Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 361 of 438
Found at i:112736377 original size:24 final size:24
Alignment explanation
Indices: 112736350--112736400 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
112736340 CTAGATTTCC
**
112736350 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
112736374 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
112736398 TCC
1 TCC
112736401 TGACAGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:112742654 original size:27 final size:26
Alignment explanation
Indices: 112742619--112742730 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
112742609 AGCATGGCTG
* *
112742619 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
112742645 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
112742673 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
112742700 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
112742727 CCAG
1 CCAG
112742731 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:112742711 original size:54 final size:54
Alignment explanation
Indices: 112742619--112742730 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
112742609 AGCATGGCTG
* *
112742619 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
112742673 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
112742727 CCAG
1 CCAG
112742731 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:112761834 original size:21 final size:21
Alignment explanation
Indices: 112761809--112761849 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
112761799 CATTGATTTA
112761809 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
112761830 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
112761850 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:112762549 original size:39 final size:39
Alignment explanation
Indices: 112762495--112762577 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
112762485 GCATGATATT
112762495 TGGAAACATATTCGGACTTGAGCTCCGCAGGCTACGTGC
1 TGGAAACATATTCGGACTTGAGCTCCGCAGGCTACGTGC
*
112762534 TGGAAACATATTCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATTCGGACTTGAGCTCCGCAGGCTACGTGC
112762573 TGGAA
1 TGGAA
112762578 TATATCCGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGGAAACATATTCGGACTTGAGCTCCGCAGGCTACGTGC
Found at i:112771225 original size:13 final size:13
Alignment explanation
Indices: 112771207--112771233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112771197 TAATAATACT
112771207 ATGTTAAATCTTG
1 ATGTTAAATCTTG
112771220 ATGTTAAATCTTG
1 ATGTTAAATCTTG
112771233 A
1 A
112771234 AATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (13 bp):
ATGTTAAATCTTG
Found at i:112773041 original size:242 final size:242
Alignment explanation
Indices: 112772616--112773342 Score: 1454
Period size: 242 Copynumber: 3.0 Consensus size: 242
112772606 CTTTACTGCA
112772616 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
1 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
112772681 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
66 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
112772746 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
131 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
112772811 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
196 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
112772858 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
1 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
112772923 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
66 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
112772988 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
131 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
112773053 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
196 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
112773100 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
1 ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
112773165 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
66 ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
112773230 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
131 AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
112773295 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
196 CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
112773342 A
1 A
112773343 ATGCATTGAA
Statistics
Matches: 485, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
242 485 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.21
Consensus pattern (242 bp):
ATGTGAACTGAAACAAGGCTTGAAGAAAATGCAAATCTAGGGAGAAGAAGAGGTGGTATCAAATG
ATCTTTTCCTAACAAGCAGGCAGGTAATCTTGGAAGGGTGAGCGTGGGTGTTATCAACTGTACAT
AACACAAAGTCCGGTTGGTGGAGTGCGAGTGGCAGCCGCTGGCCCTCGCTGAAAACCAACGGGGT
CGCATCAAGGAGAACGTGCCATGAGTTTCTATGTGCCTCCGAGATCC
Found at i:112775655 original size:16 final size:16
Alignment explanation
Indices: 112775634--112775666 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
112775624 AAGAGAATTG
112775634 AAAAGAG-GAGAAAAAT
1 AAAAGAGTG-GAAAAAT
112775650 AAAAGAGTGGAAAAAT
1 AAAAGAGTGGAAAAAT
112775666 A
1 A
112775667 GAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAAGAGTGGAAAAAT
Found at i:112778966 original size:19 final size:19
Alignment explanation
Indices: 112778942--112778981 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
112778932 AAAAGGCAAA
112778942 GATGAAATAATGGATTGAT
1 GATGAAATAATGGATTGAT
112778961 GATGAAATAATGGATTGAT
1 GATGAAATAATGGATTGAT
112778980 GA
1 GA
112778982 AACCAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (19 bp):
GATGAAATAATGGATTGAT
Found at i:112780934 original size:14 final size:14
Alignment explanation
Indices: 112780915--112780948 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
112780905 TTTTATTGAT
112780915 CAATGTGATCATTA
1 CAATGTGATCATTA
112780929 CAATGTGATCATTA
1 CAATGTGATCATTA
112780943 CAATGT
1 CAATGT
112780949 TTCTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (14 bp):
CAATGTGATCATTA
Found at i:112787014 original size:37 final size:37
Alignment explanation
Indices: 112786973--112787070 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
112786963 AAACTCTTAA
*
112786973 GAGAGCCAATCCAACCAATAACACACCAAAAT-CTCAT
1 GAGAGCTAATCCAACCAATAACACACC-AAATGCTCAT
* * *
112787010 GAGAGGTAATCCAA-CAGATAACACTCCAGATGCTCAT
1 GAGAGCTAATCCAACCA-ATAACACACCAAATGCTCAT
* * *
112787047 GAGATCTAATCCATCCGATAACAC
1 GAGAGCTAATCCAACCAATAACAC
112787071 GCTTCGACAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
36 5 0.10
37 44 0.88
38 1 0.02
ACGTcount: A:0.41, C:0.29, G:0.13, T:0.17
Consensus pattern (37 bp):
GAGAGCTAATCCAACCAATAACACACCAAATGCTCAT
Found at i:112789979 original size:40 final size:40
Alignment explanation
Indices: 112789934--112790101 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
112789924 CGGAATATAA
112789934 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
112789974 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
112790014 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
112790054 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
112790094 CCGGATAT
1 CCGGATAT
112790102 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:112798456 original size:46 final size:44
Alignment explanation
Indices: 112798403--112798574 Score: 148
Period size: 46 Copynumber: 3.8 Consensus size: 44
112798393 TGGGCATCTA
*
112798403 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--TCCG
*** * *
112798449 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATCCG
** * *
112798496 AGTTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GA-ATCCG
* * *
112798542 AGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112798575 GTGGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 1 0.01
46 63 0.62
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCCG
Found at i:112803290 original size:18 final size:18
Alignment explanation
Indices: 112803267--112803302 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112803257 AGTCAGACAC
112803267 TTAGCCACAAATTTAGCA
1 TTAGCCACAAATTTAGCA
112803285 TTAGCCACAAATTTAGCA
1 TTAGCCACAAATTTAGCA
112803303 ATCTCTTGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
TTAGCCACAAATTTAGCA
Found at i:112820519 original size:40 final size:40
Alignment explanation
Indices: 112820482--112820664 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
112820472 GCTACTCGTT
*
112820482 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* * *
112820522 TAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
*
112820562 CAAATGCCTTCGGG-CTTAGCCCGA-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTA-TAGTAACTCGCA
* * *
112820601 CAAATGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTATAGTAAC-TCGCA
112820642 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
112820665 GACATCATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.03
39 32 0.26
40 66 0.54
41 20 0.16
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:112820584 original size:79 final size:81
Alignment explanation
Indices: 112820449--112820664 Score: 243
Period size: 79 Copynumber: 2.7 Consensus size: 81
112820439 GAATCACGTA
** * *
112820449 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCG-ATT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGAAAT
*
112820509 ATAGTAACTCGCATAAATG
64 -TAGTAACTCGCACAAATG
*
112820528 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGAAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGAAATT
112820590 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
112820607 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCG
112820665 GACATCATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGAAATTA
GTAACTCGCACAAATG
Found at i:112825673 original size:49 final size:49
Alignment explanation
Indices: 112825612--112825965 Score: 581
Period size: 49 Copynumber: 7.3 Consensus size: 49
112825602 GTATGAGGTA
112825612 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
112825661 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
112825710 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
112825759 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
112825808 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
112825857 TATAAATGTGGTAAGGCCTAATGGCTGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
112825904 TATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
112825951 TATAAATGTGATAAG
1 TATATATGTGATAAG
112825966 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 53 0.18
48 5 0.02
49 229 0.80
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:112832691 original size:40 final size:41
Alignment explanation
Indices: 112832654--112832845 Score: 184
Period size: 40 Copynumber: 4.8 Consensus size: 41
112832644 GAATATAGCT
*
112832654 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTA
* *
112832694 ACTCGCAT-AAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCG-TTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTA
* *
112832734 ACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTA
1 ACTCGTTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTA
** * * *
112832773 ACTCGCACAAATGCTTTC-GGATCTTAGTCCGGA-TATAGTC
1 ACTCGTTCAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTA
* **
112832813 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGTTCAAATGCCTTCGGGACTTAGCCCGGA
112832846 CATCATTCGA
Statistics
Matches: 130, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 33 0.25
40 81 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
ACTCGTTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTA
Found at i:112832772 original size:79 final size:81
Alignment explanation
Indices: 112832638--112832845 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 81
112832628 CCTTCAGAAT
* * * *
112832638 TTAA-CCGAATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGC
1 TTAACCCGGATATAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGC
*
112832700 ATAAATGCCTTCGGGA-C
65 ACAAATGCCTTC-GGATC
*
112832717 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 TTAACCCGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
112832780 CAAATGCTTTCGGATC
66 CAAATGCCTTCGGATC
** * * *
112832796 TTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TTAACCCGGATATAGTAAC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
112832846 CATCATTCGA
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 60 0.55
80 47 0.43
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (81 bp):
TTAACCCGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
CAAATGCCTTCGGATC
Found at i:112835939 original size:9 final size:9
Alignment explanation
Indices: 112835925--112835954 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
112835915 TTGTGTGTTC
112835925 TTTATTTTA
1 TTTATTTTA
112835934 TTTATTTTA
1 TTTATTTTA
112835943 TTTATTTTA
1 TTTATTTTA
112835952 TTT
1 TTT
112835955 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:112840377 original size:5 final size:5
Alignment explanation
Indices: 112840367--112840398 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
112840357 TTGTGTGTTC
112840367 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
112840399 TCACATGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:112840381 original size:9 final size:9
Alignment explanation
Indices: 112840367--112840397 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
112840357 TTGTGTGTTC
112840367 TTTATTTTA
1 TTTATTTTA
112840376 TTTATTTTA
1 TTTATTTTA
112840385 TTTTATTTTA
1 -TTTATTTTA
112840395 TTT
1 TTT
112840398 TTCACATGGA
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:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:112847257 original size:12 final size:12
Alignment explanation
Indices: 112847240--112847265 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
112847230 ACAACAATTC
112847240 AAAAACATTAAA
1 AAAAACATTAAA
112847252 AAAAACATTAAA
1 AAAAACATTAAA
112847264 AA
1 AA
112847266 CAGAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAACATTAAA
Found at i:112851159 original size:31 final size:31
Alignment explanation
Indices: 112851121--112851184 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
112851111 CCTTTTCATA
112851121 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
112851152 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
112851183 TT
1 TT
112851185 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:112851430 original size:24 final size:24
Alignment explanation
Indices: 112851392--112851496 Score: 142
Period size: 24 Copynumber: 4.4 Consensus size: 24
112851382 CTGGAGGCCT
*
112851392 AGCCTCTTTTAGTAACTGGGGCAAA
1 AGCC-CTTTTAGTAACTGGGGCATA
*
112851417 AGCCCTTTTTGTAACTGGGGCATA
1 AGCCCTTTTAGTAACTGGGGCATA
*
112851441 AGCCCTTTT-GATCACTGGGGCATA
1 AGCCCTTTTAG-TAACTGGGGCATA
*
112851465 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAGTAACTGGGGCATA
112851488 AGCCCTTTT
1 AGCCCTTTT
112851497 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
23 21 0.29
24 47 0.65
25 4 0.06
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAGTAACTGGGGCATA
Found at i:112851497 original size:47 final size:48
Alignment explanation
Indices: 112851406--112851497 Score: 150
Period size: 47 Copynumber: 1.9 Consensus size: 48
112851396 TCTTTTAGTA
**
112851406 ACTGGGGCAAAAGCCCTTTTTGTAACTGGGGCATAAGCCCTTTTGATC
1 ACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATC
*
112851454 ACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
112851498 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 26 0.63
48 15 0.37
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (48 bp):
ACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATC
Found at i:112851568 original size:9 final size:9
Alignment explanation
Indices: 112851554--112851610 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
112851544 ACCTAATGTG
112851554 CATATCATA
1 CATATCATA
*
112851563 CATATCATGTG
1 CATATCA--TA
112851574 CATATCATA
1 CATATCATA
*
112851583 CATATCATGTG
1 CATATCA--TA
112851594 CATATCATA
1 CATATCATA
112851603 CATATCAT
1 CATATCAT
112851611 GTTTATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:112851574 original size:20 final size:20
Alignment explanation
Indices: 112851549--112851612 Score: 128
Period size: 20 Copynumber: 3.2 Consensus size: 20
112851539 TGAACACCTA
112851549 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
112851569 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
112851589 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
112851609 ATGT
1 ATGT
112851613 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:112851579 original size:11 final size:11
Alignment explanation
Indices: 112851549--112851601 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
112851539 TGAACACCTA
112851549 ATGTGCATATC
1 ATGTGCATATC
*
112851560 A--TACATATC
1 ATGTGCATATC
112851569 ATGTGCATATC
1 ATGTGCATATC
*
112851580 A--TACATATC
1 ATGTGCATATC
112851589 ATGTGCATATC
1 ATGTGCATATC
112851600 AT
1 AT
112851602 ACATATCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.47
11 18 0.53
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:112866163 original size:40 final size:40
Alignment explanation
Indices: 112866084--112866241 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
112866074 TTCGAATGAT
* * * *
112866084 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
112866124 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
112866164 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
112866204 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
112866242 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:112866262 original size:80 final size:80
Alignment explanation
Indices: 112866084--112866271 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
112866074 TTCGAATGAT
* *
112866084 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
112866149 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
112866164 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
112866225 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
112866245 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
112866272 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:112874230 original size:40 final size:40
Alignment explanation
Indices: 112874151--112874307 Score: 142
Period size: 40 Copynumber: 4.0 Consensus size: 40
112874141 TTCGAATGAT
* * * *
112874151 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
112874191 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
112874231 AT-CGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
112874270 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
112874308 GTAACCGGGC
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
39 34 0.36
40 54 0.57
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:112874268 original size:39 final size:38
Alignment explanation
Indices: 112874165--112874272 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 38
112874155 GGGCTAAGTC
112874165 CCGAAGGCTTT-GTGCTAAGTGACTAAATCCGGACTAAGAT
1 CCGAAGGCTTTCGTGC-AAGT-ACTAAAT-CGGACTAAGAT
* * * *
112874205 CCGACGGCATACGTGCGAGTTACTAAATCGGACTAAGAT
1 CCGAAGGCTTTCGTGCAAG-TACTAAATCGGACTAAGAT
*
112874244 CCGAAGGCTTTCGAGCAAGCTACTAAATC
1 CCGAAGGCTTTCGTGCAAG-TACTAAATC
112874273 CGGGTTGAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
39 34 0.61
40 17 0.30
41 5 0.09
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (38 bp):
CCGAAGGCTTTCGTGCAAGTACTAAATCGGACTAAGAT
Found at i:112887450 original size:43 final size:43
Alignment explanation
Indices: 112887403--112887500 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
112887393 AATGAACTCG
* *** * *
112887403 CACACTTAGTGCCAATTAATTAGTTGAAGCTATAATTGCATCA
1 CACACTTAGTGCCAAATAATTAGCCAAAGATAAAATTGCATCA
* *
112887446 CACACTTAGTGCCAAATAATTAGCCAAAGATAAAATTGTATCG
1 CACACTTAGTGCCAAATAATTAGCCAAAGATAAAATTGCATCA
112887489 CACACTTAGTGC
1 CACACTTAGTGC
112887501 TATTTACTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (43 bp):
CACACTTAGTGCCAAATAATTAGCCAAAGATAAAATTGCATCA
Found at i:112889925 original size:40 final size:40
Alignment explanation
Indices: 112889876--112890026 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
112889866 CAGAATTTAA
** *
112889876 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
112889916 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * *
112889956 CCGGATTTAGTAACTCGCACCAATACCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
112889995 CCGGA-ATTAGTAACTCACACAAATGCCTTCGG
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG
112890027 ATCTTAGTCT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
39 33 0.35
40 62 0.65
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:112890009 original size:39 final size:40
Alignment explanation
Indices: 112889895--112890079 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
112889885 GCTACTCGTT
*
112889895 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
112889935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
112889975 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
112890014 CAAATGCCTTC-GGATCTTAGTCTC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGATTTAGTAAC-TCGCA
112890055 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
112890080 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 73 0.60
41 14 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:112890064 original size:79 final size:81
Alignment explanation
Indices: 112889895--112890079 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 81
112889885 GCTACTCGTT
* * *
112889895 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
112889959 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* *
112889976 CAATA-CCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCT
1 CAA-AGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTA-ACC
*
112890037 C-GATATAGTCACTTAGCA-
63 CGGATATAGTAAC-TAGCAC
112890055 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
112890080 CATCATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
78 4 0.04
79 55 0.62
80 26 0.29
81 3 0.03
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:112892958 original size:43 final size:43
Alignment explanation
Indices: 112892910--112893080 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 43
112892900 ATTATCGAGA
* * *
112892910 TGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
112892953 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCG-TAT
* * *
112892997 T-CGATTACATGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
112893038 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
112893081 GAGCATAATG
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.07
43 99 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:112893058 original size:86 final size:85
Alignment explanation
Indices: 112892913--112893075 Score: 229
Period size: 86 Copynumber: 1.9 Consensus size: 85
112892903 ATCGAGATGT
* * * * * *
112892913 GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGTGATTACATGTAAGACCATGTCT
1 GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
112892978 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
*
112892999 GATTACATGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATATC
1 GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTAT-TGTGATAACATGTAAGACCATATC
*
112893063 TGGGATATGGCAT
65 TGGGACATGGCAT
112893076 TGTATGAGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 8 0.12
86 60 0.88
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTAATC
Found at i:112895922 original size:48 final size:48
Alignment explanation
Indices: 112895652--112895922 Score: 328
Period size: 48 Copynumber: 5.6 Consensus size: 48
112895642 ATCCACATGT
* * * * * ***
112895652 CGATGCCATATCCCAGATATGGTCTTATACAAAGC-CTCATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACAC-TAGCACACATATCAACGC
* *
112895700 CGATGCCATGACCCAGACATGGTCTTACACTAGCACACATATCATCGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * *
112895748 TGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * *
112895796 CGATGGCATGTCCCAGACATGGTCTTACACTGGCACACATATGAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * *
112895844 AGATGCCATGTCCCAAACATGGTCTTACACTAGAACATATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
*
112895892 CGATGCCATGTCCCAGACATGGTCATACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
112895923 GGCTCTTATC
Statistics
Matches: 192, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
47 3 0.02
48 189 0.98
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
Found at i:112895923 original size:96 final size:95
Alignment explanation
Indices: 112895698--112895969 Score: 339
Period size: 96 Copynumber: 2.8 Consensus size: 95
112895688 TCATATCGGT
* * * * *
112895698 GCCGATGCCATGACCCAGACATGGTCTTACACTAGCACACATATCATCGCTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATGAAC-CAGATGCCATGTCCCA
* * * *
112895763 GACATGGTCTTACACTGGCACACATATCAAT
65 AACATGGTCTTACACTAGAACACATATCAAC
*
112895794 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCACACATATGAACACAGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATGAAC-CAGATGCCATGTCCCA
*
112895859 AACATGGTCTTACACTAGAACATATATCAAC
65 AACATGGTCTTACACTAGAACACATATCAAC
* * ** * *
112895890 GCCGATGCCATGTCCCAGACATGGTCATACACTGGCTCTTATCTCGATACCA-ACGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAT-GA-ACCAGATGCCATGTCCC
*
112895954 AAATATGGTCTTACAC
64 AAACATGGTCTTACAC
112895970 GGTATCTCAT
Statistics
Matches: 154, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 148 0.96
97 4 0.03
98 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATGAACCAGATGCCATGTCCCAA
ACATGGTCTTACACTAGAACACATATCAAC
Found at i:112895948 original size:48 final size:48
Alignment explanation
Indices: 112895702--112895969 Score: 272
Period size: 48 Copynumber: 5.6 Consensus size: 48
112895692 ATCGGTGCCG
* * *
112895702 ATGCCATGACCCAGACATGGTCTTACACTAGCACACATATC-AT-CGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATAC-C-A
* *
112895750 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACCA
* * *
112895798 ATGGCATGTCCCAGACATGGTCTTACACTGGCACACATATGAACA-CA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACCA
* * * * ** *
112895845 GATGCCATGTCCCAAACATGGTCTTACACTAGAACATATATCAACGCCG
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACCA
* * ** * *
112895894 ATGCCATGTCCCAGACATGGTCATACACTGGCTCTTATCTCGATACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACCA
* * *
112895942 ACGCCATGTCCCAAATATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
112895970 GGTATCTCAT
Statistics
Matches: 186, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 180 0.97
49 4 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATACCA
Found at i:112895950 original size:144 final size:144
Alignment explanation
Indices: 112895701--112895969 Score: 376
Period size: 144 Copynumber: 1.9 Consensus size: 144
112895691 TATCGGTGCC
* * * *
112895701 GATGCCATGACCCAGACATGGTCTTACACTAGCACACATATCATCGCTGATGCCATGTCCCAGAC
1 GATGCCATGACCCAAACATGGTCTTACACTAGAACACATATCAACGCCGATGCCATGTCCCAGAC
* * * * * *
112895766 ATGGTCTTACACTGGCACACATATCAATGCCGATGGCATGTCCCAGACATGGTCTTACACTGGCA
66 ATGGTCATACACTGGCACACATATCAATACCAACGCCATGTCCCAAACATGGTCTTACACTGGCA
112895831 CACATATGAACACA
131 CACATATGAACACA
* *
112895845 GATGCCATGTCCCAAACATGGTCTTACACTAGAACATATATCAACGCCGATGCCATGTCCCAGAC
1 GATGCCATGACCCAAACATGGTCTTACACTAGAACACATATCAACGCCGATGCCATGTCCCAGAC
* ** * * *
112895910 ATGGTCATACACTGGCTCTTATCTCGATACCAACGCCATGTCCCAAATATGGTCTTACAC
66 ATGGTCATACACTGGCACACATATCAATACCAACGCCATGTCCCAAACATGGTCTTACAC
112895970 GGTATCTCAT
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 107 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (144 bp):
GATGCCATGACCCAAACATGGTCTTACACTAGAACACATATCAACGCCGATGCCATGTCCCAGAC
ATGGTCATACACTGGCACACATATCAATACCAACGCCATGTCCCAAACATGGTCTTACACTGGCA
CACATATGAACACA
Found at i:112902206 original size:46 final size:46
Alignment explanation
Indices: 112902118--112902292 Score: 135
Period size: 46 Copynumber: 3.8 Consensus size: 46
112902108 ACAACTCATA
* * * *
112902118 GCCGATGCAAG-CCCTGGACATGTCTTACACTGGCTTATGTCTCGAG
1 GCCGATGCATGTCCC-GGACATGTCTTACACTAGCTTACGTCTCAAG
*
112902164 GCCGATGCATGTCCCGGACATGTCTTACACTAGCATT-CGTCTCAAT
1 GCCGATGCATGTCCCGGACATGTCTTACACTAGC-TTACGTCTCAAG
* * * * * *
112902210 GCCAATGCCATGTCCCAGACATGGTATCACACAAGC-T-C-TCATAATATG
1 GCCGATG-CATGTCCCGGACAT-GTCTTACACTAGCTTACGTC-TCA-A-G
* *
112902258 GACGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCGGACATGTCTTACACTAGCT
112902293 CACAATAACC
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 54 0.52
47 33 0.32
48 15 0.14
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCGGACATGTCTTACACTAGCTTACGTCTCAAG
Found at i:112909534 original size:51 final size:51
Alignment explanation
Indices: 112909386--112909534 Score: 255
Period size: 51 Copynumber: 2.9 Consensus size: 51
112909376 ACGGATACAC
* *
112909386 AGTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTTACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAA
*
112909437 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
112909488 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
112909535 CTAAGGCTCA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 1 0.01
51 92 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
Found at i:112910611 original size:28 final size:28
Alignment explanation
Indices: 112910578--112910636 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
112910568 AAACAAGAAT
112910578 ATTAAACGCTAAACTCTTAACCAAGTGC
1 ATTAAACGCTAAACTCTTAACCAAGTGC
*
112910606 ATTAAACGTTAAACTCTTAACCAAGTGC
1 ATTAAACGCTAAACTCTTAACCAAGTGC
112910634 ATT
1 ATT
112910637 TCGTTCCACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (28 bp):
ATTAAACGCTAAACTCTTAACCAAGTGC
Found at i:112917724 original size:46 final size:46
Alignment explanation
Indices: 112917674--112917846 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
112917664 TGGTTGAGCA
*
112917674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
112917720 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
112917767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
112917813 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
112917847 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:112917830 original size:93 final size:93
Alignment explanation
Indices: 112917671--112917841 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
112917661 GGATGGTTGA
* *
112917671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
112917736 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
112917764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
112917829 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
112917842 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:112918108 original size:19 final size:20
Alignment explanation
Indices: 112918071--112918108 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
112918061 ATAAGGTGGT
112918071 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
112918091 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
112918109 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:112925644 original size:19 final size:20
Alignment explanation
Indices: 112925607--112925644 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
112925597 ATAAGGTGGT
112925607 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
112925627 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
112925645 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:112931303 original size:41 final size:42
Alignment explanation
Indices: 112931204--112931365 Score: 164
Period size: 43 Copynumber: 3.8 Consensus size: 42
112931194 ATGTGTTCTG
*** * *
112931204 GTGTAAGACCACAACTGGGACGTTGGCATCAATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATGTGATTAC
*
112931247 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATTAC
* * *
112931288 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTGC
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATTAC
* * * * * *
112931331 ATGTAAGACCACGTCCGGTACATTGACATTGTATG
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATG
112931366 ATATGCCTGA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
41 30 0.30
42 20 0.20
43 50 0.50
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATTAC
Found at i:112937752 original size:15 final size:15
Alignment explanation
Indices: 112937732--112937772 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
112937722 CAAGAAAACT
112937732 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
112937747 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
112937762 GGATAAAGAAA
1 GAATAAAGAAA
112937773 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:112937781 original size:15 final size:15
Alignment explanation
Indices: 112937734--112937781 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
112937724 AGAAAACTGA
112937734 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
112937748 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
112937764 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
112937779 ATA
1 ATA
112937782 CAATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:112939459 original size:17 final size:17
Alignment explanation
Indices: 112939437--112939469 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
112939427 AAAGTGGCCT
112939437 TCACATAGTAGCACACG
1 TCACATAGTAGCACACG
112939454 TCACATAGTAGCACAC
1 TCACATAGTAGCACAC
112939470 TTGTGAACAA
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:0.36, C:0.30, G:0.15, T:0.18
Consensus pattern (17 bp):
TCACATAGTAGCACACG
Found at i:112939501 original size:68 final size:68
Alignment explanation
Indices: 112939392--112939519 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 68
112939382 AGGATATTAC
* *
112939392 AGTAGCAAACTTGTAGCAAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTAGCACACGTCA
1 AGTAGCAAACTTGTAGCAAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCACACGTCA
112939457 CAT
66 CAT
* *
112939460 AGTAGCACACTTGT-G-AACAACGCTATTATATTCACAAAGTGGCCTTCACATTGTACCACA
1 AGTAGCAAACTTGTAGCAA-AA-GCTATTATATTCACAAAGTGGCCTTCACATAGTACCACA
112939520 TTTGTGTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 2 0.04
67 3 0.06
68 49 0.91
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (68 bp):
AGTAGCAAACTTGTAGCAAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCACACGTCA
CAT
Found at i:112939614 original size:24 final size:24
Alignment explanation
Indices: 112939579--112939678 Score: 110
Period size: 24 Copynumber: 4.0 Consensus size: 24
112939569 ACTTAGCACA
* *
112939579 ATGCCATGGACTTATTTCAATTAG
1 ATGCCATGGACTCATTTCACTTAG
* *
112939603 ATGCCATAGACTCATTTCGCTTAG
1 ATGCCATGGACTCATTTCACTTAG
112939627 CACGTTGCCATGGACTCATTTCACTTAG
1 -A---TGCCATGGACTCATTTCACTTAG
* *
112939655 ATGCCATGGCCTTATTTCACTTAG
1 ATGCCATGGACTCATTTCACTTAG
112939679 CACAATGTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
24 41 0.64
25 1 0.02
27 1 0.02
28 21 0.33
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (24 bp):
ATGCCATGGACTCATTTCACTTAG
Found at i:112939626 original size:52 final size:52
Alignment explanation
Indices: 112939567--112939685 Score: 166
Period size: 52 Copynumber: 2.3 Consensus size: 52
112939557 GGGATATTTC
*
112939567 TCACTTAGCACAATGCCATGGACTTATTTCAATTAGATGCCATAGACTCATT
1 TCACTTAGCACAATGCCATGGACTCATTTCAATTAGATGCCATAGACTCATT
* ** * * * *
112939619 TCGCTTAGCACGTTGCCATGGACTCATTTCACTTAGATGCCATGGCCTTATT
1 TCACTTAGCACAATGCCATGGACTCATTTCAATTAGATGCCATAGACTCATT
112939671 TCACTTAGCACAATG
1 TCACTTAGCACAATG
112939686 TCATATCCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTCATTTCAATTAGATGCCATAGACTCATT
Found at i:112941022 original size:118 final size:118
Alignment explanation
Indices: 112940813--112941045 Score: 396
Period size: 118 Copynumber: 2.0 Consensus size: 118
112940803 GGATAAAATA
112940813 TTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTAGTTTGTC
1 TTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTAGTTTGTC
*
112940878 TTCTCCTTTGTTTCAAAGCATATTGTAAAGCAAGATCTATGGAGAGTAAGATT
66 TTCTCCTTTGTTTCAAAGCACATTGTAAAGCAAGATCTATGGAGAGTAAGATT
* *
112940931 TTGAGCATGATTTTACTCTTGATTTTTC-ACATTCATCTCTTTGATCCTTCTTTGATTTGTTTGT
1 TTGAGCATGATTTTACTCATGA-TTTTCGACATTCATCTCTTTGATCCTTCTTTGATTAGTTTGT
* * *
112940995 CTTCTCCTTTGTTTCAAAGCACGTTGTAAAGCAGGATCTATGGAGGGTAAG
65 CTTCTCCTTTGTTTCAAAGCACATTGTAAAGCAAGATCTATGGAGAGTAAG
112941046 TTGATAATTC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 103 0.95
119 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (118 bp):
TTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTAGTTTGTC
TTCTCCTTTGTTTCAAAGCACATTGTAAAGCAAGATCTATGGAGAGTAAGATT
Found at i:112943958 original size:28 final size:28
Alignment explanation
Indices: 112943918--112943973 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
112943908 AATCGTTAGG
112943918 CATATTACTTAACTATATATCCAACTAT
1 CATATTACTTAACTATATATCCAACTAT
112943946 CATATTACTTAACTATATATCCAACTAT
1 CATATTACTTAACTATATATCCAACTAT
112943974 AATTTCACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (28 bp):
CATATTACTTAACTATATATCCAACTAT
Found at i:112943965 original size:15 final size:15
Alignment explanation
Indices: 112943919--112943965 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
112943909 ATCGTTAGGC
112943919 ATATTACTTAACTAT
1 ATATTACTTAACTAT
*
112943934 ATA-T-C-CAACTAT
1 ATATTACTTAACTAT
112943946 CATATTACTTAACTAT
1 -ATATTACTTAACTAT
112943962 ATAT
1 ATAT
112943966 CCAACTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATTACTTAACTAT
Found at i:112944756 original size:16 final size:16
Alignment explanation
Indices: 112944735--112944765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112944725 ATATATTTTC
*
112944735 ATTTGCATCATATATA
1 ATTTGCATCAAATATA
112944751 ATTTGCATCAAATAT
1 ATTTGCATCAAATAT
112944766 TAAATAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCAAATATA
Found at i:112955962 original size:43 final size:42
Alignment explanation
Indices: 112955906--112956076 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 42
112955896 AAGTCATACA
* *
112955906 ATGCCAAC-GTCCCAGACGTGGTCTTACATGCAATCTCATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATG-AATCACATATCG
* * * *
112955949 ATGCCACTATCCCAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAATCACATATCG
* *
112955990 ATGCCAATGTCCTAGACATGGTCTTATACAT-AATCACATATCG
1 ATGCCACTGTCCCAGACATGGTC-T-TACATGAATCACATATCG
*
112956033 ATGCCAAC-GTCCCAGACATGGTCTTACATGAGAACACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGA-ATCACATATCG
112956076 A
1 A
112956077 AAATCCTATG
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
41 26 0.25
42 20 0.19
43 59 0.56
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAATCACATATCG
Found at i:112956047 original size:84 final size:83
Alignment explanation
Indices: 112955901--112956060 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 83
112955891 CACACAAGTC
* *
112955901 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGCAATCTCATATCGATGCCACTATCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACAT-CAATCACATATCGATGCCACTATCCCAGAC
112955966 AGGGTCTTACACGAATCAA
65 AGGGTCTTACACGAATCAA
* * * *
112955985 ATACGATGCCAATGTCCTAGACATGGTCTTATACAT-AATCACATATCGATGCCAAC-GTCCCAG
1 ATACAATGCCAACGTCCCAGACATGGTC-T-TACATCAATCACATATCGATGCC-ACTATCCCAG
*
112956048 ACATGGTCTTACA
63 ACAGGGTCTTACA
112956061 TGAGAACACA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
84 58 0.88
85 3 0.05
86 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (83 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACATCAATCACATATCGATGCCACTATCCCAGACA
GGGTCTTACACGAATCAA
Found at i:112956609 original size:28 final size:27
Alignment explanation
Indices: 112956578--112956630 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
112956568 TACATTTCAT
*
112956578 TTATTTC-ACATTTTAGTCCCTCAATTTA
1 TTATTTCTACAATTTAG-CCCT-AATTTA
112956606 TTATTTCTACAATTTAGCCCTAATT
1 TTATTTCTACAATTTAGCCCTAATT
112956631 ATTGAATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (27 bp):
TTATTTCTACAATTTAGCCCTAATTTA
Found at i:112956902 original size:25 final size:25
Alignment explanation
Indices: 112956868--112956918 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
112956858 AATGGCCGAA
112956868 TACCCTAGGCTTTATTTCTTTTCTT
1 TACCCTAGGCTTTATTTCTTTTCTT
112956893 TACCCTAGGCTTTATTTCTTTTCTT
1 TACCCTAGGCTTTATTTCTTTTCTT
112956918 T
1 T
112956919 CTTTTTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.57
Consensus pattern (25 bp):
TACCCTAGGCTTTATTTCTTTTCTT
Found at i:112959468 original size:26 final size:26
Alignment explanation
Indices: 112959439--112959501 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
112959429 TTAGAGATGA
* *
112959439 ATGAAAGATGACAGGTGTGTGAGTTG
1 ATGAAAGATGACAAGTGTGTCAGTTG
*
112959465 ATGAAAGATGAGAAGTGTGTCAGTTG
1 ATGAAAGATGACAAGTGTGTCAGTTG
*
112959491 ATGAAAAATGA
1 ATGAAAGATGA
112959502 AGAGGTGATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.25
Consensus pattern (26 bp):
ATGAAAGATGACAAGTGTGTCAGTTG
Found at i:112962115 original size:17 final size:17
Alignment explanation
Indices: 112962093--112962154 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
112962083 CTAAAGTAGA
112962093 AATTGAATATGAAATTG
1 AATTGAATATGAAATTG
112962110 AATTGAA-A-G--A---
1 AATTGAATATGAAATTG
112962120 AATTGAATATGAAATTG
1 AATTGAATATGAAATTG
112962137 AATTGAATATGAAATTG
1 AATTGAATATGAAATTG
112962154 A
1 A
112962155 CTATCTACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 1 0.03
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 25 0.66
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
AATTGAATATGAAATTG
Found at i:112962128 original size:27 final size:28
Alignment explanation
Indices: 112962089--112962154 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
112962079 TTTCCTAAAG
112962089 TAGAAATTGAATATGAAATTGAATTGAA
1 TAGAAATTGAATATGAAATTGAATTGAA
112962117 -AGAAATTGAATATGAAATTGAATTGAA
1 TAGAAATTGAATATGAAATTGAATTGAA
112962144 TATGAAATTGA
1 TA-GAAATTGA
112962155 CTATCTACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 27 0.75
28 1 0.03
29 8 0.22
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (28 bp):
TAGAAATTGAATATGAAATTGAATTGAA
Found at i:112962154 original size:12 final size:12
Alignment explanation
Indices: 112962091--112962143 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
112962081 TCCTAAAGTA
112962091 GAAATTGAATAT
1 GAAATTGAATAT
*
112962103 GAAATTGAATTGAAA
1 GAAATTGAA-T--AT
112962118 GAAATTGAATAT
1 GAAATTGAATAT
112962130 GAAATTGAAT-T
1 GAAATTGAATAT
112962141 GAA
1 GAA
112962144 TATGAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 4 0.11
12 20 0.56
13 1 0.03
14 1 0.03
15 10 0.28
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (12 bp):
GAAATTGAATAT
Found at i:112964489 original size:6 final size:6
Alignment explanation
Indices: 112964471--112964558 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
112964461 AAGAAACATT
*
112964471 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
112964520 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
112964559 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 5 0.07
6 53 0.78
7 7 0.10
8 3 0.04
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:112964492 original size:18 final size:18
Alignment explanation
Indices: 112964471--112964558 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
112964461 AAGAAACATT
112964471 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
112964489 ATCAGAATCAGAATCAGGTA
1 ATCAGAATCAGAATCA-G-A
*
112964509 A-CAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
*
112964526 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
112964545 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
112964559 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 4 0.07
18 23 0.40
19 27 0.47
20 4 0.07
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:112964515 original size:31 final size:31
Alignment explanation
Indices: 112964480--112964558 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
112964470 TATCAGAACT
*
112964480 AGAATCAGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
112964511 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
112964542 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
112964559 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:112964516 original size:25 final size:25
Alignment explanation
Indices: 112964485--112964555 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
112964475 GAACTAGAAT
112964485 CAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
112964510 CAGAATCAAAATCAGAATCA-GTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
112964534 CAGGTAA-CAGAATCAAAATCAG
1 CA-G-AATCAGAATCAGAATCAG
112964556 AATGTGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 5 0.13
25 32 0.82
26 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:112964731 original size:27 final size:27
Alignment explanation
Indices: 112964701--112964765 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
112964691 AGTAAGTTGA
* *
112964701 GGCAAAGCCTCCAGAA-CAGATATTTGT
1 GGCAAAGCCACCAGAATCAGATA-ATGT
*
112964728 GGCATAGCCACCAGAATCAGATAATGT
1 GGCAAAGCCACCAGAATCAGATAATGT
112964755 GGCAAAGCCAC
1 GGCAAAGCCAC
112964766 TTAACAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
GGCAAAGCCACCAGAATCAGATAATGT
Found at i:112966335 original size:27 final size:27
Alignment explanation
Indices: 112966302--112966670 Score: 160
Period size: 27 Copynumber: 13.7 Consensus size: 27
112966292 CTTCAAATTG
*
112966302 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
112966329 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* *** *
112966356 CAAAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* **** *
112966383 TAGAATTACTGTTTTACCCTTGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * ** *
112966410 CAGAATTACTATTTTACCCTTGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* *
112966437 TAAAATTACTAAAATACCCTC-AGTTTA
1 TAAAATTACCAAATTACCCTCGA-TTTA
* * * *
112966464 CAAAATTACCAAAATAGCCTCGA-TCA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * *
112966490 GTAAAATTACCAAAATACCCTAG-TCTG
1 -TAAAATTACCAAATTACCCTCGATTTA
* * * * * *
112966517 TAAAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACCAAATTACCCTCGATTTA
* *
112966544 TAAAATT-CCTGAAA-TACCCTCAATTTG
1 TAAAATTACC--AAATTACCCTCGATTTA
* * *
112966571 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAATTACCCTCGA-TTTA
* * *
112966598 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAATTACC-CTCGATTTA
* ** *
112966625 TGAAATTACCGAAA-TACCCTTAATTTG
1 TAAAATTACC-AAATTACCCTCGATTTA
*
112966652 TAAAATTACCAAAATACCC
1 TAAAATTACCAAATTACCC
112966671 CTAATTTACA
Statistics
Matches: 281, Mismatches: 46, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
26 33 0.12
27 238 0.85
28 10 0.04
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAATTACCCTCGATTTA
Found at i:112966446 original size:54 final size:54
Alignment explanation
Indices: 112966316--112966474 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 54
112966306 ATTACCAAAG
* *
112966316 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
112966370 TACCCTCAATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTT
* * ****
112966424 TACCCTTGATTTATAAAATTACTAAAATACCCTC-AGTTTACAAAATTACCA
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGA-TTTACAAAATTACCA
112966475 AAATAGCCTC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 87 0.99
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTT
Found at i:112966455 original size:81 final size:81
Alignment explanation
Indices: 112966316--112966472 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
112966306 ATTACCAAAG
* * ****
112966316 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATT
* *
112966381 TATAGAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * * *
112966397 TACCCTTGATTTACAGAATTACTATTTTACCCTTGATTTATAAAATTACTAAAATACCCTCAGTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATT
112966462 TACAAAATTAC
66 TACAAAATTAC
112966473 CAAAATAGCC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATT
TACAAAATTACTGTTT
Found at i:112966509 original size:81 final size:80
Alignment explanation
Indices: 112966424--112966698 Score: 281
Period size: 81 Copynumber: 3.4 Consensus size: 80
112966414 ATTACTATTT
* * ** * * * *
112966424 TACCCTTGATTTATAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATAGCCTCGATC
1 TACCCCTGATTTATAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCGAAATACCCTCAATT
*
112966489 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * *
112966505 TA-CCCT-AGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATT-CCTGAAATACCCTCAA
1 TACCCCTGA-TTTATAAAATTACTAAAATACCC-TGGTTTGTAAAATTACC-GAAATACCCTCAA
112966567 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* * * *
112966585 TACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TACCCCTGA-TTTATAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAAT
112966649 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* * *
112966666 TACCCCTAATTTACAAAGTTAC-AGAAATACCCT
1 TACCCCTGATTTATAAAATTACTA-AAATACCCT
112966699 TGACTTTCTA
Statistics
Matches: 166, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.02
80 64 0.39
81 95 0.57
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCCTGATTTATAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:112966687 original size:27 final size:27
Alignment explanation
Indices: 112966432--112966677 Score: 205
Period size: 27 Copynumber: 9.1 Consensus size: 27
112966422 TTTACCCTTG
* *
112966432 ATTTATAAAATTACTAAAATA-CCCTCA
1 ATTTGTAAAATTACCAAAATACCCCT-A
* ** * *
112966459 GTTTACAAAATTACCAAAATA-GCCTCG
1 ATTTGTAAAATTACCAAAATACCCCT-A
**
112966486 ATCAGTAAAATTACCAAAATA-CCCTA
1 ATTTGTAAAATTACCAAAATACCCCTA
* * * * * *
112966512 GTCTGTAAAATTGCTAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCTA
* *
112966539 GTTTGTAAAATT-CCTGAAATA-CCCTCA
1 ATTTGTAAAATTACC-AAAATACCCCT-A
112966566 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCCTA
* * *
112966593 GTTTGTAAAATTACCAAAATACCACTG
1 ATTTGTAAAATTACCAAAATACCCCTA
* * * *
112966620 GTTTGTGAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTACCAAAATACCCCTA
112966647 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCCTA
112966674 ATTT
1 ATTT
112966678 ACAAAGTTAC
Statistics
Matches: 177, Mismatches: 37, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.12
27 150 0.85
28 6 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCTA
Found at i:112966693 original size:27 final size:27
Alignment explanation
Indices: 112966627--112966697 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
112966617 CTGGTTTGTG
* * **
112966627 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACAGAAATACCCCTAATTTACA
112966654 AAATTACCA-AAATACCCCTAATTTACA
1 AAATTA-CAGAAATACCCCTAATTTACA
*
112966681 AAGTTACAGAAATACCC
1 AAATTACAGAAATACCC
112966698 TTGACTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATTACAGAAATACCCCTAATTTACA
Found at i:112966693 original size:54 final size:51
Alignment explanation
Indices: 112966424--112966782 Score: 222
Period size: 54 Copynumber: 6.6 Consensus size: 51
112966414 ATTACTATTT
* *
112966424 TACCCTTGATTTATAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCT-AGTTTAC-AAATTA-CAAAA
* * ** *
112966478 TAGCCTCGATCAGTAAAATTACCAAAATACCCTAGTCTGTA-AAATTGCTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTAGT-T-TACAAATTAC-AAAA
* * *
112966531 TACCCTTGGTTTGTAAAATT-CCTGAAATACCCTCAATTTGTA-AAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACC-AAAATACCCT--AGTT-TACAAATTA-CAAAA
* * ** *
112966585 TACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAATACC-CTAGTTT-ACAAATTA-CAAAA
* *
112966639 TACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTACAGAAA
1 TACCCTTGATTTGTAAAATTACCAAAATA-CCCTAGTTTACAAA-TTACA-AAA
* *** * * *
112966693 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTAACAAAATTACTGAAA
1 TACCCTTGA-TTTGT-AAAATTACCAAAATACC-CTAGTTT-AC-AAATTAC-AAAA
* * * *
112966750 TACCCTTGGTTTGTAGATTTACCAAAACACCCT
1 TACCCTTGATTTGTAAAATTACCAAAATACCCT
112966783 TGTAGGATGA
Statistics
Matches: 237, Mismatches: 46, Indels: 44
0.72 0.14 0.13
Matches are distributed among these distances:
52 4 0.02
53 42 0.18
54 122 0.51
55 29 0.12
56 20 0.08
57 17 0.07
58 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (51 bp):
TACCCTTGATTTGTAAAATTACCAAAATACCCTAGTTTACAAATTACAAAA
Found at i:112966885 original size:27 final size:27
Alignment explanation
Indices: 112966814--112966875 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
112966804 TACCCCTATT
**
112966814 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGGGACCGTAAAGCCCCTGTA
112966841 AGGTAAAGGGACCGTAAAGCCCCTGTA
1 AGGTAAAGGGACCGTAAAGCCCCTGTA
*
112966868 GGGTAAAG
1 AGGTAAAG
112966876 TGATGGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (27 bp):
AGGTAAAGGGACCGTAAAGCCCCTGTA
Found at i:112967703 original size:26 final size:26
Alignment explanation
Indices: 112967673--112967760 Score: 149
Period size: 26 Copynumber: 3.4 Consensus size: 26
112967663 GAGGAAGTGC
112967673 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
112967699 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
112967725 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTATTG
112967751 AAAAGGGCTT
1 AAAAGGGCTT
112967761 TCCCCCGGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:112967772 original size:24 final size:25
Alignment explanation
Indices: 112967673--112967783 Score: 118
Period size: 26 Copynumber: 4.4 Consensus size: 25
112967663 GAGGAAGTGC
*
112967673 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGGTTATT
* **
112967698 GAAAAGGGCTTATGCCCCAGTTTACCG
1 -AAAAGGGCTTATGCCCCAGGTTA-TT
*
112967725 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGGTTA-TT
*
112967751 AAAAGGGCTT-T-CCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGGTTATT
112967774 AAAAGAGGCT
1 AAAAG-GGCT
112967784 AGGCCTCTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.09
24 12 0.16
25 1 0.01
26 56 0.74
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGGTTATT
Found at i:112969266 original size:27 final size:27
Alignment explanation
Indices: 112968826--112969251 Score: 478
Period size: 27 Copynumber: 15.8 Consensus size: 27
112968816 TACCCCATGA
* * *
112968826 GGGTATCTCTGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
112968853 GGGTATTTCAGTATTTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
** * **
112968880 GGGTATTTTGGTAATTCTATCCTATGG
1 GGGTATTTCAGTAATTCTACCCTACAG
112968907 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* **
112968934 GGCTATTTC-GATAATTCTACTTTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
* * *
112968961 GGTTATTTCAATAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** *
112968988 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
112969015 GGGTATTTCAATCATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
112969042 GGGTATTTCGGTAATTCTACCATACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
112969069 GAGTATTTCAATAATTCTACACTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* **
112969096 GGGTATTTCGGTAATTCTACTTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
112969123 GAGTATTTCAGTAATTCTACCCTAGAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
112969150 GGGTATTTC-GATAATTCTACCCTACAA
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
112969177 GGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** *
112969204 GGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
112969231 GGGTATTTCAGTAATTCTACC
1 GGGTATTTCAGTAATTCTACC
112969252 TTATAGGGTT
Statistics
Matches: 333, Mismatches: 62, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 330 0.99
28 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:112969273 original size:54 final size:54
Alignment explanation
Indices: 112968826--112969251 Score: 537
Period size: 54 Copynumber: 7.9 Consensus size: 54
112968816 TACCCCATGA
* * * * * *
112968826 GGGTATCTCTGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCTTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * **
112968880 GGGTATTTTGGTAATTCTATCCTATGGGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * ** * * *
112968934 GGCTATTTCGATAATTCTACTTTACAGGGTTATTTCAATAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * * *
112968988 GGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCAATCATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * * *
112969042 GGGTATTTCGGTAATTCTACCATACAGGAGTATTTCAATAATTCTACACTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
** * * *
112969096 GGGTATTTCGGTAATTCTACTTTACAGGAGTATTTCAGTAATTCTACCCTAGAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
112969150 GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* *
112969204 GGGTATTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
112969252 TTATAGGGTT
Statistics
Matches: 321, Mismatches: 51, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 321 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
Found at i:112969324 original size:27 final size:27
Alignment explanation
Indices: 112969269--112969569 Score: 229
Period size: 27 Copynumber: 11.2 Consensus size: 27
112969259 GTTGTTTCGA
* ****
112969269 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTATTTTGG
*
112969296 TAATTTTATAAATCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTATTTTGG
* * * *
112969323 TAATTTTACAAGTCGAAGGTATTTTAG
1 TAATTTTATAAATCGAGGGTATTTTGG
* *
112969350 TAATCTTACAAATCG-GGGTATTTTGG
1 TAATTTTATAAATCGAGGGTATTTTGG
* * * * *
112969376 TGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTATAAATCGAGGGTATTTTGG
* *
112969403 TAATTTTACAAA-CCAGGGGTATTTTGG
1 TAATTTTATAAATCGA-GGGTATTTTGG
* * * *
112969430 TAATTTTGTAAACCAAGGGTATTTTGT
1 TAATTTTATAAATCGAGGGTATTTTGG
* *
112969457 TAATTTTACAAA-CCAGGGGTATTTTGG
1 TAATTTTATAAATCGA-GGGTATTTTGG
* * * *
112969484 TGATTTTATAAA-CTAAGGGTATTCTAG
1 TAATTTTATAAATC-GAGGGTATTTTGG
*
112969511 TAATTTTGCT-AATCGAGGGTATTTTGG
1 TAATTTT-ATAAATCGAGGGTATTTTGG
*
112969538 TAATTTTGCT-AATCGA-GGTATTTTGG
1 TAATTTT-ATAAATCGAGGGTATTTTGG
112969564 TAATTT
1 TAATTT
112969570 GGTAAACTAA
Statistics
Matches: 223, Mismatches: 44, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
26 39 0.17
27 179 0.80
28 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTATTTTGG
Found at i:112969353 original size:54 final size:54
Alignment explanation
Indices: 112969295--112969544 Score: 285
Period size: 54 Copynumber: 4.6 Consensus size: 54
112969285 GGGTAAAACG
* * * * *
112969295 GTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAA-ACCAAGGGTATTTTA
* * *
112969349 GTAATCTTACAAATCG-GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTA
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
* *
112969402 GTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT-
1 GTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
* * * *
112969455 GTTAATTTTACAAA-CCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTCTA
1 G-TAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
* *
112969510 GTAATTTTGCTAATCGAGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTT
112969545 GCTAATCGAG
Statistics
Matches: 169, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.02
53 40 0.24
54 122 0.72
55 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
Found at i:112976666 original size:28 final size:28
Alignment explanation
Indices: 112976629--112976731 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
112976619 TGGCCCCTTT
* *
112976629 AGGCCCAATCTCATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
112976657 GGGCCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
112976685 AGGCCCAACCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
112976713 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
112976732 GTCATGCAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:112979626 original size:8 final size:8
Alignment explanation
Indices: 112979613--112979642 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
112979603 ATTTAAGTAA
112979613 ATATTATT
1 ATATTATT
112979621 ATATTATT
1 ATATTATT
112979629 ATATTATT
1 ATATTATT
112979637 ATATTA
1 ATATTA
112979643 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTATT
Found at i:112980819 original size:40 final size:40
Alignment explanation
Indices: 112980764--112980875 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
112980754 TCTAGAATTA
*
112980764 AAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA-A-AGT
1 AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-ATATA-T
*
112980804 AAAGTGAATAGGATTTATTCCTGATTCGCTAAAAATATAT
1 AAAGTGAATAGGATTTATTCCTGATTCACTAAAAATATAT
* **
112980844 AAAGTGGATAGGATTTATTCCCAATTCACTAA
1 AAAGTGAATAGGATTTATTCCTGATTCACTAA
112980876 GGTAACTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 62 0.97
41 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (40 bp):
AAAGTGAATAGGATTTATTCCTGATTCACTAAAAATATAT
Found at i:112985965 original size:81 final size:83
Alignment explanation
Indices: 112985826--112985987 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 83
112985816 TAGGGGCGAA
* * * *
112985826 AGAAAGATCTAAAGAACAAAAGAATCTAAGAATAATCATTTACATGGTATTATCATGAAT-G-AA
1 AGAAAGATCTAAAGAACAAAAGAATCTAAAAATAATCATCTACATAGTATAATCATGAATGGAAA
112985889 GAATAAAAGAATATTTGAG
66 GAA-AAAAGAATATTTGAG
* * ** * *
112985908 AGAAAG-TCTAAAGGACAAAAGAATCTAAAAATAATTATCTGTATAGTGTAATTATGAATGGAAA
1 AGAAAGATCTAAAGAACAAAAGAATCTAAAAATAATCATCTACATAGTATAATCATGAATGGAAA
*
112985972 GAACAAAGAATATTTG
66 GAAAAAAGAATATTTG
112985988 CTCAAAATGA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 43 0.64
82 19 0.28
83 5 0.07
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.26
Consensus pattern (83 bp):
AGAAAGATCTAAAGAACAAAAGAATCTAAAAATAATCATCTACATAGTATAATCATGAATGGAAA
GAAAAAAGAATATTTGAG
Found at i:112996973 original size:40 final size:40
Alignment explanation
Indices: 112996929--112997013 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
112996919 TTAAGTCCGG
112996929 ATATAGTACCAACACT-AAGCCTGCGGGATTTAACCCGGAT
1 ATATAGTACCAACA-TGAAGCCTGCGGGATTTAACCCGGAT
* *
112996969 ATATATTACCAGCATGAAGCCTGCGGGATTTAACCCGGAT
1 ATATAGTACCAACATGAAGCCTGCGGGATTTAACCCGGAT
112997009 ATATA
1 ATATA
112997014 TTATATCGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (40 bp):
ATATAGTACCAACATGAAGCCTGCGGGATTTAACCCGGAT
Found at i:113015093 original size:40 final size:40
Alignment explanation
Indices: 113015007--113015231 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
113014997 TCGAATGATG
* * *
113015007 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
113015047 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
113015087 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
113015126 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
113015166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
113015207 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
113015232 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 35 0.21
40 119 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:113015230 original size:119 final size:120
Alignment explanation
Indices: 113015008--113015231 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
113014998 CGAATGATGT
* * *
113015008 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATTCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
113015073 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * **
113015128 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
113015190 TGTGCAAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCAAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
113015232 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 69 0.77
120 19 0.21
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:113015254 original size:79 final size:79
Alignment explanation
Indices: 113015014--113015231 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 79
113015004 ATGTCCGGGC
* * *
113015014 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATTCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-AAGTTACTATAATCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
113015077 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
113015094 TAAGAT-CCGAAGGCATTTGTGCGAGTTAC--TAATCCCGGGCTAAG-CCCGAAGGCATTGGTGC
1 TAAG-TCCCGAAGGCATTTGTGCAAGTTACTATAAT--CGGGCTAAGTCCCGAAGGCATTTGTGC
113015155 GAGTTACTAAATCCGGGT
63 GAGTTACTAAATCC-GGT
*
113015173 TAAGTCCCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTTG
113015232 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
78 4 0.03
79 63 0.53
80 40 0.34
81 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:113015262 original size:79 final size:79
Alignment explanation
Indices: 113015020--113015264 Score: 252
Period size: 79 Copynumber: 3.1 Consensus size: 79
113015010 GGGCTAAGTC
* * *
113015020 CCGAAGGC-TTTGTGCTAAGTGACTATATTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTTGTGC-AAGTTACTATAATCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTAC
*
113015083 TAAATCCGGACTAAGA-T
64 TAAATCCGG-TTAA-ATT
* *
113015100 CCGAAGGCATTTGTGCGAGTTAC--TAATCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTAC
1 CCGAAGGCATTTGTGCAAGTTACTATAAT--CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
113015162 TAAATCCGGGTTAAGTC
64 TAAATCC-GGTTAAATT
* **
113015179 CCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
113015243 ATATCTGGTTAAATT
65 AAATCCGGTTAAATT
113015258 CCGAAGG
1 CCGAAGG
113015265 TACGTGATTT
Statistics
Matches: 138, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
78 3 0.02
79 78 0.57
80 46 0.33
81 11 0.08
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
AATCCGGTTAAATT
Found at i:113024656 original size:99 final size:99
Alignment explanation
Indices: 113024483--113024860 Score: 487
Period size: 99 Copynumber: 3.9 Consensus size: 99
113024473 AAAACATGCG
* * * * * **
113024483 AGGTATGAAAGTGTTAACATATCATGTTGCGTACTTGATATTCTGTATGATTAATAAAGTGACCG
1 AGGTATGAAAATATTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
113024548 CACATATTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * * *
113024582 AAGTATGAAAATATTAATATATCATGTTGCATACTTGATATTTTTTATGATTGATAAAGTGTTCA
1 AGGTATGAAAATATTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
* * *
113024647 CACTTATTATATTGAAAATGAATGGAAATTAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * * *
113024681 AGGTATAAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATTATTGATGAAGTGTTCG
1 AGGTATGAAAATATTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
113024746 CACTTACTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* ** *
113024780 AGGTATGAAAGTATTAATATATCATGTTGTGTACTTGATATAT-TATATG-TTGATAAAGTGTTC
1 AGGTATGAAAATATTAATATATCATGTTGCATACTTGATAT-TCTGTATGATTGATAAAGTGTTC
*
113024843 G-A-TCATTATG-TGAAAATG
65 GCACTTATTATGTTGAAAATG
113024861 GTTTTGGTTT
Statistics
Matches: 241, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
95 8 0.03
96 6 0.02
97 1 0.00
98 14 0.06
99 211 0.88
100 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (99 bp):
AGGTATGAAAATATTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
CACTTATTATGTTGAAAATGAATGGGAATGAATC
Found at i:113029950 original size:20 final size:20
Alignment explanation
Indices: 113029925--113029968 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
113029915 GTGGCCGGAG
113029925 CTCCCC-CTCCCCTCTTTTCT
1 CTCCCCGCT-CCCTCTTTTCT
113029945 CTCCCCGCTCCCTCTTTTCT
1 CTCCCCGCTCCCTCTTTTCT
113029965 CTCC
1 CTCC
113029969 TTCCCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.59, G:0.02, T:0.39
Consensus pattern (20 bp):
CTCCCCGCTCCCTCTTTTCT
Found at i:113030449 original size:12 final size:12
Alignment explanation
Indices: 113030432--113030471 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
113030422 TTTTTTTACA
113030432 TATTATTAATAT
1 TATTATTAATAT
*
113030444 TATTATTAGTAT
1 TATTATTAATAT
*
113030456 TTTTATTAATA-
1 TATTATTAATAT
113030467 TATTA
1 TATTA
113030472 ATTATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:113030557 original size:13 final size:14
Alignment explanation
Indices: 113030533--113030563 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
113030523 ATCATTATTA
113030533 ATATTAATATATGT
1 ATATTAATATATGT
113030547 ATATT-ATATATGT
1 ATATTAATATATGT
113030560 ATAT
1 ATAT
113030564 ATTCGTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:113030783 original size:12 final size:12
Alignment explanation
Indices: 113030762--113030858 Score: 66
Period size: 12 Copynumber: 8.4 Consensus size: 12
113030752 TTCTTAATAT
113030762 TATATT-TTATA
1 TATATTATTATA
113030773 TATATTATTATA
1 TATATTATTATA
113030785 TATATT-TTA-A
1 TATATTATTATA
*
113030795 TATCATTAGTCATA
1 TAT-ATTA-TTATA
* *
113030809 T-TCTTCTT-T-
1 TATATTATTATA
*
113030818 TATACTATTATA
1 TATATTATTATA
113030830 TATA-TA-TATA
1 TATATTATTATA
113030840 TATATATATATATA
1 TATAT-TAT-TATA
113030854 TATAT
1 TATAT
113030859 CTAATATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
9 1 0.01
10 17 0.25
11 16 0.24
12 19 0.28
13 3 0.04
14 11 0.16
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (12 bp):
TATATTATTATA
Found at i:113030833 original size:2 final size:2
Alignment explanation
Indices: 113030826--113030858 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
113030816 TTTATACTAT
113030826 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
113030859 CTAATATTAT
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:113043531 original size:71 final size:71
Alignment explanation
Indices: 113043410--113043541 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 71
113043400 GTTTTCCAAG
* * *
113043410 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATGTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATGTAT
113043475 GTTTCA
66 GTTTCA
* * * *
113043481 AAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
113043542 TTCTGCTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATGTAT
GTTTCA
Found at i:113043583 original size:160 final size:160
Alignment explanation
Indices: 113043320--113043705 Score: 704
Period size: 160 Copynumber: 2.4 Consensus size: 160
113043310 TTGTTTTTTC
113043320 CAAAAATCAACTCATATTGCGAGAAGTGAG-TGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
113043384 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
113043449 GACACGTTGAGGTAATTTCAATGTATGTTT
131 GACACGTTGAGGTAATTTCAATGTATGTTT
*
113043479 CAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
113043544 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
113043609 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATGTATGTTT
* * *
113043639 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GCGGCATGCTAAGGTATTTTCAAAT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTCAATT
113043703 TCT
65 TCT
113043706 ATTTTCAAAA
Statistics
Matches: 219, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
159 30 0.14
160 189 0.86
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATGTATGTTT
Found at i:113043693 original size:71 final size:72
Alignment explanation
Indices: 113043570--113043745 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 72
113043560 GTTTTCCAAG
* * *
113043570 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC-AATT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAAATTCT
113043633 ATGTTTCA
66 AT-TTTCA
* ** * * *
113043641 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGCGGCATGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAAATTCT
113043706 ATTTTCA
66 ATTTTCA
* *
113043713 AAAGTCAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
113043746 TCTTTTTAAC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 49 0.54
72 39 0.43
73 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAAATTCT
ATTTTCA
Found at i:113045211 original size:18 final size:20
Alignment explanation
Indices: 113045171--113045214 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
113045161 GTGGCCGGAG
113045171 CTCCCCCTCCCCTCTCTTCT
1 CTCCCCCTCCCCTCTCTTCT
*
113045191 CTCCCCGCT-CCCTCTTTTCT
1 CTCCCC-CTCCCCTCTCTTCT
113045211 CTCC
1 CTCC
113045215 TTCCCCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.61, G:0.02, T:0.36
Consensus pattern (20 bp):
CTCCCCCTCCCCTCTCTTCT
Found at i:113045695 original size:12 final size:12
Alignment explanation
Indices: 113045678--113045717 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
113045668 ATTTTTTACA
113045678 TATTATTAATAT
1 TATTATTAATAT
*
113045690 TATTATTAGTAT
1 TATTATTAATAT
*
113045702 TTTTATTAATA-
1 TATTATTAATAT
113045713 TATTA
1 TATTA
113045718 ATTATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:113045803 original size:13 final size:14
Alignment explanation
Indices: 113045779--113045809 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
113045769 ATCATTATTA
113045779 ATATTAATATATGT
1 ATATTAATATATGT
113045793 ATATT-ATATATGT
1 ATATTAATATATGT
113045806 ATAT
1 ATAT
113045810 ATTCGTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:113046028 original size:12 final size:12
Alignment explanation
Indices: 113046007--113046091 Score: 58
Period size: 12 Copynumber: 7.4 Consensus size: 12
113045997 TTCTTAATAT
113046007 TATATT-TTATA
1 TATATTATTATA
113046018 TATATTATTATA
1 TATATTATTATA
113046030 TATATT-TTA-A
1 TATATTATTATA
*
113046040 TATCATTAGTCATA
1 TAT-ATTA-TTATA
* *
113046054 T-TCTTCTT-T-
1 TATATTATTATA
*
113046063 TATACTATTATA
1 TATATTATTATA
113046075 TATA-TATATATA
1 TATATTAT-TATA
113046087 TATAT
1 TATAT
113046092 CTAATATTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
9 1 0.02
10 9 0.16
11 17 0.30
12 25 0.44
13 3 0.05
14 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.56
Consensus pattern (12 bp):
TATATTATTATA
Found at i:113049774 original size:28 final size:30
Alignment explanation
Indices: 113049715--113049776 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
113049705 AAAATGAAAT
*
113049715 AATTAATTTTTTATTTAATTTGACGTATAAA
1 AATTAATTTTTTATTT-ATATGACGTATAAA
113049746 AATTAATTTATTTATTT-TATGA-GTA-AAA
1 AATTAATTT-TTTATTTATATGACGTATAAA
113049774 AAT
1 AAT
113049777 GTAAAATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.21
29 3 0.10
30 4 0.14
31 9 0.31
32 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (30 bp):
AATTAATTTTTTATTTATATGACGTATAAA
Found at i:113051418 original size:5 final size:5
Alignment explanation
Indices: 113051408--113051434 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
113051398 AGGATTTGGG
113051408 GCCAT GCCAT GCCAT GCCAT GCCAT GC
1 GCCAT GCCAT GCCAT GCCAT GCCAT GC
113051435 AATCGACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.22, T:0.19
Consensus pattern (5 bp):
GCCAT
Found at i:113057205 original size:17 final size:18
Alignment explanation
Indices: 113057185--113057231 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
113057175 ACCCCTTTTG
113057185 AAATTTAAAAAATCAT-A
1 AAATTTAAAAAATCATAA
**
113057202 AAATTTATAAAAATTTTAA
1 AAATTTA-AAAAATCATAA
113057221 AAATTTAAAAA
1 AAATTTAAAAA
113057232 TTAAGCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTAAAAAATCATAA
Found at i:113057221 original size:9 final size:9
Alignment explanation
Indices: 113057201--113057233 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
113057191 AAAAAATCAT
113057201 AAAATTTATA
1 AAAATTT-TA
113057211 AAAATTTTA
1 AAAATTTTA
113057220 AAAA-TTTA
1 AAAATTTTA
113057228 AAAATT
1 AAAATT
113057234 AAGCCCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:113063690 original size:16 final size:17
Alignment explanation
Indices: 113063663--113063696 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
113063653 TTTTATTTTG
*
113063663 AAATTAAAAAATGTATA
1 AAATTAAAAAATATATA
113063680 AAATT-AAAAATATATA
1 AAATTAAAAAATATATA
113063696 A
1 A
113063697 CTAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAATATATA
Found at i:113063827 original size:25 final size:25
Alignment explanation
Indices: 113063772--113063852 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
113063762 CGATGTGGTC
* *
113063772 TTTTTAGTAATTTTATATATTTATAT
1 TTTTTAATAATTTTATAAATTT-TAT
*
113063798 ATTTTTAATAAATTTATAAATTTTAT
1 -TTTTTAATAATTTTATAAATTTTAT
*
113063824 TTTTT-ATATTTTTAATAAATTTTAT
1 TTTTTAATAATTTT-ATAAATTTTAT
113063849 TTTT
1 TTTT
113063853 ATTTTATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 6 0.12
25 20 0.42
26 3 0.06
27 19 0.40
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (25 bp):
TTTTTAATAATTTTATAAATTTTAT
Found at i:113063835 original size:33 final size:32
Alignment explanation
Indices: 113063779--113063857 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
113063769 GTCTTTTTAG
113063779 TAATTTTATATATTTATATATTTTTAATAAATTT
1 TAATTTTAT-T-TTTATATATTTTTAATAAATTT
113063813 ATAAATTTTATTTTT-TATATTTTTAATAAATTT
1 -T-AATTTTATTTTTATATATTTTTAATAAATTT
*
113063846 TATTTTTATTTT
1 TAATTTTATTTT
113063858 ATAACTTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
31 10 0.24
32 1 0.02
33 18 0.43
34 3 0.07
35 2 0.05
36 8 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
TAATTTTATTTTTATATATTTTTAATAAATTT
Found at i:113066919 original size:47 final size:47
Alignment explanation
Indices: 113066881--113066971 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
113066871 AGGTATTTTG
*
113066881 AGAGGAGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCCA
1 AGAGAAGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCCA
*
113066928 AGATAAGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
1 AGAGAAGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
113066972 TATCGATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (47 bp):
AGAGAAGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCCA
Found at i:113070852 original size:260 final size:261
Alignment explanation
Indices: 113070380--113070901 Score: 913
Period size: 260 Copynumber: 2.0 Consensus size: 261
113070370 TAGACTATCA
* *
113070380 ACAGCTTAACAAAAGTGATGATTAAGAATAAATACCCTATGCCCAGAATAGATGATTTGTTTGAT
1 ACAGCTTAACAAAAGTGATGATTAAGAAGAAATACCCTATGCCCAAAATAGATGATTTGTTTGAT
* *
113070445 CAATTGAAAGGGGCTATAGTGTTTTCAAAGATAGATTTGAGATCGAGTTATTATCAGTTGCGAGT
66 CAATTGAAAGGGGCTACAGTATTTTCAAAGATAGATTTGAGATCGAGTTATTATCAGTTGCGAGT
113070510 TAGAGATTCTAATGTGCCAAAGACAGCTTTTCGAACGAGGTACGGACACTATGAATTCTTAGTTA
131 TAGAGATTCTAATGTGCCAAAGACAGCTTTTCGAACGAGGTACGGACACTATGAATTCTTAGTTA
* *
113070575 TGCCTTTTGGACTAACGAATGCTCCTGCAGTCTTTATGGACTTAATGACCTAAAATTTT-AGACC
196 TGCCTTTTGGACTAACGAATGCTCCTACAGTCTTTATGGACTTAATGAACT-AAATTTTCAGACC
113070639 GT
260 GT
* *
113070641 ACAGCTTAAC-AAAGTGATGATTAAGAAGAAATACCCTCTGCCTAAAATAGATGATTTGTTTGAT
1 ACAGCTTAACAAAAGTGATGATTAAGAAGAAATACCCTATGCCCAAAATAGATGATTTGTTTGAT
*
113070705 CAATTGAAAGGGGCTACAGTATTTTCAAAGATAGATTTGAGATCGGGTTATTATCAGTTGCGAGT
66 CAATTGAAAGGGGCTACAGTATTTTCAAAGATAGATTTGAGATCGAGTTATTATCAGTTGCGAGT
* **
113070770 TAGAGATTCTAATGTGCCAAAGACAGCTTTTCGAAGGAGGTGTGGACACTATGAATTCTTAGTTA
131 TAGAGATTCTAATGTGCCAAAGACAGCTTTTCGAACGAGGTACGGACACTATGAATTCTTAGTTA
113070835 TGCCTTTTGGACTAACGAATGCTCCTACAGTCTTTATGGACTTAATGAACTAAATTTTCAGACCG
196 TGCCTTTTGGACTAACGAATGCTCCTACAGTCTTTATGGACTTAATGAACTAAATTTTCAGACCG
113070900 T
261 T
113070901 A
1 A
113070902 TCTAGATCGA
Statistics
Matches: 248, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
259 7 0.03
260 231 0.93
261 10 0.04
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (261 bp):
ACAGCTTAACAAAAGTGATGATTAAGAAGAAATACCCTATGCCCAAAATAGATGATTTGTTTGAT
CAATTGAAAGGGGCTACAGTATTTTCAAAGATAGATTTGAGATCGAGTTATTATCAGTTGCGAGT
TAGAGATTCTAATGTGCCAAAGACAGCTTTTCGAACGAGGTACGGACACTATGAATTCTTAGTTA
TGCCTTTTGGACTAACGAATGCTCCTACAGTCTTTATGGACTTAATGAACTAAATTTTCAGACCG
T
Found at i:113073254 original size:73 final size:73
Alignment explanation
Indices: 113073135--113073280 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
113073125 ACAAATGTAA
113073135 GACAATTTTGCAAAGTTAGGTGTTATTTGGTTGCTTATTTGACTAAAAAGAAAATAAAAAAAGAG
1 GACAATTTTGCAAAGTTAGGTGTTATTTGGTTGCTTATTTGACTAAAAAGAAAATAAAAAAAGAG
113073200 GGAATGAT
66 GGAATGAT
113073208 GACAATTTTGCAAAGTTAGGTGTTATTTGGTTGCTTATTTGACTAAAAAGAAAATAAAAAAAGAG
1 GACAATTTTGCAAAGTTAGGTGTTATTTGGTTGCTTATTTGACTAAAAAGAAAATAAAAAAAGAG
113073273 GGAATGAT
66 GGAATGAT
113073281 ATCATCTTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (73 bp):
GACAATTTTGCAAAGTTAGGTGTTATTTGGTTGCTTATTTGACTAAAAAGAAAATAAAAAAAGAG
GGAATGAT
Done.