Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
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 51 of 425
Found at i:13734556 original size:53 final size:54
Alignment explanation
Indices: 13734405--13734548 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
13734395 AATCATATCT
*
13734405 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
13734459 TCTAAGATTGCA-ATCATATCTAAGATTGCAATTATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
13734512 TCTAAGATTGCATATCATATCTAAGATTGCAGATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
13734549 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 52 0.61
54 29 0.34
55 4 0.05
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:13738446 original size:46 final size:46
Alignment explanation
Indices: 13738379--13738560 Score: 274
Period size: 46 Copynumber: 4.0 Consensus size: 46
13738369 AGTGTGCTCT
*
13738379 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13738425 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13738471 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
13738517 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
13738561 TCATGTCAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13739938 original size:18 final size:18
Alignment explanation
Indices: 13739915--13739950 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13739905 TCGTAATATT
13739915 TGAATGATTGAAAGACCA
1 TGAATGATTGAAAGACCA
13739933 TGAATGATTGAAAGACCA
1 TGAATGATTGAAAGACCA
13739951 ATTGCTATCA
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:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
TGAATGATTGAAAGACCA
Found at i:13740586 original size:18 final size:17
Alignment explanation
Indices: 13740545--13740643 Score: 119
Period size: 17 Copynumber: 5.6 Consensus size: 17
13740535 CAATGATATG
*
13740545 CAATCTTAGACATGATA
1 CAATCTTAGATATGATA
13740562 CAATCTTAGATATGATTGA
1 CAATCTTAGATATGA-T-A
13740581 -AATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
13740597 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
13740615 CAATATTAGATATGAAATA
1 CAATCTTAGATATG--ATA
13740634 CAATCTTAGA
1 CAATCTTAGA
13740644 AGATATGATT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
16 1 0.01
17 29 0.41
18 29 0.41
19 11 0.15
20 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:13740586 original size:35 final size:35
Alignment explanation
Indices: 13740537--13740643 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
13740527 ATAATCTTCA
*
13740537 ATGATATGCAATCTTAGACATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
*
13740573 ATGATTGAAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
13740608 ATGATTGCAATATTAGATATGAAATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
13740644 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 47 0.72
36 5 0.08
37 13 0.20
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:13740963 original size:12 final size:11
Alignment explanation
Indices: 13740948--13740981 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
13740938 TATTTTTAAT
13740948 TTATTATATATA
1 TTATT-TATATA
13740960 TTATTTATTATA
1 TTATTTA-TATA
13740972 TTATTTATAT
1 TTATTTATAT
13740982 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:13740973 original size:21 final size:21
Alignment explanation
Indices: 13740949--13741057 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
13740939 ATTTTTAATT
13740949 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
13740970 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
13740988 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
13741007 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
13741030 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
13741051 TATTATA
1 TATTATA
13741058 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:13740979 original size:16 final size:16
Alignment explanation
Indices: 13740946--13740976 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13740936 CTTATTTTTA
13740946 ATTTATTATATATATT
1 ATTTATTATATATATT
13740962 ATTTATTATAT-TATT
1 ATTTATTATATATATT
13740977 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:13741014 original size:7 final size:7
Alignment explanation
Indices: 13740997--13741103 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
13740987 AAATTTGTAA
13740997 ATTAT-T
1 ATTATAT
13741003 ATTATAT
1 ATTATAT
13741010 ATTATAT
1 ATTATAT
13741017 -TT-TA-
1 ATTATAT
13741021 ACTTATAT
1 A-TTATAT
13741029 ATCTTATAT
1 A--TTATAT
*
13741038 ATTTATTT
1 A-TTATAT
13741046 ATT-TAT
1 ATTATAT
*
13741052 ATTATAC
1 ATTATAT
13741059 ATTAT-T
1 ATTATAT
* *
13741065 -TTAAAA
1 ATTATAT
*
13741071 ACTTACAT
1 A-TTATAT
*
13741079 -TTTTAT
1 ATTATAT
13741085 ATTATAT
1 ATTATAT
*
13741092 ATTATAA
1 ATTATAT
13741099 ATTAT
1 ATTAT
13741104 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:13742351 original size:21 final size:22
Alignment explanation
Indices: 13742313--13742353 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13742303 CTCCCGTTTT
* *
13742313 CATTTTTCTTAAAGTCGATTCC
1 CATTTTTCTAAAACTCGATTCC
13742335 CATTTTTC-AAAACTCGATT
1 CATTTTTCTAAAACTCGATT
13742354 TGAAAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (22 bp):
CATTTTTCTAAAACTCGATTCC
Found at i:13742790 original size:45 final size:45
Alignment explanation
Indices: 13742685--13742868 Score: 223
Period size: 43 Copynumber: 4.2 Consensus size: 45
13742675 GGAAGAATTT
* * * *
13742685 GTGGCTTCATCCACAACCTATATGGCAGCTTATCTAC-AAAATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* *
13742729 GTGG-TTTATCCACAACCTACATGGTAGCTTGTCTGCGAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * *
13742773 GTGGCTTCATCCACAACCTACATGGAAGCTTGTTTGCGAAT-TTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * * *
13742817 GTGGATT-ATCCACAACCTACATGGTAGCTCATTTGCAAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
13742861 GTGGCTTC
1 GTGGCTTC
13742869 GACCACATAT
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
43 56 0.46
44 32 0.26
45 33 0.27
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
Found at i:13742875 original size:88 final size:88
Alignment explanation
Indices: 13742685--13742868 Score: 260
Period size: 88 Copynumber: 2.1 Consensus size: 88
13742675 GGAAGAATTT
* * *
13742685 GTGGCTTCATCCACAACCTATATGGCAGCTTATCTACAAAATTGGTGGTTTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
** *
13742750 TGGTAGCTTGTCTGCGAATATTG
66 TGGTAGCTCATCTGCAAATATTG
* * * * *
13742773 GTGGCTTCATCCACAACCTACATGGAAGCTTGTTTGCGAATTTGGTGGATTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
*
13742838 TGGTAGCTCATTTGCAAATATTG
66 TGGTAGCTCATCTGCAAATATTG
13742861 GTGGCTTC
1 GTGGCTTC
13742869 GACCACATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (88 bp):
GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
TGGTAGCTCATCTGCAAATATTG
Found at i:13745770 original size:32 final size:33
Alignment explanation
Indices: 13745724--13745787 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
13745714 TAACAGTGGT
*
13745724 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCA-ATAACAATAA
**
13745756 ACTGGGCCTTAGCCCCTTATTCAATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAATAACAATA
13745788 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.37
33 13 0.48
34 4 0.15
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (33 bp):
ACTGGGCCAGAGCCCCTTATTCAATAACAATAA
Found at i:13747660 original size:26 final size:26
Alignment explanation
Indices: 13747624--13747731 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
13747614 TGAAATTCCA
13747624 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13747650 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13747676 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13747702 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13747728 ATCA
1 ATCA
13747732 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13755897 original size:17 final size:17
Alignment explanation
Indices: 13755875--13755914 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13755865 ATAATATATA
* *
13755875 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
13755892 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
13755909 AAAATA
1 AAAATA
13755915 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:13756197 original size:21 final size:19
Alignment explanation
Indices: 13756173--13756234 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
13756163 ATAATATAAC
13756173 ATACAATTTTAATATAAAATA
1 ATACAATTTTAA-AT-AAATA
*
13756194 ATACTATATATTAAATAAATA
1 ATAC-A-ATTTTAAATAAATA
* **
13756215 ATAAAATTCAAAATAAATA
1 ATACAATTTTAAATAAATA
13756234 A
1 A
13756235 ATTTATAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 12 0.35
20 1 0.03
21 12 0.35
22 3 0.09
23 6 0.18
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
ATACAATTTTAAATAAATA
Found at i:13757984 original size:44 final size:44
Alignment explanation
Indices: 13757920--13758107 Score: 263
Period size: 44 Copynumber: 4.3 Consensus size: 44
13757910 TTCTCTGTCC
* * * *
13757920 ATACAGAGATGCCAAGTCTGCTATCTTCAATTTGCTTTCTGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCTGACA
* * * *
13757964 ATACAGAGATGCCAAATCTGCAATCTTCGATCTGCTCTCTGACC
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCTGACA
*
13758008 ATACAGAGACGCCAAATATGCTATCTTCGATCTGCTCTT-TGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCT-TTCTGACA
13758052 ATACAGAGACGCCAAATCTGCTATCTTCGATCTG-TTCTCTGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTT-TCTGACA
13758096 ATACAGAGACGC
1 ATACAGAGACGC
13758108 TAGATCATCT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 125 0.97
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCTGACA
Found at i:13758187 original size:88 final size:88
Alignment explanation
Indices: 13758062--13758640 Score: 878
Period size: 88 Copynumber: 6.6 Consensus size: 88
13758052 ATACAGAGAC
* * * * * *
13758062 GCCAAATCTGCTA--TCTTCGATCTGTTCTCTGAC-AATACAGAGACGCTAGATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
13758124 TGCTTCAACGTAAACATGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * *
13758147 GTCAAATCAGCTATGTCTTCGACCTGCTCCCTGTCGAATACAGAGACACCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
13758212 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * *
13758235 GCCAAATCAGCTATGTCTTTGATTTTCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
13758300 TGCTTCAATGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
13758323 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCGAATACAGAGTCGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
13758388 TGCTTCAACATAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
13758411 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGGCGAATATAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
13758476 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* ** * * *
13758499 GCCAAATCAGCTATGTTTTTTATTTGCTCCCTGGCAAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
13758564 TGTTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
13758587 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATC
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATC
13758641 TGTTTCTTCG
Statistics
Matches: 451, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
85 11 0.02
87 35 0.08
88 405 0.90
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (88 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
TGCTTCAACGTAAACACGTGAAA
Found at i:13758289 original size:47 final size:47
Alignment explanation
Indices: 13758149--13758378 Score: 129
Period size: 47 Copynumber: 5.1 Consensus size: 47
13758139 ATGTGAAAGT
* ** *
13758149 CAAATCAGCTATGTCTTCGACCTGCTCCCTGTCGAATACAGAGACAC
1 CAAATCAGCTATGTCTTAGATTTGCTCCCTGTCGAATACAGAGACGC
* * *
13758196 CAAAT---C-A--TCTTAGATTTGCTTCAAC-GT--AA-ACACGTGAAAGC
1 CAAATCAGCTATGTCTTAGATTTGC-TC-CCTGTCGAATACA-GAG-ACGC
* *
13758237 CAAATCAGCTATGTCTTTGATTTTCTCCCTGTCGAATACAGAGACGC
1 CAAATCAGCTATGTCTTAGATTTGCTCCCTGTCGAATACAGAGACGC
** * *
13758284 CAAAT---C-A--TCTTAGATTTGCTTCAATGT--AA-ACACGTGAAAGC
1 CAAATCAGCTATGTCTTAGATTTGC-TCCCTGTCGAATACA-GAG-ACGC
* *
13758325 CAAATCAGCTATGTCTTCGATTTGCTCCCTGTCGAATACAGAGTCGC
1 CAAATCAGCTATGTCTTAGATTTGCTCCCTGTCGAATACAGAGACGC
13758372 CAAATCA
1 CAAATCA
13758379 TCTTAGATTT
Statistics
Matches: 133, Mismatches: 24, Indels: 52
0.64 0.11 0.25
Matches are distributed among these distances:
39 6 0.05
40 8 0.06
41 34 0.26
42 9 0.07
43 3 0.02
44 4 0.03
45 3 0.02
46 9 0.07
47 43 0.32
48 8 0.06
49 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
CAAATCAGCTATGTCTTAGATTTGCTCCCTGTCGAATACAGAGACGC
Found at i:13758327 original size:41 final size:41
Alignment explanation
Indices: 13758195--13758419 Score: 111
Period size: 41 Copynumber: 5.2 Consensus size: 41
13758185 TACAGAGACA
*
13758195 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* * ** * *
13758236 CCAAATCAGCTATGTCTTTGATTTTC-TCCCTGTCGAATACA-GAG-ACG
1 CCAAAT---C-A--TCTTAGATTTGCTTCAATGT--AA-ACACGTGAAAG
13758283 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* ** * **
13758324 CCAAATCAGCTATGTCTTCGATTTGC-TCCCTGTCGAATACA-GAG-TCG
1 CCAAAT---C-A--TCTTAGATTTGCTTCAATGT--AA-ACACGTGAAAG
**
13758371 CCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
13758412 CCAAATCA
1 CCAAATCA
13758420 GCTATGTCTT
Statistics
Matches: 133, Mismatches: 27, Indels: 48
0.64 0.13 0.23
Matches are distributed among these distances:
39 6 0.05
40 8 0.06
41 44 0.33
42 8 0.06
43 2 0.02
44 4 0.03
45 2 0.02
46 9 0.07
47 36 0.27
48 8 0.06
49 6 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (41 bp):
CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
Found at i:13758591 original size:41 final size:41
Alignment explanation
Indices: 13758458--13758595 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
13758448 ATATAGAGAC
*
13758458 GCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
* * * ** * * * *
13758499 GCCAAATCAGC-TATGTTTTTTATTTGCTCCCTGGCAAATAC-AGAGAC
1 GCCAAATCATCTTA-G--ATTTGTTT-C-AAC--GTAAACACGTGA-AA
13758546 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
13758587 GCCAAATCA
1 GCCAAATCA
13758596 GCTATGTCTT
Statistics
Matches: 68, Mismatches: 19, Indels: 20
0.64 0.18 0.19
Matches are distributed among these distances:
40 2 0.03
41 27 0.40
42 2 0.03
43 6 0.09
44 2 0.03
45 7 0.10
46 2 0.03
47 18 0.26
48 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
Found at i:13758652 original size:43 final size:43
Alignment explanation
Indices: 13758602--13758683 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
13758592 ATCAGCTATG
13758602 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTT
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTT
* * * *
13758645 TCTTCGATTTGTTCTCTGACAATACAGAGATGTCAAATC
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
13758684 ATCTTGGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTT
Found at i:13767408 original size:46 final size:45
Alignment explanation
Indices: 13767355--13767530 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 45
13767345 ATATTTGGCA
13767355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *** * *
13767401 TCCGAACTCGTTGAGTTGCGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAG
* ** * *
13767448 TCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCAAACGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA--G
* *
13767495 T-CGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13767531 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 1 0.01
46 64 0.63
47 30 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAG
Found at i:13773668 original size:17 final size:17
Alignment explanation
Indices: 13773646--13773685 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13773636 ATAATATACA
* *
13773646 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
13773663 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
13773680 AAAATA
1 AAAATA
13773686 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:13781865 original size:18 final size:18
Alignment explanation
Indices: 13781842--13781882 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
13781832 TTCTATTTTG
13781842 TAATATTTATTTTTTATA
1 TAATATTTATTTTTTATA
13781860 TAATATTTATTTTTTATA
1 TAATATTTATTTTTTATA
13781878 TAATA
1 TAATA
13781883 CATGATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TAATATTTATTTTTTATA
Found at i:13781877 original size:16 final size:17
Alignment explanation
Indices: 13781837--13781882 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
13781827 TCGTTTTCTA
*
13781837 TTTTGTAATATTTATTT
1 TTTTATAATATTTATTT
13781854 TTTATATAATATTTATTT
1 TTT-TATAATATTTATTT
13781872 TTTATATAATA
1 TTT-TATAATA
13781883 CATGATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATAATATTTATTT
Found at i:13781983 original size:16 final size:17
Alignment explanation
Indices: 13781962--13781993 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13781952 AATTTACTAA
13781962 AAATATT-AAATTAAAT
1 AAATATTAAAATTAAAT
13781978 AAATATTAAAATTAAA
1 AAATATTAAAATTAAA
13781994 AACAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTAAAATTAAAT
Found at i:13782430 original size:23 final size:26
Alignment explanation
Indices: 13782404--13782455 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13782394 TTAAAATGAT
*
13782404 AAAATTAT-ATTT-TTATT-ATCTTA
1 AAAATTATAATTTAATATTAATCTTA
13782427 AAAATTATAATTTAATATTAATCTTA
1 AAAATTATAATTTAATATTAATCTTA
13782453 AAA
1 AAA
13782456 TAATTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 4 0.16
26 9 0.36
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAATTATAATTTAATATTAATCTTA
Found at i:13782456 original size:25 final size:22
Alignment explanation
Indices: 13782403--13782456 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
13782393 ATTAAAATGA
*
13782403 TAAAATTATATTTTTATTATCT
1 TAAAATTATATTTATATTATCT
13782425 TAAAAATTATAATTTAATATTAATCT
1 T-AAAATTAT-ATTT-ATATT-ATCT
13782451 TAAAAT
1 TAAAAT
13782457 AATTTTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 8 0.30
24 4 0.15
25 9 0.33
26 5 0.19
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATTATATTTATATTATCT
Found at i:13786985 original size:69 final size:69
Alignment explanation
Indices: 13786856--13787283 Score: 287
Period size: 69 Copynumber: 6.2 Consensus size: 69
13786846 TTGCTTTCGT
* * * *
13786856 TAACTGTGTTGGGGGTTGCAGTTCTTCACCTATGAACCATGATTTTATAGT-T-GTGTGCTTTTC
1 TAACTGTGTTGGAGGTTGCAGCTCTTCACCTATGAACCTTGATTTTATA-TCTAG-GAGCTTTTC
13786919 TCTCGC
64 TCTCGC
** ** *
13786925 TAACTGTGTTGGAGGTTGCAGCTCTTTGCCCGTGAACCTTGATTTTATATCTAGGAGCTTTGCTC
1 TAACTGTGTTGGAGGTTGCAGCTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTTCTC
*
13786990 TCAC
66 TCGC
* * * * * * * *
13786994 TAATTGTGTTAGAGG-T-CATGGCTCTTCACCTACGAACCTTTATTTTAGAGCTAAGAGGTTTTC
1 TAACTGTGTTGGAGGTTGCA--GCTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTTC
13787057 TCTCGC
64 TCTCGC
* * * * * * ** *
13787063 TAACTATGTTGGAGGTCGCAGCTTTTCGCCTA--AACCTTAATTTTACAGGTGGGAG-TTTTGCT
1 TAACTGTGTTGGAGGTTGCAGCTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTT-CT
*
13787125 CTTGC
65 CTCGC
* * ** * * * * * * * *
13787130 TAACTATGTTGAAGGCCGC-GAATCTTCACCTACGAACCTTTATTTTACAGCTGGGTGCTTTGCT
1 TAACTGTGTTGGAGGTTGCAG-CTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTTCT
*
13787194 CTCGT
65 CTCGC
* ** * * * * *
13787199 TAACTATGTTAAATGTTACAGCTCTTCACCTACGAACCTTGATTTTATAGCTAGGAGCTTTACTC
1 TAACTGTGTTGGAGGTTGCAGCTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTTCTC
*
13787264 TTGC
66 TCGC
*
13787268 TAGCTGTGTTGGAGGT
1 TAACTGTGTTGGAGGT
13787284 CGCGGCTCCT
Statistics
Matches: 282, Mismatches: 65, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
66 5 0.02
67 51 0.18
68 2 0.01
69 217 0.77
70 5 0.02
71 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (69 bp):
TAACTGTGTTGGAGGTTGCAGCTCTTCACCTATGAACCTTGATTTTATATCTAGGAGCTTTTCTC
TCGC
Found at i:13787221 original size:136 final size:137
Alignment explanation
Indices: 13787016--13787287 Score: 312
Period size: 136 Copynumber: 2.0 Consensus size: 137
13787006 AGGTCATGGC
* * * ** *
13787016 TCTTCACCTACGAACCTTTATTTTAGAGCTAAGAGGTTTTCTCTCGCTAACTATGTTGGAGGTCG
1 TCTTCACCTACGAACCTTTATTTTACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTAAAGGTCA
* * * * * *
13787081 CAGCTTTTCGCCTA-AACCTTAATTTTACAGGTGGGAGTTTTGCTCTTGCTAACTATGTTGAAGG
66 CAGCTCTTCACCTACAACCTTAATTTTACAGCTAGGAGCTTTACTCTTGCTAACTATGTTGAAGG
13787145 CCGCGAA
131 CCGCGAA
** * * * *
13787152 TCTTCACCTACGAACCTTTATTTTACAGCTGGGTGCTTTGCTCTCGTTAACTATGTTAAATGTTA
1 TCTTCACCTACGAACCTTTATTTTACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTAAAGGTCA
* * * * *
13787217 CAGCTCTTCACCTACGAACCTTGATTTTATAGCTAGGAGCTTTACTCTTGCTAGCTGTGTTGGAG
66 CAGCTCTTCACCTAC-AACCTTAATTTTACAGCTAGGAGCTTTACTCTTGCTAACTATGTTGAAG
*
13787282 GTCGCG
130 GCCGCG
13787288 GCTCCTCGCT
Statistics
Matches: 110, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
136 65 0.59
138 45 0.41
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (137 bp):
TCTTCACCTACGAACCTTTATTTTACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTAAAGGTCA
CAGCTCTTCACCTACAACCTTAATTTTACAGCTAGGAGCTTTACTCTTGCTAACTATGTTGAAGG
CCGCGAA
Found at i:13800019 original size:18 final size:18
Alignment explanation
Indices: 13799975--13800011 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13799965 TTAAGTGAGA
*
13799975 AACTA-AAAACAGAGTTT
1 AACTAGAAAACAAAGTTT
13799992 AACTAGAAAACAAAGTTT
1 AACTAGAAAACAAAGTTT
13800010 AA
1 AA
13800012 TTGGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
AACTAGAAAACAAAGTTT
Found at i:13816950 original size:2 final size:2
Alignment explanation
Indices: 13816945--13816980 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13816935 CACACAATAC
13816945 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13816981 TATATCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13826632 original size:20 final size:20
Alignment explanation
Indices: 13826607--13826646 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13826597 CCCAATCCTT
13826607 TCCCTTACAAGGATGATAGG
1 TCCCTTACAAGGATGATAGG
13826627 TCCCTTACAAGGATGATAGG
1 TCCCTTACAAGGATGATAGG
13826647 AGGGTGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
TCCCTTACAAGGATGATAGG
Found at i:13832973 original size:209 final size:210
Alignment explanation
Indices: 13832608--13833007 Score: 678
Period size: 209 Copynumber: 1.9 Consensus size: 210
13832598 TAAGCCGCAG
13832608 CATAGCAGATCTCACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
13832673 TGTAGTCGGCAGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTAGTCGGCAGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* *
13832738 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTT
13832803 GATAGAAGGCAGACA
196 GATAGAAGGCAGACA
* * *
13832818 CATAGCAGGTCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* * *
13832883 TGTA-TTGG-TGAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGC
66 TGTAGTCGGCAG-GGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGC
* * *
13832946 AAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAATAGATCGAAGTCTGGCATCTCCA
130 AAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCA
13833008 GTTCAATGGA
Statistics
Matches: 178, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
208 1 0.01
209 111 0.62
210 66 0.37
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTAGTCGGCAGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTT
GATAGAAGGCAGACA
Found at i:13835192 original size:36 final size:34
Alignment explanation
Indices: 13835145--13835212 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 34
13835135 TTTACACAAA
*
13835145 TTATTATTATTT-TACATTATTATCTATATATTTTT
1 TTATTATTATTTGTACA-TATTATATAT-TATTTTT
13835180 TTATTAATTATTTGTACATATTATATATTATTT
1 TTATT-ATTATTTGTACATATTATATATTATTT
13835213 ATACATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 10 0.33
36 16 0.53
37 4 0.13
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (34 bp):
TTATTATTATTTGTACATATTATATATTATTTTT
Found at i:13835209 original size:20 final size:18
Alignment explanation
Indices: 13835122--13835220 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 18
13835112 TATTATTATT
13835122 TATTATATATTATTTTACACA
1 TATTAT-TATTATTTT--ACA
*
13835143 AATTATTATTATTTTACA
1 TATTATTATTATTTTACA
13835161 TTATTATCTATATATTTT---
1 -TATTAT-TAT-TATTTTACA
13835179 T-TTATTAATTATTTGTACA
1 TATTATT-ATTATTT-TACA
13835198 TATTATATATTATTTATACA
1 TATTAT-TATTATTT-TACA
13835218 TAT
1 TAT
13835221 ATACACTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
15 6 0.09
16 7 0.11
17 1 0.02
18 3 0.05
19 6 0.09
20 30 0.46
21 12 0.18
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (18 bp):
TATTATTATTATTTTACA
Found at i:13837027 original size:26 final size:26
Alignment explanation
Indices: 13836991--13837043 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
13836981 CGTACAGTCG
13836991 ATTGCCTATCAATGTACACTATCGGA
1 ATTGCCTATCAATGTACACTATCGGA
**
13837017 ATTGCCTATCAATGTATGCTATCGGA
1 ATTGCCTATCAATGTACACTATCGGA
13837043 A
1 A
13837044 CCATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (26 bp):
ATTGCCTATCAATGTACACTATCGGA
Found at i:13839817 original size:29 final size:29
Alignment explanation
Indices: 13839755--13839857 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
13839745 GTGACGAGAT
* * *
13839755 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
13839784 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
13839813 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
13839842 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13839858 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:13842047 original size:47 final size:48
Alignment explanation
Indices: 13841975--13842199 Score: 173
Period size: 46 Copynumber: 4.8 Consensus size: 48
13841965 GTAAGGTGCT
* * *
13841975 GATGCCGTGTCCCAGTCATGATCTTACACTGGCTCAT-ATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTC
* * * *
13842022 GATGCCATGTCCCTGACATGGTCTTACACTAGCT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGTC
* * * * * * * *
13842070 GACG-TATGTTCCAAACAT-GTCTTACACTGGCTTA-CGTCTCGAGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTC
* * *
13842115 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCAA-TGC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT-C
* *
13842161 CATGCCATGTCCCAGACATGATCTTACACTGGCTC-TCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
13842200 AATGTGGCCG
Statistics
Matches: 140, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
45 6 0.04
46 68 0.49
47 60 0.43
48 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTC
Found at i:13842110 original size:46 final size:46
Alignment explanation
Indices: 13842027--13842239 Score: 139
Period size: 46 Copynumber: 4.6 Consensus size: 46
13842017 AAGTCGATGC
**
13842027 CATGTCCCTGACATGGTCTTACACTAGCTATCATCTCGTA-GCCGACG
1 CATGTCCCAAACAT-GTCTTACACTAGCTATCATCTCG-AGGCCGACG
* * * * * *
13842074 TATGTTCCAAACATGTCTTACACTGGCT-TACGTCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTAT-CATCTCGAGGCCGACG
* * * * *
13842120 CATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAATGCC-ATG
1 CATGTCCCAAACATGTCTTACACTAGCTA-TCATCTCGAGGCCGACG
* * * * * *
13842165 CCATGTCCCAGACATGATCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAAACATG-TCTTACACTAGCTATCAT-CTCGAGGCCGACG
* *
13842213 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
13842240 CAACAATAAC
Statistics
Matches: 133, Mismatches: 24, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
45 5 0.04
46 82 0.62
47 42 0.32
48 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTATCATCTCGAGGCCGACG
Found at i:13842186 original size:93 final size:93
Alignment explanation
Indices: 13841975--13842239 Score: 256
Period size: 93 Copynumber: 2.8 Consensus size: 93
13841965 GTAAGGTGCT
* * * * * * *
13841975 GATGCCGTGTCCCAGTCATGATCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCTGACA
1 GATGCCATGTCCCAGACATGATCTTACACTGGCTTACATCTCGAGGCGATG-CATGTCCCAGACA
*
13842040 TGGTCTTACACTAGCTATCATCTCGTAGCC
65 T-GTCTTACACTAGCTATCATCTCATAGCC
* * * * *
13842070 GACG-TATGTTCCAAACATG-TCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGATCTTACACTGGCTTACATCTCGAGGC-GATGCATGTCCCAGACA
*
13842133 TGTCTTACACTAGC-ACTCGTCTCA-ATGCC
65 TGTCTTACACTAGCTA-TCATCTCATA-GCC
* * *
13842162 -ATGCCATGTCCCAGACATGATCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCTAGA
1 GATGCCATGTCCCAGACATGATCTTACACTGGCT-TACAT-CTCGAGG-CGATGCATGTCCCAGA
13842224 CATGTCTTACACTAGC
63 CATGTCTTACACTAGC
13842240 CAACAATAAC
Statistics
Matches: 140, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
91 4 0.03
92 34 0.24
93 82 0.59
94 17 0.12
95 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGATCTTACACTGGCTTACATCTCGAGGCGATGCATGTCCCAGACAT
GTCTTACACTAGCTATCATCTCATAGCC
Found at i:13843514 original size:18 final size:18
Alignment explanation
Indices: 13843491--13843525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13843481 TATCTTCAAT
*
13843491 ATTAAATCTGTAAATATA
1 ATTAAATCTCTAAATATA
*
13843509 ATTAAATTTCTAAATAT
1 ATTAAATCTCTAAATAT
13843526 TTTATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATCTCTAAATATA
Found at i:13845507 original size:15 final size:15
Alignment explanation
Indices: 13845487--13845518 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13845477 ACAGAGTGTC
13845487 AATATATTAGTATTA
1 AATATATTAGTATTA
13845502 AATATATTAGTATTA
1 AATATATTAGTATTA
13845517 AA
1 AA
13845519 GTTTCGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AATATATTAGTATTA
Found at i:13849462 original size:26 final size:26
Alignment explanation
Indices: 13849426--13849557 Score: 200
Period size: 26 Copynumber: 5.2 Consensus size: 26
13849416 CATGATATTC
13849426 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13849452 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13849478 TTATCATGGAAC----ACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13849500 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13849526 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13849552 TTATCA
1 TTATCA
13849558 ATTTGTATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
22 20 0.21
26 76 0.79
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13849503 original size:48 final size:49
Alignment explanation
Indices: 13849441--13849557 Score: 191
Period size: 48 Copynumber: 2.3 Consensus size: 49
13849431 ATGAAACATT
*
13849441 TACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
1 TACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
13849490 -ACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
1 TACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
13849538 ATTTACCTAACCTATTATCA
1 ---TACCTAACCTATTATCA
13849558 ATTTGTATCA
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
48 47 0.75
52 16 0.25
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (49 bp):
TACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
Found at i:13856617 original size:30 final size:30
Alignment explanation
Indices: 13856562--13856618 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13856552 ACGACCATGA
* * *
13856562 CACACGGGTGTGTGGTTTGCTCGTGTGTCT
1 CACACGGGTCTGTGGATTGCCCGTGTGTCT
*
13856592 CACATGGGTCTGTGGATTGCCCGTGTG
1 CACACGGGTCTGTGGATTGCCCGTGTG
13856619 GAAGTGTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.37, T:0.33
Consensus pattern (30 bp):
CACACGGGTCTGTGGATTGCCCGTGTGTCT
Found at i:13857336 original size:31 final size:31
Alignment explanation
Indices: 13857301--13857362 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13857291 AGAATCGAGA
13857301 TTGAATTGATAAATTACCTAACTAGAAAAAT
1 TTGAATTGATAAATTACCTAACTAGAAAAAT
13857332 TTGAATTGATAAATTACCTAACTAGAAAAAT
1 TTGAATTGATAAATTACCTAACTAGAAAAAT
13857363 AAACTAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
TTGAATTGATAAATTACCTAACTAGAAAAAT
Found at i:13858484 original size:6 final size:6
Alignment explanation
Indices: 13858464--13858542 Score: 133
Period size: 6 Copynumber: 13.3 Consensus size: 6
13858454 ATAGGAAAAC
*
13858464 AAAATA AACAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
13858511 AAAATA AAAATA AAAATA AAAATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
13858543 TGGACTCAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
5 4 0.06
6 65 0.94
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:13859210 original size:30 final size:30
Alignment explanation
Indices: 13859175--13859233 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
13859165 TATTTTATTA
*
13859175 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
13859205 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
13859234 TGCTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:13865520 original size:13 final size:13
Alignment explanation
Indices: 13865502--13865527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13865492 TTAGTCCATA
13865502 TCTTTATTAAATT
1 TCTTTATTAAATT
13865515 TCTTTATTAAATT
1 TCTTTATTAAATT
13865528 CTATTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTTTATTAAATT
Found at i:13869827 original size:2 final size:2
Alignment explanation
Indices: 13869820--13869846 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13869810 GAGACTAGTC
13869820 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13869847 CTTTCATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13891800 original size:28 final size:28
Alignment explanation
Indices: 13891739--13891836 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
13891729 TCACAAATTG
** * *
13891739 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
13891768 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
13891796 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
13891824 GCACTAAGTGTGC
1 GCACTAAGTGTGC
13891837 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:13898204 original size:166 final size:166
Alignment explanation
Indices: 13897937--13898251 Score: 391
Period size: 166 Copynumber: 1.8 Consensus size: 166
13897927 AAATAAAAAT
*
13897937 ATCTCATAAATTCCAACTTAATGGTCTCATCTTTTACCTACATAAAAAACAAAAAAAATTATGTT
1 ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACAT-------AAAAAAAA-TATGTT
* * *
13898002 AAAATAATAGAAACTATCAAAACAAAATAAACCTAATTGGACTATATGTTGTTACGTGCATCTAA
58 AAAATAACAGAAACTATCAAAACAAAATAAACCTAATAGGACTA-ATGTTGTTACGTGAATCTAA
*
13898067 TAATAAACCAAAAAAAAAAATGCTCATTAAAAAATATAAGAGAAAC
122 TAA-AAAACAAAAAAAAAAATGCTCATTAAAAAATATAAGAGAAAC
* *
13898113 ATCTCATCAATTCCAACTCAATGGTTTCATCTTTTACCTACAT-AAAAAAA-ATGTTAAAATAAC
1 ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAAAATATGTTAAAATAAC
* * ** * **
13898176 ATAAATTATCTCAACATAATAAACCTAATAGGACTAATGTTGTTATTTGAATCTAATAAAAAACA
66 AGAAACTATCAAAACAAAATAAACCTAATAGGACTAATGTTGTTACGTGAATCTAATAAAAAACA
*
13898241 TAAAAAAAAAT
131 AAAAAAAAAAT
13898252 ATAAGAATTA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
164 15 0.12
165 20 0.16
166 42 0.34
168 7 0.06
176 40 0.32
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (166 bp):
ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAAAATATGTTAAAATAAC
AGAAACTATCAAAACAAAATAAACCTAATAGGACTAATGTTGTTACGTGAATCTAATAAAAAACA
AAAAAAAAAATGCTCATTAAAAAATATAAGAGAAAC
Found at i:13899348 original size:6 final size:6
Alignment explanation
Indices: 13899337--13899368 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13899327 ATACTTCAAT
13899337 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA AT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA AT
13899369 ATTTGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:13904422 original size:33 final size:33
Alignment explanation
Indices: 13904369--13904435 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
13904359 TTAATGTTCT
* *
13904369 CTTGTAGTTTCGTTCGACACTTAGTCAAACTGG
1 CTTGTAGTTCCGTTCAACACTTAGTCAAACTGG
* *
13904402 CTTGTAGTTCCGTTTAACACTTAGTCAAATTGG
1 CTTGTAGTTCCGTTCAACACTTAGTCAAACTGG
13904435 C
1 C
13904436 CTTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (33 bp):
CTTGTAGTTCCGTTCAACACTTAGTCAAACTGG
Found at i:13910528 original size:29 final size:29
Alignment explanation
Indices: 13910496--13910666 Score: 166
Period size: 29 Copynumber: 5.8 Consensus size: 29
13910486 GAAGAAGAGA
13910496 GGCAAAACTATAAAATCTGGAAAACCAGT
1 GGCAAAACTATAAAATCTGGAAAACCAGT
* * *
13910525 GGCAGAACTATAAAATCTAGAATAA-CAAT
1 GGCAAAACTATAAAATCTGGAA-AACCAGT
* * * *
13910554 TGAAAAACTGTAAAATCTAGAAAAACCAAGT
1 GGCAAAACTATAAAATCT-GGAAAACC-AGT
* *
13910585 GGCAAAACTATAAAATTTGGAATAA-TAGT
1 GGCAAAACTATAAAATCTGGAA-AACCAGT
* * *
13910614 GGCAAAACTGTGAAATCTAGAAAACCAGT
1 GGCAAAACTATAAAATCTGGAAAACCAGT
* *
13910643 AGCAAAACTGTAAAATCTGGAAAA
1 GGCAAAACTATAAAATCTGGAAAA
13910667 TGTTTGAGAA
Statistics
Matches: 112, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.02
29 84 0.75
30 8 0.07
31 18 0.16
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (29 bp):
GGCAAAACTATAAAATCTGGAAAACCAGT
Found at i:13910595 original size:89 final size:89
Alignment explanation
Indices: 13910496--13910666 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 89
13910486 GAAGAAGAGA
* *
13910496 GGCAAAACTATAAAATCTGGAA-AACCAGTGGCAGAACTATAAAATCTAGAATAA-CAATTGAAA
1 GGCAAAACTATAAAATCTGGAATAA-CAGTGGCAAAACTATAAAATCTAGAA-AACCAATAGAAA
13910559 AACTGTAAAATCTAGAAAAACCAAGT
64 AACTGTAAAATCTAGAAAAACCAAGT
* * * * * *
13910585 GGCAAAACTATAAAATTTGGAATAATAGTGGCAAAACTGTGAAATCTAGAAAACCAGTAGCAAAA
1 GGCAAAACTATAAAATCTGGAATAACAGTGGCAAAACTATAAAATCTAGAAAACCAATAGAAAAA
*
13910650 CTGTAAAATCTGGAAAA
66 CTGTAAAATCTAGAAAA
13910667 TGTTTGAGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
88 2 0.03
89 67 0.94
90 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (89 bp):
GGCAAAACTATAAAATCTGGAATAACAGTGGCAAAACTATAAAATCTAGAAAACCAATAGAAAAA
CTGTAAAATCTAGAAAAACCAAGT
Found at i:13910608 original size:60 final size:58
Alignment explanation
Indices: 13910499--13910664 Score: 206
Period size: 60 Copynumber: 2.8 Consensus size: 58
13910489 GAAGAGAGGC
* * * * *
13910499 AAAACTATAAAATCTGGAAAACCAGTGGCAGAACTATAAAATCTAGAATAACAATTGA
1 AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAATAACAATGGA
* * * *
13910557 AAAACTGTAAAATCTAGAAAAACCAAGTGGCAAAACTATAAAATTTGGAATAATAGTGGC
1 AAAACTGTAAAATCTAG-AAAACC-AGTGGCAAAACTATAAAATCTGGAATAACAATGGA
* * *
13910617 AAAACTGTGAAATCTAGAAAACCAGTAGCAAAACTGTAAAATCTGGAA
1 AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAA
13910665 AATGTTTGAG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
58 37 0.40
59 12 0.13
60 44 0.47
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (58 bp):
AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAATAACAATGGA
Found at i:13918622 original size:46 final size:45
Alignment explanation
Indices: 13918555--13918729 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
13918545 TGTAACCCGC
*
13918555 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* * *
13918601 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* * * * ** *
13918647 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
*
13918694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
13918730 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 66 0.63
47 31 0.30
48 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:13918670 original size:93 final size:93
Alignment explanation
Indices: 13918563--13918733 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
13918553 GCCCATAACT
** * *
13918563 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13918628 CAAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCGGATGCCTAGTTACATCTCAC
*
13918656 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
13918721 CGAGTTCGGATGC
66 CAAGCTCGGATGC
13918734 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCAC
Found at i:13923508 original size:34 final size:34
Alignment explanation
Indices: 13923465--13923533 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
13923455 TATTTACGAG
*
13923465 TCTGATTTACGGGAATGGAGTCCTGGAAATGCAT
1 TCTGATTTACGGGAATGGAGTCCCGGAAATGCAT
*
13923499 TCTGATTTACGGGAATGGAGTCCCGGGAATGCAT
1 TCTGATTTACGGGAATGGAGTCCCGGAAATGCAT
13923533 T
1 T
13923534 TTTCGACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (34 bp):
TCTGATTTACGGGAATGGAGTCCCGGAAATGCAT
Found at i:13926615 original size:2 final size:2
Alignment explanation
Indices: 13926608--13926643 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13926598 ATTCTTAATC
13926608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13926644 TTCGGGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13928443 original size:108 final size:108
Alignment explanation
Indices: 13928331--13928539 Score: 321
Period size: 108 Copynumber: 1.9 Consensus size: 108
13928321 GAGGGTTAAA
* *
13928331 TTATTAACTTCTTAAAAA-TTAATACAAAATTGTAGAATGTATAAACATTGAAATCTATTAAACC
1 TTATT-ACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACC
*
13928395 AATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCAAAT
65 AATCAAAAAGTAGTATAAACTAATGAAAAAAGTGAACATCAAAT
* * * * * *
13928439 TTATTATTTTTTAAAAAGTTATTACAAAATTTTAGAATGTATAAACATTGAAAGCCATTATATCA
1 TTATTACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACCA
13928504 ATCAAAAAGTAGTATAAACTAATGAAAAAAGTGAAC
66 ATCAAAAAGTAGTATAAACTAATGAAAAAAGTGAAC
13928540 TTCATCAAAC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 10 0.11
108 81 0.89
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (108 bp):
TTATTACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACCA
ATCAAAAAGTAGTATAAACTAATGAAAAAAGTGAACATCAAAT
Found at i:13930808 original size:17 final size:17
Alignment explanation
Indices: 13930786--13930821 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13930776 TTTACTGATC
*
13930786 AAATTCATACTCGATAA
1 AAATTCATACTAGATAA
13930803 AAATTCATACTAGATAA
1 AAATTCATACTAGATAA
13930820 AA
1 AA
13930822 CAAACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (17 bp):
AAATTCATACTAGATAA
Found at i:13933277 original size:30 final size:30
Alignment explanation
Indices: 13933243--13933302 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13933233 AAAATGGAGG
13933243 TAAACCAAATAAGAAAAAAAGAACAACACA
1 TAAACCAAATAAGAAAAAAAGAACAACACA
*
13933273 TAAACCAAATAAGCAAAAAAGAACAACACA
1 TAAACCAAATAAGAAAAAAAGAACAACACA
13933303 CATCATCGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (30 bp):
TAAACCAAATAAGAAAAAAAGAACAACACA
Found at i:13934710 original size:22 final size:22
Alignment explanation
Indices: 13934679--13934724 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
13934669 CAATTCCCTC
13934679 TTCATTCTC-ACT-TATTTTTTA
1 TTCATTCTCAACTGT-TTTTTTA
13934700 TTCATCTCTCAACTGTTTTTTTA
1 TTCAT-TCTCAACTGTTTTTTTA
13934723 TT
1 TT
13934725 AAGGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 12 0.55
24 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (22 bp):
TTCATTCTCAACTGTTTTTTTA
Found at i:13934898 original size:27 final size:26
Alignment explanation
Indices: 13934863--13934917 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
13934853 TTCTATTATA
**
13934863 GTTAATATAATTTAATTTAAATATTTT
1 GTTAATATAATAAAATTT-AATATTTT
* *
13934890 GTTATTATACTAAAATTTAATATTTT
1 GTTAATATAATAAAATTTAATATTTT
13934916 GT
1 GT
13934918 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
GTTAATATAATAAAATTTAATATTTT
Found at i:13938926 original size:21 final size:22
Alignment explanation
Indices: 13938900--13938940 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13938890 CTCTTAATAC
13938900 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
13938921 AGGGGCAACACGTCCGTGTG
1 AGGGGCAACACGCCCGTGTG
13938941 ACATTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:13942001 original size:20 final size:19
Alignment explanation
Indices: 13941961--13942002 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
13941951 CTTTCCAATT
*
13941961 TTTCTTACTTTCATTTGCA
1 TTTCTTACTTTCATTTCCA
13941980 TTTCATTACTTTCCA-TTCCA
1 TTTC-TTACTTT-CATTTCCA
13942000 TTT
1 TTT
13942003 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCATTTCCA
Found at i:13942866 original size:16 final size:17
Alignment explanation
Indices: 13942835--13942867 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13942825 TTCATAAGTA
13942835 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
13942852 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
13942868 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:13943419 original size:46 final size:46
Alignment explanation
Indices: 13943148--13943420 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
13943138 TTATCTTTGA
* * * * * *
13943148 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** ***
13943194 CAGGTTGCCATGGTATCTTTTAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
13943239 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
13943285 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
13943331 CATGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
13943377 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
13943421 TTCAGAAAGC
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.01
45 36 0.18
46 165 0.81
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:13948454 original size:3 final size:3
Alignment explanation
Indices: 13948448--13948485 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
13948438 GACAGTTTAG
*
13948448 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13948486 ACGTATATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13949351 original size:17 final size:16
Alignment explanation
Indices: 13949304--13949352 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
13949294 AGGAATATAC
13949304 TAATAATGATATGAATAA
1 TAATAAT-ATAT-AATAA
*
13949322 TAGTAATAGTATAATAA
1 TAATAATA-TATAATAA
13949339 TAATAAATATATAA
1 TAAT-AATATATAA
13949353 AAAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (16 bp):
TAATAATATATAATAA
Found at i:13951179 original size:44 final size:44
Alignment explanation
Indices: 13951069--13951180 Score: 197
Period size: 44 Copynumber: 2.5 Consensus size: 44
13951059 TCCTTGATCA
* *
13951069 GCTCCACTGCAACTTCAGGGAGACAAGACATGCAACTTTGACCT
1 GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTGTGACCT
*
13951113 GCTCCACTGCAACTTCAGGGAGGCAAGACTTGCAACTGTGACCT
1 GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTGTGACCT
13951157 GCTCCACTGCAACTTCAGGGAGGC
1 GCTCCACTGCAACTTCAGGGAGGC
13951181 CAAATCTGGT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTGTGACCT
Found at i:13951289 original size:13 final size:13
Alignment explanation
Indices: 13951271--13951307 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13951261 ATGAATGGAC
13951271 AGTAAAAATAGAA
1 AGTAAAAATAGAA
13951284 AGTAAAAATAGAA
1 AGTAAAAATAGAA
* *
13951297 ATTGAAAATAG
1 AGTAAAAATAG
13951308 CTCAGCACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (13 bp):
AGTAAAAATAGAA
Found at i:13951409 original size:74 final size:75
Alignment explanation
Indices: 13951287--13951453 Score: 237
Period size: 74 Copynumber: 2.2 Consensus size: 75
13951277 AATAGAAAGT
* * * *
13951287 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGTAATATGGG
1 AAAAATAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
13951352 TTGATTTTTG
66 TTGATTTATG
* * *
13951362 AAAAATAGAAATT-AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
13951426 TTGATTTATG
66 TTGATTTATG
* *
13951436 AAAAACATAAATTGAAAA
1 AAAAATAGAAATTGAAAA
13951454 CAAACAGAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 64 0.79
75 17 0.21
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (75 bp):
AAAAATAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTATG
Found at i:13951464 original size:17 final size:17
Alignment explanation
Indices: 13951438--13951471 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13951428 GATTTATGAA
*
13951438 AAACATAAATTGAAAAC
1 AAACAGAAATTGAAAAC
13951455 AAACAGAAATTGAAAAC
1 AAACAGAAATTGAAAAC
13951472 TCCTCAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (17 bp):
AAACAGAAATTGAAAAC
Found at i:13951502 original size:166 final size:161
Alignment explanation
Indices: 13951275--13951709 Score: 467
Period size: 166 Copynumber: 2.7 Consensus size: 161
13951265 ATGGACAGTA
* * * * *
13951275 AAAAT-AGAAAGT-AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACC
1 AAAATAAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGTTCAACTCACC
* * *
13951338 TCTCGTAATATGGGTTGATTTTTGAAAAATAGAAATTAAAATACCTCGGCATGTGACC-CGAGGC
65 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAATACCTCAGC--GTG-CCTCGAGGC
*
13951402 TCAACTCACCTCTCGCAATATGAGTTGA-TTTATG
127 TCAACTCACCTCTCGCAATATGAATTGATTTTATG
* *
13951436 AAAA-ACATAAATTGAAAACAAACAGAAATTGAAAACT-CCTCAGCATGTGAGCCGAGGTTTAAC
1 AAAATA-AGAAATTG--AA-AAACAGAAATTGAAAA-TACCTCAGCA-GTGAGCCGAGGTTCAAC
*
13951499 TCACCTCTAGCAATATGAGTTGATTTTTTTTG-AAAATA-AAATTTGAAAATACCTCAGCGTGCC
60 TCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATAGAAA-TT-AAAATACCTCAGCGTGCC
* *
13951562 TCGAGGCTCAACTCACCTCTTGCAATATGAATTGATTTTTGTG
120 TCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTATG
* * *
13951605 AAAATAAGAAATTGAAAAATAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGTTCAACTCACC
1 AAAATAAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCAGTGAGCC-GAGGTTCAACTCACC
* *
13951668 TCTCGCAATATGAGTTGATTTTTGGAAAAGTAGGAATTAAAA
65 TCTCGCAATATGAGTTGATTTTT-GAAAAATAGAAATTAAAA
13951710 ACAAAATTTG
Statistics
Matches: 230, Mismatches: 23, Indels: 41
0.78 0.08 0.14
Matches are distributed among these distances:
161 9 0.04
162 10 0.04
163 9 0.04
164 36 0.16
165 3 0.01
166 79 0.34
167 41 0.18
168 8 0.03
169 34 0.15
170 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (161 bp):
AAAATAAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGTTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAATACCTCAGCGTGCCTCGAGGCTCAA
CTCACCTCTCGCAATATGAATTGATTTTATG
Found at i:13951625 original size:15 final size:14
Alignment explanation
Indices: 13951605--13951635 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
13951595 GATTTTTGTG
13951605 AAAATAAGAAATTGA
1 AAAAT-AGAAATTGA
13951620 AAAATAGAAATTGA
1 AAAATAGAAATTGA
13951634 AA
1 AA
13951636 TTACCTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (14 bp):
AAAATAGAAATTGA
Found at i:13951686 original size:89 final size:88
Alignment explanation
Indices: 13951531--13951721 Score: 264
Period size: 89 Copynumber: 2.2 Consensus size: 88
13951521 ATTTTTTTTG
*
13951531 AAAATAAAATTTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAATTG
1 AAAATAAAATTTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAATTG
13951596 ATTTTTGTGAAAATAAGAAATTGA
66 ATTTTTG-GAAAATAAGAAATTGA
* * *
13951620 AAAATAGAAA-TTGAAATTACCTCAGCGTGTCCT-GAGGTTCAACTCACCTCTCGCAATATGAGT
1 AAAATA-AAATTTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAAT
*
13951683 TGATTTTTGGAAAAGT-AGGAATT-A
64 TGATTTTTGGAAAA-TAAGAAATTGA
*
13951707 AAAACAAAATTTGAA
1 AAAATAAAATTTGAA
13951722 CAACAGAATT
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
86 3 0.03
87 11 0.12
88 11 0.12
89 61 0.66
90 6 0.07
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (88 bp):
AAAATAAAATTTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTTGGAAAATAAGAAATTGA
Found at i:13951890 original size:105 final size:100
Alignment explanation
Indices: 13951619--13951899 Score: 278
Period size: 103 Copynumber: 2.7 Consensus size: 100
13951609 TAAGAAATTG
* * * *
13951619 AAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAATTTGAAA-TACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTT
** ** **
13951684 GATTTTTGGAAAAGTAGGAATTAAAAACAAAATTTG
65 GATTTTTGGAAAAAAAAAAATTAAAAACAAAATTAA
* * * * *
13951720 AACAACAGAATTTGAAAATACCTCGGCATGTGACCC-AAGGCTCAACTCACCTT-TTGCAATATG
1 AAAAACAGAATTTG-AAATACCTCAGC--GTG-CCCTGAGGTTCAACTCA-CTTCTCGCAATATG
** * *
13951783 AGTTGATTTTTTTAAAAAAAAAAATATATATATATATAAATTAA
61 AGTTGATTTTTGGAAAAAAAAAAAT-TA-A-AAACA-AAATTAA
13951827 AAAAACAGAATTTGAAGATACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAATTTGAA-ATACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTT
13951892 GATTTTTG
65 GATTTTTG
13951900 AAAGCAAAAA
Statistics
Matches: 143, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
101 19 0.13
102 3 0.02
103 42 0.29
104 12 0.08
105 35 0.24
106 5 0.03
107 27 0.19
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (100 bp):
AAAAACAGAATTTGAAATACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGGAAAAAAAAAAATTAAAAACAAAATTAA
Found at i:13956829 original size:13 final size:13
Alignment explanation
Indices: 13956808--13956845 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
13956798 AGGTTCTTGC
*
13956808 GATCCTTTTTCCT
1 GATCTTTTTTCCT
13956821 GATCTTTTTTCCT
1 GATCTTTTTTCCT
*
13956834 GATCTTTCTTCC
1 GATCTTTTTTCC
13956846 ATTGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.29, G:0.08, T:0.55
Consensus pattern (13 bp):
GATCTTTTTTCCT
Found at i:13964069 original size:3 final size:3
Alignment explanation
Indices: 13964063--13964106 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
13964053 GACAATTTAG
* *
13964063 AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13964107 ACGTATATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:13964465 original size:31 final size:30
Alignment explanation
Indices: 13964429--13964487 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
13964419 TATTGAAAAC
* *
13964429 ATATACGTAATATATCTAGAACATATATGAT
1 ATATACATAATATAT-AAGAACATATATGAT
*
13964460 ATATACATAATATATAAGAATATATATG
1 ATATACATAATATATAAGAACATATATG
13964488 TAATAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (30 bp):
ATATACATAATATATAAGAACATATATGAT
Found at i:13964978 original size:17 final size:17
Alignment explanation
Indices: 13964930--13964970 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13964920 AGGAATATAC
*
13964930 TAATAATGATATGAATAA
1 TAATAATAATAT-AATAA
*
13964948 TAGTAATAATATAATAA
1 TAATAATAATATAATAA
13964965 TAATAA
1 TAATAA
13964971 ATATATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:13979393 original size:3 final size:3
Alignment explanation
Indices: 13979385--13979414 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13979375 CCAAACAAAA
13979385 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
13979415 GCAGATTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13980893 original size:2 final size:2
Alignment explanation
Indices: 13980886--13980922 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13980876 CATATTTTAA
13980886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13980923 ATTTAGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13984939 original size:7 final size:8
Alignment explanation
Indices: 13984916--13984947 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
13984906 GAGCTTTGTT
13984916 AAATAAAA
1 AAATAAAA
*
13984924 AAAGAAAA
1 AAATAAAA
13984932 AAATAAAA
1 AAATAAAA
13984940 AAATAAAA
1 AAATAAAA
13984948 CATTGGCGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (8 bp):
AAATAAAA
Found at i:13985469 original size:16 final size:16
Alignment explanation
Indices: 13985448--13985480 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13985438 TAACATCCCT
13985448 TACCCGTGTTTAACGC
1 TACCCGTGTTTAACGC
13985464 TACCCGTGTTTAACGC
1 TACCCGTGTTTAACGC
13985480 T
1 T
13985481 GGAACAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (16 bp):
TACCCGTGTTTAACGC
Found at i:13987946 original size:48 final size:47
Alignment explanation
Indices: 13987875--13988089 Score: 211
Period size: 46 Copynumber: 4.6 Consensus size: 47
13987865 AAGCTGACGC
* * **
13987875 CATGTCCTAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCT-GTATATCTCGAGGCCGATG
* * ** * *
13987923 CATGTCCTAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGTATATCTCGAGGCCGATG
* *
13987969 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-GTATATCTCGAGGCCGATG
* * * * *
13988017 CATGTCCCAGACATGCCTTACACTGGCTCTCA-ATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGT-ATATCTCGAGGCCGATG
* *
13988063 CATGTCTCAGACATGTCTTACAATAGC
1 CATGTCCCAGACATGTCTTACACTAGC
13988090 ACACATATCA
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
46 67 0.48
47 6 0.04
48 66 0.47
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTGTATATCTCGAGGCCGATG
Found at i:13987983 original size:46 final size:46
Alignment explanation
Indices: 13987734--13988084 Score: 201
Period size: 48 Copynumber: 7.5 Consensus size: 46
13987724 ATGTCGACAC
** * *
13987734 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATC-TCAAGGCCGATG
* * * **
13987781 CCATGTCCCAGATAGGTCTTACACTGGCTCTCATCT-ATTTGTGTTGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA--AG-GCCGATG
* * * * * * * *
13987830 CCATGTCCCAGACAGGTCTTACATTGACACACA--ACAA-GCTGACG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
* * * * * * **
13987874 CCATGTCCTAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCTAATG
1 -CATGTCCCAGACATGTCTTACACTGGCT-CT-CATCTCAAGGCCGATG
* * * *
13987923 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
* * * *
13987969 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-CT-CATCTCAAGGCCGATG
* * **
13988017 CATGTCCCAGACATGCCTTACACTGGCTCTCAATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTC-ATCTCAAGGCCGATG
*
13988063 CATGTCTCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
13988085 ATAGCACACA
Statistics
Matches: 238, Mismatches: 52, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
44 29 0.12
46 66 0.28
47 23 0.10
48 81 0.34
49 39 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
Found at i:13988060 original size:94 final size:93
Alignment explanation
Indices: 13987875--13988089 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 93
13987865 AAGCTGACGC
* * * * *
13987875 CATGTCCTAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCTAATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
* *
13987940 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCATAT-AATGCCGATG
* * * *
13987969 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGCC
1 CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
* *
13988034 TTACACTGGCTCTCA-ATATGTGGCCGATG
66 TTACACTAGCTCTCATATA-AT-GCCGATG
* *
13988063 CATGTCTCAGACATGTCTTACAATAGC
1 CATGTCCCAGACATGTCTTACACTAGC
13988090 ACACATATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 99 0.97
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
TTACACTAGCTCTCATATAATGCCGATG
Found at i:13988765 original size:20 final size:20
Alignment explanation
Indices: 13988740--13988778 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13988730 AGAATTTCAA
13988740 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
13988760 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
13988779 AATAGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:13990826 original size:7 final size:7
Alignment explanation
Indices: 13990814--13990851 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
13990804 AATGCCCAAC
13990814 AAATGAT
1 AAATGAT
13990821 AAATGAT
1 AAATGAT
13990828 AAATGAT
1 AAATGAT
13990835 AAATGAT
1 AAATGAT
13990842 AAATGAT
1 AAATGAT
13990849 AAA
1 AAA
13990852 AATGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAATGAT
Found at i:13994557 original size:28 final size:28
Alignment explanation
Indices: 13994488--13994588 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
13994478 GACAAGATTG
* * * *
13994488 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
13994518 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13994546 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
13994575 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13994589 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14006044 original size:14 final size:13
Alignment explanation
Indices: 14006006--14006044 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
14005996 AAATGTTTTA
14006006 TAATGA-ACATGT
1 TAATGATACATGT
14006018 TAATGATACATGT
1 TAATGATACATGT
*
14006031 TAAGTGATATATGT
1 TAA-TGATACATGT
14006045 GTGTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.25
13 9 0.38
14 9 0.38
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (13 bp):
TAATGATACATGT
Found at i:14009625 original size:19 final size:20
Alignment explanation
Indices: 14009593--14009638 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
14009583 CGAAAAATGA
14009593 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14009613 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14009632 TTTCTGG
1 TTTCTGG
14009639 TATTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14009746 original size:20 final size:20
Alignment explanation
Indices: 14009721--14009758 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14009711 GTTTTTACAT
14009721 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
14009741 ATATTAATAAATTTATAT
1 ATATTAATAAATTTATAT
14009759 TTTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:14009775 original size:28 final size:28
Alignment explanation
Indices: 14009744--14009800 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
14009734 TATATACATA
*
14009744 TTAATAAATTTATATTTTAAATAGTTTT
1 TTAATAAATTTATAATTTAAATAGTTTT
*
14009772 TTAATAAATTTATAATTTAAATTGTTTT
1 TTAATAAATTTATAATTTAAATAGTTTT
14009800 T
1 T
14009801 ACATATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (28 bp):
TTAATAAATTTATAATTTAAATAGTTTT
Found at i:14011348 original size:22 final size:21
Alignment explanation
Indices: 14011318--14011364 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
14011308 TACAAATTAA
14011318 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
14011340 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
14011361 ATCT
1 ATCT
14011365 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:14011370 original size:19 final size:19
Alignment explanation
Indices: 14011335--14011413 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
14011325 AGATTACAAG
14011335 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
14011356 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
14011373 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
14011392 ATCATATCTAAGATTCCAT
1 ATCATATCTAAGATTGCAT
14011411 ATC
1 ATC
14011414 CTTAAATATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14011390 original size:36 final size:38
Alignment explanation
Indices: 14011335--14011406 Score: 130
Period size: 36 Copynumber: 1.9 Consensus size: 38
14011325 AGATTACAAG
14011335 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
14011373 ATCATATC-T-AAGATTGCATATCATATCTAAGATT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATT
14011407 CCATATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:14011394 original size:14 final size:15
Alignment explanation
Indices: 14011357--14011394 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
14011347 AGATTGCATA
14011357 TCATATCTAAGATTG
1 TCATATCTAAGATTG
14011372 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
14011389 -CATATC
1 TCATATC
14011395 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:14012351 original size:83 final size:84
Alignment explanation
Indices: 14012155--14012513 Score: 546
Period size: 84 Copynumber: 4.3 Consensus size: 84
14012145 CATCTTGGAT
* * *
14012155 CCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCACTACTGCTTA-GG-GATAAG
1 CCTACTACTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
14012218 ATCTGCAAA-TTAACTTGTTAC
63 ATCTGCAAATTTAACCTGTTAC
* *
14012239 CCTACTACTTAGGGGATTAAGGCGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
14012304 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
* **
14012323 CCTACTGCTTA-GGGATTAAGGCGAGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATC
1 CCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
14012387 TGCAAATTTAACCTATTAC
66 TGCAAATTTAACCTGTTAC
* * *
14012406 CCTACTACTTAGGGGATTAAGGCAAGTCTTCGAACTGCTCCACTACTACTTAGGGAGATAAGATC
1 CCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
14012471 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
14012490 CCTACTACTTAGGGGATTAAGGCG
1 CCTACTACTTAGGGGATTAAGGCG
14012514 CTGAATTTTG
Statistics
Matches: 251, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
81 26 0.10
82 2 0.01
83 92 0.37
84 131 0.52
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (84 bp):
CCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGCAAATTTAACCTGTTAC
Found at i:14012437 original size:167 final size:167
Alignment explanation
Indices: 14012155--14012514 Score: 555
Period size: 167 Copynumber: 2.1 Consensus size: 167
14012145 CATCTTGGAT
* *
14012155 CCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGATAAGAT
1 CCTACTGCTTAGGGGATTAAGGCGCA-CGTCTTCGATCTGCTCCACTACTGCTTAGGGATAAGAT
* * ** *
14012220 CTGCAAATTAACTTGTTACCCTACTACTTAGGGGATTAAGGCGGGTCTTCGATCTACTCCACTAC
65 CTGCAAATTAACCTATTACCCTACTACTTAGGGGATTAAGGCAAGTCTTCGAACTACTCCACTAC
*
14012285 TGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
130 TACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
**
14012323 CCTACTGCTTA-GGGATTAAGGCG-A-GTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGA
1 CCTACTGCTTAGGGGATTAAGGCGCACGTCTTCGATCTGCTCCACTACTGCTTA-GG-GATAAGA
*
14012385 TCTGCAAATTTAACCTATTACCCTACTACTTAGGGGATTAAGGCAAGTCTTCGAACTGCTCCACT
64 TCTGCAAA-TTAACCTATTACCCTACTACTTAGGGGATTAAGGCAAGTCTTCGAACTACTCCACT
14012450 ACTACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
128 ACTACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
*
14012490 CCTACTACTTAGGGGATTAAGGCGC
1 CCTACTGCTTAGGGGATTAAGGCGC
14012515 TGAATTTTGT
Statistics
Matches: 175, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
164 25 0.14
165 2 0.01
166 16 0.09
167 109 0.62
168 23 0.13
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (167 bp):
CCTACTGCTTAGGGGATTAAGGCGCACGTCTTCGATCTGCTCCACTACTGCTTAGGGATAAGATC
TGCAAATTAACCTATTACCCTACTACTTAGGGGATTAAGGCAAGTCTTCGAACTACTCCACTACT
ACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
Found at i:14013475 original size:7 final size:7
Alignment explanation
Indices: 14013463--14013508 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
14013453 CCTTTCCATT
14013463 TTTTTTC
1 TTTTTTC
14013470 TTTTTTC
1 TTTTTTC
14013477 TTTTTT-
1 TTTTTTC
14013483 TTTTTTC
1 TTTTTTC
14013490 --TTTTC
1 TTTTTTC
14013495 TTTTTTCC
1 TTTTTT-C
14013503 TTTTTT
1 TTTTTT
14013509 TTGAAATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
6 6 0.17
7 17 0.49
8 7 0.20
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:14013482 original size:18 final size:18
Alignment explanation
Indices: 14013461--14013500 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14013451 GGCCTTTCCA
*
14013461 TTTTTTTTCTT-TTTTCT
1 TTTTTTTTTTTCTTTTCT
14013478 TTTTTTTTTTTCTTTTCT
1 TTTTTTTTTTTCTTTTCT
14013496 TTTTT
1 TTTTT
14013501 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (18 bp):
TTTTTTTTTTTCTTTTCT
Found at i:14013486 original size:13 final size:13
Alignment explanation
Indices: 14013463--14013510 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
14013453 CCTTTCCATT
14013463 TTTTTTCTTTTTTC
1 TTTTTT-TTTTTTC
14013477 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
* *
14013490 TTTTCTTTTTTCC
1 TTTTTTTTTTTTC
14013503 TTTTTTTT
1 TTTTTTTT
14013511 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:14013499 original size:25 final size:24
Alignment explanation
Indices: 14013461--14013510 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
14013451 GGCCTTTCCA
*
14013461 TTTTTTTTCTTTTTTCTTTTTTTT
1 TTTTTTTTCTTTTTTCCTTTTTTT
14013485 TTTTCTTTTCTTTTTTCCTTTTTTT
1 TTTT-TTTTCTTTTTTCCTTTTTTT
14013510 T
1 T
14013511 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (24 bp):
TTTTTTTTCTTTTTTCCTTTTTTT
Found at i:14013506 original size:18 final size:17
Alignment explanation
Indices: 14013470--14013510 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
14013460 ATTTTTTTTC
**
14013470 TTTTTTCTTTTTTTTTT
1 TTTTTTCTTTTTTCCTT
14013487 TTCTTTTCTTTTTTCCTT
1 TT-TTTTCTTTTTTCCTT
14013505 TTTTTT
1 TTTTTT
14013511 GAAATAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTCTTTTTTCCTT
Found at i:14018158 original size:27 final size:27
Alignment explanation
Indices: 14018127--14018221 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
14018117 TTAGTTTACC
* * *
14018127 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
14018154 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* *
14018181 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
*
14018208 AAATTACTGAAATA
1 AAATTACTCAAATA
14018222 ATATAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.88
28 4 0.07
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:14018256 original size:27 final size:27
Alignment explanation
Indices: 14018226--14018285 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
14018216 GAAATAATAT
14018226 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
14018253 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
14018280 AAAATT
1 AGAATT
14018286 GCTGAAATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:14018296 original size:27 final size:27
Alignment explanation
Indices: 14018239--14018326 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
14018229 ATTACCATTT
* **
14018239 TACCCTCGATTTACAGAATTA-CCATTT
1 TACCCTCGATTTACAAAATTACCCA-AA
* **
14018266 TACCCTCGATTTACAAAATTGCTGAAA
1 TACCCTCGATTTACAAAATTACCCAAA
* *
14018293 TACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTACAAAATTACCCAAA
14018320 TACCCTC
1 TACCCTC
14018327 TATCAATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCCAAA
Found at i:14018366 original size:27 final size:27
Alignment explanation
Indices: 14018336--14018622 Score: 398
Period size: 27 Copynumber: 10.7 Consensus size: 27
14018326 CTATCAATAA
14018336 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
14018363 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14018390 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14018417 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14018444 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14018471 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
14018498 AATTATTGCAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
14018524 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14018551 AATTACCGAAATACCCCTATAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
14018578 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14018605 AATTACTGAAATACCCCT
1 AATTACCGAAATACCCCT
14018623 ATAGCTGGTA
Statistics
Matches: 235, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
26 22 0.09
27 212 0.90
28 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:14019211 original size:27 final size:27
Alignment explanation
Indices: 14019180--14019574 Score: 535
Period size: 27 Copynumber: 14.7 Consensus size: 27
14019170 TATAATTGAA
*
14019180 CCTGTAGGGTAGAATTATCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
14019207 CCTGTAGGGTAGAAATACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
14019234 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* **
14019261 CCTATAGGGTAGAATTATTGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
14019288 CCTATAGGGTAGAATTACCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
14019315 CCTGTAAGGTAGAATTACCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
14019342 CCTATAGGGTAGAATTACC-AGAATACC
1 CCTGTAGGGTAGAATTACCGA-AATACC
*
14019369 CCTGTAGGGTAGAATTACCGGAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
14019396 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
14019423 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
14019450 CCTGTAGGGT-TAATTATCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
14019476 CCTGTAGGGTAGAATTATCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
14019503 CTTGTAGGGTAAAATTACCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * * *
14019530 TCTATAGGGTGGAATTACCGAGATA-C
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
14019556 CTTGTGGGGTAAAATTACC
1 CCTGTAGGGTAGAATTACC
14019575 ATTTTGCCCC
Statistics
Matches: 326, Mismatches: 39, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
26 37 0.11
27 289 0.89
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
CCTGTAGGGTAGAATTACCGAAATACC
Found at i:14020044 original size:22 final size:22
Alignment explanation
Indices: 14020019--14020065 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14020009 GGCTTTATGT
14020019 CAACCTACATATGGCTCTGTGC
1 CAACCTACATATGGCTCTGTGC
*** *
14020041 CAACCTGGTTATGGCTGTGTGC
1 CAACCTACATATGGCTCTGTGC
14020063 CAA
1 CAA
14020066 ACGTATTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (22 bp):
CAACCTACATATGGCTCTGTGC
Found at i:14020260 original size:26 final size:27
Alignment explanation
Indices: 14020223--14020297 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14020213 TATTCTGTTA
* *
14020223 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATATCTGTATCT
*
14020249 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* *
14020276 AGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
14020298 ATAACTGAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:14020467 original size:19 final size:19
Alignment explanation
Indices: 14020445--14020502 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
14020435 TTCTGATTTT
14020445 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
14020464 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
14020476 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
14020495 TGATTCTG
1 TGATTCTG
14020503 ATTCTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:14020472 original size:6 final size:6
Alignment explanation
Indices: 14020434--14020507 Score: 53
Period size: 6 Copynumber: 11.8 Consensus size: 6
14020424 TTGCATTCAC
* * *
14020434 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
14020484 -TTACCTG ATACTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCT
14020508 TTTATATGAC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
5 4 0.08
6 36 0.68
7 11 0.21
8 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Done.