Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 87 of 187
Found at i:25451544 original size:3 final size:3
Alignment explanation
Indices: 25451536--25451571 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
25451526 CAGGTTTGCA
25451536 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
25451572 ACGGCGGCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:25451848 original size:3 final size:3
Alignment explanation
Indices: 25451840--25451868 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25451830 ATACAGATGT
25451840 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
25451869 CAAAGGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25453931 original size:120 final size:122
Alignment explanation
Indices: 25453786--25454030 Score: 431
Period size: 121 Copynumber: 2.0 Consensus size: 122
25453776 ATTTTATCTA
25453786 TTTAACTCAAAAAAACTTTAATATTTATAAAAATGAATTTAATTT-AAAATATTTATTAAAATAA
1 TTTAACTCAAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAA
* *
25453850 TTTAAAATAAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGATACTATTTAGTG
66 TTTAAAATAAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
*
25453907 TTTAACTC-AAAAAATTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAA
1 TTTAACTCAAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAA
* *
25453971 TTTGAAATGAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
66 TTTAAAATAAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
25454028 TTT
1 TTT
25454031 TGGCCCCATT
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 35 0.30
121 83 0.70
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (122 bp):
TTTAACTCAAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAA
TTTAAAATAAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
Found at i:25454766 original size:12 final size:12
Alignment explanation
Indices: 25454749--25454774 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25454739 TCCATTTAAG
25454749 TTTTTGTTTGCT
1 TTTTTGTTTGCT
25454761 TTTTTGTTTGCT
1 TTTTTGTTTGCT
25454773 TT
1 TT
25454775 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:25457230 original size:90 final size:86
Alignment explanation
Indices: 25457142--25457391 Score: 241
Period size: 90 Copynumber: 2.8 Consensus size: 86
25457132 TAAGTAATAG
* * * *
25457142 TACGCAAAAAATTAAATTTACAGATACAATAAAATACAAACATTCTACAATATTAATACACAAAA
1 TACGCAATAAATTAAATTTACACATACAAAAAAATACAAACATTCTA-AA-ATTAATACACGAAA
25457207 ATATAAAATTCAAAAAAAATA-A
64 ATATAAAATTCAAAAAAAATATA
* * ** * * **
25457229 TACGCACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACACGAA
1 TACGCAATAAATTAAATTTACACATACAAAAAAATACAAAC--AT-TCTAAAATTAATACACGAA
* * ** *
25457294 AATTTTAAATTCAAACTACATATAA
63 AATATAAAATTCAAAAAAAATAT-A
* * *
25457319 TACGGAATAAATTAAATTTACATATACAAAAAAATACAAACATTCTAAGAAATTAATAGACGAAA
1 TACGCAATAAATTAAATTTACACATACAAAAAAATACAAACATTCT-A-AAATTAATACACGAAA
25457384 ATATAAAA
64 ATATAAAA
25457392 ATGAAACCTT
Statistics
Matches: 127, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
87 34 0.27
88 32 0.25
89 25 0.20
90 36 0.28
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (86 bp):
TACGCAATAAATTAAATTTACACATACAAAAAAATACAAACATTCTAAAATTAATACACGAAAAT
ATAAAATTCAAAAAAAATATA
Found at i:25458180 original size:107 final size:107
Alignment explanation
Indices: 25458031--25458228 Score: 258
Period size: 108 Copynumber: 1.9 Consensus size: 107
25458021 GGCCGGCCCC
* *
25458031 AATTTTTTTTAAATACACTGGTGCCAGCCATCAGTATTCCAAAAT-AAAAAAATGCATT-GGAAG
1 AATTTTTTTTAAATACACTAGTGCCAGCCATCAGTATCCCAAAATAAAAAAAATGCATTGGGAA-
* * *
25458094 CCGAAAATTGTACTTGGTGCCGACCATGTAATGGTCGTCACCT
65 CCGAAAATTATACCTGCTGCCGACCATGTAATGGTCGTCACCT
* * * *
25458137 AATTTTTTTTAAAATATACTAGTGCC-GACCATTAGTGTCCCAAAGTAAAAAAAATGCATTGGGA
1 AATTTTTTTT-AAATACACTAGTGCCAG-CCATCAGTATCCCAAAATAAAAAAAATGCATTGGGA
*
25458201 ACCGAAAATTATACCTGCTGCCGGCCAT
64 ACCGAAAATTATACCTGCTGCCGACCAT
25458229 CTACTGCCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
106 11 0.14
107 27 0.35
108 36 0.46
109 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (107 bp):
AATTTTTTTTAAATACACTAGTGCCAGCCATCAGTATCCCAAAATAAAAAAAATGCATTGGGAAC
CGAAAATTATACCTGCTGCCGACCATGTAATGGTCGTCACCT
Found at i:25458633 original size:14 final size:15
Alignment explanation
Indices: 25458610--25458657 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
25458600 TAAATTTAAA
25458610 TTTTAGTTTTGATAT
1 TTTTAGTTTTGATAT
* *
25458625 TTTTA-TTTTCATAA
1 TTTTAGTTTTGATAT
25458639 TTTTAGTTTTGATAT
1 TTTTAGTTTTGATAT
25458654 TTTT
1 TTTT
25458658 TAGATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (15 bp):
TTTTAGTTTTGATAT
Found at i:25460324 original size:24 final size:24
Alignment explanation
Indices: 25460293--25460351 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
25460283 GAAAGGTCAT
* *
25460293 TTTTTTTATTTTCTTTATTTTCGA
1 TTTTTTTATTTTCTTTATATTCAA
*** *
25460317 TTTTTTTAAACTGTTTATATTCAA
1 TTTTTTTATTTTCTTTATATTCAA
25460341 TTTTTTTATTT
1 TTTTTTTATTT
25460352 CCCTTTGTTT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTTTTTATTTTCTTTATATTCAA
Found at i:25461106 original size:15 final size:15
Alignment explanation
Indices: 25461085--25461123 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25461075 ACTTTATGTT
*
25461085 TTTATTATTGCTTTTA
1 TTTATTATT-ATTTTA
25461101 -TTATTATTATTTTA
1 TTTATTATTATTTTA
25461115 TTTATTATT
1 TTTATTATT
25461124 TAATTATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:25463232 original size:5 final size:5
Alignment explanation
Indices: 25463199--25463242 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
25463189 GCCTCCCTTT
25463199 TTGCA TT-CA TTGCA TT-CA -TGCA TTAGCA TTGCA TTGCA TTGCA T
1 TTGCA TTGCA TTGCA TTGCA TTGCA TT-GCA TTGCA TTGCA TTGCA T
25463243 CATATGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 1 0.03
4 8 0.23
5 21 0.60
6 5 0.14
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (5 bp):
TTGCA
Found at i:25463239 original size:10 final size:9
Alignment explanation
Indices: 25463199--25463252 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
25463189 GCCTCCCTTT
25463199 TTGCATTCA
1 TTGCATTCA
25463208 TTGCATTCA
1 TTGCATTCA
25463217 -TGCATTAGCA
1 TTGCATT--CA
25463227 TTGCATTGCA
1 TTGCATT-CA
25463237 TTGCA-TCA
1 TTGCATTCA
25463245 TATGCATT
1 T-TGCATT
25463253 AAATCTTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 9 0.22
9 14 0.35
10 11 0.28
11 6 0.15
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (9 bp):
TTGCATTCA
Found at i:25463252 original size:24 final size:22
Alignment explanation
Indices: 25463199--25463252 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
25463189 GCCTCCCTTT
25463199 TTGCATTCATTGCATTCATGCA
1 TTGCATTCATTGCATTCATGCA
25463221 TTAGCATTGCATTGCATTGCAT-CA
1 TT-GCATT-CATTGCATT-CATGCA
25463245 TATGCATT
1 T-TGCATT
25463253 AAATCTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 2 0.07
23 5 0.18
24 17 0.61
25 4 0.14
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (22 bp):
TTGCATTCATTGCATTCATGCA
Found at i:25468282 original size:6 final size:6
Alignment explanation
Indices: 25468267--25468318 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
25468257 ACTTCACTTG
25468267 AAAA-A AAAAGA AAAAGA AAAAGA AAATAGA AAAA-A AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA
25468314 AAAAG
1 AAAAG
25468319 GAGAGGCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.20
6 29 0.66
7 6 0.14
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:25469267 original size:10 final size:10
Alignment explanation
Indices: 25469252--25469276 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25469242 AGATTATTTT
25469252 AAAAAAAATA
1 AAAAAAAATA
25469262 AAAAAAAATA
1 AAAAAAAATA
25469272 AAAAA
1 AAAAA
25469277 TTATGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:25472066 original size:143 final size:143
Alignment explanation
Indices: 25471805--25472359 Score: 824
Period size: 143 Copynumber: 3.9 Consensus size: 143
25471795 GATTGAAATC
* * * * *
25471805 ATTATGGCGAATCTTATCTTCCTGAAGTTTCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCT
1 ATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
25471870 TTGAAGTTGTAGCGGAGTAGACTGAAGACAGCGAATCTTATTT-CCTTGACGTTGCAGTGGAACA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAG-CGTTGCAGTGGAACA
*
25471934 AATTAAAGTTACAA
130 AATTAAAGCTACAA
* *
25471948 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
25472013 CTGAAGTTTCAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAACAA
25472078 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
25472091 ATTATGGCAGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCT
1 ATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
25472156 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTCTAGCGTTGCAGTAGAATAA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAACAA
25472221 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * **
25472234 ATTATGGTGGATATGATCTTCCTGAAGTTGCAGTGGAGTAGATTGAATTCACCAGCCTTATCTCC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
25472299 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGA
25472360 GCAGATTGAA
Statistics
Matches: 373, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
143 369 0.99
144 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAACAA
ATTAAAGCTACAA
Found at i:25472353 original size:45 final size:45
Alignment explanation
Indices: 25472304--25472437 Score: 130
Period size: 44 Copynumber: 3.0 Consensus size: 45
25472294 TCTCCCTGAA
25472304 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
* * * * ** * *
25472349 GTTGCAGTGGAGCAGATTGAAG-CCACTAGCCTTATCTCCCT-GAA
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAG-C
* * *
25472393 GTTGCAGCGAAACAGACTAAAGA-AAGCGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAA-CGAATCTTATTTCCCTAGC
25472438 TTTCTAATGG
Statistics
Matches: 66, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
43 1 0.02
44 32 0.48
45 32 0.48
46 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (45 bp):
GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:25472395 original size:232 final size:232
Alignment explanation
Indices: 25472117--25472541 Score: 579
Period size: 232 Copynumber: 1.8 Consensus size: 232
25472107 TCTTCCTGAA
* * * * *
25472117 GTTGTAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCTCTGAAGTTGCAGCGGAGCAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
* * * **
25472182 GACAA-CGAATCTTATTTCTCTAGCGTTGC-AGTAGAATA-AATTAAAGCTACAAATTATGGTGG
66 GA-AAGCGAATCTTATTTCCCTAGC-TTGCTAATAGAACAGAA-TAAAGCTACAAATTATGGCAG
* * * * *
25472244 ATATGATCTTCCTGAAGTTGCAGTGGAGTAGATTGAA-TTCACCAGCCTTATCTCCCTGAAGTTG
128 ATATGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCT-ACCAGCCTTATCTCACTGAAGTTG
25472308 CAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
192 CAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
* *
25472349 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
* * * *
25472414 GAAAGCGAATCTTATTTCCCTAGCTTTCTAATGGAACAGAATAAAGTTACAAATTATGGCAGATC
66 GAAAGCGAATCTTATTTCCCTAGCTTGCTAATAGAACAGAATAAAGCTACAAATTATGGCAGATA
* *
25472479 TTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACCAGTCTTATCTCACTGAAGTTGCA
131 TGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACCAGCCTTATCTCACTGAAGTTGCA
25472542 ATGGGTTAGG
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
231 5 0.03
232 158 0.95
233 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (232 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
GAAAGCGAATCTTATTTCCCTAGCTTGCTAATAGAACAGAATAAAGCTACAAATTATGGCAGATA
TGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACCAGCCTTATCTCACTGAAGTTGCAGC
GGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:25472398 original size:44 final size:44
Alignment explanation
Indices: 25472249--25472399 Score: 160
Period size: 44 Copynumber: 3.4 Consensus size: 44
25472239 GGTGGATATG
* * **
25472249 ATCTTCCTGAAGTTGCAGTGGAGTAGATTGAATTCACCAGCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
* * * * **
25472293 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTT
* * *
25472338 ATTTCCCT-AGCGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTT
1 ATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
25472382 ATCTCCCTGAAGTTGCAG
1 ATCTCCCTGAAGTTGCAG
25472400 CGAAACAGAC
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
44 50 0.60
45 34 0.40
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
Found at i:25472423 original size:89 final size:89
Alignment explanation
Indices: 25472260--25472437 Score: 277
Period size: 89 Copynumber: 2.0 Consensus size: 89
25472250 TCTTCCTGAA
* ** * * *
25472260 GTTGCAGTGGAGTAGATTGAATTCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
25472325 GACAACGAATCTTATTTCCCTAGC
66 GACAACGAATCTTATTTCCCTAGC
*
25472349 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
25472414 GA-AAGCGAATCTTATTTCCCTAGC
66 GACAA-CGAATCTTATTTCCCTAGC
25472438 TTTCTAATGG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 2 0.02
89 79 0.98
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTAAA
GACAACGAATCTTATTTCCCTAGC
Found at i:25473404 original size:2 final size:2
Alignment explanation
Indices: 25473399--25473423 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25473389 CAAAAAACTG
25473399 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25473424 AATAGGCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25473961 original size:12 final size:14
Alignment explanation
Indices: 25473944--25473982 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
25473934 CACTTTATGT
25473944 TTTTATTATTA-C-
1 TTTTATTATTATCA
25473956 TTTTATTATTATCA
1 TTTTATTATTATCA
25473970 TTTTATTTATTAT
1 TTTTA-TTATTAT
25473983 TTATCTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTATTATCA
Found at i:25473966 original size:15 final size:15
Alignment explanation
Indices: 25473945--25473983 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25473935 ACTTTATGTT
25473945 TTTATTATTACTTTTA
1 TTTATTATTA-TTTTA
*
25473961 -TTATTATCATTTTA
1 TTTATTATTATTTTA
25473975 TTTATTATT
1 TTTATTATT
25473984 TATCTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:25482378 original size:6 final size:6
Alignment explanation
Indices: 25482367--25482392 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25482357 TAATAATTAA
25482367 GGGGAG GGGGAG GGGGAG GGGGAG GG
1 GGGGAG GGGGAG GGGGAG GGGGAG GG
25482393 CTTTGTGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:25505130 original size:16 final size:16
Alignment explanation
Indices: 25505109--25505176 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
25505099 TTTGGTTCGC
25505109 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25505125 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
25505141 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
25505157 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
25505173 TGTA
1 TGTA
25505177 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25505216 original size:45 final size:41
Alignment explanation
Indices: 25505157--25505266 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
25505147 GGATTAGAGG
*
25505157 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
25505199 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
25505242 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
25505267 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:25505429 original size:16 final size:16
Alignment explanation
Indices: 25505392--25505433 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25505382 TTAATCATAT
*
25505392 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25505408 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25505423 TTAAAATATAT
1 TTAAAATATAT
25505434 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25505440 original size:14 final size:15
Alignment explanation
Indices: 25505401--25505442 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25505391 TTTAAACATA
*
25505401 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25505416 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25505430 A-TATAATTTAATA
1 ATTATAATTAAATA
25505443 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25505534 original size:120 final size:115
Alignment explanation
Indices: 25505390--25505652 Score: 390
Period size: 120 Copynumber: 2.3 Consensus size: 115
25505380 ATTTAATCAT
25505390 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25505455 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GATA
66 AT---TA---ATATATGAATTTACTAAAATCATAATATATGATACTATAAAATG-TA
25505511 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
25505575 ATTAATATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATTAATATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
* *
25505625 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
25505653 ATGTTGACAA
Statistics
Matches: 136, Mismatches: 4, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
113 4 0.03
114 61 0.45
115 3 0.02
117 2 0.01
120 62 0.46
121 4 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (115 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
Found at i:25505551 original size:16 final size:16
Alignment explanation
Indices: 25505508--25505553 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
25505498 ACTATAAAAG
*
25505508 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
25505524 ATTATT-AAATATATT
1 ATAATTAAAATATATT
25505539 ATAATTAAAATATAT
1 ATAATTAAAATATAT
25505554 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:25505560 original size:14 final size:15
Alignment explanation
Indices: 25505508--25505562 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
25505498 ACTATAAAAG
25505508 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
25505524 ATTATTAAATATATT
1 ATAATTAAATATATT
25505539 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
25505552 ATAATTTAATA
1 ATAATTAAATA
25505563 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:25505605 original size:31 final size:31
Alignment explanation
Indices: 25505525--25505605 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 31
25505515 AACATAATTA
*
25505525 TTATTAAATAT-ATTATAATTAAAATATATAAT
1 TTATTAAA-ATCATAATAATT-AAATATATAAT
* *
25505557 TTAATAAAATTCTTAATAATT-AATATATGAAT
1 TTATTAAAA-TCATAATAATTAAATATAT-AAT
25505589 TTATTAAAATCATAATA
1 TTATTAAAATCATAATA
25505606 TATGATACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
31 15 0.37
32 19 0.46
33 7 0.17
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (31 bp):
TTATTAAAATCATAATAATTAAATATATAAT
Found at i:25509463 original size:19 final size:19
Alignment explanation
Indices: 25509427--25509466 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25509417 CAGATAATAC
*
25509427 TAACATATTTTAATTAATT
1 TAACATATTTTAAATAATT
25509446 TAAC-TATTTTAACATAATT
1 TAACATATTTTAA-ATAATT
25509465 TA
1 TA
25509467 TACTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TAACATATTTTAAATAATT
Found at i:25519134 original size:104 final size:104
Alignment explanation
Indices: 25518954--25519160 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 104
25518944 GGGAAAAGGC
25518954 TGCACTCCAAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAAT
1 TGCACTCCAAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAAT
25519019 ACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAAT
66 ACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAAT
*
25519058 TGCACTCCAACCAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAAT
1 TGCACTCCAAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAAT
25519123 ACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
66 ACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
25519161 GGTATTGAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.24
Consensus pattern (104 bp):
TGCACTCCAAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAAT
ACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAAT
Found at i:25524459 original size:23 final size:23
Alignment explanation
Indices: 25524433--25524507 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
25524423 ATAAGTGCCA
* *
25524433 CACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
25524456 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* * *
25524479 CACTAAAACGTAGCAGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
25524502 CACTGA
1 CACTGA
25524508 TCAATAACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:25524608 original size:8 final size:8
Alignment explanation
Indices: 25524595--25524623 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25524585 ACCCGGAACT
25524595 CACTGTAA
1 CACTGTAA
25524603 CACTGTAA
1 CACTGTAA
25524611 CACTGTAA
1 CACTGTAA
25524619 CACTG
1 CACTG
25524624 ATCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:25524762 original size:17 final size:18
Alignment explanation
Indices: 25524740--25524780 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
25524730 TAATTTTCCT
25524740 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
25524757 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
25524775 TTCACA
1 TTCACA
25524781 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:25528119 original size:21 final size:20
Alignment explanation
Indices: 25528077--25528121 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
25528067 AATACATACA
*
25528077 TTTATGGGCCTTAAATCAAG
1 TTTATGGGCCTTAAATAAAG
25528097 TTTATGTGGCCTTAAA-AATAG
1 TTTATG-GGCCTTAAATAA-AG
25528118 TTTA
1 TTTA
25528122 GGAACAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
TTTATGGGCCTTAAATAAAG
Found at i:25536679 original size:76 final size:76
Alignment explanation
Indices: 25536536--25536686 Score: 180
Period size: 76 Copynumber: 2.0 Consensus size: 76
25536526 ATGATTTTTT
* * * *
25536536 ACATCAAGAACGAACTTAGACAAATGGTTGTCTAGAAACATTTGAAACTAGACATCTTAATGTCT
1 ACATCAAGAACGAACCTAGACAAATGGTTGTCTAGAAACATTTGAAACTAGACACCATAATGCCT
25536601 AGATTCATGTC
66 AGATTCATGTC
* * * * * *
25536612 ACATCAAGAATGAACCTGGACAAATGGTTGTCTAGATATATTT-AAGTCTGGACAACCAT-ATGC
1 ACATCAAGAACGAACCTAGACAAATGGTTGTCTAGAAACATTTGAA-ACTAGAC-ACCATAATGC
25536675 CTAGATTCATGT
64 CTAGATTCATGT
25536687 ATTTTTAGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
75 2 0.03
76 58 0.92
77 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (76 bp):
ACATCAAGAACGAACCTAGACAAATGGTTGTCTAGAAACATTTGAAACTAGACACCATAATGCCT
AGATTCATGTC
Found at i:25536950 original size:17 final size:16
Alignment explanation
Indices: 25536930--25536981 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
25536920 ATTATAAAAT
25536930 TTTAGTTATTTTATATA
1 TTTA-TTATTTTATATA
*
25536947 TTTA-TATATTATATA
1 TTTATTATTTTATATA
25536962 -TTATATATTTTTATATA
1 TTTAT-TA-TTTTATATA
25536979 TTT
1 TTT
25536982 TAAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 2 0.07
17 12 0.41
18 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTATTATTTTATATA
Found at i:25536960 original size:7 final size:7
Alignment explanation
Indices: 25536940--25536970 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
25536930 TTTAGTTATT
25536940 TTATATA
1 TTATATA
25536947 TTTATATA
1 -TTATATA
25536955 TTATATA
1 TTATATA
25536962 TTATATA
1 TTATATA
25536969 TT
1 TT
25536971 TTTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTATATA
Found at i:25540603 original size:61 final size:61
Alignment explanation
Indices: 25540538--25540664 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
25540528 ACATACATAG
* * * **
25540538 TCTATCAAATTGGTTCTAATTCTAAATAATTCAACAAATTTAACCCTCCACATTTATGAAT
1 TCTATCAAATTGCTCCCAATTCTAAATAATTCAACAAATTTAACCCTCCACATTTACAAAT
** * * * *
25540599 TCTATCAGTTTGCTCCCAATTCTTAATAATTCAATAAATTTAACCCTTCAGATTTACAAAT
1 TCTATCAAATTGCTCCCAATTCTAAATAATTCAACAAATTTAACCCTCCACATTTACAAAT
25540660 TCTAT
1 TCTAT
25540665 TAATGTCTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.39
Consensus pattern (61 bp):
TCTATCAAATTGCTCCCAATTCTAAATAATTCAACAAATTTAACCCTCCACATTTACAAAT
Found at i:25541335 original size:18 final size:19
Alignment explanation
Indices: 25541294--25541337 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
25541284 ACATTATAAA
* *
25541294 AGTAAAAAAAAATCAAGTT
1 AGTATAAAAAAATAAAGTT
25541313 A-TATAAAAAAATAAAG-T
1 AGTATAAAAAAATAAAGTT
25541330 AGTATAAA
1 AGTATAAA
25541338 GATCGAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AGTATAAAAAAATAAAGTT
Found at i:25541423 original size:7 final size:6
Alignment explanation
Indices: 25541407--25541440 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
25541397 ATAATGTACA
25541407 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
25541441 GCCTAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:25549700 original size:75 final size:75
Alignment explanation
Indices: 25549611--25549784 Score: 330
Period size: 75 Copynumber: 2.3 Consensus size: 75
25549601 ATTCCCCCAA
*
25549611 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
*
25549676 AAATTTGAAG
66 AAATGTGAAG
25549686 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
25549751 AAATGTGAAG
66 AAATGTGAAG
25549761 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
25549785 CGAGGGGTTG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 97 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAAG
Found at i:25549705 original size:42 final size:41
Alignment explanation
Indices: 25549646--25549782 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 41
25549636 ACTCATTGGT
25549646 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATTTGAAGGG
* * *
25549688 GGTTGCTAAGTGCTGATTCC-CCG-A-CT-CA-TT---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAATTTGAAGGG
*
25549721 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATTTGAAGGG
25549763 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
25549783 CCCGAGGGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 22 0.28
34 3 0.04
35 1 0.01
36 2 0.03
37 2 0.03
38 2 0.03
39 1 0.01
40 1 0.01
41 3 0.04
42 42 0.53
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAAATTTGAAGGG
Found at i:25549792 original size:102 final size:102
Alignment explanation
Indices: 25549686--25549886 Score: 348
Period size: 102 Copynumber: 2.0 Consensus size: 102
25549676 AAATTTGAAG
* **
25549686 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCTT
*
25549751 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
* *
25549788 GGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACTGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCTT
25549853 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
25549887 GACTCATTGG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:25549877 original size:177 final size:177
Alignment explanation
Indices: 25549581--25549921 Score: 592
Period size: 177 Copynumber: 1.9 Consensus size: 177
25549571 ATTGAATAAA
*
25549581 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
** * * *
25549646 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
66 GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
*
25549711 ACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
131 ACTCATTGGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTG
* *
25549758 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
25549823 GGTTGCTAAGTGCTGAACCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
66 GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
25549888 ACTCATTGGTGGTTGCTAAGTGCTGAATCCACCG
131 ACTCATTGGTGGTTGCTAAGTGCTGAATCCACCG
25549922 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 154 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
ACTCATTGGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTG
Found at i:25554125 original size:19 final size:20
Alignment explanation
Indices: 25554094--25554143 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25554084 ATAAATAAAT
25554094 AAATAATAAAAAG-AAGAAAA
1 AAATAA-AAAAAGCAAGAAAA
*
25554114 AAATAAAAAAAGCAATAAAA
1 AAATAAAAAAAGCAAGAAAA
*
25554134 AAAGAAAAAA
1 AAATAAAAAA
25554144 GAAAGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (20 bp):
AAATAAAAAAAGCAAGAAAA
Found at i:25554180 original size:6 final size:6
Alignment explanation
Indices: 25554181--25554245 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
25554171 AAAATTAAAA
* ** **
25554181 AAAATC AAAATC AAAATC AAAA-A AAGAAGA AAAAGA AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AA-AATC AAAATC AAAATC AAAATC
* *
25554229 AAAGTC AAAATG AAAAT
1 AAAATC AAAATC AAAAT
25554246 GAAAGAAGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
5 2 0.04
6 46 0.90
7 3 0.06
ACGTcount: A:0.71, C:0.09, G:0.08, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:25555329 original size:50 final size:50
Alignment explanation
Indices: 25555264--25555757 Score: 397
Period size: 50 Copynumber: 9.9 Consensus size: 50
25555254 TCCCAAGCGA
* * *
25555264 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * * ** * *
25555314 TGCAGTAAAAAAGATTAAAGCCACAGCGGCGAATCCTAATTCCCAGGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGAC-AT
* * * *
25555364 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * * * * **
25555414 TGCAGTTAAAAAGATTAAAGCCACAGCGGCGAATCCTACTTCCCTGACGG
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * *
25555464 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * * * **
25555514 TGCAGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC-TCCCCAAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGA-CAT
* * * * *
25555564 TGCAGTGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGCCAT
1 TGCAGTGAAAAAGATTAAAGCCAC-ATCGGCGAATCTTGCTTCCCCGACAT
* * * ** * *
25555614 TGCAGTTAAAAAGATTAAAGCTACAACAACGAATCTTACTT-CTC-A-AGT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACA-T
* * * * * *
25555662 GGTGTAGTGGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGATAT
1 --TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
25555714 TGCAGTTAGAAAGATTAAAACTACAACAGCGAATCTTACTTCCC
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCC
25555758 AGGCAGTGTA
Statistics
Matches: 338, Mismatches: 94, Indels: 24
0.74 0.21 0.05
Matches are distributed among these distances:
47 1 0.00
48 1 0.00
49 10 0.03
50 314 0.93
51 9 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
Found at i:25555426 original size:100 final size:100
Alignment explanation
Indices: 25555253--25555823 Score: 691
Period size: 100 Copynumber: 5.7 Consensus size: 100
25555243 CCAGTTTTAT
*
25555253 TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
1 TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACATTGCA
* * *
25555318 GTAAAAAAGATTAAAGCCACAGCGGCGAATCCTAA
66 GTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
* * *
25555353 TTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCA
1 TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACATTGCA
*
25555418 GTTAAAAAGATTAAAGCCACAGCGGCGAATCCTAC
66 GTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
* * * *
25555453 TTCCC-TGACGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
1 TTCCCAAG-CGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACATTGC
25555517 AGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
65 AGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
* * * * *
25555553 TCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGCCATTGC
1 TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAATCTTGCTTCCCCGACATTGC
* * **
25555617 AGTTAAAAAGATTAAAGCTACAACAACGAATCTTAC
65 AGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
* * * * * * * *
25555653 TTCTCAAGTGGTGTAGTGGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGATATTGCA
1 TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACATTGCA
* * * * *
25555718 GTTAGAAAGATTAAAACTACAACAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
* * * * * * * **
25555753 TTCCCAGGC-AGTGTAGTGGAACAGATTGAAGCTACAAT-AGCGAATATTGCTTCCTCGACATCA
1 TTCCCAAGCGA-TGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAATCTTGCTTCCCCGACATTG
25555816 CAGTTAAA
64 CAGTTAAA
25555824 CATATTAAGG
Statistics
Matches: 415, Mismatches: 50, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
99 2 0.00
100 409 0.99
101 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
TTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACATTGCA
GTTAAAAAGATTAAAGCCACAGCGGCGAATCTTAC
Found at i:25563600 original size:3 final size:3
Alignment explanation
Indices: 25563538--25563587 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
25563528 TGATTTATAT
*
25563538 ATA ATA ATA ATA ATA ATA ATA A-A AT- TTA A-A ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25563582 ATA ATA
1 ATA ATA
25563588 TATGTTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 7 0.17
3 34 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25564551 original size:43 final size:43
Alignment explanation
Indices: 25564486--25564611 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 43
25564476 TAGGATTTTT
*
25564486 GATATGTG-TTATCGTGAAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
25564529 -AGTTTGTGTTTACGTGTAAGACC-CTATCTGGGATAG-TGGCATC
1 GA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC
* *
25564572 GATATATGTTTACATGTAAGACCACGTCTGGGACGTTGGC
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGC
25564612 GTTGTACGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.04
43 58 0.87
44 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:25571323 original size:44 final size:44
Alignment explanation
Indices: 25571142--25571610 Score: 230
Period size: 44 Copynumber: 10.7 Consensus size: 44
25571132 CACTACTACT
* * *
25571142 TAGGGAGATAAGA-CTGTAATCTTCGATCTACTTCATGCA--AATA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTC--GCACCAATA
* * *
25571185 CATG-AGACAAGATCTACTT-TCTTCGATCTACTTTAC-CACCAATA
1 TAGGAAGACAAGATCT-GTTATCTTCGATCTAC-TT-CGCACCAATA
* * ** * * * *
25571229 TGGGAAGACAAAATCTG-CGTCGTCGATCCACTTC-CAATCATTA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATA
* * * * *
25571272 TAGGAAGATAGGACCTGTTATCTTTGATCTACTTCGCGCCAATA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATA
* * *
25571316 CATGAAGACAAGATCTGCTT-TCTGCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTG-TTATCTTCGATCTACTTCG-CACCAATA
* * ** * * * *
25571361 TGGGAAGACAAAATCTG-CGTCGTCGATCCACTTC-CAATCATTA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATA
* * * * *
25571404 TAGGAAGATAGGACCTGTTATCTTTGATCTACTTCGCGCCAATA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATA
* * *
25571448 CATGAAGACAAGATCTGCTT-TCTGCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTG-TTATCTTCGATCTACTTCG-CACCAATA
* * * * * *
25571493 TGGGAAGACAAGATCTG-CACCTTGGATCCACTTC-CTATCAATA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATA
* * * ** * *
25571536 TAGGAAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATA
* * *
25571580 CATGAAGACAAGATCTGCTT-TCTTCAATCTA
1 TAGGAAGACAAGATCTG-TTATCTTCGATCTA
25571611 TTCCACTGCC
Statistics
Matches: 307, Mismatches: 95, Indels: 47
0.68 0.21 0.10
Matches are distributed among these distances:
42 13 0.04
43 70 0.23
44 164 0.53
45 60 0.20
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
TAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATA
Found at i:25571610 original size:132 final size:132
Alignment explanation
Indices: 25571142--25571602 Score: 710
Period size: 132 Copynumber: 3.5 Consensus size: 132
25571132 CACTACTACT
* * * * * *
25571142 TAGGGAGATAAGA-CTGTAATCTTCGATCTACTTCATGCAAATACATG-AGACAAGATCTACTTT
1 TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* **
25571205 CTTCGATCTACTTTACCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
66 CTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
25571270 TA
131 TA
* *
25571272 TAGGAAGATAGGACCTGTTATCTTTGATCTACTTCGCGCCAATACATGAAGACAAGATCTGCTTT
1 TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
25571337 CTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
66 CTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
25571402 TA
131 TA
* *
25571404 TAGGAAGATAGGACCTGTTATCTTTGATCTACTTCGCGCCAATACATGAAGACAAGATCTGCTTT
1 TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* ** * * * *
25571469 CTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCACCTTGGATCCACTTCCTATCAA
66 CTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
25571534 TA
131 TA
**
25571536 TAGGAAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
25571601 CT
66 CT
25571603 TCAATCTATT
Statistics
Matches: 307, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
130 11 0.04
131 29 0.09
132 267 0.87
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (132 bp):
TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
CTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCAT
TA
Found at i:25571650 original size:45 final size:46
Alignment explanation
Indices: 25571601--25571797 Score: 115
Period size: 45 Copynumber: 4.4 Consensus size: 46
25571591 GATCTGCTTT
*
25571601 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT-TATCGG
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATCTATCAG
* * *** * * ** *
25571646 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATCTATCAG
** * * * *
25571689 CTTTGATCTACTT-CGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAAT
1 CTTCAATCTA-TTCCACTGCCAAATACAGGGA-G-ATAGAATCTATC-AG
*
25571735 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT-TATCGG
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATCTATCAG
* *
25571780 CTTCAATGTACTCCACTG
1 CTTCAATCTATTCCACTG
25571798 TTGTCAGGGA
Statistics
Matches: 108, Mismatches: 32, Indels: 24
0.66 0.20 0.15
Matches are distributed among these distances:
42 12 0.11
43 14 0.13
44 2 0.02
45 40 0.37
46 38 0.35
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (46 bp):
CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATCTATCAG
Found at i:25571816 original size:134 final size:134
Alignment explanation
Indices: 25571555--25571874 Score: 520
Period size: 134 Copynumber: 2.4 Consensus size: 134
25571545 AGGACCTACT
* * * **
25571555 ATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTTCAATCTATTCCACT
1 ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
25571618 GCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATC
66 GCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATC
25571683 TGCC
131 TGCC
*
25571687 ATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
1 ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
*
25571752 GCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTTGTCAGGGAGGTAAAATC
66 GCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATC
25571817 TGCC
131 TGCC
* * *
25571821 ATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTG-ATATCTTCAA
1 ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA-ATCTTCAA
25571875 CCAGCTCTGC
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
132 16 0.09
133 4 0.02
134 154 0.89
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (134 bp):
ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
GCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATC
TGCC
Found at i:25572773 original size:86 final size:86
Alignment explanation
Indices: 25571822--25572756 Score: 1717
Period size: 86 Copynumber: 10.9 Consensus size: 86
25571812 AAATCTGCCA
* * * * * * *
25571822 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTA
*
25571887 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGTGGCAAGGTTTG
25571909 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25571974 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25571995 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572060 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572081 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572146 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572167 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572232 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572253 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572318 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572339 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572404 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572425 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572490 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572511 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572576 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
25572597 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
25572662 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
* * * * * *
25572683 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAAATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
* *
25572748 GACCGAGAG
66 AAACGAGAG
25572757 AGAAAAGGTT
Statistics
Matches: 832, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
86 812 0.98
87 20 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
AAACGAGAGTGGCAAGGTTTG
Found at i:25576911 original size:19 final size:20
Alignment explanation
Indices: 25576887--25576930 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
25576877 CGTGAAAGTC
* *
25576887 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
25576906 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
25576926 -AATGC
1 TAATGC
25576931 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:25578913 original size:14 final size:15
Alignment explanation
Indices: 25578882--25578927 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25578872 TGATATAATA
*
25578882 AGTATAATAAATAAT
1 AGTATAATAAAAAAT
*
25578897 AGTGTAA-AAAAAAT
1 AGTATAATAAAAAAT
*
25578911 AGTATAATAAATAAT
1 AGTATAATAAAAAAT
25578926 AG
1 AG
25578928 GAAAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (15 bp):
AGTATAATAAAAAAT
Found at i:25579898 original size:99 final size:100
Alignment explanation
Indices: 25579726--25579926 Score: 395
Period size: 99 Copynumber: 2.0 Consensus size: 100
25579716 AGACCCCCCC
25579726 TTTTTTTAAATGGTGCCTTTTAATTTTTTTATTCAAACCTTTATATTTTTTTTTAAGCTTACAAA
1 TTTTTTTAAATGGTGCCTTTTAATTTTTTTATTCAAACCTTTATATTTTTTTTTAAGCTTACAAA
25579791 TCCCTTTTCTAAACAAAACCCCAAGCTCCTCTCTG
66 TCCCTTTTCTAAACAAAACCCCAAGCTCCTCTCTG
25579826 TTTTTTTAAATGGTGCCTTTTAATTTTTTTATTCAAACCTTTATA-TTTTTTTTAAGCTTACAAA
1 TTTTTTTAAATGGTGCCTTTTAATTTTTTTATTCAAACCTTTATATTTTTTTTTAAGCTTACAAA
25579890 TCCCTTTTCTAAACAAAACCCCAAGCTCCTCTCTG
66 TCCCTTTTCTAAACAAAACCCCAAGCTCCTCTCTG
25579925 TT
1 TT
25579927 AGGTTTTCAC
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 56 0.55
100 45 0.45
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (100 bp):
TTTTTTTAAATGGTGCCTTTTAATTTTTTTATTCAAACCTTTATATTTTTTTTTAAGCTTACAAA
TCCCTTTTCTAAACAAAACCCCAAGCTCCTCTCTG
Found at i:25580355 original size:98 final size:98
Alignment explanation
Indices: 25580186--25580380 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
25580176 TTCGGGTCCA
25580186 GATCCAATGACGGAGGAGACCCCCGACGACACTGCCACGAGGTTCCGGGTAAGTTCTTCTTCTCC
1 GATCCAATGACGGAGGAGACCCCCGACGACACTGCCACGAGGTTCCGGGTAAGTTCTTCTTCTCC
25580251 CTTTTTGTTTGAAATAGATTTATAAAAAAATAG
66 CTTTTTGTTTGAAATAGATTTATAAAAAAATAG
*
25580284 GATCCAATGACGGAGGAGACCCCCGACGACACTGCCACGAGGTTTCGGGTAAGTTCTTCTTCTCC
1 GATCCAATGACGGAGGAGACCCCCGACGACACTGCCACGAGGTTCCGGGTAAGTTCTTCTTCTCC
25580349 CTTTTTGTTTGAAATAGATTTATAAAAAAATA
66 CTTTTTGTTTGAAATAGATTTATAAAAAAATA
25580381 AAAAATAAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (98 bp):
GATCCAATGACGGAGGAGACCCCCGACGACACTGCCACGAGGTTCCGGGTAAGTTCTTCTTCTCC
CTTTTTGTTTGAAATAGATTTATAAAAAAATAG
Found at i:25594716 original size:18 final size:18
Alignment explanation
Indices: 25594665--25594716 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
25594655 TTTATTTCAA
25594665 ACTTTCATATATGTGTATTT
1 ACTTTCATATATGTGTA--T
25594685 A-TTT--TATA--TGTAT
1 ACTTTCATATATGTGTAT
25594698 ACTTTCATATATGTGTAT
1 ACTTTCATATATGTGTAT
25594716 A
1 A
25594717 TATGTGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
13 2 0.07
14 3 0.11
15 4 0.15
16 4 0.15
17 4 0.15
18 6 0.22
19 3 0.11
20 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.54
Consensus pattern (18 bp):
ACTTTCATATATGTGTAT
Found at i:25598415 original size:44 final size:44
Alignment explanation
Indices: 25598352--25598559 Score: 215
Period size: 44 Copynumber: 4.7 Consensus size: 44
25598342 ATCACAAAAA
*
25598352 CCTAGCTCCCTGACCAGCAGTAGAATAGGTGGAAGACTGAAAGC
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGC
* ** * * *
25598396 CCTAGTTCCCTGAAAAGCAGTGGAATAGGTGGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGC
** *
25598440 CCTAGCTCCCTGACCAGCAGTGGAATAGGAAGAAGAAAC-CACAAGC
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAG--ACTGA-AAGC
* * * *
25598486 CCTAGTTCCCTGACCAGCAAG-GGAATAGGTGGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGC-AGTGGAATAGGTGGAAGACTGAAAGC
*
25598530 CCTAGCTCCCTGACCAGTAAG-GGAATAGGT
1 CCTAGCTCCCTGACCAG-CAGTGGAATAGGT
25598560 TGTGTTCAAT
Statistics
Matches: 133, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
44 98 0.74
46 33 0.25
47 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (44 bp):
CCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGC
Found at i:25598522 original size:90 final size:88
Alignment explanation
Indices: 25598352--25598546 Score: 286
Period size: 90 Copynumber: 2.2 Consensus size: 88
25598342 ATCACAAAAA
** *
25598352 CCTAGCTCCCTGACCAGCAGTAGAATAGGTGGAAGACTGAAAGCCCTAGTTCCCTGAAAAGCAGT
1 CCTAGCTCCCTGACCAGCAGTAGAATAGGAAGAAGACTCAAAGCCCTAGTTCCCTGAAAAGCAGT
25598417 GGAATAGGTGGAAGATTGCAAGT
66 GGAATAGGTGGAAGATTGCAAGT
* **
25598440 CCTAGCTCCCTGACCAGCAGTGGAATAGGAAGAAGAAAC-CACAAGCCCTAGTTCCCTGACCAGC
1 CCTAGCTCCCTGACCAGCAGTAGAATAGGAAGAAG--ACTCA-AAGCCCTAGTTCCCTGAAAAGC
25598504 AAG-GGAATAGGTGGAAGATTGCAAGT
63 -AGTGGAATAGGTGGAAGATTGCAAGT
25598530 CCTAGCTCCCTGACCAG
1 CCTAGCTCCCTGACCAG
25598547 TAAGGGAATA
Statistics
Matches: 97, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
88 32 0.33
89 1 0.01
90 62 0.64
91 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (88 bp):
CCTAGCTCCCTGACCAGCAGTAGAATAGGAAGAAGACTCAAAGCCCTAGTTCCCTGAAAAGCAGT
GGAATAGGTGGAAGATTGCAAGT
Found at i:25604635 original size:20 final size:19
Alignment explanation
Indices: 25604595--25604635 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25604585 GTTTAGAATG
*
25604595 TTTTTGTTTCAAAAGTGTT
1 TTTTTGTTTCAAAAGTCTT
*
25604614 TTTTTGTTTTAAAAGTACTT
1 TTTTTGTTTCAAAAGT-CTT
25604634 TT
1 TT
25604636 GAGAAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.61
Consensus pattern (19 bp):
TTTTTGTTTCAAAAGTCTT
Found at i:25605595 original size:3 final size:3
Alignment explanation
Indices: 25605589--25605671 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
25605579 TGGTGGTGAT
25605589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25605637 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25605672 TTCAAATATA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25622741 original size:17 final size:17
Alignment explanation
Indices: 25622701--25622743 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25622691 TGTTAGTTCG
*
25622701 GTTTTGTTTGTAATTTA
1 GTTTTTTTTGTAATTTA
* * *
25622718 ATCTTTTTTGTTATTTA
1 GTTTTTTTTGTAATTTA
25622735 GTTTTTTTT
1 GTTTTTTTT
25622744 CATTAAGAAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (17 bp):
GTTTTTTTTGTAATTTA
Found at i:25624813 original size:49 final size:49
Alignment explanation
Indices: 25624754--25624852 Score: 164
Period size: 48 Copynumber: 2.0 Consensus size: 49
25624744 TCCTAGAAAA
25624754 TGTAGAGAAAAAATAGGAACTAAAACAAGAAAATGCA-TTTCTTATTAAT
1 TGTAGAG-AAAAATAGGAACTAAAACAAGAAAATGCATTTTCTTATTAAT
* *
25624803 TGTAGGGAAAAATAGGAATTAAAACAAGAAAATGCATTTTCTTATTAAT
1 TGTAGAGAAAAATAGGAACTAAAACAAGAAAATGCATTTTCTTATTAAT
25624852 T
1 T
25624853 AAAAATGAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 28 0.60
49 19 0.40
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.29
Consensus pattern (49 bp):
TGTAGAGAAAAATAGGAACTAAAACAAGAAAATGCATTTTCTTATTAAT
Found at i:25625497 original size:23 final size:23
Alignment explanation
Indices: 25625471--25625519 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
25625461 TTTTGGTGCA
25625471 GTTTCACTG-TCCTTTTTAATGTT
1 GTTTCACTGCTCC-TTTTAATGTT
*
25625494 GTTTCACTGCTGCTTTTAATGTT
1 GTTTCACTGCTCCTTTTAATGTT
25625517 GTT
1 GTT
25625520 CCGTTGCCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.55
Consensus pattern (23 bp):
GTTTCACTGCTCCTTTTAATGTT
Found at i:25625531 original size:23 final size:23
Alignment explanation
Indices: 25625484--25625542 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
25625474 TCACTGTCCT
* *
25625484 TTTTAATGTTGTTTCACTGCTGC
1 TTTTAATGTTGTTCCACTGCCGC
**
25625507 TTTTAATGTTGTTCCGTTGCCGC
1 TTTTAATGTTGTTCCACTGCCGC
*
25625530 TTTTAATATTGTT
1 TTTTAATGTTGTT
25625543 TGGATATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.14, C:0.15, G:0.17, T:0.54
Consensus pattern (23 bp):
TTTTAATGTTGTTCCACTGCCGC
Found at i:25640228 original size:30 final size:31
Alignment explanation
Indices: 25640192--25640254 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
25640182 AAAATTTTTT
**
25640192 TAAAAAATTTTAAAAAA-AGTATTTTAAAAA
1 TAAAAAAAATTAAAAAACAGTATTTTAAAAA
25640222 TAAAAAAAATTAAAAAACAGTATTTTAAAAA
1 TAAAAAAAATTAAAAAACAGTATTTTAAAAA
25640253 TA
1 TA
25640255 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (31 bp):
TAAAAAAAATTAAAAAACAGTATTTTAAAAA
Found at i:25640238 original size:31 final size:31
Alignment explanation
Indices: 25640193--25640254 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
25640183 AAATTTTTTT
* *
25640193 AAAAAATTTTAAAAAAAGTATTTTAAAAATA
1 AAAAAAATTAAAAAAAAGTATTTTAAAAATA
*
25640224 AAAAAAATTAAAAAACAGTATTTTAAAAATA
1 AAAAAAATTAAAAAAAAGTATTTTAAAAATA
25640255 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (31 bp):
AAAAAAATTAAAAAAAAGTATTTTAAAAATA
Found at i:25640266 original size:43 final size:42
Alignment explanation
Indices: 25640193--25640320 Score: 163
Period size: 42 Copynumber: 3.0 Consensus size: 42
25640183 AAATTTTTTT
*
25640193 AAAA-AATTTTAAAAAAAGTATTTTAAAAATAAAAAA-AATTAAAA
1 AAAATAATTTTAAAAATA-T-TTTTAAAAATAAAAAATAA--AAAA
*
25640237 AACAGT-ATTTTAAAAATATTTTTAAAAATAAAAAATAAAAAA
1 AA-AATAATTTTAAAAATATTTTTAAAAATAAAAAATAAAAAA
*
25640279 AAAATAATTTTTAAAATATTTTTAAAAATAAAAAATAAAAAA
1 AAAATAATTTTAAAAATATTTTTAAAAATAAAAAATAAAAAA
25640321 TATATATTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
41 2 0.03
42 41 0.54
43 16 0.21
44 5 0.07
45 12 0.16
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTTTAAAAATATTTTTAAAAATAAAAAATAAAAAA
Found at i:25640325 original size:28 final size:27
Alignment explanation
Indices: 25640291--25640355 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
25640281 AATAATTTTT
25640291 AAAATAT-T-TTTAAAAATAAAAAATAA
1 AAAATATATATTTAAAAATAAAAAA-AA
*
25640317 AAAATATATATTTATAAATAAAAAAAA
1 AAAATATATATTTAAAAATAAAAAAAA
* *
25640344 AATATATTTATT
1 AAAATATATATT
25640356 ATATTCAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.21
27 13 0.38
28 14 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAATATATATTTAAAAATAAAAAAAA
Found at i:25640348 original size:23 final size:24
Alignment explanation
Indices: 25640306--25640354 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25640296 ATTTTTAAAA
25640306 ATAAAAAATAAAAAATATATATTT
1 ATAAAAAATAAAAAATATATATTT
25640330 ATAAATAAA-AAAAAA-ATATATTT
1 ATAAA-AAATAAAAAATATATATTT
25640353 AT
1 AT
25640355 TATATTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.42
24 11 0.46
25 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAAAAATAAAAAATATATATTT
Found at i:25643330 original size:3 final size:3
Alignment explanation
Indices: 25643322--25643446 Score: 250
Period size: 3 Copynumber: 41.7 Consensus size: 3
25643312 GTTGTGAGTT
25643322 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25643370 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25643418 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25643447 CTTACTCACT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 122 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25645321 original size:125 final size:124
Alignment explanation
Indices: 25645074--25645337 Score: 381
Period size: 125 Copynumber: 2.1 Consensus size: 124
25645064 TTTTTTCGAG
* * ** * *
25645074 TTGACGTTTCTG-GTTAAATAGTGA-GAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTG
1 TTGACGTTTCTGAG-GAAATAGT-ATAAAATCGCTGATACCAGGATGCTATTGAAGAAGAAATTG
*
25645137 TGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTGAGAAATAATTTTTTT
64 TGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTTTT
25645198 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAA-AAGAAATTG
1 TTGACG-TTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTAT-TGAAGAAGAAATTG
* *
25645262 TGAAATCGTGTCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
64 TGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGTAAGAAATAATTTTTTT
25645324 TTGACGTTTCTGAG
1 TTGACGTTTCTGAG
25645338 TGGACGCGAT
Statistics
Matches: 126, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
124 7 0.06
125 85 0.67
126 34 0.27
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATTGAAGAAGAAATTGTG
AAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTTTT
Found at i:25648530 original size:23 final size:23
Alignment explanation
Indices: 25648500--25648619 Score: 116
Period size: 23 Copynumber: 4.7 Consensus size: 23
25648490 TACAATTTAA
25648500 TTAGGGTTTTTAATTAAA-TAGGG
1 TTAGGGTTTTTAATTAAATTA-GG
25648523 TTAGGGTTTTTAATTTAATAAAATTAGG
1 TTAGGGTTTTTAA--T--T-AAATTAGG
*
25648551 TTAGGGTTAGGGTTTTTAATGAAATTAGG
1 TTA--G----GGTTTTTAATTAAATTAGG
25648580 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
25648603 TTAGGGTTTTTAATTAA
1 TTAGGGTTTTTAATTAA
25648620 GTAGGGTTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
23 48 0.58
25 1 0.01
27 2 0.02
28 8 0.10
29 13 0.16
30 1 0.01
32 1 0.01
34 9 0.11
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:25648552 original size:28 final size:28
Alignment explanation
Indices: 25648508--25649752 Score: 942
Period size: 28 Copynumber: 46.5 Consensus size: 28
25648498 AATTAGGGTT
25648508 TTTAATTAAA-TAGGGTTAGGGTTTTTAA
1 TTTAATTAAATTA-GGTTAGGGTTTTTAA
* *
25648536 TTTAATAAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
25648565 TTTAATGAAATTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25648588 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* * * *
25648616 -TTAAGT--A--GGGTTTAGTGTTTTAAA
1 TTTAATTAAATTAGG-TTAGGGTTTTTAA
* *
25648640 TTTAATTAAATAAGGTTAGAGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
25648668 TTTAATTAAATTAGGTTAGGGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT--TTTA----A
25648702 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* * *
25648730 -TTAAGT--A--GGGTTTAGGGTTTTAAA
1 TTTAATTAAATTAGG-TTAGGGTTTTTAA
* *
25648754 TTTAATTAAATAAGGTTAGAGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25648782 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATT-AA--A--TTA-GGTTAGGGTTTTTAA
*
25648816 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25648844 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* ** *
25648872 TTAAATTAGGTTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
25648901 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAATTA-GG-TTAGGGTTTTTAA
*
25648930 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25648958 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25648981 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649004 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649032 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649060 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649088 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25649111 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649134 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649162 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649190 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649218 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25649241 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649264 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649292 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649320 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649348 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25649371 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649394 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649422 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649450 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649478 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25649501 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649524 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649552 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649580 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649608 TTTAATT-AA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
** *
25649631 -TTAAGCAGA--A--TTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25649654 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649682 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25649710 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25649738 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
25649753 GTTTTTAATT
Statistics
Matches: 1008, Mismatches: 132, Indels: 154
0.78 0.10 0.12
Matches are distributed among these distances:
22 24 0.02
23 194 0.19
24 59 0.06
25 18 0.02
26 8 0.01
27 16 0.02
28 571 0.57
29 47 0.05
30 14 0.01
31 6 0.01
32 3 0.00
33 4 0.00
34 44 0.04
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:25648666 original size:23 final size:23
Alignment explanation
Indices: 25648555--25648669 Score: 113
Period size: 23 Copynumber: 4.7 Consensus size: 23
25648545 ATTAGGTTAG
* *
25648555 GGTTAGGGTTTTTAATGAAATTA
1 GGTTAGGGTTTTTAATTAAATAA
*
25648578 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATAA
* *
25648601 GGTTAGGGTTTTTAATTAAGTAG
1 GGTTAGGGTTTTTAATTAAATAA
*
25648624 GGTTTAGTGTTTTAAATTTAATTAAATAA
1 GG-TTAG-G-GTT---TTTAATTAAATAA
*
25648653 GGTTAGAGTTTTTAATT
1 GGTTAGGGTTTTTAATT
25648670 TAATTAAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
23 51 0.66
24 4 0.05
25 1 0.01
26 4 0.05
28 4 0.05
29 13 0.17
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATAA
Found at i:25648707 original size:62 final size:59
Alignment explanation
Indices: 25648640--25648866 Score: 236
Period size: 62 Copynumber: 3.9 Consensus size: 59
25648630 GTGTTTTAAA
*
25648640 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGTTAGGGTT
1 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAAGTAAATTAGGTTAGGGTTAGGTTA---TT
* * * **
25648702 TTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGT--A--GGGTTTAGGGTT---TTAAA
1 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAAGTAAATTAGG-TTAGGGTTAGGTTATT
* *
25648754 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAAGTAAATTAGGTTAGGGTTA-GGTTATT
* **
25648814 AATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
1 --TTTAATTAAATAAGGTTAGAGTTTTTAATTTAAGTAAATTAGGTTAGGGTT
25648867 TTTAATTAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 24
0.77 0.10 0.14
Matches are distributed among these distances:
52 26 0.19
53 5 0.04
55 4 0.03
56 8 0.06
57 4 0.03
58 8 0.06
59 1 0.01
60 2 0.01
61 5 0.04
62 73 0.54
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (59 bp):
TTTAATTAAATAAGGTTAGAGTTTTTAATTTAAGTAAATTAGGTTAGGGTTAGGTTATT
Found at i:25648707 original size:114 final size:114
Alignment explanation
Indices: 25648575--25648853 Score: 474
Period size: 114 Copynumber: 2.4 Consensus size: 114
25648565 TTTAATGAAA
*
25648575 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTTAGTGTTTTAAA
1 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTAAA
25648640 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGG
66 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGG
25648689 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTAAA
1 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTAAA
25648754 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGG
66 TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGG
* *
25648803 TTAGGGTT---TTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGG
1 TTA-GGTTAGGGTT--TTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGTAGG
25648854 TTAGGTTAGG
Statistics
Matches: 158, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
112 2 0.01
114 143 0.91
115 13 0.08
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (114 bp):
TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTAAA
TTTAATTAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGG
Found at i:25648719 original size:23 final size:23
Alignment explanation
Indices: 25648689--25648789 Score: 96
Period size: 23 Copynumber: 4.1 Consensus size: 23
25648679 TAGGTTAGGG
25648689 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
25648712 TTAGGTTAGGGTTTTTAATT-AA
1 TTAGGTTAGGGTTTTTAATTAAA
*
25648734 GTAGGGTTTAGGGTTTTAAATTTAATTAAA
1 TTA-GG-TTAGGG--TT---TTTAATTAAA
* * *
25648764 TAAGGTTAGAGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTTAATTAAA
25648787 TTA
1 TTA
25648790 AATTAGGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
22 4 0.06
23 33 0.52
24 6 0.09
26 4 0.06
28 5 0.08
29 9 0.14
30 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.48
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:25649098 original size:130 final size:130
Alignment explanation
Indices: 25648782--25649784 Score: 1699
Period size: 130 Copynumber: 7.6 Consensus size: 130
25648772 GAGTTTTTAA
25648782 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATT--A-AA--TTAGGGTTTTTAA-TT
* * * * *
25648847 AAGTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTAGGGTTTTTAA-TTAAG
59 AAGCA-G--A-ATTAGGGTTTTTAATTTAATTA----A--ATAAGGTTAGGGTTTTTAATTTAAG
*
25648911 TAGG---GTTTAGGGTT
114 TAGGTTAGGTTAGGGTT
* ** *
25648925 TTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25648990 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
25649055 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25649120 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
25649185 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25649250 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
25649315 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25649380 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
25649445 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25649510 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
25649575 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
25649640 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
66 ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
* *
25649705 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGTAGG
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
* *
25649770 GTTAGGGATTTTAAT
66 ATTAGGGTTTTTAAT
25649785 CAAATAATGT
Statistics
Matches: 838, Mismatches: 18, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
126 17 0.02
127 9 0.01
128 1 0.00
130 731 0.87
132 20 0.02
133 1 0.00
135 1 0.00
136 6 0.01
137 13 0.02
139 2 0.00
140 1 0.00
142 22 0.03
143 14 0.02
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (130 bp):
TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGCAGA
ATTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
Found at i:25649771 original size:17 final size:18
Alignment explanation
Indices: 25649738--25649772 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25649728 GGGTTTTTAA
*
25649738 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
25649756 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
25649773 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:25652084 original size:27 final size:29
Alignment explanation
Indices: 25652053--25652107 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
25652043 TTGAAAATAT
25652053 TAAAAA-TTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTTAAAATTATCTTAAAAAAA
*
25652080 TAAAAATTTTTAAAATTTTCTTAAAAAA
1 TAAAAATTTTTAAAATTATCTTAAAAAA
25652108 TGAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 11 0.44
29 8 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATTTTTAAAATTATCTTAAAAAAA
Found at i:25652199 original size:30 final size:30
Alignment explanation
Indices: 25652163--25652221 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
25652153 TTGAAGGAAA
* *
25652163 TTGAGAGGATTTTGGAAGGAATTTGATAGT
1 TTGAGAGAATTTTGGAAGGAAATTGATAGT
25652193 TTGAGAGAATTTTGGAAGGAAATTGATAG
1 TTGAGAGAATTTTGGAAGGAAATTGATAG
25652222 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGATAGT
Found at i:25652218 original size:22 final size:23
Alignment explanation
Indices: 25652193--25652284 Score: 111
Period size: 22 Copynumber: 4.2 Consensus size: 23
25652183 ATTTGATAGT
25652193 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
25652215 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
25652237 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
25652259 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
25652281 TTGA
1 TTGA
25652285 TATTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.15
22 41 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:25652242 original size:44 final size:44
Alignment explanation
Indices: 25652193--25652284 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
25652183 ATTTGATAGT
* * * *
25652193 TTGAGAG-AATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAA
*
25652237 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
25652281 TTGA
1 TTGA
25652285 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:25654035 original size:17 final size:17
Alignment explanation
Indices: 25654013--25654047 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25654003 ATTGATTTTC
25654013 TTCCCCATTTCCCCTAT
1 TTCCCCATTTCCCCTAT
*
25654030 TTCCCCGTTTCCCCTAT
1 TTCCCCATTTCCCCTAT
25654047 T
1 T
25654048 CTAGAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.46, G:0.03, T:0.43
Consensus pattern (17 bp):
TTCCCCATTTCCCCTAT
Found at i:25654132 original size:22 final size:23
Alignment explanation
Indices: 25654092--25654146 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
25654082 TTTCTCAACC
*
25654092 TCCACCTCCACCTCCGGCACCGA
1 TCCACCTCCACCTCCGGCAACGA
*
25654115 TCCACCTCCA-GTCCGGCAACGA
1 TCCACCTCCACCTCCGGCAACGA
25654137 TCCACCTCCA
1 TCCACCTCCA
25654147 ATCCTCCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.20, C:0.53, G:0.13, T:0.15
Consensus pattern (23 bp):
TCCACCTCCACCTCCGGCAACGA
Found at i:25657054 original size:38 final size:38
Alignment explanation
Indices: 25657011--25657089 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
25657001 TTGCATATGG
25657011 ATTAATTATTTGATTTAATTAACTTTTATAAAAATATT
1 ATTAATTATTTGATTTAATTAACTTTTATAAAAATATT
*
25657049 ATTAATTATTTGATTTAATTGACTTTTATAAAAATATT
1 ATTAATTATTTGATTTAATTAACTTTTATAAAAATATT
25657087 ATT
1 ATT
25657090 TGGTTGATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (38 bp):
ATTAATTATTTGATTTAATTAACTTTTATAAAAATATT
Found at i:25657097 original size:35 final size:37
Alignment explanation
Indices: 25657015--25657101 Score: 115
Period size: 38 Copynumber: 2.4 Consensus size: 37
25657005 ATATGGATTA
*
25657015 ATTATTTGATTTAATTAACTTTTATAAAAATATTATT
1 ATTAGTTGATTTAATTAACTTTTATAAAAATATTATT
* *
25657052 AATTATTTGATTTAATTGACTTTTATAAAAATATTA-T
1 -ATTAGTTGATTTAATTAACTTTTATAAAAATATTATT
*
25657089 -TTGGTTGATTTAA
1 ATTAGTTGATTTAA
25657102 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 11 0.24
37 1 0.02
38 34 0.74
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (37 bp):
ATTAGTTGATTTAATTAACTTTTATAAAAATATTATT
Found at i:25660054 original size:12 final size:12
Alignment explanation
Indices: 25660037--25660066 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
25660027 TTAATAAAAT
25660037 GACAATAATAAA
1 GACAATAATAAA
25660049 GACAATAATAAA
1 GACAATAATAAA
25660061 GACAAT
1 GACAAT
25660067 TTTCGAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (12 bp):
GACAATAATAAA
Found at i:25660606 original size:114 final size:114
Alignment explanation
Indices: 25660417--25660704 Score: 404
Period size: 114 Copynumber: 2.5 Consensus size: 114
25660407 AAAGCGTTGC
*
25660417 AAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGGATTTAGTGGCGTTTTTAAGGA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG-GGGATTTAGTGGCGTTTTTAAGGA
*
25660482 AGCGCTGCTAATG-CTCAGGGCTTTAGTAG-C-ATTTTTGTGAAAGCGCCACA
65 AGCGCCGCTAATGCCT-AGGGCTTTAG-AGACAATTTTT-TGAAAGCGCCACA
* * * * *
25660532 AAAAAACCTAAGCCCAATGGCGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGGAA
*
25660597 GCGCCGCTAATGCCTAGGGCTTTAGCGACAATTTTTTGAAAGCGCCACA
66 GCGCCGCTAATGCCTAGGGCTTTAGAGACAATTTTTTGAAAGCGCCACA
* * *
25660646 AAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTAT-GGGGATTCAGTGGCGTTTTT
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT-TCGGGGATTTAGTGGCGTTTTT
25660705 GATAAAGCGC
Statistics
Matches: 154, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
113 1 0.01
114 108 0.70
115 45 0.29
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGGAA
GCGCCGCTAATGCCTAGGGCTTTAGAGACAATTTTTTGAAAGCGCCACA
Found at i:25660765 original size:186 final size:186
Alignment explanation
Indices: 25660513--25660877 Score: 549
Period size: 186 Copynumber: 2.0 Consensus size: 186
25660503 TTTAGTAGCA
* * * *
25660513 TTTTTGTGAAAGCGCCACAAAAAAACCTAAGCCCAATGGCGTCGTTTTCTGAGCTTTCGGGGATT
1 TTTTTGTGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATT
* * *
25660578 TAGCGGCGTTTTTAGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGACAATTTTTTG-AAAGCGC
66 TACCAGCGTTTTTAGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGAC--GTTTTTGCAAAGCGC
*
25660642 CACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTAT-GGGGATTCAGTGGCG
129 CACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTT-TCGGGGATTCAGTGGCG
* *
25660700 TTTTTGAT-AAAGCGCCAC-AAAAAACCTAATCCCAACGACGCCGTTTTCTTAGCTTTCGAGGAT
1 TTTTTG-TGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGAT
* *
25660763 TTACCAGCGTTTTTAGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGGCGTTTTTGCTAAAGTGC
65 TTACCAGCGTTTTTAGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGTTTTTGC-AAAGCGC
25660828 CACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATT
129 CACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATT
25660878 TAGCAGTGTT
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
184 6 0.04
185 1 0.01
186 138 0.85
187 16 0.10
188 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (186 bp):
TTTTTGTGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATT
TACCAGCGTTTTTAGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGTTTTTGCAAAGCGCCA
CAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTCAGTGGCG
Found at i:25660773 original size:72 final size:73
Alignment explanation
Indices: 25660635--25660776 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 73
25660625 CAATTTTTTG
* ***
25660635 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTATGGGGATTCAGTGGCG
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTATGAGGATTCACCAGCG
25660700 TTTTTGAT
66 TTTTTGAT
* * *
25660708 AAAGCGCCAC-AAAAAACCTAATCCCAACGACGCCGTTTTCTTAGCTT-TCGAGGATTTACCAGC
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTAT-GAGGATTCACCAGC
25660771 GTTTTT
65 GTTTTT
25660777 AGGGAAGCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 1 0.02
72 50 0.82
73 10 0.16
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (73 bp):
AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTATGAGGATTCACCAGCG
TTTTTGAT
Found at i:25660899 original size:114 final size:114
Alignment explanation
Indices: 25660696--25661250 Score: 792
Period size: 114 Copynumber: 4.9 Consensus size: 114
25660686 GGGATTCAGT
* * *
25660696 GGCGTTTTTGATAAAGCGCCAC-AAAAAACCTAATCCCAACGACGCCGTTTTCTTAGCTTTCGAG
1 GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
* ***
25660760 GATTTACCAGCGTTTTTAGGGAAGCGCCGCTAATGC-CTAGGGCTTTAGC
66 GATTTAGCAGCGTTTTTAATTAAGCGCCGCTAATGCTC-AGGGCTTTAGC
* * *
25660809 GGCGTTTTTGCTAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGG
1 GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
* *
25660874 GATTTAGCAGTGTTTTTAATTAAGCGCCGCTAACGCTCAGGGCTTTAGC
66 GATTTAGCAGCGTTTTTAATTAAGCGCCGCTAATGCTCAGGGCTTTAGC
* *
25660923 TGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGG
1 GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
* *
25660988 GATTTAGCAGTGTTTTTAATTAAGCGCCGCTAACGCTCAGGGCTTTAGC
66 GATTTAGCAGCGTTTTTAATTAAGCGCCGCTAATGCTCAGGGCTTTAGC
*
25661037 TGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
1 GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
* * * **
25661102 GATTTAGCGGCGTTTTT-ATGTAAGCACAGCTAATGCTCAGGTTTTTAGC
66 GATTTAGCAGCGTTTTTAAT-TAAGCGCCGCTAATGCTCAGGGCTTTAGC
** * * * *
25661151 GGCGTTTTTGGGAAAGCGCCGCAAAGAAACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGTG
1 GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
** *
25661216 GATTTAGTGGCGTTTTTAATAAAGCGCCGCTAATG
66 GATTTAGCAGCGTTTTTAATTAAGCGCCGCTAATG
25661251 TTTAGTGGCG
Statistics
Matches: 404, Mismatches: 34, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
113 22 0.05
114 379 0.94
115 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (114 bp):
GGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGG
GATTTAGCAGCGTTTTTAATTAAGCGCCGCTAATGCTCAGGGCTTTAGC
Found at i:25660941 original size:300 final size:301
Alignment explanation
Indices: 25660416--25660991 Score: 817
Period size: 300 Copynumber: 1.9 Consensus size: 301
25660406 GAAAGCGTTG
* ***
25660416 CAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGGATTTAGTGGCGTTTTTAAGG
1 CAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGGATTTACCAGCGTTTTTAAGG
* *
25660481 AAGCGCTGCTAATGCTCAGGGCTTTAGTAGCATTTTTGTGAAAGCGCCACAAAAAAACCTAAGCC
66 AAGCGCCGCTAATGCTCAGGGCTTTAGCAGCATTTTTGTGAAAGCGCCACAAAAAAACCTAAGCC
* * * * * * *
25660546 CAATGGCGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGGAAGCGCCGCTAATGCC
131 CAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTTTTTAAGGAAGCGCCGCTAACGCC
25660611 TAGGGCTTTAGCGACAATTTTTTGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTC
196 TAGGGCTTTAGCGACAATTTTTTGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTC
*
25660676 TTAGCTTAT-GGGGATTCAGTGGCGTTTTTGATAAAGCGCCA
261 TGAGCTT-TCGGGGATTCAGTGGCGTTTTTGATAAAGCGCCA
* * *
25660717 CAAAAAACCTAATCCCAACGACGCCGTTTTCTTAGCTTTCGA-GGATTTACCAGCGTTTTTAGGG
1 CAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGGATTTACCAGCGTTTTTAAGG
* * *
25660781 AAGCGCCGCTAATGC-CTAGGGCTTTAGCGGCGTTTTTGCT-AAAGTGCCACAAAAAAACCTAAG
66 AAGCGCCGCTAATGCTC-AGGGCTTTAGCAGCATTTTTG-TGAAAGCGCCACAAAAAAACCTAAG
* **
25660844 CCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGTGTTTTTAATTAAGCGCCGCTAACG
129 CCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTTTTTAAGGAAGCGCCGCTAACG
*
25660909 -CTCAGGGCTTTAGCTG-C--GTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCC
194 CCT-AGGGCTTTAGC-GACAATTTTTTG--AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCC
25660970 ATTTTCTGAGCTTTCGGGGATT
255 ATTTTCTGAGCTTTCGGGGATT
25660992 TAGCAGTGTT
Statistics
Matches: 244, Mismatches: 24, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
298 6 0.02
299 4 0.02
300 193 0.79
301 41 0.17
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (301 bp):
CAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGGATTTACCAGCGTTTTTAAGG
AAGCGCCGCTAATGCTCAGGGCTTTAGCAGCATTTTTGTGAAAGCGCCACAAAAAAACCTAAGCC
CAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTTTTTAAGGAAGCGCCGCTAACGCC
TAGGGCTTTAGCGACAATTTTTTGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTC
TGAGCTTTCGGGGATTCAGTGGCGTTTTTGATAAAGCGCCA
Found at i:25661917 original size:14 final size:14
Alignment explanation
Indices: 25661898--25661951 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
25661888 TTAATGTGAT
* *
25661898 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
25661912 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* **
25661926 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
*
25661940 TTAAGAGTTAGG
1 TTAAGGGTTAGG
25661952 AATTTAAGAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:25662518 original size:24 final size:24
Alignment explanation
Indices: 25662491--25662571 Score: 108
Period size: 24 Copynumber: 3.2 Consensus size: 24
25662481 AATAAACAAA
25662491 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
*
25662515 TAAATTAATTTTTAGGTAATTAATTATT
1 TAAA-TAA---ATAGGTAATTAATTATT
*
25662543 TAAATAGATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
25662567 TAAAT
1 TAAAT
25662572 GAATGATACA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 25 0.50
25 3 0.06
27 2 0.04
28 20 0.40
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:25662519 original size:28 final size:28
Alignment explanation
Indices: 25662488--25662571 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
25662478 ATAAATAAAC
25662488 AAATAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
* ***
25662516 AAATTAATTTTTAGGTAATTAATTA-TT
1 AAATAAATAAATAGGTAATTAATTATTT
*
25662543 ---TAAATAGATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
25662568 AAAT
1 AAAT
25662572 GAATGATACA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
24 18 0.41
25 2 0.05
27 2 0.05
28 22 0.50
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
AAATAAATAAATAGGTAATTAATTATTT
Found at i:25662522 original size:13 final size:13
Alignment explanation
Indices: 25662504--25662547 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
25662494 ATAAATAGGT
25662504 AATTAATTATTTA
1 AATTAATTATTTA
25662517 AATTAATT-TTTA
1 AATTAATTATTTA
25662529 GGTAATTAATTATTTA
1 ---AATTAATTATTTA
25662545 AAT
1 AAT
25662548 AGATAGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
15 8 0.30
16 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (13 bp):
AATTAATTATTTA
Found at i:25663288 original size:365 final size:365
Alignment explanation
Indices: 25662618--25663330 Score: 1196
Period size: 365 Copynumber: 2.0 Consensus size: 365
25662608 ATTTAGCGGC
25662618 GTTTTGATAAAAAATGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGACTTAGGG
1 GTTTTGATAAAAAATGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGACTTAGGG
* * * *
25662683 AATAAGTTTTAGTTGTCGCGTTTTTTTGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAAC
66 AATAAATTTTAGTTGTCGCGTTTTTTCGAAAAGCGCCATAAATAATATTTAAACTTTGCAAAAAC
* *
25662748 GGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTATAAACGCCGCAATGATGT
131 GGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGATGT
* * * * *
25662813 ATAAAATTTTCTGAAAACGGCGTCGGTTCGATAATATATTAATTGTGGCGTTTTTGGGAAAATGC
196 ATAAAATTTTCTGAAAACGACGCCGGTTAGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
*
25662878 CAGAATGTTGCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
261 CAGAATGTTGCCTTATATTTTTATAAAACGACGCCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
25662943 GTTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGT
326 GTTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGT
* *
25662983 GTTTTGATAAAAAATGCCACAAATATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAGGG
1 GTTTTGATAAAAAATGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGACTTAGGG
* * *
25663048 AATAAATTTTAGTTGTGGC-TTTTTTCCGAAAAGTGCCATAAATAATATTTGAACTTTGCAAAAA
66 AATAAATTTTAGTTGTCGCGTTTTTT-CGAAAAGCGCCATAAATAATATTTAAACTTTGCAAAAA
* *
25663112 CGGCGCCGTTTCAGTTGAAGGATGGAATCTTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGATG
130 CGGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGATG
*
25663177 TATAAAATTTAT-TGAAAACGACGCCGGTTAGATAATATATTAATTGTGGTGTGTTTGGGAAAAC
195 TATAAAATTT-TCTGAAAACGACGCCGGTTAGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
*
25663241 GCCAGAATGTTTCCTTATATTTTTATAAAACGACGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
259 GCCAGAATGTTGCCTTATATTTTTATAAAACGACGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
*
25663306 GTGTTTTTAATTAAAACGCCGCAAA
324 GCGTTTTTAATTAAAACGCCGCAAA
25663331 TGTCGATGTA
Statistics
Matches: 324, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
364 6 0.02
365 317 0.98
366 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (365 bp):
GTTTTGATAAAAAATGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGACTTAGGG
AATAAATTTTAGTTGTCGCGTTTTTTCGAAAAGCGCCATAAATAATATTTAAACTTTGCAAAAAC
GGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGATGT
ATAAAATTTTCTGAAAACGACGCCGGTTAGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
CAGAATGTTGCCTTATATTTTTATAAAACGACGCCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
GTTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGT
Found at i:25665160 original size:40 final size:40
Alignment explanation
Indices: 25665114--25665196 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
25665104 TATATTTTTA
*
25665114 AAAATTGATACATTACATAACTTGCATATCC-TACATACAT
1 AAAATTGATACATTACATAACTTGCATAGCCAT-CATACAT
*
25665154 AAAATTGATACATTACATAACTTGCGTAGCCATCATACAT
1 AAAATTGATACATTACATAACTTGCATAGCCATCATACAT
25665194 AAA
1 AAA
25665197 CTTACATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (40 bp):
AAAATTGATACATTACATAACTTGCATAGCCATCATACAT
Found at i:25665260 original size:30 final size:30
Alignment explanation
Indices: 25665226--25665414 Score: 243
Period size: 30 Copynumber: 6.1 Consensus size: 30
25665216 ATTAAGATAA
25665226 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
* * *
25665256 AATTTCTACTAACATAACTTAGATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
25665286 AATTTCTCATTACATAACTTATATAATATTAAGAT
1 AATTTCTAATTACATAACTTATATAATA-T----T
25665321 AAAATTTCTAATTACATAACTTATATAATATT
1 --AATTTCTAATTACATAACTTATATAATATT
* * *
25665353 AATTTCTACTAACATAACTTAGATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
25665383 AATTTCTCATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
25665413 AA
1 AA
25665415 GATAAAATTT
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
30 106 0.77
31 1 0.01
32 1 0.01
35 1 0.01
36 1 0.01
37 27 0.20
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (30 bp):
AATTTCTAATTACATAACTTATATAATATT
Found at i:25665282 original size:67 final size:66
Alignment explanation
Indices: 25665196--25665431 Score: 228
Period size: 67 Copynumber: 3.6 Consensus size: 66
25665186 TCATACATAA
25665196 ACTTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTT
1 ACTTACATAACTTATATAATATTAAGAT-AAATTTCTAATTACATAACTTATATAATATTAATTT
25665261 CT
65 CT
* * *
25665263 ACTAACATAACTTAGATAATA-T----T-AATTTCTCATTACATAACTTATATAATATTAAGATA
1 ACTTACATAACTTATATAATATTAAGATAAATTTCTAATTACATAACTTATATAATA-T----T-
25665322 AAATTTCT
60 -AATTTCT
* * * *
25665330 AATTACATAACTTATATAATA-T----T-AATTTCTACTAACATAACTTAGATAATATTAATTTC
1 ACTTACATAACTTATATAATATTAAGATAAATTTCTAATTACATAACTTATATAATATTAATTTC
25665389 T
66 T
25665390 -CATTACATAACTTATATAATATTAAGATAAAATTTCTAATTA
1 AC-TTACATAACTTATATAATATTAAGAT-AAATTTCTAATTA
25665432 TACATCAATT
Statistics
Matches: 141, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
60 53 0.38
61 2 0.01
62 2 0.01
65 2 0.01
66 2 0.01
67 80 0.57
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (66 bp):
ACTTACATAACTTATATAATATTAAGATAAATTTCTAATTACATAACTTATATAATATTAATTTC
T
Found at i:25665315 original size:97 final size:97
Alignment explanation
Indices: 25665198--25665431 Score: 468
Period size: 97 Copynumber: 2.4 Consensus size: 97
25665188 ATACATAAAC
25665198 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCT
1 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCT
25665263 ACTAACATAACTTAGATAATATTAATTTCTCA
66 ACTAACATAACTTAGATAATATTAATTTCTCA
25665295 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCT
1 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCT
25665360 ACTAACATAACTTAGATAATATTAATTTCTCA
66 ACTAACATAACTTAGATAATATTAATTTCTCA
25665392 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTA
1 TTACATAACTTATATAATATTAAGATAAAATTTCTAATTA
25665432 TACATCAATT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 137 1.00
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (97 bp):
TTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCT
ACTAACATAACTTAGATAATATTAATTTCTCA
Found at i:25665572 original size:9 final size:9
Alignment explanation
Indices: 25665487--25665583 Score: 56
Period size: 9 Copynumber: 10.3 Consensus size: 9
25665477 AATTTCATAA
25665487 TACATAACT
1 TACATAACT
*
25665496 TAAATAACT
1 TACATAACT
25665505 TACATATA-T
1 TACATA-ACT
*
25665514 AATACAGAACTTAT
1 --TACATAAC---T
25665528 TACATAACT
1 TACATAACT
*
25665537 TAAAATAACT
1 T-ACATAACT
25665547 TACATAA--
1 TACATAACT
*
25665554 TACATTACT
1 TACATAACT
*
25665563 TTCATAACT
1 TACATAACT
*
25665572 TACATAATT
1 TACATAACT
25665581 TAC
1 TAC
25665584 CTAATACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
7 6 0.09
9 38 0.57
10 10 0.15
11 5 0.07
12 7 0.10
14 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:25668064 original size:42 final size:41
Alignment explanation
Indices: 25667859--25668145 Score: 313
Period size: 42 Copynumber: 6.9 Consensus size: 41
25667849 TTTGTCAAGA
* * * **
25667859 AAGCGCTGCTAAAGAACATGAGCTTTAGCAGCGTTTCTTGGT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTTT
* * ** ** * * **
25667901 ATGCGCCGCTATAGGTCATGTTCTTTAGTGGCATTTGTTGTAA
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TT-TTT
* *
25667944 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
* * *
25667985 AAGTGCCGCTAAAGAACGTGACCTTTAGCGGCGTTTTTTTG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
* *
25668026 AAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTT-T
* *
25668068 AAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTATTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTTTTT
25668110 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
25668146 ATTTCTGTAA
Statistics
Matches: 207, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
41 77 0.37
42 95 0.46
43 35 0.17
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
Found at i:25668132 original size:125 final size:126
Alignment explanation
Indices: 25667859--25668145 Score: 364
Period size: 125 Copynumber: 2.3 Consensus size: 126
25667849 TTTGTCAAGA
* * * * * * ** *
25667859 AAGCGCTGCTAAAGAACATGAGCTTTAGCAGCGTTTCTTGGTATGCGCCGCTATAGGTCATGTTC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTTGGTAAGCGCCACTAAAGAACATGATC
*
25667924 TTTAGTGGCATTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTG
66 TTTAGCGGCATTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTG
* * * *
25667985 AAGTGCCGCTAAAGAACGTGACCTTTAGCGGCGTTTTTTTG-AAGCGCCACTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTTGGTAAGCGCCACTAAAGAACATGATC
* * * * *
25668049 TTTAGCGGCGTTT-TTTTATAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTATTTTTTT-
66 TTTAGCGGCATTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGC--ATTTTTTTG
25668110 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
25668146 ATTTCTGTAA
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
124 34 0.25
125 62 0.45
126 42 0.30
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCTTGGTAAGCGCCACTAAAGAACATGATC
TTTAGCGGCATTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTG
Found at i:25668336 original size:3 final size:3
Alignment explanation
Indices: 25668328--25668422 Score: 190
Period size: 3 Copynumber: 31.7 Consensus size: 3
25668318 TAAATAAATG
25668328 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25668376 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25668423 GGTAAGAAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25675590 original size:45 final size:46
Alignment explanation
Indices: 25675518--25675624 Score: 150
Period size: 46 Copynumber: 2.4 Consensus size: 46
25675508 TACGTATGAT
*
25675518 CACTTATCACTTGT-T-A-TTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTT-TATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
25675561 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
25675607 CGCTTATCACTTTATCAC
1 CACTTATCACTTTATCAC
25675625 CACTTATCAC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
42 1 0.02
43 13 0.23
44 1 0.02
45 20 0.35
46 22 0.39
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:25675658 original size:62 final size:64
Alignment explanation
Indices: 25675559--25675686 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 64
25675549 TAGCTAGGCT
* *
25675559 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTGCCGCTTATCACTTTATC
1 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
*
25675623 ACCACTTATCACTTGT-T-A-TTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTT-TATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
25675685 AC
1 AC
25675687 TTGATCAGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
62 43 0.72
63 1 0.02
64 15 0.25
65 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (64 bp):
ACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
Found at i:25675700 original size:46 final size:45
Alignment explanation
Indices: 25675623--25675740 Score: 186
Period size: 45 Copynumber: 2.6 Consensus size: 45
25675613 TCACTTTATC
*
25675623 ACCACTTATCAC-TTGTTA-TTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA-CT
25675667 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACT
* *
25675712 ATCACTTATCATTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
25675741 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
44 12 0.17
45 34 0.49
46 23 0.33
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (45 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACT
Found at i:25675720 original size:107 final size:107
Alignment explanation
Indices: 25675518--25675731 Score: 349
Period size: 107 Copynumber: 2.0 Consensus size: 107
25675508 TACGTATGAT
*
25675518 CACTTATCACTTGTTATTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTATCACTTGA
1 CACTTATCACTTGTTATTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTTGA
* *
25675583 TCAGATAAGTGTAGCTAAAGCTGCCGCTTATCACTTTATCAC
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
*
25675625 CACTTATCACTTGTTATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTGTTATTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACTTG
* * *
25675690 ATCAGATAAGTGTAGCTAAA-CTATCACTTATCATTTTGTCAC
65 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
25675732 TTGATCAGAA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 53 0.54
108 46 0.46
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (107 bp):
CACTTATCACTTGTTATTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTTGA
TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
Found at i:25676742 original size:15 final size:16
Alignment explanation
Indices: 25676713--25676743 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25676703 TATATTATAT
25676713 TAAAAAAATACATTTA
1 TAAAAAAATACATTTA
25676729 TAAAAAAATA-ATTTA
1 TAAAAAAATACATTTA
25676744 AAGATCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAAAATACATTTA
Found at i:25682608 original size:3 final size:3
Alignment explanation
Indices: 25682600--25682626 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25682590 TAAGAAGGTT
25682600 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
25682627 ACAGTGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25683201 original size:27 final size:27
Alignment explanation
Indices: 25683150--25683201 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
25683140 CACTTTAAAT
* * *
25683150 TTTTTTAAAAATATTATTTTGTTTTAC
1 TTTTTAAAAAATATTATCTTATTTTAC
*
25683177 TTTTTAAAAAATGTTATCTTATTTT
1 TTTTTAAAAAATATTATCTTATTTT
25683202 TGTTTAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTTAAAAAATATTATCTTATTTTAC
Done.