Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 119 of 328
Found at i:33958247 original size:41 final size:41
Alignment explanation
Indices: 33958201--33958344 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 41
33958191 TAGAGTGTTA
*
33958201 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGTGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * * **
33958242 TATGATATGGATATTTACTTAAGCGTCACCTTCAAGGCGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * * *
33958283 CATGATAT-AGGTATTTACTTAAGCTTTGTCTTCAAGGCAAA
1 CATGATATGA-ATATTTACTTAAGCTTTGCCTTCAAGGCGAG
*
33958324 CATGATATGGATATTTACTTA
1 CATGATATGAATATTTACTTA
33958345 GATTTCAAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (41 bp):
CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
Found at i:33958782 original size:21 final size:21
Alignment explanation
Indices: 33958734--33958783 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33958724 TCCAAAATCT
*
33958734 TATAAATATATATTCAAAAAA
1 TATAAATAGATATTCAAAAAA
* *
33958755 TAAAAATAGATATT-AAATATA
1 TATAAATAGATATTCAAA-AAA
33958776 TATAAATA
1 TATAAATA
33958784 CTAAATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TATAAATAGATATTCAAAAAA
Found at i:33959743 original size:37 final size:37
Alignment explanation
Indices: 33959631--33959747 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 37
33959621 TTTTAGTTTG
* * * *
33959631 ATTTGATAAACTAATATAAATTAGTATCCAAATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
** * * *
33959668 ATTTGGTAAA--AATATATTTGGTAATATTTTTAGT-TTA
1 ATTTGGTAAACTAATATA--AAGTAGTATCTATA-TATTA
33959705 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
33959742 ATTTGG
1 ATTTGG
33959748 AAAGAAAATA
Statistics
Matches: 60, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
35 6 0.10
36 1 0.02
37 46 0.77
38 1 0.02
39 6 0.10
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (37 bp):
ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
Found at i:33968943 original size:34 final size:34
Alignment explanation
Indices: 33968896--33968965 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
33968886 GTATGGCTGC
* *
33968896 TACTGATATTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
* *
33968930 TACTGATACTGTGAAGGGCTAAGGCTCTACTGCA
1 TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
33968964 TA
1 TA
33968966 TTTCATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (34 bp):
TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
Found at i:33968991 original size:40 final size:40
Alignment explanation
Indices: 33968928--33969034 Score: 178
Period size: 40 Copynumber: 2.6 Consensus size: 40
33968918 GGCCCTAATG
* *
33968928 CATACTGATACTGTGAAGGGCTAAGGCTCTACTGCATATTT
1 CATACTG-TACTGAGATGGGCTAAGGCTCTACTGCATATTT
*
33968969 CATATTGTACTGAGATGGGCTAAGGCTCTACTGCATATTT
1 CATACTGTACTGAGATGGGCTAAGGCTCTACTGCATATTT
33969009 CATACTGTACTGAGATGGGCTAAGGC
1 CATACTGTACTGAGATGGGCTAAGGC
33969035 CCAAACCGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 56 0.90
41 6 0.10
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
CATACTGTACTGAGATGGGCTAAGGCTCTACTGCATATTT
Found at i:33975392 original size:20 final size:20
Alignment explanation
Indices: 33975364--33975422 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
33975354 CATAGGGCTG
*
33975364 TTAACTTAATTAATTTAAGA
1 TTAATTTAATTAATTTAAGA
* * *
33975384 TTTATTTAACTAAATTT-AGG
1 TTAATTTAA-TTAATTTAAGA
*
33975404 TTAATTAAATTAA-TTAAGA
1 TTAATTTAATTAATTTAAGA
33975423 AAATAATTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 16 0.55
21 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (20 bp):
TTAATTTAATTAATTTAAGA
Found at i:33976558 original size:15 final size:16
Alignment explanation
Indices: 33976540--33976572 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
33976530 TTCTCCTGTA
33976540 CTTTTTTCTT-TCTTT
1 CTTTTTTCTTCTCTTT
33976555 C-TTTTTCTTCTCTTT
1 CTTTTTTCTTCTCTTT
33976570 CTT
1 CTT
33976573 GATCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.50
15 7 0.44
16 1 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTTTCTTCTCTTT
Found at i:33978501 original size:18 final size:17
Alignment explanation
Indices: 33978478--33978513 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
33978468 GTTGTGTTAT
33978478 ATGATAAATTAATGATTG
1 ATGATAAATTAA-GATTG
33978496 ATGATAAATTAAGATTG
1 ATGATAAATTAAGATTG
33978513 A
1 A
33978514 AAGAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (17 bp):
ATGATAAATTAAGATTG
Found at i:33982660 original size:131 final size:129
Alignment explanation
Indices: 33982413--33982740 Score: 412
Period size: 131 Copynumber: 2.5 Consensus size: 129
33982403 AAAAAACCGA
* * * *
33982413 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATT-GAACATTGCCTT-ATTTT-A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCCAAAC-TTCGAACATTGCCTTCGTTTTAA
* * * * * *
33982474 GAATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTG
64 AAATTTAGAAAACATGAGTGAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGAAAATTG
33982539 C
129 C
* *
33982540 AACCCAGCACGATAGGGAACGATTCCCCGAATTTCCAAACTTCGAACATTACCTTCGTTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAA
* *
33982605 GATTTTGAAAGACATGAGTGAAATTCCAAAATAATATTCGATTATTTTGAACAAACGGAAAATTG
66 -ATTTAGAAA-ACATGAGTGAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGAAAATTG
33982670 C
129 C
* * * * *
33982671 AACCCAGCACGATAGGGCATGATTCTCCAAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAA-
33982736 AATTT
65 AATTT
33982741 TTGAATGAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
126 2 0.01
127 45 0.26
128 5 0.03
129 2 0.01
130 7 0.04
131 111 0.64
132 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAA
ATTTAGAAAACATGAGTGAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGAAAATTGC
Found at i:33985854 original size:88 final size:89
Alignment explanation
Indices: 33985514--33985899 Score: 386
Period size: 88 Copynumber: 4.4 Consensus size: 89
33985504 AAATTTAGTT
* * * * *
33985514 TGCTCCACTGCAACTTTAGGGAGATAAGA-CTCACAATTTTTAGCCTGTTACCCTACTGCTTAGG
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCT-ACAATCTTCAGCCTGTTACCCTACTACTTAGG
** ** * *
33985578 GGGTTAAGGCTCACCGTCTTCTATT
65 GGGTTAAGGCTTGCTATCTTCGATC
* ** * * ** *
33985603 TGCTCCACTACTGCTT-AAGGAGACAATATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGG
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
** * *
33985667 GGTTAAGGCTCACTATCTTTGATT
66 GGTTAAGGCTTGCTATCTTCGATC
* * * **
33985691 TGCTCCACTGTC-ATTTTAGGGAGACAAGATCTGCAATCTTCAGTTTGTTACCCTACTACTTAGG
1 TGCTCCACTG-CAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
33985755 GGGTTAAGGCTTGCT-TCTTCGATC
65 GGGTTAAGGCTTGCTATCTTCGATC
* * * * *
33985779 TGTTCCACTGCAACTTCAGGGAGACAAGATCTATAATCTTCGGCCTGTTACCCTACTACTAAGGA
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
*
33985844 GGTTAAGGCTTGCTGTCCTT-GATC
66 GGTTAAGGCTTGCTAT-CTTCGATC
* *
33985868 TGTTCCACTGCAACTTCAGGAAGACAAGATCT
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCT
33985900 GTGAATTCAC
Statistics
Matches: 253, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
87 1 0.00
88 143 0.57
89 106 0.42
90 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
GGTTAAGGCTTGCTATCTTCGATC
Found at i:33985877 original size:177 final size:177
Alignment explanation
Indices: 33985514--33985900 Score: 420
Period size: 177 Copynumber: 2.2 Consensus size: 177
33985504 AAATTTAGTT
* * * * * * ** *
33985514 TGCTCCACTGCAACTTTAGGGAGATAAGA-CTCACAATTTTTAGCCTGTTACCCTACTGCTTAGG
1 TGCTCCACTGCAACTTCAGGAAGACAAGATCT-GCAATCTTCAGTTTGTTACCCTACTACTTAGG
* * ** * * *
33985578 GGGTTAAGGCTCACCGTCTTCTATTTGCTCCACTACTGCTTAAGGAGACAATATCTGTAATTTTC
65 GGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTTAAGGAGACAAGATCTATAATCTTC
* * * *
33985643 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTATCTTTGATT
130 AGCCTGTTACCCTACTACTAAGGAGGTTAAGGCTCACTATCCTTGATC
* * *
33985691 TGCTCCACTGTC-ATTTTAGGGAGACAAGATCTGCAATCTTCAGTTTGTTACCCTACTACTTAGG
1 TGCTCCACTG-CAACTTCAGGAAGACAAGATCTGCAATCTTCAGTTTGTTACCCTACTACTTAGG
** * * * *
33985755 GGGTTAAGGCT-TGCTTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTATAATCTT
65 GGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTT-AAGGAGACAAGATCTATAATCTT
* ** *
33985819 CGGCCTGTTACCCTACTACTAAGGAGGTTAAGGCTTGCTGTCCTTGATC
129 CAGCCTGTTACCCTACTACTAAGGAGGTTAAGGCTCACTATCCTTGATC
*
33985868 TGTTCCACTGCAACTTCAGGAAGACAAGATCTG
1 TGCTCCACTGCAACTTCAGGAAGACAAGATCTG
33985901 TGAATTCACC
Statistics
Matches: 173, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
176 21 0.12
177 149 0.86
178 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (177 bp):
TGCTCCACTGCAACTTCAGGAAGACAAGATCTGCAATCTTCAGTTTGTTACCCTACTACTTAGGG
GGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTTAAGGAGACAAGATCTATAATCTTCA
GCCTGTTACCCTACTACTAAGGAGGTTAAGGCTCACTATCCTTGATC
Found at i:33997569 original size:131 final size:131
Alignment explanation
Indices: 33997310--33997558 Score: 437
Period size: 131 Copynumber: 1.9 Consensus size: 131
33997300 AATCTAGAGA
* *
33997310 ACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTAAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTGCAACCCAGCAC
*
33997375 GATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAAGATTTTGAAA
66 GATAGGGCACAATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAAGATTTTGAAA
33997440 G
131 G
*
33997441 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTGCAACCCAGCAC
* *
33997506 GATAGGGCA-AATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAA
66 GATAGGGCACAATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAA
33997559 GAATTTTTGA
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 41 0.37
131 71 0.63
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (131 bp):
ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTGCAACCCAGCAC
GATAGGGCACAATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAAGATTTTGAAA
G
Found at i:33998090 original size:19 final size:19
Alignment explanation
Indices: 33998062--33998159 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
33998052 AATCTTTAAG
*
33998062 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33998081 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33998100 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33998117 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33998136 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33998157 GAT
1 GAT
33998160 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33998092 original size:36 final size:37
Alignment explanation
Indices: 33998052--33998159 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 37
33998042 ATGGAAATAT
33998052 AATCTTTA-AGGAT-ATACAATCTTAGATATGATATGC
1 AATCTTTAGA-GATGATACAATCTTAGATATGATATGC
*
33998088 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGAGATGATACAATCTTAGATATGATATGC
*
33998124 AATC-TTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTTTAGAGATGATA--CAATCTT--AGATATGAT
33998160 CTTGTAATCT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
35 5 0.08
36 44 0.68
38 7 0.11
40 9 0.14
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
AATCTTTAGAGATGATACAATCTTAGATATGATATGC
Found at i:34004771 original size:132 final size:132
Alignment explanation
Indices: 34004534--34005772 Score: 2109
Period size: 132 Copynumber: 9.4 Consensus size: 132
34004524 CAGAGAAACA
* * *
34004534 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACACTCCTATGCCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
34004599 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34004664 GC
131 GC
* *
34004666 AGATTTGGCATCTCTATGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
34004731 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34004796 GC
131 GC
34004798 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
34004863 ACAGCGAAGCAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34004928 GC
131 GC
* *
34004930 AGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
34004995 ACAGCGAAGAAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34005060 GC
131 GC
34005062 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
34005127 ACAACAAAGTAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
**
34005192 AT
131 GC
* *
34005194 AGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
34005259 ACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
34005324 AC
131 GC
* * *
34005326 AGATTTGGCATCCCTATGTTTATAGGGTACAGATCAAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
34005391 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
**
34005456 AT
131 GC
* * *
34005458 AGATTTGGCATCCCTGTGTTTATAGGGAGCAGATCGAAGATAGCAAATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
34005523 ACAGTGAAGCAGATCGAAGATTTTAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34005588 GC
131 GC
* * * * *
34005590 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGCAGATCTGACATTTCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
34005655 ATAGCAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
34005720 GC
131 GC
* * *
34005722 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGAAAACAGATCTG
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
34005773 GCATCTCCAT
Statistics
Matches: 1043, Mismatches: 64, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 1043 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:34006378 original size:19 final size:19
Alignment explanation
Indices: 34006350--34006428 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
34006340 AATCTTTAAG
*
34006350 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34006369 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
34006388 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34006405 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
34006426 GAT
1 GAT
34006429 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34008232 original size:2 final size:2
Alignment explanation
Indices: 34008225--34008251 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34008215 TTATAAAAAC
34008225 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34008252 CGTATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34012007 original size:10 final size:9
Alignment explanation
Indices: 34011981--34012011 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
34011971 TTATGTGTTC
34011981 TTTATTTTA
1 TTTATTTTA
34011990 TTTATTTTA
1 TTTATTTTA
34011999 TTCTATTTTA
1 TT-TATTTTA
34012009 TTT
1 TTT
34012012 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:34016461 original size:10 final size:9
Alignment explanation
Indices: 34016435--34016465 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
34016425 TTATGTGTTC
34016435 TTTATTTTA
1 TTTATTTTA
34016444 TTTATTTTA
1 TTTATTTTA
34016453 TTCTATTTTA
1 TT-TATTTTA
34016463 TTT
1 TTT
34016466 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:34017927 original size:17 final size:17
Alignment explanation
Indices: 34017905--34017937 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34017895 AACTGTCACA
34017905 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
34017922 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
34017938 GACAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:34018073 original size:13 final size:13
Alignment explanation
Indices: 34018055--34018080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34018045 AAATTTATCG
34018055 AAATTATTATAAT
1 AAATTATTATAAT
34018068 AAATTATTATAAT
1 AAATTATTATAAT
34018081 TATGATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:34019915 original size:22 final size:22
Alignment explanation
Indices: 34019890--34019934 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
34019880 TCATGTCGTG
* *
34019890 ACGAGAAACTCCTTACGTCGCA
1 ACGAGAAACTCCCTACATCGCA
34019912 ACGAGAAACTCCCTACATCGCA
1 ACGAGAAACTCCCTACATCGCA
34019934 A
1 A
34019935 TGTCAACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.16, T:0.16
Consensus pattern (22 bp):
ACGAGAAACTCCCTACATCGCA
Found at i:34021049 original size:61 final size:60
Alignment explanation
Indices: 34020971--34021119 Score: 201
Period size: 61 Copynumber: 2.5 Consensus size: 60
34020961 TAGTAGTCAC
* * *
34020971 CTATGTTTTTTTTTCTTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGGTCATCCAA
1 CTATGTTTTTTTTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATGGTCAACCAA
* *
34021031 CTATGTTTTCTTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAATATGGTCAACCAA
1 CTATGTTTT-TTTTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATGGTCAACCAA
* * *
34021092 CTAT-TTAATTTTGTCTTTCTTGGTCACC
1 CTATGTT-TTTTTTTCTTTTTTGGTCACC
34021120 GACTGACTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
60 27 0.35
61 51 0.65
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (60 bp):
CTATGTTTTTTTTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATGGTCAACCAA
Found at i:34021773 original size:18 final size:19
Alignment explanation
Indices: 34021739--34021774 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34021729 TTTAAAATAA
*
34021739 TTTTTATTATTTTTTGATT
1 TTTTTATTATTTGTTGATT
34021758 TTTTTATT-TTTGTTGAT
1 TTTTTATTATTTGTTGAT
34021775 ATCGCATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTTATTATTTGTTGATT
Found at i:34028885 original size:4 final size:4
Alignment explanation
Indices: 34028876--34028911 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
34028866 TTGATTGTAG
*
34028876 ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
34028912 TCTGCACACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:34029067 original size:2 final size:2
Alignment explanation
Indices: 34029060--34029104 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
34029050 CATTTTGAGT
* *
34029060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34029102 TA T
1 TA T
34029105 TCTTTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34033441 original size:20 final size:20
Alignment explanation
Indices: 34033413--34033466 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34033403 CTCTTATAAA
*
34033413 TTCTAAATTTCTTTCAAAAG
1 TTCTAAATTTCTTACAAAAG
* *
34033433 TTCTTAATTTCTTACAAAAC
1 TTCTAAATTTCTTACAAAAG
* *
34033453 TACTAAATCTCTTA
1 TTCTAAATTTCTTA
34033467 AACAATTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCTAAATTTCTTACAAAAG
Found at i:34033700 original size:20 final size:20
Alignment explanation
Indices: 34033672--34033735 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
34033662 AACTTTTTAA
*
34033672 ATTACTAAATATCTTACAAG
1 ATTATTAAATATCTTACAAG
*
34033692 ATTATTAAATATCTTAAAATG
1 ATTATTAAATATCTTACAA-G
* *
34033713 ATTATTGAATCTCTTACAA-
1 ATTATTAAATATCTTACAAG
34033732 ATTA
1 ATTA
34033736 CTATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
19 4 0.11
20 17 0.45
21 17 0.45
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTAAATATCTTACAAG
Found at i:34035816 original size:29 final size:30
Alignment explanation
Indices: 34035784--34035845 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
34035774 GTTATTGTTA
*
34035784 TTTTGTCAGTTTCTATT-GAGAGAATTACT
1 TTTTGTCAATTTCTATTAGAGAGAATTACT
*
34035813 TTTTGTTAATTTCTATTGAGAGAGAATTACT
1 TTTTGTCAATTTCTATT-AGAGAGAATTACT
34035844 TT
1 TT
34035846 CCTATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.52
31 14 0.48
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (30 bp):
TTTTGTCAATTTCTATTAGAGAGAATTACT
Found at i:34038192 original size:39 final size:39
Alignment explanation
Indices: 34038122--34038213 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 39
34038112 GTATTGTGGT
* * ** * *
34038122 ATATGCTTGAATGTTATGTGATTTTACGAGTATTATGAA
1 ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
* * *
34038161 ATATGCTTAAATGTCATAAGATTATATGAGTATGGTGAT
1 ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
*
34038200 ATATGCTTAGATGT
1 ATATGCTTAAATGT
34038214 TAGGTGGCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (39 bp):
ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
Found at i:34040472 original size:22 final size:22
Alignment explanation
Indices: 34040444--34040489 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34040434 CCAGCAACTA
34040444 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
34040466 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
34040488 AA
1 AA
34040490 CGAGCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGTGCATAAATTAAAAGATGG
Found at i:34040501 original size:26 final size:22
Alignment explanation
Indices: 34040448--34040494 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
34040438 CAACTAAAGT
*
34040448 GCATAAATTAAAAGATGGAAGT
1 GCATAAATTAAAAGATGGAAGA
34040470 GCATAAATTAAAAGATGGAACGA
1 GCATAAATTAAAAGATGGAA-GA
34040493 GC
1 GC
34040495 TCAATAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
GCATAAATTAAAAGATGGAAGA
Found at i:34040943 original size:13 final size:13
Alignment explanation
Indices: 34040925--34040949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34040915 GAATTAGTAT
34040925 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34040938 GTGTGAAAATTT
1 GTGTGAAAATTT
34040950 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34042190 original size:43 final size:44
Alignment explanation
Indices: 34042020--34042191 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 44
34042010 ACATAGGATC
* * *
34042020 CGATATGTGATTTCGTGTAAGACCAC-ATCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
* * * * * *
34042063 CGACT-TATGATTTATGTGTAAGACCATG-TCTAGGAAATCGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
* *
34042107 CG-TATTTGATTTCGTGTAAGACC-CTATCTGGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGA-AGTTGGCAT
* *
34042149 CGATATTTGATTACATGTAAGACCACGA-CTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
34042192 TGTACGACCT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 27 0.27
43 43 0.43
44 30 0.30
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (44 bp):
CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
Found at i:34042744 original size:23 final size:24
Alignment explanation
Indices: 34042718--34042763 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
34042708 TGCCATGTGA
*
34042718 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
34042741 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
34042764 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:34044606 original size:37 final size:37
Alignment explanation
Indices: 34044565--34044638 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
34044555 CGTGCATATA
* *
34044565 AATCTAGTATATTCAGGAAAAACATACCATATTTAAC
1 AATCTAGTACATTAAGGAAAAACATACCATATTTAAC
*
34044602 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
1 AATCTAGTACATTAAGGAAAAACATACCATATTTAAC
34044639 TATTTCCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (37 bp):
AATCTAGTACATTAAGGAAAAACATACCATATTTAAC
Found at i:34054948 original size:2 final size:2
Alignment explanation
Indices: 34054937--34054972 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
34054927 ACATTTCTAG
34054937 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34054973 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34064586 original size:45 final size:45
Alignment explanation
Indices: 34064536--34064862 Score: 200
Period size: 45 Copynumber: 7.3 Consensus size: 45
34064526 ATATACGGAT
* *
34064536 TCATACATGCGAAATCATAGAAGAAGATTCATATATATGGCAGAC
1 TCATACATGCGAAATCATAGAAGAAGATTCATAGATATGGCAAAC
* * * * *
34064581 TCATACATG-TAGATCATAGAAGATGATACATAGGTATGGCAAAC
1 TCATACATGCGAAATCATAGAAGAAGATTCATAGATATGGCAAAC
* * * * * * *
34064625 TTATATATGCGGATTCATAGAAGATA-ACTCATAGATATGTCGAAC
1 TCATACATGCGAAATCATAGAAGA-AGATTCATAGATATGGCAAAC
* * * * ** * * *
34064670 TCATACATG-TAAATTCACAAAAGGAA-CTTCATAGATAAAGTAGAT
1 TCATACATGCGAAA-TCATAGAA-GAAGATTCATAGATATGGCAAAC
* * * * *
34064715 TCAAACATGCGGATTCAAAGAAGATGATTCATAGATATGGCAAAC
1 TCATACATGCGAAATCATAGAAGAAGATTCATAGATATGGCAAAC
* * * * ** *
34064760 TCATACATAC-AAATTTACAGAAGGAA-CTTCATAGATAAAGCAAAT
1 TCATACATGCGAAA-TCATAGAA-GAAGATTCATAGATATGGCAAAC
* * * * *
34064805 TCAAACATACGAATTCATAGAAGATGATTCATAGATATGACAAAC
1 TCATACATGCGAAATCATAGAAGAAGATTCATAGATATGGCAAAC
34064850 TCATACATG-GAAA
1 TCATACATGCGAAA
34064863 CTTACAGAAG
Statistics
Matches: 200, Mismatches: 72, Indels: 21
0.68 0.25 0.07
Matches are distributed among these distances:
44 44 0.22
45 149 0.75
46 7 0.04
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (45 bp):
TCATACATGCGAAATCATAGAAGAAGATTCATAGATATGGCAAAC
Found at i:34064739 original size:90 final size:89
Alignment explanation
Indices: 34064631--34064922 Score: 379
Period size: 90 Copynumber: 3.3 Consensus size: 89
34064621 AAACTTATAT
* * * *
34064631 ATGCGGATTCATAGAAGATAACTCATAGATATGTCGAACTCATACATGTAAATTCACAAAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAATT-ACAGAAGGAA
34064696 CTTCATAGATAAAGTAGATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * * * *
34064721 ATGCGGATTCAAAGAAGATGATTCATAGATATGGCAAACTCATACATACAAATTTACAGAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGAA
* *
34064786 CTTCATAGATAAAGCAAATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * * * *
34064811 ATACGAATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGGAAACTTACAGAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGAA
*
34064876 CTTCATAGATAAAGTAGATTCATAC
65 CTTCATAGATAAAGTAGATTCAAAC
**
34064901 ATGTAGATTCATAGAAGA-AACT
1 ATGCGGATTCATAGAAGATAACT
34064923 TTATAAGCAT
Statistics
Matches: 175, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
89 2 0.01
90 171 0.98
91 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.25
Consensus pattern (89 bp):
ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAATTACAGAAGGAAC
TTCATAGATAAAGTAGATTCAAAC
Found at i:34064899 original size:45 final size:45
Alignment explanation
Indices: 34064670--34064923 Score: 164
Period size: 45 Copynumber: 5.6 Consensus size: 45
34064660 TATGTCGAAC
* * * *
34064670 TCATACATGTAAATTCACAAAAGGAACTTCATAGATAAAGTAGAT
1 TCATACATGGAAATTCACAGAAGGAACTTCATAGATAAAGCAAAT
* * * ** *
34064715 TCAAACATGCG-GATTCAAAGAA-GATGA-TTCATAGATATGGCAAAC
1 TCATACATG-GAAATTCACAGAAGGA--ACTTCATAGATAAAGCAAAT
** *
34064760 TCATACATACAAATTTACAGAAGGAACTTCATAGATAAAGCAAAT
1 TCATACATGGAAATTCACAGAAGGAACTTCATAGATAAAGCAAAT
* * * * *
34064805 TCAAACATACG-AATTCATAGAA-GATGA-TTCATAGAT-ATGACAAAC
1 TCATACAT-GGAAATTCACAGAAGGA--ACTTCATAGATAAAG-CAAAT
* *
34064850 TCATACATGGAAACTT-ACAGAAGGAACTTCATAGATAAAGTAGAT
1 TCATACATGGAAA-TTCACAGAAGGAACTTCATAGATAAAGCAAAT
* * * *
34064895 TCATACATGTAGATTCATAGAAGAAACTT
1 TCATACATGGAAATTCACAGAAGGAACTT
34064924 TATAAGCATA
Statistics
Matches: 156, Mismatches: 37, Indels: 32
0.69 0.16 0.14
Matches are distributed among these distances:
44 11 0.07
45 135 0.87
46 10 0.06
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (45 bp):
TCATACATGGAAATTCACAGAAGGAACTTCATAGATAAAGCAAAT
Found at i:34064986 original size:44 final size:46
Alignment explanation
Indices: 34064891--34064994 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 46
34064881 TAGATAAAGT
* * *
34064891 AGATTCATACATGT-AGATTCATAGAAGAAACTTTATAAGCATAGT
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
* * *
34064936 GGATTCATTCATGTGA-ATTCATAAAAG-AACTTCATAATCATAGC
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
*
34064980 ATATTCATACATGTG
1 AGATTCATACATGTG
34064995 CTTAAAGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 26 0.53
45 22 0.45
46 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (46 bp):
AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
Found at i:34066860 original size:15 final size:15
Alignment explanation
Indices: 34066836--34066866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34066826 AGGCATGGTT
*
34066836 GATTAGGTTGAATTG
1 GATTAAGTTGAATTG
34066851 GATTAAGTTGAATTG
1 GATTAAGTTGAATTG
34066866 G
1 G
34066867 CATGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
GATTAAGTTGAATTG
Found at i:34067829 original size:16 final size:18
Alignment explanation
Indices: 34067802--34067835 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34067792 TAGAACCAAG
34067802 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
34067819 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
34067836 ATTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:34070089 original size:37 final size:37
Alignment explanation
Indices: 34070048--34070289 Score: 306
Period size: 37 Copynumber: 6.5 Consensus size: 37
34070038 TAGTCTGCCA
* **
34070048 GACTTGTCGTCATGTTTCAAGTTATGACAATTTGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * * *
34070085 GACTTTTCCTTATGTTTCAAGTTATGACAACCCGTTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* ** *
34070122 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCAT-GTTTCAAGTTATGACAATCCGCTG
* *
34070159 GACTTGTCCTCACGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* *
34070196 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * *
34070233 GACTTATCATCATGCTTCAAGTTATGACAATCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
34070270 GACTTGTCCTCATGTTTCAA
1 GACTTGTCCTCATGTTTCAA
34070290 TATACGATGG
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
36 2 0.01
37 172 0.98
38 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (37 bp):
GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
Found at i:34070324 original size:74 final size:74
Alignment explanation
Indices: 34070048--34070324 Score: 236
Period size: 74 Copynumber: 3.7 Consensus size: 74
34070038 TAGTCTGCCA
* * * ** * * * * *
34070048 GACTTGTCGTCATGTTTCAAGTTATGACAATTTGCTGGACTTTTCCTTATGTTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
* *
34070113 AACCCGTTG
66 AATCCGCTG
* ** * * * *
34070122 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTGGACTTGTCCTCACGTTTCAAGTTATGA
1 GACTTGTCCTCAT-GTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGA
*
34070186 CATTCCGCTG
65 CAATCCGCTG
* * * * * *
34070196 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTGGACTTATCATCATGCTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
34070261 AATCCGCTG
66 AATCCGCTG
** * *
34070270 GACTTGTCCTCATGTTTCAA-TATACGATGGTCCGTTGCA-TGTGTCCTCAGGCTTC
1 GACTTGTCCTCATGTTTCAAGT-TACGACAGTCCGCTGCACT-TGTCCTCACGCTTC
34070325 TATGCTAAGG
Statistics
Matches: 167, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
73 4 0.02
74 161 0.96
75 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (74 bp):
GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
AATCCGCTG
Found at i:34070516 original size:22 final size:22
Alignment explanation
Indices: 34070466--34070526 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
34070456 GTGGAAATTC
*
34070466 TAAAATTTT-AGTG-TG-AAGT
1 TAAAATTTTAAGTGTTGAAACT
*
34070485 TAAAAATTTAAGTGTTGAAACT
1 TAAAATTTTAAGTGTTGAAACT
34070507 TAAAATTTTAAGTGTTGAAA
1 TAAAATTTTAAGTGTTGAAA
34070527 TGCAGAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.22
20 4 0.11
21 2 0.06
22 22 0.61
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (22 bp):
TAAAATTTTAAGTGTTGAAACT
Found at i:34071916 original size:20 final size:19
Alignment explanation
Indices: 34071880--34071922 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
34071870 AATATCTTAT
34071880 ATATTTTATATAATTAAAA
1 ATATTTTATATAATTAAAA
**
34071899 ATATTTATATATTTTTAAAA
1 ATATTT-TATATAATTAAAA
34071919 ATAT
1 ATAT
34071923 AATGATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTATATAATTAAAA
Found at i:34079334 original size:6 final size:6
Alignment explanation
Indices: 34079325--34079375 Score: 75
Period size: 6 Copynumber: 8.2 Consensus size: 6
34079315 CAAGTTCAAC
*
34079325 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT GCATACAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACAT--AT ACATAT
34079375 A
1 A
34079376 TGGTTGGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 36 0.88
8 5 0.12
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (6 bp):
ACATAT
Found at i:34079478 original size:24 final size:24
Alignment explanation
Indices: 34079446--34079502 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
34079436 ACATGATAGT
34079446 ATTGAATATTGAGAATTGGATTGA
1 ATTGAATATTGAGAATTGGATTGA
34079470 ATTGAATATTGAGAATTGGATTGA
1 ATTGAATATTGAGAATTGGATTGA
34079494 ATTGAATAT
1 ATTGAATAT
34079503 AGCATAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (24 bp):
ATTGAATATTGAGAATTGGATTGA
Found at i:34087591 original size:2 final size:2
Alignment explanation
Indices: 34087584--34087608 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34087574 TGATAACTTG
34087584 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34087609 AAAGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34089817 original size:35 final size:35
Alignment explanation
Indices: 34089755--34089822 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
34089745 ATAGAGGCAT
* *
34089755 ATGTTCGAGTACCCATGCTAGTATACTCATACAGA
1 ATGTACGAGTACCCATACTAGTATACTCATACAGA
* * *
34089790 ATGTACGAGTTCCCATATTAGTGTACTCATACA
1 ATGTACGAGTACCCATACTAGTATACTCATACA
34089823 CCCAAGTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (35 bp):
ATGTACGAGTACCCATACTAGTATACTCATACAGA
Found at i:34098425 original size:3 final size:3
Alignment explanation
Indices: 34098417--34098446 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34098407 ATAAATCACG
34098417 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
34098447 TTTTCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:34105927 original size:20 final size:20
Alignment explanation
Indices: 34105902--34105940 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34105892 CTCGCAGGTA
34105902 TGGCGACGTGGAGACGGACT
1 TGGCGACGTGGAGACGGACT
*
34105922 TGGCGACGTGGAGGCGGAC
1 TGGCGACGTGGAGACGGAC
34105941 GTGCGTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.49, T:0.13
Consensus pattern (20 bp):
TGGCGACGTGGAGACGGACT
Found at i:34106745 original size:134 final size:132
Alignment explanation
Indices: 34106607--34106952 Score: 383
Period size: 133 Copynumber: 2.6 Consensus size: 132
34106597 GCAACTTCAG
* * *
34106607 GGAGATAAGACTGGTGACTTAAATCTGCTCCATTACTGCTACAT-GG-AGATAAGATTCACCGTC
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCC---ACTGCTACATCGGAAGATAAGATTCACCGTC
* * * *
34106670 TTCGATCTGCTCCACTGGTA-CTTCAGGGAGATAAGATCTACAATTTTCAGCCTGCTCCTTTGCT
63 TTCGATCTGCTCCACTGCTATCTCCA-GGAGATAAGATCTA-AATCTTCAACCTGCTCCTTTGCT
34106734 ACCTCAA
126 ACCTCAA
* * ****
34106741 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTGCTACTTCGGGAAGATAAGATTTGTTGTCTT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTGCTACATC-GGAAGATAAGATTCACCGTCTT
* * * * *
34106806 TGATCTGTTCCCCTGCTATCTCCATGAGATAAGATCTAAATCTTCAACTTGCTCCTTTGCTACCT
65 CGATCTGCTCCACTGCTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCT
34106871 CAA
130 CAA
* * * * * *
34106874 GGAGATAAGGCTTGTGGCTTTAATCTGCTCCCCTACTACCTCGGAAAGATAAGATTCGCTGTCTT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTGCTACATCGG-AAGATAAGATTCACCGTCTT
*
34106939 CGATCTACTCCACT
65 CGATCTGCTCCACT
34106953 ACTGCTTATG
Statistics
Matches: 180, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
131 8 0.04
132 2 0.01
133 96 0.53
134 70 0.39
135 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (132 bp):
GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTGCTACATCGGAAGATAAGATTCACCGTCTTC
GATCTGCTCCACTGCTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCTC
AA
Found at i:34106778 original size:44 final size:44
Alignment explanation
Indices: 34106721--34106915 Score: 137
Period size: 44 Copynumber: 4.4 Consensus size: 44
34106711 AATTTTCAGC
** *
34106721 CTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
1 CTGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTTAAT
* * ** * *
34106765 CTGCTCCCCTGCTACTTC-GGGAAGATAAGATTTGTTGTCTTTGAT
1 CTGCTCCCCTGCTACCTCAAGG-AGATAAGGCTTG-TGGCTTTAAT
* * * * * ** *
34106810 CTGTTCCCCTGCTATCTCCATGAGATAAGATCTAAAT--CTTCAA-
1 CTGCTCCCCTGCTACCTCAAGGAGATAAG-GCT-TGTGGCTTTAAT
**
34106853 CTTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTTAAT
1 C-TGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTTAAT
*
34106898 CTGCTCCCCTACTACCTC
1 CTGCTCCCCTGCTACCTC
34106916 GGAAAGATAA
Statistics
Matches: 109, Mismatches: 33, Indels: 18
0.68 0.21 0.11
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 70 0.64
45 30 0.28
46 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (44 bp):
CTGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTTAAT
Found at i:34106981 original size:133 final size:132
Alignment explanation
Indices: 34106653--34106983 Score: 421
Period size: 133 Copynumber: 2.5 Consensus size: 132
34106643 TGCTACATGG
* * * * *
34106653 AGATAAGATTCACCGTCTTCGATCTGCTCCACTGGTACTTCAGGGAGATAAGATCTACAATTTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTT-ATGGAGATAAGATCTA-AATCTTC
* * *
34106718 AGCCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTGCTACTTC
64 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
*
34106783 GGGA
129 GGAA
* * * * * *
34106787 AGATAAGATTTGTTGTCTTTGATCTGTTCCCCTGCTATCTCCAT-GAGATAAGATCTAAATCTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTA-CT-TATGGAGATAAGATCTAAATCTTC
* *
34106851 AACTTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTTAATCTGCTCCCCTACTACCTC
64 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
34106916 GGAA
129 GGAA
* * * *
34106920 AGATAAGATTCGCTGTCTTCGATCTACTCCACTACTGCTTATGGAGACAAGATCTATAATCTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTTATGGAGATAAGATCTA-AATCTTC
34106984 TTTAATCTAT
Statistics
Matches: 166, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
131 2 0.01
132 14 0.08
133 105 0.63
134 42 0.25
135 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (132 bp):
AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTTATGGAGATAAGATCTAAATCTTCAA
CCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTCGG
AA
Found at i:34107047 original size:46 final size:46
Alignment explanation
Indices: 34106981--34107121 Score: 210
Period size: 46 Copynumber: 3.1 Consensus size: 46
34106971 ATCTATAATC
* *
34106981 TTCTTTAATCTATCCCACTGCATCTCAGGGGTATAGGATCTGTATT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGTATT
* * * *
34107027 TTCTTTAACCCATCCTACTGCGTCTCAGGGGCATAGGATCTGCATT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGTATT
* *
34107073 TTCTTCAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGTAAT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGTATT
34107119 TTC
1 TTC
34107122 ATGGATCTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (46 bp):
TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGTATT
Found at i:34111815 original size:21 final size:21
Alignment explanation
Indices: 34111772--34111815 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
34111762 GAAATGCCAA
*
34111772 AAAAGAATATTTGCTCAGGAT
1 AAAAGAATATTTGCTCAGAAT
*
34111793 AAAAGAATATTTGCTTAGAAT
1 AAAAGAATATTTGCTCAGAAT
34111814 AA
1 AA
34111816 GACATAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (21 bp):
AAAAGAATATTTGCTCAGAAT
Found at i:34114210 original size:10 final size:10
Alignment explanation
Indices: 34114179--34114203 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34114169 CCCAGTCTCT
34114179 ATCTTTTCGC
1 ATCTTTTCGC
34114189 ATCTTTTCGC
1 ATCTTTTCGC
34114199 ATCTT
1 ATCTT
34114204 ATTGCATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.28, G:0.08, T:0.52
Consensus pattern (10 bp):
ATCTTTTCGC
Found at i:34119075 original size:2 final size:2
Alignment explanation
Indices: 34119068--34119102 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34119058 AAAATAAGTA
34119068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34119103 AAGAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34119297 original size:31 final size:31
Alignment explanation
Indices: 34119234--34119297 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
34119224 GAAATTTGTA
34119234 AAAAAAATGAAAATAAAATGAATAAATAAAT
1 AAAAAAATGAAAATAAAATGAATAAATAAAT
34119265 AAAAAAA-GAAAA-AAATAT-AATATAATATAAT
1 AAAAAAATGAAAATAAA-ATGAATA-AATA-AAT
34119296 AA
1 AA
34119298 TAATATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (31 bp):
AAAAAAATGAAAATAAAATGAATAAATAAAT
Found at i:34119367 original size:20 final size:20
Alignment explanation
Indices: 34119327--34119367 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34119317 TGATAATAGG
*
34119327 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
34119347 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
34119367 A
1 A
34119368 GTAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:34119439 original size:26 final size:26
Alignment explanation
Indices: 34119394--34119443 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
34119384 AAGCATGATA
*
34119394 ATATGTTAATGATAAAAATAAAAATG
1 ATATGTTAATAATAAAAATAAAAATG
* *
34119420 ATATGTTAATAATTATAATAAAAA
1 ATATGTTAATAATAAAAATAAAAA
34119444 AATAGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATGTTAATAATAAAAATAAAAATG
Found at i:34119622 original size:3 final size:3
Alignment explanation
Indices: 34119590--34119695 Score: 61
Period size: 3 Copynumber: 34.0 Consensus size: 3
34119580 TTAATACGGG
* * * * *
34119590 TAA TAA TAT TAA AAA TTAA TAA GAA GAA TAA TAA TATG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
34119637 TAA AAA TAG TAA CAA CAA TAA TAA TAAA TACA GTAA TAA TAT TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A -TAA TAA TAA TAA TAA
34119685 -AA TAA TAA TAA
1 TAA TAA TAA TAA
34119696 AAATGTCCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.02
3 68 0.84
4 9 0.11
5 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:34122255 original size:46 final size:46
Alignment explanation
Indices: 34122144--34122358 Score: 243
Period size: 46 Copynumber: 4.7 Consensus size: 46
34122134 TTATCTTTGA
* * * * * **
34122144 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
34122191 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * **
34122237 CACGCTGCCATGGTATCTTTCAACCATTGTCTTATTTATTTCCCGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * *
34122283 CATGTTGCCATGGTATATTTCAACCATGGTCTTACAT-ATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTCATGT
*
34122329 CAGGCTGCCATGGTATCTTTCAACCATGGT
1 CATGCTGCCATGGTATCTTTCAACCATGGT
34122359 ATCTTTCAAC
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
46 109 0.76
47 34 0.24
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:34122355 original size:16 final size:16
Alignment explanation
Indices: 34122336--34122374 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
34122326 TATCAGGCTG
34122336 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
34122352 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
34122368 CCATGGT
1 CCATGGT
34122375 CTTACACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:34122359 original size:62 final size:62
Alignment explanation
Indices: 34122290--34122417 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
34122280 CGTCATGTTG
*
34122290 CCATGGTATATTTCAACCATGGTCTTACATATTTCATATCAGGCTGCCATGGTATCTTTCAA
1 CCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
* *
34122352 CCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAA
1 CCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
34122414 CCAT
1 CCAT
34122418 AGTCTTACAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (62 bp):
CCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
Found at i:34122402 original size:46 final size:46
Alignment explanation
Indices: 34122352--34122485 Score: 241
Period size: 46 Copynumber: 2.9 Consensus size: 46
34122342 TATCTTTCAA
*
34122352 CCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
* *
34122398 CCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
34122444 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
34122486 AGAGCACACT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (46 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
Found at i:34122478 original size:154 final size:154
Alignment explanation
Indices: 34122198--34122485 Score: 441
Period size: 154 Copynumber: 1.9 Consensus size: 154
34122188 TGTCATGTTG
** *
34122198 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
* *** * * * *
34122263 TTGTCTTATTTATTTCCCGTCATGTTGCCATGGTATATTTCAACCATGGTCTTACATATTTCATA
66 TAGTCTTACACATTTCACATCAGGTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATA
34122328 TCAGGCTGCCATGGTATCTTTCAA
131 TCAGGCTGCCATGGTATCTTTCAA
* *
34122352 CCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
* *
34122417 TAGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
66 TAGTCTTACACATTTCACATCAGGTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATA
34122482 TCAG
131 TCAG
34122486 AGAGCACACT
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
154 119 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (154 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
TAGTCTTACACATTTCACATCAGGTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATA
TCAGGCTGCCATGGTATCTTTCAA
Found at i:34126853 original size:12 final size:12
Alignment explanation
Indices: 34126836--34126870 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34126826 TTGGCCTGCC
34126836 TATATTAATTTT
1 TATATTAATTTT
34126848 TATATTAATTTT
1 TATATTAATTTT
34126860 TATA-TAATTTT
1 TATATTAATTTT
34126871 AAAAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:34127028 original size:30 final size:30
Alignment explanation
Indices: 34126994--34127056 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
34126984 ACTTAACAAG
34126994 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
34127024 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
34127054 CAA
1 CAA
34127057 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:34127735 original size:17 final size:17
Alignment explanation
Indices: 34127713--34127745 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34127703 TCCAACACCC
34127713 AAAAAATATTTTTTTTT
1 AAAAAATATTTTTTTTT
34127730 AAAAAATATTTTTTTT
1 AAAAAATATTTTTTTT
34127746 AACCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAAAATATTTTTTTTT
Found at i:34129622 original size:29 final size:30
Alignment explanation
Indices: 34129575--34129638 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
34129565 TAAACTTAGG
* *
34129575 ATTTAGTTCATGTA-TTTTTATTTTTAAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
* *
34129604 ATTTAGTTCATTTACTTTTCATATTTCAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
34129634 ATTTA
1 ATTTA
34129639 AATCCAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (30 bp):
ATTTAGTTCATGTACTTTTCATATTTAAAA
Found at i:34131517 original size:46 final size:46
Alignment explanation
Indices: 34131448--34131551 Score: 156
Period size: 46 Copynumber: 2.3 Consensus size: 46
34131438 AACCTTATTG
* * *
34131448 TTGGGCTTTGAGGTAGTGTAAGCCCATCACA-TCTATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTC-ATGGGTCTAAAA
*
34131494 TTGGGCCTTGAGGTAATGAAAGCCCATCATATTCATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
34131540 TTGGGCCTTGAG
1 TTGGGCCTTGAG
34131552 ACTTACACCA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 51 0.96
47 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
Found at i:34131889 original size:20 final size:20
Alignment explanation
Indices: 34131864--34131901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34131854 AACTTTAGCC
*
34131864 TAGTTTAATTGGTTTTTAAA
1 TAGTTTAATCGGTTTTTAAA
*
34131884 TAGTTTGATCGGTTTTTA
1 TAGTTTAATCGGTTTTTA
34131902 GCGGTTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (20 bp):
TAGTTTAATCGGTTTTTAAA
Found at i:34132929 original size:6 final size:7
Alignment explanation
Indices: 34132914--34132938 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34132904 CTAAAAAGAG
34132914 AAAATAA
1 AAAATAA
34132921 AAAATAA
1 AAAATAA
34132928 AAAATAA
1 AAAATAA
34132935 AAAA
1 AAAA
34132939 GCCTTTGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:34134190 original size:19 final size:20
Alignment explanation
Indices: 34134154--34134191 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34134144 AACATAATAG
34134154 AGTAAGCATTATACATGCTT
1 AGTAAGCATTATACATGCTT
*
34134174 AGTAAGC-TTATAGATGCT
1 AGTAAGCATTATACATGCT
34134192 ACACCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTAAGCATTATACATGCTT
Found at i:34135832 original size:40 final size:40
Alignment explanation
Indices: 34135787--34135862 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
34135777 CACACTATGA
* * *
34135787 GGGGATAAAATCGACCCACCCAGCCTTACACACCAAGTAT
1 GGGGATAAAATCAACCCACCCAACCCTACACACCAAGTAT
*
34135827 GGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 GGGGATAAAATCAACCCACCCAACCCTACACACCAA
34135863 ATGGTACCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.38, C:0.34, G:0.14, T:0.13
Consensus pattern (40 bp):
GGGGATAAAATCAACCCACCCAACCCTACACACCAAGTAT
Found at i:34142277 original size:35 final size:35
Alignment explanation
Indices: 34142231--34142297 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
34142221 CAGATCCGCA
*
34142231 TCGTGCCCACGACTCCAGCCGTGACAGAATAAGCG
1 TCGTGCCCACGACTCCAACCGTGACAGAATAAGCG
*
34142266 TCGTGCCCACGACTCCAACCGTGACTGAATAA
1 TCGTGCCCACGACTCCAACCGTGACAGAATAA
34142298 AAAGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.22, T:0.16
Consensus pattern (35 bp):
TCGTGCCCACGACTCCAACCGTGACAGAATAAGCG
Found at i:34143053 original size:26 final size:28
Alignment explanation
Indices: 34143019--34143081 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
34143009 AATCATCAAA
*
34143019 CTTTTTTTTCGAATTATTTTTTTT-TTT
1 CTTTTTTTTCGAACTATTTTTTTTCTTT
* *
34143046 -TTTTTTTTTGAACTCTTTTTTTTCTTT
1 CTTTTTTTTCGAACTATTTTTTTTCTTT
34143073 CTTTTTTTT
1 CTTTTTTTT
34143082 TCTTTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.65
27 3 0.10
28 8 0.26
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (28 bp):
CTTTTTTTTCGAACTATTTTTTTTCTTT
Found at i:34143089 original size:10 final size:10
Alignment explanation
Indices: 34143063--34143114 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
34143053 TTGAACTCTT
34143063 TTTTTTCTTTC
1 TTTTTT-TTTC
34143074 TTTTTTTTTC
1 TTTTTTTTTC
* *
34143084 TTTTTTGTGC
1 TTTTTTTTTC
34143094 TTTTTTTTGTC
1 TTTTTTTT-TC
34143105 TCTTTTTTTT
1 T-TTTTTTTT
34143115 GTTGAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 19 0.54
11 9 0.26
12 7 0.20
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:34143099 original size:12 final size:13
Alignment explanation
Indices: 34143084--34143116 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34143074 TTTTTTTTTC
34143084 TTTTTTGT-GCTT
1 TTTTTTGTCGCTT
*
34143096 TTTTTTGTCTCTT
1 TTTTTTGTCGCTT
34143109 TTTTTTGT
1 TTTTTTGT
34143117 TGAACATGAT
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:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTTTGTCGCTT
Found at i:34149871 original size:7 final size:7
Alignment explanation
Indices: 34149859--34149883 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34149849 GTTGTCTTCT
34149859 TGTTTGA
1 TGTTTGA
34149866 TGTTTGA
1 TGTTTGA
34149873 TGTTTGA
1 TGTTTGA
34149880 TGTT
1 TGTT
34149884 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:34150807 original size:27 final size:28
Alignment explanation
Indices: 34150751--34150820 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
34150741 AAATTTGTAC
34150751 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
34150779 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
34150806 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34150821 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:34157725 original size:7 final size:7
Alignment explanation
Indices: 34157713--34157737 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34157703 GTTGTCTTCT
34157713 TGTTTGA
1 TGTTTGA
34157720 TGTTTGA
1 TGTTTGA
34157727 TGTTTGA
1 TGTTTGA
34157734 TGTT
1 TGTT
34157738 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:34158667 original size:27 final size:28
Alignment explanation
Indices: 34158611--34158680 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
34158601 AAATTTGTAC
34158611 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
34158639 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
34158666 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34158681 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:34159585 original size:16 final size:17
Alignment explanation
Indices: 34159553--34159586 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34159543 AAATCACTAA
*
34159553 AAATAGTAGAATGAATT
1 AAATAGTAGAATAAATT
34159570 AAATAGT-GAATAAATT
1 AAATAGTAGAATAAATT
34159586 A
1 A
34159587 TATGAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
AAATAGTAGAATAAATT
Found at i:34161456 original size:35 final size:35
Alignment explanation
Indices: 34161410--34161480 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
34161400 CGTCGTGCCC
* *
34161410 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
34161445 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
34161480 A
1 A
34161481 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
Found at i:34162590 original size:16 final size:16
Alignment explanation
Indices: 34162571--34162602 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34162561 AATTGTTTTA
34162571 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
34162587 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
34162603 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:34162867 original size:50 final size:50
Alignment explanation
Indices: 34162813--34163146 Score: 271
Period size: 50 Copynumber: 6.6 Consensus size: 50
34162803 CTGGTACGCA
*
34162813 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
* * * * * * * *
34162863 TAGTAGACTGCGCTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
* ** * * **
34162913 TAGTAACCTGCACTTAGTACTACACATGTGATCGAAGTTAA-CGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACATG
* * * *
34162964 TAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
* * * * * * * *
34163014 TATTAGCTTGCACTTAGTACCACACACGTGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
* * ** * *
34163064 TAGTAGCCTGCACTAAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA-G
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTA--CATG
*
34163116 -AGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
34163147 TCACAATGGA
Statistics
Matches: 223, Mismatches: 54, Indels: 14
0.77 0.19 0.05
Matches are distributed among these distances:
49 3 0.01
50 144 0.65
51 71 0.32
52 3 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
Found at i:34163006 original size:101 final size:100
Alignment explanation
Indices: 34162813--34163045 Score: 227
Period size: 101 Copynumber: 2.3 Consensus size: 100
34162803 CTGGTACGCA
* * * ** *
34162813 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGACTGCGCTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATCAATCGGGTACACATAGTAGACTGCACTT
* * * *
34162878 AGTACTACACACGTGACTTAACCATCTGATACACG
66 AGTACTAAACACGCGACCTAACAATCTGATACACG
* * *
34162913 TAGTAACCTGCACTTAGTACTACACATGTGATCGAAGTTAA-CGGGTACACATAGTAG-CTTGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TCAATCGGGTACACATAGTAGAC-TGCA
* * * **
34162976 CTTAGTACTAAACATGCGACCTATCAATCTGGTACGTG
63 CTTAGTACTAAACACGCGACCTAACAATCTGATACACG
* * * *
34163014 TATTAGCTTGCACTTAGTACCACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
34163046 TTAACCATCT
Statistics
Matches: 107, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
100 31 0.29
101 73 0.68
102 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATCAATCGGGTACACATAGTAGACTGCACTT
AGTACTAAACACGCGACCTAACAATCTGATACACG
Found at i:34163068 original size:151 final size:151
Alignment explanation
Indices: 34162805--34163136 Score: 540
Period size: 151 Copynumber: 2.2 Consensus size: 151
34162795 GAAGCTCTCT
*
34162805 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGA
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACATGTAGTAGA
* * *
34162870 CTGCGCTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAACCTGCACTTAGTACTA
66 CTGCACTTAGTACCACACACGTGACTTAACCATCTGATACACGTAGTAACCTGCACTAAGTACTA
*
34162935 CACATGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* * * *
34162956 GGTACACATAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACGTGTATTAG-
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACATGTAGTAGA
* *
34163020 CTTGCACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACTAAGTACT
66 C-TGCACTTAGTACCACACACGTGACTTAACCATCTGATACACGTAGTAACCTGCACTAAGTACT
34163085 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCGAAGTTAACG
*
34163107 GGTACGCAGAGTAGCCTGCACTTAGTACTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTA
34163137 CACACGTGAC
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 1 0.01
151 165 0.99
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACATGTAGTAGA
CTGCACTTAGTACCACACACGTGACTTAACCATCTGATACACGTAGTAACCTGCACTAAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:34165685 original size:28 final size:28
Alignment explanation
Indices: 34165647--34165701 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
34165637 ATACTTATGG
34165647 TTTTTTTTGTC-CTATATTGGTACCCAA
1 TTTTTTTTGTCACTATATTGGTACCCAA
34165674 TTTTTTTCTGTCAACTATATTGGTACCC
1 TTTTTTT-TGTC-ACTATATTGGTACCC
34165702 GAACCTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 7 0.28
28 4 0.16
30 14 0.56
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (28 bp):
TTTTTTTTGTCACTATATTGGTACCCAA
Found at i:34166903 original size:26 final size:25
Alignment explanation
Indices: 34166867--34166969 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 25
34166857 CATGGTACAA
34166867 AATGAGTTAGGTAAATGTTCCATGAT
1 AATG-GTTAGGTAAATGTTCCATGAT
*
34166893 AATGGATTAGGTAAATATTCCATGAT
1 AATGG-TTAGGTAAATGTTCCATGAT
34166919 AATGGTTAGGTAAATGTTCCATGAT
1 AATGGTTAGGTAAATGTTCCATGAT
34166944 AATGGTTTAGGTAAATGTTCCATGAT
1 AATGG-TTAGGTAAATGTTCCATGAT
34166970 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 25 0.34
26 48 0.66
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (25 bp):
AATGGTTAGGTAAATGTTCCATGAT
Found at i:34166932 original size:51 final size:52
Alignment explanation
Indices: 34166867--34166969 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 52
34166857 CATGGTACAA
34166867 AATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
1 AATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
* *
34166919 AATG-GTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGAT
1 AATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
34166970 GGGCATTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 45 0.92
52 4 0.08
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (52 bp):
AATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
Found at i:34168606 original size:27 final size:27
Alignment explanation
Indices: 34168567--34168642 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
34168557 GGAAGCGTCC
*
34168567 TGGTGGCTATGCCACAATTATCTGAT-T
1 TGGTGGCTCTGCCACAATTATCTG-TCT
34168594 TGGTGGCTCTGCCAC-ATATATCTGTCT
1 TGGTGGCTCTGCCACAAT-TATCTGTCT
34168621 TGGTGGCTCTGCCACAA-TATCT
1 TGGTGGCTCTGCCACAATTATCT
34168643 ATATCTGGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 8 0.18
27 36 0.80
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGTCT
Found at i:34170085 original size:16 final size:16
Alignment explanation
Indices: 34170064--34170101 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34170054 AAGGATGAAC
*
34170064 AAATGAGAA-AGGTTGA
1 AAATGA-AAGAGGTAGA
34170080 AAATGAAAGAGGTAGA
1 AAATGAAAGAGGTAGA
34170096 AAATGA
1 AAATGA
34170102 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (16 bp):
AAATGAAAGAGGTAGA
Found at i:34170149 original size:15 final size:15
Alignment explanation
Indices: 34170129--34170158 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34170119 TAGTGAAAGG
34170129 AAAAATGTTAAGGGA
1 AAAAATGTTAAGGGA
*
34170144 AAAAATTTTAAGGGA
1 AAAAATGTTAAGGGA
34170159 TTTTTTAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (15 bp):
AAAAATGTTAAGGGA
Found at i:34173832 original size:40 final size:40
Alignment explanation
Indices: 34173777--34174223 Score: 522
Period size: 40 Copynumber: 11.2 Consensus size: 40
34173767 AATTATTGAA
*
34173777 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34173817 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34173857 TGATTGCACTTACGTGCCCTTATTTGTACTTTGGTACACT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
34173897 TGATTGCACTAATGTGCCCCTGTTTGTACTTGGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
34173937 TGATTGCAGTTACGTGCCCTTATTTGTACTTTGGTACACT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
** * * *
34173977 TGATTGCACTTATATGCCTCTGTTTGTACTTTGGTATCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34174017 TGATTGCACTTATGTGCCCTTTTTTGTATTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34174057 TGATTGCACTTACGTGCCCATGTTTGTACTTCGG-AACCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
*
34174096 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTA-CCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34174135 TGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34174175 TGAATGCACAT-CTGTACCCCTGTTTGCACTTCGATACCCC
1 TGATTGCACTTAC-GTGCCCCTGTTTGTACTTCGGTACCCC
34174215 TGATTGCAC
1 TGATTGCAC
34174224 ATTTGTGCTC
Statistics
Matches: 347, Mismatches: 57, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
39 73 0.21
40 274 0.79
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:34173836 original size:20 final size:20
Alignment explanation
Indices: 34173777--34174245 Score: 149
Period size: 20 Copynumber: 23.6 Consensus size: 20
34173767 AATTATTGAA
*
34173777 TGATTGCACTTACGTGCCCT
1 TGATTGCACTTACGTGCCCC
* * *
34173797 TGTTTGTACTT-CGGTACCCC
1 TGATTGCACTTAC-GTGCCCC
34173817 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
*
34173837 T-ATTTGTACTT-CGGTGCCCC
1 TGA-TTGCACTTAC-GTGCCCC
34173857 TGATTGCACTTACGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * ** * * *
34173876 TTATTTGTACTTTGGTACACT
1 TGA-TTGCACTTACGTGCCCC
* *
34173897 TGATTGCACTAATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * ** * *
34173917 TGTTTGTACTTGGGTACCCT
1 TGATTGCACTTACGTGCCCC
*
34173937 TGATTGCAGTTACGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * ** * * *
34173956 TTATTTGTACTTTGGTACACT
1 TGA-TTGCACTTACGTGCCCC
** *
34173977 TGATTGCACTTATATGCCTC
1 TGATTGCACTTACGTGCCCC
* * ** **
34173997 TGTTTGTACTTTGGTATCCC
1 TGATTGCACTTACGTGCCCC
* *
34174017 TGATTGCACTTATGTGCCCT
1 TGATTGCACTTACGTGCCCC
** * * * *
34174037 TTTTTGTA-TTTCGGTACCCT
1 TGATTGCACTTAC-GTGCCCC
*
34174057 TGATTGCACTTACGTGCCCA
1 TGATTGCACTTACGTGCCCC
* * *
34174077 TGTTTGTACTT-CG-GAACCC
1 TGATTGCACTTACGTG-CCCC
34174096 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* *
34174116 T-ATTTGTACTT-CG-GTACCC
1 TGA-TTGCACTTACGTG-CCCC
34174135 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
34174155 TGTTTGTACTT-CAGTACCCT
1 TGATTGCACTTAC-GTGCCCC
* * *
34174175 TGAATGCACAT-CTGTACCCC
1 TGATTGCACTTAC-GTGCCCC
* *
34174195 TGTTTGCACTT-CGATACCCC
1 TGATTGCACTTACG-TGCCCC
* *
34174215 TGATTGCACATT-TGTGCTCC
1 TGATTGCAC-TTACGTGCCCC
*
34174235 TGATTACACTT
1 TGATTGCACTT
34174246 GGTGGCCCTG
Statistics
Matches: 315, Mismatches: 111, Indels: 47
0.67 0.23 0.10
Matches are distributed among these distances:
18 2 0.01
19 45 0.14
20 251 0.80
21 17 0.05
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:34175037 original size:20 final size:19
Alignment explanation
Indices: 34174994--34175049 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
34174984 AAGTTTATGT
* *
34174994 TAAGTAAATGACATGTAAAG
1 TAAGTAAATGA-ATGGAAAA
34175014 TAAGTAAATAGAATGGAAAA
1 TAAGTAAAT-GAATGGAAAA
*
34175034 TAAGCAAATGGAATGG
1 TAAGTAAAT-GAATGG
34175050 TTCATGATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.23, T:0.21
Consensus pattern (19 bp):
TAAGTAAATGAATGGAAAA
Found at i:34178207 original size:33 final size:33
Alignment explanation
Indices: 34178131--34178207 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
34178121 AGTATATGTA
* *
34178131 TAAGTGTAAGACCATAGCTGGGCTATGACACCC
1 TAAGTGTAAGACCATAACTGGGCTATGACACAC
* *
34178164 TAA-TAATAAGACCATAACTGGGTTATGACACTAC
1 TAAGT-GTAAGACCATAACTGGGCTATGACAC-AC
34178198 -AAGTGTAAGA
1 TAAGTGTAAGA
34178208 TCATGGCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
32 1 0.03
33 33 0.92
34 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (33 bp):
TAAGTGTAAGACCATAACTGGGCTATGACACAC
Found at i:34180198 original size:21 final size:21
Alignment explanation
Indices: 34180174--34180218 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
34180164 ATTTTGATGA
*
34180174 TTGATGATAGATTATA-AATTT
1 TTGATGATAG-TTATACAAGTT
34180195 TTGATGATAGTTATACAAGTT
1 TTGATGATAGTTATACAAGTT
34180216 TTG
1 TTG
34180219 TTAAGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (21 bp):
TTGATGATAGTTATACAAGTT
Found at i:34182102 original size:2 final size:2
Alignment explanation
Indices: 34182095--34182127 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34182085 ATATTGTGGC
34182095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34182128 GTGGCAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34182856 original size:27 final size:26
Alignment explanation
Indices: 34182809--34182862 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
34182799 ATCACACAAG
* *
34182809 TTAGTCATTTACGCACGAGGGGCAAA
1 TTAGTCATTTACCCACCAGGGGCAAA
* *
34182835 TTAGTCATTTTACCCTCCAGGGGTAAA
1 TTAGTCA-TTTACCCACCAGGGGCAAA
34182862 T
1 T
34182863 CGGTAGTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
TTAGTCATTTACCCACCAGGGGCAAA
Found at i:34184042 original size:12 final size:12
Alignment explanation
Indices: 34184027--34184089 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
34184017 TGTTATCAAT
34184027 TTATTATTATAA
1 TTATTATTATAA
**
34184039 TTATTATTATGGT
1 TTATTATTAT-AA
*
34184052 TTTTTATT-TAA
1 TTATTATTATAA
*
34184063 ATATTATTATTAA
1 TTATTATTA-TAA
34184076 -TATTATTAT-A
1 TTATTATTATAA
34184086 TTAT
1 TTAT
34184090 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 10 0.25
12 19 0.47
13 10 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:34184360 original size:24 final size:23
Alignment explanation
Indices: 34184333--34184389 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
34184323 TATGCATTTG
34184333 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
34184357 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
34184381 TTATTAAAT
1 TTATTAAAT
34184390 TATGATTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:34184362 original size:3 final size:3
Alignment explanation
Indices: 34184348--34184433 Score: 83
Period size: 3 Copynumber: 30.0 Consensus size: 3
34184338 AAATAGATAT
* * *
34184348 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
34184389 TTA TGA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34184434 AAATAAATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
2 8 0.12
3 58 0.87
4 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:34184580 original size:16 final size:16
Alignment explanation
Indices: 34184559--34184605 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
34184549 GTGAATTAAA
34184559 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
34184575 TATTATTATAATGTAT
1 TATTATTATATTATAT
*
34184591 TGTTATTAATATTAT
1 TATTATT-ATATTAT
34184606 TAACTAACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:34185827 original size:34 final size:36
Alignment explanation
Indices: 34185786--34185853 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
34185776 AAGTGGAAAA
34185786 GTGAATTTGAATTG-AA-TGAGAATTG-AATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGAAATTGAATT
34185820 GTGAATTTGAATTGAAAGTGAAATTGAAATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGAAATTGAA
34185854 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 7 0.23
36 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGAAATTGAATT
Found at i:34185854 original size:18 final size:17
Alignment explanation
Indices: 34185783--34185864 Score: 96
Period size: 17 Copynumber: 4.8 Consensus size: 17
34185773 AGAAAGTGGA
34185783 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
* *
34185800 AATGAGAA-TTGAATTG
1 AAAGTGAATTTGAATTG
*
34185816 AATTGTGAATTTGAATTG
1 AA-AGTGAATTTGAATTG
*
34185834 AAAGTGAAATTGAAATTG
1 AAAGTGAATTTG-AATTG
34185852 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
34185865 ATGTGAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 12 0.21
17 23 0.41
18 21 0.38
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:34185865 original size:11 final size:13
Alignment explanation
Indices: 34185781--34185875 Score: 59
Period size: 12 Copynumber: 8.1 Consensus size: 13
34185771 CTAGAAAGTG
*
34185781 GAAAAGTGAATTT
1 GAAATGTGAATTT
34185794 G-AAT-TGAA--T
1 GAAATGTGAATTT
34185803 GAGAAT-TGAA-TT
1 GA-AATGTGAATTT
*
34185815 GAATTGTGAATTT
1 GAAATGTGAATTT
**
34185828 G-AAT-TGAAAGT
1 GAAATGTGAATTT
*
34185839 GAAAT-TGAAATT
1 GAAATGTGAATTT
34185851 GAAA-GTG-ATTT
1 GAAATGTGAATTT
34185862 GAAATGTGAATTT
1 GAAATGTGAATTT
34185875 G
1 G
34185876 GAGACCCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
9 2 0.03
11 26 0.39
12 29 0.44
13 9 0.14
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (13 bp):
GAAATGTGAATTT
Found at i:34187213 original size:69 final size:70
Alignment explanation
Indices: 34187081--34187213 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 70
34187071 TAGTTTATTA
* * * * *
34187081 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTCTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
34187146 CTTAG
66 CTTAG
* *
34187151 CTAATTAATATGCTATTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
34187214 GTTATGTGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
69 35 0.62
70 21 0.38
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34188023 original size:39 final size:39
Alignment explanation
Indices: 34187971--34188359 Score: 438
Period size: 39 Copynumber: 9.9 Consensus size: 39
34187961 ATTTGATGTA
*
34187971 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* *
34188010 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
34188049 TATCCGGACTTAAGGTCCGTAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
34188088 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTT-AAGATCCGCAGGCT-TCGTGCTGGAATTG
* * *
34188128 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
34188168 TATCCAGACTTAAGGTCCGCAGGCTTCGTGCTAGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
34188207 TATTCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
34188247 TATCTGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
34188287 TATCCGGACTTAAGATCCGTAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
34188326 TATTCGGACTTAAGGTCCGTAGGCTTCGTACTGG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGG
34188360 TACTATATCC
Statistics
Matches: 307, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
39 172 0.56
40 134 0.44
41 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
Found at i:34188132 original size:40 final size:39
Alignment explanation
Indices: 34187987--34188320 Score: 361
Period size: 40 Copynumber: 8.4 Consensus size: 39
34187977 GACTTAAGGT
* **
34187987 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGGT
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* * **
34188026 CCGCAAGCTTCGTGCTGGAATTGTATCCGGACTT-AAGGT
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
34188065 CCGTAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
34188105 CCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCT-TGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * **
34188145 CCGCAGGCTTTGTGCTGGAATTGTATCCAGACTT-AAGGT
1 CCGCAGGC-TTGTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
34188184 CCGCAGGCTTCGTGCTAGAATTGTATTCGGGCTTAAAGAC
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
34188224 CCACAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGAC
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
34188264 CCGCAGGCTTTGTGCTGGAATTGTATCCGGACTT-AAGAT
1 CCGCAGGC-TTGTGCTGGAATTGTATCCGGGCTTAAAGAC
*
34188303 CCGTAGGCTTCGTGCTGG
1 CCGCAGGCTT-GTGCTGG
34188321 TACTATATTC
Statistics
Matches: 258, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.02
39 118 0.46
40 132 0.51
41 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGCAGGCTTGTGCTGGAATTGTATCCGGGCTTAAAGAC
Found at i:34188330 original size:119 final size:119
Alignment explanation
Indices: 34187990--34188338 Score: 504
Period size: 119 Copynumber: 2.9 Consensus size: 119
34187980 TTAAGGTCCG
* ** * *
34187990 CAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTATCC
1 CAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATCC
* * *
34188054 GGACTTAAGGTCCGTAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
66 GGACTTAAGGTCCGTAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGACCCA
* *
34188108 CAGGCTAT-ATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATC
1 CAGGCT-TCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATC
* * *
34188172 CAGACTTAAGGTCCGCAGGCTTCGTGCTAGAATTGTATTCGGGCTTAAAGACCCA
65 CGGACTTAAGGTCCGTAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGACCCA
*
34188227 CAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATCC
1 CAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATCC
* * * * *
34188292 GGACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATTCGGACTTAA
66 GGACTTAAGGTCCGTAGGCTTCGTGCTGGAATTGTATTCGGGCTTAA
34188339 GGTCCGTAGG
Statistics
Matches: 204, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
118 27 0.13
119 177 0.87
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (119 bp):
CAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATCC
GGACTTAAGGTCCGTAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGACCCA
Found at i:34188360 original size:39 final size:39
Alignment explanation
Indices: 34188291--34188367 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
34188281 GAATTGTATC
*
34188291 CGGACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATT
1 CGGACTTAAGATCCGTAGGCTTCGTACTGGTACTATATT
*
34188330 CGGACTTAAGGTCCGTAGGCTTCGTACTGGTACTATAT
1 CGGACTTAAGATCCGTAGGCTTCGTACTGGTACTATAT
34188368 CCGAGCTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (39 bp):
CGGACTTAAGATCCGTAGGCTTCGTACTGGTACTATATT
Found at i:34195070 original size:12 final size:13
Alignment explanation
Indices: 34195054--34195088 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
34195044 TAAATTGAGC
34195054 CATAAATATTTTT
1 CATAAATATTTTT
34195067 -ATAAAT-TTTTT
1 CATAAATATTTTT
34195078 CATAAATATTT
1 CATAAATATTT
34195089 AAGGAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 12 0.60
13 3 0.15
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (13 bp):
CATAAATATTTTT
Found at i:34195378 original size:22 final size:20
Alignment explanation
Indices: 34195334--34195378 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
34195324 AATTTTATTA
* *
34195334 TTAAAATAAAAGAAAAAAGG
1 TTAAAAAAAAAGAAAAAAAG
34195354 TTAAAAAAATAAGAAACAAAAG
1 TTAAAAAAA-AAGAAA-AAAAG
34195376 TTA
1 TTA
34195379 TCTTCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
TTAAAAAAAAAGAAAAAAAG
Found at i:34196155 original size:40 final size:40
Alignment explanation
Indices: 34196098--34196316 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 40
34196088 AATTATTGAA
* * * *
34196098 TGATTGCATTTATGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
34196138 TGATTGCACTTACGTGCCCCTATTTATACTTCGGTACCGC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* **
34196178 TGATTGCACTTACGTGCCCCCGTTTGTACTTCGGTACCTT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * **
34196218 TAATTGCACTTACGTGCCCTTGTTTGTACTTTAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
34196258 TGAATGCACAT-CTTTGCCCCTGTTTGCACTTCGGTACCCC
1 TGATTGCACTTAC-GTGCCCCTGTTTGTACTTCGGTACCCC
* *
34196298 TAATTGCACTT-GGTGCCCC
1 TGATTGCACTTACGTGCCCC
34196317 AGTTACGCAT
Statistics
Matches: 146, Mismatches: 32, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
39 7 0.05
40 139 0.95
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.37
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Done.