Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 103 of 186
Found at i:33812522 original size:28 final size:29
Alignment explanation
Indices: 33812463--33812527 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
33812453 TATTTGAAAG
* *
33812463 TTTTTATTTAATTCACTAAACTATTCAAAT
1 TTTTTTTTTAAATCACTAAACTATT-AAAT
**
33812493 TTTTTTTTTAAATCACTAGTCTATT-AAT
1 TTTTTTTTTAAATCACTAAACTATTAAAT
33812521 TTTTTTT
1 TTTTTTT
33812528 AAGTTTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 10 0.32
30 21 0.68
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTTTTTAAATCACTAAACTATTAAAT
Found at i:33824609 original size:80 final size:79
Alignment explanation
Indices: 33824525--33824696 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
33824515 GGACTAAGAT
*
33824525 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
33824589 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
33824605 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33824670 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
33824684 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33824697 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:33824676 original size:39 final size:39
Alignment explanation
Indices: 33824472--33824694 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
33824462 TTGAATGCTG
* * * * *
33824472 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
33824512 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
33824551 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
33824592 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
33824632 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
33824671 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33824695 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:33824714 original size:79 final size:80
Alignment explanation
Indices: 33824552--33824729 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
33824542 AGATACAAAT
* * * *
33824552 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
33824617 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
33824632 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
33824696 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33824711 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33824730 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:33828590 original size:29 final size:29
Alignment explanation
Indices: 33828532--33829413 Score: 1671
Period size: 29 Copynumber: 30.5 Consensus size: 29
33828522 ATAGTAAGTC
*
33828532 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828560 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828589 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828618 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828647 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828676 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828705 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828734 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828763 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828792 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828821 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828850 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828879 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828908 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828937 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828966 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33828995 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829024 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829053 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829082 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829111 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829140 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829169 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829198 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829227 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829256 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829285 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
33829314 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
33829343 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
33829371 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
33829400 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33829414 CAATCTCATG
Statistics
Matches: 842, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
28 39 0.05
29 801 0.95
30 2 0.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:33845605 original size:64 final size:64
Alignment explanation
Indices: 33845504--33846360 Score: 1714
Period size: 64 Copynumber: 13.4 Consensus size: 64
33845494 TTCAACTGAT
33845504 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845568 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845632 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845696 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845760 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845824 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845888 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33845952 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846016 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846080 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846144 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846208 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846272 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
1 TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
33846336 TTGTTGTGTAATCTGGTGCAACTTA
1 TTGTTGTGTAATCTGGTGCAACTTA
33846361 GTTTGAGCCT
Statistics
Matches: 793, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 793 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (64 bp):
TTGTTGTGTAATCTGGTGCAACTTATATCTCACTAAACTTTTGAACGTACTCCTAAATAATGCC
Found at i:33850928 original size:33 final size:33
Alignment explanation
Indices: 33850891--33850953 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
33850881 TGTATCTCTC
33850891 AATTACAAACAAGTAAACCCAAATCTAATTTGT
1 AATTACAAACAAGTAAACCCAAATCTAATTTGT
* *
33850924 AATTACAAACAATTAAACCTAAATCTAATT
1 AATTACAAACAAGTAAACCCAAATCTAATT
33850954 GTTAAGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (33 bp):
AATTACAAACAAGTAAACCCAAATCTAATTTGT
Found at i:33851148 original size:28 final size:29
Alignment explanation
Indices: 33851089--33851153 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
33851079 TATTTGAAAG
* *
33851089 TTTTTATTTAATTCACTAAACTATTCAAAT
1 TTTTTTTTTAAATCACTAAACTATT-AAAT
**
33851119 TTTTTTTTTAAATCACTAGTCTATT-AAT
1 TTTTTTTTTAAATCACTAAACTATTAAAT
33851147 TTTTTTT
1 TTTTTTT
33851154 AAGTTTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 10 0.32
30 21 0.68
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTTTTTAAATCACTAAACTATTAAAT
Found at i:33866007 original size:45 final size:46
Alignment explanation
Indices: 33865942--33866042 Score: 170
Period size: 45 Copynumber: 2.2 Consensus size: 46
33865932 GATAATATAG
33865942 TATTAAAATAAATAAAATAAAATTAATTGGAAATATTTTCCATTAA
1 TATTAAAATAAATAAAATAAAATTAATTGGAAATATTTTCCATTAA
*
33865988 TATTAAAATAAAT-AAATAAAATTATTTGGAAATATTTTCCATTAA
1 TATTAAAATAAATAAAATAAAATTAATTGGAAATATTTTCCATTAA
*
33866033 T-TGAAAATAA
1 TATTAAAATAA
33866043 CTTACCTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 8 0.15
45 32 0.60
46 13 0.25
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (46 bp):
TATTAAAATAAATAAAATAAAATTAATTGGAAATATTTTCCATTAA
Found at i:33866347 original size:36 final size:37
Alignment explanation
Indices: 33866307--33866392 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
33866297 ATTTTATCCT
33866307 AATTCTAAAAATTAAAAAAAAACATTATA-AA-TAAAA
1 AATTCTAAAAATTAAAAAAAAA-ATTATAGAATTAAAA
*
33866343 AATTC-AAAAATATAAAAAAATAATTATAGAATTAAAA
1 AATTCTAAAAAT-TAAAAAAAAAATTATAGAATTAAAA
* *
33866380 AATTATTAAAATT
1 AATTCTAAAAATT
33866393 TTAAAAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 12 0.28
36 16 0.37
37 10 0.23
38 5 0.12
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (37 bp):
AATTCTAAAAATTAAAAAAAAAATTATAGAATTAAAA
Found at i:33866352 original size:35 final size:38
Alignment explanation
Indices: 33866307--33866383 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 38
33866297 ATTTTATCCT
33866307 AATTCTAAAAAT-TAAAAAAAAACATTATA-AA-TAAAA
1 AATTCTAAAAATATAAAAAAAAA-ATTATAGAATTAAAA
*
33866343 AATTC-AAAAATATAAAAAAATAATTATAGAATTAAAA
1 AATTCTAAAAATATAAAAAAAAAATTATAGAATTAAAA
33866380 AATT
1 AATT
33866384 ATTAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 12 0.32
36 16 0.43
37 9 0.24
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (38 bp):
AATTCTAAAAATATAAAAAAAAAATTATAGAATTAAAA
Found at i:33869510 original size:43 final size:43
Alignment explanation
Indices: 33869382--33869543 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
33869372 CAATATGTGT
* *
33869382 TTTCTTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA
* * * * *
33869425 TTTAAGTGTAAGACCATGT-TGGGGACATCGGCATCG-CATTTGA
1 TTT-CGTGTAAGACCACGTCT-GGGACGTTGGCATCGATATTTGA
*
33869468 TTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGA
* *
33869511 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
33869544 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 24 0.25
43 43 0.45
44 28 0.29
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
Found at i:33871678 original size:22 final size:21
Alignment explanation
Indices: 33871648--33871698 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
33871638 TTTCAATGTT
*
33871648 GTGTTTCGAGACATAGAGAACC
1 GTGTCTCGAGACATAGAGAA-C
33871670 GTGTCTCGAGACATAGAGAAC
1 GTGTCTCGAGACATAGAGAAC
33871691 GATGTCTC
1 G-TGTCTC
33871699 AAGATAGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (21 bp):
GTGTCTCGAGACATAGAGAAC
Found at i:33872782 original size:36 final size:35
Alignment explanation
Indices: 33872742--33872822 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 35
33872732 AATACATCCG
* *
33872742 AAGTAAT-ATGCGCTCAACACTTATCGGTATA-AACCA
1 AAGTAATGATGC-C-CAACACTTA-CGGAACATAACCA
*
33872778 AAGTAATGGTGCCCAACACTTACGGAACATAACCA
1 AAGTAATGATGCCCAACACTTACGGAACATAACCA
33872813 AAGTAA-GATG
1 AAGTAATGATG
33872823 TGACTGAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 8 0.21
35 20 0.51
36 8 0.21
37 3 0.08
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (35 bp):
AAGTAATGATGCCCAACACTTACGGAACATAACCA
Found at i:33872837 original size:25 final size:25
Alignment explanation
Indices: 33872802--33872859 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
33872792 AACACTTACG
33872802 GAACATAACCAAAGTAAGATGTGACT
1 GAAC-TAACCAAAGTAAGATGTGACT
33872828 GAACTAACCAAAGTAAGATGTGACT
1 GAACTAACCAAAGTAAGATGTGACT
33872853 GAACTAA
1 GAACTAA
33872860 GTAACTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (25 bp):
GAACTAACCAAAGTAAGATGTGACT
Found at i:33877176 original size:18 final size:17
Alignment explanation
Indices: 33877153--33877206 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
33877143 CTTCAAAAAT
33877153 AATTAAAAAGAAAGATAA
1 AATTAAAAAGAAA-ATAA
*
33877171 AATTAAAAAGAAAAAGAA
1 AATTAAAAAG-AAAATAA
* *
33877189 AAATAAAAATAAAATAA
1 AATTAAAAAGAAAATAA
33877206 A
1 A
33877207 TAAATGGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 7 0.23
18 21 0.68
19 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
AATTAAAAAGAAAATAA
Found at i:33877188 original size:24 final size:24
Alignment explanation
Indices: 33877157--33877202 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33877147 AAAAATAATT
* *
33877157 AAAAAGAAAGATAAAATTAAAAAG
1 AAAAAGAAAAATAAAAATAAAAAG
33877181 AAAAAGAAAAATAAAAATAAAA
1 AAAAAGAAAAATAAAAATAAAA
33877203 TAAATAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAAAGAAAAATAAAAATAAAAAG
Found at i:33877829 original size:20 final size:19
Alignment explanation
Indices: 33877788--33877839 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
33877778 TCGCTTCTCT
* *
33877788 CACGCGCGTGTGGTCTACCA
1 CACGCCCGTGT-GTCTAACA
33877808 CACGCCCGTGTGTCTGAACA
1 CACGCCCGTGTGTCT-AACA
33877828 CACTG-CCGTGTG
1 CAC-GCCCGTGTG
33877840 CCTTACCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.15, C:0.35, G:0.29, T:0.21
Consensus pattern (19 bp):
CACGCCCGTGTGTCTAACA
Found at i:33882070 original size:30 final size:30
Alignment explanation
Indices: 33882035--33882092 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
33882025 CACAGCCATG
*
33882035 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGGCGTATGGATC-ACCCGTGTGTC
33882065 ACACACGGGCGTATGGATCACCCGTGTG
1 ACACACGGGCGTATGGATCACCCGTGTG
33882093 GAAGTGTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTATGGATCACCCGTGTGTC
Found at i:33882550 original size:20 final size:20
Alignment explanation
Indices: 33882525--33882562 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33882515 GTAGTGAGAA
33882525 TTTATTTTCTAAGAATAAAT
1 TTTATTTTCTAAGAATAAAT
*
33882545 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
33882563 TAATTTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:33890503 original size:30 final size:32
Alignment explanation
Indices: 33890467--33890530 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
33890457 AATATGTATT
*
33890467 AAAT-AAAATATTTTAA-ATATTTTAATATAA
1 AAATAAAAATATTTTAATATAATTTAATATAA
33890497 AAATAAAAATATTTTAATATAATTTAATATAA
1 AAATAAAAATATTTTAATATAATTTAATATAA
33890529 AA
1 AA
33890531 GTAATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 12 0.39
32 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATAAAAATATTTTAATATAATTTAATATAA
Found at i:33890595 original size:16 final size:16
Alignment explanation
Indices: 33890576--33890661 Score: 54
Period size: 16 Copynumber: 5.6 Consensus size: 16
33890566 ATTTTTATTA
33890576 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
33890592 AATTATA-TTAAAATAT
1 AATTATATTTAATA-AT
* * *
33890608 AATTA-AATTATTTAT
1 AATTATATTTAATAAT
* * *
33890623 TATTAT-TTTTATTA-
1 AATTATATTTAATAAT
*
33890637 AATCATATTTAATAAT
1 AATTATATTTAATAAT
*
33890653 AATTCTATT
1 AATTATATT
33890662 AAAATTTAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
14 4 0.08
15 23 0.45
16 24 0.47
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:33890626 original size:26 final size:27
Alignment explanation
Indices: 33890555--33890627 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
33890545 AATATTACTA
*
33890555 AATTATATATTATTT-TTATTAAATTAT
1 AATTA-ATATTATTTATTATTAAAATAT
* * *
33890582 ATTTAATAATAATTA-TATTAAAATAT
1 AATTAATATTATTTATTATTAAAATAT
33890608 AATTAA-ATTATTTATTATTA
1 AATTAATATTATTTATTATTA
33890628 TTTTTATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 6 0.16
26 27 0.73
27 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATTAATATTATTTATTATTAAAATAT
Found at i:33890645 original size:61 final size:58
Alignment explanation
Indices: 33890532--33890671 Score: 199
Period size: 61 Copynumber: 2.3 Consensus size: 58
33890522 AATATAAAAG
* * *
33890532 TAATTATATTAAGAATATTACTAAATTATATATTATTTTTATTAAATTATATTTAATAA
1 TAATTATATTAA-AATATAATTAAATTATATATTATTTTTATTAAATCATATTTAATAA
33890591 TAATTATATTAAAATATAATTAAATTATTTATTATTATTTTTATTAAATCATATTTAATAA
1 TAATTATATTAAAATATAATTAAATTA--TA-TATTATTTTTATTAAATCATATTTAATAA
* *
33890652 TAATTCTATTAAAATTTAAT
1 TAATTATATTAAAATATAAT
33890672 AAAAATAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
58 13 0.18
59 12 0.16
60 2 0.03
61 46 0.63
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (58 bp):
TAATTATATTAAAATATAATTAAATTATATATTATTTTTATTAAATCATATTTAATAA
Found at i:33908612 original size:17 final size:16
Alignment explanation
Indices: 33908590--33908624 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
33908580 CATAGGCTGG
*
33908590 CACATGGGTATGTGGCT
1 CACATGGGCATGT-GCT
33908607 CACATGGGCATGTGCT
1 CACATGGGCATGTGCT
33908623 CA
1 CA
33908625 GCCCATGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (16 bp):
CACATGGGCATGTGCT
Found at i:33910489 original size:6 final size:6
Alignment explanation
Indices: 33910470--33910519 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
33910460 AGAAGTCTAA
* * *
33910470 AAAAAT AATAAT AAACAT AAACAT AAAAAT AAAAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
33910517 AAA
1 AAA
33910520 TGATAAATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:33912205 original size:8 final size:8
Alignment explanation
Indices: 33912192--33912229 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
33912182 ACAAATAAAT
33912192 AATAAAGA
1 AATAAAGA
33912200 AATAAAGA
1 AATAAAGA
33912208 AA-ATAAGA
1 AATA-AAGA
33912216 AATAAAGA
1 AATAAAGA
33912224 AATAAA
1 AATAAA
33912230 TAAAGATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.04
8 26 0.93
9 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (8 bp):
AATAAAGA
Found at i:33912213 original size:20 final size:19
Alignment explanation
Indices: 33912188--33912235 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 19
33912178 AATAACAAAT
33912188 AAATAATAAAGAAATAAAG
1 AAATAATAAAGAAATAAAG
33912207 -AA-AAT-AAGAAATAAAG
1 AAATAATAAAGAAATAAAG
33912223 AAATAAATAAAGA
1 AAAT-AATAAAGA
33912236 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 11 0.44
17 5 0.20
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AAATAATAAAGAAATAAAG
Found at i:33912213 original size:24 final size:24
Alignment explanation
Indices: 33912184--33912252 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 24
33912174 AACAAATAAC
33912184 AAATAAATAATAAAGAAATAAAGA
1 AAATAAATAATAAAGAAATAAAGA
*
33912208 AAATAAGA-AATAAAGAAATAAATA
1 AAATAA-ATAATAAAGAAATAAAGA
33912232 AAGATTAAATAAAATAAAGAA
1 AA-A-TAAAT--AATAAAGAA
33912253 TGGGTAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
24 23 0.61
25 3 0.08
26 3 0.08
28 9 0.24
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (24 bp):
AAATAAATAATAAAGAAATAAAGA
Found at i:33912242 original size:11 final size:12
Alignment explanation
Indices: 33912188--33912244 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
33912178 AATAACAAAT
33912188 AAAT-AATAAAG
1 AAATAAATAAAG
*
33912199 AAATAAAGAAA-
1 AAATAAATAAAG
*
33912210 ATAAGAAATAAAG
1 A-AATAAATAAAG
33912223 AAATAAATAAAG
1 AAATAAATAAAG
*
33912235 -ATTAAATAAA
1 AAATAAATAAA
33912245 ATAAAGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 14 0.37
12 23 0.61
13 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAG
Found at i:33917830 original size:49 final size:49
Alignment explanation
Indices: 33917757--33917856 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
33917747 GAATTGTTAC
*
33917757 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCTCGGTATTGAATGTT
1 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
* *
33917806 TTTAGAGCTTAATGCAAACGGAACGATTCCTTTCACGGTATTGAATGTT
1 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
33917855 TT
1 TT
33917857 CCCATACTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (49 bp):
TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
Found at i:33919937 original size:24 final size:24
Alignment explanation
Indices: 33919905--33919952 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33919895 ATTCAAATTA
33919905 CATATTGTTCTAAAAAGCTTGGAT
1 CATATTGTTCTAAAAAGCTTGGAT
*
33919929 CATATTGTTCTAAAGAGCTTGGAT
1 CATATTGTTCTAAAAAGCTTGGAT
33919953 AAGTTATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (24 bp):
CATATTGTTCTAAAAAGCTTGGAT
Found at i:33928319 original size:17 final size:18
Alignment explanation
Indices: 33928297--33928339 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33928287 CTACAAAAAG
*
33928297 AAAATTTAAAT-TTACAC
1 AAAATTTAAATATTAAAC
*
33928314 AAAATTTTAATTATTAAAC
1 AAAA-TTTAAATATTAAAC
33928333 AAAATTT
1 AAAATTT
33928340 CAGACTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 9 0.41
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTAAATATTAAAC
Found at i:33934318 original size:21 final size:22
Alignment explanation
Indices: 33934276--33934323 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
33934266 ACAAATTTTG
*
33934276 ATTTAAGTTTTATTCGTTTTAT
1 ATTTAAGTTTTATTCGTCTTAT
*
33934298 -TTTAAGTTTTAATTTG-CTTAT
1 ATTTAAGTTTT-ATTCGTCTTAT
33934319 ATTTA
1 ATTTA
33934324 TATACACGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (22 bp):
ATTTAAGTTTTATTCGTCTTAT
Found at i:33937220 original size:21 final size:21
Alignment explanation
Indices: 33937196--33937247 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
33937186 CGCCCATATG
33937196 GAGGAGACACGCACCCGTGTA
1 GAGGAGACACGCACCCGTGTA
* *
33937217 GAGGAGACACGTACCCGTGTG
1 GAGGAGACACGCACCCGTGTA
*
33937238 GAAGAGACAC
1 GAGGAGACAC
33937248 ATGCCCGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.35, T:0.10
Consensus pattern (21 bp):
GAGGAGACACGCACCCGTGTA
Found at i:33937254 original size:21 final size:21
Alignment explanation
Indices: 33937194--33937258 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
33937184 CACGCCCATA
* **
33937194 TGGAGGAGACACGCACCCGTG
1 TGGAAGAGACACATACCCGTG
* * *
33937215 TAGAGGAGACACGTACCCGTG
1 TGGAAGAGACACATACCCGTG
*
33937236 TGGAAGAGACACATGCCCGTG
1 TGGAAGAGACACATACCCGTG
33937257 TG
1 TG
33937259 ACCAAGCTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.26, C:0.25, G:0.35, T:0.14
Consensus pattern (21 bp):
TGGAAGAGACACATACCCGTG
Found at i:33939061 original size:24 final size:24
Alignment explanation
Indices: 33939023--33939075 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33939013 TGAGTTCAAG
*
33939023 AGAGCCATGTCAGGAAGCTCAT-A
1 AGAGCCATATCAGGAAGCTCATGA
* *
33939046 AGAGCCTATATCAGGACGCTTATGA
1 AGAGCC-ATATCAGGAAGCTCATGA
33939071 AGAGC
1 AGAGC
33939076 TGCGTTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 13 0.52
25 6 0.24
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
AGAGCCATATCAGGAAGCTCATGA
Found at i:33946044 original size:14 final size:14
Alignment explanation
Indices: 33946025--33946053 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33946015 TTGACGAGTA
33946025 TGTACATCCTTGAT
1 TGTACATCCTTGAT
33946039 TGTACATCCTTGAT
1 TGTACATCCTTGAT
33946053 T
1 T
33946054 ATAGACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (14 bp):
TGTACATCCTTGAT
Found at i:33947730 original size:35 final size:35
Alignment explanation
Indices: 33947691--33947773 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
33947681 ATTTTACATG
* *
33947691 TATACCATTTACACAATTTCGCCCCAAAGGACCTA
1 TATACCATTTACACAATATCACCCCAAAGGACCTA
*** *
33947726 TATACCATTTACATGGTATCACCCCAAAGGACCTG
1 TATACCATTTACACAATATCACCCCAAAGGACCTA
*
33947761 TATATCATTTACA
1 TATACCATTTACA
33947774 TGGTGTCACC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.29
Consensus pattern (35 bp):
TATACCATTTACACAATATCACCCCAAAGGACCTA
Found at i:33947774 original size:35 final size:35
Alignment explanation
Indices: 33947712--33947785 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
33947702 CACAATTTCG
33947712 CCCCAAAGGACCTATATACCATTTACATGGTATCA
1 CCCCAAAGGACCTATATACCATTTACATGGTATCA
* * *
33947747 CCCCAAAGGACCTGTATATCATTTACATGGTGTCA
1 CCCCAAAGGACCTATATACCATTTACATGGTATCA
33947782 CCCC
1 CCCC
33947786 GAAAAACCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (35 bp):
CCCCAAAGGACCTATATACCATTTACATGGTATCA
Found at i:33948666 original size:57 final size:57
Alignment explanation
Indices: 33948588--33949080 Score: 383
Period size: 57 Copynumber: 8.8 Consensus size: 57
33948578 GAAAATGATG
* * * * * * *
33948588 TCACACTTCCTTAAGATGGACTTTATATAATTCACCTATTTAAAGCGAAGCTAATAG
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
* * * * * *
33948645 TCACACATCTTTAACTTGGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAG
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
** * * * * *
33948702 TCATGCCTCTTTAAGATGGACTTTATATAGTTCACCTTTTTAAAGTAAAGTTGATAA
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
* * * * *
33948759 TCACAGCC-CCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGACATC-GATAA
1 TCACA-CCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGC-AAAGCTGATAA
* * * * * **
33948816 TCATACCTCTTTAACATGGACTTTATATAATTCATCTCTTTGAGGGAAATTTGATAA
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
** * * * ** *
33948873 TCATGCCTCTTTAAAATGGACTTTATATAATTCGCCTCTTTAAGGCAAAATTGATAG
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
* * * * * * ** * * *
33948930 TCACGCCTTTTTAAGATGTACTTTATAGAATTCACCTCTTTAAGGTGAAGTTCATAG
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
* * * *
33948987 TCACACCTCTTTAAGATGGAC------TAATTCACTTCTTTAAGGCAAAGCTGATAG
1 TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
* *
33949038 TCACATCT-TTCTAAGATGGACTTTATATAATTCACCTCTTTAA
1 TCACACCTCTT-TAACATGGACTTTATATAATTCACCTCTTTAA
33949081 GGTTTTAAGT
Statistics
Matches: 357, Mismatches: 68, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
50 2 0.01
51 41 0.11
56 5 0.01
57 305 0.85
58 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (57 bp):
TCACACCTCTTTAACATGGACTTTATATAATTCACCTCTTTAAAGCAAAGCTGATAA
Found at i:33948720 original size:114 final size:114
Alignment explanation
Indices: 33948598--33949080 Score: 502
Period size: 114 Copynumber: 4.3 Consensus size: 114
33948588 TCACACTTCC
* * * * * * **
33948598 TTAAGATGGACTTTATATAATTCACCTATTTAAAGCGAAGCTAATAGTCACACATCTTTAACTTG
1 TTAAGATGGACTTTATATAATTCACCTCTTTAAAGTGAAGTTGATAATCACACCTCTTTAAGATG
33948663 GACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTCT
66 GACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTCT
* * * *
33948712 TTAAGATGGACTTTATATAGTTCACCTTTTTAAAGTAAAGTTGATAATCACAGCC-CCTTAAGAT
1 TTAAGATGGACTTTATATAATTCACCTCTTTAAAGTGAAGTTGATAATCACA-CCTCTTTAAGAT
* * * * *
33948776 GGACTTTATATAATTCACCTCTTTAAGGCGACA-TCGATAATCATACCTCT
65 GGACTCTATATAATTCACCTCTTTAAGGC-AAAGTTGATAGTCATGCCTCT
* * * * * ** *
33948826 TTAACATGGACTTTATATAATTCATCTCTTT-GAGGGAAATTTGATAATCATGCCTCTTTAAAAT
1 TTAAGATGGACTTTATATAATTCACCTCTTTAAAGTG-AAGTTGATAATCACACCTCTTTAAGAT
* * * * *
33948890 GGACTTTATATAATTCGCCTCTTTAAGGCAAAATTGATAGTCACGCCTTT
65 GGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTCT
* * * * *
33948940 TTAAGATGTACTTTATAGAATTCACCTCTTTAAGGTGAAGTTCATAGTCACACCTCTTTAAGATG
1 TTAAGATGGACTTTATATAATTCACCTCTTTAAAGTGAAGTTGATAATCACACCTCTTTAAGATG
* * *
33949005 GA--C----TAATTCACTTCTTTAAGGCAAAGCTGATAGTCA--CATCTT
66 GACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTC-T
33949047 TCTAAGATGGACTTTATATAATTCACCTCTTTAA
1 T-TAAGATGGACTTTATATAATTCACCTCTTTAA
33949081 GGTTTTAAGT
Statistics
Matches: 304, Mismatches: 57, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
106 2 0.01
107 2 0.01
108 59 0.19
113 6 0.02
114 230 0.76
115 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (114 bp):
TTAAGATGGACTTTATATAATTCACCTCTTTAAAGTGAAGTTGATAATCACACCTCTTTAAGATG
GACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTCT
Found at i:33948802 original size:29 final size:29
Alignment explanation
Indices: 33948769--33948916 Score: 96
Period size: 29 Copynumber: 5.2 Consensus size: 29
33948759 TCACAGCCCC
33948769 TTAAGATGGACTTTATATAATTCACCTCT
1 TTAAGATGGACTTTATATAATTCACCTCT
* **
33948798 TTAAG--GCGAC-ATCGATAA-TCATACCTCT
1 TTAAGATG-GACTTTATATAATTC--ACCTCT
* *
33948826 TTAACATGGACTTTATATAATTCATCTCT
1 TTAAGATGGACTTTATATAATTCACCTCT
* * *
33948855 TT--GAGGGAAATTT-GATAA-TCATGCCTCT
1 TTAAGATGG-ACTTTATATAATTCA--CCTCT
* *
33948883 TTAAAATGGACTTTATATAATTCGCCTCT
1 TTAAGATGGACTTTATATAATTCACCTCT
33948912 TTAAG
1 TTAAG
33948917 GCAAAATTGA
Statistics
Matches: 86, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
26 5 0.06
27 13 0.15
28 23 0.27
29 28 0.33
30 13 0.15
31 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (29 bp):
TTAAGATGGACTTTATATAATTCACCTCT
Found at i:33948881 original size:171 final size:169
Alignment explanation
Indices: 33948595--33949080 Score: 540
Period size: 171 Copynumber: 2.9 Consensus size: 169
33948585 ATGTCACACT
* * * *
33948595 TCCTTAAGATGGACTTTATATAATTCACCTATTTAAAGCGAAGCTAATAGTCACACATCTTTAAC
1 TCCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGAA--TCATAGTCACACCTCTTTAAC
* * *
33948660 TTGGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAGTCATGCCTCTTTAAGATGGACTT
64 ATGGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAATCATGCCTCTTTAAAATGGACTT
* * * *
33948725 TATATAGTTCACCTTTTTAAAGTAAAGTTGATAATCACAGCC
129 TATATAATTCACCTCTTTAAAGCAAAATTGATAATCAC-GCC
* *
33948767 -CCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGACATCGATAATCATACCTCTTTAAC
1 TCCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGA-ATC-ATAGTCACACCTCTTTAAC
* * * * *
33948831 ATGGACTTTATATAATTCATCTCTTTGAGGGAAATTTGATAATCATGCCTCTTTAAAATGGACTT
64 ATGGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAATCATGCCTCTTTAAAATGGACTT
* * *
33948896 TATATAATTCGCCTCTTTAAGGCAAAATTGATAGTCACGCC
129 TATATAATTCACCTCTTTAAAGCAAAATTGATAATCACGCC
** * * * *
33948937 TTTTTAAGATGTACTTTATAGAATTCACCTCTTTAAGGTGAAGTTCATAGTCACACCTCTTTAAG
1 TCCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGAA--TCATAGTCACACCTCTTTAAC
* * * * *
33949002 ATGGA--C----TAATTCACTTCTTTAAGGCAAAGCTGATAGTCA--CATCTTTCTAAGATGGAC
64 ATGGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAATCATGCCTC-TT-TAAAATGGAC
33949059 TTTATATAATTCACCTCTTTAA
127 TTTATATAATTCACCTCTTTAA
33949081 GGTTTTAAGT
Statistics
Matches: 267, Mismatches: 40, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
163 3 0.01
164 2 0.01
165 56 0.21
170 5 0.02
171 198 0.74
172 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (169 bp):
TCCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGAATCATAGTCACACCTCTTTAACAT
GGACTCTATATAATTCACCTCTTTAAGGCAAAGTTGATAATCATGCCTCTTTAAAATGGACTTTA
TATAATTCACCTCTTTAAAGCAAAATTGATAATCACGCC
Found at i:33949038 original size:51 final size:51
Alignment explanation
Indices: 33948958--33949059 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
33948948 TACTTTATAG
** *
33948958 AATTCACCTCTTTAAGGTGAAGTTCATAGTCACACCTCTT-TAAGATGGACT
1 AATTCACCTCTTTAAGGCAAAGCTCATAGTCACACCT-TTCTAAGATGGACT
* * *
33949009 AATTCACTTCTTTAAGGCAAAGCTGATAGTCACATCTTTCTAAGATGGACT
1 AATTCACCTCTTTAAGGCAAAGCTCATAGTCACACCTTTCTAAGATGGACT
33949060 TTATATAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (51 bp):
AATTCACCTCTTTAAGGCAAAGCTCATAGTCACACCTTTCTAAGATGGACT
Found at i:33951962 original size:52 final size:50
Alignment explanation
Indices: 33951883--33951997 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
33951873 GAGAACACAT
* ** *
33951883 GTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGCAGTACTAA
1 GTGCAGGCTACTACGTGTACAAAATGG--TTAGGTCACATGTGCAGTACTAA
* * * *
33951935 GTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTACAAAATGGTTAGGTCACATGTGCAGTACTAA
33951985 GTGCAGGCTACTA
1 GTGCAGGCTACTA
33951998 TGCATACCCG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 33 0.60
52 22 0.40
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
GTGCAGGCTACTACGTGTACAAAATGGTTAGGTCACATGTGCAGTACTAA
Found at i:33957690 original size:50 final size:51
Alignment explanation
Indices: 33957618--33957760 Score: 180
Period size: 50 Copynumber: 2.8 Consensus size: 51
33957608 TAAAATGGTT
* * *
33957618 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
* * * *
33957668 TTAGGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
* * * *
33957719 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
33957761 AAATATAGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 42 0.54
51 36 0.46
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
Found at i:33957786 original size:51 final size:51
Alignment explanation
Indices: 33957731--33957854 Score: 144
Period size: 51 Copynumber: 2.4 Consensus size: 51
33957721 CGATCACATG
* *
33957731 TGTGGTACTAAGTGCAGGCCACTATGTGTAA-AATATAGCTTTGGAC-ACAAA
1 TGTGGTACTATGTGCAGGCCACTATGTG-AAGAAGATAGCTTT-GACTACAAA
* * * * *
33957782 TGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGGTAGCTTTGACTACAAG
1 TGTGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTTGACTACAAA
*
33957833 GGTGGTACTATGTGCAGGCCAC
1 TGTGGTACTATGTGCAGGCCAC
33957855 CGAGTATCCG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 5 0.08
51 57 0.92
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTTGACTACAAA
Found at i:33961927 original size:39 final size:38
Alignment explanation
Indices: 33961846--33962119 Score: 298
Period size: 39 Copynumber: 7.0 Consensus size: 38
33961836 CAAATCCAAT
* * *
33961846 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* * *
33961886 TACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
33961925 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
*
33961964 CACCAGCACAAATGCCTTCTGGG-CTTAACCCGGATATAA
1 CACCAGCACAAA-GCCTTC-GGGACTTAGCCCGGATATAA
* * * *
33962003 CACCAGCACGAATGCCTTCGGGGCTTAACCTGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
33962042 CACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
33962081 CACCCGCACGAATGCCTTCTGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
33962120 TTCTCCATTA
Statistics
Matches: 213, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.01
39 177 0.83
40 30 0.14
41 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:33970800 original size:19 final size:21
Alignment explanation
Indices: 33970766--33970805 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
33970756 AGTGCCATTA
*
33970766 ATCTTAAAAGTGTAG-CAAAT
1 ATCTAAAAAGTGTAGCCAAAT
33970786 ATCTAAAAAGT-TAGCCAAAT
1 ATCTAAAAAGTGTAGCCAAAT
33970806 GAGTATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (21 bp):
ATCTAAAAAGTGTAGCCAAAT
Found at i:33971244 original size:14 final size:13
Alignment explanation
Indices: 33971197--33971243 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 13
33971187 CAAACAAATG
33971197 AAAAATTAAAATGTA
1 AAAAATT-AAAT-TA
33971212 AAAAATTAAATTA
1 AAAAATTAAATTA
33971225 AAAAATATAAATATA
1 AAAAAT-TAAAT-TA
33971240 AAAA
1 AAAA
33971244 TGGCTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.27
14 9 0.30
15 13 0.43
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAATTAAATTA
Found at i:33972356 original size:30 final size:30
Alignment explanation
Indices: 33972322--33972385 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
33972312 GACACATGAC
33972322 TGTGGCAGCCTGTGTGGGCTCACACAACCG
1 TGTGGCAGCCTGTGTGGGCTCACACAACCG
*
33972352 TGTGGCAGCCTGTGTGGGCTCACACAACTG
1 TGTGGCAGCCTGTGTGGGCTCACACAACCG
33972382 TGTG
1 TGTG
33972386 CCCAGCCCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (30 bp):
TGTGGCAGCCTGTGTGGGCTCACACAACCG
Found at i:33974899 original size:53 final size:53
Alignment explanation
Indices: 33974819--33974925 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
33974809 CACAAACTGC
*
33974819 TTCAAGTATGGGTTCGAACCAATTAAATCAAAACACAGAACTAGAAAAAACAT
1 TTCAAGTATGGGTTCGAACCAATTAAATCAAAACACAAAACTAGAAAAAACAT
33974872 TTCAAGTATGGGTTCGAACCAATTAAATCAAAACACAAAACTAGAAAAAACAT
1 TTCAAGTATGGGTTCGAACCAATTAAATCAAAACACAAAACTAGAAAAAACAT
33974925 T
1 T
33974926 CCTTTTAGGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (53 bp):
TTCAAGTATGGGTTCGAACCAATTAAATCAAAACACAAAACTAGAAAAAACAT
Found at i:33975395 original size:26 final size:26
Alignment explanation
Indices: 33975365--33975452 Score: 151
Period size: 26 Copynumber: 3.4 Consensus size: 26
33975355 ATTTAGCCTA
33975365 GTAAAATTTTGACGATTTTACCCCTG
1 GTAAAATTTTGACGATTTTACCCCTG
33975391 GTAAAATTTTGACGATTTTACCCCTG
1 GTAAAATTTTGACGATTTTACCCCTG
*
33975417 GTAAAATTTTAAC-ATTTTTACCCCTG
1 GTAAAATTTTGACGA-TTTTACCCCTG
33975443 GTAAAATTTT
1 GTAAAATTTT
33975453 AAGAAAATTC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 1 0.02
26 59 0.98
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTACCCCTG
Found at i:33975610 original size:6 final size:6
Alignment explanation
Indices: 33975599--33975628 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
33975589 TGCAAGCTTC
33975599 CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
33975629 TGGAAACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:33978938 original size:30 final size:28
Alignment explanation
Indices: 33978887--33978942 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
33978877 AAAAAATATT
33978887 TTTTTAAATTTTTTTTATCTTTTCTTGA
1 TTTTTAAATTTTTTTTATCTTTTCTTGA
* *
33978915 TTTTTCAATTTTTCCTTTTTCTTTTCTT
1 TTTTTAAATTTTT--TTTATCTTTTCTT
33978943 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
30 12 0.50
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (28 bp):
TTTTTAAATTTTTTTTATCTTTTCTTGA
Found at i:33978949 original size:30 final size:28
Alignment explanation
Indices: 33978885--33978949 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
33978875 CCAAAAAATA
33978885 TTTTTTTAAATTTTTTTTATCTTTTCTT
1 TTTTTTTAAATTTTTTTTATCTTTTCTT
** * *
33978913 GATTTTTCAATTTTTCCTTTTTCTTTTCTT
1 TTTTTTTAAATTTTT--TTTATCTTTTCTT
33978943 TTTTTTT
1 TTTTTTT
33978950 TGTGGGAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 12 0.41
30 17 0.59
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (28 bp):
TTTTTTTAAATTTTTTTTATCTTTTCTT
Found at i:33987593 original size:30 final size:28
Alignment explanation
Indices: 33987503--33987593 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
33987493 TTATTTATTT
* *
33987503 TTTAGATTTAAGGTTCTT-ATAAGTTAGA
1 TTTATATTTAGGGTT-TTAATAAGTTAGA
* * *
33987531 ATTATATTTAGGGTTTTAATAAGATAAA
1 TTTATATTTAGGGTTTTAATAAGTTAGA
* *
33987559 TTTATATTTAGGAATTTTTAATAAGTTAGG
1 TTTATATTTAGG--GTTTTAATAAGTTAGA
33987589 TTTAT
1 TTTAT
33987594 TTTCTAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.04
28 31 0.62
30 17 0.34
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.48
Consensus pattern (28 bp):
TTTATATTTAGGGTTTTAATAAGTTAGA
Found at i:33997719 original size:23 final size:23
Alignment explanation
Indices: 33997693--33997739 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33997683 ATTACTTGTA
*
33997693 GACATGATTCAATGCATTATTTG
1 GACATGATTCAACGCATTATTTG
33997716 GACATGATTCAACGCATTATTTG
1 GACATGATTCAACGCATTATTTG
33997739 G
1 G
33997740 GAATTTAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (23 bp):
GACATGATTCAACGCATTATTTG
Found at i:34002360 original size:147 final size:146
Alignment explanation
Indices: 34002031--34002365 Score: 397
Period size: 146 Copynumber: 2.3 Consensus size: 146
34002021 AAATTTGGGT
* * * ** * *
34002031 ATATACTAAAATATCTAAGGATGTGCTATTAGAAATAGTGATATTTTATTAGAAATCTTGGTATA
1 ATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATTAGAAATCTTGGTATA
** * * *
34002096 GGCTTGTAAATTTAGATTTTGGTATATCAAAATTCTAACGAGGTTCCATAGAAATATTGATATTC
66 GGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGAGATTCCATAAAAATATTGATATTC
* * *
34002161 CTTTAGAAATTGAGGT
131 CCTTAGAAATTGAAGA
* ** * *
34002177 ATATACCAAAATATCTAAAGATAACCTCTTAAAAATTTTGGTATTTCATTAGAAATCTTGTTATA
1 ATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATTAGAAATCTTGGTATA
* *
34002242 GGCTTGTACAACAT-GATTTTGGTATACCAAAATTTCTTACGAGATTCTATAAAAATATT-AGTA
66 GGCTTGTA-AACATAGATTTTGGTATACCAAAA-TTCTAACGAGATTCCATAAAAATATTGA-TA
34002305 TTCCCTTAGAAATT-ATAGA
128 TTCCCTTAGAAATTGA-AGA
* *
34002324 ATATACCAAAATATCTAAGGATTTGCGCTTAGAAATTTTGGT
1 ATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGT
34002366 GTACCACAAT
Statistics
Matches: 157, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
146 80 0.51
147 77 0.49
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (146 bp):
ATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATTAGAAATCTTGGTATA
GGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGAGATTCCATAAAAATATTGATATTC
CCTTAGAAATTGAAGA
Found at i:34006910 original size:23 final size:24
Alignment explanation
Indices: 34006864--34006910 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34006854 TTTTGAGCAA
*
34006864 TTTAATTTTTTTCTTTTATATTCT
1 TTTAATTTTTTTCTTTCATATTCT
*
34006888 TTTAATTTTTTTC-TTCATTTTCT
1 TTTAATTTTTTTCTTTCATATTCT
34006911 ATTATCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTAATTTTTTTCTTTCATATTCT
Found at i:34011634 original size:30 final size:30
Alignment explanation
Indices: 34011574--34011644 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
34011564 AATTTATATC
* * * *
34011574 TTTATAAT-TTTTTAAGATTTAAATTAAAT
1 TTTATATTATTTTTAAGAGTCAAAATAAAT
34011603 TTT-TATTATTTTTAAGAGTCAAAATATAAT
1 TTTATATTATTTTTAAGAGTCAAAATA-AAT
34011633 TTTACTATTATT
1 TTTA-TATTATT
34011645 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 3 0.09
29 18 0.53
30 6 0.18
32 7 0.21
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTATATTATTTTTAAGAGTCAAAATAAAT
Found at i:34018806 original size:12 final size:13
Alignment explanation
Indices: 34018789--34018821 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34018779 AATATTTATT
*
34018789 AATTAAAA-TATA
1 AATTAAAATTAAA
34018801 AATTAAAATTAAA
1 AATTAAAATTAAA
34018814 AATTAAAA
1 AATTAAAA
34018822 ACAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAATTAAA
Found at i:34020301 original size:35 final size:35
Alignment explanation
Indices: 34020270--34020357 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
34020260 TGTGATGTTT
34020270 TATTGAACTTGTATATTC-GACCATATATGATGATA
1 TATTGAACTTGTATATTCAG-CCATATATGATGATA
*
34020305 TATTGAACTTGTATATTCAGCCATATGTGATGATA
1 TATTGAACTTGTATATTCAGCCATATATGATGATA
* *
34020340 TAATGAACCTTGTGTATT
1 TATTGAA-CTTGTATATT
34020358 TGGCCATACA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 38 0.79
36 10 0.21
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (35 bp):
TATTGAACTTGTATATTCAGCCATATATGATGATA
Found at i:34024750 original size:31 final size:31
Alignment explanation
Indices: 34024714--34024774 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
34024704 ATTTTGTGTG
34024714 AATCTCTTACCTTTTTACTTTACTTTCTCTT
1 AATCTCTTACCTTTTTACTTTACTTTCTCTT
34024745 AATCTCTTACCTTTTTACTTTACTTTCTCT
1 AATCTCTTACCTTTTTACTTTACTTTCTCT
34024775 CTCAGCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.57
Consensus pattern (31 bp):
AATCTCTTACCTTTTTACTTTACTTTCTCTT
Found at i:34027943 original size:3 final size:3
Alignment explanation
Indices: 34027937--34027981 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
34027927 AATCAACAAC
34027937 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34027982 GGATCAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34028300 original size:5 final size:5
Alignment explanation
Indices: 34028292--34028321 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
34028282 ATTTAATTGG
34028292 TTTTA TTTTA TTTTA TTTTA TTATTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTT
34028322 GTTTAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:34029104 original size:5 final size:5
Alignment explanation
Indices: 34029060--34029089 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
34029050 TTAACTAAAC
34029060 AAAAT AATAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAA
34029090 CCAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:34029717 original size:42 final size:42
Alignment explanation
Indices: 34029671--34029771 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
34029661 CAGTATGCTT
* * *
34029671 GATGATGCACGTACATGCCGGAATATTTTCTTCGGTATATCC
1 GATGATGCACTTACATGCCAGAATATTTTCTTCGATATATCC
* * * * *
34029713 GATGATGCACTTACGTGGCAGTATATTTTCTTTGATATATCT
1 GATGATGCACTTACATGCCAGAATATTTTCTTCGATATATCC
34029755 GATGATGCACTTACATG
1 GATGATGCACTTACATG
34029772 TTGGTATGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (42 bp):
GATGATGCACTTACATGCCAGAATATTTTCTTCGATATATCC
Found at i:34031111 original size:14 final size:14
Alignment explanation
Indices: 34031094--34031125 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34031084 AATCATTAGG
34031094 TCACATTCAACTAT
1 TCACATTCAACTAT
34031108 TCACATTCAACTAT
1 TCACATTCAACTAT
34031122 TCAC
1 TCAC
34031126 CAATCATTTA
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:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
TCACATTCAACTAT
Found at i:34031171 original size:21 final size:22
Alignment explanation
Indices: 34031141--34031188 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
34031131 ATTTATAGAC
34031141 CACATCATAAATGAGATATTTG
1 CACATCATAAATGAGATATTTG
34031163 CACA-CATAAATGAGATATTTG
1 CACATCATAAATGAGATATTTG
34031184 CACAT
1 CACAT
34031189 GTATGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (22 bp):
CACATCATAAATGAGATATTTG
Found at i:34034107 original size:17 final size:17
Alignment explanation
Indices: 34034085--34034135 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
34034075 TTGGGCCATA
34034085 TGGGCCACATAGGCGTG
1 TGGGCCACATAGGCGTG
* * *
34034102 TGGGCCCCACA--CGGG
1 TGGGCCACATAGGCGTG
*
34034117 TAGGCCACATAGGCGTG
1 TGGGCCACATAGGCGTG
34034134 TG
1 TG
34034136 AGCTCATTTA
Statistics
Matches: 24, Mismatches: 8, Indels: 4
0.67 0.22 0.11
Matches are distributed among these distances:
15 11 0.46
17 13 0.54
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (17 bp):
TGGGCCACATAGGCGTG
Found at i:34034499 original size:5 final size:6
Alignment explanation
Indices: 34034484--34034524 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
34034474 AAATTATATT
*
34034484 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
34034525 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:34037472 original size:40 final size:37
Alignment explanation
Indices: 34037406--34037540 Score: 161
Period size: 35 Copynumber: 3.7 Consensus size: 37
34037396 CATGGAAAAG
34037406 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
34037441 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * *
34037481 TAAGAAATGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
34037516 TGTAAAATCTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
34037541 ATGAAGAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
35 49 0.58
38 2 0.02
39 2 0.02
40 32 0.38
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:34037496 original size:35 final size:34
Alignment explanation
Indices: 34037409--34037497 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 34
34037399 GGAAAAGTGT
**
34037409 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTAT-GTATCATCCATACTGAGTTAA
34037444 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTAT-G---TATC--ATCCATACTGAGTTAA
34037484 GAAATGTAGGTATG
1 GAAATGTAGGTATG
34037498 GCATTTCCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 15 0.32
38 4 0.09
39 1 0.02
40 27 0.57
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (34 bp):
GAAATGTAGGTATGTATCATCCATACTGAGTTAA
Found at i:34051077 original size:8 final size:8
Alignment explanation
Indices: 34051064--34051091 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
34051054 CCTCATTCAC
34051064 ATACATTT
1 ATACATTT
34051072 ATACATTT
1 ATACATTT
34051080 ATACATTT
1 ATACATTT
34051088 ATAC
1 ATAC
34051092 TCAAAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (8 bp):
ATACATTT
Found at i:34052535 original size:40 final size:40
Alignment explanation
Indices: 34052455--34052544 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
34052445 GGAGTTTGGA
* *
34052455 TAAAAAACGCCGCTATAGATCGAGCATTAGCAGCGTTTTT
1 TAAAAAACGCCGCTATAGATCGACCATTAGCAGCGCTTTT
* * **
34052495 TAAAAAATGCCAG-TATAGGTCGACCATTAGTGGCGCTTTT
1 TAAAAAACGCC-GCTATAGATCGACCATTAGCAGCGCTTTT
*
34052535 TGAAAAACGC
1 TAAAAAACGC
34052545 AGCAAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCGACCATTAGCAGCGCTTTT
Found at i:34052979 original size:7 final size:7
Alignment explanation
Indices: 34052967--34053144 Score: 67
Period size: 7 Copynumber: 24.9 Consensus size: 7
34052957 TACTATTATA
34052967 GTTTAGG
1 GTTTAGG
34052974 GTTTAGG
1 GTTTAGG
34052981 GTTTAGG
1 GTTTAGG
*
34052988 GTTTAAG
1 GTTTAGG
34052995 GTTTATGAG
1 GTTTA-G-G
* *
34053004 ATACTA--
1 GT-TTAGG
* *
34053010 TTTTAAG
1 GTTTAGG
*
34053017 GTTTATG
1 GTTTAGG
* *
34053024 GATTATG
1 GTTTAGG
34053031 GTTTAAGG
1 GTTT-AGG
*
34053039 G-TTGGG
1 GTTTAGG
**
34053045 GTTTAAT
1 GTTTAGG
*
34053052 GTTTATGA
1 GTTTA-GG
*
34053060 GTTAAGG
1 GTTTAGG
34053067 G-TTAGG
1 GTTTAGG
*
34053073 GGTTATGG
1 GTTTA-GG
34053081 GTTTAGG
1 GTTTAGG
34053088 GTTTAGG
1 GTTTAGG
34053095 GTTTAGG
1 GTTTAGG
* *
34053102 TTTTATG
1 GTTTAGG
* *
34053109 ATTTAGA
1 GTTTAGG
**
34053116 GAATATGG
1 GTTTA-GG
*
34053124 GTTAAGGG
1 GTTTA-GG
34053132 GTTTAGG
1 GTTTAGG
34053139 GTTTAG
1 GTTTAG
34053145 ATTAATTAGT
Statistics
Matches: 125, Mismatches: 35, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
5 2 0.02
6 9 0.07
7 88 0.70
8 22 0.18
9 2 0.02
10 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:34054887 original size:29 final size:29
Alignment explanation
Indices: 34054854--34054970 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
34054844 TGTAATTTTT
*
34054854 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
34054883 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
34054913 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
34054942 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
34054971 TTATTTTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:34054909 original size:30 final size:30
Alignment explanation
Indices: 34054869--34054970 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
34054859 ATTTAGGATT
*
34054869 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
34054899 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
34054929 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
34054959 AAAATGTAATTT
1 AAAATGAAATTT
34054971 TTATTTTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:34054970 original size:60 final size:59
Alignment explanation
Indices: 34054841--34054970 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
34054831 TTCTGGGGCT
** * * *
34054841 AAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* * * *
34054900 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
34054960 AAATGTAATTT
1 AAATGTAATTT
34054971 TTATTTTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:34055424 original size:54 final size:55
Alignment explanation
Indices: 34055243--34055460 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
34055233 CACGTGAGCC
* * *
34055243 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTG-AA
*
34055298 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTGAA
* *
34055349 AAGGCTCAACTCACCTATCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAA
34055403 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAA
34055458 AAG
1 AAG
34055461 TAGAAATTGA
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
50 14 0.10
51 32 0.22
52 1 0.01
54 52 0.35
55 36 0.24
56 6 0.04
57 6 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAA
Found at i:34055440 original size:105 final size:104
Alignment explanation
Indices: 34055243--34055452 Score: 332
Period size: 106 Copynumber: 2.0 Consensus size: 104
34055233 CACGTGAGCC
* * *
34055243 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
34055308 TCATCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAA
* *
34055349 AAGGCTCAACTCACCTATCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
34055413 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
34055453 TTGAAAAGTA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
104 17 0.18
105 34 0.35
106 36 0.37
107 10 0.10
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (104 bp):
AAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
Found at i:34055458 original size:14 final size:14
Alignment explanation
Indices: 34055439--34055473 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34055429 GAGTTGATTT
34055439 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
*
34055453 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
34055467 TTGAAAA
1 TTGAAAA
34055474 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:34055707 original size:85 final size:87
Alignment explanation
Indices: 34055563--34055810 Score: 281
Period size: 85 Copynumber: 2.8 Consensus size: 87
34055553 AACAGAAATT
* * ** * *
34055563 AAAAACAGAATTTGAAAAGACCTCAGTGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAG-CAGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
34055628 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
34055650 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCAGTAGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
34055713 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
34055739 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCA-GT-AGCCTGAGGCTCAACTCACCTCTTGCAATATGA
34055803 GTTGATTT
64 GTTGATTT
34055811 TTGAAAAACA
Statistics
Matches: 137, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 31 0.23
88 3 0.02
89 31 0.23
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCAGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:34055756 original size:15 final size:16
Alignment explanation
Indices: 34055723--34055756 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34055713 TTGATTTTTG
* *
34055723 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
34055739 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
34055755 AA
1 AA
34055757 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:34055798 original size:91 final size:88
Alignment explanation
Indices: 34055563--34055817 Score: 315
Period size: 91 Copynumber: 2.9 Consensus size: 88
34055553 AACAGAAATT
* * * *
34055563 AAAAACAGAATTTGAAAAGACCTCAGTGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAG-CTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
34055628 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
34055650 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
34055713 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
34055739 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
34055803 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
34055818 ACAAAAATTA
Statistics
Matches: 144, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 31 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:34055961 original size:123 final size:123
Alignment explanation
Indices: 34055740--34056058 Score: 548
Period size: 123 Copynumber: 2.6 Consensus size: 123
34055730 TAGATTGAAA
* * * ** * *
34055740 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
34055805 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
34055865 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
34055930 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
34055988 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
34056053 ATTTTT
66 ATTTTT
34056059 TTTAAAAATT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 162 0.88
125 23 0.12
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (123 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:34056163 original size:192 final size:193
Alignment explanation
Indices: 34055898--34056249 Score: 688
Period size: 192 Copynumber: 1.8 Consensus size: 193
34055888 GGCGTGCCCC
34055898 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
34055963 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
66 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
34056028 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34056091 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
34056155 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
66 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
34056220 AACTCATTTCTCGCAATATGAGTTGATTTT
131 AACTCACTTCTCGCAATATGAGTTGATTTT
34056250 GAAAAACAAA
Statistics
Matches: 158, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
192 125 0.79
193 33 0.21
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (193 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
AACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:34056324 original size:121 final size:121
Alignment explanation
Indices: 34056091--34056975 Score: 1761
Period size: 121 Copynumber: 7.3 Consensus size: 121
34056081 AACGTGTCTT
34056091 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAGGCTTAACTC
34056156 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
65 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056213 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056278 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056334 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056399 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056455 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056520 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056576 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056641 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056697 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056762 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056818 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
34056883 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
66 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
34056939 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
34056976 CCTTGGAAAG
Statistics
Matches: 763, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
121 712 0.93
122 51 0.07
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (121 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAGGCTTAACTCA
CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
Found at i:34079824 original size:59 final size:59
Alignment explanation
Indices: 34079716--34079867 Score: 229
Period size: 59 Copynumber: 2.6 Consensus size: 59
34079706 ATATGAAAAC
* * *
34079716 TTTTTTTAAGACACGAGAATTTTGAAGCAC-GAAA-ATTTTTTTTTAAAAAAATGAAAG-
1 TTTTTTTAAAACACGAGAATTTTTAAACACGGAAATATTTTTTTTT-AAAAAATGAAAGT
* *
34079773 TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTTTTTTTAAAAATGAAAGT
1 TTTTTTTAAAACACGAGAATTTTTAAACACGGAAATATTTTTTTTTAAAAAATGAAAGT
34079832 TTTTTTTAAAACACGAGAATTTTTAAACACGGAAAT
1 TTTTTTTAAAACACGAGAATTTTTAAACACGGAAAT
34079868 TTTAGAAACA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 26 0.30
58 15 0.17
59 45 0.52
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (59 bp):
TTTTTTTAAAACACGAGAATTTTTAAACACGGAAATATTTTTTTTTAAAAAATGAAAGT
Found at i:34079854 original size:17 final size:17
Alignment explanation
Indices: 34079834--34080184 Score: 148
Period size: 17 Copynumber: 21.3 Consensus size: 17
34079824 ATGAAAGTTT
34079834 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
34079851 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* *
34079866 ATTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* * *
34079884 TTTTTAAAACACAACAT
1 TTTTTAAAACACGAGAA
*
34079901 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
34079918 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
*
34079935 TTTTTGAAACAC---AA
1 TTTTTAAAACACGAGAA
** ****
34079949 TTTTT----TTC-TTTT
1 TTTTTAAAACACGAGAA
* *
34079961 TTTTTAAAAAAATGA-AA
1 TTTTT-AAAACACGAGAA
*
34079978 GTTTTTTTAAAACACAAGAA
1 ---TTTTTAAAACACGAGAA
34079998 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* * *
34080013 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* *
34080031 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
34080048 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
34080065 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * ***
34080082 TTTTTGAAACACAATTTT
1 TTTTTAAAACACGA-GAA
34080100 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
*
34080114 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
34080129 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
34080146 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
34080163 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
34080180 TTTTT
1 TTTTT
34080185 TAGAAAATGA
Statistics
Matches: 250, Mismatches: 57, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
10 1 0.00
11 6 0.02
12 7 0.03
14 7 0.03
15 15 0.06
16 14 0.06
17 164 0.66
18 18 0.07
19 11 0.04
20 7 0.03
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:34079884 original size:59 final size:58
Alignment explanation
Indices: 34079716--34079877 Score: 150
Period size: 57 Copynumber: 2.8 Consensus size: 58
34079706 ATATGAAAAC
* * * * * * ***
34079716 TTTTTTTAAGACACGAGAATTTTGAAGCACGAAAATTTTTTTTTAA-AAAAATGAAAG
1 TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTAGAAACAAAAATGAAAG
******
34079773 TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTTTTTTTAAAAATGAAAG
1 TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTAGAAACAAAAATGAAAG
*
34079831 TTTTTTTTAAAACACGAGAATTTTTAAACACGG-AA-ATTTTAGAAACA
1 -TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTAGAAACA
34079878 CGAAAATTTT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 44 0.50
58 13 0.15
59 31 0.35
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (58 bp):
TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATATTTTAGAAACAAAAATGAAAG
Found at i:34079998 original size:147 final size:147
Alignment explanation
Indices: 34079810--34080105 Score: 540
Period size: 147 Copynumber: 2.0 Consensus size: 147
34079800 CACGGAAATA
* * *
34079810 TTTTTTTTTTAAAAATGAAAGTTTTTTTTAAAACACGAGAATTTTTAAACACGGAAATTTTAGAA
1 TTTTTTTTTAAAAAATGAAAGTTTTTTTTAAAACACAAGAATTTTTAAACACGGAAATTTCAGAA
34079875 ACACGAAAATTTTTAAAACACAACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTT
66 ACACGAAAATTTTTAAAACACAACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTT
34079940 GAAACACAATTTTTTTC
131 GAAACACAATTTTTTTC
34079957 TTTTTTTTTAAAAAAATGAAAG-TTTTTTTAAAACACAAGAATTTTTAAACACGGAAATTTCAGA
1 TTTTTTTTT-AAAAAATGAAAGTTTTTTTTAAAACACAAGAATTTTTAAACACGGAAATTTCAGA
*
34080021 AACACGAAAATTTTTAAAACACGACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTT
65 AACACGAAAATTTTTAAAACACAACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTT
34080086 TGAAACACAATTTTTTTC
130 TGAAACACAATTTTTTTC
34080104 TT
1 TT
34080106 AAAAAAAATT
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
147 133 0.92
148 11 0.08
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (147 bp):
TTTTTTTTTAAAAAATGAAAGTTTTTTTTAAAACACAAGAATTTTTAAACACGGAAATTTCAGAA
ACACGAAAATTTTTAAAACACAACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTT
GAAACACAATTTTTTTC
Found at i:34080199 original size:147 final size:143
Alignment explanation
Indices: 34079833--34080184 Score: 449
Period size: 147 Copynumber: 2.4 Consensus size: 143
34079823 AATGAAAGTT
*
34079833 TTTTTTAAAACACGAGAATTTTTAAACACGGAAATTTTAGAAACACGAAAATTTTTAAAACACAA
1 TTTTTTAAAACACGAAAATTTTTAAACACGGAAATTTTAGAAACACGAAAATTTTT-AAA-ACAA
* ****
34079898 CATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTTGAAACACAATTTTTTTCTTTTTT
64 GATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTTGAAACACAATTTTTTTCTTAAAA
*
34079963 TTTAAAAAAATGAAA
129 TTTAAAAAAACGAAA
*
34079978 GTTTTTTTAAAACAC-AAGAATTTTTAAACACGGAAATTTCAGAAACACGAAAATTTTTAAAACA
1 --TTTTTTAAAACACGAA-AATTTTTAAACACGGAAATTTTAGAAACACGAAAATTTTTAAAACA
*
34080042 CGACATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTTGAAACACAATTTTTTTCTTA
63 --AGATTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTTGAAACACAATTTTTTTCTT-
*
34080107 AAAAAAATTT-AAAATACGAGAA
125 ---AAAATTTAAAAAAACGA-AA
* * *
34080129 -TTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTT
1 TTTTTTAAAACACGAAAATTTTT-AAACACGGAAATTTTAGAAACACGAAAATTTTT
34080185 TAGAAAATGA
Statistics
Matches: 183, Mismatches: 12, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
145 3 0.02
146 4 0.02
147 114 0.62
148 19 0.10
149 31 0.17
150 7 0.04
151 5 0.03
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (143 bp):
TTTTTTAAAACACGAAAATTTTTAAACACGGAAATTTTAGAAACACGAAAATTTTTAAAACAAGA
TTTTTTGAAACACGAGAATTTTTAAAACAAGACATTTTTTGAAACACAATTTTTTTCTTAAAATT
TAAAAAAACGAAA
Found at i:34080249 original size:35 final size:36
Alignment explanation
Indices: 34080117--34080280 Score: 124
Period size: 35 Copynumber: 4.6 Consensus size: 36
34080107 AAAAAAATTT
* * *
34080117 AAAATACGAGAATT-TTTAAAACA-CGAAAATTTTT-
1 AAAACACGAAAATTCTTTGAAACACCG-AAATTTTTG
* *
34080151 AAAACACGAAAATT-TTTGAAACACGGAAATTTTTT
1 AAAACACGAAAATTCTTTGAAACACCGAAATTTTTG
* *** * * * *
34080186 AGAAA-ATGATTTTTTTTTAAAAATCACCGGAGTTTTTG
1 A-AAACACGAAAATTCTTT-GAAA-CACCGAAATTTTTG
34080224 AAAACACGAAAA-TCTTTGAAACACCGAAATTTTTG
1 AAAACACGAAAATTCTTTGAAACACCGAAATTTTTG
*
34080259 AAAACACGAAAATTTTTTGAAA
1 AAAACACGAAAATTCTTTGAAA
34080281 ATACGAAGAT
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
34 28 0.28
35 31 0.31
36 17 0.17
37 10 0.10
38 14 0.14
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (36 bp):
AAAACACGAAAATTCTTTGAAACACCGAAATTTTTG
Found at i:34080275 original size:73 final size:72
Alignment explanation
Indices: 34080146--34080282 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 72
34080136 AACACGAAAA
* * * * ***
34080146 TTTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTTTAGAAAATGATTTTTTTTTAAAAATC
1 TTTTTAAAACACGAAAATCTTTGAAACACCGAAATTTTTGAGAAAACGAAAATTTTTTAAAAATC
34080211 ACCGGAG
66 ACCGGAG
*
34080218 TTTTTGAAAACACGAAAATCTTTGAAACACCGAAATTTTTGA-AAACACGAAAATTTTTTGAAAA
1 TTTTT-AAAACACGAAAATCTTTGAAACACCGAAATTTTTGAGAAA-ACGAAAATTTTTTAAAAA
34080282 T
64 T
34080283 ACGAAGATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
72 8 0.15
73 47 0.85
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (72 bp):
TTTTTAAAACACGAAAATCTTTGAAACACCGAAATTTTTGAGAAAACGAAAATTTTTTAAAAATC
ACCGGAG
Found at i:34080293 original size:17 final size:18
Alignment explanation
Indices: 34079980--34080294 Score: 152
Period size: 17 Copynumber: 18.3 Consensus size: 18
34079970 AAATGAAAGT
*
34079980 TTTTTTAAAACAC-AAGAA
1 TTTTTGAAAACACGAA-AA
*
34079998 TTTTT--AAACACGGAAA
1 TTTTTGAAAACACGAAAA
**
34080014 TTTCAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
34080031 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
*
34080048 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
34080065 TTTTT-AAAACAAGACAT
1 TTTTTGAAAACACGAAAA
**
34080082 TTTTTG-AAACAC-AATT
1 TTTTTGAAAACACGAAAA
**
34080098 TTTTTCTTAAA-A--AAAA
1 TTTTT-GAAAACACGAAAA
* *
34080114 --TTT-AAAATACGAGAA
1 TTTTTGAAAACACGAAAA
34080129 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
34080146 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
34080163 TTTTTG-AAACACGGAAA
1 TTTTTGAAAACACGAAAA
* * ***
34080180 TTTTTTAGAAA-ATGATTTT
1 TTTTTGA-AAACACGA-AAA
* * *
34080199 TTTTTAAAAATCACCG-GAG
1 TTTTTGAAAA-CA-CGAAAA
34080218 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
34080236 TCTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
34080253 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
34080271 TTTTTTGAAAATACGAAGA
1 -TTTTTGAAAACACGAAAA
34080290 TTTTT
1 TTTTT
34080295 TTTTTAACAC
Statistics
Matches: 230, Mismatches: 42, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 3 0.01
15 3 0.01
16 20 0.09
17 128 0.56
18 36 0.16
19 34 0.15
20 1 0.00
21 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:34080320 original size:17 final size:17
Alignment explanation
Indices: 34080127--34080323 Score: 87
Period size: 17 Copynumber: 10.9 Consensus size: 17
34080117 AAAATACGAG
* *
34080127 AATTTTTAAAACACGAA
1 AATTTTTGAAACACGGA
* *
34080144 AATTTTTAAAACACGAA
1 AATTTTTGAAACACGGA
34080161 AATTTTTGAAACACGGA
1 AATTTTTGAAACACGGA
*
34080178 AATTTTTTAGAAA-A-TGA
1 AA-TTTTT-GAAACACGGA
** *
34080195 TTTTTTTTTAAAAATCACCGG-
1 --AATTTTT-GAAA-CA-CGGA
* *
34080216 AGTTTTTGAAAACACGAA
1 AATTTTTG-AAACACGGA
* *
34080234 AATCTTTGAAACACCGA
1 AATTTTTGAAACACGGA
*
34080251 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGGA
*
34080269 AATTTTTTGAAAATAC-GA
1 AA-TTTTTG-AAACACGGA
**
34080287 AGATTTTTTTTTTAACACGGA
1 A-A---TTTTTGAAACACGGA
34080308 AATTTTTGAAACACGG
1 AATTTTTGAAACACGG
34080324 TCNNNNNNNN
Statistics
Matches: 139, Mismatches: 25, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
17 64 0.46
18 34 0.24
19 25 0.18
20 6 0.04
21 9 0.06
22 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (17 bp):
AATTTTTGAAACACGGA
Found at i:34081932 original size:123 final size:123
Alignment explanation
Indices: 34081713--34081960 Score: 496
Period size: 123 Copynumber: 2.0 Consensus size: 123
34081703 TTAAAAAAAA
34081713 AAAGGAGTTTTTAAGGGTTTTAAATGAAGGCATAATAATAAAATAGACCCCTAACATTTATATCT
1 AAAGGAGTTTTTAAGGGTTTTAAATGAAGGCATAATAATAAAATAGACCCCTAACATTTATATCT
34081778 TTTGTCATTTGAATCATAAATTTTTTAGAGTCAATTTGAGTCAAAATGCTAATTTTTT
66 TTTGTCATTTGAATCATAAATTTTTTAGAGTCAATTTGAGTCAAAATGCTAATTTTTT
34081836 AAAGGAGTTTTTAAGGGTTTTAAATGAAGGCATAATAATAAAATAGACCCCTAACATTTATATCT
1 AAAGGAGTTTTTAAGGGTTTTAAATGAAGGCATAATAATAAAATAGACCCCTAACATTTATATCT
34081901 TTTGTCATTTGAATCATAAATTTTTTAGAGTCAATTTGAGTCAAAATGCTAATTTTTT
66 TTTGTCATTTGAATCATAAATTTTTTAGAGTCAATTTGAGTCAAAATGCTAATTTTTT
34081959 AA
1 AA
34081961 TTGAAAATGC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (123 bp):
AAAGGAGTTTTTAAGGGTTTTAAATGAAGGCATAATAATAAAATAGACCCCTAACATTTATATCT
TTTGTCATTTGAATCATAAATTTTTTAGAGTCAATTTGAGTCAAAATGCTAATTTTTT
Found at i:34087351 original size:19 final size:20
Alignment explanation
Indices: 34087314--34087351 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
34087304 TATAATAAAA
*
34087314 ATATTTCTTTTAATTATTTC
1 ATATTTCTTTTAATCATTTC
*
34087334 ATATTT-TTTTTATCATTT
1 ATATTTCTTTTAATCATTT
34087352 TTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATTTCTTTTAATCATTTC
Found at i:34092257 original size:6 final size:6
Alignment explanation
Indices: 34092234--34092271 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
34092224 ATTTTGTAAC
*
34092234 TAATTT T-ATTT TATTTT TAATTT TAATTT TATATTT TA
1 TAATTT TAATTT TAATTT TAATTT TAATTT TA-ATTT TA
34092272 GTTAGATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TAATTT
Found at i:34092269 original size:13 final size:13
Alignment explanation
Indices: 34092240--34092290 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
34092230 TAACTAATTT
*
34092240 TATTTTATTTTTA
1 TATTTTAATTTTA
34092253 -ATTTTAATTTTA
1 TATTTTAATTTTA
* **
34092265 TATTTTAGTTAGA
1 TATTTTAATTTTA
34092278 TATTTTTAATTTT
1 TA-TTTTAATTTT
34092291 GTATGAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
12 11 0.38
13 11 0.38
14 7 0.24
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (13 bp):
TATTTTAATTTTA
Found at i:34097308 original size:19 final size:19
Alignment explanation
Indices: 34097253--34097308 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
34097243 ATTAATAAGC
*
34097253 AATTTAAAATTATAAAAAA
1 AATTCAAAATTATAAAAAA
*
34097272 ATATTCAAAA-AATAAAAATA
1 A-ATTCAAAATTATAAAAA-A
34097292 AATTCAAAATTATAAAA
1 AATTCAAAATTATAAAA
34097309 CGTTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTCAAAATTATAAAAAA
Found at i:34103052 original size:16 final size:17
Alignment explanation
Indices: 34103020--34103053 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34103010 CCACGCAAGA
34103020 ATTATAATAAGCTTCAT
1 ATTATAATAAGCTTCAT
*
34103037 ATTATATTAA-CTTCAT
1 ATTATAATAAGCTTCAT
34103053 A
1 A
34103054 GCCCCCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTATAATAAGCTTCAT
Found at i:34108067 original size:3 final size:3
Alignment explanation
Indices: 34108059--34108092 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
34108049 CTATTAGCTT
34108059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34108093 AAAAACCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34109835 original size:21 final size:22
Alignment explanation
Indices: 34109809--34109851 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34109799 CACTTCACAT
34109809 AGGGGC-ACACGTCT-GTGTGAG
1 AGGGGCAACAC-TCTCGTGTGAG
34109830 AGGGGCAACACTCTCGTGTGAG
1 AGGGGCAACACTCTCGTGTGAG
34109852 CATTCTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.19
Consensus pattern (22 bp):
AGGGGCAACACTCTCGTGTGAG
Found at i:34111001 original size:47 final size:47
Alignment explanation
Indices: 34110932--34111144 Score: 138
Period size: 47 Copynumber: 4.6 Consensus size: 47
34110922 AGGTGCCATG
* * * *
34110932 CCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTCGAT
1 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGAAGCCGAT
* *
34110978 CCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTAGCCGAT
1 -CCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCGAT
* ** * *
34111026 GCATGTCCCAGACAT-GTCTTACACT-AGCCCTCGTCTC-ACTA-CCGACG
1 CCATGTCCCAGACATGGTCTTACACTGA-CTATCATCTCGA--AGCCGA-T
* * * * **
34111073 CCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCGA-
1 CCATGTCCCAGACATGGTCTTACACTGACTATCAT-CTCGAAGCCGAT
34111119 CGCATGTCCCAGACAT-GTCTTACACT
1 C-CATGTCCCAGACATGGTCTTACACT
34111145 AGCTCACACA
Statistics
Matches: 132, Mismatches: 22, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
45 1 0.01
46 33 0.25
47 73 0.55
48 24 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCGAT
Found at i:34111763 original size:18 final size:18
Alignment explanation
Indices: 34111740--34111778 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
34111730 CATTTTCTTC
34111740 CATAAGAACTTAAAAAAA
1 CATAAGAACTTAAAAAAA
34111758 CATAAGAACTTAAAAAAA
1 CATAAGAACTTAAAAAAA
34111776 CAT
1 CAT
34111779 CACAAATCCT
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:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (18 bp):
CATAAGAACTTAAAAAAA
Found at i:34118754 original size:61 final size:61
Alignment explanation
Indices: 34118659--34118785 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
34118649 ATATAATTAT
*
34118659 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTGTGAA
1 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
34118720 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
1 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
34118781 ATATT
1 ATATT
34118786 TACAAAATGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (61 bp):
ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
Found at i:34126791 original size:21 final size:20
Alignment explanation
Indices: 34126762--34126807 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
34126752 CGAAACGCAA
34126762 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
34126783 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
34126803 T-AACC
1 TCAACC
34126808 ATCCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:34129239 original size:27 final size:27
Alignment explanation
Indices: 34129208--34129385 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34129198 TAAATTGTAC
34129208 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34129235 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34129261 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34129289 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34129317 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34129344 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34129371 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34129386 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34129322 original size:82 final size:81
Alignment explanation
Indices: 34129209--34129364 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34129199 AAATTGTACA
* *
34129209 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34129273 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34129290 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34129355 TGCGAGTTGA
65 TGCGAATTGA
34129365 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34129376 original size:82 final size:81
Alignment explanation
Indices: 34129205--34129385 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34129195 GATTAAATTG
* *
34129205 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34129270 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34129286 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34129350 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34129368 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34129386 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34137124 original size:40 final size:40
Alignment explanation
Indices: 34137041--34137303 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
34137031 TTGAATGCTG
* * * * * *
34137041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34137081 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34137121 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34137161 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34137201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34137241 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34137280 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34137304 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34137323 original size:79 final size:80
Alignment explanation
Indices: 34137080--34137338 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
34137070 AAGTGAATAT
* * * * * *
34137080 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34137144 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
** * *
34137160 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34137225 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34137240 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34137304 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34137319 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34137339 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34141019 original size:46 final size:44
Alignment explanation
Indices: 34140954--34141079 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 44
34140944 ACAAAGATGA
* *
34140954 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCT-CGAGAC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAC
** *
34140998 GTAAGCCAGTGTAAGACATGTCTGGGATGTGCATCGGCTACGAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAC
**
34141044 GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
34141080 ACACATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.18
45 14 0.21
46 42 0.62
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAC
Found at i:34142050 original size:10 final size:10
Alignment explanation
Indices: 34142035--34142072 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
34142025 GCTCGTTTCC
*
34142035 AGCTCACTCG
1 AGCTCAATCG
34142045 AGCTCAAGTC-
1 AGCTCAA-TCG
34142055 AGCTCAATCG
1 AGCTCAATCG
34142065 AGCTCAAT
1 AGCTCAAT
34142073 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:34142059 original size:20 final size:20
Alignment explanation
Indices: 34142034--34142071 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34142024 AGCTCGTTTC
*
34142034 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
34142054 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
34142072 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:34142078 original size:20 final size:20
Alignment explanation
Indices: 34142035--34142095 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
34142025 GCTCGTTTCC
* * *
34142035 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
34142055 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
34142075 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
34142095 A
1 A
34142096 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Done.