Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2130
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: 61634
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:6 original size:1 final size:1
Alignment explanation
Indices: 1--54 Score: 90
Period size: 1 Copynumber: 54.0 Consensus size: 1
* *
1 TTTTTTTTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
55 GGGATAATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:1026 original size:165 final size:162
Alignment explanation
Indices: 737--1402 Score: 612
Period size: 166 Copynumber: 4.0 Consensus size: 162
727 AATGTTAGAT
* * * * * * **
737 GAATTTTAAAAATTTAAATCGAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCGGT-
1 GAATTTTAAAAATATAAACCAAGAAAAATC-CCCTAAAAACATTTATGGAGTAGAAAACTCCATA
* * *
801 TTTTGAAAACAAGAGAATTTCAAAGAAAAAATGAAAAAC-CTATGAAACATAAATGAAATTTTCA
65 TTTCG-AAA-TAGAGAATTTCAAAGAAAAAATGAAAAACTC-ATGAAA-ATAAAAGAAATTTTCA
* * *
865 AAACTGATTTACTATGAATTAAATGATGATATTTGAT
126 AAACTAATTTAATATGAATTAAATGATGATATTTGAA
** * *
902 GAATTTTAAAAATCATAAACCAAGAAAAATCCCCTAAAAAACATTTAAAGAGTTGAAAAGTCCAT
1 GAATTTTAAAAAT-ATAAACCAAGAAAAATCCCCT-AAAAACATTTATGGAGTAGAAAACTCCAT
* * *
967 ATTTCGGAAATGGGAGAATTTCAACAG-AAAAATGAAAAATTCATG-AAATAAAAGAAATTTTTT
64 ATTTC-GAAAT-AGAGAATTTCAA-AGAAAAAATGAAAAACTCATGAAAATAAAAGAAA-TTTTC
* *
1030 AAAACTAATTTAATGTGAATTAAATGATGATATTTGAT
125 AAAACTAATTTAATATGAATTAAATGATGATATTTGAA
* *
1068 GAATTTTAAAAATTTCAAACCAAGAAAAAT-CCCTCGAAAACATTTATGGAGTAGAAAACTCCAT
1 GAATTTTAAAAATAT-AAACCAAGAAAAATCCCCT-AAAAACATTTATGGAGTAGAAAACTCCAT
* * * * * * * * **
1132 TTTTTGACAATAAAGGACTTTTAAGGAAAAAAATGAAAAACTCAAGAAAATAAATGATTTTTTCA
64 ATTTCGA-AATAGA-GAATTTCAAAG-AAAAAATGAAAAACTCATGAAAATAAAAGAAATTTTCA
* * * *
1197 AAACTAATTTACTATGAATTAATTGATAATATGTGAA
126 AAACTAATTTAATATGAATTAAATGATGATATTTGAA
** * **
1234 GAATTTTAAAAATTATAAACTTAGAAAAATCCCC-AAAAATATTTATGGAGTAGAAAACTCTGTA
1 GAATTTTAAAAA-TATAAACCAAGAAAAATCCCCTAAAAACATTTATGGAGTAGAAAACTCCATA
* * * * * *
1298 TTTCAAAACAGAAAATTTTAAGGAAAAAATGAAAAACTCATG-AAATAAAA-AGAATTTTGAAAA
65 TTTCGAAATAGAGAATTTCAAAGAAAAAATGAAAAACTCATGAAAATAAAAGA-AATTTT-CAAA
* * *
1361 ACTGATTTAAT-TGTAATTAAATAATGATATTTAAA
128 ACTAATTTAATATG-AATTAAATGATGATATTTGAA
1396 GAATTTT
1 GAATTTT
1403 GAAGTTAAAA
Statistics
Matches: 409, Mismatches: 73, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
160 1 0.00
161 13 0.03
162 53 0.13
163 9 0.02
164 8 0.02
165 96 0.23
166 179 0.44
167 46 0.11
168 4 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (162 bp):
GAATTTTAAAAATATAAACCAAGAAAAATCCCCTAAAAACATTTATGGAGTAGAAAACTCCATAT
TTCGAAATAGAGAATTTCAAAGAAAAAATGAAAAACTCATGAAAATAAAAGAAATTTTCAAAACT
AATTTAATATGAATTAAATGATGATATTTGAA
Found at i:1211 original size:332 final size:327
Alignment explanation
Indices: 734--1402 Score: 798
Period size: 332 Copynumber: 2.0 Consensus size: 327
724 GACAATGTTA
* * *
734 GATGAATTTTAAAAATTTAAATCGAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCG
1 GATGAATTTTAAAAATTTAAACCAAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCA
*
799 GTTTTTGAAAACAAGAGAATTTCAAAGAAAAAATGAAAAACCTATGAAACATAAATGAAATTTTC
66 GTTTTTGAAAACAAGAGAATTTCAAAGAAAAAATGAAAAACCTAAGAAACATAAATGAAATTTTC
* * * *
864 AAAACTGATTTACTATGAATTAAATGATGATATTTGATGAATTTTAAAAATCATAAACCAAGAAA
131 AAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAACCAAGAAA
* * *** *
929 AATCCCCTAAAAAACATTTAAAGAGTTGAAAAGTCCATATTTCGGAAATGGGAGAATTTCAACAG
196 AATCCCC--AAAAACATTTAAAGAGTAGAAAACTCCATATTTC--AAAACAGAAAATTTCAA-AG
* ** *
994 -AAAAATGAAAAATTCATGAAAT-AAAAGAAATTTTTTAAAACTAATTTAA-TGTGAATTAAATG
256 AAAAAATGAAAAACTCATGAAATAAAAAG-AATTTTGAAAAACTAATTTAATTGT-AATTAAATA
1056 ATGATATTT
319 ATGATATTT
*
1065 GATGAATTTTAAAAATTTCAAACCAAGAAAAATC-C-CTCGAAAACATTTATGGAGTAGAAAACT
1 GATGAATTTTAAAAATTT-AAACCAAGAAAAATCTCACT-GAAAACATTTATGGAATAGAAAACT
* * * *
1128 CCATTTTTTGACAATA-AAG-GACTTTTAAGGAAAAAAATGAAAAA-CTCAAGAAA-ATAAATGA
64 -CAGTTTTTGA-AA-ACAAGAGAATTTCAAAG-AAAAAATGAAAAACCT-AAGAAACATAAATGA
** * *
1189 TTTTTTCAAAACTAATTTACTATGAATTAATTGATAATATGTGAAGAATTTTAAAAATTATAAAC
124 AATTTTCAAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAAC
** * ** ** *
1254 TTAGAAAAATCCCCAAAAATATTTATGGAGTAGAAAACTCTGTATTTCAAAACAGAAAATTTTAA
189 CAAGAAAAATCCCCAAAAACATTTAAAGAGTAGAAAACTCCATATTTCAAAACAGAAAATTTCAA
* *
1319 GGAAAAAATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTGATTTAATTGTAATTAAATA
254 AGAAAAAATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTAATTTAATTGTAATTAAATA
1384 ATGATATTT
319 ATGATATTT
* *
1393 AAAGAATTTT
1 GATGAATTTT
1403 GAAGTTAAAA
Statistics
Matches: 289, Mismatches: 39, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
327 1 0.00
328 76 0.26
329 8 0.03
330 29 0.10
331 43 0.15
332 108 0.37
333 23 0.08
334 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (327 bp):
GATGAATTTTAAAAATTTAAACCAAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCA
GTTTTTGAAAACAAGAGAATTTCAAAGAAAAAATGAAAAACCTAAGAAACATAAATGAAATTTTC
AAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAACCAAGAAA
AATCCCCAAAAACATTTAAAGAGTAGAAAACTCCATATTTCAAAACAGAAAATTTCAAAGAAAAA
ATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTAATTTAATTGTAATTAAATAATGATAT
TT
Found at i:2461 original size:85 final size:84
Alignment explanation
Indices: 2347--3148 Score: 724
Period size: 85 Copynumber: 9.5 Consensus size: 84
2337 AGTTACTTGA
* * * * *
2347 GACTAAGCTGACAAGTAAACAAAGGATAAAAAGGTTGATCAAGATTGAACGAAAAAGTCAATAAA
1 GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAACG-ACAAGTCAACAAA
* **
2412 GGATAAAATGATTTACCCGG
65 GGATAAAAGGATTTACCTAG
* * * * *
2432 GACTAAG-TCGACAGGTAAACAAAGTATAAAAAGGTTGGCCGAGATTGAATC-AGTAAGTCAACA
1 GACTAAGCT-GATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAA-CGA-CAAGTCAACA
*
2495 AAGGATAAAAGGATTTA-CTTG
63 AAGGATAAAAGGATTTACCTAG
* * * * * *
2516 AGAGTAAGCCGAAAGATAAACAAAGGATAAAAAAGTTGACCAAGATTGAACTGACAAGTCAACAG
1 -GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAAC-GACAAGTCAACAA
* * *
2581 TGGATAAAAAGATTTACC-CG
64 AGGATAAAAGGATTTACCTAG
* * ** * * ** *
2601 AGACTGAGCTGACAATTAAACAAAGGATAAGAAGGTTAACCGGGATTGAATCCACAAGTCAACAA
1 -GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAA-CGACAAGTCAACAA
*
2666 AGGATAAAAGGAATTACCTAG
64 AGGATAAAAGGATTTACCTAG
* * * * * *
2687 GACTTAGCTAATAGGTAAACAAAAGATAAAAAGGATGACCGAGATTGAACTGACAAGTCAATAAA
1 GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAAC-GACAAGTCAACAAA
* *
2752 GGATAAAAAGATTTACCCAG
65 GGATAAAAGGATTTACCTAG
* * * * * *
2772 AACTAAGCTGACAGGTAAATAAAAGATAAAAAGGTTGACCAGGATTAAACCGACAAGTCAACAAA
1 GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAA-CGACAAGTCAACAAA
2837 GGATAAAAGGATTTACCTAG
65 GGATAAAAGGATTTACCTAG
* * *
2857 GACTGAA-CTGATAGGTAAACAAAGGAT-AAAAGGTTCACTAGGATTGAACAGACAAGTCAACAA
1 GACT-AAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAAC-GACAAGTCAACAA
* **
2920 AAGATAAAAGGATTTATTTAG
64 AGGATAAAAGGATTTACCTAG
* * * * * ** *
2941 GATTGAA-CCGATAGATAAACAAAGGAT-AAAAGGTTGATCATGATTGAATTAACAAGTCAATAA
1 GACT-AAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAA-CGACAAGTCAACAA
3004 AGGATAAAAGGATTTACCTAG
64 AGGATAAAAGGATTTACCTAG
* * * * * *
3025 GATTGAATC-AATAGGTAAACAAAAGATAAAAAGGTTGACTAAGATTGAACTGATAAGTCAACAA
1 GACT-AAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAAC-GACAAGTCAACAA
* * *
3089 AAGATAAAAAGATCTACC-AGG
64 AGGATAAAAGGATTTACCTA-G
* *
3110 GATTAAGCTGATAGGTAAACAAAGGATAAAGAGGATTGA
1 GACTAAGCTGATAGGTAAACAAAGGATAAAAAGG-TTGA
3149 ACCGACAAGT
Statistics
Matches: 589, Mismatches: 107, Indels: 41
0.80 0.15 0.06
Matches are distributed among these distances:
83 1 0.00
84 151 0.26
85 425 0.72
86 12 0.02
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (84 bp):
GACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTGAACGACAAGTCAACAAAG
GATAAAAGGATTTACCTAG
Found at i:2629 original size:43 final size:42
Alignment explanation
Indices: 2324--3769 Score: 460
Period size: 43 Copynumber: 34.2 Consensus size: 42
2314 TCCGGTCAAT
* * *
2324 AAAGGATGAAAAGAGTTACTTGAGACT-AAGCTGACAAGTAAAC
1 AAAGGATAAAAAGATTTAC-CGAGACTGAA-CTGACAAGTAAAC
* * * * * * * *
2367 AAAGGATAAAAAGGTTGATCAAGATTGAAC-GAAAAAGTCAAT
1 AAAGGATAAAAAGATTTACCGAGACTGAACTG-ACAAGTAAAC
* * * *
2409 AAAGGATAAAATGATTTACCCGGGACT-AAGTCGACAGGTAAAC
1 AAAGGATAAAAAGATTTA-CCGAGACTGAACT-GACAAGTAAAC
* * ** * * * *
2452 AAAGTATAAAAAGGTTGGCCGAGATTGAA-TCAGTAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGA-CAAGTAAAC
* * * *
2494 AAAGGATAAAAGGATTTACTTGAGAGT-AAGCCGA-AAGATAAAC
1 AAAGGATAAAAAGATTTAC-CGAGACTGAA-CTGACAAG-TAAAC
* * * *
2537 AAAGGATAAAAA-AGTTGACCAAGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGA-TTTACCGAGACTGAACTGACAAGTAAAC
** * *
2579 AGTGGATAAAAAGATTTACCCGAGACTGAGCTGACAATTAAAC
1 AAAGGATAAAAAGATTTA-CCGAGACTGAACTGACAAGTAAAC
* * * * * * *
2622 AAAGGATAAGAAGGTTAACCGGGATTGAA-TCCACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACT-GACAAGTAAAC
* * * * * * * *
2664 AAAGGATAAAAGGAATTACCTAGGACTTAGCTAATAGGTAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * * *
2707 AAAAGATAAAAAGGA-TGACCGAGATTGAACTGACAAGTCAAT
1 AAAGGATAAAAA-GATTTACCGAGACTGAACTGACAAGTAAAC
* * *
2749 AAAGGATAAAAAGATTTACCCAGAACT-AAGCTGACAGGTAAAT
1 AAAGGATAAAAAGATTTACCGAG-ACTGAA-CTGACAAGTAAAC
* * * * * * *
2792 AAAAGATAAAAAGGTTGACC-AGGATTAAACCGACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * *
2834 AAAGGATAAAAGGATTTACCTAGGACTGAACTGATAGGTAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * * * *
2877 AAAGGAT-AAAAGGTTCA-CTAGGATTGAACAGACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * *** * * *
2918 AAAAGATAAAAGGATTTATTTAGGATTGAACCGA-TAGATAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAG-TAAAC
* * * * * * * *
2961 AAAGGAT-AAAAGGTTGATC-ATGATTGAATTAACAAGTCAAT
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * *
3002 AAAGGATAAAAGGATTTACCTAGGATTGAA-TCA-ATAGGTAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACA-A-GTAAAC
* * * ** * * *
3045 AAAAGATAAAAAGGTTGACTAAGATTGAACTGATAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
* * * * * *
3087 AAAAGATAAAAAGATCTACCAGGGA-TTAAGCTGATAGGTAAAC
1 AAAGGATAAAAAGATTTACC-GAGACTGAA-CTGACAAGTAAAC
* * * * *
3130 AAAGGATAAAGAGGATTGAACC--GAC--AAGTTGACAAAGGATA-
1 AAAGGATAAA-AAGATT-TACCGAGACTGAA-CTGAC-AAGTAAAC
* * * *
3171 AAAGGAT-AAAA-ATTTGATCAAGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGATTT-ACCGAGACTGAACTGACAAGTAAAC
* * * * * * *
3212 AAAGAATAAAAGGATTTACTAGGGACTG-AGTCGATAGGTAAAC
1 AAAGGATAAAAAGATTTAC-CGAGACTGAACT-GACAAGTAAAC
* * * * * * * *
3255 AAAGGGTAAATAG-GTGATCGTGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
* * * * * *
3296 AAAAGATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * *
3339 AAAGGATAAAAA-ATTGA-CTAGGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * * *
3380 AAAGGATAAAAGGATTTACTC-AGGATTGAGCTGATAGGTAAAC
1 AAAGGATAAAAAGATTTAC-CGA-GACTGAACTGACAAGTAAAC
* * * * * *
3423 AAAGGATAAACAG-TTAATC-AGGATTGAACTGACAAGTCAAT
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * *
3464 AAAGGATAAAAAGATTTACCAAAGACTGAGCTGATAGGTAAAC
1 AAAGGATAAAAAGATTTACC-GAGACTGAACTGACAAGTAAAC
* * * * * *
3507 AAAGGATAAAGAG-TTGACCGAGATTGAATTGATAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
* * * * * * *
3548 AAAAGATAAAAGGATTTACCTAGGATTGAGCTAACAAGTAAAT
1 AAAGGATAAAAAGATTTACCGA-GACTGAACTGACAAGTAAAC
* * * * * * *
3591 AAAGGATAAGAAGGTTGACGGGGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
* * * * * *
3633 AAAGGATAAAAGGATTTATCGAGGA-TTAAGCCGATAAGCAAAC
1 AAAGGATAAAAAGATTTACCGA-GACTGAA-CTGACAAGTAAAC
* * * * * * * *
3676 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAAC
1 AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
* ** * ** *
3718 AAAAGATAAAGGGATTTACTTGAGACTGAGTTGACAAGCAAAC
1 AAAGGATAAAAAGATTTAC-CGAGACTGAACTGACAAGTAAAC
3761 AAAGGATAA
1 AAAGGATAA
3770 GACTAGTTAA
Statistics
Matches: 1009, Mismatches: 327, Indels: 134
0.69 0.22 0.09
Matches are distributed among these distances:
38 5 0.00
39 1 0.00
40 8 0.01
41 182 0.18
42 350 0.35
43 448 0.44
44 12 0.01
45 3 0.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (42 bp):
AAAGGATAAAAAGATTTACCGAGACTGAACTGACAAGTAAAC
Found at i:2803 original size:255 final size:252
Alignment explanation
Indices: 2318--3139 Score: 802
Period size: 255 Copynumber: 3.2 Consensus size: 252
2308 ATTGATTCCG
* * * **
2318 GTCAATAAAGGATGAAAAGAGTTACTTGAGACTAAGCTGACAAGTAAACAAAGGATAAAAAGGTT
1 GTCAACAAAGGATAAAAAGATTTACCCGAGACTAAGCTGACAAGTAAACAAAGGAT-AAAAGGTT
* * * * * ** * *
2383 GATCAAGATTGAACGAAA-AAGTCAATAAAGGATAAAATGATTTACCCGGGACTAAG-TCGACAG
65 AACCAGGATTGAAC-AAACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTTAGCT-GATAG
* ** *
2446 GTAAAC-AAAGTATAAAAAGGTTGGCCGAGATTGAATCAGTAAGTCAACAAAGGATAAAAGGATT
128 GTAAACAAAAG-ATAAAAAGGTTGACCGAGATTGAAT-AACAAGTCAATAAAGGATAAAAGGATT
* * * * *
2510 TA-CTTGAGAGTAAGCCGAAAGATAAACAAAGGATAAAAAAGTTGACCAAGATTGAACTGACAA
191 TACCTAGA-ACTAAG-CGAAAGGTAAACAAAAGATAAAAAGGTTGACCAAGATTGAACTGACAA
** * *
2573 GTCAACAGTGGATAAAAAGATTTACCCGAGACTGAGCTGACAATTAAACAAAGGATAAGAAGGTT
1 GTCAACAAAGGATAAAAAGATTTACCCGAGACTAAGCTGACAAGTAAACAAAGGATAA-AAGGTT
* * * *
2638 AACCGGGATTGAATC-CACAAGTCAACAAAGGATAAAAGGAATTACCTAGGACTTAGCTAATAGG
65 AACCAGGATTGAA-CAAACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTTAGCTGATAGG
* * *
2702 TAAACAAAAGATAAAAAGGATGACCGAGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTA
129 TAAACAAAAGATAAAAAGGTTGACCGAGATTGAA-TAACAAGTCAATAAAGGATAAAAGGATTTA
* * * * * *
2767 CCCAGAACTAAGCTGACAGGTAAATAAAAGATAAAAAGGTTGACCAGGATTAAACCGACAA
193 CCTAGAACTAAGC-GAAAGGTAAACAAAAGATAAAAAGGTTGACCAAGATTGAACTGACAA
* * * *
2828 GTCAACAAAGGATAAAAGGATTTA-CCTAGGACTGAA-CTGATAGGTAAACAAAGGATAAAAGGT
1 GTCAACAAAGGATAAAAAGATTTACCCGA-GACT-AAGCTGACAAGTAAACAAAGGATAAAAGGT
* * * * ** * *
2891 TCACTAGGATTGAACAGACAAGTCAACAAAAGATAAAAGGATTTATTTAGGA-TTGAACCGATAG
64 TAACCAGGATTGAACAAACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTT-AGCTGATAG
* * *
2955 ATAAACAAAGGAT-AAAAGGTTGATC-ATGATTGAATTAACAAGTCAATAAAGGATAAAAGGATT
128 GTAAACAAAAGATAAAAAGGTTGACCGA-GATTGAA-TAACAAGTCAATAAAGGATAAAAGGATT
* * * * *
3018 TACCTAGGATTGAATC-AATAGGTAAACAAAAGATAAAAAGGTTGACTAAGATTGAACTGATAA
191 TACCTAGAACT-AAGCGAA-AGGTAAACAAAAGATAAAAAGGTTGACCAAGATTGAACTGACAA
* * * * * * *
3081 GTCAACAAAAGATAAAAAGATCTACCAGGGATTAAGCTGATAGGTAAACAAAGGATAAA
1 GTCAACAAAGGATAAAAAGATTTACCCGAGACTAAGCTGACAAGTAAACAAAGGATAAA
3140 GAGGATTGAA
Statistics
Matches: 466, Mismatches: 84, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
252 4 0.01
253 139 0.30
254 75 0.16
255 237 0.51
256 11 0.02
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (252 bp):
GTCAACAAAGGATAAAAAGATTTACCCGAGACTAAGCTGACAAGTAAACAAAGGATAAAAGGTTA
ACCAGGATTGAACAAACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTTAGCTGATAGGTA
AACAAAAGATAAAAAGGTTGACCGAGATTGAATAACAAGTCAATAAAGGATAAAAGGATTTACCT
AGAACTAAGCGAAAGGTAAACAAAAGATAAAAAGGTTGACCAAGATTGAACTGACAA
Found at i:3427 original size:168 final size:167
Alignment explanation
Indices: 3171--3737 Score: 662
Period size: 168 Copynumber: 3.4 Consensus size: 167
3161 ACAAAGGATA
*
3171 AAAGGATAAAAATTTGA-TCAAGATTGAACTGACAAGTCAAC-AAAGAATAAAAGGATTTACT-A
1 AAAGGATAAAAAGTTGACT-AAGATTGAACTGACAAGTCAACAAAAG-ATAAAAGGATTTACTCA
* *
3233 GGGACTGAG-TCGATAGGTAAACAAAGGGTAAATAGGTGATC-GTGATTGAACTGACAAGTCAAC
64 -GGATTGAGCT-GATAGGTAAACAAAGGATAAA-AGGTGATCAG-GATTGAACTGACAAGTCAAC
* *
3296 AAAAGATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAAC
125 AAAGGATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* * *
3339 AAAGGATAAAAAATTGACTAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCAGG
1 AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTCAGG
* * *
3404 ATTGAGCTGATAGGTAAACAAAGGATAAACAGTTAATCAGGATTGAACTGACAAGTCAATAAAGG
66 ATTGAGCTGATAGGTAAACAAAGGATAAA-AGGTGATCAGGATTGAACTGACAAGTCAACAAAGG
* * *
3469 ATAAAAAGATTTACCAAAGACTGAGCTGATAGGTAAAC
130 ATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* ** * *
3507 AAAGGATAAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAAGATAAAAGGATTTAC-CTAG
1 AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTC-AG
* * * * *
3571 GATTGAGCTAACAAGTAAATAAAGGATAAGAAGGTTGA-CGGGGATTGAACTGACAAGTCAACAA
65 GATTGAGCTGATAGGTAAACAAAGGATAA-AAGG-TGATC-AGGATTGAACTGACAAGTCAACAA
* * * * * *
3635 AGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
127 AGGATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* * * * *
3676 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAAAGATAAAGGGATTTACT
1 AAAGGATAA-AAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACT
3738 TGAGACTGAG
Statistics
Matches: 343, Mismatches: 45, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
167 1 0.00
168 224 0.65
169 73 0.21
170 45 0.13
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (167 bp):
AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTCAGG
ATTGAGCTGATAGGTAAACAAAGGATAAAAGGTGATCAGGATTGAACTGACAAGTCAACAAAGGA
TAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
Found at i:3461 original size:252 final size:253
Alignment explanation
Indices: 3171--3769 Score: 778
Period size: 252 Copynumber: 2.4 Consensus size: 253
3161 ACAAAGGATA
* *
3171 AAAGGATAAAAATTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGGG
1 AAAGGAT-AAAAGTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGAG
* * * *
3236 ACTGAGTC-GATAGGTAAACAAAGGGTAAATAGGTGATCGTGATTGAACTGACAAGTCAACAAAA
65 ACTGAGTCTGATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAA
* * *
3300 GATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAA-AAAATTGACTAGGATT
130 GATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATT
* * * *
3364 GAACTGACAAGTCAACAAAGGATAAAAGGATTTACTC-AGGATTGAGCTGATAGGTAAAC
195 GAACTGACAAGTCAACAAAGGATAAAAGGATTTA-TCGAGGATTAAGCCGATAAGCAAAC
* * * * * * *
3423 AAAGGATAAACAGTTAATCAGGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCAAAG
1 AAAGGATAAA-AGTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGAG
* * *
3488 ACTGAG-CTGATAGGTAAACAAAGGATAAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAA
65 ACTGAGTCTGATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAA
* * ** *
3552 GATAAAAGGATTTACCTAGGATTGAGCTAACAAGTAAATAAAGGATAAGAAGGTTGACGGGGATT
130 GATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATT
3617 GAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
195 GAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
* * * * *
3676 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAA-AGATAAAGGGATTTACTTG
1 AAAGGATAA-AA-GTTGATCAAGATTGAACTGACAAGTCAACAAAGA-ATAAAAGGATTTACTAG
* * *
3740 AGACTGAGT-TGACAAGCAAACAAAGGATAA
63 AGACTGAGTCTGATAGGTAAACAAAGGATAA
3770 GACTAGTTAA
Statistics
Matches: 296, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
251 4 0.01
252 153 0.52
253 74 0.25
254 65 0.22
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (253 bp):
AAAGGATAAAAGTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGAGA
CTGAGTCTGATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAAG
ATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATTG
AACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
Found at i:3642 original size:85 final size:82
Alignment explanation
Indices: 3171--3769 Score: 596
Period size: 84 Copynumber: 7.1 Consensus size: 82
3161 ACAAAGGATA
** * *
3171 AAAGGATAAAAATTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGGG
1 AAAGGATAAAAGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTA-GG
*
3236 ACTGAG-TCGATAGGTAAAC
64 ATTGAGCT-GATAGGTAAAC
* * *
3255 AAAGGGTAAATAGG-TGATC-GTGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACCAA
1 AAAGGATAAA-AGGTTGA-CAG-GATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTA
*
3318 GGATTGAGCTGACAGGTAAAC
62 GGATTGAGCTGATAGGTAAAC
**
3339 AAAGGATAAAAAATTGACTAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCAGG
1 AAAGGATAAAAGGTTGAC-AGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACT-AGG
3404 ATTGAGCTGATAGGTAAAC
64 ATTGAGCTGATAGGTAAAC
* * * * *
3423 AAAGGATAAACA-GTTAATCAGGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCAAA
1 AAAGGATAAA-AGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
*
3487 GACTGAGCTGATAGGTAAAC
63 GATTGAGCTGATAGGTAAAC
* * * *
3507 AAAGGAT-AAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAAGATAAAAGGATTTACCTAG
1 AAAGGATAAAAG-GTTGACAG-GATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
* * * *
3571 GATTGAGCTAACAAGTAAAT
63 GATTGAGCTGATAGGTAAAC
* *
3591 AAAGGATAAGAAGGTTGACGGGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAG
1 AAAGGATAA-AAGGTTGAC-AGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
* * * *
3656 GATTAAGCCGATAAGCAAAC
63 GATTGAGCTGATAGGTAAAC
* * * * * *
3676 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAAAGATAAAGGGATTTACTTGA
1 AAAGGATAA-AAGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTAG-
* * * * *
3741 GACTGAGTTGACAAGCAAAC
63 GATTGAGCTGATAGGTAAAC
3761 AAAGGATAA
1 AAAGGATAA
3770 GACTAGTTAA
Statistics
Matches: 435, Mismatches: 61, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
82 1 0.00
83 7 0.02
84 279 0.64
85 143 0.33
86 5 0.01
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (82 bp):
AAAGGATAAAAGGTTGACAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTAGGAT
TGAGCTGATAGGTAAAC
Found at i:3946 original size:43 final size:43
Alignment explanation
Indices: 3856--3960 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
3846 GATTGAATCA
* * *
3856 ACAAGTCAACAAAGGATAAAATAATTTACCCAAGACTAAGTCG
1 ACAAGTCAACAAAGGATAAAAGAACTTACCCAAGACTAAGCCG
* ** * *
3899 ACAAGTCAACAAAGGATAAAAGGACTTACCCGCGATTAAGCCT
1 ACAAGTCAACAAAGGATAAAAGAACTTACCCAAGACTAAGCCG
* *
3942 ACAAGTAAACAAAAGATAA
1 ACAAGTCAACAAAGGATAA
3961 GAAAGTTGAC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.16
Consensus pattern (43 bp):
ACAAGTCAACAAAGGATAAAAGAACTTACCCAAGACTAAGCCG
Found at i:4075 original size:87 final size:85
Alignment explanation
Indices: 3942--4099 Score: 226
Period size: 87 Copynumber: 1.8 Consensus size: 85
3932 GATTAAGCCT
* * * * * *
3942 ACAAGTAAACAAAAGATAAGAAAGTTGACCGAGATTGAACTGACAAGTTAACAAAAGATAAAACA
1 ACAAATAAACAAAAGACAAAAAAGTTGACCAAGATTGAACTAACAAGTCAACAAAAGATAAAA-A
4007 GATTTACTGAGGACCAACCTG
65 GATTTACTGAGGACCAACCTG
* *
4028 ACAAATAAACAAAGGACAAAAAAGGTTGACCAAGATTGAACTAACAAGTCAACAAAGGATAAAAA
1 ACAAATAAACAAAAGACAAAAAA-GTTGACCAAGATTGAACTAACAAGTCAACAAAAGATAAAAA
4093 GATTTAC
65 GATTTAC
4100 CCGGGACTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 27 0.43
87 36 0.57
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.16
Consensus pattern (85 bp):
ACAAATAAACAAAAGACAAAAAAGTTGACCAAGATTGAACTAACAAGTCAACAAAAGATAAAAAG
ATTTACTGAGGACCAACCTG
Found at i:4804 original size:92 final size:92
Alignment explanation
Indices: 4647--4944 Score: 416
Period size: 92 Copynumber: 3.2 Consensus size: 92
4637 TGGTCACGTA
*
4647 ATGCATCAATACCATATAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
1 ATGCATCAATACCATCTAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
4712 TTTGCCCCAAGGAAATCAACCTTTGTG
66 TTTGCCCCAAGGAAATCAACCTTTGTG
4739 ATGCATCAATACCATCTAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
1 ATGCATCAATACCATCTAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
*
4804 TTTACCCCAAGGAAATCAACCTTTGTG
66 TTTGCCCCAAGGAAATCAACCTTTGTG
* * * * * * * * * *
4831 ATGCGTTAATACCATCTAGTGGTTAAAAGAAAGGGATATGATTAGGAATGTGTGGCCTAGATATC
1 ATGCATCAATACCATCTAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
* * ** *
4896 CTTGCCCCAAGGAAATTAGGCTTTATG
66 TTTGCCCCAAGGAAATCAACCTTTGTG
* * *
4923 ATGCATTAATACTATTTAGTGG
1 ATGCATCAATACCATCTAGTGG
4945 TTGGATGAAG
Statistics
Matches: 185, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 185 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (92 bp):
ATGCATCAATACCATCTAGTGGCTAAAATAAAGAGATATGATTGGGAATGAGTGGTCGAAATATC
TTTGCCCCAAGGAAATCAACCTTTGTG
Found at i:5664 original size:16 final size:16
Alignment explanation
Indices: 5626--5664 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5616 TTTCGTCCGA
*
5626 TTTTTTTGTTTTTGTT
1 TTTTTTTGTTTTTCTT
*
5642 TTCTTTTGTTTTTCTT
1 TTTTTTTGTTTTTCTT
5658 TTTTTTT
1 TTTTTTT
5665 ATTGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (16 bp):
TTTTTTTGTTTTTCTT
Found at i:9130 original size:58 final size:58
Alignment explanation
Indices: 9035--9265 Score: 345
Period size: 58 Copynumber: 4.0 Consensus size: 58
9025 AAGATAAAGA
** * * * *
9035 TTGGAGCCCAATTCTTATGTCCAAAAATAGTGAAGCCCAATTTGCATGTATTCATGAC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGGC
* *
9093 ATGGAGCCCAATTCACATGTCCAAGAGGAGTGGAGCCCAATTTGCATGTATTCATGGC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGGC
* *
9151 TTGGAGCCCAATTCACATGTCTAAGAAGAGTGGAGCCCAATTTGGATGTATTCATGGC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGGC
** *
9209 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTCACATGTATTTATGG
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGG
9266 GCCTATTGTT
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (58 bp):
TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGGC
Found at i:9228 original size:29 final size:29
Alignment explanation
Indices: 9068--9265 Score: 111
Period size: 29 Copynumber: 6.8 Consensus size: 29
9058 AAAATAGTGA
** * *
9068 AGCCCAATTTGCATGTATTCATGACATGG
1 AGCCCAATTCACATGTATTCATGGCGTGG
* * *
9097 AGCCCAATTCACATG--TCCAAGAGGAGTGG
1 AGCCCAATTCACATGTATTC-A-TGGCGTGG
** *
9126 AGCCCAATTTGCATGTATTCATGGCTTGG
1 AGCCCAATTCACATGTATTCATGGCGTGG
* * *
9155 AGCCCAATTCACATGT-CT-AAGAAGAGTGG
1 AGCCCAATTCACATGTATTCATG--GCGTGG
*** *
9184 AGCCCAATTTGGATGTATTCATGGCTTGG
1 AGCCCAATTCACATGTATTCATGGCGTGG
* * *
9213 AGCCCAATTCACATG--TCCAAGAAGAGTGG
1 AGCCCAATTCACATGTATTCATG--GCGTGG
*
9242 AGCCCAATTCACATGTATTTATGG
1 AGCCCAATTCACATGTATTCATGG
9266 GCCTATTGTT
Statistics
Matches: 121, Mismatches: 36, Indels: 24
0.67 0.20 0.13
Matches are distributed among these distances:
27 8 0.07
28 2 0.02
29 102 0.84
30 2 0.02
31 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (29 bp):
AGCCCAATTCACATGTATTCATGGCGTGG
Found at i:10117 original size:28 final size:28
Alignment explanation
Indices: 10052--10124 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
10042 TTATTCTTCT
* *
10052 TTATTGATTTCTTTTCCTTTGAAATTTC
1 TTATTGATTTCCTTTCCTTTCAAATTTC
* *
10080 TTGCTT-ATTTCCTTTCCTTTCATATTTC
1 TT-ATTGATTTCCTTTCCTTTCAAATTTC
10108 TTATTGATTTCACTTTC
1 TTATTGATTTC-CTTTC
10125 TTGATCTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 28 0.76
29 7 0.19
ACGTcount: A:0.15, C:0.19, G:0.05, T:0.60
Consensus pattern (28 bp):
TTATTGATTTCCTTTCCTTTCAAATTTC
Found at i:14935 original size:20 final size:20
Alignment explanation
Indices: 14912--14953 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14902 CATTTCAAGC
*
14912 ATGTACCGATACATTCACTT
1 ATGTACCGATACATTAACTT
* *
14932 ATGTATCGATATATTAACTT
1 ATGTACCGATACATTAACTT
14952 AT
1 AT
14954 TGTATCAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTACCGATACATTAACTT
Found at i:15966 original size:13 final size:13
Alignment explanation
Indices: 15948--15973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15938 CAATTTTTTG
15948 TGTATCGATACAT
1 TGTATCGATACAT
15961 TGTATCGATACAT
1 TGTATCGATACAT
15974 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18374 original size:21 final size:21
Alignment explanation
Indices: 18350--18396 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
18340 TTTGATGCTG
18350 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
18370 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
18391 ATTTTG
1 ATTTTG
18397 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:18535 original size:13 final size:13
Alignment explanation
Indices: 18517--18555 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
18507 ATAATCACCC
*
18517 TGTATCGATACAG
1 TGTATCGATACAA
18530 TGTATCGATACAA
1 TGTATCGATACAA
18543 TGTATCGATACAA
1 TGTATCGATACAA
18556 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18566 original size:20 final size:20
Alignment explanation
Indices: 18541--18619 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
18531 GTATCGATAC
18541 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
18561 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
18586 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
18606 CATGTATCGATACA
1 AATGTATCGATACA
18620 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:20654 original size:15 final size:15
Alignment explanation
Indices: 20634--20664 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20624 ATTTCGTTTG
*
20634 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
20649 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
20664 G
1 G
20665 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:22497 original size:21 final size:21
Alignment explanation
Indices: 22468--22512 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22458 AAGTTTTCAT
*
22468 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
22488 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
22510 TTT
1 TTT
22513 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:24749 original size:13 final size:13
Alignment explanation
Indices: 24731--24756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24721 CAATTTTTTG
24731 TGTATCGATACAT
1 TGTATCGATACAT
24744 TGTATCGATACAT
1 TGTATCGATACAT
24757 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25788 original size:21 final size:21
Alignment explanation
Indices: 25746--25790 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25736 ACAATGAAAA
**
25746 ATGTATCGATACATTATGAGC
1 ATGTATCGATACATTACCAGC
25767 ATGTATCGATACATTACCAGC
1 ATGTATCGATACATTACCAGC
25788 ATG
1 ATG
25791 CATTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATTACCAGC
Found at i:25865 original size:20 final size:20
Alignment explanation
Indices: 25840--25896 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
25830 CAAGGTTCAA
25840 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATG
*
25860 TATCGATATATTCACTTATG
1 TATCGATACATTCACTTATG
* * *
25880 TGTTGATACATTAACTT
1 TATCGATACATTCACTT
25897 GTTATATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:25974 original size:21 final size:21
Alignment explanation
Indices: 25948--25989 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25938 ATTGGGATCT
25948 TGTATC-AATACATGATAGGCA
1 TGTATCGAATACATG-TAGGCA
*
25969 TGTATCGATTACATGTAGGCA
1 TGTATCGAATACATGTAGGCA
25990 AAAATGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTATCGAATACATGTAGGCA
Found at i:26689 original size:167 final size:166
Alignment explanation
Indices: 26090--26709 Score: 602
Period size: 164 Copynumber: 3.8 Consensus size: 166
26080 GATAATGTTA
* * *
26090 GATGAATTTTAAAAATT-TA-AA--TCGAG-AAAATCTCCCTAAAAACATTGT-TAGAATAGAAA
1 GATGAATTTTAAAAATTATATAAGCTCAAGAAAAATC-CCCAAAAAACATT-TATAGAGTAGAAA
* * * * *
26149 ACTT-GATTTTTTGAAAATAAGAGGATTTCAAAGAAAAAATGAAAAACTTATGAAAATAAATGAA
64 ACTTCG-TATTTTGAAAACAAGAGAATTTCAAGGAAAAAATGAAAAACTCATG-AAATAAATGAA
26213 TTTTTCAAAACTAATTT--A--AATTAAATGATGATATTT
127 TTTTTCAAAACTAATTTAAATGAATTAAATGATGATATTT
* * *
26249 GATGAATTTTAAAAATTATA-AA-CT-AAGAAAAATCTCCCAAAAAATATTTACAAAGTAGAAAA
1 GATGAATTTTAAAAATTATATAAGCTCAAGAAAAATC-CCCAAAAAACATTTATAGAGTAGAAAA
* * * * * *
26311 CTTTGTATTTCGAAAATAGGAGAATTTCAA-GAAAAAATGAAAAATTCATGAAATGAAAAGAATT
65 CTTCGTATTTTGAAAACAAGAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAT-AAATGAATT
* * * *
26375 TTTCAAAATTGATTTAATTGAATTAAATAATGATATTT
129 TTTCAAAACTAATTTAAATGAATTAAATGATGATATTT
* *
26413 GATGAATTTTAAAAATT-T-T-AGAC-CAAGAAAAATCCCCTTAAAAGCATTTATAGAGTA-ATA
1 GATGAATTTTAAAAATTATATAAG-CTCAAGAAAAATCCCC-AAAAAACATTTATAGAGTAGA-A
* * *
26473 AACTTCGT-TTTTCGACAACAA-AGGAATTTTAAGGAAAAGAATGAAAAACTCAGGAAAATAAAT
63 AACTTCGTATTTT-GAAAACAAGA-GAATTTCAAGGAAAA-AATGAAAAACTCATG-AAATAAAT
** *
26536 GAAAATTTCAAAACTAATTTACAATGAATTAAATGATAATATTT
124 GAATTTTTCAAAACTAATTTA-AATGAATTAAATGATGATATTT
** * * *
26580 GAAAAATTTTGAAAATTATATAAGCTCAA-AAAAATCCCCCAAAAACATTTATGGAGTAGAAAAC
1 GATGAATTTTAAAAATTATATAAGCTCAAGAAAAATCCCCAAAAAACATTTATAGAGTAGAAAAC
* * * *
26644 TCCGTATTTTGAAAACAAGAAAATTTCAAGGAAAAAATAAAAAACTCATGAAATAAAAAGAATTT
66 TTCGTATTTTGAAAACAAGAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAT-AAATGAATTT
26709 T
130 T
26710 GAAAAAATAA
Statistics
Matches: 378, Mismatches: 53, Indels: 52
0.78 0.11 0.11
Matches are distributed among these distances:
159 21 0.06
160 46 0.12
161 52 0.14
162 2 0.01
163 9 0.02
164 80 0.21
165 5 0.01
166 37 0.10
167 58 0.15
168 45 0.12
169 18 0.05
170 5 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (166 bp):
GATGAATTTTAAAAATTATATAAGCTCAAGAAAAATCCCCAAAAAACATTTATAGAGTAGAAAAC
TTCGTATTTTGAAAACAAGAGAATTTCAAGGAAAAAATGAAAAACTCATGAAATAAATGAATTTT
TCAAAACTAATTTAAATGAATTAAATGATGATATTT
Found at i:28624 original size:14 final size:14
Alignment explanation
Indices: 28602--28632 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
28592 ATGGCTTTAA
28602 CATCCTATCTCTAC
1 CATCCTATCTCTAC
*
28616 CATCTTATCTCTAC
1 CATCCTATCTCTAC
28630 CAT
1 CAT
28633 TTTGAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.39
Consensus pattern (14 bp):
CATCCTATCTCTAC
Found at i:34566 original size:21 final size:20
Alignment explanation
Indices: 34532--34572 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
34522 GTCACATTTT
34532 TTTCTGAATATATTAATACA
1 TTTCTGAATATATTAATACA
*
34552 TTTCTTGAATGTATTAATACA
1 TTTC-TGAATATATTAATACA
34573 AGGTCCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (20 bp):
TTTCTGAATATATTAATACA
Found at i:34651 original size:34 final size:34
Alignment explanation
Indices: 34612--34677 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
34602 TTACAATTTG
34612 TATCGATACAAACAGT-AAATGTATCGATACAATC
1 TATCGATACAAAC-GTAAAATGTATCGATACAATC
** *
34646 TATCGATACATGCTTAAAATGTATCGATACAA
1 TATCGATACAAACGTAAAATGTATCGATACAA
34678 AACCACCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (34 bp):
TATCGATACAAACGTAAAATGTATCGATACAATC
Found at i:37295 original size:70 final size:70
Alignment explanation
Indices: 37212--37368 Score: 271
Period size: 70 Copynumber: 2.2 Consensus size: 70
37202 TTCCTCTAAG
37212 GGGATACTCCAACCCCACTTTTAAACTCATCAAAATTTAAATCTTAGTTTTT-CTTAAATTATCA
1 GGGATACTCCAACCCCACTTTTAAACTCATCAAAATTTAAATCTTA-TTTTTGCTTAAATTATCA
37276 TCATCA
65 TCATCA
* *
37282 GGGATACTCCAACCCCACTTTTAAACTCATTAAAATTTAAATCTTATTTTTGCTTAAATTGTCAT
1 GGGATACTCCAACCCCACTTTTAAACTCATCAAAATTTAAATCTTATTTTTGCTTAAATTATCAT
37347 CATCA
66 CATCA
*
37352 GGGATACTCTAACCCCA
1 GGGATACTCCAACCCCA
37369 TTCCTCTAAG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
69 5 0.06
70 78 0.94
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (70 bp):
GGGATACTCCAACCCCACTTTTAAACTCATCAAAATTTAAATCTTATTTTTGCTTAAATTATCAT
CATCA
Found at i:38325 original size:19 final size:19
Alignment explanation
Indices: 38301--38339 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38291 TGCAACAAAG
*
38301 AGAAAGAAAAGAAAGAAAA
1 AGAAAGAAAAAAAAGAAAA
38320 AGAAAGAAAAAAAAGAAAA
1 AGAAAGAAAAAAAAGAAAA
38339 A
1 A
38340 AAAACCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AGAAAGAAAAAAAAGAAAA
Found at i:38343 original size:10 final size:9
Alignment explanation
Indices: 38303--38342 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
38293 CAACAAAGAG
*
38303 AAAGAAAAG
1 AAAGAAAAA
38312 AAAGAAAAA
1 AAAGAAAAA
38321 GAAAGAAAAA
1 -AAAGAAAAA
38331 AAAGAAAAA
1 AAAGAAAAA
38340 AAA
1 AAA
38343 ACCAAACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:39601 original size:22 final size:21
Alignment explanation
Indices: 39565--39626 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
39555 TTTTCTTAGT
39565 TAATTC-TTTATTTTCTTTTGGC
1 TAATTCATTTATTTTCTTTT--C
*
39587 -AATTCATTAATTTTCTTTTC
1 TAATTCATTTATTTTCTTTTC
39607 TAATTCATTTATTTTCTTTT
1 TAATTCATTTATTTTCTTTT
39627 TAAGAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 23 0.64
22 12 0.33
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (21 bp):
TAATTCATTTATTTTCTTTTC
Found at i:40099 original size:3 final size:3
Alignment explanation
Indices: 40091--40118 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
40081 AACCTCTTAC
40091 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
40119 TATTACCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:42204 original size:92 final size:92
Alignment explanation
Indices: 42038--42273 Score: 375
Period size: 92 Copynumber: 2.6 Consensus size: 92
42028 CCACCCATAT
* * * *
42038 ATTCCTAAT-ATATCCCTTTCTTTTAGCCATTACATGGTATTGATGCATCATAAAGCCTGATTTC
1 ATTCCTAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGCATCACAAAGCCTAATTTC
*
42102 CTTAGGGCAAGGATATCCTGACCACTC
66 CTTAGGGCAAGGATATCCCGACCACTC
*
42129 ATTCCTAATCATATCCCTTTCTTTTGGCCACTAGATGGTATTGATGCATCACAAAGCCTAATTTC
1 ATTCCTAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGCATCACAAAGCCTAATTTC
* *
42194 CTTTGGGCAAGGATATCCCGACCACTT
66 CTTAGGGCAAGGATATCCCGACCACTC
* *
42221 ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGTATCACA
1 ATTCCTAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGCATCACA
42274 TGACCATAAA
Statistics
Matches: 133, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
91 9 0.07
92 124 0.93
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (92 bp):
ATTCCTAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGCATCACAAAGCCTAATTTC
CTTAGGGCAAGGATATCCCGACCACTC
Found at i:42749 original size:47 final size:46
Alignment explanation
Indices: 42678--42788 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 46
42668 ATTTTACTTG
* * *
42678 GTCAAAC-CTTTTTCATTATCGTTTGACGTGATGGTTCTTGCCTTA
1 GTCAAACATTTTTTCATTCTCGTTTGACGTGATGGTTCTTGCCCTA
* *
42723 TTCAAACATTTTTTTCATTCTTGTTTGACGTGATGGTTCTTGCCCTA
1 GTCAAACA-TTTTTTCATTCTCGTTTGACGTGATGGTTCTTGCCCTA
42770 GTCAAACATTTTTTCATTC
1 GTCAAACATTTTTTCATTC
42789 CTATTTAACT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 6 0.10
46 11 0.19
47 41 0.71
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (46 bp):
GTCAAACATTTTTTCATTCTCGTTTGACGTGATGGTTCTTGCCCTA
Found at i:42869 original size:81 final size:81
Alignment explanation
Indices: 42746--43063 Score: 301
Period size: 80 Copynumber: 4.0 Consensus size: 81
42736 TTCATTCTTG
*
42746 TTTGACGTGATGGTTCTTGCCCTAGTCAAACATTTTTTCATTCCTATTTAACTATACTTGGTCAA
1 TTTGACGTGATGGTTCTTGCCCTAGTCAAACATCTTTTCATTCCTATTTAACTATACTTGGTCAA
42811 ACTCTTTTCATTACCA
66 ACTCTTTTCATTACCA
* ** * * * * * *
42827 TTTGGCGTGATGGTTCTTGTTCTGGTCAAATAACTTTTCATT-CTCGTTTGACTATACTTGATCA
1 TTTGACGTGATGGTTCTTGCCCTAGTCAAACATCTTTTCATTCCT-ATTTAACTATACTTGGTCA
* *
42891 AACTC-TTTGATTACCG
65 AACTCTTTTCATTACCA
* * * * * *
42907 TTTGACGGGATAGTT-TT-CACCTTAGTCAAACATCTTTTCATTCACGA-TTGACT-GAC-CGAG
1 TTTGACGTGATGGTTCTTGC-CC-TAGTCAAACATCTTTTCATTC-CTATTTAACTATACTTG-G
*
42967 TCAAACTCTTTTCAGT-CCTA
62 TCAAACTCTTTTCATTACC-A
* * * *
42987 TTTGATGTGATGGTTCTTGCCCTAGTCAAACATTTTTTCATCCCTATTTAACTATACCTGGTCAA
1 TTTGACGTGATGGTTCTTGCCCTAGTCAAACATCTTTTCATTCCTATTTAACTATACTTGGTCAA
* *
43052 AATTTTTTCATT
66 ACTCTTTTCATT
43064 CCTGTTTGAC
Statistics
Matches: 184, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
78 1 0.01
79 17 0.09
80 87 0.47
81 76 0.41
82 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (81 bp):
TTTGACGTGATGGTTCTTGCCCTAGTCAAACATCTTTTCATTCCTATTTAACTATACTTGGTCAA
ACTCTTTTCATTACCA
Found at i:43059 original size:36 final size:35
Alignment explanation
Indices: 43011--43095 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
43001 TCTTGCCCTA
43011 GTCAAACATTTTTTCATCCCTATTTAACTATACCTG
1 GTCAAA-ATTTTTTCATCCCTATTTAACTATACCTG
* * * *
43047 GTCAAAATTTTTTCATTCCTGTTTGACTGTACCTG
1 GTCAAAATTTTTTCATCCCTATTTAACTATACCTG
43082 GTC-AAATTCTTTTC
1 GTCAAAATT-TTTTC
43096 GTTACCGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 5 0.11
35 33 0.75
36 6 0.14
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (35 bp):
GTCAAAATTTTTTCATCCCTATTTAACTATACCTG
Found at i:46149 original size:16 final size:17
Alignment explanation
Indices: 46130--46162 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
46120 GATTTTTGAA
46130 AATTTTATTTA-GTTTT
1 AATTTTATTTATGTTTT
46146 AATTTTATTTATGTTTT
1 AATTTTATTTATGTTTT
46163 TAACTAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
AATTTTATTTATGTTTT
Found at i:46478 original size:10 final size:10
Alignment explanation
Indices: 46463--46509 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 10
46453 CAGCAAGTGA
46463 AAGAAAAAAG
1 AAGAAAAAAG
46473 AAG-AAAAAG
1 AAGAAAAAAG
46482 AA-AGAAAAAG
1 AAGA-AAAAAG
46492 AGAGAAAAAAG
1 A-AGAAAAAAG
46503 AA-AAAAA
1 AAGAAAAA
46510 CTAAGCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 13 0.39
10 11 0.33
11 8 0.24
12 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:46481 original size:9 final size:9
Alignment explanation
Indices: 46467--46509 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
46457 AAGTGAAAGA
46467 AAAAAGAAG
1 AAAAAGAAG
46476 AAAAAGAAAG
1 AAAAAG-AAG
46486 AAAAAGAGAG
1 AAAAAGA-AG
46496 AAAAAAGAA-
1 -AAAAAGAAG
46505 AAAAA
1 AAAAA
46510 CTAAGCCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 7 0.23
10 12 0.39
11 7 0.23
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:46486 original size:20 final size:19
Alignment explanation
Indices: 46461--46508 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
46451 TTCAGCAAGT
46461 GAAAGAAAAAAGAAGAAAAA
1 GAAAGAAAAAAG-AGAAAAA
*
46481 GAAAG-AAAAAGAGAGAAA
1 GAAAGAAAAAAGAGAAAAA
46499 -AAAGAAAAAA
1 GAAAGAAAAAA
46509 ACTAAGCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
19 6 0.23
20 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAAAGAGAAAAA
Found at i:48029 original size:144 final size:142
Alignment explanation
Indices: 47799--48082 Score: 365
Period size: 144 Copynumber: 2.0 Consensus size: 142
47789 TTTAGCCCTA
* * * * *
47799 TAGGGGTATTGGGTCCTTTTCCGTCGAAGGTACCTCATAAGGCATTTTCGTAATATTTTAGGATC
1 TAGGGGTACTAGGTACTTTTACGTCGAAGGTACCTCATAAGGCATTTTCGTAATATTTTAGAATC
* ** * *
47864 GAGTCCTAGGTTGTCACTCTTATGCCAAAGGTATACACATAGGATAGGTTCAATCTTTTCAACCC
66 GAGTCCTAGGTTATCACTCTTACACCAAAGGTACACACATAGGATAGATTCAATC-TTTCAACCC
47929 TTTTCAAGTCTTT
130 TTTTCAAGTCTTT
* *
47942 TAGGGGTACTAGGTACTTTTACGTCGAAGGTACCCTTCA-AGGGCATTTTTTGTAAT-TTTTAGA
1 TAGGGGTACTAGGTACTTTTACGTCGAAGGTA-CC-TCATAAGGCA-TTTTCGTAATATTTTAGA
* * * * *
48005 ATCGAGTCCTAGGTTATGACTCTTACACCAAAGGTGCAGATATAGGATAGATTCACTCTTTCAAC
63 ATCGAGTCCTAGGTTATCACTCTTACACCAAAGGTACACACATAGGATAGATTCAATCTTTCAAC
48070 CCTTTTCAAGTCT
128 CCTTTTCAAGTCT
48083 CTTAAGATCA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
143 48 0.40
144 61 0.50
145 12 0.10
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (142 bp):
TAGGGGTACTAGGTACTTTTACGTCGAAGGTACCTCATAAGGCATTTTCGTAATATTTTAGAATC
GAGTCCTAGGTTATCACTCTTACACCAAAGGTACACACATAGGATAGATTCAATCTTTCAACCCT
TTTCAAGTCTTT
Found at i:52655 original size:141 final size:137
Alignment explanation
Indices: 52503--52778 Score: 358
Period size: 141 Copynumber: 2.0 Consensus size: 137
52493 AATAATATAA
*
52503 TATTTAATTTTTAACTTTC-GAAATTCACATTTTGTACCTTAATGGAGAACCAAAAAGATACGAA
1 TATTTAATTTTTAACTTTCAAAAATT--CATTTTGTACCTTAATGGAGAACCAAAAAGATACGAA
* *
52567 AAGTTTTAAAGATTTCTACA-CCCCAACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTA
64 AA-TTTTAAAGATTT-T-CAGCCCCAACG-AAAACCATAAGAATAGTAAAAATCTTGAAAAATTA
52631 AAATAATAATTTT
125 AAATAATAATTTT
* * *
52644 TATTTAATTTTTAATTTTCAAAAAATTCATTTTGTATCTTAATGGAGAACCGAAAAGATACGAAA
1 TATTTAATTTTTAACTTTC-AAAAATTCATTTTGTACCTTAATGGAGAACCAAAAAGATACGAAA
* * * * **
52709 ATTTTGAATATTTTCATGCCCCTACGAAAATCATAAGAATAGTAAAAATCTTGAAAAATTATGAT
65 ATTTTAAAGATTTTCA-GCCCCAACGAAAACCATAAGAATAGTAAAAATCTTGAAAAATTAAAAT
52774 AATAA
129 AATAA
52779 CCTCTATTCA
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.02
139 40 0.34
140 17 0.14
141 55 0.46
143 5 0.04
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (137 bp):
TATTTAATTTTTAACTTTCAAAAATTCATTTTGTACCTTAATGGAGAACCAAAAAGATACGAAAA
TTTTAAAGATTTTCAGCCCCAACGAAAACCATAAGAATAGTAAAAATCTTGAAAAATTAAAATAA
TAATTTT
Found at i:53722 original size:23 final size:21
Alignment explanation
Indices: 53677--53719 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
53667 AAGAGTTTAG
53677 CTTTTTTTTTTTCTATTTTTT
1 CTTTTTTTTTTTCTATTTTTT
*
53698 CTTTTTGTTTTTTCTGTTTTTT
1 CTTTTT-TTTTTTCTATTTTTT
53720 TCTCTCCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (21 bp):
CTTTTTTTTTTTCTATTTTTT
Found at i:54576 original size:165 final size:160
Alignment explanation
Indices: 54287--54952 Score: 572
Period size: 166 Copynumber: 4.0 Consensus size: 160
54277 AATGTTAGAT
* * * * * * * *
54287 GAATTTTAAAAATTTAAATCGAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCGGTT
1 GAATTTTAAAAATATAAACCAAGAAAAATC-C-CTAAAAACATTTATGGAGTAGAAAATTC-ATA
** * *
54352 TTTTAAAACAAGAGAATTTTAAAGAAAAAATGAAAAAC-CTATGAAACATAAATGAAATTTTCAA
63 TTTCGAAA-TAGAGAATTTTAAAGAAAAAATGAAAAACTC-ATGAAA-ATAAAAGAAATTTTCAA
* * *
54416 AACTGATTTACTATGAATTAAATGATGATATTTGAT
125 AACTAATTTAATATGAATTAAATGATGATATTTGAA
** *
54452 GAATTTTAAAAATCATAAACCAAGAAAAATCCCCTAAAAAACATTTAAAGAGTTGAAAAGTTCAT
1 GAATTTTAAAAAT-ATAAACCAAGAAAAAT-CCCT-AAAAACATTTATGGAGTAGAAAA-TTCAT
* * * *
54517 ATTTCGGAAATGGGAGAATTTCAACAG-AAAAATGAAAAATTCATG-AAATAAAAGAAATTTTTT
62 ATTTC-GAAAT-AGAGAATTTTAA-AGAAAAAATGAAAAACTCATGAAAATAAAAGAAA-TTTTC
* *
54580 AAAACTAATTTAATGTGAATTAAATGATGATATTTGAT
123 AAAACTAATTTAATATGAATTAAATGATGATATTTGAA
* * * *
54618 GAATTTTAAAAATTTCAAACCAAGAAAAATCCCTCGAAAACATTTATGGAGTAGAAAACTCCATT
1 GAATTTTAAAAATAT-AAACCAAGAAAAATCCCT-AAAAACATTTATGGAGTAGAAAA-TTCATA
* * * * * * **
54683 TTTTGACAATAAAGGACTTTTAAGGAAAAAAATGAAAAACTCAGGAAAATAAATGATTTTTTCAA
63 TTTCGA-AATAGA-GAATTTTAAAG-AAAAAATGAAAAACTCATGAAAATAAAAGAAATTTTCAA
* * * *
54748 AACTAATTTACTATGAATTAATTGATAATATGTGAA
125 AACTAATTTAATATGAATTAAATGATGATATTTGAA
** * * *
54784 GAATTTTAAAAATTATAAACTTAGAAAAATGCCC-AAAAATATTTATGGAGTAGAAAACTCTGTA
1 GAATTTTAAAAA-TATAAACCAAGAAAAAT-CCCTAAAAACATTTATGGAGTAGAAAATTC-ATA
* * * * *
54848 TTTCAAAACAGAAAATTTTAAGGAAAAAATGAAAAACTCATG-AAATAAAA-AGAATTTTGAAAA
63 TTTCGAAATAGAGAATTTTAAAGAAAAAATGAAAAACTCATGAAAATAAAAGA-AATTTT-CAAA
* * *
54911 ACTGATTTAAT-TGTAATTAAATAATGATATTTAAA
126 ACTAATTTAATATG-AATTAAATGATGATATTTGAA
54946 GAATTTT
1 GAATTTT
54953 GAAGTTAAAA
Statistics
Matches: 404, Mismatches: 76, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
160 1 0.00
161 13 0.03
162 53 0.13
163 9 0.02
164 9 0.02
165 91 0.23
166 180 0.45
167 45 0.11
168 3 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (160 bp):
GAATTTTAAAAATATAAACCAAGAAAAATCCCTAAAAACATTTATGGAGTAGAAAATTCATATTT
CGAAATAGAGAATTTTAAAGAAAAAATGAAAAACTCATGAAAATAAAAGAAATTTTCAAAACTAA
TTTAATATGAATTAAATGATGATATTTGAA
Found at i:54768 original size:332 final size:327
Alignment explanation
Indices: 54284--54952 Score: 791
Period size: 332 Copynumber: 2.0 Consensus size: 327
54274 GACAATGTTA
* * *
54284 GATGAATTTTAAAAATTTAAATCGAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCG
1 GATGAATTTTAAAAATTTAAACCAAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCC
* *
54349 GTTTTTTAAAACAAGAGAATTTTAAAGAAAAAATGAAAAACCTATGAAACATAAATGAAATTTTC
66 ATTTTTTAAAACAAGAGAATTTTAAAGAAAAAATGAAAAACCTAGGAAACATAAATGAAATTTTC
* * * *
54414 AAAACTGATTTACTATGAATTAAATGATGATATTTGATGAATTTTAAAAATCATAAACCAAGAAA
131 AAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAACCAAGAAA
* * *** *
54479 AATCCCCTAAAAAACATTTAAAGAGTTGAAAAGT-TCATATTTCGGAAATGGGAGAATTTCAACA
196 AATCCCC--AAAAACATTTAAAGAGTAGAAAACTCT-ATATTTC--AAAACAGAAAATTTCAA-A
* **
54543 G-AAAAATGAAAAATTCATGAAAT-AAAAGAAATTTTTTAAAACTAATTTAA-TGTGAATTAAAT
255 GAAAAAATGAAAAACTCATGAAATAAAAAG-AATTTTGAAAAACTAATTTAATTGT-AATTAAAT
*
54605 GATGATATTT
318 AATGATATTT
*
54615 GATGAATTTTAAAAATTTCAAACCAAGAAAAATC-C-CTCGAAAACATTTATGGAGTAGAAAACT
1 GATGAATTTTAAAAATTT-AAACCAAGAAAAATCTCACT-GAAAACATTTATGGAATAGAAAACT
* *
54678 CCATTTTTTGACAATA-AAG-GACTTTTAAGGAAAAAAATGAAAAA-CTCAGGAAA-ATAAATGA
64 CCATTTTTT-A-AA-ACAAGAGAATTTTAAAG-AAAAAATGAAAAACCT-AGGAAACATAAATGA
** * *
54739 TTTTTTCAAAACTAATTTACTATGAATTAATTGATAATATGTGAAGAATTTTAAAAATTATAAAC
124 AATTTTCAAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAAC
** * * ** * *
54804 TTAGAAAAATGCCCAAAAATATTTATGGAGTAGAAAACTCTGTATTTCAAAACAGAAAATTTTAA
189 CAAGAAAAATCCCCAAAAACATTTAAAGAGTAGAAAACTCTATATTTCAAAACAGAAAATTTCAA
* *
54869 GGAAAAAATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTGATTTAATTGTAATTAAATA
254 AGAAAAAATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTAATTTAATTGTAATTAAATA
54934 ATGATATTT
319 ATGATATTT
* *
54943 AAAGAATTTT
1 GATGAATTTT
54953 GAAGTTAAAA
Statistics
Matches: 289, Mismatches: 38, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
327 1 0.00
328 76 0.26
329 8 0.03
330 28 0.10
331 51 0.18
332 101 0.35
333 23 0.08
334 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (327 bp):
GATGAATTTTAAAAATTTAAACCAAGAAAAATCTCACTGAAAACATTTATGGAATAGAAAACTCC
ATTTTTTAAAACAAGAGAATTTTAAAGAAAAAATGAAAAACCTAGGAAACATAAATGAAATTTTC
AAAACTAATTTACTATGAATTAAATGATAATATGTGAAGAATTTTAAAAATCATAAACCAAGAAA
AATCCCCAAAAACATTTAAAGAGTAGAAAACTCTATATTTCAAAACAGAAAATTTCAAAGAAAAA
ATGAAAAACTCATGAAATAAAAAGAATTTTGAAAAACTAATTTAATTGTAATTAAATAATGATAT
TT
Found at i:56012 original size:85 final size:84
Alignment explanation
Indices: 55869--56699 Score: 724
Period size: 85 Copynumber: 9.8 Consensus size: 84
55859 ATTGATTCCG
* * * * *
55869 GTCAATAAAGGATGAAAA-GAGTTACTTGAGACTAAGCTGACAAGTAAACAAAGGATAAAAAGGT
1 GTCAACAAAGGAT-AAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGT
* *
55933 TGATCAAGATTGAACGAAAAA
65 TGACCAAGATTGAACG-ACAA
* * *
55954 GTCAATAAAGGATAAAATGATTTACCCGGGACTAAG-TCGACAGGTAAACAAAGGATAAAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCT-GACAGGTAAACAAAGGATAAAAAGGT
* * **
56018 TGGCCGAGATTGAATCGGTAA
65 TGACCAAGATTGAA-CGACAA
* * * * * * *
56039 GTCAACAAAGGATAAAAGGATTTACTTGAGAGTAAGCCGAAAGATAAACAAAGGATAAAAAAGTT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTT
56104 GACCAAGATTGAACTGACAA
66 GACCAAGATTGAAC-GACAA
** * * * * ** *
56124 GTCAACAGTGGATAAAAAGATTTACCCGAGACTGAGCTGACAATTAAACAAAGGATAAGAAGGTT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTT
* ** *
56189 AACCGGGATTGAATCCACAA
66 GACCAAGATTGAA-CGACAA
* * * * * * * *
56209 GTCAACAAAGGATAAAAGGAATTACCTTGGTCTTAGCTAATAGGTAAACAAAAGATAAAAAGGAT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTT
*
56274 GACCGAGATTGAACTGACAA
66 GACCAAGATTGAAC-GACAA
* * * * *
56294 GTCAATAAAGGATAAAAAGATTTACC-GAGAACTAAGCTGACAGGTAAATAAAAGATAAAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCTG-GGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGT
* *
56358 TGACCAGGATTAAACCGACAA
65 TGACCAAGATTGAA-CGACAA
* *
56379 GTCAACAAAGGATAAAAGGATTTACCTAGGACTGAA-CTGATAGGTAAACAAAGGAT-AAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACT-AAGCTGACAGGTAAACAAAGGATAAAAAGGT
* * *
56442 TCACTAGGATTGAACAGACAA
65 TGACCAAGATTGAAC-GACAA
* * * * * * *
56463 GTCAACAAAAGATAAAAGGATTTACTTAGGATTGAA-CCGATAGATAAACAAAGGAT-AAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACT-AAGCTGACAGGTAAACAAAGGATAAAAAGGT
* * **
56526 TGATCATGATTGAATTAACAA
65 TGACCAAGATTGAA-CGACAA
* * * * * *
56547 GTCAATAAAGGATAAAAGGATTTACCTAGGATTGAATC-AACAGGTAAACAAAAGATAAAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACT-AAGCTGACAGGTAAACAAAGGATAAAAAGGT
* *
56611 TGACTAAGATTGAACTGATAA
65 TGACCAAGATTGAAC-GACAA
* * * * * * * *
56632 GTCAAGAAAAGATAAAAAGATTTACCAGGGATTGAGCTGATAGGTAAACAAAGGATAAAGAGGAT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGG-T
56697 TGA
65 TGA
56700 ACCGACAAGT
Statistics
Matches: 609, Mismatches: 119, Indels: 35
0.80 0.16 0.05
Matches are distributed among these distances:
83 1 0.00
84 151 0.25
85 447 0.73
86 10 0.02
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (84 bp):
GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTT
GACCAAGATTGAACGACAA
Found at i:56513 original size:43 final size:42
Alignment explanation
Indices: 56382--57288 Score: 346
Period size: 43 Copynumber: 21.5 Consensus size: 42
56372 CCGACAAGTC
* *
56382 AACAAAGGATAAAAGGATTTACCTAGGACTGAACTGATAGGTA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAACTGATAGATA
* * * *
56425 AACAAAGGATAAAAGG-TTCACTAGGATTGAACAGACA-AGTC
1 AACAAAGGATAAAAGGATTTACTAGGATTGAACTGATAGA-TA
* *
56466 AACAAAAGATAAAAGGATTTACTTAGGATTGAACCGATAGATA
1 AACAAAGGATAAAAGGATTTAC-TAGGATTGAACTGATAGATA
* * * * * *
56509 AACAAAGGATAAAAGG-TTGA-TCATGATTGAATTAACA-AGTC
1 AACAAAGGATAAAAGGATTTACT-AGGATTGAACTGATAGA-TA
* * * *
56550 AATAAAGGATAAAAGGATTTACCTAGGATTGAA-TCAACAGGTA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAACT-GATAGATA
* * * *
56593 AACAAAAGATAAAAAGG-TTGACTAAGATTGAACTGATA-AGTC
1 AACAAAGGAT-AAAAGGATTTACTAGGATTGAACTGATAGA-TA
* * * * * *
56635 AAGAAAAGATAAAAAGATTTACCAGGGATTGAGCTGATAGGTA
1 AACAAAGGATAAAAGGATTTACTA-GGATTGAACTGATAGATA
* * ** *
56678 AACAAAGGATAAAGAGGATTGAACCGACAAGTTG-AC--AAAGGAT-
1 AACAAAGGATAAA-AGGATT-TA-CTAGGA-TTGAACTGATA-GATA
* * *
56721 -A-AAAGGATAAAA--ATTTGA-TCAAGATTGAACTGACA-AGTC
1 AACAAAGGATAAAAGGATTT-ACT-AGGATTGAACTGATAGA-TA
* * * *
56760 AACAAAGAATAAAAGGATTTACTAGGGACTG-AGTCGATAGGTA
1 AACAAAGGATAAAAGGATTTACTA-GGATTGAACT-GATAGATA
* * * * *
56803 AACAAAGGGTAAATAGG--TGA-TCGTGATTGAACTGACA-AGTC
1 AACAAAGGATAAA-AGGATTTACTAG-GATTGAACTGATAGA-TA
* * * * *
56844 AACAAAAGATAAAAGGATTTACCAAGGATTGAGCTGACAGGTA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAACTGATAGATA
* * * *
56887 AACAAAGGATAAAA-AATTGACTAGGATTGAACTGACA-AGTC
1 AACAAAGGATAAAAGGATTTACTAGGATTGAACTGATAGA-TA
* *
56928 AACAAAGGATAAAAGGATTTACTCAGGATTGAGCTGATAGGTA
1 AACAAAGGATAAAAGGATTTACT-AGGATTGAACTGATAGATA
* * *
56971 AACAAAGGATAAACA-G--TTAATCAGGATTGAACTGACA-AGTC
1 AACAAAGGATAAA-AGGATTTACT-AGGATTGAACTGATAGA-TA
* * * * * * *
57012 AATAAAGGATAAAAAGATTTACCAAAGACTGAGCTGATAGGTA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAACTGATAGATA
* * * *
57055 AACAAAGGAT-AAA-GAGTTGAC-CGAGATTGAATTGATA-AGTC
1 AACAAAGGATAAAAGGA-TTTACTAG-GATTGAACTGATAGA-TA
* * * *
57096 AACAAAAGATAAAAGGATTTACCTAGGATTGAGCTAACA-AGTA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAACTGATAGA-TA
* * ** * *
57139 AATAAAGGATAAGAAGG-TTGACGGGGATTGAACTGACA-AGTC
1 AACAAAGGATAA-AAGGATTTACTAGGATTGAACTGATAGA-TA
* * *
57181 AACAAAGGATAAAAGGATTTATCGAGGATT-AAGCCGATA-AGCA
1 AACAAAGGATAAAAGGATTTA-CTAGGATTGAA-CTGATAGA-TA
* * * * *
57224 AACAAAGGATAAGAAGG-TTGACCAAGATTAAACTGATA-AGTC
1 AACAAAGGATAA-AAGGATTTACTAGGATTGAACTGATAGA-TA
* *
57266 AACAAAAGATAAAGGGATTTACT
1 AACAAAGGATAAAAGGATTTACT
57289 TGAGACTGAG
Statistics
Matches: 645, Mismatches: 148, Indels: 143
0.69 0.16 0.15
Matches are distributed among these distances:
36 3 0.00
37 5 0.01
38 5 0.01
39 2 0.00
40 9 0.01
41 193 0.30
42 134 0.21
43 257 0.40
44 29 0.04
45 3 0.00
46 5 0.01
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (42 bp):
AACAAAGGATAAAAGGATTTACTAGGATTGAACTGATAGATA
Found at i:56759 original size:125 final size:122
Alignment explanation
Indices: 56616--57070 Score: 324
Period size: 125 Copynumber: 3.6 Consensus size: 122
56606 AAGGTTGACT
* *
56616 AAGATTGAACTGATAAGTCAAGAAAAGATAAAAAGATTTACCAGGGATTGAGCTGATAGGTAAAC
1 AAGATTGAACTGACAAGTCAA-AAAAGATAAAAAGATTTACCAGGGACTGAGCTGATAGGTAAAC
56681 AAAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGATAAAAGGATAAAAATTTGATC
65 AAAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGATAAAAGGAT-AAAATTT-ATC
* * *
56741 AAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGGGACTGAG-TCGATAGGTAAA
1 AAGATTGAACTGACAAGTCAAAAAAG-ATAAAAAGATTTACCAGGGACTGAGCT-GATAGGTAAA
* * ** *
56805 CAAAGGGTAAATAGGTGATCGTGATTGAACTGACAAGTCAACAAAAGATAAAAGG-----ATTTA
64 CAAAGGAT-AA-A---GA--G-GATTGAACCGACAAGTTGACAAAGGATAAAAGGATAAAATTTA
*
56865 CC
121 TC
* * * * * * * * *
56867 AAGGATTGAGCTGACAGGT-AAACAAAGGATAAAAA-ATTGACTA-GGATTGAACTGACAAGTCA
1 AA-GATTGAACTGACAAGTCAAA-AAA-GATAAAAAGATTTACCAGGGACTGAGCTGATAGGTAA
* * * * * *
56929 ACAAAGGATAAA-AGGATT-TA-C-TCAGGATTGAGCTGATAGGTAAACAAAGGATAAACAGTTA
63 ACAAAGGATAAAGAGGATTGAACCGACAAG-TTGA-C--AAAGG-ATA-AAAGGATAAA-A-TTT
56990 ATC
120 ATC
* * **
56993 AGGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCAAAGACTGAGCTGATAGGTAAAC
1 AAGATTGAACTGACAAGTCAA-AAAAGATAAAAAGATTTACCAGGGACTGAGCTGATAGGTAAAC
57058 AAAGGATAAAGAG
65 AAAGGATAAAGAG
57071 TTGACCGAGA
Statistics
Matches: 253, Mismatches: 45, Indels: 61
0.70 0.13 0.17
Matches are distributed among these distances:
113 3 0.01
114 2 0.01
115 2 0.01
116 4 0.02
117 4 0.02
118 2 0.01
119 6 0.02
123 1 0.00
124 7 0.03
125 102 0.40
126 31 0.12
127 54 0.21
128 3 0.01
130 2 0.01
132 1 0.00
133 29 0.11
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (122 bp):
AAGATTGAACTGACAAGTCAAAAAAGATAAAAAGATTTACCAGGGACTGAGCTGATAGGTAAACA
AAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGATAAAAGGATAAAATTTATC
Found at i:56890 original size:209 final size:209
Alignment explanation
Indices: 56512--56899 Score: 548
Period size: 210 Copynumber: 1.9 Consensus size: 209
56502 ATAGATAAAC
* * * * *
56512 AAAGGATAAAAGGTTGATCATGATTGAATTAACAAGTCAATAAAGGATAAAAGGATTTACCTAGG
1 AAAGGATAAAAAGTTGATCAAGATTGAACTAACAAGTCAACAAAGAATAAAAGGATTTACCTAGG
* * *
56577 ATTGAATCAACAGGTAAACAAAAGATAAAAAGGTTGACTAAGATTGAACTGATAAGTCAAGAAAA
66 ACTGAATCAACAGGTAAACAAAAGATAAAAAGGTTGACT-AGATTGAACTGACAAGTCAACAAAA
* *
56642 GATAAAAAGATTTACCAGGGATTGAGCTGATAGGTAAACAAAGGATAAAGAGGATTGAACCGACA
130 GATAAAAAGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAAAGAGGATTGAACCGACA
56707 AGTTGACAAAGGATA
195 AGTTGACAAAGGATA
* *
56722 AAAGGATAAAAATTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTA-CTAGG
1 AAAGGATAAAAAGTTGATCAAGATTGAACTAACAAGTCAACAAAGAATAAAAGGATTTACCTA-G
* * * * * *
56786 GACTGAGTCGATAGGTAAACAAAGGGTAAATAGG-TGATCGT-GATTGAACTGACAAGTCAACAA
65 GACTGAATCAACAGGTAAACAAAAGATAAAAAGGTTGA-C-TAGATTGAACTGACAAGTCAACAA
*
56849 AAGATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAAA
128 AAGATAAAAAGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAAA
56900 AAATTGACTA
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
209 74 0.47
210 81 0.52
211 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.21
Consensus pattern (209 bp):
AAAGGATAAAAAGTTGATCAAGATTGAACTAACAAGTCAACAAAGAATAAAAGGATTTACCTAGG
ACTGAATCAACAGGTAAACAAAAGATAAAAAGGTTGACTAGATTGAACTGACAAGTCAACAAAAG
ATAAAAAGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAAAGAGGATTGAACCGACAA
GTTGACAAAGGATA
Found at i:56978 original size:168 final size:167
Alignment explanation
Indices: 56722--57288 Score: 662
Period size: 168 Copynumber: 3.4 Consensus size: 167
56712 ACAAAGGATA
*
56722 AAAGGATAAAAATTTGA-TCAAGATTGAACTGACAAGTCAAC-AAAGAATAAAAGGATTTACT-A
1 AAAGGATAAAAAGTTGACT-AAGATTGAACTGACAAGTCAACAAAAG-ATAAAAGGATTTACTCA
* *
56784 GGGACTGAG-TCGATAGGTAAACAAAGGGTAAATAGGTGATC-GTGATTGAACTGACAAGTCAAC
64 -GGATTGAGCT-GATAGGTAAACAAAGGATAAA-AGGTGATCAG-GATTGAACTGACAAGTCAAC
* *
56847 AAAAGATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAAC
125 AAAGGATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* * *
56890 AAAGGATAAAAAATTGACTAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCAGG
1 AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTCAGG
* * *
56955 ATTGAGCTGATAGGTAAACAAAGGATAAACAGTTAATCAGGATTGAACTGACAAGTCAATAAAGG
66 ATTGAGCTGATAGGTAAACAAAGGATAAA-AGGTGATCAGGATTGAACTGACAAGTCAACAAAGG
* * *
57020 ATAAAAAGATTTACCAAAGACTGAGCTGATAGGTAAAC
130 ATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* ** * *
57058 AAAGGATAAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAAGATAAAAGGATTTAC-CTAG
1 AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTC-AG
* * * * *
57122 GATTGAGCTAACAAGTAAATAAAGGATAAGAAGGTTGA-CGGGGATTGAACTGACAAGTCAACAA
65 GATTGAGCTGATAGGTAAACAAAGGATAA-AAGG-TGATC-AGGATTGAACTGACAAGTCAACAA
* * * * * *
57186 AGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
127 AGGATAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
* * * * *
57227 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAAAGATAAAGGGATTTACT
1 AAAGGATAA-AAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACT
57289 TGAGACTGAG
Statistics
Matches: 343, Mismatches: 45, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
167 1 0.00
168 224 0.65
169 73 0.21
170 45 0.13
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (167 bp):
AAAGGATAAAAAGTTGACTAAGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACTCAGG
ATTGAGCTGATAGGTAAACAAAGGATAAAAGGTGATCAGGATTGAACTGACAAGTCAACAAAGGA
TAAAAGGATTTACCAAGGATTGAGCTGATAGGTAAAC
Found at i:57025 original size:546 final size:548
Alignment explanation
Indices: 56205--57235 Score: 1364
Period size: 546 Copynumber: 1.9 Consensus size: 548
56195 GATTGAATCC
* * * *
56205 ACAAGTCAACAAAGGATAAAAGGAATTACCTTGGTCTTAGCTAATAGGTAAACAAAAGATAAAAA
1 ACAAGTCAACAAAGAATAAAAGGAATTACCTGGGACTGAGCTAATAGGTAAACAAAAGATAAAAA
* * *
56270 GGATGACCGAGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCGAGAACTAAGCTGAC
66 GGATGACCGAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCAAGAACTAAGCTGAC
* *
56335 AGGTAAATAAAAGATAAAAAGGTTGACCAGGATTAAACCGACAAGTCAACAAAGGATAAAAGGAT
131 AGGTAAACAAAAGATAAAAAGATTGACCAGGATTAAACCGACAAGTCAACAAAGGATAAAAGGAT
*
56400 TTACCTAGGACTGAACTGATAGGTAAACAAAGGATAAAAGGTTCACTAGGATTGAACAGACAAGT
196 TTACCTAGGACTGAACTGATAGGTAAACAAAGGATAAAAGGTTAACTAGGATTGAACAGACAAGT
* ** * *
56465 CAACAAAAGATAAAAGGATTTACTTAGGATTGAACCGATAGATAAACAAAGGATAAA-AGGTTGA
261 CAACAAAAGATAAAAAGATTTACCAAAGACTGAACCGATAGATAAACAAAGGATAAAGA-GTTGA
* * * * *
56529 TC-ATGATTGAATTAACAAGTCAATAAAGGATAAAAGGATTTACCTAGGATTGA-ATCAACAGGT
325 CCGA-GATTGAATTAACAAGTCAACAAAAGATAAAAGGATTTACCTAGGATTGAGCT-AACAAGT
* * *
56592 AAACAAAAGATAAAAAGGTTGACTAAGATTGAACTGATAAGTCAAGAAAAGATAAAAAGATTTAC
388 AAACAAAAGATAAAAAGGTTGACGAAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTAC
* * * *
56657 C-AGGGATTGAGCTGATAGGTAAACAAAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGAT
453 CGA-GGATTAAGCCGATAAGCAAACAAAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGAT
56721 AAAAGGATAAAAATTTGATCAAGATTGAACTG
517 AAAAGGATAAAAATTTGATCAAGATTGAACTG
* * * *
56753 ACAAGTCAACAAAGAATAAAAGGATTTA-CTAGGGACTGAG-TCGATAGGTAAACAAAGGGTAAA
1 ACAAGTCAACAAAGAATAAAAGGAATTACCT-GGGACTGAGCT-AATAGGTAAACAAAAGATAAA
* * * * * * *
56816 TAGG-TGATCGTGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACCAAGGATTGAGCTG
64 AAGGATGACCGAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCAAGAACTAAGCTG
* * * *
56880 ACAGGTAAACAAAGGATAAAAA-ATTGACTAGGATTGAACTGACAAGTCAACAAAGGATAAAAGG
129 ACAGGTAAACAAAAGATAAAAAGATTGACCAGGATTAAACCGACAAGTCAACAAAGGATAAAAGG
* * *
56944 ATTTA-CTCAGGATTGAGCTGATAGGTAAACAAAGGATAAACA-GTTAA-TCAGGATTGAACTGA
194 ATTTACCT-AGGACTGAACTGATAGGTAAACAAAGGATAAA-AGGTTAACT-AGGATTGAACAGA
* * * * *
57006 CAAGTCAATAAAGGATAAAAAGATTTACCAAAGACTGAGCTGATAGGTAAACAAAGGATAAAGAG
256 CAAGTCAACAAAAGATAAAAAGATTTACCAAAGACTGAACCGATAGATAAACAAAGGATAAAGAG
* *
57071 TTGACCGAGATTGAATTGATAAGTCAACAAAAGATAAAAGGATTTACCTAGGATTGAGCTAACAA
321 TTGACCGAGATTGAATTAACAAGTCAACAAAAGATAAAAGGATTTACCTAGGATTGAGCTAACAA
* * * ** * *
57136 GTAAATAAAGGATAAGAAGGTTGACGGGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTT
386 GTAAACAAAAGATAAAAAGGTTGACGAAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTT
*
57201 ATCGAGGATTAAGCCGATAAGCAAACAAAGGATAA
451 ACCGAGGATTAAGCCGATAAGCAAACAAAGGATAA
57236 GAAGGTTGAC
Statistics
Matches: 414, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
545 3 0.01
546 279 0.67
547 79 0.19
548 53 0.13
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (548 bp):
ACAAGTCAACAAAGAATAAAAGGAATTACCTGGGACTGAGCTAATAGGTAAACAAAAGATAAAAA
GGATGACCGAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCAAGAACTAAGCTGAC
AGGTAAACAAAAGATAAAAAGATTGACCAGGATTAAACCGACAAGTCAACAAAGGATAAAAGGAT
TTACCTAGGACTGAACTGATAGGTAAACAAAGGATAAAAGGTTAACTAGGATTGAACAGACAAGT
CAACAAAAGATAAAAAGATTTACCAAAGACTGAACCGATAGATAAACAAAGGATAAAGAGTTGAC
CGAGATTGAATTAACAAGTCAACAAAAGATAAAAGGATTTACCTAGGATTGAGCTAACAAGTAAA
CAAAAGATAAAAAGGTTGACGAAGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCGA
GGATTAAGCCGATAAGCAAACAAAGGATAAAGAGGATTGAACCGACAAGTTGACAAAGGATAAAA
GGATAAAAATTTGATCAAGATTGAACTG
Found at i:57054 original size:252 final size:253
Alignment explanation
Indices: 56722--57320 Score: 747
Period size: 252 Copynumber: 2.4 Consensus size: 253
56712 ACAAAGGATA
* * * * **
56722 AAAGGATAAAAATTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGGG
1 AAAGGATAAAAAGTTAATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAAGATTTACCAAAG
* * * *
56787 ACTGAGTCGATAGGTAAACAAAGGGTAAATAGGTGATCGTGATTGAACTGACAAGTCAACAAAAG
66 ACTGAGTCGATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAAG
* * *
56852 ATAAAAGGATTTACCAAGGATTGAGCTGACAGGTAAACAAAGGATAA-AAAATTGACTAGGATTG
131 ATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATTG
* * * *
56916 AACTGACAAGTCAACAAAGGATAAAAGGATTTACTC-AGGATTGAGCTGATAGGTAAAC
196 AACTGACAAGTCAACAAAGGATAAAAGGATTTA-TCGAGGATTAAGCCGATAAGCAAAC
* * * *
56974 AAAGGATAAACAGTTAATCAGGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCAAAG
1 AAAGGATAAAAAGTTAATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAAGATTTACCAAAG
* * *
57039 ACTGAG-CTGATAGGTAAACAAAGGATAAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAA
66 ACTGAGTC-GATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAA
* * ** *
57103 GATAAAAGGATTTACCTAGGATTGAGCTAACAAGTAAATAAAGGATAAGAAGGTTGACGGGGATT
130 GATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATT
57168 GAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
195 GAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
* * * * * ** ***
57227 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAA-AGATAAAGGGATTTACTTG
1 AAAGGATAA-AAAGTTAATCAAGATTGAACTGACAAGTCAACAAAGA-ATAAAAAGATTTACCAA
* * * *
57291 AGACTGAGTTGACAAGCAAACAAAGGATAA
64 AGACTGAGTCGATAGGTAAACAAAGGATAA
57321 GACTAGTTAA
Statistics
Matches: 294, Mismatches: 47, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
251 1 0.00
252 156 0.53
253 73 0.25
254 64 0.22
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (253 bp):
AAAGGATAAAAAGTTAATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAAGATTTACCAAAG
ACTGAGTCGATAGGTAAACAAAGGATAAAGAGGTGACCGAGATTGAACTGACAAGTCAACAAAAG
ATAAAAGGATTTACCAAGGATTGAGCTAACAAGTAAACAAAGGATAAGAAAATTGACGAGGATTG
AACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAGGATTAAGCCGATAAGCAAAC
Found at i:57193 original size:85 final size:82
Alignment explanation
Indices: 56722--57320 Score: 596
Period size: 84 Copynumber: 7.1 Consensus size: 82
56712 ACAAAGGATA
** * *
56722 AAAGGATAAAAATTTGATCAAGATTGAACTGACAAGTCAACAAAGAATAAAAGGATTTACTAGGG
1 AAAGGATAAAAGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTA-GG
*
56787 ACTGAG-TCGATAGGTAAAC
64 ATTGAGCT-GATAGGTAAAC
* * *
56806 AAAGGGTAAATAGG-TGATC-GTGATTGAACTGACAAGTCAACAAAAGATAAAAGGATTTACCAA
1 AAAGGATAAA-AGGTTGA-CAG-GATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTA
*
56869 GGATTGAGCTGACAGGTAAAC
62 GGATTGAGCTGATAGGTAAAC
**
56890 AAAGGATAAAAAATTGACTAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCAGG
1 AAAGGATAAAAGGTTGAC-AGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACT-AGG
56955 ATTGAGCTGATAGGTAAAC
64 ATTGAGCTGATAGGTAAAC
* * * * *
56974 AAAGGATAAACA-GTTAATCAGGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCAAA
1 AAAGGATAAA-AGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
*
57038 GACTGAGCTGATAGGTAAAC
63 GATTGAGCTGATAGGTAAAC
* * * *
57058 AAAGGAT-AAAGAGTTGACCGAGATTGAATTGATAAGTCAACAAAAGATAAAAGGATTTACCTAG
1 AAAGGATAAAAG-GTTGACAG-GATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
* * * *
57122 GATTGAGCTAACAAGTAAAT
63 GATTGAGCTGATAGGTAAAC
* *
57142 AAAGGATAAGAAGGTTGACGGGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTATCGAG
1 AAAGGATAA-AAGGTTGAC-AGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTA-CTAG
* * * *
57207 GATTAAGCCGATAAGCAAAC
63 GATTGAGCTGATAGGTAAAC
* * * * * *
57227 AAAGGATAAGAAGGTTGACCAAGATTAAACTGATAAGTCAACAAAAGATAAAGGGATTTACTTGA
1 AAAGGATAA-AAGGTTGA-CAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTAG-
* * * * *
57292 GACTGAGTTGACAAGCAAAC
63 GATTGAGCTGATAGGTAAAC
57312 AAAGGATAA
1 AAAGGATAA
57321 GACTAGTTAA
Statistics
Matches: 435, Mismatches: 61, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
82 1 0.00
83 7 0.02
84 279 0.64
85 143 0.33
86 5 0.01
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (82 bp):
AAAGGATAAAAGGTTGACAGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTAGGAT
TGAGCTGATAGGTAAAC
Found at i:57538 original size:85 final size:87
Alignment explanation
Indices: 57449--57650 Score: 218
Period size: 85 Copynumber: 2.4 Consensus size: 87
57439 AGACTAAGTC
* * * *
57449 GACAAGTTAACAAAGGATAAAA-GGACTTACTCG-CGATTAAGCCT-ACAAGTAAACAAAAG-AT
1 GACAAGTTAACAAAGGATAAAACAGACTTACT-GACGA-CAA-CCTGACAAATAAACAAAAGAAC
* *
57510 AAGAAA-GTTGACCGAGATTGAACT
63 AAAAAAGGTTGACCAAGATTGAACT
* * * *
57534 GACAAGTTAACAAAAGATAAAACAGATTTACTGAGGACAACCTGACAAATAAACAAAGGAACAAA
1 GACAAGTTAACAAAGGATAAAACAGACTTACTGACGACAACCTGACAAATAAACAAAAGAACAAA
57599 AAAGGTTGACCAAGATTGAACT
66 AAAGGTTGACCAAGATTGAACT
* * *
57621 AACAAGTCAACAAAGGATAAAA-AGATTTAC
1 GACAAGTTAACAAAGGATAAAACAGACTTAC
57651 CCGGGACTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
84 3 0.03
85 37 0.37
86 23 0.23
87 36 0.36
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (87 bp):
GACAAGTTAACAAAGGATAAAACAGACTTACTGACGACAACCTGACAAATAAACAAAAGAACAAA
AAAGGTTGACCAAGATTGAACT
Found at i:61395 original size:28 final size:27
Alignment explanation
Indices: 61240--61395 Score: 75
Period size: 28 Copynumber: 5.6 Consensus size: 27
61230 AAATAGTGAC
* *
61240 AGCCCAATTTGCATGTATTCATGACATGG
1 AGCCCAA-TTACATGTATTCATG-CGTGG
* * *
61269 AGCCCAATTCACATG--TCCAAGAGAGTGG
1 AGCCCAATT-ACATGTATTC-A-TGCGTGG
* * *
61297 AGCCCAATTGCATGTTTTCATGGCTTGG
1 AGCCCAATTACATGTATTCAT-GCGTGG
** * *
61325 AGCCCAATTACATGTCA-AGAAGAGTGG
1 AGCCCAATTACATGT-ATTCATGCGTGG
** *
61352 AGCCCAATTTGGATGTATTCATGCTTGG
1 AGCCCAA-TTACATGTATTCATGCGTGG
61380 AGCCCAATTCACATGT
1 AGCCCAATT-ACATGT
61396 CCAAGAAGAG
Statistics
Matches: 91, Mismatches: 26, Indels: 21
0.66 0.19 0.15
Matches are distributed among these distances:
27 20 0.22
28 57 0.63
29 14 0.15
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (27 bp):
AGCCCAATTACATGTATTCATGCGTGG
Found at i:61406 original size:112 final size:114
Alignment explanation
Indices: 61207--61417 Score: 331
Period size: 112 Copynumber: 1.9 Consensus size: 114
61197 AAGAATAAGA
*
61207 TTGGAGCCCAATTCTATGTCCAAAAATAGTGACAGCCCAATTTGCATGTATTCATGACATGGAGC
1 TTGGAGCCCAATTCTATGTCCAAAAAGAGTGACAGCCCAATTTGCATGTATTCATGACATGGAGC
61272 CCAATTCACATGTCCAAGAGAGTGGAGCCCAATTGCATGTTTTCATGGC
66 CCAATTCACATGTCCAAGAGAGTGGAGCCCAATTGCATGTTTTCATGGC
* * * *
61321 TTGGAGCCCAATTAC-ATGT-CAAGAAGAGTG-GAGCCCAATTTGGATGTATTCATG-CTTGGAG
1 TTGGAGCCCAATT-CTATGTCCAAAAAGAGTGACAGCCCAATTTGCATGTATTCATGACATGGAG
61382 CCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATT
65 CCCAATTCACATGTCCAAG-AGAGTGGAGCCCAATT
61418 CACTGTATTT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
111 25 0.28
112 38 0.42
113 9 0.10
114 17 0.19
115 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (114 bp):
TTGGAGCCCAATTCTATGTCCAAAAAGAGTGACAGCCCAATTTGCATGTATTCATGACATGGAGC
CCAATTCACATGTCCAAGAGAGTGGAGCCCAATTGCATGTTTTCATGGC
Found at i:61426 original size:56 final size:57
Alignment explanation
Indices: 61207--61417 Score: 297
Period size: 56 Copynumber: 3.7 Consensus size: 57
61197 AAGAATAAGA
* * * *
61207 TTGGAGCCCAATTC-TATGTCCAAAAATAGTGACAGCCCAATTTGCATGTATTCATGAC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTG-GAGCCCAATTTGCATGTATTCATG-C
* *
61265 ATGGAGCCCAATTCACATGTCCAAG-AGAGTGGAGCCCAA-TTGCATGTTTTCATGGC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCAT-GC
*
61321 TTGGAGCCCAATT-ACATGT-CAAGAAGAGTGGAGCCCAATTTGGATGTATTCATGC
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGC
61376 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATT
1 TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATT
61418 CACTGTATTT
Statistics
Matches: 138, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
54 4 0.03
55 35 0.25
56 44 0.32
57 29 0.21
58 18 0.13
59 8 0.06
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (57 bp):
TTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATGTATTCATGC
Done.