Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 197 of 207
Found at i:59227023 original size:51 final size:51
Alignment explanation
Indices: 59226849--59227016 Score: 225
Period size: 52 Copynumber: 3.3 Consensus size: 51
59226839 TAGTGACTCT
* * *
59226849 AGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGCTAGC-TTGATCACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACA
*
59226898 AGTGTGGTACTATGTGAAAGCCACTTTGTGAAGAAAGATAGCTTTGGTCACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCACA
* *
59226950 AGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAGGTAGCTTTGG-CTACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-ACA
* *
59227001 AGGGTTGTACTATGTG
1 AGTGTGGTACTATGTG
59227017 CAGGTCATCG
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 31 0.29
50 1 0.01
51 35 0.33
52 39 0.37
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (51 bp):
AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACA
Found at i:59233416 original size:41 final size:41
Alignment explanation
Indices: 59233335--59233413 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
59233325 TCCCCACTCA
* * *
59233335 AAAGCAACCCCAAACTATAAGTAAATGCCTTGATTAAAAGT
1 AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAAGT
*
59233376 AAAGCAA-CCCTAACTATAACTAAATACCTTAATTAAAA
1 AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAA
59233414 AGTGAATCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 27 0.79
41 7 0.21
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (41 bp):
AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAAGT
Found at i:59241034 original size:52 final size:49
Alignment explanation
Indices: 59240949--59241314 Score: 431
Period size: 52 Copynumber: 7.6 Consensus size: 49
59240939 TTTGAGTACT
* **
59240949 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
59240995 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
59241047 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
59241093 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
59241139 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
59241191 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
59241243 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTT-
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
59241288 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
59241315 GCTACACTTA
Statistics
Matches: 291, Mismatches: 15, Indels: 29
0.87 0.04 0.09
Matches are distributed among these distances:
45 27 0.09
46 127 0.44
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:59241069 original size:98 final size:97
Alignment explanation
Indices: 59240949--59241314 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
59240939 TTTGAGTACT
* *
59240949 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
59241014 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
59241047 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59241107 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
59241139 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
59241204 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
59241243 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTT-TCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
59241307 GATAAGTG
65 GA-AAGTG
59241315 GCTACACTTA
Statistics
Matches: 239, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 14 0.06
98 140 0.59
101 1 0.00
104 41 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:59241314 original size:45 final size:46
Alignment explanation
Indices: 59241211--59241314 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
59241201 TGACAAGTGA
* *
59241211 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
59241257 AAAGTGATAAGTGATAGCTTTAGCTACACTT-TCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
59241302 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59241315 GCTACACTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 27 0.49
46 28 0.51
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:59241335 original size:37 final size:37
Alignment explanation
Indices: 59241279--59241386 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
59241269 GATAGCTTTA
59241279 GCTACACTT-TCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
59241315 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
59241352 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
59241387 ATCATACGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
35 11 0.17
36 13 0.20
37 40 0.62
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:59243126 original size:11 final size:12
Alignment explanation
Indices: 59243104--59243135 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
59243094 TTTATTTAAC
59243104 ATACACATACAA
1 ATACACATACAA
59243116 ATACA-ATACAA
1 ATACACATACAA
59243127 ATACACATA
1 ATACACATA
59243136 TTTCTGGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACATACAA
Found at i:59249794 original size:14 final size:15
Alignment explanation
Indices: 59249765--59249796 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59249755 TATTCAAACT
59249765 TTTTTTGAAAATTTA
1 TTTTTTGAAAATTTA
59249780 TTTTTTGAAAA-TTA
1 TTTTTTGAAAATTTA
59249794 TTT
1 TTT
59249797 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTTTGAAAATTTA
Found at i:59249821 original size:20 final size:21
Alignment explanation
Indices: 59249776--59249822 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
59249766 TTTTTGAAAA
59249776 TTTATTTTTTGAAAATTATTT
1 TTTATTTTTTGAAAATTATTT
* *
59249797 ATTATTTTTT-ATAA-TATTT
1 TTTATTTTTTGAAAATTATTT
59249816 GTTTATT
1 -TTTATT
59249823 CAAACGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTATTTTTTGAAAATTATTT
Found at i:59249861 original size:64 final size:64
Alignment explanation
Indices: 59249739--59249861 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 64
59249729 ATTTTAAATG
* **
59249739 TTTTATAATATCTGTTTATTCAAACTTTTTTTGAAAATTTATTTTTTGAAAATTATTTATTATT
1 TTTTATAATATCTGTTTATTCAAACTTTTTTTGAAAATTTATTTTATGAAAAGCATTTATTATT
* ***
59249803 TTTTATAATATTTGTTTATTCAAACGTTTTTTATTTTAATTT-TTTTAT-AAAAGCATTTA
1 TTTTATAATATCTGTTTATTCAAAC-TTTTTT-TGAAAATTTATTTTATGAAAAGCATTTA
59249862 AAATTATAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
64 33 0.66
65 11 0.22
66 6 0.12
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (64 bp):
TTTTATAATATCTGTTTATTCAAACTTTTTTTGAAAATTTATTTTATGAAAAGCATTTATTATT
Found at i:59249990 original size:36 final size:36
Alignment explanation
Indices: 59249879--59249992 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 36
59249869 AAGTATATAT
* * *
59249879 AATTAAAAAAAGTTTGAATAAACCAATATTATAAAA
1 AATTTAAAAATGTTTGAATAAACAAATATTATAAAA
* * * *
59249915 TATCT-AAAAT-ATT--ATAAACCAAATAATA-AAAA
1 AATTTAAAAATGTTTGAATAAA-CAAATATTATAAAA
59249947 AATTTTAAAAATGTTTGAATAAACAAATATTATAAAA
1 AA-TTTAAAAATGTTTGAATAAACAAATATTATAAAA
*
59249984 CATTTAAAA
1 AATTTAAAA
59249993 TATAATTTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
32 10 0.17
33 9 0.15
34 7 0.12
35 6 0.10
36 17 0.29
37 10 0.17
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (36 bp):
AATTTAAAAATGTTTGAATAAACAAATATTATAAAA
Found at i:59250031 original size:21 final size:23
Alignment explanation
Indices: 59249978--59250036 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
59249968 AACAAATATT
*
59249978 ATAAAACATT-TAAAATATAATT
1 ATAAAACATTATAAAATATAATA
* *
59250000 TTAAAATATTATAAAATA-AATA
1 ATAAAACATTATAAAATATAATA
*
59250022 ATAAAA-ATTAAAAAA
1 ATAAAACATTATAAAA
59250037 AAGATTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.26
22 16 0.52
23 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAAACATTATAAAATATAATA
Found at i:59250038 original size:91 final size:92
Alignment explanation
Indices: 59249928--59250129 Score: 282
Period size: 91 Copynumber: 2.2 Consensus size: 92
59249918 CTAAAATATT
* * * *
59249928 ATAAACCAAATAATAAAAAA-ATTTTAAAAATGTTTGAATAAACAAATATTATAAAACATTTAAA
1 ATAAA-CAAATAA-AAAAAAGA-TTAAAAAACGTTTCAATAAACAAATATTATAAAAAATTTAAA
*
59249992 ATATAATTTTAAAATATTATAAAATAAATA
63 ATATAAATTTAAAATATTATAAAATAAATA
* * **
59250022 ATAAA-AATTAAAAAAAAGATTAAAAAACGTTTCAATGAACCGATATTATAAAAAATTTAAAATA
1 ATAAACAAATAAAAAAAAGATTAAAAAACGTTTCAATAAACAAATATTATAAAAAATTTAAAATA
59250086 TAAATTTAAAATATTATAAAATAAATA
66 TAAATTTAAAATATTATAAAATAAATA
59250113 ATAAACAAATAAAAAAA
1 ATAAACAAATAAAAAAA
59250130 GGAAAATGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
91 75 0.78
92 16 0.17
94 5 0.05
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (92 bp):
ATAAACAAATAAAAAAAAGATTAAAAAACGTTTCAATAAACAAATATTATAAAAAATTTAAAATA
TAAATTTAAAATATTATAAAATAAATA
Found at i:59250045 original size:19 final size:21
Alignment explanation
Indices: 59250000--59250047 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
59249990 AAATATAATT
*
59250000 TTAAAATATTATAAAATAAATA
1 TTAAAA-ATTATAAAATAAAGA
*
59250022 ATAAAAATTA-AAAA-AAAGA
1 TTAAAAATTATAAAATAAAGA
59250041 TTAAAAA
1 TTAAAAA
59250048 ACGTTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 4 0.17
22 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
TTAAAAATTATAAAATAAAGA
Found at i:59250092 original size:13 final size:13
Alignment explanation
Indices: 59250074--59250099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59250064 ATATTATAAA
59250074 AAATTTAAAATAT
1 AAATTTAAAATAT
59250087 AAATTTAAAATAT
1 AAATTTAAAATAT
59250100 TATAAAATAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:59250117 original size:22 final size:21
Alignment explanation
Indices: 59250069--59250117 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
59250059 AACCGATATT
59250069 ATAA-AAAATTTAAAATATAA
1 ATAATAAAATTTAAAATATAA
*
59250089 AT-TTAAAATATTATAAA-ATAA
1 ATAATAAAAT-TTA-AAATATAA
59250110 ATAATAAA
1 ATAATAAA
59250118 CAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAAAATTTAAAATATAA
Found at i:59252910 original size:27 final size:26
Alignment explanation
Indices: 59252862--59252916 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
59252852 ATGATTTAGA
59252862 AATTAAAAATATTAATAAAATAAATTT
1 AATTAAAAATATTAATAAAAT-AATTT
* *
59252889 AATTAAAATTATTTAA-ATAATAATTT
1 AATTAAAAATA-TTAATAAAATAATTT
59252915 AA
1 AA
59252917 AAATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAAAAATATTAATAAAATAATTT
Found at i:59253045 original size:24 final size:26
Alignment explanation
Indices: 59253009--59253058 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
59252999 AATTAAAAAT
*
59253009 ATTTAACTTTTACTAGTTTAT-TATA
1 ATTTAACTTTTACTAGTATATATATA
59253034 ATTTAA-TTTTACTAGTATATATATA
1 ATTTAACTTTTACTAGTATATATATA
59253059 TATATTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTTAACTTTTACTAGTATATATATA
Found at i:59253746 original size:28 final size:27
Alignment explanation
Indices: 59253676--59253746 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
59253666 ATAATTGATT
* * * *
59253676 TTAAATAAAAATATATTATTTAATGAA
1 TTAAATATAAATTTAATATATAATGAA
*
59253703 TT-AATATCAAAGTTAATATATAATCGAA
1 TTAAATAT-AAATTTAATATATAAT-GAA
59253731 TTAAATATAAATTTAA
1 TTAAATATAAATTTAA
59253747 AATACATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.11
27 14 0.40
28 12 0.34
29 5 0.14
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (27 bp):
TTAAATATAAATTTAATATATAATGAA
Found at i:59263413 original size:46 final size:45
Alignment explanation
Indices: 59263307--59263614 Score: 270
Period size: 37 Copynumber: 7.6 Consensus size: 45
59263297 CATATGACCT
*
59263307 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59263350 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59263396 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59263433 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59263470 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59263507 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* *
59263544 CTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
59263590 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
59263615 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 12, Indels: 25
0.87 0.04 0.09
Matches are distributed among these distances:
37 134 0.56
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.04
44 6 0.03
45 21 0.09
46 61 0.26
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59263434 original size:37 final size:37
Alignment explanation
Indices: 59263393--59263578 Score: 300
Period size: 37 Copynumber: 5.0 Consensus size: 37
59263383 GCTGAAGCTA
* *
59263393 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59263430 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
59263467 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59263504 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
59263541 CCACTTATCACTTTGTCACTTGATTAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
59263578 C
1 C
59263579 TAAAACTACC
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 141 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:59270351 original size:7 final size:7
Alignment explanation
Indices: 59270339--59270378 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
59270329 AAAAATAGGG
59270339 ATGAAAA
1 ATGAAAA
59270346 ATGAAAA
1 ATGAAAA
59270353 ATG-AAA
1 ATGAAAA
59270359 ATG-AAA
1 ATGAAAA
59270365 ATGAAAA
1 ATGAAAA
59270372 ATGAAAA
1 ATGAAAA
59270379 GTAATGACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:59270359 original size:6 final size:6
Alignment explanation
Indices: 59270343--59270378 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
59270333 ATAGGGATGA
59270343 AAAATG AAAAATG AAAATG AAAATG AAAAATG AAAA
1 AAAATG -AAAATG AAAATG AAAATG -AAAATG AAAA
59270379 GTAATGACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:59270359 original size:13 final size:13
Alignment explanation
Indices: 59270339--59270378 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
59270329 AAAAATAGGG
59270339 ATGAAAAATGAAAA
1 ATGAAAAATG-AAA
59270353 ATG-AAAATGAAA
1 ATGAAAAATGAAA
59270365 ATGAAAAATGAAA
1 ATGAAAAATGAAA
59270378 A
1 A
59270379 GTAATGACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 16 0.64
14 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:59271748 original size:90 final size:90
Alignment explanation
Indices: 59271601--59272155 Score: 517
Period size: 90 Copynumber: 6.3 Consensus size: 90
59271591 GAAGAGTTCT
* *
59271601 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTACCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
59271666 ACAGTGGAATAGACCGAAGAATTTC
66 ACAGTGGAATAGACCGAAGAATTTC
59271691 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
** *** **
59271756 ACAGTGG-AGCGAATTAA-AA-TGA
66 ACAGTGGAATAGACCGAAGAATTTC
* * * ** * * * * * * * *
59271778 AGGATCTTATCTCTCGGA-AGTTATAGTAGAGTAGATCGCATC-AG--GTCTTATCTTCTTGAGA
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
59271839 TTACAGTGGAATAAACCGAAGAATTTT
64 TTACAGTGGAATAGACCGAAGAATTTC
* *
59271866 AGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *** ** **
59271931 ACAATGGAGCGGA-TTAA-AA-TGA
66 ACAGTGGAATAGACCGAAGAATTTC
* ** * * * * * * *
59271953 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG--GTCTTATCTTCCTGAGA
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
59272014 TTACAGTGGAATAGATCGAAGAATTTC
64 TTACAGTGGAATAGACCGAAGAATTTC
* * *
59272041 AGATCTTATCTCTCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
59272106 ACAGTGGAATAGACCGAAGAATTTC
66 ACAGTGGAATAGACCGAAGAATTTC
* * *
59272131 AGGTCTTATCTTCTTGAGATTACAG
1 AGATCTTATCTCCCTGAGATTACAG
59272156 TGGAATAGAT
Statistics
Matches: 358, Mismatches: 89, Indels: 36
0.74 0.18 0.07
Matches are distributed among these distances:
85 46 0.13
86 6 0.02
87 73 0.20
88 73 0.20
89 7 0.02
90 153 0.43
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (90 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAATAGACCGAAGAATTTC
Found at i:59271848 original size:85 final size:85
Alignment explanation
Indices: 59271749--59272023 Score: 268
Period size: 85 Copynumber: 3.2 Consensus size: 85
59271739 CCTATCTCCC
* *
59271749 TGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATCTCTCGGAAGTTATAGTAGAGTAGAT
1 TGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
59271814 CGCATCAGGTCTTATCTTCT
66 CGCATCAGGTCTTATCTTCT
*** ** ** * *
59271834 TGAGATTACAGTGGAATAAACCGAAGAATTTTA-GATCTTATCTCCCTG-AGATTACAG-CGAAG
1 TGAGATTACAGTGGAGCGAA-TTAA-AA-TGAAGGATCTTATCTCTCTGAAG-TTACAGTAG-AG
* * * * * * *
59271896 CAGATTGAAGCTAGTAATCCTATCTCCT
61 TAGATCGCATC-AG--GTCTTATCTTCT
* *
59271924 TGAGATTACAATGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 TGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
*
59271989 CGCATCAGGTCTTATCTTCC
66 CGCATCAGGTCTTATCTTCT
59272009 TGAGATTACAGTGGA
1 TGAGATTACAGTGGA
59272024 ATAGATCGAA
Statistics
Matches: 141, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
85 39 0.28
86 5 0.04
87 33 0.23
88 35 0.25
89 5 0.04
90 24 0.17
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (85 bp):
TGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
CGCATCAGGTCTTATCTTCT
Found at i:59271900 original size:175 final size:175
Alignment explanation
Indices: 59271657--59272113 Score: 797
Period size: 175 Copynumber: 2.6 Consensus size: 175
59271647 ATCCTACCTC
59271657 CCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC
1 CCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC
59271722 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTA
66 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTA
*
59271787 TCTCTCGGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTT
131 TCTCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTT
* * * *
59271832 CTTGAGATTACAGTGGAATAAACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCGAAGC
1 CCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC
* * *
59271897 AGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAATGAAGGATCTTA
66 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTA
*
59271962 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTT
131 TCTCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTT
* * *
59272007 CCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCTCTAAGATTACAGCGGAGC
1 CCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC
*
59272072 AGATTGAAGCTAGTAATTCTATCTCCCTGAGATTACAGTGGA
66 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
59272114 ATAGACCGAA
Statistics
Matches: 263, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 263 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
CCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC
AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTA
TCTCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTT
Found at i:59272051 original size:46 final size:46
Alignment explanation
Indices: 59271601--59272575 Score: 366
Period size: 44 Copynumber: 22.1 Consensus size: 46
59271591 GAAGAGTTCT
* * * * *
59271601 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAAT-TTC
* * *
59271646 A-ATCCTACCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* ** * * *
59271691 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAAT-TTC
* ** * **
59271736 A-ATCCTATCTCCCTGAGATTACAGTGG-AGCGAAT-TAA-AA-TGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAG-ATCGAAGAATTTC
* * * * * *
59271778 AGGATCTTATCTCTCGGA-AGTTATAGTAGAGTAGATC---GCA--TC
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAATAGATCGAAGAATTTC
* * * * * *
59271820 AGGTCTTATCTTCTTGAGATTACAGTGGAATAAACCGAAGAATTTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* * * * *
59271866 AGATCTTATCTCCCTGAGATTACAG-CGAAGCAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAA-TAGATCGAAGAAT-TTC
* * * *** * **
59271911 A-ATCCTATCTCCTTGAGATTACAATGGAGCGGAT-TAA-AA-TGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* * * *
59271953 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--TC
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAATAGATCGAAGAATTTC
* *
59271995 AGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* * * ** * * *
59272041 AGATCTTATCTCTCTAAGATTACAGCGGAGCAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAAT-TTC
*
59272086 A-AT-TCTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTC
1 AGATCT-TATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* * * *
59272131 AGGTCTTATCTTCTTGAGATTACAGTGGAATAGATCGAAGAATTTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* * * ** * * *
59272177 AGATCTTATCTCCCTAAGATTATAGCGGAGCAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAAT-TTC
* ** * **
59272222 A-ATCCTATCTCCCTGAGATTACAGTGG-AGCGAAT-TAA-AA-TGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAG-ATCGAAGAATTTC
* * * * * *
59272264 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTGGAT---TGCA--TC
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAATAGATCGAAGAATTTC
* *
59272306 TGGTCTTATCTCCCTGAGATTACAGTGGAATAGAT---AGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
* ** * * *
59272349 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAAT-TTC
* * * **
59272394 A-ATCCTATCTCCCTGAGATTACAGT-GAAGCAGAT-TAA-AA-TAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAA-TAGATCGAAGAATTTC
* * *
59272436 ATGATCTTATCTCTCCTGA-AGTTACAGTAGAGTAGATC---GCA--TC
1 A-GATCTTATCTC-CCTGAGA-TTACAGTGGAATAGATCGAAGAATTTC
* * *
59272479 AGGTCTTATCTCCCTGAAATTACAGTGGAATAGA-CTGAAGAATTCC
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATC-GAAGAATTTC
* *
59272525 AGATCTTATCTCCCTGAGATTACAATGGAATAGATCGAAGAATTAC
1 AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
59272571 AGATC
1 AGATC
59272576 CTACTTCACT
Statistics
Matches: 677, Mismatches: 178, Indels: 149
0.67 0.18 0.15
Matches are distributed among these distances:
40 1 0.00
41 98 0.14
42 20 0.03
43 52 0.08
44 249 0.37
45 38 0.06
46 217 0.32
47 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (46 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATTTC
Found at i:59272161 original size:136 final size:136
Alignment explanation
Indices: 59271993--59272249 Score: 469
Period size: 136 Copynumber: 1.9 Consensus size: 136
59271983 GTAGATCGCA
*
59271993 TCAGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCTCTAA
1 TCAGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCCCTAA
*
59272058 GATTACAGCGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGATTACAGTGGAATAGACCGA
66 GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAATAGACCGA
59272123 AGAATT
131 AGAATT
* *
59272129 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAGATCGAAGAATTTTAGATCTTATCTCCCTAA
1 TCAGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCCCTAA
*
59272194 GATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
66 GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
59272250 GCGAATTAAA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 116 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (136 bp):
TCAGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCCCTAA
GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAATAGACCGA
AGAATT
Found at i:59272178 original size:311 final size:308
Alignment explanation
Indices: 59271818--59272419 Score: 1042
Period size: 311 Copynumber: 1.9 Consensus size: 308
59271808 GTAGATCGCA
*
59271818 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAAACCGAAGAATTTTAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAAACCGAAGAATTTTAGATCTTATCTCCCTAA
* *
59271883 GATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAA
66 GATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAA
*
59271948 AATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAG
131 AATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*
59272013 ATTACAGTGGAATAGATCGAAGAATTTCAGATCTTATCTCTCTAAGATTACAGCGGAGCAGATTG
196 ATTACAGTGGAATAGAT---AGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTG
*
59272078 AAGCTAGTAATTCTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
258 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
* *
59272129 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAGATCGAAGAATTTTAGATCTTATCTCCCTAA
1 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAAACCGAAGAATTTTAGATCTTATCTCCCTAA
* * *
59272194 GATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAA
66 GATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAA
* * *
59272259 AATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATTGCATCTGGTCTTATCTCCCTGAG
131 AATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*
59272324 ATTACAGTGGAATAGATAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
196 ATTACAGTGGAATAGATAGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAG
59272389 CTAGTAATCCTATCTCCCTGAGATTACAGTG
261 CTAGTAATCCTATCTCCCTGAGATTACAGTG
59272420 AAGCAGATTA
Statistics
Matches: 276, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
308 76 0.28
311 200 0.72
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (308 bp):
TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAAACCGAAGAATTTTAGATCTTATCTCCCTAA
GATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAA
AATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
ATTACAGTGGAATAGATAGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAG
CTAGTAATCCTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
Found at i:59272380 original size:172 final size:174
Alignment explanation
Indices: 59272129--59272548 Score: 657
Period size: 172 Copynumber: 2.4 Consensus size: 174
59272119 CCGAAGAATT
* * * *
59272129 TCAGGTCTTATCTTCTTGAGATTACAGTGGAATAGATCGAAGAATTTTAGATCTTATCTCCCTAA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGAT--AAGAATTTCAGATCTTATCTCCCTGA
* *
59272194 GATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC-GAATTA
64 GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGAAGCAG-ATTA
* * *
59272258 AAATGAAGGATCTTATCTCT-CTGAAGTTACAGTAGAGTGGATTGCA
128 AAATAAAGGATCTTATCTCTCCTGAAGTTACAGTAGAGTAGATCGCA
*
59272304 TCTGGTCTTATCTCCCTGAGATTACAGTGGAATAGAT-AGAATTTCAGATCTTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGATAAGAATTTCAGATCTTATCTCCCTGAGA
59272368 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAA
66 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAA
*
59272433 TAAATGATCTTATCTCTCCTGAAGTTACAGTAGAGTAGATCGCA
131 TAAAGGATCTTATCTCTCCTGAAGTTACAGTAGAGTAGATCGCA
* *
59272477 TCAGGTCTTATCTCCCTGAAATTACAGTGGAATAGACTGAAGAATTCCAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGA-T-AAGAATTTCAGATCTTATCTCCCTGA
59272542 GATTACA
64 GATTACA
59272549 ATGGAATAGA
Statistics
Matches: 226, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
172 101 0.45
173 59 0.26
174 1 0.00
175 34 0.15
176 31 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (174 bp):
TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGATAAGAATTTCAGATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAA
TAAAGGATCTTATCTCTCCTGAAGTTACAGTAGAGTAGATCGCA
Found at i:59272599 original size:486 final size:484
Alignment explanation
Indices: 59271659--59272564 Score: 1449
Period size: 486 Copynumber: 1.9 Consensus size: 484
59271649 CCTACCTCCC
*
59271659 TGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAG
1 TGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAG
59271724 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATC
66 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATC
* * *
59271789 TCTCGGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTTCTTGAGATTACAGTGGAATAAA
131 TCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAAT-AA
*
59271854 CCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTAT
195 -CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTAT
* * * *
59271919 CTCCTTGAGATTACAATGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
259 CTCCCTGAGATTACAATGAAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
* * *
59271984 TAGATCGCATCAGGTCTTATCTTCCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGATCTTA
324 TAGATCGCATCAGGTCTTATCTCCCTGAAATTACAGTGGAATAGATCGAAGAATTCCAGATCTTA
* * * * * * * *
59272049 TCTCTCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGATTACAGTGGA
389 TCTCCCTAAGATTACAACGGAACAGATCGAAGCTAGCAATCCTATCTCACTGAGAGTACAGTGGA
59272114 ATAGACCGAAGAATTTCAGGTCTTATCTTCT
454 ATAGACCGAAGAATTTCAGGTCTTATCTTCT
* * *
59272145 TGAGATTACAGTGGAATAGATCGAAGAATTTTAGATCTTATCTCCCTAAGATTATAGCGGAGCAG
1 TGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAG
59272210 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATC
66 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATC
* * * *
59272275 TCTCTGAAGTTACAGTAGAGTGGATTGCATCTGGTCTTATCTCCCTGAGATTACAGTGGAAT-A-
131 TCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAAC
*
59272338 GATAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
196 GA-AGAATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATC
* *
59272403 TCCCTGAGATTACAGTGAAGCAGATTAAAATAAATGATCTTATCTCTCCTGAAGTTACAGTAGAG
260 TCCCTGAGATTACAATGAAGCAGATTAAAATAAAGGATCTTATCTCT-CTGAAGTTACAGTAGAG
59272468 TAGATCGCATCAGGTCTTATCTCCCTGAAATTACAGTGGAATAGA-CTGAAGAATTCCAGATCTT
324 TAGATCGCATCAGGTCTTATCTCCCTGAAATTACAGTGGAATAGATC-GAAGAATTCCAGATCTT
* * *
59272532 ATCTCCCTGAGATTACAATGGAATAGATCGAAG
388 ATCTCCCTAAGATTACAACGGAACAGATCGAAG
59272565 AATTACAGAT
Statistics
Matches: 388, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
482 2 0.01
483 102 0.26
484 103 0.27
486 181 0.47
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (484 bp):
TGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGATTACAGCGGAGCAG
ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATGAAGGATCTTATC
TCTCGGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAAC
GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCT
CCCTGAGATTACAATGAAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
GATCGCATCAGGTCTTATCTCCCTGAAATTACAGTGGAATAGATCGAAGAATTCCAGATCTTATC
TCCCTAAGATTACAACGGAACAGATCGAAGCTAGCAATCCTATCTCACTGAGAGTACAGTGGAAT
AGACCGAAGAATTTCAGGTCTTATCTTCT
Found at i:59272677 original size:50 final size:49
Alignment explanation
Indices: 59272602--59273040 Score: 259
Period size: 50 Copynumber: 8.8 Consensus size: 49
59272592 ACAGTGGAGC
* * * *
59272602 AGATTAAAGACACATCGGTGAATCTTGCTTCTCCGATATTGCAGTCAAAA
1 AGATTAAAGCCACATCGGCGAATCTTGCTTC-CCGACATTGCAGTGAAAA
* * * * * **
59272652 AGATTAAAGCCACACCGGCGAATCTTACTTCCCTGGCGA-TGCAATGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCCC-GAC-ATTGCAGTGAAAA
* * * *
59272702 AGATTAAAGCCATATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTGCTT-CCCGACATTGCAGTGAAAA
* * * * * ** * **
59272752 AGATTAAAGCCACAGCGGCAAATCCTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCCC-GACATTGCAGTGAAAA
* * * *
59272802 AGATTAAAGCCACATTGGTGAATCTCGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCC-CGACATTGCAGTGAAAA
* * * * * * * *
59272852 AGATTAAAGCCCCAACGGCGAATCCTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCCC-GACATTGCAGTGAAAA
* * ** * * *
59272902 AGATTGAAGCCACATTGGTAAATCTCGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTGCTT-CCCGACATTGCAGTGAAAA
* * * * * ** * *
59272952 AGATTAAAGCCCCAGCGGCGAATCGTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCCC-GACATTGCAGTGAAAA
* * * * *
59273002 AGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACAT
1 AGATTAAAGCCACATCGGCGAATCTTGCTTCC-CGACAT
59273041 CACAGTTAAA
Statistics
Matches: 277, Mismatches: 102, Indels: 20
0.69 0.26 0.05
Matches are distributed among these distances:
49 10 0.04
50 258 0.93
51 9 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (49 bp):
AGATTAAAGCCACATCGGCGAATCTTGCTTCCCGACATTGCAGTGAAAA
Found at i:59272752 original size:100 final size:100
Alignment explanation
Indices: 59272593--59273060 Score: 598
Period size: 100 Copynumber: 4.7 Consensus size: 100
59272583 ACTGATGGTA
* * * * *
59272593 CAGTGGAGCAGATTAAAGACACATCGGTGAATCTTGCTTCTCCGATATTGCAGTCAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
59272658 AAGCCACACCGGCGAATCTTACTTCCCTGGCGATG
66 AAGCCACAGCGGCGAATCCTACTTCCCTGGCGATG
* *
59272693 CAATGGAGCAGATTAAAGCCATATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
59272758 AAGCCACAGCGGCAAATCCTACTTCCCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCCTGGCGATG
* *
59272793 CAGTGGAGCAGATTAAAGCCACATTGGTGAATCTCGCTTCCTCGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
59272858 AAGCCCCAACGGCGAATCCTACTTCCCTGGC-AGTG
66 AAGCCACAGCGGCGAATCCTACTTCCCTGGCGA-TG
* * * * *
59272893 CAGTGGAACAGATTGAAGCCACATTGGTAAATCTCGCTTCCCCGACATTACAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * *
59272958 AAGCCCCAGCGGCGAATCGTACTTCCCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCCTGGCGATG
* * * * * * ** * **
59272993 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATCACAGTTAAACAA-ATT
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAA-AAGATT
59273057 AAAG
65 AAAG
59273061 TTATGGGTTA
Statistics
Matches: 328, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
100 326 0.99
101 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (100 bp):
CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
AAGCCACAGCGGCGAATCCTACTTCCCTGGCGATG
Found at i:59273649 original size:17 final size:18
Alignment explanation
Indices: 59273627--59273664 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
59273617 AAACAACAAG
*
59273627 AGAAAAGCAG-AGAAAAA
1 AGAAAAACAGAAGAAAAA
59273644 AGAAAAACAGAAAGAAAAA
1 AGAAAAACAG-AAGAAAAA
59273663 AG
1 AG
59273665 GAATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (18 bp):
AGAAAAACAGAAGAAAAA
Found at i:59274789 original size:27 final size:26
Alignment explanation
Indices: 59274759--59274820 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
59274749 ATAAGACTAA
*
59274759 TTATTTTAACTTACTTTATATATTATT
1 TTATTTTAACTTACTTTACATATTA-T
* *
59274786 TTATTTTAAGTTATTTTACATATTAT
1 TTATTTTAACTTACTTTACATATTAT
59274812 TTATTTTAA
1 TTATTTTAA
59274821 AATTAACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATTTTAACTTACTTTACATATTAT
Found at i:59291275 original size:38 final size:36
Alignment explanation
Indices: 59291214--59291291 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
59291204 ATACCCATGA
* *
59291214 TTTAACTTTAAAAATTTATTTTTATACAATAATAATAT
1 TTTAACTTTAAAAATATATTTTTACA-AATAA-AATAT
* *
59291252 TTTAA-TTTTAAAATATATATTTTACAAATTAAATAT
1 TTTAACTTTAAAAATATAT-TTTTACAAATAAAATAT
59291288 TTTA
1 TTTA
59291292 TTCACATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 9 0.26
37 15 0.43
38 11 0.31
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (36 bp):
TTTAACTTTAAAAATATATTTTTACAAATAAAATAT
Found at i:59301237 original size:384 final size:383
Alignment explanation
Indices: 59300522--59301275 Score: 1080
Period size: 384 Copynumber: 2.0 Consensus size: 383
59300512 AAACAAAGTT
*
59300522 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCTACATAGGTATGTTCAATATTCT
1 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCCACATAGGTATGTTCAATATTCT
* * * *
59300587 TTTTTCTAATTTTTAAAATATATTTGGGGAACCGTATCCTCGTATCCATTTTTCAATGTGTTGGA
66 ATTTTCTAATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTTGGA
** * * * *
59300652 TATGGGTGTTGGGCCCAACACACTTCAAAGAAACTGAAAAGTCTGAGCAACATAGCGAACTACAA
131 TATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAACTCTGAGCAACATAGCGAACTACAA
* * *
59300717 CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACGGCACCATTGACTTCTCATGGAAC
196 CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACAGCAACATTGACTTCTCATGAAAC
* * *
59300782 ATAGGAGAAAAAGAATAGTGAAAGAGAAAGTACATAATTAATCAAATAATTAGCAATTACATATC
261 ATAAGAGAAAAAGAATAGT-AAAGAGAAAGGACATAATTAATAAAATAATTAGCAATTACATATC
*
59300847 AGTTTCTTCTTTTCTTTGTACTGTGAAAAGCCCATGCAGACAAAGCTTATATCCACATC
325 AGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAGCTTATATCCACATC
*
59300906 TAAACCAGGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCCACATAGGTATGTTC-A-A-T-T
1 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCCACATAGGTATGTTCAATATTCT
* * *
59300967 ATTTTCTAAATTTTT-AAATATATTTGGGGAACCATATGCTTGTATCCATGTCTGAATGTGTTGG
66 ATTTTCT-AATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTTGG
*
59301031 ATATGGGTGCAGGACAC-A-ACAGTTCAAAGAAAATGAAAACT-TGGAGCAACATAGC-AAGCTA
130 ATATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAACTCT-GAGCAACATAGCGAA-CTA
*
59301092 CAACACCAGTTATGACATCACATAAATGAAGTTGAAATCTAAAACAGCAACATTGACTTCTCATG
193 CAACACCAGTTATGACATCACATAAACGAAGTTG-AATCTAAAACAGCAACATTGACTTCTCATG
*
59301157 AAACATAAGAGAACAAA-AATAGT-AAGAGAAAGGATATAATTTTAATAAAATAATTAGCTATCA
257 AAACATAAGAGAA-AAAGAATAGTAAAGAGAAAGGACATAA--TTAATAAAATAATTAGC-A--A
*
59301220 TTTTACATATTAGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAG
316 --TTACATATCAGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAG
59301276 TAGAAAGCTT
Statistics
Matches: 332, Mismatches: 26, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
377 17 0.05
378 68 0.20
379 62 0.19
380 67 0.20
381 8 0.02
382 2 0.01
383 1 0.00
384 107 0.32
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (383 bp):
TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCCACATAGGTATGTTCAATATTCT
ATTTTCTAATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTTGGA
TATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAACTCTGAGCAACATAGCGAACTACAA
CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACAGCAACATTGACTTCTCATGAAAC
ATAAGAGAAAAAGAATAGTAAAGAGAAAGGACATAATTAATAAAATAATTAGCAATTACATATCA
GTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAGCTTATATCCACATC
Found at i:59304068 original size:62 final size:63
Alignment explanation
Indices: 59303970--59304095 Score: 191
Period size: 62 Copynumber: 2.0 Consensus size: 63
59303960 ATATTATTGT
* * * * *
59303970 ACTTTACTTTATTAAAGTATGACTGAGTTATGGTTTACTAGATGAGTCATCGTCC-TTTATAA
1 ACTTTACTTTATTAAAGTACGACTGAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAA
*
59304032 ACTTTACTTTATTAAAGTACGAGTGAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAA
1 ACTTTACTTTATTAAAGTACGACTGAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAA
59304095 A
1 A
59304096 TCATTGAACT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
62 49 0.86
63 8 0.14
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (63 bp):
ACTTTACTTTATTAAAGTACGACTGAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAA
Found at i:59304807 original size:17 final size:17
Alignment explanation
Indices: 59304785--59304819 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59304775 CACGTCATAT
59304785 TTACACTTTCATTTTGG
1 TTACACTTTCATTTTGG
59304802 TTACACTTTCATTTTGG
1 TTACACTTTCATTTTGG
59304819 T
1 T
59304820 CACCCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (17 bp):
TTACACTTTCATTTTGG
Found at i:59307786 original size:21 final size:21
Alignment explanation
Indices: 59307760--59307802 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59307750 GGAATGAGGC
59307760 TTCAAGACAGGTAGAAACCTA
1 TTCAAGACAGGTAGAAACCTA
59307781 TTCAAGACAGGTAGAAACCTA
1 TTCAAGACAGGTAGAAACCTA
59307802 T
1 T
59307803 CTTATCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
TTCAAGACAGGTAGAAACCTA
Found at i:59311766 original size:19 final size:19
Alignment explanation
Indices: 59311708--59311767 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
59311698 AGAAACTAAT
*
59311708 AATAATTAAGAAAATCATAA
1 AATATTTAA-AAAATCATAA
* * **
59311728 AACATTCAAAAAAGGA-AA
1 AATATTTAAAAAATCATAA
59311746 AATATTTAAAAAATCATAA
1 AATATTTAAAAAATCATAA
59311765 AAT
1 AAT
59311768 TAAGAGATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
18 14 0.47
19 10 0.33
20 6 0.20
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (19 bp):
AATATTTAAAAAATCATAA
Found at i:59319407 original size:15 final size:15
Alignment explanation
Indices: 59319387--59319416 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59319377 AAATTTATCA
*
59319387 ATTTTTTAAAAAAAT
1 ATTTTTAAAAAAAAT
59319402 ATTTTTAAAAAAAAT
1 ATTTTTAAAAAAAAT
59319417 CACCATTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTTTAAAAAAAAT
Found at i:59320568 original size:7 final size:7
Alignment explanation
Indices: 59320558--59320587 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
59320548 TTTAAATGTC
59320558 TTTTATT
1 TTTTATT
59320565 TTTTATT
1 TTTTATT
59320572 TTATTATT
1 TT-TTATT
59320580 TTTTATT
1 TTTTATT
59320587 T
1 T
59320588 GGGCAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:59330322 original size:107 final size:109
Alignment explanation
Indices: 59330176--59330409 Score: 332
Period size: 109 Copynumber: 2.2 Consensus size: 109
59330166 TTCCTTTTGG
* * *
59330176 CATATTCTCAACATAAAATGCTCATTTATATTTACATTTACTTTTCCTA-TA-ATATATTTGTGG
1 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
** * *
59330239 AAAGTAATGGCATTTGGTCATTGAAATTAGTGGTAAATAGTGTT
66 AAAGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
59330283 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
1 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
* * * *
59330348 AAGGTAGCCGCATTTGGTGATTCAACTTAGTGGTAAATAATGTT
66 AAAGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
59330392 CATAGTT-TTAAAA-AAAAT
1 CATA-TTCTTAAAATAAAAT
59330410 AATATTATTA
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
107 46 0.41
108 7 0.06
109 58 0.51
110 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (109 bp):
CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
AAAGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
Found at i:59337324 original size:3 final size:3
Alignment explanation
Indices: 59337316--59337341 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59337306 CAAAATTTAA
59337316 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
59337342 ACATACACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59342059 original size:29 final size:30
Alignment explanation
Indices: 59342019--59342077 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
59342009 TCCCATTAAG
*
59342019 TTTTAGGAG-TTTAATTGAA-ATTTTAAAAA
1 TTTTAGGAGTTTTAA-TGAATATTCTAAAAA
59342048 TTTTAAGG-GTTTTAATGAATATTCTAAAAA
1 TTTT-AGGAGTTTTAATGAATATTCTAAAAA
59342078 AATTTGACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (30 bp):
TTTTAGGAGTTTTAATGAATATTCTAAAAA
Found at i:59342937 original size:22 final size:22
Alignment explanation
Indices: 59342886--59342939 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
59342876 TAAAAAGATT
*
59342886 TTTTTCCCTGTAAAAATCTAAG
1 TTTTTCCCTATAAAAATCTAAG
* *
59342908 TTAATTCCCTAT-AAAACCTCAAG
1 TT-TTTCCCTATAAAAATCT-AAG
59342931 TTTTTCCCT
1 TTTTTCCCT
59342940 TTTACTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.41
Consensus pattern (22 bp):
TTTTTCCCTATAAAAATCTAAG
Found at i:59342968 original size:19 final size:19
Alignment explanation
Indices: 59342944--59342981 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59342934 TTCCCTTTTA
59342944 CTAAAAAATATAATTAATT
1 CTAAAAAATATAATTAATT
59342963 CTAAAAAATATAATTAATT
1 CTAAAAAATATAATTAATT
59342982 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
CTAAAAAATATAATTAATT
Found at i:59343110 original size:30 final size:30
Alignment explanation
Indices: 59343076--59343145 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
59343066 AGGTACAACC
* *
59343076 AAAATAAAAACTTATTAAAGTTAGGTGACT
1 AAAATAAAAACTTATTAAAGTTAAGTAACT
*
59343106 AAAATGAAAACTTATTAAAGTTAAGTAACT
1 AAAATAAAAACTTATTAAAGTTAAGTAACT
59343136 AAAATAAAAA
1 AAAATAAAAA
59343146 TTGTTGTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAATAAAAACTTATTAAAGTTAAGTAACT
Found at i:59344243 original size:42 final size:40
Alignment explanation
Indices: 59344181--59344305 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 40
59344171 CCTCCCCCTC
* *
59344181 ATTATCGTCCTGAGCAACACTTCGGTCACGGTTCCCTTGAG
1 ATTATC-TCTTGAGCAACACTTCGATCACGGTTCCCTTGAG
* * *
59344222 AGTTATCATCTTGAGTAACACTTTGATCGCGGTTCCCTTGAG
1 A-TTATC-TCTTGAGCAACACTTCGATCACGGTTCCCTTGAG
* * * * *
59344264 AAT-TCTCTGGAGCAACACCTCGCTCACGGTTCCCTCGAG
1 ATTATCTCTTGAGCAACACTTCGATCACGGTTCCCTTGAG
59344303 ATT
1 ATT
59344306 TTCGGAAATA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 29 0.43
40 2 0.03
41 2 0.03
42 35 0.51
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
ATTATCTCTTGAGCAACACTTCGATCACGGTTCCCTTGAG
Found at i:59344294 original size:39 final size:42
Alignment explanation
Indices: 59344192--59344303 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 42
59344182 TTATCGTCCT
* * *
59344192 GAGCAACACTTCGGTCACGGTTCCCTTGAGAGTTATCATCTT
1 GAGCAACACTTCGATCACGGTTCCCTTGAGAGATATCATCTG
* * *
59344234 GAGTAACACTTTGATCGCGGTTCCCTTGAGA-AT-TC-TCTG
1 GAGCAACACTTCGATCACGGTTCCCTTGAGAGATATCATCTG
* * *
59344273 GAGCAACACCTCGCTCACGGTTCCCTCGAGA
1 GAGCAACACTTCGATCACGGTTCCCTTGAGA
59344304 TTTTCGGAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 28 0.48
40 2 0.03
41 1 0.02
42 27 0.47
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (42 bp):
GAGCAACACTTCGATCACGGTTCCCTTGAGAGATATCATCTG
Found at i:59344632 original size:22 final size:22
Alignment explanation
Indices: 59344604--59344650 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
59344594 ACACCATCAT
59344604 TCATAGGTAACTCATTCCAAAA
1 TCATAGGTAACTCATTCCAAAA
59344626 TCATAGGTAACTCATTCCAAAA
1 TCATAGGTAACTCATTCCAAAA
59344648 TCA
1 TCA
59344651 AATTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TCATAGGTAACTCATTCCAAAA
Found at i:59346500 original size:36 final size:36
Alignment explanation
Indices: 59346448--59346646 Score: 131
Period size: 36 Copynumber: 5.6 Consensus size: 36
59346438 TGAACATTCG
*
59346448 GGTGACTTTTGC-TGGTCCCATGAATTATTCATTGTA
1 GGTGACTTTT-CTTGGTCCCAAGAATTATTCATTGTA
*
59346484 GGTGACTTTTCTTGGTCCCAAGAACTA-T--TTGCT-
1 GGTGACTTTTCTTGGTCCCAAGAATTATTCATTG-TA
* * * ****
59346517 GGTGGCTTTTGTTGATCCCAAGAATTATTTGCCGTA
1 GGTGACTTTTCTTGGTCCCAAGAATTATTCATTGTA
* * * * * ** *
59346553 GATGATTTTTGC-CGATCCCAAGAACTATTTGTTGCA
1 GGTGACTTTT-CTTGGTCCCAAGAATTATTCATTGTA
* * *
59346589 GGTGACTTTTGTTGGTCCCAAGCATTATTCATTGTC
1 GGTGACTTTTCTTGGTCCCAAGAATTATTCATTGTA
* *
59346625 TGTGACTTTTGTTGGTCCCAAG
1 GGTGACTTTTCTTGGTCCCAAG
59346647 CACTATTCTT
Statistics
Matches: 126, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
33 26 0.21
34 2 0.02
35 3 0.02
36 95 0.75
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (36 bp):
GGTGACTTTTCTTGGTCCCAAGAATTATTCATTGTA
Found at i:59347402 original size:153 final size:153
Alignment explanation
Indices: 59347219--59347508 Score: 463
Period size: 153 Copynumber: 1.9 Consensus size: 153
59347209 TTTTGGAGAG
* * * *
59347219 ACATCTTGTGATTTAGATTTGCTCATCCCCCAATCAGACCACTCGCTTTGCTTCTTTGAACCGGA
1 ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACCGGA
* * *
59347284 TGCAGCTGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATGCAGACAAGGCATCCCAAC
66 TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
59347349 CAACATCCACTTTTGGAGAGACA
131 CAACATCCACTTTTGGAGAGACA
* * * *
59347372 ACATCTTGTGATTTAGATTTGCTCGCCCCCCAATCAGAACACTCATTTTGCTTCTTCGAACTGGT
1 ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACCGGA
* *
59347437 TGCAGCAGCTGCAAATTTGTCACCATCCTCTGCATTTTTATTCCATCCAGACAAAGCATCCCAAC
66 TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
59347502 CAACATC
131 CAACATC
59347509 TTGTGAGTTA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
153 124 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (153 bp):
ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACCGGA
TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
CAACATCCACTTTTGGAGAGACA
Found at i:59347552 original size:132 final size:129
Alignment explanation
Indices: 59347370--59347638 Score: 394
Period size: 132 Copynumber: 2.1 Consensus size: 129
59347360 TTTGGAGAGA
* * * *
59347370 CAACATCTTGTGATTTAGATTTGCTCGCCCCCCAATCAGAACACTCATTTTGCTTCTTCGAACTG
1 CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
* * * *
59347435 GTTGCAGCAGCTGCAAATTTGTCACCATCCTCTGCATTTTTATTCCATCCAGACAAAGCATCCCA
66 GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAG---AAGCATCCCA
59347500 AC
128 AC
* *
59347502 CAACATCTTGTGAGTTAGATTTGCTTGCACCCCAACCAGACCACTCATTTTGCTTCTCCGAACTG
1 CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
* * *
59347567 GTCGTAGCTGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGATGCATCCCAAC
66 GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGAAGCATCCCAAC
59347631 CAACATCT
1 CAACATCT
59347639 GACACCTTGT
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
129 19 0.15
132 105 0.85
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (129 bp):
CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGAAGCATCCCAAC
Found at i:59359610 original size:18 final size:19
Alignment explanation
Indices: 59359587--59359622 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59359577 TATTTAATAA
59359587 TATTTTTATC-TCAAAAAG
1 TATTTTTATCTTCAAAAAG
*
59359605 TATTTTTTTCTTCAAAAA
1 TATTTTTATCTTCAAAAA
59359623 AATACTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.50
Consensus pattern (19 bp):
TATTTTTATCTTCAAAAAG
Found at i:59361725 original size:22 final size:22
Alignment explanation
Indices: 59361700--59361748 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
59361690 AAAAAGGAAA
* *
59361700 TAGCAAGAAAATAGTAAAAAAG
1 TAGCAAGAAAACAATAAAAAAG
59361722 TAGCAAGAAAACAATAAAAAAG
1 TAGCAAGAAAACAATAAAAAAG
59361744 TAGCA
1 TAGCA
59361749 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.12
Consensus pattern (22 bp):
TAGCAAGAAAACAATAAAAAAG
Found at i:59373052 original size:26 final size:26
Alignment explanation
Indices: 59373007--59373087 Score: 123
Period size: 25 Copynumber: 3.2 Consensus size: 26
59372997 AAAGTATTTT
*
59373007 AAAAA-TATTTTAAATTTTAAAAAATA
1 AAAAAGTATTTTAAA-ATTAAAAAATA
59373033 AAAAAGTATTTTAAAATT-AAAAATA
1 AAAAAGTATTTTAAAATTAAAAAATA
59373058 AAAAAGTATTTTAAAA-TAAAAAATA
1 AAAAAGTATTTTAAAATTAAAAAATA
59373083 AAAAA
1 AAAAA
59373088 ATAAATATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
24 1 0.02
25 35 0.67
26 7 0.13
27 9 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAAGTATTTTAAAATTAAAAAATA
Found at i:59373073 original size:19 final size:19
Alignment explanation
Indices: 59372987--59373055 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
59372977 TAAAAATAAA
59372987 AAAAATTAAAAAAGTATTTT
1 AAAAA-TAAAAAAGTATTTT
** *
59373007 AAAAATATTTTAAA-T-TTTA
1 AAAAATA--AAAAAGTATTTT
59373026 AAAAATAAAAAAGTATTTT
1 AAAAATAAAAAAGTATTTT
*
59373045 AAAATTAAAAA
1 AAAAATAAAAA
59373056 TAAAAAAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 25 0.66
20 6 0.16
21 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATAAAAAAGTATTTT
Found at i:59380665 original size:12 final size:12
Alignment explanation
Indices: 59380625--59380674 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
59380615 ATCAATTGTT
*
59380625 TATATGTATATG
1 TATATGTATATA
*
59380637 TATATGTATATG
1 TATATGTATATA
59380649 TATATGTATATA
1 TATATGTATATA
* *
59380661 CATATATATATA
1 TATATGTATATA
59380673 TA
1 TA
59380675 AGTTAATGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (12 bp):
TATATGTATATA
Found at i:59380665 original size:18 final size:18
Alignment explanation
Indices: 59380626--59380671 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
59380616 TCAATTGTTT
**
59380626 ATATGTATATGTATATGT
1 ATATGTATATGTATATAC
59380644 ATATGTATATGTATATAC
1 ATATGTATATGTATATAC
*
59380662 ATATATATAT
1 ATATGTATAT
59380672 ATAAGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (18 bp):
ATATGTATATGTATATAC
Found at i:59380674 original size:6 final size:6
Alignment explanation
Indices: 59380625--59380659 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
59380615 ATCAATTGTT
59380625 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
59380660 ACATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:59384386 original size:17 final size:17
Alignment explanation
Indices: 59384364--59384401 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
59384354 AAAAGTAAGT
59384364 ATACAGGCAACAGACTC
1 ATACAGGCAACAGACTC
*
59384381 ATACAGGCAAGAGACTC
1 ATACAGGCAACAGACTC
59384398 ATAC
1 ATAC
59384402 TTAAATACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.13
Consensus pattern (17 bp):
ATACAGGCAACAGACTC
Found at i:59389657 original size:17 final size:18
Alignment explanation
Indices: 59389625--59389658 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59389615 GATTTTAATG
*
59389625 TATTTTCATGTTATGTTA
1 TATTTTCATATTATGTTA
59389643 TATTTT-ATATTATGTT
1 TATTTTCATATTATGTT
59389659 TTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.65
Consensus pattern (18 bp):
TATTTTCATATTATGTTA
Found at i:59391014 original size:19 final size:18
Alignment explanation
Indices: 59390983--59391018 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59390973 AAAAAAAAAC
59390983 AAATATCAACAGAAGTAG
1 AAATATCAACAGAAGTAG
*
59391001 AAATGATCACCAGAAGTA
1 AAAT-ATCAACAGAAGTA
59391019 ATTTTGGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (18 bp):
AAATATCAACAGAAGTAG
Found at i:59398033 original size:18 final size:19
Alignment explanation
Indices: 59397997--59398040 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
59397987 TATATTTATA
*
59397997 ATTAATAAAATCATGTTTTT
1 ATTAA-AAAAACATGTTTTT
59398017 ATTAAAAAAACAT-TTTTT
1 ATTAAAAAAACATGTTTTT
*
59398035 CTTAAA
1 ATTAAA
59398041 TGAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTAAAAAAACATGTTTTT
Found at i:59399069 original size:22 final size:22
Alignment explanation
Indices: 59399044--59399086 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59399034 TTTTTAAAAA
59399044 AATATTT-ATATTATATTATTTT
1 AATATTTAATATT-TATTATTTT
*
59399066 AATATTTAATATTTTTTATTT
1 AATATTTAATATTTATTATTT
59399087 ATCGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
AATATTTAATATTTATTATTTT
Found at i:59406447 original size:15 final size:14
Alignment explanation
Indices: 59406427--59406467 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
59406417 AATTCGAAAG
59406427 AAAAAAAATAAAGAA
1 AAAAAAAATAAA-AA
*
59406442 AAAAAAACTAAAAA
1 AAAAAAAATAAAAA
*
59406456 AAAGAAAATAAA
1 AAAAAAAATAAA
59406468 TATACCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.85, C:0.02, G:0.05, T:0.07
Consensus pattern (14 bp):
AAAAAAAATAAAAA
Found at i:59409357 original size:16 final size:17
Alignment explanation
Indices: 59409328--59409360 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59409318 CTCAAAAAAA
59409328 TAACACTAAAATTTATT
1 TAACACTAAAATTTATT
*
59409345 TAAC-CTAAGATTTATT
1 TAACACTAAAATTTATT
59409361 CTTTGCTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TAACACTAAAATTTATT
Found at i:59410594 original size:15 final size:15
Alignment explanation
Indices: 59410551--59410597 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
59410541 AAGTTGTGGA
*
59410551 TTTAGTCTCTGTA-T
1 TTTAGTCTTTGTATT
*
59410565 TTTAAT-TTTGTTATT
1 TTTAGTCTTTG-TATT
59410580 TTTAGTCTTTGTATT
1 TTTAGTCTTTGTATT
59410595 TTT
1 TTT
59410598 TAAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 13 0.48
16 4 0.15
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (15 bp):
TTTAGTCTTTGTATT
Found at i:59413429 original size:23 final size:23
Alignment explanation
Indices: 59413403--59413458 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
59413393 TTTGTTTCAC
* *
59413403 ACTTTTATTCCATAATATTTTTA-
1 ACTTTTATTACATAA-ATTTATAT
*
59413426 ACTTGTATTACATAAATTTATAT
1 ACTTTTATTACATAAATTTATAT
59413449 ACTTTTATTA
1 ACTTTTATTA
59413459 TTTTTATTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (23 bp):
ACTTTTATTACATAAATTTATAT
Found at i:59413908 original size:17 final size:18
Alignment explanation
Indices: 59413868--59413929 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
59413858 TATTTTGAAA
*
59413868 TTATGAAATATATAAAAT
1 TTATTAAATATATAAAAT
*
59413886 CT-TTAAATATAT-AAAT
1 TTATTAAATATATAAAAT
*
59413902 TTATTAAAAAATATAAATAT
1 TTATT-AAATATATAAA-AT
59413922 TTATTAAA
1 TTATTAAA
59413930 AATTAAGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 5 0.14
17 11 0.31
18 8 0.22
19 5 0.14
20 7 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TTATTAAATATATAAAAT
Found at i:59413932 original size:19 final size:20
Alignment explanation
Indices: 59413890--59413931 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
59413880 TAAAATCTTT
59413890 AAATATATAAATTTATTAAA
1 AAATATATAAATTTATTAAA
59413910 AAATATA-AATATTTATTAAA
1 AAATATATAA-ATTTATTAAA
59413930 AA
1 AA
59413932 TTAAGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATAAATTTATTAAA
Found at i:59414351 original size:19 final size:19
Alignment explanation
Indices: 59414329--59414373 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
59414319 TTTTTACAAT
59414329 TTTTTTATAAA-TTTAT-A
1 TTTTTTATAAATTTTATAA
*
59414346 TATTTTTAAAAATTTTATAA
1 T-TTTTTATAAATTTTATAA
59414366 TTTTTTAT
1 TTTTTTAT
59414374 TAATATTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.04
18 9 0.39
19 11 0.48
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTATAAATTTTATAA
Found at i:59414353 original size:18 final size:18
Alignment explanation
Indices: 59414330--59414370 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
59414320 TTTTACAATT
*
59414330 TTTTTATAAA-TTTATATA
1 TTTTTAAAAATTTTATA-A
59414348 TTTTTAAAAATTTTATAA
1 TTTTTAAAAATTTTATAA
59414366 TTTTT
1 TTTTT
59414371 TATTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAAAATTTTATAA
Found at i:59420481 original size:549 final size:549
Alignment explanation
Indices: 59419438--59420544 Score: 2205
Period size: 549 Copynumber: 2.0 Consensus size: 549
59419428 TATTTTTATG
*
59419438 GTTAAAATATGCTATTAGTCCCTATACTTTTACAAAATTTGAGATTAAGACCCTATACTTAAAAG
1 GTTATAATATGCTATTAGTCCCTATACTTTTACAAAATTTGAGATTAAGACCCTATACTTAAAAG
59419503 TTTTTTTTTATTTAAAAATCACAATCCAATCATTAAAATTATAAGTATTTCTATCACATTTTGTG
66 TTTTTTTTTATTTAAAAATCACAATCCAATCATTAAAATTATAAGTATTTCTATCACATTTTGTG
59419568 TTTAATATTAAACTTATATACATTAATATTAGAAGAAACGTAATTTACATGATCATATTAATGAG
131 TTTAATATTAAACTTATATACATTAATATTAGAAGAAACGTAATTTACATGATCATATTAATGAG
59419633 TAATTGTAAAAGCCATTTTCAGTGAAATTGAAACAGTGATTTCGGGACCACAAATTTGAAGTCAA
196 TAATTGTAAAAGCCATTTTCAGTGAAATTGAAACAGTGATTTCGGGACCACAAATTTGAAGTCAA
59419698 AAAATTTATTTTAATATTATTTTATGGTCTACAGTATGATGGAAATATTGTATAAAAATTTGTTA
261 AAAATTTATTTTAATATTATTTTATGGTCTACAGTATGATGGAAATATTGTATAAAAATTTGTTA
59419763 AGAAATTTTACCGTTTACATGCCTAATTTGATAAAAAGGACTAAATTGCATAAAGTGTAAAGGTT
326 AGAAATTTTACCGTTTACATGCCTAATTTGATAAAAAGGACTAAATTGCATAAAGTGTAAAGGTT
59419828 GTGTTCTAATAGCTAAAGGTATTACATAGCTATAGAATTTTAAATTGGAGGTCCTTATATATTAA
391 GTGTTCTAATAGCTAAAGGTATTACATAGCTATAGAATTTTAAATTGGAGGTCCTTATATATTAA
59419893 ATAGGCCATTAACGTGCTTAGTGGTTAAGCATGAGTAGTCATCACTGGAAATTGAATAAATTATT
456 ATAGGCCATTAACGTGCTTAGTGGTTAAGCATGAGTAGTCATCACTGGAAATTGAATAAATTATT
59419958 AAGGGTAATTTTGGAAATTAATGATTAAA
521 AAGGGTAATTTTGGAAATTAATGATTAAA
59419987 GTTATAATATGCTATTAGTCCCTATACTTTTACAAAATTTGAGATTAAGACCCTATACTTAAAAG
1 GTTATAATATGCTATTAGTCCCTATACTTTTACAAAATTTGAGATTAAGACCCTATACTTAAAAG
59420052 TTTTTTTTTATTTAAAAATCACAATCCAATCATTAAAATTATAAGTATTTCTATCACATTTTGTG
66 TTTTTTTTTATTTAAAAATCACAATCCAATCATTAAAATTATAAGTATTTCTATCACATTTTGTG
59420117 TTTAATATTAAACTTATATACATTAATATTAGAAGAAACGTAATTTACATGATCATATTAATGAG
131 TTTAATATTAAACTTATATACATTAATATTAGAAGAAACGTAATTTACATGATCATATTAATGAG
59420182 TAATTGTAAAAGCCATTTTCAGTGAAATTGAAACAGTGATTTCGGGACCACAAATTTGAAGTCAA
196 TAATTGTAAAAGCCATTTTCAGTGAAATTGAAACAGTGATTTCGGGACCACAAATTTGAAGTCAA
59420247 AAAATTTATTTTAATATTATTTTATGGTCTACAGTATGATGGAAATATTGTATAAAAATTTGTTA
261 AAAATTTATTTTAATATTATTTTATGGTCTACAGTATGATGGAAATATTGTATAAAAATTTGTTA
59420312 AGAAATTTTACCGTTTACATGCCTAATTTGATAAAAAGGACTAAATTGCATAAAGTGTAAAGGTT
326 AGAAATTTTACCGTTTACATGCCTAATTTGATAAAAAGGACTAAATTGCATAAAGTGTAAAGGTT
59420377 GTGTTCTAATAGCTAAAGGTATTACATAGCTATAGAATTTTAAATTGGAGGTCCTTATATATTAA
391 GTGTTCTAATAGCTAAAGGTATTACATAGCTATAGAATTTTAAATTGGAGGTCCTTATATATTAA
59420442 ATAGGCCATTAACGTGCTTAGTGGTTAAGCATGAGTAGTCATCACTGGAAATTGAATAAATTATT
456 ATAGGCCATTAACGTGCTTAGTGGTTAAGCATGAGTAGTCATCACTGGAAATTGAATAAATTATT
59420507 AAGGGTAATTTTGGAAATTAATGATTAAA
521 AAGGGTAATTTTGGAAATTAATGATTAAA
59420536 GTTATAATA
1 GTTATAATA
59420545 AATAAAATAA
Statistics
Matches: 557, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
549 557 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (549 bp):
GTTATAATATGCTATTAGTCCCTATACTTTTACAAAATTTGAGATTAAGACCCTATACTTAAAAG
TTTTTTTTTATTTAAAAATCACAATCCAATCATTAAAATTATAAGTATTTCTATCACATTTTGTG
TTTAATATTAAACTTATATACATTAATATTAGAAGAAACGTAATTTACATGATCATATTAATGAG
TAATTGTAAAAGCCATTTTCAGTGAAATTGAAACAGTGATTTCGGGACCACAAATTTGAAGTCAA
AAAATTTATTTTAATATTATTTTATGGTCTACAGTATGATGGAAATATTGTATAAAAATTTGTTA
AGAAATTTTACCGTTTACATGCCTAATTTGATAAAAAGGACTAAATTGCATAAAGTGTAAAGGTT
GTGTTCTAATAGCTAAAGGTATTACATAGCTATAGAATTTTAAATTGGAGGTCCTTATATATTAA
ATAGGCCATTAACGTGCTTAGTGGTTAAGCATGAGTAGTCATCACTGGAAATTGAATAAATTATT
AAGGGTAATTTTGGAAATTAATGATTAAA
Found at i:59421767 original size:9 final size:9
Alignment explanation
Indices: 59421753--59421796 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
59421743 TATGCACTTA
59421753 ATAAAAATT
1 ATAAAAATT
59421762 ATAAAAA-T
1 ATAAAAATT
59421770 ATTAAAAATAT
1 A-TAAAAAT-T
59421781 ATTAAAAATT
1 A-TAAAAATT
59421791 ATAAAA
1 ATAAAA
59421797 TTTTATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 2 0.06
9 18 0.56
10 2 0.06
11 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:59421788 original size:20 final size:18
Alignment explanation
Indices: 59421754--59421845 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 18
59421744 ATGCACTTAA
59421754 TAAAAATTATAAAAATAT
1 TAAAAATTATAAAAATAT
*
59421772 TAAAAATATATTAAAA-AT
1 TAAAAAT-TATAAAAATAT
* *
59421790 TATAAAATTTTATAAAGTAGT
1 TA-AAAATTATA-AAAATA-T
* *
59421811 AAGAAAATTATAAAAAAAT
1 TA-AAAATTATAAAAATAT
*
59421830 GTAAAGAAATATAAAA
1 -TAAA-AATTATAAAA
59421846 TTTGTAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
18 13 0.23
19 18 0.32
20 15 0.27
21 10 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:59422807 original size:10 final size:10
Alignment explanation
Indices: 59422794--59422836 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
59422784 TTTATAGATA
59422794 TTATTTTAAT
1 TTATTTTAAT
59422804 TTATTTTAAT
1 TTATTTTAAT
*
59422814 ATAGATTTTAAT
1 -T-TATTTTAAT
*
59422826 ATATTTTAAT
1 TTATTTTAAT
59422836 T
1 T
59422837 ATAAGCTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 18 0.67
11 1 0.04
12 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATTTTAAT
Found at i:59434358 original size:366 final size:365
Alignment explanation
Indices: 59433606--59435075 Score: 2216
Period size: 366 Copynumber: 4.0 Consensus size: 365
59433596 AGCTCTAACA
* * * *
59433606 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTG-TCCCATAACTGCCTCTGAAAGCACAT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCT-CCATAACTGCCTCTGAAAGCGCAT
**** *
59433670 CAGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAG
65 CAGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAG
* *
59433735 TTGGCAACAACAGCGCTAGCAATGCTGCTGCTGCCCCACCGTTTTTTCCTCCTACTGTAAACTAA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCT-C--CTGTAAACTAA
* * * *
59433800 AATCGGCATAGGACTTTCAAACATCACACTCGCAGATAACCGCTGAGAACCAGTTTCGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
**
59433865 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGGTTGTGAAGTACCATCACATTTAGGAGTCATC
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCAT-
* * *
59433930 CGGAAAGTTTCATTATCAGACATCCAATCACATAAAGAAATCTTT
321 CTGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
59433975 ATTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
59434040 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
* * * *
59434105 TGGCAACAACAGCGTTAGCACTGCTGCTTCTGCCCCACCGTTTCTTCCTCCTGTAAATTAAATTC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * * * *
59434170 GGAATAGGACTTTCAAACCTCATACTTACAGATGACTGCTGAGAACCAATTTTGGGTAAGGGAAG
196 GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
59434235 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTGC
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGC
*
59434300 AAGTTCCATTACCAGACATCCAATCACATAAAGAAATCTTT
325 AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
59434341 GTTGCAGTTTGATGTTCAACTCGAGAAACTCCCTTTCGCT---TAACTGCCTCTGAAAGTGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
* *
59434403 AGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAA-CATGCTCCTGTGCATAAAAG
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCA-GCTCCTGTGCACAAAAG
* * * * *
59434467 TTGGCAACAATAGAGCTAGCGCTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTGA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTT---CCTCCTGTAAACTAA
* * * *
59434532 AATCAGCATAGGACTTTCAAACATCACATTCACAGATGGCTGCTGAGAACCAGTTCTGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
59434597 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGC-TTGTGAAGTACCATCACATTTAGGAGTCAT
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCA-CTTTGTGAAGTACCATCACATTTAGGAGTCAT
*
59434661 CTGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTT
321 CTG-CAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* * * *
59434707 GTTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
*
59434772 AGAACTAACAACAGAAAAACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
* *
59434837 TGGCAACAACAGCACTAGCACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * *
59434902 GGCATAGGACTTTCAAACATCATACTCACAGATGACTGTTGAGAACCAGTTTTGGGAAAGGGAAG
196 GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
* * * **
59434967 GCATGAATCCTCAGCCTCTTTACAACCACTTCGTGAAGTACCATCGCATTTAGGAGTCATCAACC
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGC
59435032 AAGTTTCATTACCAGACATCCAATCA-AGTAAAGAAATCTTT
325 AAGTTTCATTACCAGACATCCAATCACA-TAAAGAAATCTTT
59435073 GTT
1 GTT
59435076 TCCTGCATTC
Statistics
Matches: 1001, Mismatches: 85, Indels: 33
0.89 0.08 0.03
Matches are distributed among these distances:
362 2 0.00
363 122 0.12
365 5 0.00
366 584 0.58
367 1 0.00
368 1 0.00
369 283 0.28
370 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (365 bp):
GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCA
AGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
Found at i:59435287 original size:127 final size:127
Alignment explanation
Indices: 59435063--59435440 Score: 688
Period size: 127 Copynumber: 3.0 Consensus size: 127
59435053 AATCAAGTAA
59435063 AGAAATCTTTGTTTCCTGCATTCAAACACAT--AATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
59435126 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
*
59435188 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
*
59435253 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* ***
59435315 AAAAATCTTTGTTTCCTGCGGCCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
59435380 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
59435441 AACTTCCACC
Statistics
Matches: 243, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 31 0.13
127 212 0.87
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (127 bp):
AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:59436664 original size:13 final size:15
Alignment explanation
Indices: 59436646--59436682 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
59436636 AACTCGAGCA
59436646 TTAATTATTTAA-T-
1 TTAATTATTTAATTG
*
59436659 TTAATTAGTTAATTG
1 TTAATTATTTAATTG
59436674 TTAATTATT
1 TTAATTATT
59436683 ATTTAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 11 0.55
14 1 0.05
15 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTAATTATTTAATTG
Found at i:59436858 original size:22 final size:20
Alignment explanation
Indices: 59436811--59436860 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
59436801 TGAAGTGAAG
**
59436811 GTGATATTGAATTATGAAAT
1 GTGATATTGAATTAAAAAAT
*
59436831 GCGATATTGAATTTAAAAAAAT
1 GTGATATTGAA-TT-AAAAAAT
59436853 GTGATATT
1 GTGATATT
59436861 ATGGACTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.42
21 2 0.08
22 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (20 bp):
GTGATATTGAATTAAAAAAT
Found at i:59446504 original size:9 final size:9
Alignment explanation
Indices: 59446492--59446540 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
59446482 TAAACTAATT
*
59446492 AAATAAAGG
1 AAATAAAAG
59446501 AAATAAAAG
1 AAATAAAAG
59446510 AAATAAAAG
1 AAATAAAAG
* *
59446519 ATAGAAAAG
1 AAATAAAAG
*
59446528 AGATAAATAG
1 AAATAAA-AG
59446538 AAA
1 AAA
59446541 CAGAATAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 29 0.88
10 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:59447327 original size:14 final size:15
Alignment explanation
Indices: 59447289--59447329 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
59447279 TTTGTGATTG
59447289 ATATGAATTTGATTGAA
1 ATATGAA-TTGA-TGAA
59447306 AT-TGAATTGA-GAA
1 ATATGAATTGATGAA
59447319 ATATGAATTGA
1 ATATGAATTGA
59447330 ATACCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 4 0.17
16 4 0.17
17 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (15 bp):
ATATGAATTGATGAA
Found at i:59447619 original size:15 final size:16
Alignment explanation
Indices: 59447599--59447632 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
59447589 ATTGGCATTA
59447599 GAATTGAT-ATTGAAT
1 GAATTGATAATTGAAT
59447614 GAATTGATAAATTGAAT
1 GAATTGAT-AATTGAAT
59447631 GA
1 GA
59447633 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATTGATAATTGAAT
Found at i:59451073 original size:42 final size:42
Alignment explanation
Indices: 59450971--59451128 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
59450961 AGCTCGTACA
* * *
59450971 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCATAT-ACG
*
59451014 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAATCATATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCATATACG
* * * *
59451056 ATGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCAT-ATA-CG
*
59451100 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
59451129 AAAATCACAT
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 30 0.31
43 37 0.39
44 29 0.30
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCATATACG
Found at i:59463992 original size:31 final size:31
Alignment explanation
Indices: 59463949--59464009 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
59463939 TTTTAATTAA
* *
59463949 TTTCAAATTTTTTAAAATTTCTCA-TTAAACC
1 TTTCAAAATTTTTAAAAATT-TCAGTTAAACC
59463980 TTTCAAAATTTTTAAAAATTTCAGTTAAAC
1 TTTCAAAATTTTTAAAAATTTCAGTTAAAC
59464010 ACCTCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (31 bp):
TTTCAAAATTTTTAAAAATTTCAGTTAAACC
Found at i:59464023 original size:31 final size:31
Alignment explanation
Indices: 59463951--59464023 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
59463941 TTAATTAATT
* *
59463951 TCAAATTTTTTAAAATTTCTCATTAAACCTT
1 TCAAATTTTTTAAAAATTCTCATTAAACCTC
*
59463982 TCAAAATTTTTAAAAATT-TCAGTTAAACAC-C
1 TCAAATTTTTTAAAAATTCTCA-TTAAAC-CTC
*
59464013 TCGAATTTTTT
1 TCAAATTTTTT
59464024 TTGTAGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (31 bp):
TCAAATTTTTTAAAAATTCTCATTAAACCTC
Found at i:59466772 original size:2 final size:2
Alignment explanation
Indices: 59466767--59466800 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
59466757 ATATATTTAT
* *
59466767 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59466801 GTTGTCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59466780 original size:10 final size:10
Alignment explanation
Indices: 59466767--59466800 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
59466757 ATATATTTAT
*
59466767 AGAGAGAGAG
1 AGAGAGAGAA
59466777 AGAGAGAGAA
1 AGAGAGAGAA
59466787 AGAGAGAGAA
1 AGAGAGAGAA
59466797 AGAG
1 AGAG
59466801 GTTGTCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:59468757 original size:30 final size:30
Alignment explanation
Indices: 59468721--59468782 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
59468711 TCCTTAGATG
59468721 ATTTTCATGTGCACTTCACACGAGCCACTA
1 ATTTTCATGTGCACTTCACACGAGCCACTA
*
59468751 ATTTTCATGTGCACTTCACATGAGCCACTA
1 ATTTTCATGTGCACTTCACACGAGCCACTA
59468781 AT
1 AT
59468783 AAACTCTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.32
Consensus pattern (30 bp):
ATTTTCATGTGCACTTCACACGAGCCACTA
Found at i:59470453 original size:30 final size:30
Alignment explanation
Indices: 59470417--59470478 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
59470407 ATGAGAGTTT
*
59470417 ATTAGTGGCTCACGTGAAGTGCACATGAAA
1 ATTAGTGGCTCACGTGAAATGCACATGAAA
*
59470447 ATTAGTGGCTCATGTGAAATGCACATGAAA
1 ATTAGTGGCTCACGTGAAATGCACATGAAA
59470477 AT
1 AT
59470479 CTTCTAAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (30 bp):
ATTAGTGGCTCACGTGAAATGCACATGAAA
Found at i:59470774 original size:19 final size:20
Alignment explanation
Indices: 59470752--59470794 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
59470742 TCTCTCAACA
59470752 AAAAT-TATAAAAAAAATTT
1 AAAATATATAAAAAAAATTT
* * *
59470771 AAAATATCTATAAAAATTTT
1 AAAATATATAAAAAAAATTT
59470791 AAAA
1 AAAA
59470795 GTAAAGTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATATAAAAAAAATTT
Found at i:59473297 original size:52 final size:58
Alignment explanation
Indices: 59473192--59473298 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
59473182 AAAATATTCA
* * *
59473192 TTTATTTTTATATATTTTTAAAATTTATATATTAATATTTCTTGTCAACAATATTATT
1 TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATTATT
*
59473250 TTTATTCTTATATA-TTTT-AAATTTAT-TAAT-ATATTT-TT-TGAAAAATATT
1 TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATT
59473299 TATGCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 9 0.20
53 2 0.04
54 6 0.13
55 3 0.07
56 8 0.18
57 4 0.09
58 13 0.29
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (58 bp):
TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATTATT
Found at i:59474018 original size:19 final size:18
Alignment explanation
Indices: 59473974--59474024 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
59473964 ATTTAAAATT
59473974 TATAAAATATTAAAAAAA
1 TATAAAATATTAAAAAAA
59473992 TACTTAAAAT-TTAAAAACAAA
1 TA--TAAAATATT-AAAA-AAA
*
59474013 TATAAAAAATTA
1 TATAAAATATTA
59474025 CATGAAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
18 2 0.07
19 8 0.30
20 12 0.44
21 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAATATTAAAAAAA
Found at i:59474653 original size:2 final size:2
Alignment explanation
Indices: 59474648--59474679 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
59474638 ATATATATAT
*
59474648 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59474680 GCTGTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59479903 original size:18 final size:18
Alignment explanation
Indices: 59479868--59479905 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59479858 AGAAAAGAAT
*
59479868 AAAAAGAAAAACGGTTCA
1 AAAAAGAAAAACGATTCA
59479886 AAAAAGAGAAAA-GATTCA
1 AAAAAGA-AAAACGATTCA
59479904 AA
1 AA
59479906 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAACGATTCA
Found at i:59481000 original size:23 final size:23
Alignment explanation
Indices: 59480969--59481012 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
59480959 ATTTTATGTA
*
59480969 TATACATACATATATATTTTCCT
1 TATACATACATACATATTTTCCT
*
59480992 TATATATACATACATATTTTC
1 TATACATACATACATATTTTC
59481013 ATATTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (23 bp):
TATACATACATACATATTTTCCT
Found at i:59481046 original size:10 final size:10
Alignment explanation
Indices: 59481033--59481057 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59481023 ATTTTTTATC
59481033 TATTTTCCTT
1 TATTTTCCTT
59481043 TATTTTCCTT
1 TATTTTCCTT
59481053 TATTT
1 TATTT
59481058 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTTCCTT
Found at i:59481060 original size:4 final size:4
Alignment explanation
Indices: 59481051--59481107 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
59481041 TTTATTTTCC
* * **
59481051 TTTA TTTA TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
59481097 TTTA TTTA TTT
1 TTTA TTTA TTT
59481108 GTTATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 2 0.05
4 42 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:59481445 original size:110 final size:110
Alignment explanation
Indices: 59481237--59481553 Score: 435
Period size: 110 Copynumber: 2.9 Consensus size: 110
59481227 AAAAGAAATT
* * * * *
59481237 TTTTTAAATGAGGCAATGTTTAGCGTTTGGACATTCGAGAAAACATGCCTTAAGGTGCTGGGTAT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTAT
* ** *
59481302 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCCTTTTCAGAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* * *
59481347 TTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTAT
59481412 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCC-TTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* * * *
59481456 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACATGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTAT
* * *
59481520 CGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
59481554 CTTGAATTTT
Statistics
Matches: 185, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
106 27 0.15
108 25 0.14
109 44 0.24
110 89 0.48
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTAT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
Found at i:59485666 original size:7 final size:8
Alignment explanation
Indices: 59485638--59485677 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
59485628 TTCAGACTCC
*
59485638 AAAAAAAG
1 AAAAAAAT
59485646 AAAAAAAT
1 AAAAAAAT
59485654 CAAAAAAAT
1 -AAAAAAAT
59485663 AAAAAAAT
1 AAAAAAAT
59485671 AAAAAAA
1 AAAAAAA
59485678 ATCAAAGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:59485678 original size:17 final size:17
Alignment explanation
Indices: 59485638--59485679 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
59485628 TTCAGACTCC
* *
59485638 AAAAAAAGAAAAAAATC
1 AAAAAAATAAAAAAATA
59485655 AAAAAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
59485672 AAAAAAAT
1 AAAAAAAT
59485680 CAAAGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.10
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:59486574 original size:16 final size:15
Alignment explanation
Indices: 59486549--59486582 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
59486539 CACTTTGAGT
*
59486549 AAAAAAAAAAGATGA
1 AAAAAAAAAAAATGA
59486564 AAAAAAGAAAAAATGA
1 AAAAAA-AAAAAATGA
59486580 AAA
1 AAA
59486583 TGGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAAAAAAAAATGA
Found at i:59487835 original size:46 final size:46
Alignment explanation
Indices: 59487768--59488056 Score: 389
Period size: 46 Copynumber: 6.3 Consensus size: 46
59487758 ATAGATCAAT
*
59487768 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
*
59487814 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
* *
59487860 AAAGATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
* *
59487906 GAAGATAGCAGATCTTATCTTCCTGTATTTGACAGTGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
* * * * * * *
59487952 AAAGATAACAGATCTTTTTTTCCTGTATTTAGTAGCGGGGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
* * * ** *
59487998 GAAGATAGCAGATCTTGTTTTTCTGTATTTGGCAGTAGAGGAGGTC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
* *
59488044 AAAGATTGCAGAT
1 GAAGATAGCAGAT
59488057 TCTGTCACCC
Statistics
Matches: 213, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
Found at i:59487926 original size:92 final size:92
Alignment explanation
Indices: 59487769--59488056 Score: 432
Period size: 92 Copynumber: 3.1 Consensus size: 92
59487759 TAGATCAATG
*
59487769 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
*
59487834 TCCTGTATTTGGCAGCAGAGGAGATCA
66 TCCTGTATTTGGCAGTAGAGGAGATCA
*
59487861 AAGATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
* *
59487926 TCCTGTATTTGACAGTGGAGGAGATCA
66 TCCTGTATTTGGCAGTAGAGGAGATCA
* * * * * * * *
59487953 AAGATAACAGATCTTTTTTTCCTGTATTTAGTAGCGGGGGAGATCGAAGATAGCAGATCTTGTTT
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
* *
59488018 TTCTGTATTTGGCAGTAGAGGAGGTCA
66 TCCTGTATTTGGCAGTAGAGGAGATCA
*
59488045 AAGATTGCAGAT
1 AAGATAGCAGAT
59488057 TCTGTCACCC
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 176 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (92 bp):
AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCT
TCCTGTATTTGGCAGTAGAGGAGATCA
Found at i:59488332 original size:44 final size:44
Alignment explanation
Indices: 59488146--59488753 Score: 209
Period size: 44 Copynumber: 13.8 Consensus size: 44
59488136 GCCATTAGTC
* * *
59488146 CTATCACCCTAAGCAGTAGTGGGGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * ** *
59488190 CTGTCACCCTAAGTAGTAGTGGAGTAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * ** *
59488233 CTTATCTTCCC-AA-TA-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAAGCAGTAGT-G-G-AGTAGATCGAAG--ATTGCAGATT
*
59488278 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * ** *
59488322 CTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * * * * ** *
59488365 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATCGAAG--ATTGCAGATT
* *
59488410 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGGAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * ** *
59488454 CTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * * * * ** *
59488497 CTTATC-CTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATCAC-CCTAA-GCAGTAGTGGAGTAGATCGAAG--ATTGCAGATT
* *
59488542 CTATCACCCTATGCAGTAGTGGAGTAGGAT-AAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTA-GATCGAAGATTGCAGATT
* * * ** *
59488586 CTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
** * * * * * * ** *
59488629 CTTATCTTCCTAATACAGTGGAGAAGCATATTTAAGTCATT--AG-TC
1 C-TATCACCCTAA-GCAGTAGTGGAGTAGATCGAAG--ATTGCAGATT
* *
59488674 CTATCACCCTATGCAGTAGTGGAGTAGGAT-GAAGATCGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTA-GATCGAAGATTGCAGATT
* * *
59488718 CTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGAT
59488754 GGTGAATCAT
Statistics
Matches: 398, Mismatches: 120, Indels: 92
0.65 0.20 0.15
Matches are distributed among these distances:
41 11 0.03
42 4 0.01
43 93 0.23
44 208 0.52
45 66 0.17
46 8 0.02
47 4 0.01
48 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
Found at i:59488893 original size:132 final size:132
Alignment explanation
Indices: 59488045--59488879 Score: 1472
Period size: 132 Copynumber: 6.3 Consensus size: 132
59488035 GAGGAGGTCA
59488045 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
*
59488110 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGGGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
59488175 TG
131 TG
*
59488177 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGTAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
*
59488242 CCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
59488307 CG
131 TG
59488309 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
59488374 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
59488439 CG
131 TG
* *
59488441 GAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCCTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
* *
59488506 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTATGCAGTAGTGGAGTAGGA
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
59488571 TA
131 TG
59488573 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
* * * * *
59488638 CTAATACAGTGGAGAAGCATATTTAAGTCATTAGTCCTATCACCCTATGCAGTAGTGGAGTAGGA
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
59488703 TG
131 TG
* *
59488705 AAGATCGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCATATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
**
59488770 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAATAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
59488835 TG
131 TG
* * *
59488837 AAGATTGCAGATTCTGTCCCCCTAAGCAGTAGTAGAGCAGATC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATC
59488880 AACAATAACG
Statistics
Matches: 672, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 672 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
TG
Found at i:59490712 original size:4 final size:4
Alignment explanation
Indices: 59490703--59490759 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
59490693 TATTGTTATT
* * **
59490703 TTTA TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
59490749 TTTA TTTA TTT
1 TTTA TTTA TTT
59490760 GTTATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 2 0.05
4 42 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:59491098 original size:110 final size:110
Alignment explanation
Indices: 59490890--59491206 Score: 426
Period size: 110 Copynumber: 2.9 Consensus size: 110
59490880 AAAAGAAATT
* * * * *
59490890 TTTTTAAATGAGGCAATGTTTAGCGTTTGGACATTCGAGAAAACATGCCCTAAGGTGCTAGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** *
59490955 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCCTTTTCAGAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* *
59491000 TTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
59491065 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCC-TTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* * * * *
59491109 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * * *
59491173 CGA--TTTCTTGTTTAACCAAATTGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
59491207 CTTGAATTTT
Statistics
Matches: 184, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
106 26 0.14
108 24 0.13
109 44 0.24
110 90 0.49
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
Found at i:59492507 original size:296 final size:295
Alignment explanation
Indices: 59491847--59493020 Score: 1117
Period size: 298 Copynumber: 3.9 Consensus size: 295
59491837 ACTCAATTAA
* * * * * * * *
59491847 TATATAGAAGTAATGGAGATAATAACTTGTGCATATTAAAATGAAAATTTATAAATTAGAATAAA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
* * * * *
59491912 ATGAAGCTTTGGTTGAATGGTAAAATT-AAGATTTTGCTAACTCAATTAGTGTGGGTTCAAATCC
66 ATAAAGCTTTGGTTGAATGGTAAATTTAAAG-TTTTACTAATTCAATTGGTGTGGGTTCAAATCC
* * * * *
59491976 TACTGTATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGATTAAAATAACTATTGTTAAATA
130 CACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-AC----CTCAAATA
* * * * * *
59492041 GTATAACTTATTTTAATTACGAAAGTACATTTTTGTAATTTTCTAACCGAGTTGGTGGCCCAAAT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GAT
* * * * *
59492106 GGGGGTGACACCAACTTAATGAAACAATTAAT-AATTGTAAGG
254 GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAA-G
* * * * *
59492148 ATAGATATACAACTATTGGAGATAATAACTTATGTATATTAAAATAAAAATGAATAAAATATATT
1 -T--ATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATT
* *
59492213 AAAATAAAGAC-TTGGTT-AAGTGGTAAATTTAATA-TTTTACTAATTTAATTGGGGTGGGTTCA
63 AAAATAAAG-CTTTGGTTGAA-TGGTAAATTTAA-AGTTTTACTAATTCAATTGGTGTGGGTTCA
* * *
59492275 AATCCCACTATATTCTTATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATGACCTCAAAT
125 AATCCCACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-ACCTCAAAT
* * ** *
59492340 AGTATAAATTATTTTAATTATG-AAGGGCATTTTTGTAATTTCCTAACTGATTTGGTGACTCGAT
189 AGTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGAT
*
59492404 CGAGGGTGACACCAACATAGTAAAACACTTAATAAATAGTAAG
254 -GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAAG
* *
59492447 TATATACAATTAGTAGAGATAATAA-TGTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
1 TATATACAACTAATAGAGATAATAACT-TGTGCATATTAAAATAAAAATGTATAAAATATATTAA
* * * * *
59492511 AATGAAA-TTTTGGTTGAGTGATAAATTTAAAGTTTT-TTAGATCCAATTGGTGTGGGTTCAAAT
65 AAT-AAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTA-ATTCAATTGGTGTGGGTTCAAAT
** * *
59492574 ATCA-TCATATGCATATTTTAATTTATTTTTTGTTAAAATAAAAAGACTAAAATACCCTCAAACA
128 CCCACT-ATATGCATATTTTAATTT-GTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATA
* * *
59492638 GTATAACTTATTTTAATTACGAAATAACATTTTTATAATTTCCTAA-TCGAGTTGGTGACCTCGT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACT-GAGTTGGTGA-CTCGA
* * *
59492702 TGAGGATGACACCAAGTTAGTAAAATACTTAATAAATAGTATA-
253 TGAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTA-AG
* * * *
59492745 TTTATACAACTAATTGAGATAATAACTTGTGCATATT-AAA-AAACATGATTATCAAATATATTA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATG--TATAAAATATATTA
** * * ** **
59492808 AAACGAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTATTAATTTAATTGGCATGTATTCAAATC
64 AAATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATC
** * * ** *
59492873 TTA-TCATATG--TATTTTAGTTGGTTTTTGTTAAAATAAAAA-TTTAAAATACCCTCAAATGGT
129 CCACT-ATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATAGT
* * * ** * *
59492934 ACAACTTATTTTAATTACAGAAA-AATATTCTCATAATTTCCTAACTGAGTTGGTGACCCAGTTG
192 ATAACTTATTTTAATTAC-GAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GATG
* * *
59492998 AAGGTGACACAAACTCAGTAAAA
255 AGGGTGACACCAACTTAGTAAAA
59493021 TTCAAAAAGA
Statistics
Matches: 732, Mismatches: 111, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
293 2 0.00
294 84 0.11
295 28 0.04
296 133 0.18
297 63 0.09
298 167 0.23
299 70 0.10
300 32 0.04
302 1 0.00
303 2 0.00
304 147 0.20
305 2 0.00
306 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (295 bp):
TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
ATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATCCC
ACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATACCTCAAATAGTATAA
CTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGATGAGGGTG
ACACCAACTTAGTAAAACACTTAATAAATAGTAAG
Found at i:59494129 original size:17 final size:18
Alignment explanation
Indices: 59494107--59494140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59494097 ATAATTGTAA
*
59494107 TTTAAAT-TTTAATTATT
1 TTTAAATGTGTAATTATT
59494124 TTTAAATGTGTAATTAT
1 TTTAAATGTGTAATTAT
59494141 CACAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAAATGTGTAATTATT
Found at i:59501532 original size:4 final size:4
Alignment explanation
Indices: 59501523--59501550 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
59501513 AAGTTTTATT
59501523 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
59501551 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:59513883 original size:44 final size:45
Alignment explanation
Indices: 59513805--59513922 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
59513795 ATAGCAAACT
* *** *
59513805 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAG-TTAC-AAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAACGAA-TC
* *
59513849 TTATCTCCCTAAAGCTGCAGTGGAGCAAACTGAAGATAACGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAACGAATC
* *
59513894 TTATTTCCCTGAAGTTGCAGTGGAACAAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAA
59513923 TTAAAGCTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 29 0.48
45 30 0.49
46 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAACGAATC
Found at i:59514108 original size:180 final size:181
Alignment explanation
Indices: 59513788--59514185 Score: 559
Period size: 180 Copynumber: 2.2 Consensus size: 181
59513778 GGGATAGATT
* * * * *
59513788 GAAGATCATAGCAAACTTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTAT
1 GAAGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAA
* *
59513853 CTCCCTAAAGCTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGA
66 CTCCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGA
*
59513918 ACAAATTAAAGCTATAAATTGCAAAT-T-TTATCTCTCTAAAGTTGCAATAGG
131 ACAAATTAAAGCTATAAATT--AAATATCTTATCTCTCTAAAGTTGCAATAGA
* * * * *
59513969 GTAG-TCATATCAAAATTTATCTCCCTGAAGTTGTAGCGAAGTAGGTTGAAGTTATAAGTCTTAA
1 GAAGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAA
* * * * *
59514033 CTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAACGAATCTTATTTCCCTAAAGTTGTAGTGGA
66 CTCCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGA
* *
59514098 ACAGATTAAAGCTATAAATTAAATATCTTATCTTTCTAAAGTTGCAATAGA
131 ACAAATTAAAGCTATAAATTAAATATCTTATCTCTCTAAAGTTGCAATAGA
* *
59514149 GAAGATCATAGCAAACCTTATCTCCCTTAAGTTGTAG
1 GAAGATCATAGCAAACTTTATCTCCCTGAAGTTGTAG
59514186 TGGAATAGTG
Statistics
Matches: 189, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
178 4 0.02
179 1 0.01
180 153 0.81
181 31 0.16
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (181 bp):
GAAGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAA
CTCCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGA
ACAAATTAAAGCTATAAATTAAATATCTTATCTCTCTAAAGTTGCAATAGA
Found at i:59516104 original size:26 final size:25
Alignment explanation
Indices: 59516071--59516467 Score: 191
Period size: 26 Copynumber: 15.8 Consensus size: 25
59516061 TGTTATTTAT
59516071 TTATTTATTTTAAATCTTTTCATATA
1 TTATTTATTTTAAATCTTTT-ATATA
* *
59516097 TTACTTATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAA-TCTTTTATATA
* * * * *
59516122 TTACTTATTTTAAGTTTTTTTTTTCA
1 TTATTTATTTTAAATCTTTTATAT-A
*
59516148 TGTATTATTATTTTAAA-C--TTATACA
1 T-TA-T-TTATTTTAAATCTTTTATATA
* *
59516173 TTATTCATTTTAAATTGTTTTATATA
1 TTATTTATTTTAAA-TCTTTTATATA
* * *
59516199 GTATTCATTTCAAA-CTGTTT-TAT-
1 TTATTTATTTTAAATCT-TTTATATA
* *
59516222 TGTATACTATTTTAAA-CTAGTATATATA
1 T-TAT-TTATTTTAAATCT--TTTATATA
*
59516250 TTAGTTATTTTAAAT-TGCTTTATATA
1 TTATTTATTTTAAATCT--TTTATATA
* *
59516276 TTATTTATTTTAAACTGTTTTATATT
1 TTATTTATTTTAAA-TCTTTTATATA
*
59516302 TTATTTATCTTAAAT-TTTT-TCATA
1 TTATTTATTTTAAATCTTTTAT-ATA
** * * * *
59516326 TGGTTTATTTTGAACCAATTTGTATA
1 TTATTTATTTTAAATC-TTTTATATA
*
59516352 TTATTTATTTTAAATTTTTTCATATA
1 TTATTTATTTTAAATCTTTT-ATATA
*
59516378 TTA--T-TTTTAAA-ATTTT-TATA
1 TTATTTATTTTAAATCTTTTATATA
* *
59516398 TTATTTACTTTAAAT-TGTTTCATTTA
1 TTATTTATTTTAAATCT-TTT-ATATA
* *
59516424 TCATTTATTTTAAACCTTTT-TATA
1 TTATTTATTTTAAATCTTTTATATA
* *
59516448 TTATTTACTTTAAATTTTTT
1 TTATTTATTTTAAATCTTTT
59516468 TTACATATTA
Statistics
Matches: 284, Mismatches: 55, Indels: 66
0.70 0.14 0.16
Matches are distributed among these distances:
20 7 0.02
22 14 0.05
23 16 0.06
24 54 0.19
25 34 0.12
26 133 0.47
27 15 0.05
28 2 0.01
29 9 0.03
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
TTATTTATTTTAAATCTTTTATATA
Found at i:59516356 original size:50 final size:48
Alignment explanation
Indices: 59516279--59516467 Score: 183
Period size: 50 Copynumber: 3.9 Consensus size: 48
59516269 TTATATATTA
** *
59516279 TTTATTTTAAA-CTGTTTTATATTTTATTTA-TCTTAAATTTTTTCATAT
1 TTTATTTTAAACCAATTTT-TATATTATTTACT-TTAAATTTTTTCATAT
* * *
59516327 GGTTTATTTTGAACCAATTTGTATATTATTTATTTTAAATTTTTTCATAT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
* * *
59516377 ATTATTTTTAA--AATTTTTATATTATTTACTTTAAATTGTTTCATTTAT
1 TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCA--TAT
59516425 CATTTATTTTAAACC--TTTTTATATTATTTACTTTAAATTTTTT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTT
59516468 TTACATATTA
Statistics
Matches: 118, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
46 29 0.25
48 12 0.10
50 72 0.61
51 5 0.04
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (48 bp):
TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
Found at i:59516385 original size:23 final size:23
Alignment explanation
Indices: 59516359--59516429 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
59516349 ATATTATTTA
59516359 TTTTAAATTTTTTCATATATTAT
1 TTTTAAATTTTTTCATATATTAT
*
59516382 TTTTAAAATTTTT-ATATTATT-T
1 TTTTAAATTTTTTCATA-TATTAT
* * * *
59516404 ACTTTAAATTGTTTCATTTATCAT
1 -TTTTAAATTTTTTCATATATTAT
59516428 TT
1 TT
59516430 ATTTTAAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
22 4 0.11
23 30 0.81
24 3 0.08
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (23 bp):
TTTTAAATTTTTTCATATATTAT
Done.