Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 267 of 318
Found at i:84637994 original size:40 final size:40
Alignment explanation
Indices: 84637900--84638084 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
84637890 TATTCGAATA
*
84637900 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
84637941 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
84637981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
84638021 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
84638061 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
84638085 CTTGTGCAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 89 0.74
41 29 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:84638075 original size:80 final size:81
Alignment explanation
Indices: 84637902--84638084 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 81
84637892 TTCGAATAAT
* * *
84637902 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
* * *
84637967 TCGTGCGAGTTGCTAT
66 TCATGCGAGTTGCCAC
* * *
84637983 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATATCCGGGCTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGCA
* *
84638046 TTTATGCTAG-TGACCAC
65 TTCATGCGAGTTG-CCAC
84638063 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
84638085 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.03
80 56 0.63
81 30 0.34
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
TCATGCGAGTTGCCAC
Found at i:84640417 original size:48 final size:48
Alignment explanation
Indices: 84640320--84640417 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
84640310 ATGGGTACAC
* * **
84640320 ATACCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATGTCG
1 ATACCGATGCCATATCCCAGAGATGGTCTTATACGAAGCCTCACATCG
* * **
84640368 ATACCGATGCCATGTCCCTGAGATGGTCTTATACGGGGCCTCACATCG
1 ATACCGATGCCATATCCCAGAGATGGTCTTATACGAAGCCTCACATCG
84640416 AT
1 AT
84640418 GCCATGGCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
ATACCGATGCCATATCCCAGAGATGGTCTTATACGAAGCCTCACATCG
Found at i:84640553 original size:48 final size:49
Alignment explanation
Indices: 84640461--84640586 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
84640451 TCATATCAAC
** *
84640461 GCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAATGCCGAT
* * * *
84640509 GCCATATTCCAAATATGGTCTTACACTGGCA-CACGTATCAATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAATGCCGAT
* * * *
84640557 GACATGTCCCAGACATGGTCTTGCACTGGC
1 GCCATATCCCAGATATGGTCTTACACTGGC
84640587 TCCCATTACC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 61 0.95
49 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAATGCCGAT
Found at i:84652736 original size:40 final size:40
Alignment explanation
Indices: 84652681--84652822 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
84652671 TATTCGAATG
* * *
84652681 ATATCCAGGCTAAGTCCCAAAGGCATTTGTCCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
84652721 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
84652761 ATATCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
84652801 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
84652823 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.83
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:84660725 original size:39 final size:40
Alignment explanation
Indices: 84660624--84660725 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
84660614 TATTCGAATG
*
84660624 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
84660664 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
84660704 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
84660726 TACTTGGGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 15 0.25
40 42 0.71
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:84663222 original size:93 final size:94
Alignment explanation
Indices: 84662874--84663305 Score: 296
Period size: 95 Copynumber: 4.6 Consensus size: 94
84662864 TTTACAAAAC
* * * * *
84662874 TTAGATAAGTGCCTTAAATGGCTTAGCATTGTATCTAG-TATTAGACTTAGTGAGCAATTTCCTC
1 TTAGCTAAGTGCCTTAAAAGGCTTAGCAATATAT-TTGCTATTAGACTTAGTGAGCAATTTCCTC
* * * *
84662938 TCAGGGTGTCTGCTTTATAACTTCATTGAAT
65 TCA-GATATCTACTTTATAACTTTATTGAAT
* * * * * * *
84662969 TTAGCTAAGTGCCCTAATAA-GCTTAGCAGTATATCTGTTATTAGAATTAGTGAGTAGTTTCCTC
1 TTAGCTAAGTGCCTTAA-AAGGCTTAGCAATATATTTGCTATTAGACTTAGTGAGCAATTTCCTC
* *
84663033 TAAGAGTATCTACTTTATAA--ATATTGAATT
65 TCAGA-TATCTACTTTATAACTTTATTGAA-T
* * * * ** *
84663063 TTGGCTAAGTGCCTTAAAAGGC-TAG-AAGTA-ATTCTTCTATTACACATAGTGATTAGTTTCTT
1 TTAGCTAAGTGCCTTAAAAGGCTTAGCAA-TATATT-TGCTATTAGACTTAGTGAGCAATTTC--
*
84663125 CTCTCA-ATATCTACTTTATAACTTTGTTGAAT
62 CTCTCAGATATCTACTTTATAACTTTATTGAAT
* * *
84663157 TTAGCTACA-TGCCTTAAGAGGCTTAGCAATATATTTGCTATTAGACTTAATGAACAATTTCCTC
1 TTAGCTA-AGTGCCTTAAAAGGCTTAGCAATATATTTGCTATTAGACTTAGTGAGCAATTTCCTC
* * * *
84663221 TC-GAATTGTCTGCTCTATAGA---TATTGATTT
65 TCAG-A-TATCTACTTTATA-ACTTTATTGA-AT
* * * * * *
84663251 TTGGCTAAGTGCCTTAAAAGGCTTAGCAGTATATCTACTATTAGATTTAGCGAGC
1 TTAGCTAAGTGCCTTAAAAGGCTTAGCAATATATTTGCTATTAGACTTAGTGAGC
84663306 CTAAAAGGTG
Statistics
Matches: 264, Mismatches: 52, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
92 3 0.01
93 58 0.22
94 86 0.33
95 110 0.42
96 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (94 bp):
TTAGCTAAGTGCCTTAAAAGGCTTAGCAATATATTTGCTATTAGACTTAGTGAGCAATTTCCTCT
CAGATATCTACTTTATAACTTTATTGAAT
Found at i:84664446 original size:20 final size:20
Alignment explanation
Indices: 84664355--84664465 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
84664345 GATTAATAGT
* *
84664355 TTTCTCTAGGAGTTAATCAA-
1 TTTCCCTAGGAGTT-AGCAAC
**
84664375 TCTTCCCTAGGAGTTA-CGAGT
1 T-TTCCCTAGGAGTTAGC-AAC
* *
84664396 TTTCCCTAGAAGTTTAGTAATC
1 TTTCCCTAGGAG-TTAGCAA-C
*
84664418 TTT-CATAGGAGTTAGCAAC
1 TTTCCCTAGGAGTTAGCAAC
* *
84664437 TTTCCCTAGGAGTCAACAAC
1 TTTCCCTAGGAGTTAGCAAC
*
84664457 ATTCCCTAG
1 TTTCCCTAG
84664466 ATGTGGCGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
19 5 0.07
20 40 0.56
21 23 0.32
22 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (20 bp):
TTTCCCTAGGAGTTAGCAAC
Found at i:84667041 original size:40 final size:40
Alignment explanation
Indices: 84666996--84667163 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
84666986 CGGAATATAA
84666996 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84667036 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84667076 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84667116 CCGGATATAAATTC-C-AGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATAT-AA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
84667156 CCGGATAT
1 CCGGATAT
84667164 CATTCAATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 104 0.96
41 2 0.02
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84686193 original size:19 final size:19
Alignment explanation
Indices: 84686169--84686207 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
84686159 ATTTGAAAGA
*
84686169 ATCGCTCATCTTCATAAAC
1 ATCGCTCACCTTCATAAAC
84686188 ATCGCTCACCTTCATAAAC
1 ATCGCTCACCTTCATAAAC
84686207 A
1 A
84686208 ATCTTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCGCTCACCTTCATAAAC
Found at i:84716471 original size:26 final size:24
Alignment explanation
Indices: 84716435--84716498 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
84716425 CTCACCATAC
*
84716435 CTCGTATGAGCTTACCAATATATCAG
1 CTCGTAAGAGCTTA-CAAT-TATCAG
* *
84716461 CTCGTAAGAGCTTACTATTTTCAG
1 CTCGTAAGAGCTTACAATTATCAG
*
84716485 CTCGTTAGAGCTTA
1 CTCGTAAGAGCTTA
84716499 TTGTTTCAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 18 0.53
25 3 0.09
26 13 0.38
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (24 bp):
CTCGTAAGAGCTTACAATTATCAG
Found at i:84716489 original size:24 final size:24
Alignment explanation
Indices: 84716457--84716549 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 24
84716447 TACCAATATA
84716457 TCAGCTCGTAAGAGCTTACTAT-TT
1 TCAGCTCGTAAGAGCTTACT-TGTT
*
84716481 TCAGCTCGTTAGAGCTTA-TTGTT
1 TCAGCTCGTAAGAGCTTACTTGTT
*
84716504 TCAGCTC-AATAGAGCTTAC-TGTCT
1 TCAGCTCGTA-AGAGCTTACTTGT-T
* *
84716528 ATCAGCTCAGGAGGAGCTTACT
1 -TCAGCTC-GTAAGAGCTTACT
84716550 GATCATAGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
22 1 0.02
23 21 0.38
24 18 0.32
25 7 0.12
26 8 0.14
27 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTTGTT
Found at i:84716509 original size:23 final size:23
Alignment explanation
Indices: 84716457--84716535 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
84716447 TACCAATATA
*
84716457 TCAGCTCGTAAGAGCTTACTAT-TT
1 TCAGCTCGTTAGAGCTTA-T-TGTT
84716481 TCAGCTCGTTAGAGCTTATTGTT
1 TCAGCTCGTTAGAGCTTATTGTT
** *
84716504 TCAGCTCAATAGAGCTTACTGTCT
1 TCAGCTCGTTAGAGCTTATTGT-T
84716528 ATCAGCTC
1 -TCAGCTC
84716536 AGGAGGAGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.02
23 22 0.46
24 18 0.38
25 7 0.15
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (23 bp):
TCAGCTCGTTAGAGCTTATTGTT
Found at i:84718371 original size:36 final size:36
Alignment explanation
Indices: 84718331--84718399 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
84718321 AATCATGCCA
*
84718331 TACATACAACCAATCTCAAACCAAATAACACAACCG
1 TACATACAACCAATATCAAACCAAATAACACAACCG
*
84718367 TACATACAACCAATATCATACCAAATAACACAA
1 TACATACAACCAATATCAAACCAAATAACACAA
84718400 TCATGCATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.16
Consensus pattern (36 bp):
TACATACAACCAATATCAAACCAAATAACACAACCG
Found at i:84722986 original size:40 final size:40
Alignment explanation
Indices: 84722878--84723087 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
84722868 CGGGATTTAA
* * * * *
84722878 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
84722918 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84722958 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84722998 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84723038 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84723078 CCGGATATAT
1 CCGGATATAT
84723088 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:84737328 original size:46 final size:46
Alignment explanation
Indices: 84737278--84737453 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
84737268 TGGTTGAGCA
*
84737278 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
84737324 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
** *
84737371 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
84737417 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
84737454 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 62 0.59
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:84737434 original size:93 final size:93
Alignment explanation
Indices: 84737275--84737445 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
84737265 GGATGGTTGA
* * *
84737275 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
84737340 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
** * *
84737368 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
84737433 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84737446 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:84738943 original size:27 final size:27
Alignment explanation
Indices: 84738889--84738957 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
84738879 AAATAGCCAA
* * *
84738889 AAAGGTTATCCTTTCATAATTTACCAC
1 AAAGGCTATTCTTTCATAATTCACCAC
**
84738916 AAAGGCTATTCTTTCATAATTCGTCAC
1 AAAGGCTATTCTTTCATAATTCACCAC
84738943 AAAGGCTATTCTTTC
1 AAAGGCTATTCTTTC
84738958 CTGTCATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (27 bp):
AAAGGCTATTCTTTCATAATTCACCAC
Found at i:84739369 original size:14 final size:15
Alignment explanation
Indices: 84739343--84739371 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84739333 CTCAGCATAA
84739343 CAATTACTCATGCAC
1 CAATTACTCATGCAC
84739358 CAATTA-TCATGCAC
1 CAATTACTCATGCAC
84739372 TCTGACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (15 bp):
CAATTACTCATGCAC
Found at i:84739854 original size:23 final size:23
Alignment explanation
Indices: 84739827--84739872 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
84739817 TCATATACAT
84739827 TTTACAATCTTCTCAAACATTGA
1 TTTACAATCTTCTCAAACATTGA
*
84739850 TTTACCATCTTCTCAAACATTGA
1 TTTACAATCTTCTCAAACATTGA
84739873 CAACCTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (23 bp):
TTTACAATCTTCTCAAACATTGA
Found at i:84744724 original size:40 final size:40
Alignment explanation
Indices: 84744679--84744845 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
84744669 CGGAATATAA
84744679 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84744719 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84744759 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84744799 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84744838 CCGGATAT
1 CCGGATAT
84744846 CATTCAATTC
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84744829 original size:80 final size:79
Alignment explanation
Indices: 84744695--84744845 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
84744685 ATAATCACGT
*
84744695 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
84744760 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
84744775 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
84744838 CCGGATAT
64 CCGGATAT
84744846 CATTCAATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:84752729 original size:40 final size:40
Alignment explanation
Indices: 84752684--84752850 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
84752674 CGGAATATAA
84752684 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84752724 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84752764 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84752804 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84752843 CCGGATAT
1 CCGGATAT
84752851 CATTCAATTC
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84752834 original size:80 final size:79
Alignment explanation
Indices: 84752700--84752850 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
84752690 ATAATCACGT
*
84752700 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
84752765 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
84752780 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
84752843 CCGGATAT
64 CCGGATAT
84752851 CATTCAATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:84760818 original size:322 final size:322
Alignment explanation
Indices: 84760232--84760858 Score: 1085
Period size: 322 Copynumber: 1.9 Consensus size: 322
84760222 AATGTAGCAT
*
84760232 CCCTAACCCGTATCCGTCTCTAAAATGGGGTTACGAGGCATTACCGGACAAAACACAAATTTCAA
1 CCCTAACCCGTATCCGTCGCTAAAATGGGGTTACGAGGCATTACCGGACAAAACACAAATTTCAA
84760297 ACATTCACATATACATATATGTTATATTCACATAACTAAAACATGAATATATTTAAAACGTTAAA
66 ACATTCACATATACATATATGTTATATTCACATAACTAAAACATGAATATATTTAAAACGTTAAA
* *
84760362 TACATAATTTAAAAATCATAACACAAATATCAGTGAAAAATTCAAAGTCATTTATAATATACTTT
131 CACATAATTTAAAAATCATAACACAAATATCAATGAAAAATTCAAAGTCATTTATAATATACTTT
* *
84760427 TTAATACATACAAAATTCATGTATTATTATCATTAAAAAAACCTAATACCTCATAAAAATTTTAG
196 TTAATACATACAAAATTCATGTATTATTATCATTAAAAAAACCTAATACCTCAGAAAAATTTCAG
84760492 CATTTAACATCTCATTTATATACATGTGCTTAATATCCAAGCATACCTATAAAATATAACGC
261 CATTTAACATCTCATTTATATACATGTGCTTAATATCCAAGCATACCTATAAAATATAACGC
* * * *
84760554 CCCTAACTCGTATCCGTCGCTAGAATGGGGTTACGAGGCATTACTGGACAAAACACAAA-TTCTG
1 CCCTAACCCGTATCCGTCGCTAAAATGGGGTTACGAGGCATTACCGGACAAAACACAAATTTC-A
* * * *
84760618 AACATTCATATATACATATATGTTATATTCACATAACTAAAACATGAATCTGTTTAAAATGTTAA
65 AACATTCACATATACATATATGTTATATTCACATAACTAAAACATGAATATATTTAAAACGTTAA
*
84760683 ACACATAATTTAAAAATCATAACACAAATATCAATGAAAAATTCAAAGTCCTTTATAATATACTT
130 ACACATAATTTAAAAATCATAACACAAATATCAATGAAAAATTCAAAGTCATTTATAATATACTT
* *
84760748 TTTAATACATACAAAATTCATGTATTATTATCATTAAAGAAACCTAATACCTCAGAAAAGTTTCA
195 TTTAATACATACAAAATTCATGTATTATTATCATTAAAAAAACCTAATACCTCAGAAAAATTTCA
*
84760813 GCATTTAACATCTCATTTATATACATGTGCTTATTATCCAAGCATA
260 GCATTTAACATCTCATTTATATACATGTGCTTAATATCCAAGCATA
84760859 TCATACAACA
Statistics
Matches: 287, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
321 3 0.01
322 284 0.99
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (322 bp):
CCCTAACCCGTATCCGTCGCTAAAATGGGGTTACGAGGCATTACCGGACAAAACACAAATTTCAA
ACATTCACATATACATATATGTTATATTCACATAACTAAAACATGAATATATTTAAAACGTTAAA
CACATAATTTAAAAATCATAACACAAATATCAATGAAAAATTCAAAGTCATTTATAATATACTTT
TTAATACATACAAAATTCATGTATTATTATCATTAAAAAAACCTAATACCTCAGAAAAATTTCAG
CATTTAACATCTCATTTATATACATGTGCTTAATATCCAAGCATACCTATAAAATATAACGC
Found at i:84762663 original size:28 final size:28
Alignment explanation
Indices: 84762631--84762695 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
84762621 ATTTACTAGA
*
84762631 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
84762659 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
84762687 ATACCCCTA
1 ATACCCCTA
84762696 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:84762901 original size:29 final size:28
Alignment explanation
Indices: 84762811--84762901 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
84762801 CTGGTGGCTA
* * *
84762811 TGCCACAAATTATCTGTTCTGCTGGC-C
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
84762838 ATGCCAC-GTATATCTGTTCTGGTGGCAC
1 -TGCCACAAAATATCTGTTCTGGTGACAC
*
84762866 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
84762895 TGTCACA
1 TGCCACA
84762902 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.41
28 15 0.29
29 15 0.29
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:84771654 original size:85 final size:85
Alignment explanation
Indices: 84771531--84771978 Score: 621
Period size: 85 Copynumber: 5.3 Consensus size: 85
84771521 TGATCTAAAT
* *
84771531 TACGTGTAAGACTATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
1 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
84771596 CAGAGGCAACGATACTGAAA
66 CAGAGGCAACGATACTGAAA
* * * * * *
84771616 TACGTGTAAGACCATGTCTGAGACATCGACATCATATCTGTTTTCGTAAAAGTCCTTATCTGGGA
1 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
84771681 CAGAGGCAACGATACTGAAA
66 CAGAGGCAACGATACTGAAA
* * * * *
84771701 TACATGTAAGACCATGTCTGGGACATCAACATCGTATCTGTTTTCATAAAAGCCCCTATCTAGGA
1 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
* * *
84771766 CA-AAGCAATGATACTAAAA
66 CAGAGGCAACGATACTGAAA
* * *
84771785 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTATTTTCGTAAAAGACCTTGTCTGGGA
1 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
* * *
84771850 TACAGGCAATGATACTGAAA
66 CAGAGGCAACGATACTGAAA
* * *
84771870 TACGTGTAAGACCATGTCTGGGACATC-AGTATCGTATCTGTATTCGTATAAGACCCTGTCTAGG
1 TACGTGTAAGACCATGTCTGGGACATCGA-CATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGG
* *
84771934 ACAGAGGCATCGATACTGAAT
65 ACAGAGGCAACGATACTGAAA
*
84771955 TACATGTAAGACCATGTCTGGGAC
1 TACGTGTAAGACCATGTCTGGGAC
84771979 GTCAGCATTG
Statistics
Matches: 319, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
84 73 0.23
85 246 0.77
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (85 bp):
TACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGA
CAGAGGCAACGATACTGAAA
Found at i:84771836 original size:169 final size:170
Alignment explanation
Indices: 84771535--84771978 Score: 658
Period size: 169 Copynumber: 2.6 Consensus size: 170
84771525 CTAAATTACG
* *
84771535 TGTAAGACTATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGACAGA
1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGACAGA
* * *
84771600 GGCAACGATACTGAAATACGTGTAAGACCATGTCTGAGACATCGACATCATATCTGTTTTCGTAA
66 GGCAATGATACTGAAATACGTGTAAGACCATGTCTGGGACATCGACATCATATCTATTTTCGTAA
* *
84771665 AAGTCCTTATCTGGGACAGAGGCAACGATACTGAAATACA
131 AAGACCTTATCTGGGACACAGGCAACGATACTGAAATACA
* * * *
84771705 TGTAAGACCATGTCTGGGACATCAACATCGTATCTGTTTTCATAAAAGCCCCTATCTAGGACA-A
1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGACAGA
* * *
84771769 AGCAATGATACTAAAATACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTATTTTCGTAA
66 GGCAATGATACTGAAATACGTGTAAGACCATGTCTGGGACATCGACATCATATCTATTTTCGTAA
* * * *
84771834 AAGACCTTGTCTGGGATACAGGCAATGATACTGAAATACG
131 AAGACCTTATCTGGGACACAGGCAACGATACTGAAATACA
* * *
84771874 TGTAAGACCATGTCTGGGACATCAGTATCGTATCTGTATTCGTATAAGACCCTGTCTAGGACAGA
1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGACAGA
* *
84771939 GGC-ATCGATACTGAATTACATGTAAGACCATGTCTGGGAC
66 GGCAAT-GATACTGAAATACGTGTAAGACCATGTCTGGGAC
84771979 GTCAGCATTG
Statistics
Matches: 243, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
169 152 0.63
170 91 0.37
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (170 bp):
TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTAGGACAGA
GGCAATGATACTGAAATACGTGTAAGACCATGTCTGGGACATCGACATCATATCTATTTTCGTAA
AAGACCTTATCTGGGACACAGGCAACGATACTGAAATACA
Found at i:84778649 original size:85 final size:85
Alignment explanation
Indices: 84778506--84779053 Score: 787
Period size: 85 Copynumber: 6.4 Consensus size: 85
84778496 TGGTATTGAT
* * * * *
84778506 CTGAATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTTTTTGTAAAAGACCCTAT
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
*
84778571 TTGGGACAGAGG-AGACGATA
66 CTGGGACAGAGGCA-ACGATA
84778591 CTGAAATACGTGTAAGACCATGTCTGGGACA-CTGGCATCGTATCTGTTTTCGTAAAAGACCCTG
1 CTGAAATACGTGTAAGACCATGTCTGGGACATC-GGCATCGTATCTGTTTTCGTAAAAGACCCTG
* *
84778655 TCTGGGATAGAGGCAATGATA
65 TCTGGGACAGAGGCAACGATA
*
84778676 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTATTTTCGTAAAAGACCCTGT
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
84778741 CTGGGACAGAGGCAACGATA
66 CTGGGACAGAGGCAACGATA
* * *
84778761 CTGAAATACGTGTAAGACCATGTCTAGGACATCGACATCGTATCTGTTTTCATAAAAGACCCTGT
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
84778826 CTGGGACAGAGGCAACGATA
66 CTGGGACAGAGGCAACGATA
** *
84778846 CTGAAGCACGTGTAAGACCATCTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
84778911 CTGGGACAGAGGCAACGATA
66 CTGGGACAGAGGCAACGATA
* * * *
84778931 CTGGAATACGTGTAAGACCATGTCTGGGACATCAGTATCGTATCTGTATTT-GTATAAGACCCTG
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGT-TTTCGTAAAAGACCCTG
** *
84778995 TCTATGACAGAGGCATCGATA
65 TCTGGGACAGAGGCAACGATA
* * * * * * *
84779016 CTGAATTACATGTAACACTACGTCTAGGACGTCGGCAT
1 CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCAT
84779054 TGTACTTTTC
Statistics
Matches: 418, Mismatches: 41, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
85 413 0.99
86 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (85 bp):
CTGAAATACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGT
CTGGGACAGAGGCAACGATA
Found at i:84778997 original size:42 final size:42
Alignment explanation
Indices: 84778603--84778997 Score: 136
Period size: 42 Copynumber: 9.3 Consensus size: 42
84778593 GAAATACGTG
*
84778603 TAAGACCATGTCTGGGACA-CTGGCATCGTATCTGT-TTTCGTA
1 TAAGACCATGTCTGGGACATC-AGCATCGTATCTGTATTT-GTA
* * * * * ** *
84778645 AAAGACCCTGTCTGGGATA-GAGGCAAT-G-ATACTGAAATACGTG
1 TAAGACCATGTCTGGGACATCA-GC-ATCGTAT-CTG-TATTTGTA
* *
84778688 TAAGACCATGTCTGGGACATCGGCATCGTATCTAT-TTTCGTA
1 TAAGACCATGTCTGGGACATCAGCATCGTATCTGTATTT-GTA
* * * * * ** *
84778730 AAAGACCCTGTCTGGGACA-GAGGCAACG-ATACTGAAATACGTG
1 TAAGACCATGTCTGGGACATCA-GCATCGTAT-CTG-TATTTGTA
* *
84778773 TAAGACCATGTCTAGGACATC-GACATCGTATCTGT-TTTCATA
1 TAAGACCATGTCTGGGACATCAG-CATCGTATCTGTATTT-GTA
* * * * * *** *
84778815 AAAGACCCTGTCTGGGACA-GAGGCAACG-ATACTGAAGCACGTG
1 TAAGACCATGTCTGGGACATCA-GCATCGTAT-CTGTA-TTTGTA
* *
84778858 TAAGACCATCTCTGGGACATCGGCATCGTATCTGT-TTTCGTA
1 TAAGACCATGTCTGGGACATCAGCATCGTATCTGTATTT-GTA
* * * * * ** *
84778900 AAAGACCCTGTCTGGGACA-GAGGCAACG-ATACTGGAATACGTG
1 TAAGACCATGTCTGGGACATCA-GCATCGTAT-CT-GTATTTGTA
*
84778943 TAAGACCATGTCTGGGACATCAGTATCGTATCTGTATTTGTA
1 TAAGACCATGTCTGGGACATCAGCATCGTATCTGTATTTGTA
*
84778985 TAAGACCCTGTCT
1 TAAGACCATGTCT
84778998 ATGACAGAGG
Statistics
Matches: 241, Mismatches: 81, Indels: 62
0.63 0.21 0.16
Matches are distributed among these distances:
41 10 0.04
42 117 0.49
43 102 0.42
44 12 0.05
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATCAGCATCGTATCTGTATTTGTA
Found at i:84779984 original size:20 final size:20
Alignment explanation
Indices: 84779941--84779984 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
84779931 TGACTTTGTC
* *
84779941 AGTTTTGAAAAGTTTGATTA
1 AGTTTTAAAAAGTTTGAATA
* *
84779961 AGTTTTAAAAATTTTGAATG
1 AGTTTTAAAAAGTTTGAATA
84779981 AGTT
1 AGTT
84779985 CGGTTTAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (20 bp):
AGTTTTAAAAAGTTTGAATA
Found at i:84782757 original size:49 final size:49
Alignment explanation
Indices: 84782697--84782859 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
84782687 TACATATGTG
* * *
84782697 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
84782746 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
84782789 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
84782835 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
84782860 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:84782795 original size:40 final size:40
Alignment explanation
Indices: 84782751--84782832 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
84782741 GTATATGTGA
84782751 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
84782791 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
84782831 TA
1 TA
84782833 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:84783005 original size:37 final size:37
Alignment explanation
Indices: 84782955--84783039 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
84782945 GGAATATGTT
*
84782955 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
84782992 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
84783029 CTGGGTAAGAC
1 CCGGGTAAGAC
84783040 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:84790087 original size:49 final size:49
Alignment explanation
Indices: 84789997--84790211 Score: 316
Period size: 49 Copynumber: 4.5 Consensus size: 49
84789987 TTAGGATTTT
* *
84789997 ATGTGATGAATGTGAACA-TG--CGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATGTATATGTGATAAGGCCGAATGGCCA
84790044 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
84790093 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
* * *
84790142 ATGTGATGAATGTGAAA--GTATATATATATGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
84790189 ATGTGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
84790212 AACTGTGATA
Statistics
Matches: 156, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
46 1 0.01
47 57 0.37
48 3 0.02
49 95 0.61
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:84796157 original size:43 final size:42
Alignment explanation
Indices: 84795990--84796144 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
84795980 ATATCGTACA
* * * *
84795990 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTA-ATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATC-ACATATCG
* * * *
84796033 ATGCC-ACTGTCCTAGATAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
84796074 ATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
*
84796117 ATGCCAACGTCCCAGATATGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
84796145 TGAGAACACA
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
41 26 0.29
42 16 0.18
43 49 0.54
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:84799718 original size:40 final size:40
Alignment explanation
Indices: 84799499--84799696 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
84799489 TCGAATGATG
* * *
84799499 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTCACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
84799539 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
84799579 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
84799619 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
84799659 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
84799697 TAACCGGGCT
Statistics
Matches: 144, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 133 0.92
41 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84799724 original size:40 final size:40
Alignment explanation
Indices: 84799499--84799724 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
84799489 TCGAATGATG
* *
84799499 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
84799539 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84799579 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84799619 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84799659 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
84799700 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84799725 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.94
41 9 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84799738 original size:40 final size:40
Alignment explanation
Indices: 84799592--84799743 Score: 114
Period size: 40 Copynumber: 3.8 Consensus size: 40
84799582 AGACTAAGAT
** * * *
84799592 CCGAAGGCATTTGTGCGAGTTACTA-AATCTGGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGA-TAAG-TC
** *
84799632 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
84799672 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
84799712 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
84799744 TTAAACTCCG
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.91
41 6 0.06
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:84801473 original size:2 final size:2
Alignment explanation
Indices: 84801466--84801499 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
84801456 ATGAAAGAGA
84801466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84801500 TGTTGTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84802005 original size:3 final size:3
Alignment explanation
Indices: 84801997--84802038 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
84801987 TGCAATCTAA
84801997 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84802039 GCATATGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84807462 original size:22 final size:22
Alignment explanation
Indices: 84807409--84807454 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
84807399 TTAATAAATT
84807409 TAAAGATTTGTTATTTATTGAA
1 TAAAGATTTGTTATTTATTGAA
84807431 TAAAGATTTGTTATTTATTGAA
1 TAAAGATTTGTTATTTATTGAA
84807453 TA
1 TA
84807455 TTGATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (22 bp):
TAAAGATTTGTTATTTATTGAA
Found at i:84807736 original size:43 final size:43
Alignment explanation
Indices: 84807672--84807812 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 43
84807662 CACAAACTGG
*
84807672 AACATGACCTTTAGC-AGCGCTTTTCCCATAAACGCCGCTAAAA
1 AACATGACCTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAA
* * *
84807715 AACATGACCTTTAGCGACGCTTTTCCCACAGACGCCACTAAAG
1 AACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAA
* * * *
84807758 AACATGACTTTTAACGGCGCTTTTCTCACAAACGCCGCTAAAA
1 AACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAA
*
84807801 ATCATGACCTTT
1 AACATGACCTTT
84807813 TAAAAAATTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 83 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (43 bp):
AACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAA
Found at i:84809364 original size:24 final size:26
Alignment explanation
Indices: 84809337--84809388 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
84809327 TATCATTTAT
84809337 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATACATATA
**
84809361 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATACATATA
84809387 TT
1 TT
84809389 TATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATACATATA
Found at i:84809391 original size:24 final size:25
Alignment explanation
Indices: 84809331--84809419 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
84809321 TATATATATC
84809331 ATTTAT-T-TATT-TTAAAAA-ACT
1 ATTTATATATATTATTAAAAATACT
**
84809352 ATACATATATTATTATTAAAAATACT
1 ATTTATATA-TATTATTAAAAATACT
**
84809378 ATTTATATAT-TTATATAAAAATTTT
1 ATTTATATATATTAT-TAAAAATACT
84809403 ATTTATCATATATTATT
1 ATTTAT-ATATATTATT
84809420 TTCCTATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
21 4 0.07
22 1 0.02
24 8 0.15
25 22 0.41
26 15 0.28
27 4 0.07
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTATATATATTATTAAAAATACT
Found at i:84809460 original size:41 final size:41
Alignment explanation
Indices: 84809383--84809460 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
84809373 ATACTATTTA
* * *
84809383 TATATTTATATAAAAATTTTATTTATCATATATTATTTTCC
1 TATATATATATAAAAATTTTATTTATAACATATTATTTTCC
* *
84809424 TATATATATATATATATTTTATTATATAACAT-TTATT
1 TATATATATATAAAAATTTTATT-TATAACATATTATT
84809461 ATATTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 25 0.81
42 6 0.19
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (41 bp):
TATATATATATAAAAATTTTATTTATAACATATTATTTTCC
Found at i:84809483 original size:24 final size:24
Alignment explanation
Indices: 84809436--84809495 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
84809426 TATATATATA
*
84809436 TATATTTTATTATATAACATTTAT
1 TATATTTTATTATATAACACTTAT
**
84809460 TATATTTTATTATATATTACTTAT
1 TATATTTTATTATATAACACTTAT
84809484 T-T-TTTTA-TATAT
1 TATATTTTATTATAT
84809496 GTTATGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.15
22 5 0.15
23 1 0.03
24 22 0.67
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATTTTATTATATAACACTTAT
Found at i:84809781 original size:22 final size:21
Alignment explanation
Indices: 84809749--84809802 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
84809739 TTTTTAACCA
84809749 ATATATT-TTA-T-TTTTA-T
1 ATATATTATTATTATTTTATT
84809766 ATATAATTATTATTATTTTATT
1 ATAT-ATTATTATTATTTTATT
84809788 ATATATTATATATTA
1 ATATATTAT-TATTA
84809803 AATACTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 3 0.10
20 1 0.03
21 10 0.32
22 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATTATTATTATTTTATT
Found at i:84809826 original size:25 final size:28
Alignment explanation
Indices: 84809792--84809842 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
84809782 TTTATTATAT
84809792 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
84809818 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
84809843 TTTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:84809828 original size:12 final size:13
Alignment explanation
Indices: 84809756--84809832 Score: 61
Period size: 12 Copynumber: 6.1 Consensus size: 13
84809746 CCAATATATT
* *
84809756 TTATTTTTATATA
1 TTATTATTAAATA
* *
84809769 TAATTATT-ATTA
1 TTATTATTAAATA
*
84809781 TT-TTATTATATA
1 TTATTATTAAATA
84809793 TTATATATTAAATA
1 TTAT-TATTAAATA
* *
84809807 CTATTTTTAAA-A
1 TTATTATTAAATA
84809819 TTATTATTAAATA
1 TTATTATTAAATA
84809832 T
1 T
84809833 CATATTTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
11 5 0.10
12 17 0.35
13 15 0.31
14 11 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTATTAAATA
Found at i:84812614 original size:15 final size:16
Alignment explanation
Indices: 84812588--84812618 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
84812578 TCTCTCTTGC
84812588 TTTTAGATCATATATA
1 TTTTAGATCATATATA
84812604 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
84812619 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:84815132 original size:3 final size:3
Alignment explanation
Indices: 84815124--84815185 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
84815114 CCCATTAAAC
84815124 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84815172 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
84815186 GCAAAGCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:84816032 original size:40 final size:40
Alignment explanation
Indices: 84815977--84816060 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
84815967 TAAATTAATT
* *
84815977 TTTTGCGGCGTTTTTATCATAAACACCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACACCGCTAATGCTTGAC
* * *
84816017 TTTTGTGGCGTTTTTATCATAAACGCTGCTAATGCTTGAC
1 TTTTGCGGCGTTTTTATCATAAACACCGCTAATGCTTGAC
84816057 TTTT
1 TTTT
84816061 TTTATAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACACCGCTAATGCTTGAC
Found at i:84816426 original size:7 final size:7
Alignment explanation
Indices: 84816414--84816541 Score: 50
Period size: 7 Copynumber: 18.0 Consensus size: 7
84816404 ACTAATTAAT
84816414 CTAAACC
1 CTAAACC
84816421 CTAAACC
1 CTAAACC
*
84816428 CTTAACTC
1 CTAAAC-C
*
84816436 CT-ATCC
1 CTAAACC
84816442 CTTAAACC
1 C-TAAACC
*
84816450 CTAAATC
1 CTAAACC
*
84816457 ATACAA-C
1 CTA-AACC
*
84816464 ATAAACC
1 CTAAACC
*
84816471 CT-AAGC
1 CTAAACC
*
84816477 CAATAACC
1 CTA-AACC
*
84816485 CTTAACC
1 CTAAACC
84816492 CGT-AACAC
1 C-TAAAC-C
84816500 CTAAACC
1 CTAAACC
*
84816507 TTAAACC
1 CTAAACC
*
84816514 C-CAACC
1 CTAAACC
84816520 CTTAAACC
1 C-TAAACC
*
84816528 ATAAACC
1 CTAAACC
*
84816535 ATAAACC
1 CTAAACC
84816542 ATAATCATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
6 13 0.14
7 57 0.61
8 23 0.25
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:84816532 original size:28 final size:28
Alignment explanation
Indices: 84816488--84816541 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
84816478 AATAACCCTT
*
84816488 AACCCGTAACACCTAAACCTTAAACCCC
1 AACCCGTAACACCTAAACCATAAACCCC
*
84816516 AACCCTTAA-ACCATAAACCATAAACC
1 AACCCGTAACACC-TAAACCATAAACC
84816542 ATAATCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.15
Consensus pattern (28 bp):
AACCCGTAACACCTAAACCATAAACCCC
Found at i:84816542 original size:7 final size:7
Alignment explanation
Indices: 84816522--84816645 Score: 54
Period size: 7 Copynumber: 17.4 Consensus size: 7
84816512 CCCCAACCCT
84816522 TAAACCA
1 TAAACCA
84816529 TAAACCA
1 TAAACCA
84816536 TAAACCA
1 TAAACCA
*
84816543 T-AATCA
1 TAAACCA
84816549 TTAAACCCA
1 -TAAA-CCA
**
84816558 TAATTCA
1 TAAACCA
*
84816565 TAATCCA
1 TAAACCA
*
84816572 TAAACCT
1 TAAACCA
**
84816579 TAAAATA
1 TAAACCA
* *
84816586 GAAACTCC
1 TAAAC-CA
*
84816594 TAAACCT
1 TAAACCA
*
84816601 TAAACCC
1 TAAACCA
*
84816608 TAAACTA
1 TAAACCA
* *
84816615 TATACCC
1 TAAACCA
*
84816622 TAAGCCA
1 TAAACCA
84816629 TAAATCC-
1 TAAA-CCA
*
84816636 TAAACTA
1 TAAACCA
84816643 TAA
1 TAA
84816646 TGATAATTAA
Statistics
Matches: 84, Mismatches: 27, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
6 5 0.06
7 66 0.79
8 11 0.13
9 2 0.02
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:84816558 original size:22 final size:22
Alignment explanation
Indices: 84816526--84816577 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
84816516 AACCCTTAAA
84816526 CCATAAA-CCATAAACCATAAT
1 CCATAAACCCATAAACCATAAT
**
84816547 -CATTAAACCCATAATTCATAAT
1 CCA-TAAACCCATAAACCATAAT
84816569 CCATAAACC
1 CCATAAACC
84816578 TTAAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.08
21 4 0.15
22 18 0.69
23 2 0.08
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAACCCATAAACCATAAT
Found at i:84816581 original size:29 final size:28
Alignment explanation
Indices: 84816501--84816645 Score: 76
Period size: 29 Copynumber: 5.1 Consensus size: 28
84816491 CCGTAACACC
* ** *
84816501 TAAACCTTAAACCCCAACCCTTAAACCA
1 TAAACCATAAACCATAAACCTTAAACCA
* *
84816529 TAAACCATAAACCATAATCATTAAACCCA
1 TAAACCATAAACCATAAACCTTAAA-CCA
** * **
84816558 TAATTCATAATCCATAAACCTTAAAATA
1 TAAACCATAAACCATAAACCTTAAACCA
* * * * *
84816586 GAAACTCCTAAACCTTAAACCCTAAACTA
1 TAAAC-CATAAACCATAAACCTTAAACCA
* * * *
84816615 TATACCCTAAGCCATAAATCC-TAAACTA
1 TAAACCATAAACCATAAA-CCTTAAACCA
84816643 TAA
1 TAA
84816646 TGATAATTAA
Statistics
Matches: 89, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
28 43 0.48
29 46 0.52
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (28 bp):
TAAACCATAAACCATAAACCTTAAACCA
Found at i:84816632 original size:28 final size:29
Alignment explanation
Indices: 84816569--84816645 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
84816559 AATTCATAAT
* * *
84816569 CCATAAACCTTAAAATAGAAACTCCTAAA
1 CCATAAACCCTAAACTATAAACTCCTAAA
* * *
84816598 CCTTAAACCCTAAACTATATAC-CCTAAG
1 CCATAAACCCTAAACTATAAACTCCTAAA
*
84816626 CCATAAATCCTAAACTATAA
1 CCATAAACCCTAAACTATAA
84816646 TGATAATTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (29 bp):
CCATAAACCCTAAACTATAAACTCCTAAA
Found at i:84816992 original size:40 final size:40
Alignment explanation
Indices: 84816948--84817069 Score: 165
Period size: 40 Copynumber: 3.0 Consensus size: 40
84816938 AATATATTTT
*
84816948 GCGGCGCTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGATTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
*
84816988 GCGGCGATTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGATTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * *
84817028 GCGAC-ATTTTTCAGATAGCACCGCTAATGCTTGATCTATA
1 GCGGCGATTTTT-AAAAAGCGCCGCTAATGCTCGATCTATA
84817068 GC
1 GC
84817070 TGTGTTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.07
40 68 0.93
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
GCGGCGATTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:84823176 original size:40 final size:39
Alignment explanation
Indices: 84823131--84823259 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
84823121 GGAACATAAT
84823131 CGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGCC
* * * *
84823171 CGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGCC
* * * * *
84823211 CGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGCC
84823251 CGGATATAA
1 CGGATATAA
84823260 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 68 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGCC
Found at i:84823274 original size:40 final size:40
Alignment explanation
Indices: 84823146--84823297 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
84823136 ATAACCATGT
* * *
84823146 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
84823186 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
84823226 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
84823266 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
84823298 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:84823280 original size:80 final size:80
Alignment explanation
Indices: 84823146--84823295 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
84823136 ATAACCATGT
*
84823146 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
84823210 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
84823226 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
84823289 CCCGGAT
64 CCCGGAT
84823296 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:84825403 original size:25 final size:27
Alignment explanation
Indices: 84825366--84825418 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
84825356 TCAAACATGC
84825366 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
84825392 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
84825418 A
1 A
84825419 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:84826943 original size:26 final size:26
Alignment explanation
Indices: 84826905--84827014 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
84826895 CATGAAATTC
*
84826905 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
84826931 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
84826957 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
84826983 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
84827009 TTATCA
1 TTATCA
84827015 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:84862608 original size:124 final size:124
Alignment explanation
Indices: 84862386--84862610 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
84862376 GAATTATGTG
* * * ** * * *
84862386 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
84862451 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
84862510 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
84862575 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
84862611 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:84862732 original size:40 final size:40
Alignment explanation
Indices: 84862605--84862734 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
84862595 ATGCTGGAAA
* *
84862605 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
84862645 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
84862685 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
84862725 TTATATCCGG
1 TTATATCCGG
84862735 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:84862733 original size:80 final size:80
Alignment explanation
Indices: 84862567--84862734 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
84862557 CAATTGAATG
* * *
84862567 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
84862632 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
84862647 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
84862711 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
84862727 ATATCCGG
1 ATATCCGG
84862735 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:84874660 original size:27 final size:28
Alignment explanation
Indices: 84874604--84874673 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
84874594 AAACTTGTAC
84874604 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
84874632 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
84874659 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
84874674 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:84874684 original size:27 final size:27
Alignment explanation
Indices: 84874604--84874685 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
84874594 AAACTTGTAC
* *
84874604 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
84874632 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
84874659 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
84874686 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:84888033 original size:6 final size:6
Alignment explanation
Indices: 84888022--84888050 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
84888012 CGGTCACCCC
84888022 TTCCCT TTCCCT TTCCCT TTCCCT TTCCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCCC
84888051 CTGCTCACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TTCCCT
Found at i:84888249 original size:27 final size:27
Alignment explanation
Indices: 84888188--84888254 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
84888178 TTTGCCCTTT
* *
84888188 TTCATTTTGTTTTATTTTATTAATTATT
1 TTCATTTT-ATTTATTTTATTAATTATC
* *
84888216 TTTATTTTATTTATTTTA-TCATTATGC
1 TTCATTTTATTTATTTTATTAATTAT-C
*
84888243 TTCATTTGATTT
1 TTCATTTTATTT
84888255 TTATTTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.19
27 19 0.59
28 7 0.22
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (27 bp):
TTCATTTTATTTATTTTATTAATTATC
Found at i:84888572 original size:17 final size:18
Alignment explanation
Indices: 84888539--84888575 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
84888529 TCTTTTAGGA
*
84888539 TCATTATCTATTTTATTT
1 TCATTATCGATTTTATTT
84888557 TCATTATCGA-TTTATTT
1 TCATTATCGATTTTATTT
84888574 TC
1 TC
84888576 TTTTGTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.62
Consensus pattern (18 bp):
TCATTATCGATTTTATTT
Found at i:84889963 original size:12 final size:12
Alignment explanation
Indices: 84889946--84889970 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84889936 ATTTTATTTG
84889946 TTTTCTTTTTTA
1 TTTTCTTTTTTA
84889958 TTTTCTTTTTTA
1 TTTTCTTTTTTA
84889970 T
1 T
84889971 ATGTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTA
Found at i:84895783 original size:12 final size:12
Alignment explanation
Indices: 84895765--84895795 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
84895755 AACTCAATCA
84895765 ATTTTTTTTTC-
1 ATTTTTTTTTCT
84895776 ATTTTTTTTTCT
1 ATTTTTTTTTCT
84895788 ATTTTTTT
1 ATTTTTTT
84895796 AGAGAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (12 bp):
ATTTTTTTTTCT
Found at i:84896269 original size:17 final size:17
Alignment explanation
Indices: 84896229--84896270 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
84896219 TATAATTTAG
*
84896229 ATGTAAAATATACTAAA
1 ATGTAAAATAAACTAAA
*
84896246 ATATAAAATAAACTAGAA
1 ATGTAAAATAAACTA-AA
84896264 A-GTAAAA
1 ATGTAAAA
84896271 ATGGAGTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (17 bp):
ATGTAAAATAAACTAAA
Found at i:84896395 original size:17 final size:18
Alignment explanation
Indices: 84896369--84896402 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84896359 TAGAACCAAG
84896369 ATATAGAT-AAATAAAAT
1 ATATAGATAAAATAAAAT
*
84896386 ATATATATAAAATAAAA
1 ATATAGATAAAATAAAA
84896403 AATTTTATAA
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATAGATAAAATAAAAT
Found at i:84905800 original size:40 final size:39
Alignment explanation
Indices: 84905709--84905859 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
84905699 ATCACGATTT
*
84905709 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
84905749 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * * ** *
84905789 GCACAATTGCCTTCCGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
84905829 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
84905860 TCATTCAATT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:84944335 original size:46 final size:46
Alignment explanation
Indices: 84944251--84944418 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
84944241 TCTTGTAGCT
* * *
84944251 GATGCATGTTCCAAACATGTCTTACACTGGT-T-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACT-ATCTCT-CATCTCGAGGCC
* **
84944297 GATGCATGTCCCAGACATGTCTTACACTATCTCTCATCTCAATTCC
1 GATGCATGTCCCAGACATGTCTTACACTATCTCTCATCTCGAGGCC
* * * * * *
84944343 TATCCATGTCCCAGACATGGTCTTACACTTTCCCTCATAAT-GTGGCC
1 GATGCATGTCCCAGACAT-GTCTTACACTATCTCTCAT-CTCGAGGCC
* * *
84944390 AATGCACGTCCCAGACATGTTTTACACTA
1 GATGCATGTCCCAGACATGTCTTACACTA
84944419 GTACACAAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 61 0.62
47 35 0.36
48 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTATCTCTCATCTCGAGGCC
Found at i:84945262 original size:15 final size:15
Alignment explanation
Indices: 84945242--84945270 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
84945232 ATGGAGAAGA
84945242 AAGATGACCCATTTC
1 AAGATGACCCATTTC
84945257 AAGATGACCCATTT
1 AAGATGACCCATTT
84945271 GATTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
AAGATGACCCATTTC
Found at i:84953066 original size:48 final size:46
Alignment explanation
Indices: 84952988--84953104 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 46
84952978 GAGGCCGATG
* * *
84952988 CATGTCTCAGACATGTCTTACACTAGCTCTCGTATTAAT-GCTGATAC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAGT-ATGGCTGAT-C
* * *
84953035 CATGTCCCAGACATGGTCTTACATTGGCTCTCATAGTATGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAGTATGGCTGATC
*
84953082 CATGTTCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
84953105 CAGCACACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
46 8 0.13
47 28 0.47
48 24 0.40
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAGTATGGCTGATC
Found at i:84963992 original size:16 final size:16
Alignment explanation
Indices: 84963971--84964002 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
84963961 ATCCCTCTAC
84963971 ATAGATTATGGTATAT
1 ATAGATTATGGTATAT
84963987 ATAGATTATGGTATAT
1 ATAGATTATGGTATAT
84964003 CCAACATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATAGATTATGGTATAT
Found at i:84970324 original size:16 final size:16
Alignment explanation
Indices: 84970280--84970329 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
84970270 GTTATATTCA
* *
84970280 AACCGGTTGAGCTTCC
1 AACCGATTGAGCTTCT
* *
84970296 AACCGACTAAGCTTCT
1 AACCGATTGAGCTTCT
84970312 AACCGATTGAGCTTCT
1 AACCGATTGAGCTTCT
84970328 AA
1 AA
84970330 TAATTTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (16 bp):
AACCGATTGAGCTTCT
Found at i:84971584 original size:23 final size:23
Alignment explanation
Indices: 84971534--84971699 Score: 160
Period size: 23 Copynumber: 7.3 Consensus size: 23
84971524 TATTTGATTG
*
84971534 TATATTTGG-TGTGTTGGGAGGC
1 TATATTTGGTTGTGTTTGGAGGC
* * *
84971556 TCTATTTGGTTGTGTTTGGATGA
1 TATATTTGGTTGTGTTTGGAGGC
* * *
84971579 TATATTTCGTTGTATTGGGAGGC
1 TATATTTGGTTGTGTTTGGAGGC
*
84971602 TATATTTGGTTGTGTTTGGAGGG
1 TATATTTGGTTGTGTTTGGAGGC
* *
84971625 TATATTTGGTTGT-ATTGGAGGG
1 TATATTTGGTTGTGTTTGGAGGC
* * *
84971647 TATGTTTGGTTGTGTTTTGAACGC
1 TATATTTGGTTGTG-TTTGGAGGC
*
84971671 -A-AATTGGTTGTGTTTGGAGGC
1 TATATTTGGTTGTGTTTGGAGGC
*
84971692 TATGTTTG
1 TATATTTG
84971700 TTTCTGTTCG
Statistics
Matches: 113, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.06
22 38 0.34
23 63 0.56
24 5 0.04
ACGTcount: A:0.15, C:0.04, G:0.34, T:0.46
Consensus pattern (23 bp):
TATATTTGGTTGTGTTTGGAGGC
Found at i:84977571 original size:19 final size:19
Alignment explanation
Indices: 84977534--84977581 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
84977524 TCTTTATCAT
*
84977534 TTATCATTTA--TCGGGCA
1 TTATCATTTATTTCAGGCA
84977551 TTATCATTTATTTCAGGCA
1 TTATCATTTATTTCAGGCA
84977570 TTATCATTTATT
1 TTATCATTTATT
84977582 GGGCTTTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 10 0.36
19 18 0.64
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (19 bp):
TTATCATTTATTTCAGGCA
Found at i:84977617 original size:2 final size:2
Alignment explanation
Indices: 84977610--84977659 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
84977600 CTTCTATGTC
84977610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
84977651 AT AT TT AT A
1 AT AT AT AT A
84977660 CAATTCACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84977851 original size:21 final size:21
Alignment explanation
Indices: 84977825--84977870 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
84977815 TATACGAGTA
*
84977825 AATTT-AACATCAATTTAATAC
1 AATTTAAAC-TCAATTCAATAC
*
84977846 AATTTAAACTCAATTCAATCC
1 AATTTAAACTCAATTCAATAC
84977867 AATT
1 AATT
84977871 CACATCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTAAACTCAATTCAATAC
Found at i:84985561 original size:22 final size:22
Alignment explanation
Indices: 84985536--84985579 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
84985526 AAAACACAAT
84985536 AAACTCAACAGGAAAATTCTTA
1 AAACTCAACAGGAAAATTCTTA
*
84985558 AAACTCAACAGGCAAATTCTTA
1 AAACTCAACAGGAAAATTCTTA
84985580 CTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (22 bp):
AAACTCAACAGGAAAATTCTTA
Found at i:84988067 original size:40 final size:40
Alignment explanation
Indices: 84988006--84988141 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
84987996 TCGAGAATAT
* *
84988006 AAAGTGGATAGGATTCATTCCTGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTATTCCTGATTCACTATAATAACTC
* ** * *
84988046 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTATTCCTGATTCACTATAATAACTC
* * ** *
84988086 AAAGTGAATAGGATTTATTCCTAATTCACTATGGTAACTT
1 AAAGTGGATAGGATTTATTCCTGATTCACTATAATAACTC
* *
84988126 AAGGTGAATAGGATTT
1 AAAGTGGATAGGATTT
84988142 GACCTGAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (40 bp):
AAAGTGGATAGGATTTATTCCTGATTCACTATAATAACTC
Found at i:84991785 original size:46 final size:47
Alignment explanation
Indices: 84991718--84991837 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
84991708 ATTCATATAT
* * * * *
84991718 CGATGCCATAGCCGAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * * *
84991764 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
*
84991811 CAATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
84991838 TACGGAAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 25 0.40
47 37 0.60
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:84991901 original size:31 final size:31
Alignment explanation
Indices: 84991866--84992045 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
84991856 CTTGTCATTT
* *
84991866 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * *
84991897 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
84991928 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
84991959 GTAGCCAGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
84991990 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
84992021 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
84992046 TGTCATTTGT
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.04
31 131 0.94
32 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:84996618 original size:39 final size:39
Alignment explanation
Indices: 84996575--84996652 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
84996565 ATATAATGTT
84996575 TGAATTGAATATATGAAATGTACGGATGTTGAAATGAAA
1 TGAATTGAATATATGAAATGTACGGATGTTGAAATGAAA
*
84996614 TGAATTGAATATATGAAATGTAGGGATGTTGAAATGAAA
1 TGAATTGAATATATGAAATGTACGGATGTTGAAATGAAA
84996653 GAAATAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.01, G:0.24, T:0.31
Consensus pattern (39 bp):
TGAATTGAATATATGAAATGTACGGATGTTGAAATGAAA
Found at i:84996874 original size:40 final size:39
Alignment explanation
Indices: 84996813--84996950 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 39
84996803 CTCAAGAATA
* *
84996813 TAAAGTGTATAGGATTCGTTCCTAATTCACTATAATACT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATAATACT
* * ** *
84996852 TCAAAGTGGATAGGATTTGTTCCTGATTCACTGTGGTTATT
1 T-AAAGTGGATAGGATTTGTTCCTAATTCACTAT-AATACT
* * * *
84996893 TAAAGTGAATAGGATTTATTCCTAATTCACTACAGTAACT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATAAT-ACT
* *
84996933 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
84996951 ACCTGAAAAG
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
39 2 0.03
40 71 0.92
41 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (39 bp):
TAAAGTGGATAGGATTTGTTCCTAATTCACTATAATACT
Found at i:85001762 original size:23 final size:23
Alignment explanation
Indices: 85001736--85001866 Score: 154
Period size: 23 Copynumber: 5.7 Consensus size: 23
85001726 AAAGTGTGCA
* *
85001736 TATATTTGGTTGTGTTGGGAGAC
1 TATATTTGGTTGTGTTTGGAGGC
*
85001759 TATATTTGGTTGTGTTTGGAGGG
1 TATATTTGGTTGTGTTTGGAGGC
** *
85001782 TATATTTGGTTGCATTGGGAGGC
1 TATATTTGGTTGTGTTTGGAGGC
** *
85001805 TATATTTGGTCATGTTTGGAGGG
1 TATATTTGGTTGTGTTTGGAGGC
*
85001828 TATATTTGGTTGTGTTTGAAGGC
1 TATATTTGGTTGTGTTTGGAGGC
* *
85001851 TATGTTTAGTTGTGTT
1 TATATTTGGTTGTGTT
85001867 CGGTGGGTGA
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.47
Consensus pattern (23 bp):
TATATTTGGTTGTGTTTGGAGGC
Found at i:85001808 original size:46 final size:46
Alignment explanation
Indices: 85001736--85001887 Score: 182
Period size: 46 Copynumber: 3.3 Consensus size: 46
85001726 AAAGTGTGCA
*
85001736 TATATTTGGTTGTGTTGGGAGACTATATTTGGTTGTGTTTGGAGGG
1 TATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGG
** **
85001782 TATATTTGGTTGCATTGGGAGGCTATATTTGGTCATGTTTGGAGGG
1 TATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGG
* * * * * *
85001828 TATATTTGGTTGTGTTTGAAGGCTATGTTTAGTTGTGTTCGGTGGG
1 TATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGG
*
85001874 T-GA-TTGGTTGTGTT
1 TATATTTGGTTGTGTT
85001888 TGGTGGGTGA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 11 0.12
45 1 0.01
46 78 0.87
ACGTcount: A:0.14, C:0.04, G:0.36, T:0.46
Consensus pattern (46 bp):
TATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGG
Found at i:85001885 original size:21 final size:21
Alignment explanation
Indices: 85001859--85001898 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
85001849 GCTATGTTTA
85001859 GTTGTGTTCGGTGGGTGATTG
1 GTTGTGTTCGGTGGGTGATTG
*
85001880 GTTGTGTTTGGTGGGTGAT
1 GTTGTGTTCGGTGGGTGAT
85001899 AGCTTTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.03, G:0.47, T:0.45
Consensus pattern (21 bp):
GTTGTGTTCGGTGGGTGATTG
Found at i:85002797 original size:19 final size:19
Alignment explanation
Indices: 85002773--85002863 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
85002763 ATAATCTTCA
85002773 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
85002792 ATGATATGCAATCTTAGAC
1 ATGATATGCAATCTTAGAT
85002811 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85002828 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85002846 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
85002864 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:85002844 original size:35 final size:37
Alignment explanation
Indices: 85002773--85002870 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
85002763 ATAATCTTCA
85002773 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAC
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAC
*
85002811 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAC
85002846 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
85002871 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAC
Found at i:85002889 original size:22 final size:22
Alignment explanation
Indices: 85002773--85002886 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
85002763 ATAATCTTCA
85002773 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
85002792 ATGATATGCAATCTT---AGAC
1 ATGATATGCAATCTTAGAAGAT
85002811 ATGATA--CAATCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
85002828 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
85002846 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
85002868 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
85002887 GATTTAATTT
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
17 13 0.16
18 14 0.17
19 33 0.41
22 8 0.10
23 12 0.15
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:85010223 original size:35 final size:33
Alignment explanation
Indices: 85010184--85010260 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 33
85010174 AATTTTGGTA
*
85010184 ATTCTTATTCTTTCATTCATAGCACATAAATAATC
1 ATTCTTATTC-AT-ATTCATAGCACATAAATAATC
85010219 ATTCTTAAATTCATATTCATAGCACATAAATAATC
1 ATTCTT--ATTCATATTCATAGCACATAAATAATC
85010254 ATTCTTA
1 ATTCTTA
85010261 AATTCATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 1 0.03
35 33 0.85
36 1 0.03
37 4 0.10
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.42
Consensus pattern (33 bp):
ATTCTTATTCATATTCATAGCACATAAATAATC
Found at i:85010261 original size:35 final size:35
Alignment explanation
Indices: 85010198--85010267 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
85010188 TTATTCTTTC
85010198 ATTCATAGCACATAAATAATCATTCTTAAATTCAT
1 ATTCATAGCACATAAATAATCATTCTTAAATTCAT
85010233 ATTCATAGCACATAAATAATCATTCTTAAATTCAT
1 ATTCATAGCACATAAATAATCATTCTTAAATTCAT
85010268 TCATTCTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (35 bp):
ATTCATAGCACATAAATAATCATTCTTAAATTCAT
Found at i:85014739 original size:219 final size:220
Alignment explanation
Indices: 85014211--85015019 Score: 1350
Period size: 220 Copynumber: 3.7 Consensus size: 220
85014201 CAGGCTAAAG
* * * * * ** *
85014211 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
* * * * * *
85014276 TTGTTAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGAAAATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
* *
85014341 ACATAGCAGATCTAACCTTTGGATATTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
85014406 GCGTTTACAAGGAGCAGATTGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
*
85014431 CATAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
* *
85014496 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACAGAGAGCAGATCAAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
85014561 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* *
85014626 GTG-TTACAAGGAGCAAATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
* *
85014650 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCGGATCTAAGATGATTTGGCATCTTTATA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
* *
85014715 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTAAACGGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
85014780 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
85014845 GCGTTTACAAGGAGCAGATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
85014870 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
* *
85014935 CTGTCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
*
85015000 ACATAGCAGATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
85015020 ATTGAAGCAA
Statistics
Matches: 550, Mismatches: 38, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
219 209 0.38
220 341 0.62
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTTACAAGGAGCAGATCGAAGA
Found at i:85014896 original size:89 final size:87
Alignment explanation
Indices: 85014767--85014928 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
85014757 ATTAAACGGA
* * *
85014767 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAAGCAGATCCAAGATG
85014832 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* ** * * *
85014856 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGCAGATCCAAGATGA
85014920 TTTGGCATC
65 TTTGGCATC
85014929 TCTATACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 36 0.57
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:85015069 original size:78 final size:78
Alignment explanation
Indices: 85014961--85015877 Score: 1238
Period size: 78 Copynumber: 11.8 Consensus size: 78
85014951 TGAAGAAACA
** * *
85014961 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
85015026 GCAAATCCAAGAT
66 GCAGATCCAAGAT
* * * *
85015039 GATTTGGCATCTATGTATTAGATGGGGAGCAGATTGAAGACACAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
85015103 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
85015117 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTTACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
85015182 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
85015195 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGTAGAT-TGGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
85015259 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
85015273 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
85015338 GCAAATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
85015351 GATTTGGCATCTCTGTATTAGATGGGAAGCAGATCAAAGACACAGTAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
85015415 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
85015429 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
85015494 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
85015507 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACACAGTAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
85015571 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
85015585 GATTTGGCATCTCCATATTCA-ACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATT-AGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
*
85015649 AGCAGATCGAAGAT
65 AGCAGATCCAAGAT
* *
85015663 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
85015728 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
85015741 GATTTGGCATTTTTGTATTAGACAGGGA--AGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
85015803 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
*
85015817 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
85015878 GTGTTTACAT
Statistics
Matches: 730, Mismatches: 95, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
75 1 0.00
76 68 0.09
77 5 0.01
78 650 0.89
79 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:85015245 original size:156 final size:156
Alignment explanation
Indices: 85014961--85015858 Score: 1446
Period size: 156 Copynumber: 5.8 Consensus size: 156
85014951 TGAAGAAACA
85014961 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * * * *
85015026 GCAAATCCAAGATGATTTGGCATCTATGTATTAGATGGGGAGCAGATTGAAGACACAGCAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
85015091 GACCTTCATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
*
85015117 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTTACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
85015182 GTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGTAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
*
85015247 GACCTTTATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
* *
85015273 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * * *
85015338 GCAAATCCAAGATGATTTGGCATCTCTGTATTAGATGGGAAGCAGATCAAAGACACAGTAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
*
85015403 GACCTTCATTGAAGTAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
*
85015429 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
85015494 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACACAGTAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
85015559 GACCTTCATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
* * *
85015585 GATTTGGCATCTCCATATTCAACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * *
85015650 GCAGATCGAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGAT-T
85015715 -GACCTTCATTGAAGCAGATCCAAGAT
130 GGACCTTCATTGAAGCAGATCCAAGAT
* *** * * *
85015741 GATTTGGCATTTTTGTATTAGACAGG-GA--AGATCAAAGACATAACAGAT-TGGACCTTCATTG
1 GATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTG
*
85015802 AAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
64 AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
85015859 TAGCAGATCT
Statistics
Matches: 692, Mismatches: 47, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
153 1 0.00
154 82 0.12
156 606 0.88
157 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (156 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
GACCTTCATTGAAGCAGATCCAAGAT
Found at i:85015938 original size:45 final size:45
Alignment explanation
Indices: 85015817--85016092 Score: 256
Period size: 45 Copynumber: 6.1 Consensus size: 45
85015807 GATCCAAGAT
* *
85015817 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAG--ATAACA
* ** * * * * *
85015864 GATCTAACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGAAGCAGATCGAAGATAACA
* *
85015909 GATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGATAACA
* * * *
85015954 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGATAACA
* * *
85015998 GATTTGGCATCTTTGTATTAGACGGGGAGTAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGATAACA
* * * *
85016043 AATTTGGCGTCTCTGTATTAGACGAGG-AGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACG-GGAAGCAGATCGAAGATAACA
85016088 GATTT
1 GATTT
85016093 TGCCTTCCTG
Statistics
Matches: 183, Mismatches: 38, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
43 1 0.01
44 43 0.23
45 107 0.58
46 6 0.03
47 21 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGATAACA
Found at i:85016022 original size:89 final size:90
Alignment explanation
Indices: 85015891--85016092 Score: 273
Period size: 89 Copynumber: 2.3 Consensus size: 90
85015881 TTTACATCGA
* * *
85015891 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAA
*
85015955 ATTTGGCATCTCTGTATTAAACGGGG
65 ATTTGGCATCTCTGTATTAAACGAGG
** * * * *
85015981 AGCAGATTGAAGA-AGCAGATTTGGCATCTTTGTATTAGACGGGGAGTAGATCGAAGATAACAAA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAAA
* *
85016045 TTTGGCGTCTCTGTATTAGACGAGG
66 TTTGGCATCTCTGTATTAAACGAGG
85016070 AGCAGATCAAAGATAGCAGATTT
1 AGCAGATCAAAGATAGCAGATTT
85016093 TGCCTTCCTG
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 76 0.78
90 21 0.22
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAAA
TTTGGCATCTCTGTATTAAACGAGG
Found at i:85016469 original size:17 final size:17
Alignment explanation
Indices: 85016449--85016529 Score: 126
Period size: 17 Copynumber: 4.6 Consensus size: 17
85016439 CAATGATATG
85016449 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
85016466 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
85016483 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
85016501 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
85016520 CAATCTTAGA
1 CAATCTTAGA
85016530 AGATATGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
17 32 0.54
18 15 0.25
19 11 0.19
20 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:85016471 original size:34 final size:35
Alignment explanation
Indices: 85016433--85016529 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 35
85016423 ATGGAAATAT
*
85016433 AATCTTCA-ATGATATGCAATCTTAGATATGA-TAC
1 AATCTT-AGATGATATACAATCTTAGATATGATTAC
*
85016467 AATCTTAGAT-ATGATACAATCTTAGATATGATTGC
1 AATCTTAGATGAT-ATACAATCTTAGATATGATTAC
85016502 AATCTTAGATATGATATACAATCTTAGA
1 AATCTTAG--ATGATATACAATCTTAGA
85016530 AGATATGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
33 3 0.05
34 25 0.45
35 10 0.18
37 15 0.27
38 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AATCTTAGATGATATACAATCTTAGATATGATTAC
Found at i:85019244 original size:12 final size:12
Alignment explanation
Indices: 85019229--85019275 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
85019219 CAATAGTGAA
*
85019229 AATAATAAGTAT
1 AATAATAAATAT
85019241 AATAATAAATAT
1 AATAATAAATAT
*
85019253 ACTAAT--AT-T
1 AATAATAAATAT
85019262 AATAATAAATAT
1 AATAATAAATAT
85019274 AA
1 AA
85019276 CAGGGGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 2 0.07
12 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:85019329 original size:25 final size:26
Alignment explanation
Indices: 85019301--85019368 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
85019291 ATATAATAAT
* *
85019301 AATATGTACATAATATGGTA-TTAAA
1 AATATATACATAATATAGTATTTAAA
*
85019326 AATATATATATAATATAGTATTTAAA
1 AATATATACATAATATAGTATTTAAA
*
85019352 AATGTATACATAATATA
1 AATATATACATAATATA
85019369 TATATATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 17 0.46
26 20 0.54
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.38
Consensus pattern (26 bp):
AATATATACATAATATAGTATTTAAA
Found at i:85021496 original size:8 final size:10
Alignment explanation
Indices: 85021474--85021498 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
85021464 AATTTTTTTC
85021474 ATATATGATT
1 ATATATGATT
85021484 ATATATGATT
1 ATATATGATT
85021494 ATATA
1 ATATA
85021499 GATAGGTTAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATGATT
Found at i:85022727 original size:17 final size:17
Alignment explanation
Indices: 85022689--85022752 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
85022679 ATGTCATATC
*
85022689 AATAAATAAT-TTTAAAT
1 AATAAA-AATATTTAAAA
*
85022706 TATAAAAATATTTAAAA
1 AATAAAAATATTTAAAA
* *
85022723 AATAAAAAAAATTCAAAA
1 AAT-AAAAATATTTAAAA
85022741 AATATAAAATAT
1 AATA-AAAATAT
85022753 AAAAAAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 3 0.08
17 14 0.37
18 21 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAAATATTTAAAA
Found at i:85022730 original size:18 final size:18
Alignment explanation
Indices: 85022709--85022777 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
85022699 TTTAAATTAT
*
85022709 AAAAATATTTAAAAAATA
1 AAAAATATTCAAAAAATA
*
85022727 AAAAAAATTCAAAAAATA
1 AAAAATATTCAAAAAATA
*
85022745 TAAAATA-T-AAAAAAGTCA
1 AAAAATATTCAAAAAA-T-A
*
85022763 TAAAA-ATTCAAAAAA
1 AAAAATATTCAAAAAA
85022778 ATTAAAATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.14
17 3 0.07
18 28 0.65
19 6 0.14
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (18 bp):
AAAAATATTCAAAAAATA
Found at i:85022756 original size:25 final size:26
Alignment explanation
Indices: 85022721--85022769 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
85022711 AAATATTTAA
*
85022721 AAAATAAAAAAAATTCA-AAAAATAT
1 AAAATAAAAAAAAGTCATAAAAATAT
*
85022746 AAAATATAAAAAAGTCATAAAAAT
1 AAAATAAAAAAAAGTCATAAAAAT
85022770 TCAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (26 bp):
AAAATAAAAAAAAGTCATAAAAATAT
Found at i:85022784 original size:9 final size:9
Alignment explanation
Indices: 85022702--85022784 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
85022692 AAATAATTTT
85022702 AAATTATAAA
1 AAATTA-AAA
*
85022712 AATATTTAAA
1 AA-ATTAAAA
*
85022722 AAATAAAAA
1 AAATTAAAA
*
85022731 AAATTCAAA
1 AAATTAAAA
*
85022740 AAA-T-ATA
1 AAATTAAAA
85022747 AAATATAAAA
1 AAAT-TAAAA
* * *
85022757 AAGTCATAA
1 AAATTAAAA
85022766 AAATTCAAAA
1 AAATT-AAAA
85022776 AAATTAAAA
1 AAATTAAAA
85022785 TACATATGAA
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
9 26 0.47
10 20 0.36
11 3 0.05
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (9 bp):
AAATTAAAA
Found at i:85022903 original size:22 final size:24
Alignment explanation
Indices: 85022875--85022921 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
85022865 TATTTTTAAA
*
85022875 ATTTTAAAATT-AAA-TTAAATTT
1 ATTTTAAAATTGAAAGTGAAATTT
85022897 ATTTTAAAATTGAAAGTGAAATTT
1 ATTTTAAAATTGAAAGTGAAATTT
85022921 A
1 A
85022922 ACTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 3 0.14
24 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
ATTTTAAAATTGAAAGTGAAATTT
Found at i:85022927 original size:24 final size:22
Alignment explanation
Indices: 85022878--85022929 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
85022868 TTTTAAAATT
* **
85022878 TTAAAATTAAATTAAATTTATT
1 TTAAAATTAAATGAAATTTAAC
85022900 TTAAAATTGAAAGTGAAATTTAAC
1 TTAAAATT-AAA-TGAAATTTAAC
85022924 TTAAAA
1 TTAAAA
85022930 AACACAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 3 0.12
24 14 0.56
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
TTAAAATTAAATGAAATTTAAC
Found at i:85031516 original size:17 final size:17
Alignment explanation
Indices: 85031478--85031547 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
85031468 ATGTCATATC
*
85031478 AATAAATAAT-TTTAAAT
1 AATAAA-AATATTTAAAA
*
85031495 TATAAAAATATTTAAAA
1 AATAAAAATATTTAAAA
* *
85031512 AATAAAAAAATTCAAAA
1 AATAAAAATATTTAAAA
*
85031529 ATATAAAAA-ATATAAAA
1 A-ATAAAAATATTTAAAA
85031546 AA
1 AA
85031548 GTCATAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.09
17 33 0.75
18 7 0.16
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAAATATTTAAAA
Done.