCATTTA
* *
9340142 AATATATTATTTAAAAGTTAACGAAATAT
1 AATATATCATTTAAAAATTAAC-AAATAT
9340171 -ATATATCATTTAAAAATATAA-AAATAT
1 AATATATCATTTAAAAAT-TAACAAATAT
9340198 AATATAT
1 AATATAT
9340205 TGTATATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.20
28 21 0.70
29 3 0.10
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (28 bp):
AATATATCATTTAAAAATTAACAAATAT
Found at i:9341378 original size:20 final size:20
Alignment explanation
Indices: 9341353--9341399 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
9341343 CAATTTATTG
9341353 ATACTTGGTAAAAGGTATCA
1 ATACTTGGTAAAAGGTATCA
**
9341373 ATACTTTTTTAAAAGGTATCA
1 ATAC-TTGGTAAAAGGTATCA
9341394 ATACTT
1 ATACTT
9341400 TTGTAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (20 bp):
ATACTTGGTAAAAGGTATCA
Found at i:9341387 original size:21 final size:21
Alignment explanation
Indices: 9341361--9341401 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9341351 TGATACTTGG
9341361 TAAAAGGTATCAATACTTTTT
1 TAAAAGGTATCAATACTTTTT
9341382 TAAAAGGTATCAATACTTTT
1 TAAAAGGTATCAATACTTTT
9341402 GTAATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
TAAAAGGTATCAATACTTTTT
Found at i:9341638 original size:22 final size:24
Alignment explanation
Indices: 9341613--9341656 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9341603 ATTTTATTCA
9341613 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
9341635 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
9341657 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:9346137 original size:17 final size:17
Alignment explanation
Indices: 9346115--9346149 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9346105 TTATTTTTAA
*
9346115 TAAAAAATTTATAATTT
1 TAAAAAATGTATAATTT
9346132 TAAAAAATGTATAATTT
1 TAAAAAATGTATAATTT
9346149 T
1 T
9346150 TTATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAAAAAATGTATAATTT
Found at i:9346166 original size:11 final size:10
Alignment explanation
Indices: 9346141--9346170 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
9346131 TTAAAAAATG
9346141 TATAATTTTT
1 TATAATTTTT
9346151 TATAATTTTT
1 TATAATTTTT
9346161 TAATAATTTT
1 T-ATAATTTT
9346171 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATAATTTTT
Found at i:9357089 original size:38 final size:38
Alignment explanation
Indices: 9357044--9357214 Score: 218
Period size: 38 Copynumber: 4.4 Consensus size: 38
9357034 GGCTTAAAGG
* *
9357044 CCCGCAGGCTTTATGCTGGAATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
*
9357082 CCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
* * *
9357120 CCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
* *
9357158 CCCGCAGGCCT-AGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGTATTATATCTG-GGTTAAA-T
* *
9357198 CCCGTAGGCTTCGTGCT
1 CCCGCAGGCTTCATGCT
9357215 AGTGTTATGT
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 96 0.83
39 6 0.05
40 14 0.12
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
Found at i:9357144 original size:76 final size:78
Alignment explanation
Indices: 9357037--9357214 Score: 243
Period size: 76 Copynumber: 2.3 Consensus size: 78
9357027 GTATCCGGGC
* * ** * * *
9357037 TTAAAGGCCCGCAGGCTTTATGCTGGAATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 TTAAAGTCCCACAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
9357102 ATTATATCTG-GG
66 ATTATATCTGAGG
*
9357114 TTAAA-TCCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 TTAAAGTCCCACAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
*
9357178 ATTATATCTGAGT
66 ATTATATCTGAGG
**
9357191 TTAAAGTCCCGTAGGCTTCGTGCT
1 TTAAAGTCCCACAGGCTTCGTGCT
9357215 AGTGTTATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
76 61 0.69
77 11 0.12
78 16 0.18
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (78 bp):
TTAAAGTCCCACAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
ATTATATCTGAGG
Found at i:9360261 original size:37 final size:37
Alignment explanation
Indices: 9360217--9360292 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
9360207 TCTCAACTTT
9360217 ACCATAAACTCCTTAACATGGGCTTACAAGGCTCAAA
1 ACCATAAACTCCTTAACATGGGCTTACAAGGCTCAAA
9360254 ACCATAAACTCCTTAACATGGGCTTACAAGGCTCAAA
1 ACCATAAACTCCTTAACATGGGCTTACAAGGCTCAAA
9360291 AC
1 AC
9360293 ATTCATTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (37 bp):
ACCATAAACTCCTTAACATGGGCTTACAAGGCTCAAA
Found at i:9361589 original size:47 final size:48
Alignment explanation
Indices: 9361515--9361689 Score: 209
Period size: 47 Copynumber: 3.7 Consensus size: 48
9361505 AGGGTATAAT
9361515 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-GTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
* * * *
9361562 GTCGATGCCATGTCCCAAACATTGTCTTACACT-GACT-ATCGTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCGTC-TC-AA
* *
9361611 GCCGATG-CATGTCTCAGACAT-GTCTTACGCTAGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
*
9361656 TGCCAATGCCATGTCCCAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
9361690 GGCTTTTATA
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 11 0.10
47 64 0.60
48 24 0.22
49 7 0.07
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
Found at i:9361723 original size:94 final size:94
Alignment explanation
Indices: 9361523--9361741 Score: 280
Period size: 94 Copynumber: 2.3 Consensus size: 94
9361513 ATGCCGATGC
* * *
9361523 CATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGTCGATGCCATGTCCCAAACATTGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCTCATGTCTCAAGCCAATGCCATGTCCCAAACATGGTC
* * *
9361588 TTACACTGACTATCGTCATCGAGGCCGATG
65 TTACACTGACTATCATAATCGAGGCCAATG
* * *
9361618 CATGTCTCAGACATGTCTTACGCTAGCTC-TCGTCTCAATGCCAATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCTCAT-GTCTCAA-GCCAATGCCATGTCCCAAACATGGT
* * * *
9361682 CTTACACTGGCTTTTATAAT-GTGGCCAATG
64 CTTACACTGACTATCATAATCGAGGCCAATG
9361712 CATGTCCCAGACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTAGCTCA
9361742 CAATAACCCA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 1 0.01
94 56 0.53
95 49 0.46
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTCATGTCTCAAGCCAATGCCATGTCCCAAACATGGTCT
TACACTGACTATCATAATCGAGGCCAATG
Found at i:9364042 original size:23 final size:23
Alignment explanation
Indices: 9364013--9364079 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
9364003 TAAATGATAT
9364013 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
9364036 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
9364056 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
9364079 T
1 T
9364080 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:9366835 original size:18 final size:19
Alignment explanation
Indices: 9366795--9366835 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
9366785 TACTTGAAAA
*
9366795 GTTAAAAAATATAACTATT
1 GTTATAAAATATAACTATT
*
9366814 -TTATAAAA-ATAATTATT
1 GTTATAAAATATAACTATT
9366831 GTTAT
1 GTTAT
9366836 TACTTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
GTTATAAAATATAACTATT
Found at i:9369598 original size:20 final size:20
Alignment explanation
Indices: 9369573--9369613 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9369563 TTCGGGGATC
9369573 ATTTT-GAAACAAAACAAAAA
1 ATTTTGGAAA-AAAACAAAAA
*
9369593 ATTTTGGAAAAAAATAAAAA
1 ATTTTGGAAAAAAACAAAAA
9369613 A
1 A
9369614 ATTCGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
ATTTTGGAAAAAAACAAAAA
Found at i:9370019 original size:183 final size:183
Alignment explanation
Indices: 9369711--9370087 Score: 549
Period size: 183 Copynumber: 2.1 Consensus size: 183
9369701 CGAAGTATGG
* * * *
9369711 GACACACGGTTGTGTACCAACTCGTGTGTCCGCCTGTGTGGGTATTCAAAACAGGGTTACACGGC
1 GACACACGGCTGTGTACCAACTCGTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGGC
* * * *
9369776 AATGTCACAGGTTGTATGCCAGACCATGTGTGCATTCAAAGTTTGGTCACATAGCCATGTCACCA
66 AATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACCA
*
9369841 AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCATTTAAAATTTAATT
131 AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
* * * * * *
9369894 GACACACGGCTGTGTCCCAGC-CTGTGTGTCCGCTTGTGCGAGTATTCAAAATAGGGTCATATGG
1 GACACACGGCTGTGTACCAACTC-GTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGG
** * *
9369958 CCGTGTCACAGGTCGTGTGCCAAAACTTGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACC
65 CAATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACC
* *
9370023 AGGCCGTGTAACTCTCTGAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
130 AAGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
9370077 GACACACGGCT
1 GACACACGGCT
9370088 ATGTGGTGTG
Statistics
Matches: 172, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
182 1 0.01
183 171 0.99
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (183 bp):
GACACACGGCTGTGTACCAACTCGTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGGC
AATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACCA
AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
Found at i:9376886 original size:43 final size:42
Alignment explanation
Indices: 9376775--9376888 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
9376765 ATGCCATATC
* * * * *
9376775 CCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGT
1 CCAGACATGGTCTTACATGTAATCATATAGCGATGCCAATGT
* * *
9376817 CTCAGACAGGGTCTAACACG-ATATCATATAGCGATGCCAATGTT
1 C-CAGACATGGTCTTACATGTA-ATCATATAGCGATGCCAATG-T
*
9376861 CCAGACATAGTCTTACATGTAATCATAT
1 CCAGACATGGTCTTACATGTAATCATAT
9376889 CTCAGTAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.02
43 52 0.93
44 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
CCAGACATGGTCTTACATGTAATCATATAGCGATGCCAATGT
Found at i:9383056 original size:43 final size:43
Alignment explanation
Indices: 9383019--9383115 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
9383009 TCACATATCG
* *
9383019 ATGCCATTGTCTCAGACAGGGTCTTACACATAATCACAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
* **
9383062 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
* *
9383105 ATTCTAATGTC
1 ATGCCAATGTC
9383116 ATGGCATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
Found at i:9385798 original size:19 final size:19
Alignment explanation
Indices: 9385752--9385799 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9385742 GTATATATTT
9385752 TAAA-TTTATTTAGGCAGA
1 TAAATTTTATTTAGGCAGA
* *
9385770 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGCAGA
*
9385789 TAAGTTTTATT
1 TAAATTTTATT
9385800 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGCAGA
Found at i:9390477 original size:19 final size:19
Alignment explanation
Indices: 9390431--9390478 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9390421 GTATATATTT
9390431 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
9390449 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
9390468 TAAGTTTTATT
1 TAAATTTTATT
9390479 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:9390539 original size:43 final size:43
Alignment explanation
Indices: 9390492--9390582 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
9390482 ATTCTAGGAA
** * *
9390492 TATTTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGAAAC
1 TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
* * *
9390535 TA-TTTTCCCTTATGTTTTAATAGTTTATTAGAACAAGGGAAC
1 TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
9390577 TATTTT
1 TATTTT
9390583 CCCAATTAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 35 0.88
43 5 0.12
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (43 bp):
TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
Found at i:9390561 original size:42 final size:42
Alignment explanation
Indices: 9390502--9390585 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
9390492 TATTTTTATT
* *
9390502 TTATCTTTTAGTAGTTTATTAGAATAAGGAAACTATTTTCCC
1 TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
* *
9390544 TTATGTTTTAATAGTTTATTAGAACAAGGGAACTATTTTCCC
1 TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
9390586 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (42 bp):
TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
Found at i:9394751 original size:17 final size:19
Alignment explanation
Indices: 9394707--9394756 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 19
9394697 TTAAATCTAT
9394707 TATTATATATATTTTTGAAAA
1 TATT-TATATATTTTT-AAAA
9394728 TATTTATATATTTTT-AAA
1 TATTTATATATTTTTAAAA
9394746 -ATTTATATATT
1 TATTTATATATT
9394757 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
20 11 0.38
21 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTTATATATTTTTAAAA
Found at i:9394759 original size:20 final size:21
Alignment explanation
Indices: 9394707--9394755 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
9394697 TTAAATCTAT
9394707 TATTATATATATTTTTGAAAA
1 TATTATATATATTTTTGAAAA
9394728 TATT-TATATATTTTT-AAAA
1 TATTATATATATTTTTGAAAA
9394747 T-TTATATAT
1 TATTATATAT
9394756 TATTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 11 0.41
21 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTATATATATTTTTGAAAA
Found at i:9394838 original size:20 final size:20
Alignment explanation
Indices: 9394793--9394839 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
9394783 AATTTTTATG
**
9394793 TTTTTAAAATTTTTTTATTA
1 TTTTTAAAATTTAATTATTA
9394813 TATTTTAAAA-TTAATTATGTA
1 T-TTTTAAAATTTAATTAT-TA
9394834 TTTTTA
1 TTTTTA
9394840 TATATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTAAAATTTAATTATTA
Found at i:9394925 original size:51 final size:51
Alignment explanation
Indices: 9394853--9394960 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
9394843 ATTTATTGAA
* * * *
9394853 TTTTAAAAATTAGGATCAAATTGAGATCATTTGTAAATTTTGAGGGTT-AAT
1 TTTTTAAAATTAGGATCAAATTGAGATAATTTGTAAA-GTTGAGGATTAAAT
* *
9394904 TTTTTAAAATTATGA-CTAAATTGATATAATTTGTAAAGTTGAGGATTAAAT
1 TTTTTAAAATTAGGATC-AAATTGAGATAATTTGTAAAGTTGAGGATTAAAT
9394955 TTTTTA
1 TTTTTA
9394961 TTATACCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 9 0.18
51 40 0.82
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (51 bp):
TTTTTAAAATTAGGATCAAATTGAGATAATTTGTAAAGTTGAGGATTAAAT
Found at i:9396646 original size:23 final size:23
Alignment explanation
Indices: 9396620--9396667 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9396610 GCTCTGTGTA
9396620 AGCTTCCTGTTATAAGGCTTGAG
1 AGCTTCCTGTTATAAGGCTTGAG
9396643 AGCTTCCTGTTATAAGGCTTGAG
1 AGCTTCCTGTTATAAGGCTTGAG
9396666 AG
1 AG
9396668 TATGCTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (23 bp):
AGCTTCCTGTTATAAGGCTTGAG
Found at i:9411229 original size:58 final size:58
Alignment explanation
Indices: 9411157--9411278 Score: 244
Period size: 58 Copynumber: 2.1 Consensus size: 58
9411147 CACATAGTAT
9411157 CACCCATGCGACCTAGCTACATAATAATGTCTTGTAGCTCTCTTGTACACATGATGTG
1 CACCCATGCGACCTAGCTACATAATAATGTCTTGTAGCTCTCTTGTACACATGATGTG
9411215 CACCCATGCGACCTAGCTACATAATAATGTCTTGTAGCTCTCTTGTACACATGATGTG
1 CACCCATGCGACCTAGCTACATAATAATGTCTTGTAGCTCTCTTGTACACATGATGTG
9411273 CACCCA
1 CACCCA
9411279 ACACCATACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (58 bp):
CACCCATGCGACCTAGCTACATAATAATGTCTTGTAGCTCTCTTGTACACATGATGTG
Found at i:9418838 original size:39 final size:39
Alignment explanation
Indices: 9418795--9418873 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
9418785 AAGCTTAGTG
9418795 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
1 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
9418834 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
1 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
9418873 A
1 A
9418874 TCAACAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (39 bp):
AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
Found at i:9420800 original size:28 final size:27
Alignment explanation
Indices: 9420769--9420842 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 27
9420759 GGGTGTTACA
* *
9420769 AATTGGGTGACCAATTTAAAATATTCAT
1 AATTGGGTGACAAATTTAAAA-ATCCAT
* *
9420797 AATTTGGTGACTAA---AAAAATCCAT
1 AATTGGGTGACAAATTTAAAAATCCAT
*
9420821 AGTTGGGTGACAAATTTAAAAA
1 AATTGGGTGACAAATTTAAAAA
9420843 AATCTTAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
24 16 0.43
25 4 0.11
27 5 0.14
28 12 0.32
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (27 bp):
AATTGGGTGACAAATTTAAAAATCCAT
Found at i:9420851 original size:28 final size:29
Alignment explanation
Indices: 9420808--9420862 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
9420798 ATTTGGTGAC
*
9420808 TAAAAAAATCCATAGTTGGGTGACAAATT
1 TAAAAAAATCCATAGTTAGGTGACAAATT
*
9420837 TAAAAAAAT-CTTAGTTAGGTGACAAA
1 TAAAAAAATCCATAGTTAGGTGACAAA
9420863 AAAGAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.27
Consensus pattern (29 bp):
TAAAAAAATCCATAGTTAGGTGACAAATT
Found at i:9421376 original size:16 final size:18
Alignment explanation
Indices: 9421343--9421378 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
9421333 TTTAAATAAG
9421343 AATTTTATATAGTTTTTA
1 AATTTTATATAGTTTTTA
9421361 AATTTTAT-TA-TTTTTA
1 AATTTTATATAGTTTTTA
9421377 AA
1 AA
9421379 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTTTATATAGTTTTTA
Found at i:9425532 original size:3 final size:3
Alignment explanation
Indices: 9425524--9425556 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9425514 CAATCAATTT
9425524 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9425557 TTACCAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9428741 original size:29 final size:29
Alignment explanation
Indices: 9428708--9428772 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
9428698 CATTAGAAGA
9428708 TAAATTTGACAAGCTCACTAATGTAGTTC
1 TAAATTTGACAAGCTCACTAATGTAGTTC
9428737 TAAATTTGACAAGCTCACTAATGTAGTTC
1 TAAATTTGACAAGCTCACTAATGTAGTTC
*
9428766 AAAATTT
1 TAAATTT
9428773 ACTTGCAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (29 bp):
TAAATTTGACAAGCTCACTAATGTAGTTC
Found at i:9434066 original size:27 final size:27
Alignment explanation
Indices: 9434036--9434089 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9434026 ATAAAATACA
9434036 TTTTTTAATGCCTAATTTAATAGATTG
1 TTTTTTAATGCCTAATTTAATAGATTG
*
9434063 TTTTTTAATGTCTAATTTAATAGATTG
1 TTTTTTAATGCCTAATTTAATAGATTG
9434090 AATGAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.54
Consensus pattern (27 bp):
TTTTTTAATGCCTAATTTAATAGATTG
Found at i:9434517 original size:21 final size:21
Alignment explanation
Indices: 9434493--9434591 Score: 126
Period size: 21 Copynumber: 4.7 Consensus size: 21
9434483 TCGGGATAAA
* * *
9434493 CTCTTTTGAGATTTTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAG
* *
9434514 CTCTTATGAGCTTTTGTTAAG
1 CTCTTTTGAGCTTCTGTTAAG
9434535 CTCTTTTGAGCTTCTGTTAAG
1 CTCTTTTGAGCTTCTGTTAAG
*
9434556 CTCTTTTGAGCTTCTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAG
* *
9434577 TTCTTGTGAGCTTCT
1 CTCTTTTGAGCTTCT
9434592 ATTGGTGTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.13, C:0.18, G:0.19, T:0.49
Consensus pattern (21 bp):
CTCTTTTGAGCTTCTGTTAAG
Found at i:9441701 original size:188 final size:187
Alignment explanation
Indices: 9441384--9441758 Score: 696
Period size: 188 Copynumber: 2.0 Consensus size: 187
9441374 AACCGATTCT
*
9441384 AACATCATCCTTAGTAAACATTCAAAAACTTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
1 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
*
9441449 TATTTTCATATTAGTCCCTAAACTCAAACCTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
66 TATTTTCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
*
9441514 CAACCAAGTTTACGAATTCATCATTTAACATCAAAAAAATTTAAAAAACCATCAATGG
131 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTT-AAAAACCATCAATGG
*
9441572 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATGTACTTGCTAAATTTTTCA
1 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
*
9441637 TATTTTCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCCTTTATAAAGTAGTCCTAATTTA
66 TATTTTCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
9441702 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
131 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
9441759 CAAGTTCCTA
Statistics
Matches: 182, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
187 15 0.08
188 167 0.92
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (187 bp):
AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
TATTTTCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
Found at i:9442758 original size:17 final size:16
Alignment explanation
Indices: 9442736--9442769 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9442726 AAGGATTAAA
9442736 ATAAATAACGAAAATAC
1 ATAAATAA-GAAAATAC
*
9442753 ATAAATAAGTAAATAC
1 ATAAATAAGAAAATAC
9442769 A
1 A
9442770 AACAAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAATAAGAAAATAC
Found at i:9450235 original size:40 final size:39
Alignment explanation
Indices: 9450151--9450335 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
9450141 TCGAATGATG
* * * * *
9450151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
9450191 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
9450231 TCCGGTCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
9450270 TCCGGGTTAAGTGCAGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
9450311 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
9450336 AACAAGTAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9450368 original size:79 final size:79
Alignment explanation
Indices: 9450152--9450368 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 79
9450142 CGAATGATGT
* *
9450152 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGG-TTAA-ATTCCGAAGGCAT
*
9450214 TTGTGCGAGTTACTAATT
62 TTGTGCGAGTTACTAATA
* * * * * * *
9450232 CCGGTCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTGCAGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGTTAAATTCCGAAGGCATTT
*
9450295 GTGTGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
* **
9450311 CCGGGCTATGTCCCGAAGGCATTTGAACAAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAAATTCCGAAGG
9450369 TACGTGATTC
Statistics
Matches: 108, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
78 2 0.02
79 65 0.60
80 41 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAAATTCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:9456948 original size:39 final size:40
Alignment explanation
Indices: 9456848--9457032 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
9456838 TCGAATGATG
* * * *
9456848 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
9456887 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
9456928 TCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
9456967 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
9457006 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
9457033 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:9457063 original size:79 final size:79
Alignment explanation
Indices: 9456900--9457065 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
9456890 TGGACTAAGA
* **
9456900 TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTA
* *
9456965 AATCCGGGTTAAGT
66 AATCCGGATTAAAT
* * * *
9456979 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-
*
9457042 CTATATCC-GATTAAAT
63 CTAAATCCGGATTAAAT
9457058 TCCGAAGG
1 TCCGAAGG
9457066 TACGTGATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTA
AATCCGGATTAAAT
Found at i:9458715 original size:17 final size:18
Alignment explanation
Indices: 9458683--9458724 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
9458673 TATACTTTCT
9458683 TTTATAAACTATAAAATAA
1 TTTATAAAC-ATAAAATAA
*
9458702 TTTATAAA-ATAAAATAG
1 TTTATAAACATAAAATAA
9458719 TTTATA
1 TTTATA
9458725 GTTATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTATAAACATAAAATAA
Found at i:9470808 original size:27 final size:27
Alignment explanation
Indices: 9470778--9470928 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
9470768 ATATTGAGTC
* * *
9470778 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9470805 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9470833 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
9470860 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAGTCAAAT
*
9470887 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9470914 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9470929 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.04
27 75 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9476940 original size:26 final size:26
Alignment explanation
Indices: 9476910--9476961 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9476900 GACAAATAGA
9476910 AGCTAATAAACGAAAATGATTTTAAC
1 AGCTAATAAACGAAAATGATTTTAAC
* *
9476936 AGCTAATAAATGAAAATGGTTTTAAC
1 AGCTAATAAACGAAAATGATTTTAAC
9476962 TTGGTGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (26 bp):
AGCTAATAAACGAAAATGATTTTAAC
Found at i:9482610 original size:18 final size:18
Alignment explanation
Indices: 9482589--9482649 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
9482579 CGATCGATTA
*
9482589 TTCAATAACGGTCAATTG
1 TTCAATAACAGTCAATTG
* *
9482607 TTCAGTAACAGTC-AGTG
1 TTCAATAACAGTCAATTG
* *
9482624 TTGCAGTAACAGTCAATTA
1 TT-CAATAACAGTCAATTG
9482643 TTCAATA
1 TTCAATA
9482650 CCTTTATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 5 0.14
18 26 0.74
19 4 0.11
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
TTCAATAACAGTCAATTG
Found at i:9484796 original size:23 final size:23
Alignment explanation
Indices: 9484770--9484852 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
9484760 GGATCCAAGA
9484770 TGAATTAATTTTGAATCCGTTTG
1 TGAATTAATTTTGAATCCGTTTG
* **
9484793 TGAATTAATTTACTTGTGATCC--AAG
1 TGAATTAA-TT--TTG-AATCCGTTTG
9484818 ATGAATTAATTTTGAATCCGTTTG
1 -TGAATTAATTTTGAATCCGTTTG
9484842 TGAATTAATTT
1 TGAATTAATTT
9484853 ACTTGTGACG
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 4 0.09
23 22 0.47
24 3 0.06
25 3 0.06
26 11 0.23
27 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (23 bp):
TGAATTAATTTTGAATCCGTTTG
Found at i:9484818 original size:49 final size:49
Alignment explanation
Indices: 9484761--9484860 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
9484751 CATTGGACTG
9484761 GATCCAAGATGAATTAATTTTGAATCCGTTTGTGAATTAATTTACTTGT
1 GATCCAAGATGAATTAATTTTGAATCCGTTTGTGAATTAATTTACTTGT
9484810 GATCCAAGATGAATTAATTTTGAATCCGTTTGTGAATTAATTTACTTGT
1 GATCCAAGATGAATTAATTTTGAATCCGTTTGTGAATTAATTTACTTGT
9484859 GA
1 GA
9484861 CGTTCATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (49 bp):
GATCCAAGATGAATTAATTTTGAATCCGTTTGTGAATTAATTTACTTGT
Found at i:9486063 original size:21 final size:21
Alignment explanation
Indices: 9486022--9486064 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9486012 TTTAGTTAAG
* *
9486022 TTTTAATTACATTTCCAAAAA
1 TTTTAATTAAATTTCAAAAAA
9486043 TTTTAATTAAATTT-AATAAAA
1 TTTTAATTAAATTTCAA-AAAA
9486064 T
1 T
9486065 GTGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAATTAAATTTCAAAAAA
Found at i:9489419 original size:48 final size:48
Alignment explanation
Indices: 9489367--9489494 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 48
9489357 GACTTATTAT
* * * *
9489367 GATGCCAATGCCATGTCCCGGACATGGTTTTACATGGGTTCACATAAC
1 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAC
* * **
9489415 GATGCCAAAGCTATGTCCTAGACATGGTCTTACATGGGATCACATGTC
1 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAC
* * * *
9489463 -ACTGCCGAAGCCATATCCCTGATATGGTCTTA
1 GA-TGCCAAAGCCATGTCCCAGACATGGTCTTA
9489495 TACGGGAGCT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
47 1 0.02
48 64 0.98
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAC
Found at i:9491266 original size:84 final size:83
Alignment explanation
Indices: 9491160--9491320 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 83
9491150 CTTGTGACTT
* ** * * * *
9491160 GTCGATTAAGATTGCAACCTTATACTTATTAGAT-TTTTCGAATTTTGTAGTTTGTCGATTTAAG
1 GTCGATTAAGATCGCAACCTTATACTTACAAGATATTTT-GAATCTTGCAGCTTGTCGATTTAAA
9491224 ATCGCAA-CCTTATCGGCTC
65 ATCG-AAGCCTTATCGGCTC
* *
9491243 GTCGATTTAAGATCGCAATCTTATACTTACAAGATATTTTGAATCTTGCAGCTTGTTGATTTAAA
1 GTCGA-TTAAGATCGCAACCTTATACTTACAAGATATTTTGAATCTTGCAGCTTGTCGATTTAAA
9491308 ATCGAAGCCTTAT
65 ATCGAAGCCTTAT
9491321 ACTTACAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
83 7 0.11
84 55 0.83
85 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (83 bp):
GTCGATTAAGATCGCAACCTTATACTTACAAGATATTTTGAATCTTGCAGCTTGTCGATTTAAAA
TCGAAGCCTTATCGGCTC
Found at i:9491320 original size:54 final size:53
Alignment explanation
Indices: 9491262--9491603 Score: 278
Period size: 54 Copynumber: 6.3 Consensus size: 53
9491252 AGATCGCAAT
*
9491262 CTTATACTTACAAGATATTTTGAATCTTGCAGCTTGTTGATTTAAAATCGAAGC
1 CTTATACTTACAAGAT-TTTTGAATCTTGCAGCTTGTTGATTTAATATCGAAGC
* * * * **
9491316 CTTATACTTACAAGATTTTTTGTATCTTACGGCTCGTCAATTTAATATCGCAA-C
1 CTTATACTTACAAGA-TTTTTGAATCTTGCAGCTTGTTGATTTAATATCG-AAGC
* * * *
9491370 CTTATACTTATAAGATTTTTTGAATCTTGCAGCTCT-CTGATTTAATATTGCAGC
1 CTTATACTTACAAGA-TTTTTGAATCTTGCAGCT-TGTTGATTTAATATCGAAGC
* ** * **
9491424 CTTATACTTAAAAGATTTTCTGAATCTTGTGGTTTACTGATTTAATATCGCAA-C
1 CTTATACTTACAAGATTTT-TGAATCTTGCAGCTTGTTGATTTAATATCG-AAGC
* * ** * * *
9491478 CTTATACTTACAAGATTTTTCATATCTTGCCA-CTTATCAATTTAAGATCGCATC
1 CTTATACTTACAAGATTTTTGA-ATCTTG-CAGCTTGTTGATTTAATATCGAAGC
* ** * * * * *
9491532 TTTATACTTACAAGATTCTCAGAATCTTGCAGCTCGTTGATGTAAGATCGCAGA
1 CTTATACTTACAAGATT-TTTGAATCTTGCAGCTTGTTGATTTAATATCGAAGC
9491586 CTTATACTTACAAGATTT
1 CTTATACTTACAAGATTT
9491604 CGAAAATCTT
Statistics
Matches: 231, Mismatches: 45, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
53 12 0.05
54 213 0.92
55 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (53 bp):
CTTATACTTACAAGATTTTTGAATCTTGCAGCTTGTTGATTTAATATCGAAGC
Found at i:9491366 original size:108 final size:106
Alignment explanation
Indices: 9491232--9491603 Score: 374
Period size: 108 Copynumber: 3.4 Consensus size: 106
9491222 AGATCGCAAC
*
9491232 CTTATCGGCTCGTCGATTTAAGATCGCAATCTTATACTTACAAGATATTTTGAATCTTGCAGCTT
1 CTTA-CGGCTCGTCGATTTAAGATCGCAACCTTATACTTACAAGAT-TTTTGAATCTTGCAGCTT
* * *
9491297 GTTGATTTAAAATCGAAGCCTTATACTTACAAGATTTTTTGTAT
64 -TTGATTTAAAATCGCAGCCTTATACTTACAAGATTTTCTGAAT
* * *
9491341 CTTACGGCTCGTCAATTTAATATCGCAACCTTATACTTATAAGATTTTTTGAATCTTGCAGCTCT
1 CTTACGGCTCGTCGATTTAAGATCGCAACCTTATACTTACAAGA-TTTTTGAATCTTGCAGCT-T
* * * *
9491406 CTGATTTAATATTGCAGCCTTATACTTAAAAGATTTTCTGAAT
64 TTGATTTAAAATCGCAGCCTTATACTTACAAGATTTTCTGAAT
** * * *
9491449 CTTGTGG-T-TTACTGATTTAATATCGCAACCTTATACTTACAAGATTTTTCATATCTTGCCA-C
1 CTTACGGCTCGT-C-GATTTAAGATCGCAACCTTATACTTACAAGATTTTTGA-ATCTTG-CAGC
** * * * * *
9491511 TTATCAATTTAAGATCGCATCTTTATACTTACAAGATTCTCAGAAT
62 TT-TTGATTTAAAATCGCAGCCTTATACTTACAAGATTTTCTGAAT
* * * *
9491557 CTTGCAGCTCGTTGATGTAAGATCGCAGA-CTTATACTTACAAGATTT
1 CTTACGGCTCGTCGATTTAAGATCGCA-ACCTTATACTTACAAGATTT
9491604 CGAAAATCTT
Statistics
Matches: 220, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
106 1 0.00
107 9 0.04
108 199 0.90
109 10 0.05
110 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (106 bp):
CTTACGGCTCGTCGATTTAAGATCGCAACCTTATACTTACAAGATTTTTGAATCTTGCAGCTTTT
GATTTAAAATCGCAGCCTTATACTTACAAGATTTTCTGAAT
Found at i:9491520 original size:162 final size:161
Alignment explanation
Indices: 9491239--9491603 Score: 421
Period size: 162 Copynumber: 2.3 Consensus size: 161
9491229 AACCTTATCG
* * **
9491239 GCTCGTCGATTTAAGATCGCA-ATCTTATACTTACAAGATATTTTGAATCTTGCAGCTTGTTGAT
1 GCTCGTTGATGTAAGATCGCAGA-CTTATACTTACAAGAT-TTTTGAATCTTGCAGCTTACTGAT
** ** * *
9491303 TTAAAATCGAAGCCTTATACTTACAAGATTTTTTGTATCTTACGGCTCGTCAATTTAATATCGCA
64 TTAAAATCGAAGCCTTATACTTACAAGATTTTTCATATCTTACCACTCATCAATTTAAGATCGCA
* * **
9491368 ACCTTATACTTATAAGATTTTTTGAATCTTGCA
129 ACCTTATACTTACAAGATTCTCAGAATCTTGCA
* * * * * ** *
9491401 GCTC-TCTGATTTAATATTGCAGCCTTATACTTAAAAGATTTTCTGAATCTTGTGGTTTACTGAT
1 GCTCGT-TGATGTAAGATCGCAGACTTATACTTACAAGATTTT-TGAATCTTGCAGCTTACTGAT
* * *
9491465 TTAATATCGCAA-CCTTATACTTACAAGATTTTTCATATCTTGCCACTTATCAATTTAAGATCGC
64 TTAAAATCG-AAGCCTTATACTTACAAGATTTTTCATATCTTACCACTCATCAATTTAAGATCGC
* *
9491529 ATCTTTATACTTACAAGATTCTCAGAATCTTGCA
128 AACCTTATACTTACAAGATTCTCAGAATCTTGCA
9491563 GCTCGTTGATGTAAGATCGCAGACTTATACTTACAAGATTT
1 GCTCGTTGATGTAAGATCGCAGACTTATACTTACAAGATTT
9491604 CGAAAATCTT
Statistics
Matches: 168, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
161 4 0.02
162 161 0.96
163 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (161 bp):
GCTCGTTGATGTAAGATCGCAGACTTATACTTACAAGATTTTTGAATCTTGCAGCTTACTGATTT
AAAATCGAAGCCTTATACTTACAAGATTTTTCATATCTTACCACTCATCAATTTAAGATCGCAAC
CTTATACTTACAAGATTCTCAGAATCTTGCA
Found at i:9492623 original size:67 final size:67
Alignment explanation
Indices: 9492527--9492663 Score: 240
Period size: 67 Copynumber: 2.0 Consensus size: 67
9492517 CAAATACGAG
9492527 TAATCCTAAGAGAGGGGAAGGGGGAAAGGAACCATCAACAGAAGTGTAGACAAAATAAATGGTGT
1 TAATCCTAAGAGAGGGGAAGGGGGAAAGGAACCATCAACAGAAGTGTAGACAAAATAAATGGTGT
9492592 CA
66 CA
* *
9492594 TAATCCTAAGAGAATGGGATGGGGG-AAGGAACCATCAACAGAAGTGTAGACAAAATAAATGGTG
1 TAATCCTAAGAG-AGGGGAAGGGGGAAAGGAACCATCAACAGAAGTGTAGACAAAATAAATGGTG
9492658 TCA
65 TCA
9492661 TAA
1 TAA
9492664 CAATGGTCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 57 0.85
68 10 0.15
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (67 bp):
TAATCCTAAGAGAGGGGAAGGGGGAAAGGAACCATCAACAGAAGTGTAGACAAAATAAATGGTGT
CA
Found at i:9492980 original size:20 final size:20
Alignment explanation
Indices: 9492957--9493031 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
9492947 ATATTTTTTT
9492957 ATTTTTATATGAT-TTTTAAA
1 ATTTTT-TATGATATTTTAAA
*
9492977 ATTTTTTATTATATTTTAAA
1 ATTTTTTATGATATTTTAAA
* * *
9492997 AATATTTATG-TATTTTATAT
1 ATTTTTTATGATATTTTA-AA
9493017 ATTTTTT-TGA-ATTTT
1 ATTTTTTATGATATTTT
9493032 TTAGGTTTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 19 0.42
20 26 0.58
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTTATGATATTTTAAA
Done.