Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 81 of 185
Found at i:25014307 original size:96 final size:96
Alignment explanation
Indices: 25014198--25014688 Score: 839
Period size: 98 Copynumber: 5.1 Consensus size: 96
25014188 GTGAACATGC
*
25014198 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
25014263 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
25014294 ATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
25014358 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
25014389 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
25014454 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
25014487 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
25014552 AATGGCCGATATGATAAATGTGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
25014581 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * * *
25014646 AGTGGCCAACGTGATGGATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
25014677 A-A-ATGTGATAAG
1 ATATATGTGATAAG
25014689 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 95 0.25
95 95 0.25
96 92 0.24
98 96 0.25
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:25014409 original size:49 final size:47
Alignment explanation
Indices: 25014177--25014688 Score: 812
Period size: 47 Copynumber: 10.7 Consensus size: 47
25014167 TTAGGATTCT
* *
25014177 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
25014224 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25014271 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25014319 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25014366 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25014415 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25014464 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25014513 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
25014560 ATATGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
25014607 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
25014654 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25014689 TCCCGAAGGG
Statistics
Matches: 442, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
46 17 0.04
47 234 0.53
48 30 0.07
49 161 0.36
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:25014863 original size:37 final size:37
Alignment explanation
Indices: 25014807--25014885 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25014797 CCAAGCTCTA
* * *
25014807 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25014844 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25014881 AAGAC
1 AAGAC
25014886 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25021090 original size:12 final size:12
Alignment explanation
Indices: 25021073--25021097 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25021063 CCTTATAAAC
25021073 ATTACACATTGA
1 ATTACACATTGA
25021085 ATTACACATTGA
1 ATTACACATTGA
25021097 A
1 A
25021098 ATCAGATTTT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:25025790 original size:13 final size:13
Alignment explanation
Indices: 25025772--25025796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25025762 AGTTCTTCAT
25025772 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
25025785 TGCTTTTGAGAA
1 TGCTTTTGAGAA
25025797 ATTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:25026046 original size:19 final size:19
Alignment explanation
Indices: 25026022--25026081 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
25026012 ATTAATTATT
25026022 TATAAATT-TAATTAGAATA
1 TATAAATTATAATTA-AATA
*
25026041 TATAAATTATATTTAAATA
1 TATAAATTATAATTAAATA
* *
25026060 TTTAAATATAAAAATTAAATA
1 TATAAAT-T-ATAATTAAATA
25026081 T
1 T
25026082 TTGTAATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 18 0.53
20 6 0.18
21 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TATAAATTATAATTAAATA
Found at i:25026449 original size:44 final size:44
Alignment explanation
Indices: 25026401--25026494 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
25026391 TATATTCAAT
25026401 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
* * *
25026445 AAATGATTTGGTTAATATAGTACTTATATTTGATAAGCATATGA
1 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
25026489 AAATGA
1 AAATGA
25026495 AAGTCGAGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (44 bp):
AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
Found at i:25030672 original size:110 final size:112
Alignment explanation
Indices: 25030463--25030674 Score: 272
Period size: 110 Copynumber: 1.9 Consensus size: 112
25030453 TCAAAACCTT
* * *
25030463 AAATTTATTTCCAATTTTGCATAAAAATTCATACTTTTTTCAATGACAAAACACATGAAATACGA
1 AAATTTATTCCCAATTTTGCATAAAAATT-ATAATTTTTTCAAGGACAAAACACATGAAATACGA
*
25030528 AATATAGCTAAATAAAATGACCCTAGAAGCTTACATTTCAATGCCTCC
65 AATATAGCTAAATAAAATGACCCCAGAAGCTTACATTTCAATGCCTCC
* * * *
25030576 AAATTTA-TCCCAATTTTGTATCAAAAATT-TAATTTTTTTAAGGATAAAACA-ATGAAATATGA
1 AAATTTATTCCCAATTTTGCAT-AAAAATTATAATTTTTTCAAGGACAAAACACATGAAATACGA
*
25030638 AATATAGCTAAATTAAAA-GAACCCCA-AAGTTTACATT
65 AATATAGCTAAA-TAAAATG-ACCCCAGAAGCTTACATT
25030675 ACAGTAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
110 33 0.38
111 28 0.32
112 12 0.14
113 14 0.16
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (112 bp):
AAATTTATTCCCAATTTTGCATAAAAATTATAATTTTTTCAAGGACAAAACACATGAAATACGAA
ATATAGCTAAATAAAATGACCCCAGAAGCTTACATTTCAATGCCTCC
Found at i:25034719 original size:50 final size:50
Alignment explanation
Indices: 25034657--25035040 Score: 209
Period size: 50 Copynumber: 7.7 Consensus size: 50
25034647 TTGGCATTTC
* *
25034657 AGTGGAATAGATTGAAGCTACAACGGCAAATCTTACTCCCCTAGCGGTGT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTCCCCTAGCGGTGT
** * ** * ** *
25034707 AGTGGAACAGATTGAAGCTATGACGGTGAATCTTGTTTCCCCGA-CATTGC
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTT-ACTCCCCTAGCGGTGT
** * * *
25034757 AGTTAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTCCCCTAGCGGTGT
* * * * ** * ***
25034807 AGTGGACCATATTGAAGCTACTACGGTGAATCTTGTTTCCCCGA-TATTGT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTT-ACTCCCCTAGCGGTGT
** * * * * * * * *
25034857 AGTTAAATAGACTGAAGCCACAACAGTGAATCTTACTTCCTTGGCGGTGT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTCCCCTAGCGGTGT
* ** * * * ** *
25034907 AGTGGAATAGATTGAAGCTATGACGGTGAATCCTGT-TTCCCCGA-CATTGC
1 AGTGGAACAGATTGAAGCTACAACGGCGAAT-CT-TACTCCCCTAGCGGTGT
** * * * * **
25034957 AGTTAAATAGATTGAAGCTACAATGACGAATCTTACTTCCCTAGCTATGT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTCCCCTAGCGGTGT
* *
25035007 AGTGGAACAAATTGAAGCTACGACGGCGAATCTT
1 AGTGGAACAGATTGAAGCTACAACGGCGAATCTT
25035041 GTTTCCACGA
Statistics
Matches: 233, Mismatches: 93, Indels: 16
0.68 0.27 0.05
Matches are distributed among these distances:
48 1 0.00
49 14 0.06
50 202 0.87
51 15 0.06
52 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTCCCCTAGCGGTGT
Found at i:25034789 original size:100 final size:100
Alignment explanation
Indices: 25034662--25035072 Score: 583
Period size: 100 Copynumber: 4.1 Consensus size: 100
25034652 ATTTCAGTGG
* *
25034662 AATAGATTGAAGCTACAACGGCAAATCTTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
25034727 TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
66 TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
25034762 AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGACCATATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
* *
25034827 CT-ACGGTGAATCTTGTTTCCCCGATATTGTAGTTA
66 -TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * * *
25034862 AATAGACTGAAGCCACAACAGTGAATCTTACTTCCTTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
*
25034927 TGACGGTGAATCCTGTTTCCCCGACATTGCAGTTA
66 TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** *
25034962 AATAGATTGAAGCTACAATGACGAATCTTACTTCCCTAGCTATGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
25035027 CGACGGCGAATCTTGTTTCCACGACATTGCAGTT-
66 TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*
25035061 AACAGATTGAAG
1 AATAGATTGAAG
25035073 ATGGCAAATT
Statistics
Matches: 274, Mismatches: 35, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
99 12 0.04
100 261 0.95
101 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
TGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:25035234 original size:85 final size:84
Alignment explanation
Indices: 25035123--25035321 Score: 290
Period size: 85 Copynumber: 2.4 Consensus size: 84
25035113 TGAGGCCAAT
* * *
25035123 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* * *
25035188 TAGTAGAGCAGATCACATCC
66 CA-AAGAGCAGATCACATAC
*
25035208 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTTTCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* *
25035273 CAAAGAGCAGATCGCATAT
66 CAAAGAGCAGATCACATAC
* *
25035292 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGC
25035322 AGATAGAAGA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 41 0.40
85 62 0.60
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
CAAAGAGCAGATCACATAC
Found at i:25035352 original size:84 final size:85
Alignment explanation
Indices: 25035123--25035359 Score: 264
Period size: 85 Copynumber: 2.8 Consensus size: 85
25035113 TGAGGCCAAT
* * * * *
25035123 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAACCACAAATCTTATCTCTCTGAAGTTG
* * *
25035188 TAGTAGAGCAGATCACATCC
66 CAGAAGAGCAGATCACATAC
* * *
25035208 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTTTCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAACCACAAATCTTATCTCTCTGAAGTTG
* *
25035273 CA-AAGAGCAGATCGCATAT
66 CAGAAGAGCAGATCACATAC
* * * * * *
25035292 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAATC-TAATTC-TATCTCCCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAA-AACCACAAATCTTATCTCTCTGAAGT
25035355 TGCAG
64 TGCAG
25035360 TGGAGCGGAT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
84 60 0.46
85 68 0.52
86 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (85 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAACCACAAATCTTATCTCTCTGAAGTTG
CAGAAGAGCAGATCACATAC
Found at i:25035365 original size:128 final size:125
Alignment explanation
Indices: 25035169--25035402 Score: 324
Period size: 128 Copynumber: 1.8 Consensus size: 125
25035159 AAACCACAGA
* * * *
25035169 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCCAATCCTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAATCCAATCCTATCTCCCTGAAGTTGCAGTG
*
25035234 GAGCGGATTAAAACCACAAATCTTTTCTCTCTGAAGTTGCAAAGAGCAGATCGCATATAG
66 GAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATATAG
* * *
25035294 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAATCTAATTCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT--AA-AATCCAATCCTATCTCCCTGAAGTTGCA
** ***
25035359 GTGGAGCGGATTAAAATGATGGATCTTATCTCTCTGAAGTTGCA
63 GTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCA
25035403 GTAGAGTAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
125 29 0.31
127 1 0.01
128 63 0.68
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (125 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAATCCAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATATAG
Found at i:25035389 original size:44 final size:43
Alignment explanation
Indices: 25035128--25035413 Score: 192
Period size: 44 Copynumber: 6.7 Consensus size: 43
25035118 CCAATAATCC
* * * * *
25035128 TATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGATAAAATCATAGATCT
* * * * * * *
25035172 TATCTCTCTGAAGTTGTAGTAGAGCAGATCACATC-CA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCATAGATCT
* * * *
25035213 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATCATAGATCT
* * ** ***
25035257 TTTCTCTCTGAAGTTGCA-AAGAGCAGATCGCAT-ATAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCATAGATCT
25035297 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAATC-TA-AT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT--AA-AATCATAGATCT
* * *
25035340 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGGATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATCATAGATCT
* * *
25035385 TATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
25035414 CACATCAAAC
Statistics
Matches: 187, Mismatches: 41, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
40 19 0.10
41 37 0.20
42 11 0.06
43 18 0.10
44 100 0.53
45 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCATAGATCT
Found at i:25035484 original size:213 final size:212
Alignment explanation
Indices: 25035083--25035487 Score: 476
Period size: 213 Copynumber: 1.9 Consensus size: 212
25035073 ATGGCAAATT
* * *
25035083 TTATCTCCCTGAAGATGCAGCGGAGCACATTGAGGCCAATAATCCTATCTCCCTGAAGTTGTAGT
1 TTATCTCCCTGAAGATGCAGCGGAGCACATAGAAG-CAATAATCCTATCTCCCTGAAGTTGCAGT
* * *
25035148 GGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCCAATCC
65 GGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAATCC
* * * * * * *
25035213 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTTTCTCTCTGAAGTTGCAAAG
130 TATCTCCCTAAAATCGCAGTAGAACAGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAAAG
25035278 AGCAGATCGCATATAGTC
195 AGCAGATCGCATATAGTC
* * * *
25035296 TTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAG-AATCTAATTCTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGATGCAGCGGAGCACATAGAAGCAA--TAATCCTATCTCCCTGAAGTTGCAG
** ** *
25035360 TGGAGCGGATTAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAAA-C
64 TGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAATC
* * * * * *
25035424 TTTATCTCCTTAAAATCGCAGTAGAACA-AGTTGAAGCTACAAGTCTTATCTC-CTTGAAGTTGC
129 -CTATCTCCCTAAAATCGCAGTAGAACAGA-TTAAAACCACAAATCTTATCTCTC-TGAAGTTGC
25035487 A
191 A
25035488 GTTGAGCAGA
Statistics
Matches: 159, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
211 2 0.01
212 3 0.02
213 154 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (212 bp):
TTATCTCCCTGAAGATGCAGCGGAGCACATAGAAGCAATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAATCCT
ATCTCCCTAAAATCGCAGTAGAACAGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCGCATATAGTC
Found at i:25036069 original size:7 final size:7
Alignment explanation
Indices: 25036048--25036085 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
25036038 ATATCTTTTA
25036048 TTTTATT
1 TTTTATT
25036055 ATTTTATT
1 -TTTTATT
*
25036063 CTTTATT
1 TTTTATT
25036070 TTTTATT
1 TTTTATT
25036077 TTTTATT
1 TTTTATT
25036084 TT
1 TT
25036086 ACGGTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:25040263 original size:21 final size:21
Alignment explanation
Indices: 25040239--25040287 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
25040229 AAATCTCTTA
25040239 ACTCGTGATCGAGTTATTGGC
1 ACTCGTGATCGAGTTATTGGC
25040260 ACTCGTGATCGAGTTATTGGC
1 ACTCGTGATCGAGTTATTGGC
*
25040281 CCTCGTG
1 ACTCGTG
25040288 CCAGCTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
ACTCGTGATCGAGTTATTGGC
Found at i:25040439 original size:20 final size:20
Alignment explanation
Indices: 25040406--25040464 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
25040396 AGCTCCACTC
* *
25040406 AGCTCAAATCAGCTCACTTG
1 AGCTCAATTTAGCTCACTTG
* * **
25040426 AGCTTATTTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACTTG
*
25040446 AGCTCAATTTAGCTTACTT
1 AGCTCAATTTAGCTCACTT
25040465 TCAGCTCGTC
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACTTG
Found at i:25040450 original size:30 final size:31
Alignment explanation
Indices: 25040416--25040473 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
25040406 AGCTCAAATC
* *
25040416 AGCTCACTTGAGCTTA-TTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTACTTTCAGCTCGTTTG
*
25040446 AGCTCAATTTAGCTTACTTTCAGCTCGT
1 AGCTCAATTGAGCTTACTTTCAGCTCGT
25040474 CTCTTTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (31 bp):
AGCTCAATTGAGCTTACTTTCAGCTCGTTTG
Found at i:25044516 original size:22 final size:23
Alignment explanation
Indices: 25044504--25044546 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25044494 ACTTAATAAG
25044504 CTTAA-TTAATAAACTGTAAACA
1 CTTAATTTAATAAACTGTAAACA
25044526 CTTAATTTAATAAACTGTAAA
1 CTTAATTTAATAAACTGTAAA
25044547 TAAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (23 bp):
CTTAATTTAATAAACTGTAAACA
Found at i:25048715 original size:37 final size:37
Alignment explanation
Indices: 25048665--25048743 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25048655 TTATTACGAA
* * *
25048665 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25048702 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25048739 GTCTT
1 GTCTT
25048744 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25048909 original size:47 final size:47
Alignment explanation
Indices: 25048831--25049118 Score: 477
Period size: 47 Copynumber: 6.1 Consensus size: 47
25048821 CCCTTCGGGA
* * * * * *
25048831 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25048878 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25048925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25048972 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25049019 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25049066 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25049115 CTTA
1 CTTA
25049119 CTATCATTTC
Statistics
Matches: 227, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 184 0.81
49 43 0.19
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25052434 original size:40 final size:40
Alignment explanation
Indices: 25052389--25052541 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
25052379 CGAATACACG
* * * * *
25052389 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* ** *
25052429 ACACCAGCACGAATGCTCTTCGGAACTTAGTTCGGATACC
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
25052469 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAAACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *
25052509 TCACTAGCATGAATGCTCTTCGGGACTTGGCCC
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCC
25052542 AGTTTTAGTA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:25053004 original size:29 final size:29
Alignment explanation
Indices: 25052965--25053043 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
25052955 CTTAATAATC
*
25052965 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
25052995 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
25053024 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
25053044 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:25053086 original size:43 final size:43
Alignment explanation
Indices: 25053025--25053213 Score: 378
Period size: 43 Copynumber: 4.4 Consensus size: 43
25053015 TGCATTTCAA
25053025 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25053068 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25053111 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25053154 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25053197 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
25053214 TGAAAACCAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:25055128 original size:37 final size:37
Alignment explanation
Indices: 25055078--25055156 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25055068 TTATTACGAA
* * *
25055078 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25055115 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25055152 GTCTT
1 GTCTT
25055157 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25055349 original size:49 final size:49
Alignment explanation
Indices: 25055275--25055566 Score: 452
Period size: 49 Copynumber: 6.1 Consensus size: 49
25055265 CCCGTCGGGA
* * * * *
25055275 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25055322 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25055371 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25055418 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGTC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25055467 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25055514 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25055563 CTTA
1 CTTA
25055567 CTATCATTTC
Statistics
Matches: 224, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
47 99 0.44
48 1 0.00
49 124 0.55
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25055439 original size:96 final size:96
Alignment explanation
Indices: 25055275--25055566 Score: 494
Period size: 96 Copynumber: 3.0 Consensus size: 96
25055265 CCCGTCGGGA
* * * * * * *
25055275 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
25055340 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
25055371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
25055436 ACTTTCACATTCATCACATCGGCCATTAGTC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
25055467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
25055532 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
25055563 CTTA
1 CTTA
25055567 CTATCATTTC
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 185 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25058152 original size:22 final size:23
Alignment explanation
Indices: 25058126--25058177 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
25058116 ACTCCCTCAC
25058126 TTTTTCCTT-TCTTTTT-ATCGTT
1 TTTTTCCTTCTCTTTTTAATC-TT
25058148 TTTTTCCTTCTCTTTTTCAATCTT
1 TTTTTCCTTCTCTTTTT-AATCTT
25058172 TTTTTC
1 TTTTTC
25058178 TTGTACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.33
23 7 0.26
24 8 0.30
25 3 0.11
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTCCTTCTCTTTTTAATCTT
Found at i:25058197 original size:24 final size:23
Alignment explanation
Indices: 25058126--25058189 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
25058116 ACTCCCTCAC
*
25058126 TTTTTCCTT-TCTTTTT--ATCGT
1 TTTTTTCTTCTCTTTTTCAATC-T
25058147 TTTTTTCCTTCTCTTTTTCAATCT
1 TTTTTT-CTTCTCTTTTTCAATCT
*
25058171 TTTTTTCTTGTACTTTTTC
1 TTTTTTCTTCT-CTTTTTC
25058190 TTTCTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.14
22 3 0.08
23 11 0.31
24 14 0.39
25 3 0.08
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.70
Consensus pattern (23 bp):
TTTTTTCTTCTCTTTTTCAATCT
Found at i:25062110 original size:31 final size:27
Alignment explanation
Indices: 25062043--25062106 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
25062033 TATTTGTAGG
* *
25062043 TACATGCATGAAAAACATTGAAGATAA
1 TACATGCATGAACAGCATTGAAGATAA
25062070 TACATGCATGAACAGCATTGAAGATAA
1 TACATGCATGAACAGCATTGAAGATAA
*
25062097 TACATACATG
1 TACATGCATG
25062107 CATGGACAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (27 bp):
TACATGCATGAACAGCATTGAAGATAA
Found at i:25074405 original size:23 final size:22
Alignment explanation
Indices: 25074368--25074417 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
25074358 GCCAAATTCA
*
25074368 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
25074392 TGAACCCT-TTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
25074413 TGAAC
1 TGAAC
25074418 ACACCAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Found at i:25084355 original size:23 final size:22
Alignment explanation
Indices: 25084303--25084355 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
25084293 TCCACGTCTT
*
25084303 TTTCTTTTGTTTCTTTTTCGAA
1 TTTCTTTTCTTTCTTTTTCGAA
25084325 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCGAA
25084348 TTTCTTTT
1 TTTCTTTT
25084356 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.04, T:0.68
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCGAA
Found at i:25085648 original size:9 final size:9
Alignment explanation
Indices: 25085634--25085659 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25085624 GAATTTCGTC
25085634 TTTTTTGAT
1 TTTTTTGAT
25085643 TTTTTTGAT
1 TTTTTTGAT
25085652 TTTTTTGA
1 TTTTTTGA
25085660 CTGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:25087256 original size:40 final size:40
Alignment explanation
Indices: 25087225--25087436 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
25087215 GGACTAAGAT
25087225 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
*
25087265 CCGAAGGCATTTGTGCGAGATACAAATTTCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
25087305 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
25087345 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
25087385 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
25087424 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25087437 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 32 0.21
40 117 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:25087454 original size:79 final size:80
Alignment explanation
Indices: 25087225--25087469 Score: 196
Period size: 80 Copynumber: 3.1 Consensus size: 80
25087215 GGACTAAGAT
* * * * ** *
25087225 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
* *
25087287 C-AAATTTCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
25087305 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
25087370 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
25087385 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
25087449 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
25087463 CCGAAGG
1 CCGAAGG
25087470 TACGTGATTT
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
78 14 0.10
79 49 0.36
80 66 0.49
81 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:25098218 original size:7 final size:7
Alignment explanation
Indices: 25098206--25098242 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
25098196 AACGTGAAAT
25098206 AAAATAA
1 AAAATAA
25098213 AAAAT-A
1 AAAATAA
25098219 AAAAT-A
1 AAAATAA
25098225 AAAATAA
1 AAAATAA
25098232 AAAATAA
1 AAAATAA
25098239 AAAA
1 AAAA
25098243 ATCAAGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:25098221 original size:6 final size:6
Alignment explanation
Indices: 25098202--25098241 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
25098192 TCGTAACGTG
25098202 AAAT-A AAATAAA AAATAA AAATAA AAATAAA AAATAA AAA
1 AAATAA AAAT-AA AAATAA AAATAA AAAT-AA AAATAA AAA
25098242 AATCAAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.12
6 17 0.53
7 11 0.34
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:25098224 original size:13 final size:13
Alignment explanation
Indices: 25098202--25098242 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
25098192 TCGTAACGTG
25098202 AAAT-AAAATAAA
1 AAATAAAAATAAA
25098214 AAATAAAAAT-AA
1 AAATAAAAATAAA
25098226 AAATAAAAAATAAA
1 AAAT-AAAAATAAA
25098240 AAA
1 AAA
25098243 ATCAAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 11 0.42
14 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:25098230 original size:19 final size:18
Alignment explanation
Indices: 25098202--25098241 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
25098192 TCGTAACGTG
25098202 AAATAAAATAAAAAATAA
1 AAATAAAATAAAAAATAA
25098220 AAATAAAAATAAAAAATAA
1 AAAT-AAAATAAAAAATAA
25098239 AAA
1 AAA
25098242 AATCAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAAATAAAAAATAA
Found at i:25100257 original size:10 final size:10
Alignment explanation
Indices: 25100242--25100303 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
25100232 TTGAACCATT
*
25100242 TACCAATTCG
1 TACCAATTCA
*
25100252 TACCAAATACCA
1 TACC-AAT-TCA
*
25100264 TACCATTTCA
1 TACCAATTCA
25100274 TACCAATTCCA
1 TACCAATT-CA
* *
25100285 TACCATTTCG
1 TACCAATTCA
25100295 TACCAATTC
1 TACCAATTC
25100304 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:25100287 original size:21 final size:21
Alignment explanation
Indices: 25100242--25100304 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
25100232 TTGAACCATT
* *
25100242 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
25100264 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
25100285 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
25100305 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:25100806 original size:6 final size:6
Alignment explanation
Indices: 25100797--25100856 Score: 84
Period size: 6 Copynumber: 10.0 Consensus size: 6
25100787 AATGAAGAGG
** * *
25100797 AAGAAA AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA TAGAAA ACGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
25100845 AAGAAA AAGAAA
1 AAGAAA AAGAAA
25100857 TCGAAAAAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:25100861 original size:18 final size:18
Alignment explanation
Indices: 25100805--25100865 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
25100795 GGAAGAAAAA
25100805 GAAAAAGAAAAAGAAAGT-
1 GAAAAAGAAAAAGAAA-TC
* *
25100823 GAAAAAGAAATAGAAAAC
1 GAAAAAGAAAAAGAAATC
25100841 GAAAAAGAAAAAGAAATC
1 GAAAAAGAAAAAGAAATC
25100859 GAAAAAG
1 GAAAAAG
25100866 TGAGAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATC
Found at i:25100862 original size:12 final size:12
Alignment explanation
Indices: 25100798--25100865 Score: 84
Period size: 12 Copynumber: 5.7 Consensus size: 12
25100788 ATGAAGAGGA
*
25100798 AGAAAAAGAAAA
1 AGAAAAAGAAAT
25100810 AGAAAAAGAAAGT
1 AGAAAAAGAAA-T
25100823 -GAAAAAGAAAT
1 AGAAAAAGAAAT
* *
25100834 AGAAAACGAAAA
1 AGAAAAAGAAAT
25100846 AGAAAAAGAAAT
1 AGAAAAAGAAAT
*
25100858 CGAAAAAG
1 AGAAAAAG
25100866 TGAGAGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
11 1 0.02
12 47 0.98
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (12 bp):
AGAAAAAGAAAT
Found at i:25100938 original size:16 final size:18
Alignment explanation
Indices: 25100917--25100955 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25100907 ATTGAGATTG
25100917 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
25100933 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
25100951 AGAAA
1 AGAAA
25100956 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:25103558 original size:24 final size:22
Alignment explanation
Indices: 25103506--25103560 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
25103496 TTCGGCTACT
*
25103506 GATGTGTTCACACAACAATTAAA
1 GATG-GTTCACACAAAAATTAAA
*
25103529 -AGGGTTCACACTAAAACATTAAA
1 GATGGTTCACAC-AAAA-ATTAAA
25103552 GATGGTTCA
1 GATGGTTCA
25103561 TGAATTCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (22 bp):
GATGGTTCACACAAAAATTAAA
Found at i:25108501 original size:21 final size:18
Alignment explanation
Indices: 25108459--25108503 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
25108449 TTTTTCAAAC
25108459 TCTTTTTCAAATCCTCTT
1 TCTTTTTCAAATCCTCTT
*
25108477 TCTTTTATCACATCACTCATT
1 TCTTTT-TCAAATC-CTC-TT
25108498 TCTTTT
1 TCTTTT
25108504 GTACTCTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
TCTTTTTCAAATCCTCTT
Found at i:25108636 original size:15 final size:16
Alignment explanation
Indices: 25108611--25108642 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
25108601 TATCTCACAC
25108611 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
25108627 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
25108642 T
1 T
25108643 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:25109599 original size:11 final size:11
Alignment explanation
Indices: 25109583--25109635 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 11
25109573 GAATACAAAC
25109583 TTTTTTTTGAA
1 TTTTTTTTGAA
25109594 TTTTTTTTCGAA
1 TTTTTTTT-GAA
*
25109606 TTTTTTTTCAA
1 TTTTTTTTGAA
*
25109617 GTTTTTTTT-TA
1 -TTTTTTTTGAA
25109628 TTTTTTTT
1 TTTTTTTT
25109636 ACAATACCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
10 8 0.21
11 11 0.29
12 19 0.50
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:25109600 original size:12 final size:12
Alignment explanation
Indices: 25109583--25109635 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
25109573 GAATACAAAC
25109583 TTTTTTTTGAAT
1 TTTTTTTTGAAT
*
25109595 TTTTTTTCGAA-
1 TTTTTTTTGAAT
*
25109606 TTTTTTTTCAAGT
1 TTTTTTTTGAA-T
25109619 TTTTTTTT--AT
1 TTTTTTTTGAAT
25109629 TTTTTTT
1 TTTTTTT
25109636 ACAATACCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 8 0.22
11 10 0.28
12 10 0.28
13 8 0.22
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:25124036 original size:32 final size:32
Alignment explanation
Indices: 25123953--25124054 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 32
25123943 NNNNAATAGC
25123953 CTGCGGGTCTTAGCCCGGATATA-TCAACCGCACACA
1 CTGC-GGTC-TAGCCC-GA-ATAGTCAACCGCACA-A
25123989 CTGCGGTCTAGCCCG-A-AGTCAACCGCACAA
1 CTGCGGTCTAGCCCGAATAGTCAACCGCACAA
*
25124019 TGCTGCGAGTTTA-CCCGATATAGTCAACTCGCACAA
1 --CTGCG-GTCTAGCCCGA-ATAGTCAAC-CGCACAA
25124055 ATGCCTTCGG
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
30 2 0.04
31 12 0.21
32 9 0.16
33 5 0.09
34 7 0.12
35 11 0.19
36 11 0.19
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (32 bp):
CTGCGGTCTAGCCCGAATAGTCAACCGCACAA
Found at i:25124092 original size:38 final size:40
Alignment explanation
Indices: 25123956--25124115 Score: 149
Period size: 38 Copynumber: 4.4 Consensus size: 40
25123946 NAATAGCCTG
* *
25123956 CGGGTCTTAGCCCGGATATA-TCAAC-CGCACACA--CTG
1 CGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCTT
*
25123992 C-GGTC-TAGCCC-G--A-AGTCAAC-CGCAC-AATGCTG
1 CGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCTT
*
25124024 CGAGT-TTA-CCC-GATATAGTCAACTCGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATG-CTT
25124062 CGGGTCTTAG-CCGGATATA-TCAACT-GCACAAATGCTT
1 CGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCTT
25124099 CGGGTCTTAGCCCGGAT
1 CGGGTCTTAGCCCGGAT
25124116 GTATTCAAAT
Statistics
Matches: 105, Mismatches: 4, Indels: 28
0.77 0.03 0.20
Matches are distributed among these distances:
30 2 0.02
31 11 0.10
32 8 0.08
33 5 0.05
34 7 0.07
35 11 0.10
36 6 0.06
37 17 0.16
38 21 0.20
39 11 0.10
40 6 0.06
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCTT
Found at i:25134962 original size:33 final size:31
Alignment explanation
Indices: 25134912--25135060 Score: 112
Period size: 30 Copynumber: 4.9 Consensus size: 31
25134902 CATGCAGAAC
* * *
25134912 CAGTCTGGGCCTGAGCCCTA-TACAGTATCAG
1 CAGTGTGGGCCTTAGCCC-AGTACAGTAACAG
25134943 TACAGTGTGGGCCTTAGCCCAGTACAGTAACAG
1 --CAGTGTGGGCCTTAGCCCAGTACAGTAACAG
* ** *
25134976 C-GTGTGGGCCTTAGCCCAATATGGTAATAG
1 CAGTGTGGGCCTTAGCCCAGTACAGTAACAG
* * * * *
25135006 -TGTGTGGACCTTAGACCAATATAGT-A-A-
1 CAGTGTGGGCCTTAGCCCAGTACAGTAACAG
*
25135033 CAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTGTGGGCCTTAGCCCAGTACAGTAA
25135061 TCAGTACAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 21 0.22
29 2 0.02
30 46 0.47
31 1 0.01
32 1 0.01
33 26 0.27
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (31 bp):
CAGTGTGGGCCTTAGCCCAGTACAGTAACAG
Found at i:25134966 original size:28 final size:29
Alignment explanation
Indices: 25134937--25135065 Score: 133
Period size: 30 Copynumber: 4.4 Consensus size: 29
25134927 CCCTATACAG
*
25134937 TATCAGT-ACAGTGTGGGCCTTAGCCCAG
1 TATCAGTAACAGTGTGGGCCTTAGCCCAA
25134965 TA-CAGTAACAGCGTGTGGGCCTTAGCCCAA
1 TATCAGTAACA--GTGTGGGCCTTAGCCCAA
* * *
25134995 TAT-GGTAATAGTGTGTGGACCTTAGACCAA
1 TATCAGTAACAGTGTG-GG-CCTTAGCCCAA
*
25135025 TAT-AGTAACAGTGTGGGCCTTAGCCCAT
1 TATCAGTAACAGTGTGGGCCTTAGCCCAA
25135053 TA-CAGTAATCAGT
1 TATCAGTAA-CAGT
25135066 ACAATGTAGT
Statistics
Matches: 85, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.05
28 26 0.31
29 8 0.09
30 47 0.55
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (29 bp):
TATCAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:25135061 original size:58 final size:59
Alignment explanation
Indices: 25134947--25135061 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 59
25134937 TATCAGTACA
* * * **
25134947 GTGTGGGCCTTAGCCCAGTACAGTAACAGCGTGTGGGCCTTAGCCCAATATGGTAATAGT
1 GTGTGGACCTTAGACCAATACAGTAACA-CGTGTGGGCCTTAGCCCAATACAGTAATAGT
* *
25135007 GTGTGGACCTTAGACCAATATAGTAACA-GTGTGGGCCTTAGCCCATTACAGTAAT
1 GTGTGGACCTTAGACCAATACAGTAACACGTGTGGGCCTTAGCCCAATACAGTAAT
25135062 CAGTACAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 24 0.50
60 24 0.50
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (59 bp):
GTGTGGACCTTAGACCAATACAGTAACACGTGTGGGCCTTAGCCCAATACAGTAATAGT
Found at i:25135202 original size:26 final size:26
Alignment explanation
Indices: 25135173--25135247 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
25135163 ACCAATATCA
*
25135173 CAGCAAAGCTGCCAGTAATAGTAACG
1 CAGCAAAGCTGCCAGTAACAGTAACG
* * *
25135199 CAGCAAGGCTGCGAGTAACAATAACG
1 CAGCAAAGCTGCCAGTAACAGTAACG
*
25135225 CAACAAAGCTGCCAGTAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
25135248 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAACG
Found at i:25135303 original size:27 final size:27
Alignment explanation
Indices: 25135273--25135417 Score: 204
Period size: 27 Copynumber: 5.4 Consensus size: 27
25135263 CCAGTATATA
*
25135273 TCATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
25135300 TCATATTACCCTT-TAGGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGG
*
25135327 TCATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
25135354 TTATTTTACTCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
*
25135381 TCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
25135408 TCA-TTTACCC
1 TCATTTTACCC
25135418 AAGAATCACA
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 8 0.08
27 96 0.92
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGG
Found at i:25136103 original size:5 final size:5
Alignment explanation
Indices: 25136084--25136144 Score: 63
Period size: 5 Copynumber: 12.4 Consensus size: 5
25136074 ACACTAGAAT
* * *
25136084 GAAGA GCAGA GGAAGA GAAGA GAAGA GAAGA GAAGA AAAGA G-AGG GAAGA
1 GAAGA GAAGA -GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA
*
25136134 G-AGA AAAGA GA
1 GAAGA GAAGA GA
25136145 GGATTCAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
4 6 0.13
5 35 0.78
6 4 0.09
ACGTcount: A:0.57, C:0.02, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:25136138 original size:18 final size:18
Alignment explanation
Indices: 25136097--25136146 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
25136087 GAGCAGAGGA
* *
25136097 AGAGAAGAGA-AGAGAAG
1 AGAGAAAAGAGAGGGAAG
25136114 AGAAGAAAAGAGAGGGAAG
1 AG-AGAAAAGAGAGGGAAG
25136133 AGAGAAAAGAGAGG
1 AGAGAAAAGAGAGG
25136147 ATTCAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 19 0.66
19 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (18 bp):
AGAGAAAAGAGAGGGAAG
Found at i:25145065 original size:42 final size:42
Alignment explanation
Indices: 25144985--25145346 Score: 330
Period size: 42 Copynumber: 8.7 Consensus size: 42
25144975 GGATCCCAAC
* * *
25144985 GGAATCACCACTTAACAACCACC-TT-ATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTTCATAATCAATGATACGG
* * *
25145026 GGAATCAGCACATAGAAACCCCTTTCATAATTAAGGATACGG
1 GGAATCAGCACATAGCAACCCCTTTCATAATCAATGATACGG
* * * *
25145068 TGGAATCAGCACTTATCAACCAAC-TT-ATAGTCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTTCATAATCAATGATACGG
* * * *
25145110 GGAATCATCACATAGCAACCCCTTTCACAATCAAGGATACGCT
1 GGAATCAGCACATAGCAACCCCTTTCATAATCAATGATACG-G
*
25145153 GGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTTCATAATCAATGATACGG
* * * * * *
25145194 GTAATCAGCACATAGAAAACCCTTTCACAATCAAGGATACGAT
1 GGAATCAGCACATAGCAACCCCTTTCATAATCAATGATACG-G
* *
25145237 GGAATCAGCACTTAGAAACCACC-TT-ATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTTCATAATCAATGATACGG
* * *
25145278 GGAATCAACACAT-GCAACCCCTTTC-TGATCAATGATTCGG
1 GGAATCAGCACATAGCAACCCCTTTCATAATCAATGATACGG
* * *
25145318 GGAATCTGCACTTAGCAACCCCTTACATA
1 GGAATCAGCACATAGCAACCCCTTTCATA
25145347 CAAAGAATCC
Statistics
Matches: 256, Mismatches: 49, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
39 2 0.01
40 35 0.14
41 77 0.30
42 79 0.31
43 58 0.23
44 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACATAGCAACCCCTTTCATAATCAATGATACGG
Found at i:25145095 original size:84 final size:84
Alignment explanation
Indices: 25144985--25145342 Score: 499
Period size: 84 Copynumber: 4.3 Consensus size: 84
25144975 GGATCCCAAC
* *
25144985 GGAATCACCACTTAACAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
* *
25145050 TCATAATTAAGGATACGGT
66 TCACAATCAAGGATACGGT
* * * * *
25145069 GGAATCAGCACTTATCAACCAACTTATAGTCAATGATACGGGGAATCATCACATAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
*
25145134 TCACAATCAAGGATACGCT
66 TCACAATCAAGGATACGGT
* *
25145153 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGTAATCAGCACATAGAAAACCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
*
25145218 TCACAATCAAGGATACGAT
66 TCACAATCAAGGATACGGT
* * *
25145237 GGAATCAGCACTTAGAAACCACCTTATAATCAATGATACGGGGAATCAACACAT-GCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
** * *
25145301 TC-TGATCAATGATTCGG-
66 TCACAATCAAGGATACGGT
*
25145318 GGAATCTGCACTTAGCAACC-CCTTA
1 GGAATCAGCACTTAGCAACCACCTTA
25145343 CATACAAAGA
Statistics
Matches: 245, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
80 5 0.02
81 18 0.07
82 10 0.04
83 10 0.04
84 202 0.82
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (84 bp):
GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGAAACCCCTT
TCACAATCAAGGATACGGT
Found at i:25146373 original size:13 final size:13
Alignment explanation
Indices: 25146353--25146387 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25146343 GCCCAAATGT
25146353 CAAAATTTTGGAA
1 CAAAATTTTGGAA
*
25146366 CGAAATTTTGGAA
1 CAAAATTTTGGAA
25146379 CAAAATTTT
1 CAAAATTTT
25146388 CATGAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (13 bp):
CAAAATTTTGGAA
Found at i:25148261 original size:42 final size:42
Alignment explanation
Indices: 25148181--25148262 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
25148171 CGTTTTCTCT
* **
25148181 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
* *
25148223 ATGCTATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
25148263 CACATCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:25151077 original size:84 final size:84
Alignment explanation
Indices: 25150975--25151335 Score: 534
Period size: 84 Copynumber: 4.3 Consensus size: 84
25150965 AAAGGATCCC
* * *
25150975 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCAGATAGAAACTC
1 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC
25151040 CTTTCACAATCAAGGATAT
66 CTTTCACAATCAAGGATAT
* * *
25151059 GGTGGAATCAGTACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAACACATAGCAACCC
1 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC
25151124 CTTTCACAATCAAGGATAT
66 CTTTCACAATCAAGGATAT
* * * *
25151143 GGTGGAATCAGCACTTAACAACCACCTTATAATCAATGATACGAGGAATTAGAACATAGCAACCC
1 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC
*
25151208 CTTTCACAATCAAGGATAC
66 CTTTCACAATCAAGGATAT
*
25151227 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACAT-GCAACCC
1 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC
** *
25151291 CTTTC-TGATCAATGAT-T
66 CTTTCACAATCAAGGATAT
*
25151308 CGG-GGAATCTGCACTTAGCAACC-CCTTA
1 -GGTGGAATCAGCACTTAGCAACCACCTTA
25151336 CATTCAAAGA
Statistics
Matches: 252, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.02
81 19 0.08
82 10 0.04
83 12 0.05
84 206 0.82
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (84 bp):
GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC
CTTTCACAATCAAGGATAT
Found at i:25152359 original size:13 final size:13
Alignment explanation
Indices: 25152333--25152367 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
25152323 GCCCAAACGT
25152333 CGAAATTTTGGAA
1 CGAAATTTTGGAA
25152346 CGAAACTTTT-GAA
1 CGAAA-TTTTGGAA
25152359 CGAAATTTT
1 CGAAATTTT
25152368 CACGAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (13 bp):
CGAAATTTTGGAA
Found at i:25153038 original size:30 final size:29
Alignment explanation
Indices: 25153002--25153100 Score: 137
Period size: 30 Copynumber: 3.4 Consensus size: 29
25152992 CAGTATAGTA
*
25153002 TGGGCCTTAGCCCAGTACAGTAACAGCGTG
1 TGGGCCTTAGCCCAATACAGTAACAG-GTG
*
25153032 TGGGCCTTAGCCCAATACGGTAACAGTGTG
1 TGGGCCTTAGCCCAATACAGTAACAG-GTG
* *
25153062 TGTGCCTTAGCCCAATACAGTAATA-GTG
1 TGGGCCTTAGCCCAATACAGTAACAGGTG
25153090 TGGGCCTTAGC
1 TGGGCCTTAGC
25153101 ATATTATAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.21
30 49 0.79
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGGCCTTAGCCCAATACAGTAACAGGTG
Found at i:25155779 original size:30 final size:30
Alignment explanation
Indices: 25155743--25155826 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
25155733 TATTAGTACA
**
25155743 GTGTGGGCCTTAGCCCAATATGGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
25155773 GTGTGGGTCTTAGCCCAATACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
* *
25155803 -T-TGGGCCTTTGCCCATTACAGTAA
1 GTGTGGGCCTTAGCCCAATACAGTAA
25155827 TAAGTACAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 20 0.42
29 1 0.02
30 27 0.56
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:25155817 original size:28 final size:28
Alignment explanation
Indices: 25155740--25155826 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
25155730 CAGTATTAGT
* **
25155740 ACAGTGTGGGCCTTAGCCCAATATGGTA
1 ACAGTTTGGGCCTTAGCCCAATACAGTA
*
25155768 ACAGTGTGTGGGTCTTAGCCCAATACAGTA
1 ACAGT-T-TGGGCCTTAGCCCAATACAGTA
* *
25155798 ACAGTTTGGGCCTTTGCCCATTACAGTA
1 ACAGTTTGGGCCTTAGCCCAATACAGTA
25155826 A
1 A
25155827 TAAGTACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.50
29 1 0.02
30 24 0.48
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (28 bp):
ACAGTTTGGGCCTTAGCCCAATACAGTA
Found at i:25155966 original size:26 final size:26
Alignment explanation
Indices: 25155937--25156025 Score: 124
Period size: 26 Copynumber: 3.4 Consensus size: 26
25155927 CACCATTATT
*
25155937 GCAGCAAAGCTGCCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* *
25155963 GCAGCAAGGCTGCCAGTAACAATAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* *
25155989 GCAGCAAAGCTGCCAATAACAGTATAT
1 GCAGCAAAGCTGCCAGTAACAGTA-AC
25156016 GCAGCAAAGC
1 GCAGCAAAGC
25156026 CACTAGTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 44 0.80
27 11 0.20
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.13
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:25156227 original size:27 final size:27
Alignment explanation
Indices: 25156181--25156320 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
25156171 GGTATAACAA
**
25156181 TCATTTTA-CCTTATGGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
*
25156207 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
* * * *
25156234 TCATTTTAGCTTTTGGGGGTATTTCAG
1 TCATTTTACCCTTCGGGGGTATTTCGG
*
25156261 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* **
25156288 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGGGGGTATTTCGG
25156315 TCATTT
1 TCATTT
25156321 GCCCACGAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 8 0.08
27 90 0.92
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTCGG
Found at i:25156268 original size:54 final size:54
Alignment explanation
Indices: 25156180--25156320 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
25156170 CGGTATAACA
* * *
25156180 ATCATTTTACCTTAT-GGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCG
1 ATCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
*
25156233 ATCATTTTAGCTTTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
1 ATCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
25156287 GTCATTTTACCCTTCGAGGGTATTTTAGTCATTT
1 ATCATTTTACCTTTTGGGGGTATTTCAGTCATTT
25156321 GCCCACGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 13 0.17
54 64 0.83
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (54 bp):
ATCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:25159656 original size:17 final size:19
Alignment explanation
Indices: 25159617--25159657 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
25159607 TTTCTCCTAA
*
25159617 ATTTTAATTTTATTTAACT
1 ATTTTAATTTTATTGAACT
25159636 -TTTTAA-TTTATTGAA-T
1 ATTTTAATTTTATTGAACT
25159652 ATTTTA
1 ATTTTA
25159658 TACTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTAATTTTATTGAACT
Found at i:25178245 original size:17 final size:17
Alignment explanation
Indices: 25178223--25178257 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25178213 GAGAGAAGAA
25178223 AAATAATGAAA-ATAAAT
1 AAATAA-GAAAGATAAAT
25178240 AAATAAGAAAGATAAAT
1 AAATAAGAAAGATAAAT
25178257 A
1 A
25178258 GATGACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAATAAGAAAGATAAAT
Found at i:25187558 original size:40 final size:40
Alignment explanation
Indices: 25187503--25187771 Score: 457
Period size: 40 Copynumber: 6.7 Consensus size: 40
25187493 TGAGCATTGG
25187503 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
25187543 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
25187583 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25187623 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
25187663 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
25187703 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
25187743 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
25187772 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:25196049 original size:40 final size:40
Alignment explanation
Indices: 25195994--25196222 Score: 395
Period size: 40 Copynumber: 5.7 Consensus size: 40
25195984 TGAGCATTGG
25195994 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
25196034 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
25196074 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25196114 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
25196154 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
25196194 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
25196223 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:25201817 original size:15 final size:17
Alignment explanation
Indices: 25201794--25201830 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
25201784 AATCGACCTG
*
25201794 AAAATAAAATAAAAA-T
1 AAAATAAAACAAAAATT
25201810 AAAA-AAAACAAAAATT
1 AAAATAAAACAAAAATT
25201826 AAAAT
1 AAAAT
25201831 TTGTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAACAAAAATT
Found at i:25217191 original size:25 final size:25
Alignment explanation
Indices: 25217163--25217278 Score: 160
Period size: 25 Copynumber: 4.6 Consensus size: 25
25217153 CGTATAAGCT
* *
25217163 TACCGGTTTACAGCTTGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
* *
25217188 TACCGATTTACAACTTGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
* *
25217213 TACCAAATTACAGCTCGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
*
25217238 TACCGATTTACAGCTCGAGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
*
25217263 TACCGATTCACAGCTC
1 TACCGATTTACAGCTC
25217279 ATATGAGCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 81 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
TACCGATTTACAGCTCGTGAGAGCA
Found at i:25217286 original size:25 final size:23
Alignment explanation
Indices: 25217182--25217290 Score: 92
Period size: 25 Copynumber: 4.4 Consensus size: 23
25217172 ACAGCTTGTG
* **
25217182 AGAGCATACCGATTTACAACTTGT
1 AGAGCATACCGA-TTACAGCTCAT
* *
25217206 GAGAGCATACCAAATTACAGCTCGT
1 -AGAGCATACC-GATTACAGCTCAT
*
25217231 GAGAGCATACCGATTTACAGCTCGAG
1 -AGAGCATACCGA-TTACAGCTC-AT
25217257 AGAGCATACCGATTCACAGCTCAT
1 AGAGCATACCGATT-ACAGCTCAT
25217281 ATGAGCATAC
1 A-GAGCATAC
25217291 ATGTATAGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.07
25 66 0.92
26 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (23 bp):
AGAGCATACCGATTACAGCTCAT
Found at i:25227124 original size:9 final size:8
Alignment explanation
Indices: 25227110--25227151 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
25227100 AATTGAATCG
25227110 ATTTTTTCT
1 ATTTTTT-T
25227119 ATTTTTTT
1 ATTTTTTT
25227127 AATTTTTTT
1 -ATTTTTTT
*
25227136 ATTTTTTA
1 ATTTTTTT
25227144 ATTTTTTT
1 ATTTTTTT
25227152 CATTCGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:25227126 original size:10 final size:9
Alignment explanation
Indices: 25227110--25227151 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
25227100 AATTGAATCG
25227110 ATTTTTTCT-
1 ATTTTTT-TA
25227119 ATTTTTTTA
1 ATTTTTTTA
25227128 ATTTTTTT-
1 ATTTTTTTA
25227136 A-TTTTTTA
1 ATTTTTTTA
25227144 ATTTTTTT
1 ATTTTTTT
25227152 CATTCGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.20
8 3 0.10
9 21 0.70
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:25227140 original size:16 final size:17
Alignment explanation
Indices: 25227110--25227151 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
25227100 AATTGAATCG
25227110 ATTTTTTCTATTTTTTTA
1 ATTTTTT-TATTTTTTTA
25227128 ATTTTTTTA-TTTTTTA
1 ATTTTTTTATTTTTTTA
25227144 ATTTTTTT
1 ATTTTTTT
25227152 CATTCGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 15 0.62
17 2 0.08
18 7 0.29
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTTTATTTTTTTA
Found at i:25230893 original size:24 final size:24
Alignment explanation
Indices: 25230866--25230914 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25230856 AAATCATCAC
*
25230866 ATTATA-AAGTTGTTAATCCAGTAA
1 ATTATAGAA-TTGATAATCCAGTAA
*
25230890 ATTATAGAATTGATAATCTAGTAA
1 ATTATAGAATTGATAATCCAGTAA
25230914 A
1 A
25230915 ATAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (24 bp):
ATTATAGAATTGATAATCCAGTAA
Found at i:25243059 original size:22 final size:22
Alignment explanation
Indices: 25243002--25243090 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
25242992 ATAAATACGC
**
25243002 GAACCCTACATGTTCTAATATAC
1 GAACCCTACATGTT-TAATATGT
* * *
25243025 GAAGCCTATATG-TTATTTATGT
1 GAACCCTACATGTTTA-ATATGT
25243047 GAACCCTACATGTGTTAATATGT
1 GAACCCTACATGT-TTAATATGT
*
25243070 GAACCCTA-ATTGTTTATTATG
1 GAACCCTACA-TGTTTAATATG
25243091 AGAATTCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
21 2 0.04
22 22 0.42
23 26 0.49
24 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
GAACCCTACATGTTTAATATGT
Found at i:25243132 original size:15 final size:15
Alignment explanation
Indices: 25243102--25243148 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25243092 GAATTCTATA
* *
25243102 TGTGAACCATAGATG
1 TGTGAACCCTAAATG
*
25243117 TGTGAGCCCTAAATG
1 TGTGAACCCTAAATG
*
25243132 TGTGAACCCTATATG
1 TGTGAACCCTAAATG
25243147 TG
1 TG
25243149 AACTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (15 bp):
TGTGAACCCTAAATG
Found at i:25252953 original size:13 final size:13
Alignment explanation
Indices: 25252935--25252968 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
25252925 ATTCATTTAA
25252935 CATTTCACA-TATT
1 CATTTCA-AGTATT
25252948 CATTTCAAGTATT
1 CATTTCAAGTATT
25252961 CATTTCAA
1 CATTTCAA
25252969 ATGTCCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (13 bp):
CATTTCAAGTATT
Found at i:25253012 original size:13 final size:13
Alignment explanation
Indices: 25252994--25253033 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
25252984 TATCTATATC
25252994 CATATAAACATTT
1 CATATAAACATTT
*
25253007 CATATAAACACTT
1 CATATAAACATTT
* *
25253020 CACATAACCATTT
1 CATATAAACATTT
25253033 C
1 C
25253034 CATTTACTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:25254269 original size:20 final size:20
Alignment explanation
Indices: 25254232--25254270 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25254222 TTGTTTTGGT
*
25254232 TTTAATTATAATTAACATAA
1 TTTAATTATAAATAACATAA
25254252 TTTAA-TATAAATATACATA
1 TTTAATTATAAATA-ACATA
25254271 TAATCTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATTATAAATAACATAA
Found at i:25275579 original size:47 final size:47
Alignment explanation
Indices: 25275496--25275697 Score: 251
Period size: 47 Copynumber: 4.3 Consensus size: 47
25275486 AAGGAGGAAG
* * *
25275496 AAGTAGCAATTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* *
25275543 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTAGTCCACAATTTTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* * * * *
25275590 AAGTGGCAGTTTATTTGCAAAAGTGGTGGCTTGTCAATAATTTTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* * * * *
25275637 AAGTGGTAGTTTATCTGCAACAGTGGTGACTTGTCCACAATATCATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
**
25275684 AAGTGATAGTTTAT
1 AAGTGGCAGTTTAT
25275698 ATGCATTACA
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
Found at i:25289445 original size:100 final size:100
Alignment explanation
Indices: 25289318--25290089 Score: 906
Period size: 100 Copynumber: 7.7 Consensus size: 100
25289308 TTTGATCTAC
** ** * * * * * * * *
25289318 TTAACTGTGATGTCGGGGAAATAAGATTCGCTGCTGTAGCTTCAATCGGTTCCACTACACTGCTT
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCT
*
25289383 GGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTT
66 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * * * * * * * *
25289418 TTAACTGTAATTTCGGGGAAGCAAGATTCA-CTATTTTGACGTTAATTTGTTCCACTGCACCGCT
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCACTGCC
*
25289482 TGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
65 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* ** * *
25289518 TTAACTGCAATGTCGGGGAAGCAAGGTTTGCC-ATTGTGGCTTTAATCTGTTCCACTACACCGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCACTGCC
* * * * *
25289582 AGGGAAATAAGATTCGCTATTTTAGCATTAATCTTT
65 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * * *
25289618 TTAACTGCAAAGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGC-GTCGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACT-GCC
** *
25289682 TGGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTT
65 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* *
25289718 TTAACTGCAATGTCGGGGAAGAAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCA-TCGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACT-GCC
*
25289782 TGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
65 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * * * ** *
25289818 TTAACTGTAATGTCGGGGAAGCCAGATTCACTGATGTGACTTTAATCTGTTCCACTGCACCACCA
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCT
* *
25289883 GGGAAATAAGATTTGCTGTTGTAGCTTTAATCTTT
66 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * * *
25289918 GTAACTGCAAAGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-GTCGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACT-GCC
* *
25289982 TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTT
65 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * *
25290018 TTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGGATTGCCT
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCT
*
25290083 AGGAAGT
66 GGGAAGT
25290090 TAAATTGGTA
Statistics
Matches: 570, Mismatches: 94, Indels: 16
0.84 0.14 0.02
Matches are distributed among these distances:
100 567 0.99
101 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCT
GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
Found at i:25289863 original size:300 final size:300
Alignment explanation
Indices: 25289382--25290074 Score: 1030
Period size: 300 Copynumber: 2.3 Consensus size: 300
25289372 CTACACTGCT
* * *
25289382 TGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGTAATTTCGGGGAAGCAAGATTC
1 TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
* * * * * *
25289447 A-CTATTTTGACGTTAATTTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAGCTTT
66 ACCGA-TGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAAGATTCGCTGTTGTAGCTTT
* ** *
25289511 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTTGCCATTGTGGCTTTAATCTGTTCCACTAC
130 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGACTTTAATCTGTTCCACTAC
* * * **
25289576 ACCGCCAGGGAAATAAGATTCGCTATTTTAGCATTAATCTTTTTAACTGCAAAGTTGGGGAAGCA
195 ACCACCAGGGAAATAAGATTCGCTATTGTAGCATTAATCTTTGTAACTGCAAAGTCAGGGAAGCA
25289641 AGATTCACCGATGTGGCTTTAATCTATTCCACTGCGTCGCC
260 AGATTCACCGATGTGGCTTTAATCTATTCCACTGCGTCGCC
** * * *
25289682 TGGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
1 TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
* * * *
25289747 ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTAGCTTTA
66 ACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAAGATTCGCTGTTGTAGCTTTA
* * * *
25289812 ATCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACTGA-TGTGACTTTAATCTGTTCCACTGC
131 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCAC-CATTGTGACTTTAATCTGTTCCACTAC
* * *
25289876 ACCACCAGGGAAATAAGATTTGCTGTTGTAGCTTTAATCTTTGTAACTGCAAAGTCAGGGAAGCA
195 ACCACCAGGGAAATAAGATTCGCTATTGTAGCATTAATCTTTGTAACTGCAAAGTCAGGGAAGCA
*
25289941 AGATTCACCGATGTGGCTTTAATCTGTTCCACTGCGTCGCC
260 AGATTCACCGATGTGGCTTTAATCTATTCCACTGCGTCGCC
25289982 TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
1 TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
*
25290047 ACTGATGTGGCTTTAATCTGTTCCACTG
66 ACCGATGTGGCTTTAATCTGTTCCACTG
25290075 GATTGCCTAG
Statistics
Matches: 350, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
300 347 0.99
301 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (300 bp):
TGGGGAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
ACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAAGATTCGCTGTTGTAGCTTTA
ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGACTTTAATCTGTTCCACTACA
CCACCAGGGAAATAAGATTCGCTATTGTAGCATTAATCTTTGTAACTGCAAAGTCAGGGAAGCAA
GATTCACCGATGTGGCTTTAATCTATTCCACTGCGTCGCC
Found at i:25290088 original size:50 final size:50
Alignment explanation
Indices: 25289433--25290074 Score: 333
Period size: 50 Copynumber: 12.8 Consensus size: 50
25289423 TGTAATTTCG
* * * * * *
25289433 GGGAAGCAAGATTCACT-ATTTTGACGTTAATTTGTTCCACTGCACCGCTT
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * * * * * ** * * *
25289483 GAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
* ** * * * *
25289533 GGGAAGCAAGGTTTGC-CATTGTGGCTTTAATCTGTTCCACTACACCGCCA
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGCAACGCCT
** * * * * * ** * *
25289583 GGGAAATAAGATTCGCT-ATTTTAGCATTAATCTTTTTAACTGCAAAG-TT
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * **
25289632 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCGTCGCCT
1 -GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
** * * * * ** * * *
25289683 GGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * * *
25289733 GGGAAGAAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCATCGCCT
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * * * * * ** * * * *
25289783 GGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * * * *
25289833 GGGAAGCCAGATTCACTGATGTGACTTTAATCTGTTCCACTGCACCACCA
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
** ** * * ** * * *
25289883 GGGAAATAAGATTTGCTGTTGTAGCTTTAATCT-TTGTAACTGCAAAGTCA
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTT-CCACTGCAACGCCT
* **
25289933 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCGTCGCCT
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
* * * * * ** * * *
25289983 GGGGAGTAAGATTCGCT-ATTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGCAACGCCT
25290033 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTG
25290075 GATTGCCTAG
Statistics
Matches: 416, Mismatches: 166, Indels: 20
0.69 0.28 0.03
Matches are distributed among these distances:
49 3 0.01
50 408 0.98
51 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCAACGCCT
Found at i:25291381 original size:17 final size:17
Alignment explanation
Indices: 25291361--25291420 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 17
25291351 AGCCTCTCCA
25291361 TTTTTACTTTTTCATCAT
1 TTTTTA-TTTTTCATCAT
25291379 TTTTTATTTTTCATTTTCACT
1 TTTTTATTTTTCA---TCA-T
*
25291400 TTTTCATTTTTCA-CAT
1 TTTTTATTTTTCATCAT
25291416 TTTTT
1 TTTTT
25291421 TACTCAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 6 0.17
20 3 0.08
21 13 0.36
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTTCATCAT
Found at i:25291388 original size:6 final size:7
Alignment explanation
Indices: 25291375--25291412 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
25291365 TACTTTTTCA
25291375 TCATTTT
1 TCATTTT
*
25291382 TTATTTT
1 TCATTTT
25291389 TCA-TTT
1 TCATTTT
25291395 TCACTTTT
1 TCA-TTTT
25291403 TCATTTT
1 TCATTTT
25291410 TCA
1 TCA
25291413 CATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.22
7 15 0.56
8 6 0.22
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
TCATTTT
Found at i:25291410 original size:15 final size:15
Alignment explanation
Indices: 25291375--25291419 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
25291365 TACTTTTTCA
*
25291375 TCATTTTTTA-TTTT
1 TCATTTTTCACTTTT
25291389 TCA-TTTTCACTTTT
1 TCATTTTTCACTTTT
25291403 TCATTTTTCACATTTT
1 TCATTTTTCAC-TTTT
25291419 T
1 T
25291420 TTACTCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 7 0.26
16 5 0.19
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
TCATTTTTCACTTTT
Found at i:25305590 original size:18 final size:18
Alignment explanation
Indices: 25305555--25305592 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25305545 CATAAGTACG
*
25305555 CAGAAATAAAATGATGTT
1 CAGAAATAAAATAATGTT
25305573 CAGAAATAAAA-AATTGTT
1 CAGAAATAAAATAA-TGTT
25305591 CA
1 CA
25305593 TAAGTTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (18 bp):
CAGAAATAAAATAATGTT
Found at i:25307964 original size:14 final size:15
Alignment explanation
Indices: 25307932--25307965 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25307922 TTGTATGTTT
25307932 GATTAACATGGATTTA
1 GATTAACATGGA-TTA
25307948 GATTAACATGG-TTA
1 GATTAACATGGATTA
25307962 GATT
1 GATT
25307966 TTAAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (15 bp):
GATTAACATGGATTA
Found at i:25313606 original size:18 final size:19
Alignment explanation
Indices: 25313565--25313609 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
25313555 AGAATAAAAC
25313565 ATTTTGAAATTGAATAATG
1 ATTTTGAAATTGAATAATG
25313584 A-TTTGTAAA-TGAATAAT-
1 ATTTTG-AAATTGAATAATG
25313601 ATTTTGAAA
1 ATTTTGAAA
25313610 ACGAACGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
ATTTTGAAATTGAATAATG
Found at i:25313967 original size:25 final size:25
Alignment explanation
Indices: 25313939--25313993 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25313929 AACTGTCCTT
* *
25313939 GATAGCATATCCTGAA-ACTGCTATA
1 GATAGCATATACT-AAGACTACTATA
*
25313964 GATAGTATATACTAAGACTACTATA
1 GATAGCATATACTAAGACTACTATA
25313989 GATAG
1 GATAG
25313994 ACTATATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (25 bp):
GATAGCATATACTAAGACTACTATA
Found at i:25314010 original size:40 final size:40
Alignment explanation
Indices: 25313964--25314041 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
25313954 AACTGCTATA
25313964 GATAGTATATACTAAGACTACTATAGATAGACTATATAGT
1 GATAGTATATACTAAGACTACTATAGATAGACTATATAGT
*
25314004 GATAGTATATACTGAGACTACTATAGATAGACTATATA
1 GATAGTATATACTAAGACTACTATAGATAGACTATATA
25314042 CTGAAAACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (40 bp):
GATAGTATATACTAAGACTACTATAGATAGACTATATAGT
Found at i:25317324 original size:50 final size:50
Alignment explanation
Indices: 25317196--25317376 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
25317186 CAATGCAATA
* * ** * * *
25317196 TCCCAGATATAGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATAGACTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
25317246 TCCTAGACAT-GATCTTAC-GGGGAACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATAGA-CTTACATGGG-ACCTCTCATCTCGGTGCCAACGCCATG
* * * * *
25317296 TCCCAGACATAGACTTACATGGGCCCTCTCACCTTGGTGCCAACGCCCTA
1 TCCCAGACATAGACTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
25317346 TCCCAGACATGGTCTTACATGGGACCTCTCA
1 TCCCAGACATAGACTTACATGGGACCTCTCA
25317377 AAATCTCCAT
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.04
50 99 0.92
51 5 0.05
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.25
Consensus pattern (50 bp):
TCCCAGACATAGACTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:25318179 original size:50 final size:50
Alignment explanation
Indices: 25318090--25318271 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
25318080 CAATTCAATA
* * ** * * * *
25318090 TCCCAGATATGGCCTTATC-TGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTA-CATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * * *
25318140 TCCCACAAATGTTCTTACGA-GAGACCTCTCATCTCGGTGCTAACGCCATG
1 TCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
25318190 TCCCAGACATGGTCTTACATGGGACCTCTCTTCTCGGAGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
25318240 TCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT
25318272 AATCTTAATG
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 107 0.98
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:25318297 original size:56 final size:50
Alignment explanation
Indices: 25318134--25318323 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 50
25318124 AGGTGCCCAT
* * * * * * * *
25318134 GCCATGTCCCACAAATGTTCTTACGA-GAGACCTCTCATCTCGGTGCTAAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCTTCTAGGAGCCAAC
*
25318184 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTTCTCGGAGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTTCTAGGAGCCAAC
* *
25318234 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTTAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-T--TC-T-AGGA-GCCAAC
* * *
25318290 GTCATGTCCTAGATATGGTCTTACATGGGACCTC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTC
25318324 ATCCTCTTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 1 0.01
50 77 0.64
51 1 0.01
53 2 0.02
54 1 0.01
55 2 0.02
56 36 0.30
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTTCTAGGAGCCAAC
Found at i:25320448 original size:50 final size:50
Alignment explanation
Indices: 25320333--25320605 Score: 216
Period size: 50 Copynumber: 5.4 Consensus size: 50
25320323 CAAAGCAATA
* * * *
25320333 TCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATCT-CGGTGCCAACGCCATG
* * * *
25320382 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATG
* * ** *
25320432 TCCTAGACATGGTCTTAC--GGGGGACCTCTTCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATG
* ** * *
25320480 TCCCAGACA-GAGTCTTACGTGGGACCTCTCACCTCGGTGCCAACGCCCTG
1 TCCCAGACATG-GTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATG
* ** * *
25320530 TCCCAAACATGGTCTTACATGGGACCTCTCAAAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTC---ATCTC---GGTGCCAACGCCATG
25320586 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
25320606 AGGATCTCTT
Statistics
Matches: 182, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 42 0.23
49 27 0.15
50 76 0.42
51 1 0.01
53 4 0.02
56 31 0.17
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATG
Found at i:25320484 original size:98 final size:98
Alignment explanation
Indices: 25320369--25320558 Score: 229
Period size: 98 Copynumber: 1.9 Consensus size: 98
25320359 TTTCTTGTAC
* * ** * * *
25320369 TGCCAATGCCATATCCCAGATATG-GTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATATCCCAGACA-GAGTCTTACATGGGACCTCTCACATCGGTGCCAACGCCATGT
* * *
25320433 CCTAGACATGGTCTTACGGGGGACCTCTTCTCGG
65 CCCAAACATGGTCTTACAGGGGACCTCTTCTCGG
* * * *
25320467 TGCCAACGCCATGTCCCAGACAGAGTCTTACGTGGGACCTCTCACCTCGGTGCCAACGCCCTGTC
1 TGCCAACGCCATATCCCAGACAGAGTCTTACATGGGACCTCTCACATCGGTGCCAACGCCATGTC
*
25320532 CCAAACATGGTCTTACATGGGACCTCT
66 CCAAACATGGTCTTACAGGGGACCTCT
25320559 CAAAATCTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
97 1 0.01
98 75 0.99
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (98 bp):
TGCCAACGCCATATCCCAGACAGAGTCTTACATGGGACCTCTCACATCGGTGCCAACGCCATGTC
CCAAACATGGTCTTACAGGGGACCTCTTCTCGG
Found at i:25321479 original size:56 final size:50
Alignment explanation
Indices: 25321281--25321707 Score: 266
Period size: 50 Copynumber: 8.4 Consensus size: 50
25321271 TATCCCAAAT
** * * * * *
25321281 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * *
25321331 ATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGG-GACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
*
25321381 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * * *
25321431 ATGGTCTTACATGGGACCTCTCATAATCTTAATGATGCCAATGTCATGTCCCAGAT
1 ATGGTCTTACATGGGACCTCTC---ATC-T--CGATGCCAACGCCATGTCCCAGAC
* * * ** * ** * * * *
25321487 TTGG---AAAATCTGA--T-ACATTCTTAATGTCC--TGACATTTGTATCCGATAC
1 ATGGTCTTACATGGGACCTCTCA-TCTCGATG-CCAACGCCA--TG--TCCCAGAC
* *
25321535 AT--TCTTAC-GGGAGACCTCTCATCTCGATGCTAACGCCATGTCCCAGAC
1 ATGGTCTTACATGG-GACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* *
25321583 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * * * *
25321633 ATGGTCTTACATGGGGCCTCTCATAATCTTAATGATGCCAATGTCATGTCCCAGAT
1 ATGGTCTTACATGGGACCTCTC---ATC-T--CGATGCCAACGCCATGTCCCAGAC
25321689 ATGGTCTTACATGGGACCT
1 ATGGTCTTACATGGGACCT
25321708 TTCCTCTTAA
Statistics
Matches: 293, Mismatches: 52, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
44 4 0.01
45 4 0.01
46 4 0.01
47 2 0.01
48 16 0.05
49 5 0.02
50 170 0.58
51 12 0.04
52 5 0.02
53 11 0.04
54 2 0.01
56 58 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
Found at i:25322089 original size:29 final size:30
Alignment explanation
Indices: 25322046--25322102 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
25322036 CCTCGACTCT
25322046 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* *
25322076 AACTTT-ACATAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
25322103 AAAGCTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:25323882 original size:98 final size:98
Alignment explanation
Indices: 25323705--25323944 Score: 250
Period size: 98 Copynumber: 2.4 Consensus size: 98
25323695 TGATAATAAC
* * ** * * *
25323705 GTGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGT-TTCTTGTCCTGCCAATGCCATAT
1 GTGCCAACGCCATATCCCAGACATGGTCTTACAAGGGACCTCTTCTCG--GTGCCAACGCCATAT
* ** *
25323769 CCCAGATATGGTCTTACATGGGAGTTCTCATATCG
64 CCCAGACATGGTCTTACATGGGACCTCTCACATCG
* * * * ** *
25323804 GTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTTCTCGGTGCCAACGCCATGTCC
1 GTGCCAACGCCATATCCCAGACATGGTCTTACAAGGGACCTCTTCTCGGTGCCAACGCCATATCC
* *
25323869 CAGACA-GAGTCTTACGTGGGACCTCTCACCTCG
66 CAGACATG-GTCTTACATGGGACCTCTCACATCG
*
25323902 GTGCCAACGCCCTATCCCAGACATGGTCTTACAAGGGACCTCT
1 GTGCCAACGCCATATCCCAGACATGGTCTTACAAGGGACCTCT
25323945 CAAAATCTCA
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
97 1 0.01
98 75 0.66
99 33 0.29
100 5 0.04
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (98 bp):
GTGCCAACGCCATATCCCAGACATGGTCTTACAAGGGACCTCTTCTCGGTGCCAACGCCATATCC
CAGACATGGTCTTACATGGGACCTCTCACATCG
Found at i:25323940 original size:50 final size:50
Alignment explanation
Indices: 25323705--25324000 Score: 240
Period size: 50 Copynumber: 5.9 Consensus size: 50
25323695 TGATAATAAC
* ** * * *
25323705 GTGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTC-
1 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * ** *
25323754 CTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * * **
25323804 GTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCT--TCTCG
1 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * *
25323852 GTGCCAACGCCATGTCCCAGACA-GAGTCTTACGTGGGACCTCTCACCTCG
1 GTGCCAACGCCATATCCCAGACATG-GTCTTACATGGGACCTCTCATCTCG
* *
25323902 GTGCCAACGCCCTATCCCAGACATGGTCTTACAAGGGACCTCTCAAAATCTCAATG
1 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---G
* * * * * *
25323958 ATGCCAATGCCATGTCCCAGACATGATCTTACATAGGATCTCT
1 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCT
25324001 TTACCCAAAT
Statistics
Matches: 200, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.00
48 41 0.20
49 41 0.20
50 76 0.38
51 1 0.00
53 4 0.02
56 36 0.18
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:25324865 original size:56 final size:50
Alignment explanation
Indices: 25324667--25325095 Score: 279
Period size: 50 Copynumber: 8.4 Consensus size: 50
25324657 TATCCCAAAT
** * * * * *
25324667 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * *
25324717 ATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGG-GACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
*
25324767 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * * *
25324817 ATGGTCTTACATGGGACCTCTCATAATCTTAATGATGCCAATGTCATGTCCCAGAT
1 ATGGTCTTACATGGGACCTCTC---ATC-T--CGATGCCAACGCCATGTCCCAGAC
* * * ** * ** * * * *
25324873 TTGG---AAAATCTGA--T-ACATTCTTAATGTCC--TGACATTTGTATCCGATAC
1 ATGGTCTTACATGGGACCTCTCA-TCTCGATG-CCAACGCCA--TG--TCCCAGAC
*
25324921 AT--TCTTACA-GGAGACCTCTCATCTCGATGCTAACGCCATGTCCCAGAC
1 ATGGTCTTACATGG-GACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* *
25324969 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
* * * * * *
25325019 ATGGTCTTACATGGGGCCTCTATAATCTTAATGATGCCAATGTCATGTCCCAGAT
1 ATGGTCTTACATGGGACCTC--TCATC-T--CGATGCCAACGCCATGTCCCAGAC
25325074 ATGGTCTTACATGGGACCTCTC
1 ATGGTCTTACATGGGACCTCTC
25325096 CTCTTAATGT
Statistics
Matches: 296, Mismatches: 52, Indels: 59
0.73 0.13 0.14
Matches are distributed among these distances:
44 4 0.01
45 4 0.01
46 4 0.01
47 2 0.01
48 16 0.05
49 6 0.02
50 169 0.57
51 12 0.04
52 9 0.03
53 10 0.03
54 1 0.00
55 37 0.12
56 22 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
Found at i:25325475 original size:29 final size:30
Alignment explanation
Indices: 25325432--25325488 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
25325422 CCTCGACTCT
25325432 AACTTTGACAAAATTACGA-TTTTGCCCCTA
1 AACTTTGACAAAATTAC-ACTTTTGCCCCTA
*
25325462 AACTTT-ACATAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACACTTTTGCCCC
25325489 AAAGCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 18 0.72
30 6 0.24
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:25331279 original size:50 final size:50
Alignment explanation
Indices: 25331225--25331460 Score: 219
Period size: 50 Copynumber: 4.5 Consensus size: 50
25331215 AGGAGCCCAT
*
25331225 GCCATGTCCCAGACATGGTCTTAC-GGGGCACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGAGG-ACCTCTCATCTCGGTGCCAAC
* *
25331275 GCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATCTCGGTGCCAAC
* * * *
25331325 GCCATGTCCCAGACATGGTCTTACATG-GGACCTTTCATAATCTTAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACA-GAGGACC--TC-TCATC-T--CGGTGCCAAC
* * *
25331381 GCCATGTCCCAGACATGGTCTTACATG-GGACCTTTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACA-GAGGACC--TC-TCATCTC---GGTGCCAAC
25331437 GCCAT-TCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
25331461 TGGGATTTCT
Statistics
Matches: 167, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
50 74 0.44
51 2 0.01
52 2 0.01
53 4 0.02
54 1 0.01
55 20 0.12
56 64 0.38
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATCTCGGTGCCAAC
Found at i:25331311 original size:100 final size:104
Alignment explanation
Indices: 25331189--25331465 Score: 296
Period size: 100 Copynumber: 2.6 Consensus size: 104
25331179 TATCCTAGAT
** *
25331189 ATGGTCTTACATGGGAGTTCTCATATAGGAGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGAGCCAATGCCATGTCCCAGACATGGTCTTACAGGGG
* *
25331253 CACC-TC-TCATC-T-CGGTGCCAACGCCATGTCCCAGAC
66 -ACCTTCATAATCTTACGATGCCAACGCCATGTCCCAGAC
* * * * *
25331289 ATGGTCTTACATAGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGAGCCAATGCCATGTCCCAGACATGGTCTTACAGGGG
* *
25331354 ACCTTTCATAATCTTAATGATGCCAATGCCATGTCCCAGAC
66 ACC-TTCATAATCTT-ACGATGCCAACGCCATGTCCCAGAC
* *
25331395 ATGGTCTTACATGGGACCTTTCATAATCTCAATGATGCCAATGCCAT-TCCCAGACATGGTCTTA
1 ATGGTCTTACATGGGACCTCTCAT-A--T--AGGA-GCCAATGCCATGTCCCAGACATGGTCTTA
*
25331459 CATGGGA
60 CAGGGGA
25331466 TTTCTTTACC
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
100 56 0.38
101 3 0.02
102 2 0.01
103 4 0.03
104 1 0.01
106 43 0.29
109 1 0.01
111 25 0.17
112 11 0.08
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (104 bp):
ATGGTCTTACATGGGACCTCTCATATAGGAGCCAATGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTTCATAATCTTACGATGCCAACGCCATGTCCCAGAC
Found at i:25331379 original size:56 final size:56
Alignment explanation
Indices: 25331268--25331465 Score: 293
Period size: 56 Copynumber: 3.7 Consensus size: 56
25331258 CTCATCTCGG
* * * * *
25331268 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACC--TC-TCATC-T--CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTTAATGA
25331318 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTTAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTTAATGA
*
25331374 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTTAATGA
25331430 TGCCAATGCCAT-TCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
25331466 TTTCTTTACC
Statistics
Matches: 136, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
50 37 0.27
52 2 0.01
53 4 0.03
54 1 0.01
55 24 0.18
56 68 0.50
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (56 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATCTTAATGA
Found at i:25339672 original size:57 final size:57
Alignment explanation
Indices: 25339581--25339778 Score: 197
Period size: 57 Copynumber: 3.5 Consensus size: 57
25339571 TTGCCAGAAA
* * * * *
25339581 GCTTTCCTTT-TAGAGTCTCACCACAAAGGC-GTCCTTTAAATGGTTCGCCACAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAATGGTTCACCACAAAG
* * *
25339636 GGTTACCTTTCTAGAGTTTTACCATAAAGACTGTCCTTT-AATAGGTTCACCATAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAAT-GGTTCACCACAAAG
* * * * * * *
25339693 GCTTACCATTCCAGACTTTTTCCACAAAGACTATCCTTTTACA-GGTTCACCACAAAA
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCC-TTTAAATGGTTCACCACAAAG
* *
25339750 GCTTACCTTCCTAGAGTTTTGCCACAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAG
25339779 GTTGTTATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
55 8 0.07
56 19 0.17
57 84 0.73
58 3 0.03
59 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (57 bp):
GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAATGGTTCACCACAAAG
Found at i:25339988 original size:52 final size:53
Alignment explanation
Indices: 25339903--25340054 Score: 146
Period size: 52 Copynumber: 2.9 Consensus size: 53
25339893 TTAGTCCTTC
* * * * * * *
25339903 CCATATGATGTCATAACTCACCAGTTATGGTCTTATACGATATGGTTTTTTTT
1 CCATATGATGCCACAACTCACCAATTATGGTCTTACACAATATGGTCTTCTTT
*
25339956 CCATATGATGCCACAAC-CCCCAATTATGGTCTTACACAATATGGTCTTCTTT
1 CCATATGATGCCACAACTCACCAATTATGGTCTTACACAATATGGTCTTCTTT
* * * * * * *
25340008 CCAAAAGATGCAATAA-TCCACTAGTTACGGTCTTACACAATATGGTC
1 CCATATGATGCCACAACT-CACCAATTATGGTCTTACACAATATGGTC
25340055 CTTTAACGTC
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 41 0.51
53 40 0.49
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (53 bp):
CCATATGATGCCACAACTCACCAATTATGGTCTTACACAATATGGTCTTCTTT
Found at i:25346697 original size:49 final size:50
Alignment explanation
Indices: 25346550--25346796 Score: 221
Period size: 50 Copynumber: 4.9 Consensus size: 50
25346540 ACATTAAGAG
* * * *
25346550 GATGAGA--TCCCATGTACGACCATGTCTGGGACATAGCATTGGTATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A
* * *
25346601 GATTATGAAAGGTCCCATGTAAGACTATGTCTGGGACAAGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
* * *
25346654 GATGAGAGGTCCCATGTAA-ACCATGTCTAGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
** * * *
25346703 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
* * ** * * *
25346753 TAAGAGAACTTCCATGTAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
25346797 TAGTACAAGA
Statistics
Matches: 159, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
49 42 0.26
50 75 0.47
51 1 0.01
53 2 0.01
54 5 0.03
56 34 0.21
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
Found at i:25346768 original size:99 final size:100
Alignment explanation
Indices: 25346605--25346796 Score: 224
Period size: 99 Copynumber: 1.9 Consensus size: 100
25346595 CATTGAGATT
* * * * * **
25346605 ATGAAAGGTCCCATGTAAGACTATGTCTGGGACAAGGCATTGGCACCAAGATGAGAGGTCCCATG
1 ATGAAAGGTCCCACGTAAGACCATGTCTGGGACAAGACATGGGCACCAAGAAGAGAACTCCCATG
* *
25346670 TAA-ACCATGTCTAGGACATGGCGTTGGCACCGAG
66 TAAGACCATATCTAGGACATGGCATTGGCACCGAG
* * * * * *
25346704 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATAAGAGAACTTCCATG
1 ATGAAAGGTCCCACGTAAGACCATGTCTGGGACAAGACATGGGCACCAAGAAGAGAACTCCCATG
* *
25346769 TAAGACCATATCTGGGATATGGCATTGG
66 TAAGACCATATCTAGGACATGGCATTGG
25346797 TAGTACAAGA
Statistics
Matches: 75, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
99 55 0.73
100 20 0.27
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (100 bp):
ATGAAAGGTCCCACGTAAGACCATGTCTGGGACAAGACATGGGCACCAAGAAGAGAACTCCCATG
TAAGACCATATCTAGGACATGGCATTGGCACCGAG
Found at i:25364978 original size:13 final size:13
Alignment explanation
Indices: 25364959--25364991 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
25364949 ATTAATTTAC
25364959 TAAATTAACCTTA
1 TAAATTAACCTTA
*
25364972 TACATTAACCTTA
1 TAAATTAACCTTA
25364985 TAAATTA
1 TAAATTA
25364992 TATTAACGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATTAACCTTA
Found at i:25369777 original size:22 final size:22
Alignment explanation
Indices: 25369749--25369791 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25369739 ATTATGATGA
25369749 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
25369771 TTGATATGTATGTGATTATAT
1 TTGATATGTATGAGATTATAT
25369792 ATGTGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Done.