Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 53 of 106
Found at i:9276562 original size:19 final size:19
Alignment explanation
Indices: 9276507--9276563 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
9276497 CAAGAAGAAT
9276507 GAAATGAATAAAAAATACATA
1 GAAAT-AATAAAAAA-ACATA
9276528 -AAATAA-AAACACAAACATA
1 GAAATAATAAA-A-AAACATA
9276547 GAAATAATAAAAAAACA
1 GAAATAATAAAAAAACA
9276564 ATAATTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 13 0.41
21 3 0.09
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (19 bp):
GAAATAATAAAAAAACATA
Found at i:9276834 original size:31 final size:29
Alignment explanation
Indices: 9276803--9276858 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 29
9276793 TTTTAAATAT
*
9276803 AAATATAAAATTAAATAT---A-TAAAAA
1 AAATATATAATTAAATATAAAATTAAAAA
9276828 AAATATATAATTAAATATAAAATTAAAAA
1 AAATATATAATTAAATATAAAATTAAAAA
9276857 AA
1 AA
9276859 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 17 0.65
28 1 0.04
29 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (29 bp):
AAATATATAATTAAATATAAAATTAAAAA
Found at i:9276851 original size:12 final size:12
Alignment explanation
Indices: 9276797--9276854 Score: 71
Period size: 12 Copynumber: 4.7 Consensus size: 12
9276787 ATATTATTTT
9276797 AAATATAAATATA
1 AAAT-TAAATATA
9276810 AAATTAAATATA
1 AAATTAAATATA
**
9276822 TAAAAAAAATATA
1 -AAATTAAATATA
*
9276835 TAATTAAATATA
1 AAATTAAATATA
9276847 AAATTAAA
1 AAATTAAA
9276855 AAAATAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
12 24 0.63
13 14 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:9278046 original size:13 final size:13
Alignment explanation
Indices: 9278017--9278057 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
9278007 TAACAAAAAT
9278017 AAATAATAAAAG-
1 AAATAATAAAAGA
*
9278029 -GATAATAAAAGA
1 AAATAATAAAAGA
9278041 AAATAATAAAATGA
1 AAATAATAAAA-GA
9278055 AAA
1 AAA
9278058 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AAATAATAAAAGA
Found at i:9278062 original size:24 final size:23
Alignment explanation
Indices: 9278011--9278066 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
9278001 GAGTTTTAAC
* *
9278011 AAAAATAAATAATAAAAGGATAAT
1 AAAAAAAAATAATAAAAGGA-AAA
* *
9278035 AAAAGAAAATAATAAAATGAAAA
1 AAAAAAAAATAATAAAAGGAAAA
9278058 AAAAAAAAA
1 AAAAAAAAA
9278067 CCACTATTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAAAAAAATAATAAAAGGAAAA
Found at i:9283141 original size:487 final size:487
Alignment explanation
Indices: 9282228--9283194 Score: 1882
Period size: 487 Copynumber: 2.0 Consensus size: 487
9282218 ATGGACAATT
9282228 TTTATCAATCACCATATGCTATGTATTAATTATATTTATTCATACTTATTTCTCTTTAAATTGAT
1 TTTATCAATCACCATATGCTATGTATTAATTATATTTATTCATACTTATTTCTCTTTAAATTGAT
9282293 ATAAATTCGTTTGATTTCAACAAAATTTTTAAATATTTCAATACATTAATTATAATTATTTTCTT
66 ATAAATTCGTTTGATTTCAACAAAATTTTTAAATATTTCAATACATTAATTATAATTATTTTCTT
*
9282358 TTAAATTTTTAATTGAATTTTTTTAGGGCAAATTTTTTTTAATTGACTTACCTTATATATAAGAT
131 TTAAATTTTTAATTGAATTTTTTTAGGGCAAAGTTTTTTTAATTGACTTACCTTATATATAAGAT
9282423 AACATATCCAAAATTATAGATCAAATCTAAATTAATGATGCATTATAATAAAAAAAATTTCTTAA
196 AACATATCCAAAATTATAGATCAAATCTAAATTAATGATGCATTATAATAAAAAAAATTTCTTAA
*
9282488 TGATTCAAAGAGTTAATAAATATTATGATTATGGTCATTAAATATTTTTTTAATGATTTAAATAA
261 TGATTCAAAGAGTTAATAAATATTATGATTATGGTCATTAAATATTTTTTTAATGATTTAAAGAA
9282553 TTTTGATTGAAATCTATCAGAAATATTATAAAAATATTAATAACTATTGTAATTATGGTCAAGAG
326 TTTTGATTGAAATCTATCAGAAATATTATAAAAATATTAATAACTATTGTAATTATGGTCAAGAG
9282618 TTGACTCTTTAATCAATTATTTAACATTCATATTTGATTAAATATTATATTCAATTGAGTAATAG
391 TTGACTCTTTAATCAATTATTTAACATTCATATTTGATTAAATATTATATTCAATTGAGTAATAG
9282683 ATGTTATTCATGTATATGTGTGTGTGTACATA
456 ATGTTATTCATGTATATGTGTGTGTGTACATA
9282715 TTTATCAATCACCATATGCTATGTATTAATTATATTTATTCATACTTATTTCTCTTTAAATTGAT
1 TTTATCAATCACCATATGCTATGTATTAATTATATTTATTCATACTTATTTCTCTTTAAATTGAT
9282780 ATAAATTCGTTTGATTTCAACAAAATTTTTAAATATTTCAATACATTAATTATAATTATTTTCTT
66 ATAAATTCGTTTGATTTCAACAAAATTTTTAAATATTTCAATACATTAATTATAATTATTTTCTT
9282845 TTAAATTTTTAATTGAATTTTTTTAGGGCAAAGTTTTTTTAATTGACTTACCTTATATATAAGAT
131 TTAAATTTTTAATTGAATTTTTTTAGGGCAAAGTTTTTTTAATTGACTTACCTTATATATAAGAT
9282910 AACATATCCAAAATTATAGATCAAATCTAAATTAATGATGCATTATAAT-AAAAAAATTTCTTAA
196 AACATATCCAAAATTATAGATCAAATCTAAATTAATGATGCATTATAATAAAAAAAATTTCTTAA
* *
9282974 TGATTCAAAGGGTTAATAAATATTATTATTATGGTCATTAAATATTTTTTTAATGATTTAAAGAA
261 TGATTCAAAGAGTTAATAAATATTATGATTATGGTCATTAAATATTTTTTTAATGATTTAAAGAA
9283039 TTTTGATTGAAATCTAATCAGAAATATTATAAAAATATTAATAACTATTGTAATTATGGTCAAGA
326 TTTTGATTGAAATCT-ATCAGAAATATTATAAAAATATTAATAACTATTGTAATTATGGTCAAGA
9283104 GTTGACTCTTTAATCAATTATTTAACATTCATATTTGATTAAATATTATATTCAATTGAGTAATA
390 GTTGACTCTTTAATCAATTATTTAACATTCATATTTGATTAAATATTATATTCAATTGAGTAATA
9283169 GATGTTATTCATGTATATGTGTGTGT
455 GATGTTATTCATGTATATGTGTGTGT
9283195 ATATATTTAT
Statistics
Matches: 475, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
486 92 0.19
487 383 0.81
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (487 bp):
TTTATCAATCACCATATGCTATGTATTAATTATATTTATTCATACTTATTTCTCTTTAAATTGAT
ATAAATTCGTTTGATTTCAACAAAATTTTTAAATATTTCAATACATTAATTATAATTATTTTCTT
TTAAATTTTTAATTGAATTTTTTTAGGGCAAAGTTTTTTTAATTGACTTACCTTATATATAAGAT
AACATATCCAAAATTATAGATCAAATCTAAATTAATGATGCATTATAATAAAAAAAATTTCTTAA
TGATTCAAAGAGTTAATAAATATTATGATTATGGTCATTAAATATTTTTTTAATGATTTAAAGAA
TTTTGATTGAAATCTATCAGAAATATTATAAAAATATTAATAACTATTGTAATTATGGTCAAGAG
TTGACTCTTTAATCAATTATTTAACATTCATATTTGATTAAATATTATATTCAATTGAGTAATAG
ATGTTATTCATGTATATGTGTGTGTGTACATA
Found at i:9286437 original size:63 final size:63
Alignment explanation
Indices: 9286362--9286514 Score: 184
Period size: 63 Copynumber: 2.4 Consensus size: 63
9286352 TTACAAAAAT
* * * *
9286362 TGAATAGGATTATTGAATGCGTTTTTGACCAAAAACACATTCTATAATTCATTCAAAAAATT-
1 TGAAAAGGATTATTGAAAGCGTTTTTGACCAAAAACACATTCAATAATCCATTCAAAAAATTG
* * * * *
9286424 TTAGAAGGGATTATT-AAAGGCGTTTTTGTCCAAAAACACATTCAATAATCCCTTCAATAAATTG
1 TGA-AAAGGATTATTGAAA-GCGTTTTTGACCAAAAACACATTCAATAATCCATTCAAAAAATTG
*
9286488 TGAAAAAGATTATTGAAAGCGTTTTTG
1 TGAAAAGGATTATTGAAAGCGTTTTTG
9286515 GTGAAACGCA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
62 4 0.05
63 66 0.88
64 5 0.07
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (63 bp):
TGAAAAGGATTATTGAAAGCGTTTTTGACCAAAAACACATTCAATAATCCATTCAAAAAATTG
Found at i:9287213 original size:206 final size:203
Alignment explanation
Indices: 9286845--9287247 Score: 551
Period size: 206 Copynumber: 2.0 Consensus size: 203
9286835 ACACCCTGAG
* * * *
9286845 TAATTCACAAATTATTTAAGGCATTTTTAGCTAGAAACGCTTTCAATAACTCTATTTAATATTTT
1 TAATCCACAAATTATTTAAGGCATTTTTAGCTAGAAACACTTTCAATAACCCTATTCAATATTTT
* * * *
9286910 GTAAGAAATTATTTAAGTTATTTTCTAGCTAAAAACGTATTTAATAATCTCATCATAAAAATTAA
66 GTAAGAAATTATTTAAGGTATTTTCTAGCTAAAAACGCATTCAATAATCCCATCATAAAAATTAA
* *
9286975 AAGAGACTATTCAAGGCATTTTTCTAGGCAAAAATGCCTTGAATATTCCAAAAAAAATGATGGGA
131 AAGAGACTATTCAAGGCATTTGTCTAGGC-AAAATGCCTTGAATA-T-AAAAAAAAATGATGGGA
9287040 TTATTGAAAAA
193 TTATTGAAAAA
* **
9287051 TAATCCACGAATTATTTAAGGTGTTTTTAGCTAGAAACACTTTCAATAACCCTATTCAATATTTT
1 TAATCCACAAATTATTTAAGGCATTTTTAGCTAGAAACACTTTCAATAACCCTATTCAATATTTT
* * *
9287116 GTAAGAGATTATTTAAGGTATTTTTTGGCTAAAAAC-CACCTTCAATAATCCCATCATAAAAATT
66 GTAAGAAATTATTTAAGGTATTTTCTAGCTAAAAACGCA--TTCAATAATCCCATCATAAAAATT
* * * *
9287180 AAAAGGGATTATTCAAGGCGA-TTGT-TGGGCAAAATGCCTTGAATATAAAAAAAAATGTTGGGA
129 AAAAGAGACTATTCAAGGC-ATTTGTCTAGGCAAAATGCCTTGAATATAAAAAAAAATGATGGGA
9287243 TTATT
193 TTATT
9287248 AAAGGTATTT
Statistics
Matches: 174, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
203 20 0.11
204 1 0.01
205 16 0.09
206 94 0.54
207 42 0.24
208 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (203 bp):
TAATCCACAAATTATTTAAGGCATTTTTAGCTAGAAACACTTTCAATAACCCTATTCAATATTTT
GTAAGAAATTATTTAAGGTATTTTCTAGCTAAAAACGCATTCAATAATCCCATCATAAAAATTAA
AAGAGACTATTCAAGGCATTTGTCTAGGCAAAATGCCTTGAATATAAAAAAAAATGATGGGATTA
TTGAAAAA
Found at i:9287660 original size:292 final size:290
Alignment explanation
Indices: 9287049--9287751 Score: 693
Period size: 292 Copynumber: 2.4 Consensus size: 290
9287039 ATTATTGAAA
* * * * * *
9287049 AATAATCCACGAATTATTTAAGGTGTTTTTAGCTAGAAACACTTTCAATAACCCTATTCAATATT
1 AATAATCCATGAATTATTCAAGGTATTTTTAGCCAGAAACACATTCAATAACCCTAGTCAATATT
* * * *
9287114 TTGTAAGAGATTATTTAAGGTATTTTTTGGCTAAAAACCACCTTCAATAATCCCATCATAAAAAT
66 TTGTAAGAGATTACTCAAGGTATTTTCTAGCTAAAAACCACCTTCAATAATCCCATCATAAAAAT
* * *** ** *
9287179 TAAAAGGGATTATTCAAGGCGATTGTTGGGCAAAATGCCTTGAATATAAAAAAAAATGTTGGGAT
131 TAAAAGAGATTATTCAAGGCGATTGTTGGGCAAAATACCTTGAATATAAAAAAAAACCCTAAGAC
* * ** *
9287244 TATTAAAGGTATTTTTAACAAAAATTACCTTTAATAATCCCCTTTGAATGAATAATTCGTGGGTT
196 TAATAAAGGTATTTTTAACAAAAATTACCTTCAATAATCCCCAATGAATAAATAATTCGTGGGTT
* * *
9287309 ATAGAAAACGTTTTTGGCCAAAGCGCCTTC
261 ATAGAAAACGTTTTTGGCAAAAACACCTTC
* *
9287339 AATAATCCATGAATTATTCAAGATATTTTTAGCCAGAAACACATTCAATAA-TCTCAGTCAATAT
1 AATAATCCATGAATTATTCAAGGTATTTTTAGCCAGAAACACATTCAATAACCCT-AGTCAATAT
* * * *
9287403 TTTGTAAGAGATTACTCAATGTGTTTTCTAGCTAAAAA-CATCTTTAATAATCCCATCATAAAAA
65 TTTGTAAGAGATTACTCAAGGTATTTTCTAGCTAAAAACCACCTTCAATAATCCCATCATAAAAA
* * * **
9287467 TTGAAAGAGATTTTTCAAGGC-ATTTTTTGGGCAAAAATACCTTGAATATTTCCAAAAAAACCCT
130 TTAAAAGAGATTATTCAAGGCGA-TTGTTGGGC-AAAATACCTTGAATA--TAAAAAAAAACCCT
* * * *
9287531 AAGACTAATGAAGGTGTTTTTAACAGAAAATT-CCTTCAATAATCCCCAATGAATAAATGATTTG
191 AAGACTAATAAAGGTATTTTTAACA-AAAATTACCTTCAATAATCCCCAATGAATAAATAATTCG
** * * *
9287595 TGGGTTAT-GTAAGGCGTTTTTGATCAAAAATACCTTG
255 TGGGTTATAG-AAAACGTTTTTG-GCAAAAACACCTTC
* * ** * * *
9287632 AA-ATTTCATGAATTATTCAAGGTATTTTTAGCTGGAAA-ATGCTTTCAATAACCCCATTCAATA
1 AATAATCCATGAATTATTCAAGGTATTTTTAGCCAGAAACA--CATTCAATAACCCTAGTCAATA
* * * * *** * * *
9287695 TTATGTGAGGGATTATTCAATACATTTTATGGCTAAAAA-TACCTTCAATAATCCCAT
64 TTTTGTAAGAGATTACTCAAGGTATTTTCTAGCTAAAAACCACCTTCAATAATCCCAT
9287752 TCAATATTTT
Statistics
Matches: 335, Mismatches: 67, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
288 1 0.00
289 52 0.16
290 99 0.30
291 2 0.01
292 103 0.31
293 77 0.23
294 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (290 bp):
AATAATCCATGAATTATTCAAGGTATTTTTAGCCAGAAACACATTCAATAACCCTAGTCAATATT
TTGTAAGAGATTACTCAAGGTATTTTCTAGCTAAAAACCACCTTCAATAATCCCATCATAAAAAT
TAAAAGAGATTATTCAAGGCGATTGTTGGGCAAAATACCTTGAATATAAAAAAAAACCCTAAGAC
TAATAAAGGTATTTTTAACAAAAATTACCTTCAATAATCCCCAATGAATAAATAATTCGTGGGTT
ATAGAAAACGTTTTTGGCAAAAACACCTTC
Found at i:9287796 original size:63 final size:62
Alignment explanation
Indices: 9287675--9287873 Score: 179
Period size: 63 Copynumber: 3.2 Consensus size: 62
9287665 GGAAAATGCT
* * * **
9287675 TTCAATAACCCCATTCAATATTATGTGA-GGGATTATTCAATACATTTTATGGCTAAAAATACC
1 TTCAATAATCCCATTCAATATTATGTAAGGGGATTATTGAATGTATTTT-TGG-TAAAAATACC
* * *
9287738 TTCAATAATCCCATTCAATATTTTGTAAGGGGATTATTGAATGTATTTTTGGTAAAAAATGCT
1 TTCAATAATCCCATTCAATATTATGTAAGGGGATTATTGAATGTATTTTTGGT-AAAAATACC
* * * * * ** **
9287801 TTTAATAATCTCACCTAAAAAAAATG-AAGGGGATTATTGAATGTATTTTTTGCCAAAAATACC
1 TTCAATAATCCCA-TTCAATATTATGTAAGGGGATTATTGAATGTA-TTTTTGGTAAAAATACC
9287864 -TCAATAATCC
1 TTCAATAATCC
9287874 ACTCATAAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
62 9 0.08
63 72 0.65
64 29 0.26
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (62 bp):
TTCAATAATCCCATTCAATATTATGTAAGGGGATTATTGAATGTATTTTTGGTAAAAATACC
Found at i:9287894 original size:63 final size:63
Alignment explanation
Indices: 9287764--9287900 Score: 154
Period size: 63 Copynumber: 2.2 Consensus size: 63
9287754 AATATTTTGT
* * * * *
9287764 AAGGGGATTATTGAATGTATTTTTGGTAAAAAATGCTTTTAATAATCTCACCTAAAAAAAATG
1 AAGGGGATTATTGAATGTATTTTTGGCAAAAAATACTCTCAATAATCTCACCTAAAAAAAATA
* * **
9287827 AAGGGGATTATTGAATGTATTTTTTGCCAAAAATAC-CTCAATAATC-CACTCATAAAAAATCTA
1 AAGGGGATTATTGAATGTATTTTTGGCAAAAAATACTCTCAATAATCTCAC-C-TAAAAAAAATA
9287890 AA-GGGATTATT
1 AAGGGGATTATT
9287901 CAAAGCGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
61 3 0.05
62 18 0.29
63 42 0.67
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.34
Consensus pattern (63 bp):
AAGGGGATTATTGAATGTATTTTTGGCAAAAAATACTCTCAATAATCTCACCTAAAAAAAATA
Found at i:9294704 original size:55 final size:56
Alignment explanation
Indices: 9294626--9294747 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 56
9294616 AAATATAATA
* * * *
9294626 AAAAATTAAAATATATAAATCTATATTGAC-AATCTCTAACCATCGATATAGGTAAG
1 AAAAATTAAAAAATACAAATCTATACTGACGAATCT-TAACCATCGATATAAGTAAG
* * * * *
9294682 -AAAATTAAAAAATACAAGTCTATACTGACGAATGTTAACCGTTGGTATAAGTAAG
1 AAAAATTAAAAAATACAAATCTATACTGACGAATCTTAACCATCGATATAAGTAAG
9294737 AAAAATTAAAA
1 AAAAATTAAAA
9294748 GTCTATACTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 41 0.75
56 14 0.25
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (56 bp):
AAAAATTAAAAAATACAAATCTATACTGACGAATCTTAACCATCGATATAAGTAAG
Found at i:9296345 original size:7 final size:7
Alignment explanation
Indices: 9296333--9296365 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
9296323 TAATTATGCG
9296333 TTTAAAA
1 TTTAAAA
9296340 TTTAAAA
1 TTTAAAA
9296347 TTTAAAA
1 TTTAAAA
*
9296354 TTTAGAA
1 TTTAAAA
9296361 TTTAA
1 TTTAA
9296366 TGATCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:9311193 original size:22 final size:23
Alignment explanation
Indices: 9311146--9311224 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
9311136 TTATCATACA
* *
9311146 TATTAAATATATATTTTAGTTTT
1 TATTAAATATATATTATAATTTT
*
9311169 TATTAAATTTATA-TATAATTTT
1 TATTAAATATATATTATAATTTT
* * *
9311191 TATTAAAATATTAAATCATAAATTT
1 TATT-AAATA-TATATTATAATTTT
9311216 T-TTAAATAT
1 TATTAAATAT
9311225 TTTTTAATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
22 12 0.26
23 21 0.46
24 5 0.11
25 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TATTAAATATATATTATAATTTT
Found at i:9311387 original size:30 final size:30
Alignment explanation
Indices: 9311327--9311387 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9311317 AAAGCTTGAT
* * * *
9311327 ATTCCCTCGTTTTATTATTACTAGAGTGCC
1 ATTCCCTAGTTTTATTATCACTACACTGCC
*
9311357 ATTCCCTAGTTTTATTATCATTACACTGCC
1 ATTCCCTAGTTTTATTATCACTACACTGCC
9311387 A
1 A
9311388 CTGGCTTCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.43
Consensus pattern (30 bp):
ATTCCCTAGTTTTATTATCACTACACTGCC
Found at i:9311520 original size:63 final size:63
Alignment explanation
Indices: 9311442--9311565 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
9311432 ATATTCTGTC
* * * *
9311442 ATAATTGATTTCATCATATATAGAGCATATAATTTTAGTCTTAATCTTGATAGATTGATCTCG
1 ATAATTGATCTCATCATACATAGAGCATATAATTTTAGTCCTAATCTTAATAGATTGATCTCG
* *
9311505 ATAATTGATCTCATCATACATAGAGCATTTAATTTTAGTCCTAATCTTAATCGATTGATCT
1 ATAATTGATCTCATCATACATAGAGCATATAATTTTAGTCCTAATCTTAATAGATTGATCT
9311566 TGTTGTAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (63 bp):
ATAATTGATCTCATCATACATAGAGCATATAATTTTAGTCCTAATCTTAATAGATTGATCTCG
Found at i:9317279 original size:15 final size:15
Alignment explanation
Indices: 9317259--9317290 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9317249 ATTTGATACG
9317259 AAGCTTCACTGAATA
1 AAGCTTCACTGAATA
9317274 AAGCTTCACTGAATA
1 AAGCTTCACTGAATA
9317289 AA
1 AA
9317291 CCTTAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AAGCTTCACTGAATA
Found at i:9322316 original size:2 final size:2
Alignment explanation
Indices: 9322309--9322358 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
9322299 ACTTGAAACA
* *
9322309 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT CT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9322350 AT AT AT AT A
1 AT AT AT AT A
9322359 GTAACTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9326578 original size:7 final size:7
Alignment explanation
Indices: 9326563--9326592 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9326553 CTTTAATTAA
*
9326563 TTTATAT
1 TTTAAAT
9326570 TTTAAAT
1 TTTAAAT
9326577 TTTAAAT
1 TTTAAAT
9326584 TTTAAAT
1 TTTAAAT
9326591 TT
1 TT
9326593 ATATTGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTAAAT
Found at i:9330070 original size:18 final size:18
Alignment explanation
Indices: 9330033--9330069 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9330023 TTTTATTTAA
9330033 TTTATGTTATTTTTTGTT
1 TTTATGTTATTTTTTGTT
9330051 TTTATGTT-TTTTTT-TT
1 TTTATGTTATTTTTTGTT
9330067 TTT
1 TTT
9330070 TGCATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (18 bp):
TTTATGTTATTTTTTGTT
Found at i:9330126 original size:18 final size:18
Alignment explanation
Indices: 9330105--9330159 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
9330095 TTATTTTATT
9330105 TTTGCATGATTATTAATA
1 TTTGCATGATTATTAATA
9330123 TTTGTACA-G-TTATTAATA
1 TTTG--CATGATTATTAATA
* * *
9330141 TTTACATTATTGTTAATA
1 TTTGCATGATTATTAATA
9330159 T
1 T
9330160 ATTTACATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.07
18 25 0.83
19 1 0.03
20 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (18 bp):
TTTGCATGATTATTAATA
Found at i:9333005 original size:24 final size:24
Alignment explanation
Indices: 9332973--9333018 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9332963 TTTAATTTCA
* *
9332973 CTTCCGTTGATGTGATTGGATTCG
1 CTTCCGTTGATGTAATTAGATTCG
*
9332997 CTTCTGTTGATGTAATTAGATT
1 CTTCCGTTGATGTAATTAGATT
9333019 GAGGCTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.13, G:0.24, T:0.46
Consensus pattern (24 bp):
CTTCCGTTGATGTAATTAGATTCG
Found at i:9338606 original size:22 final size:20
Alignment explanation
Indices: 9338574--9338619 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
9338564 TACATAATAT
* *
9338574 AAAAATCATTATTATTTAAA
1 AAAAATCATTATAAATTAAA
9338594 AAAAACTCAATTATAAATTAAA
1 AAAAA-TC-ATTATAAATTAAA
9338616 AAAA
1 AAAA
9338620 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 15 0.68
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATCATTATAAATTAAA
Found at i:9338815 original size:42 final size:42
Alignment explanation
Indices: 9338735--9338818 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
9338725 TACAACAATA
*
9338735 TTTGTATTTTATTTTTTGTAATAAATAATTAAACAAAAATATG
1 TTTGTATTTTA-TTTTTGTAATAAAGAATTAAACAAAAATATG
*
9338778 TTTGTATTTTGA-TTTTGTAATAAAGAA-TAGAAGAAAAATAT
1 TTTGTATTTT-ATTTTTGTAATAAAGAATTA-AACAAAAATAT
9338819 AACATATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.05
42 24 0.65
43 10 0.27
44 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (42 bp):
TTTGTATTTTATTTTTGTAATAAAGAATTAAACAAAAATATG
Found at i:9341828 original size:28 final size:28
Alignment explanation
Indices: 9341788--9341848 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
9341778 AAATACTTAT
*
9341788 AAAAACTTTTAAAAAGGAAAAAGA-AAAA
1 AAAAACTTATAAAAA-GAAAAAGAGAAAA
9341816 GAAAAAC-TATAAAAAGAAAAAGAGAAAA
1 -AAAAACTTATAAAAAGAAAAAGAGAAAA
9341844 AAAAA
1 AAAAA
9341849 GATTGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 13 0.43
28 11 0.37
29 6 0.20
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.10
Consensus pattern (28 bp):
AAAAACTTATAAAAAGAAAAAGAGAAAA
Found at i:9343254 original size:17 final size:16
Alignment explanation
Indices: 9343227--9343287 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 16
9343217 ATATAATTAA
9343227 AAAATAAAAATCTAAAAC
1 AAAA-AAAAAT-TAAAAC
9343245 AAAAAAAAATTACAAAC
1 AAAAAAAAATTA-AAAC
*
9343262 AATAAAAAAATAAAAAAC
1 AA-AAAAAAAT-TAAAAC
9343280 AAAAAAAA
1 AAAAAAAA
9343288 GAGTTCTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.05
17 18 0.46
18 18 0.46
19 1 0.03
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAAAATTAAAAC
Found at i:9343381 original size:29 final size:27
Alignment explanation
Indices: 9343330--9343390 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
9343320 ATTGAATTTA
*
9343330 AAATATTAATTTTTTAAATTAAAGTATT
1 AAATAATAATTTTTTAAATTAAA-TATT
*
9343358 AAATAATAATTTTATT-AATATAAATGTT
1 AAATAATAATTTT-TTAAAT-TAAATATT
9343386 AAATA
1 AAATA
9343391 CATATTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATAATAATTTTTTAAATTAAATATT
Found at i:9343654 original size:9 final size:9
Alignment explanation
Indices: 9343622--9343719 Score: 65
Period size: 9 Copynumber: 10.6 Consensus size: 9
9343612 TATTTAAAAG
*
9343622 AAAAATTCAA
1 AAAAATT-AT
*
9343632 AAAAATCTAA
1 AAAAAT-TAT
9343642 AAAAATTAT
1 AAAAATTAT
* *
9343651 AAAAAATAA
1 AAAAATTAT
9343660 AAAAATTAT
1 AAAAATTAT
*
9343669 AAAAATTTT
1 AAAAATTAT
*
9343678 AAACAATTCT
1 AAA-AATTAT
9343688 AAAAGAATTAT
1 -AAA-AATTAT
* *
9343699 -AAATTTTT
1 AAAAATTAT
9343707 AAAAATT-T
1 AAAAATTAT
9343715 AAAAA
1 AAAAA
9343720 ATTTTAAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
8 10 0.14
9 34 0.47
10 19 0.26
11 9 0.12
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9343685 original size:10 final size:9
Alignment explanation
Indices: 9343660--9343864 Score: 80
Period size: 9 Copynumber: 22.3 Consensus size: 9
9343650 TAAAAAATAA
*
9343660 AAAAATTAT
1 AAAAATTTT
9343669 AAAAATTTT
1 AAAAATTTT
*
9343678 AAACAATTCT
1 AAA-AATTTT
*
9343688 AAAAGA-ATT
1 AAAA-ATTTT
*
9343697 ATAAATTTTT
1 A-AAAATTTT
*
9343707 AAAAATTTA
1 AAAAATTTT
9343716 AAAAATTTT
1 AAAAATTTT
*
9343725 AAAATAAATTCT
1 --AA-AAATTTT
9343737 -AAAA--TT
1 AAAAATTTT
9343743 AAAAATTTT
1 AAAAATTTT
** * *
9343752 --TTACTCT
1 AAAAATTTT
9343759 AAAAATTTT
1 AAAAATTTT
* *
9343768 AATAACTTAT
1 AA-AAATTTT
*
9343778 AAAAATTAT
1 AAAAATTTT
* *
9343787 AATAATTCT
1 AAAAATTTT
**
9343796 AAACTTTTT
1 AAAAATTTT
**
9343805 AAATTTTTT
1 AAAAATTTT
9343814 AAAAATTTT
1 AAAAATTTT
9343823 AAAAATATTT
1 AAAAAT-TTT
9343833 AAAAATTGTT
1 AAAAATT-TT
* *
9343843 GAAATTTATT
1 AAAAATT-TT
*
9343853 AAAAAATTT
1 AAAAATTTT
9343862 AAA
1 AAA
9343865 TACTAAAAAA
Statistics
Matches: 144, Mismatches: 37, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
6 1 0.01
7 7 0.05
8 3 0.02
9 81 0.56
10 44 0.31
11 2 0.01
12 6 0.04
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (9 bp):
AAAAATTTT
Found at i:9343701 original size:11 final size:10
Alignment explanation
Indices: 9343622--9343701 Score: 71
Period size: 10 Copynumber: 8.2 Consensus size: 10
9343612 TATTTAAAAG
9343622 AAAAATTCA-A
1 AAAAATT-ATA
9343632 AAAAATCTA-A
1 AAAAAT-TATA
9343642 AAAAATTATA
1 AAAAATTATA
9343652 AAAAA-TA-A
1 AAAAATTATA
9343660 AAAAATTAT-
1 AAAAATTATA
*
9343669 AAAAATTTTA
1 AAAAATTATA
* *
9343679 AACAATTCTA
1 AAAAATTATA
9343689 AAAGAATTATA
1 AAA-AATTATA
9343700 AA
1 AA
9343702 TTTTTAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
8 6 0.10
9 14 0.24
10 30 0.51
11 9 0.15
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:9343721 original size:9 final size:9
Alignment explanation
Indices: 9343631--9343728 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
9343621 GAAAAATTCA
*
9343631 AAAAAATCTA
1 AAAAAAT-TT
9343641 AAAAAATTAT
1 AAAAAATT-T
*
9343651 AAAAAA-TA
1 AAAAAATTT
9343659 AAAAAATTAT
1 AAAAAATT-T
*
9343669 AAAAATTTT
1 AAAAAATTT
*
9343678 AAACAATTCT
1 AAAAAATT-T
9343688 AAAAGAA-TT
1 AAAA-AATTT
* *
9343697 ATAAATTTT
1 AAAAAATTT
*
9343706 TAAAAATTT
1 AAAAAATTT
9343715 AAAAAATTTT
1 AAAAAA-TTT
9343725 AAAA
1 AAAA
9343729 TAAATTCTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
8 7 0.10
9 27 0.40
10 32 0.47
11 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:9343726 original size:18 final size:18
Alignment explanation
Indices: 9343622--9343728 Score: 81
Period size: 18 Copynumber: 5.7 Consensus size: 18
9343612 TATTTAAAAG
9343622 AAAAATTCA-AAAAAATCTAA
1 AAAAATT-ATAAAAAAT-T-A
*
9343642 AAAAATTATAAAAAATAA
1 AAAAATTATAAAAAATTA
*
9343660 AAAAATTATAAAAATTTTA
1 AAAAATTATAAAAA-ATTA
* *
9343679 AACAATTCTAAAAGAATTA
1 AAAAATTATAAAA-AATTA
* * * *
9343698 TAAATTTTTAAAAATTTA
1 AAAAATTATAAAAAATTA
*
9343716 AAAAATTTTAAAA
1 AAAAATTATAAAA
9343729 TAAATTCTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
18 30 0.42
19 26 0.37
20 15 0.21
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAAAATTA
Found at i:9343964 original size:10 final size:9
Alignment explanation
Indices: 9343945--9343988 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
9343935 TCAAGAACTT
9343945 TAAAAATTC
1 TAAAAATTC
9343954 TAAACAATTC
1 TAAA-AATTC
*
9343964 TAAACAATTG
1 TAAA-AATTC
9343974 TAAAAATTTC
1 TAAAAA-TTC
9343984 TAAAA
1 TAAAA
9343989 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 6 0.19
10 25 0.81
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTC
Found at i:9344000 original size:21 final size:21
Alignment explanation
Indices: 9343974--9344021 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
9343964 TAAACAATTG
*
9343974 TAAAAATTTCTAAAATTTTTT-
1 TAAAAA-TTATAAAATTTTTTA
*
9343995 TAAAAATTATAAATTTTTTTA
1 TAAAAATTATAAAATTTTTTA
9344016 TAAAAA
1 TAAAAA
9344022 AATTTAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAAATTATAAAATTTTTTA
Found at i:9344354 original size:17 final size:19
Alignment explanation
Indices: 9344325--9344360 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9344315 TATTAAATGT
9344325 TTTGGATATTTTTT-AAAA
1 TTTGGATATTTTTTGAAAA
9344343 TTTGGA-ATTTTTTGAAAA
1 TTTGGATATTTTTTGAAAA
9344361 ATTTAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTTGGATATTTTTTGAAAA
Found at i:9344456 original size:18 final size:18
Alignment explanation
Indices: 9344435--9344660 Score: 106
Period size: 18 Copynumber: 12.3 Consensus size: 18
9344425 AAATTAAAAG
9344435 TTTTTAGAAATTTTTAAA
1 TTTTTAGAAATTTTTAAA
* *
9344453 TTTTTTGAGAATTTTT-TA
1 TTTTTAGA-AATTTTTAAA
** *
9344471 TTTTTCTAAA-TTGTAAA
1 TTTTTAGAAATTTTTAAA
* *
9344488 TGTTTAAAAATTTTTAAAA
1 TTTTTAGAAATTTTT-AAA
*
9344507 GTTTTAG-AA-TTTTAGAA
1 TTTTTAGAAATTTTTA-AA
*
9344524 TTTTTTAGAATTTTATTAAA
1 -TTTTTAGAAATTT-TTAAA
* * *
9344544 TTTTTTGAAATTATTTCAC
1 TTTTTAGAAATT-TTTAAA
* *
9344563 TTTTTA-CAATTTTGAAAA
1 TTTTTAGAAATTTT-TAAA
9344581 TTTGTTAG-AATTTTTAAA
1 TTT-TTAGAAATTTTTAAA
* * *
9344599 TTGTTTCATAAATTTTTTTAT
1 TT-TTT-AGAAA-TTTTTAAA
* * *
9344620 TTTTTTGAATTTTTTATA
1 TTTTTAGAAATTTTTAAA
*
9344638 TATTTTA-AAATTTTAAAA
1 T-TTTTAGAAATTTTTAAA
9344656 TTTTT
1 TTTTT
9344661 TTTGAATTTT
Statistics
Matches: 152, Mismatches: 38, Indels: 37
0.67 0.17 0.16
Matches are distributed among these distances:
16 4 0.03
17 22 0.14
18 55 0.36
19 50 0.33
20 10 0.07
21 11 0.07
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
TTTTTAGAAATTTTTAAA
Found at i:9344529 original size:10 final size:10
Alignment explanation
Indices: 9344508--9344549 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
9344498 TTTTTAAAAG
9344508 TTTTAGAA--
1 TTTTAGAATT
9344516 TTTTAGAATT
1 TTTTAGAATT
9344526 TTTTAGAATT
1 TTTTAGAATT
9344536 TTATTA-AATT
1 TT-TTAGAATT
9344546 TTTT
1 TTTT
9344550 GAAATTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.26
9 2 0.06
10 18 0.58
11 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:9344661 original size:18 final size:18
Alignment explanation
Indices: 9344381--9344661 Score: 88
Period size: 18 Copynumber: 15.3 Consensus size: 18
9344371 TCCTTAATTC
* *
9344381 TTTTTGAAATTTTAAAAA
1 TTTTTAAAATTTTAAAAT
* ** *
9344399 TTTATGGAATGTTTAAAGT
1 TTTTTAAAAT-TTTAAAAT
* *
9344418 TTTTTAAAA-ATTAAAAG
1 TTTTTAAAATTTTAAAAT
*
9344435 TTTTTAGAAATTTTTAAAT
1 TTTTTA-AAATTTTAAAAT
* **
9344454 TTTTTGAGAATTTT-TTAT
1 TTTTT-AAAATTTTAAAAT
*
9344472 TTTTCT-AAATTGT-AAAT
1 TTTT-TAAAATTTTAAAAT
* *
9344489 GTTTAAAAATTTTTAAAA-
1 TTTTTAAAA-TTTTAAAAT
* * *
9344507 GTTTTAGAATTTTAGAAT
1 TTTTTAAAATTTTAAAAT
*
9344525 TTTTTAGAATTTTATTAAAT
1 TTTTTAAAATTTTA--AAAT
* ** *
9344545 TTTTTGAAATTATT-TCAC
1 TTTTTAAAATT-TTAAAAT
*
9344563 TTTTTACAATTTTGAAAAT
1 TTTTTAAAATTTT-AAAAT
* * *
9344582 TTGTTAGAATTTTTAAAT
1 TTTTTAAAATTTTAAAAT
* ** *
9344600 TGTTTCATAAATTTTTTTATT
1 T-TTT--TAAAATTTTAAAAT
* * * *
9344621 TTTTTGAATTTTTTATAT
1 TTTTTAAAATTTTAAAAT
*
9344639 ATTTTAAAATTTTAAAAT
1 TTTTTAAAATTTTAAAAT
9344657 TTTTT
1 TTTTT
9344662 TTGAATTTTT
Statistics
Matches: 190, Mismatches: 56, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
17 33 0.17
18 82 0.43
19 46 0.24
20 16 0.08
21 13 0.07
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (18 bp):
TTTTTAAAATTTTAAAAT
Found at i:9344677 original size:9 final size:9
Alignment explanation
Indices: 9344428--9344798 Score: 92
Period size: 9 Copynumber: 39.2 Consensus size: 9
9344418 TTTTTAAAAA
9344428 TTAAAAGTTT
1 TTAAAA-TTT
9344438 TTAGAAATTT
1 TTA-AAATTT
*
9344448 TTAAATTTT
1 TTAAAATTT
*
9344457 TTGAGAATTT
1 TT-AAAATTT
*
9344467 TT--TATTT
1 TTAAAATTT
*
9344474 TTCTAAA-TT
1 TT-AAAATTT
*
9344483 GT-AAATGTT
1 TTAAAAT-TT
*
9344492 TAAAAATTT
1 TTAAAATTT
*
9344501 TTAAAAGTT
1 TTAAAATTT
*
9344510 TTAGAA-TT
1 TTAAAATTT
*
9344518 TTAGAATTTT
1 TTA-AAATTT
*
9344528 TTAGAATTTT
1 TTA-AAATTT
*
9344538 ATTAAATTTT
1 -TTAAAATTT
*
9344548 TTGAAATTAT
1 TTAAAATT-T
* *
9344558 TT-CACTTT
1 TTAAAATTT
*
9344566 TTACAATTT
1 TTAAAATTT
*
9344575 TGAAAATTT
1 TTAAAATTT
*
9344584 GTTAGAATTT
1 -TTAAAATTT
9344594 TT-AAATTGT
1 TTAAAATT-T
9344603 TTCATAAATTT
1 TT-A-AAATTT
** *
9344614 TTTTATTTT
1 TTAAAATTT
**
9344623 TTTGAATTT
1 TTAAAATTT
* *
9344632 TTTATATATT
1 TTAAAAT-TT
9344642 TTAAAA-TT
1 TTAAAATTT
9344650 TTAAAATTTTT
1 TTAAAA--TTT
**
9344661 TTTGAATTT
1 TTAAAATTT
9344670 TTAAAATTT
1 TTAAAATTT
**
9344679 GAGAAAAAATTAGT
1 ---TTAAAATT--T
**
9344693 TTAGTATTT
1 TTAAAATTT
9344702 TTCAAAATTT
1 TT-AAAATTT
*
9344712 TTAGAATTT
1 TTAAAATTT
9344721 CTTAAAATTT
1 -TTAAAATTT
**
9344731 TTAGATTGTTT
1 TTA-A-AATTT
* *
9344742 TTTAACTTT
1 TTAAAATTT
*
9344751 TGAAAATGTT
1 TTAAAAT-TT
* *
9344761 TTGATATTT
1 TTAAAATTT
*
9344770 TTATAATTT
1 TTAAAATTT
*
9344779 TTATAATTT
1 TTAAAATTT
9344788 TTAAAATTT
1 TTAAAATTT
9344797 TT
1 TT
9344799 TTCGAATTTT
Statistics
Matches: 268, Mismatches: 61, Indels: 65
0.68 0.15 0.16
Matches are distributed among these distances:
7 9 0.03
8 20 0.07
9 125 0.47
10 78 0.29
11 24 0.09
12 11 0.04
14 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (9 bp):
TTAAAATTT
Found at i:9344720 original size:19 final size:19
Alignment explanation
Indices: 9344692--9344735 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
9344682 AAAAAATTAG
*
9344692 TTTAGTATTT-TTCAAAATT
1 TTTAGAATTTCTT-AAAATT
9344711 TTTAGAATTTCTTAAAATT
1 TTTAGAATTTCTTAAAATT
9344730 TTTAGA
1 TTTAGA
9344736 TTGTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAGAATTTCTTAAAATT
Found at i:9344742 original size:29 final size:27
Alignment explanation
Indices: 9344709--9344838 Score: 91
Period size: 29 Copynumber: 4.5 Consensus size: 27
9344699 TTTTTCAAAA
9344709 TTTTTAGAATTTCTTAAAATTTTTAGAT
1 TTTTTAGAATTT-TTAAAATTTTTAGAT
** *
9344737 TGTTTTTTAACTTTTGAAAATGTTTT-GAT
1 T-TTTTAGAA-TTTTTAAAAT-TTTTAGAT
* * *
9344766 ATTTTTATAATTTTTATAATTTTTAAAATT
1 -TTTTTAGAATTTTTAAAATTTTT-AGA-T
* *
9344796 TTTTTCGAATTTTTAAATTATTTTTAGAC
1 TTTTTAGAATTTTTAAA--ATTTTTAGAT
*
9344825 TTTCTAGAATTTTT
1 TTTTTAGAATTTTT
9344839 TGTTGAATTT
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
27 4 0.05
28 9 0.11
29 49 0.62
30 11 0.14
31 6 0.08
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (27 bp):
TTTTTAGAATTTTTAAAATTTTTAGAT
Found at i:9344780 original size:18 final size:18
Alignment explanation
Indices: 9344707--9344812 Score: 70
Period size: 20 Copynumber: 5.6 Consensus size: 18
9344697 TATTTTTCAA
* *
9344707 AATTTTTAGAATTTCTTAA
1 AATTTTTAAAATTT-TTAT
* * *
9344726 AATTTTTAGATTGTTTTTT
1 AATTTTTAAAAT-TTTTAT
*
9344745 AACTTTTGAAAATGTTTTGAT
1 AA-TTTTTAAAAT-TTTT-AT
*
9344766 -ATTTTTATAATTTTTAT
1 AATTTTTAAAATTTTTAT
*
9344783 AATTTTTAAAATTTTTTT
1 AATTTTTAAAATTTTTAT
9344801 CGAATTTTTAAA
1 --AATTTTTAAA
9344813 TTATTTTTAG
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.03
18 19 0.27
19 23 0.33
20 25 0.36
21 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (18 bp):
AATTTTTAAAATTTTTAT
Found at i:9344789 original size:19 final size:19
Alignment explanation
Indices: 9344707--9344812 Score: 67
Period size: 19 Copynumber: 5.5 Consensus size: 19
9344697 TATTTTTCAA
* * *
9344707 AATTTTTAGAATTTCTTAA
1 AATTTTTAAAATTTTTTAT
* *
9344726 AATTTTT-AGATTGTTTTTT
1 AATTTTTAAAATT-TTTTAT
* *
9344745 AACTTTTGAAAATGTTTTGAT
1 AA-TTTTTAAAAT-TTTTTAT
*
9344766 -ATTTTTATAA-TTTTTAT
1 AATTTTTAAAATTTTTTAT
9344783 AATTTTTAAAATTTTTT-T
1 AATTTTTAAAATTTTTTAT
9344801 CGAATTTTTAAA
1 --AATTTTTAAA
9344813 TTATTTTTAG
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
17 6 0.09
18 13 0.20
19 24 0.36
20 15 0.23
21 7 0.11
22 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAATTTTTTAT
Found at i:9344806 original size:20 final size:19
Alignment explanation
Indices: 9344759--9344850 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 19
9344749 TTTGAAAATG
*
9344759 TTTTGATATTTTTATAATTT
1 TTTTGA-ATTTTTAAAATTT
*
9344779 TTAT-AATTTTTAAAATTT
1 TTTTGAATTTTTAAAATTT
9344797 TTTTCGAATTTTT-AAATTAT
1 TTTT-GAATTTTTAAAATT-T
* * *
9344817 TTTTAGACTTTCTAGAATTTT
1 TTTT-GAATTTTTA-AAATTT
9344838 TTGTTGAATTTTT
1 TT-TTGAATTTTT
9344851 TTTAAAGTTG
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 15 0.26
19 6 0.11
20 21 0.37
21 9 0.16
22 6 0.11
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTT
Found at i:9354755 original size:32 final size:32
Alignment explanation
Indices: 9354714--9354793 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
9354704 TGTCAAGCAA
9354714 ACTTGTTCTTGAATGCTTCAAGGGTCGTTG-CG
1 ACTTGTTCTTGAATGCTTCAAGGGTC-TTGTCG
* *
9354746 ACTTGTTCTTGAATGTTTCAAGGGTCTTGTTG
1 ACTTGTTCTTGAATGCTTCAAGGGTCTTGTCG
**
9354778 ACTTAATCTTGAATGC
1 ACTTGTTCTTGAATGC
9354794 AAAATCTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 3 0.07
32 39 0.93
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (32 bp):
ACTTGTTCTTGAATGCTTCAAGGGTCTTGTCG
Found at i:9354891 original size:68 final size:68
Alignment explanation
Indices: 9354769--9354902 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 68
9354759 TGTTTCAAGG
** * * * * *
9354769 GTCTTGTTGACTTAATCTTGAATGCAAAATCTACTTTAAGGGTCAAGCAAACTTGTTCTTGAATG
1 GTCTTGTAAACTTAATCTTAAATGCAAAATCCACTTCAAAGGTCAAGCAAACTTGTTCTTCAATG
9354834 CTT
66 CTT
* * * * *
9354837 GTCTTGTAAACTTGATCTTAAATGCAAAATCCACTTCAAAGGTTAGGTAGACTTGTTCTTCAATG
1 GTCTTGTAAACTTAATCTTAAATGCAAAATCCACTTCAAAGGTCAAGCAAACTTGTTCTTCAATG
9354902 C
66 C
9354903 CTCAAAATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (68 bp):
GTCTTGTAAACTTAATCTTAAATGCAAAATCCACTTCAAAGGTCAAGCAAACTTGTTCTTCAATG
CTT
Found at i:9355228 original size:20 final size:21
Alignment explanation
Indices: 9355190--9355240 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9355180 AATGATATAT
9355190 TTAATTAATAATAAAATT-AA
1 TTAATTAATAATAAAATTAAA
* **
9355210 TTAATTAATTATATGATTAAA
1 TTAATTAATAATAAAATTAAA
*
9355231 TTAAATAATA
1 TTAATTAATA
9355241 TCATTAATCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAATTAATAATAAAATTAAA
Found at i:9357556 original size:21 final size:19
Alignment explanation
Indices: 9357532--9357579 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
9357522 CAACCAACTC
9357532 TTTTTTTCCCTTTTCTTTCT
1 TTTTTTTCCCTTTTCTTT-T
**
9357552 ATTTTTTTTGCTTTTCTTTT
1 -TTTTTTTCCCTTTTCTTTT
9357572 TTTTTTTC
1 TTTTTTTC
9357580 TTAGTTTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 1 0.04
21 16 0.67
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTCCCTTTTCTTTT
Found at i:9360551 original size:131 final size:131
Alignment explanation
Indices: 9360369--9360631 Score: 413
Period size: 131 Copynumber: 2.0 Consensus size: 131
9360359 TACCCATTCT
* * *
9360369 TTTATCGACTCTCATATTCCTCTTTATCAAGGATATTAATAGAAAGCAAGTTCATTTT-ATATTC
1 TTTATCGACTCTCATATCCCTCTTTATCAAGGACATCAATAGAAAGCAAGTTCATTTTCATATTC
*
9360433 GAAATATGTCTGACATCCCTCAAAGTCAACATACAGCTTATAGTAGTTTATACAACAATATCACT
66 GAAATATGTC-GACATCCCTCAAAGTCAACATACAGCTTATACTAGTTTATACAACAATATCACT
9360498 AA
130 AA
* * * *
9360500 TTTATCGATTCTCGTATCCCTCTTTATTACA-GACATCAATAGCAAGCAAGTTCATTTTCATATT
1 TTTATCGACTCTCATATCCCTCTTTATCA-AGGACATCAATAGAAAGCAAGTTCATTTTCATATT
*
9360564 CGAAATATGTCGACATCTCTCAAAGTCAACATACAGCTTATACTAGTTTATACAACAATATCACT
65 CGAAATATGTCGACATCCCTCAAAGTCAACATACAGCTTATACTAGTTTATACAACAATATCACT
9360629 AA
130 AA
9360631 T
1 T
9360632 CCTAACAATT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
131 104 0.86
132 17 0.14
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (131 bp):
TTTATCGACTCTCATATCCCTCTTTATCAAGGACATCAATAGAAAGCAAGTTCATTTTCATATTC
GAAATATGTCGACATCCCTCAAAGTCAACATACAGCTTATACTAGTTTATACAACAATATCACTA
A
Found at i:9369703 original size:20 final size:20
Alignment explanation
Indices: 9369680--9369721 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9369670 AATTTACATA
*
9369680 ATTAATATTATATTTGTATG
1 ATTAATATTATATTTGCATG
9369700 ATTAATATTATATTTGCATG
1 ATTAATATTATATTTGCATG
9369720 AT
1 AT
9369722 AATTTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTAATATTATATTTGCATG
Found at i:9369731 original size:16 final size:16
Alignment explanation
Indices: 9369710--9369778 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
9369700 ATTAATATTA
9369710 TATTTGCATGATAATT
1 TATTTGCATGATAATT
* * *
9369726 TATTTGCCTAATATTT
1 TATTTGCATGATAATT
9369742 TATTTGCATG--AATT
1 TATTTGCATGATAATT
* *
9369756 TAATTTGCTTGCATGATT
1 T-ATTTGCATG-ATAATT
9369774 TATTT
1 TATTT
9369779 AATTGCATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 4 0.10
15 8 0.20
16 21 0.51
17 4 0.10
18 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.54
Consensus pattern (16 bp):
TATTTGCATGATAATT
Found at i:9369756 original size:15 final size:16
Alignment explanation
Indices: 9369704--9369763 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
9369694 TGTATGATTA
*
9369704 ATATTATATTTGCATG
1 ATATTTTATTTGCATG
* * *
9369720 ATAATTTATTTGCCTA
1 ATATTTTATTTGCATG
9369736 ATATTTTATTTGCATG
1 ATATTTTATTTGCATG
*
9369752 A-ATTTAATTTGC
1 ATATTTTATTTGC
9369764 TTGCATGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
15 10 0.28
16 26 0.72
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (16 bp):
ATATTTTATTTGCATG
Found at i:9369784 original size:17 final size:18
Alignment explanation
Indices: 9369740--9369790 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
9369730 TGCCTAATAT
*
9369740 TTTATTTGCATGAATTTAA
1 TTTAATTGCATG-ATTTAA
**
9369759 TTTGCTTGCATGATTT-A
1 TTTAATTGCATGATTTAA
9369776 TTTAATTGCATGATT
1 TTTAATTGCATGATT
9369791 ATTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.50
18 4 0.14
19 10 0.36
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (18 bp):
TTTAATTGCATGATTTAA
Found at i:9369862 original size:20 final size:20
Alignment explanation
Indices: 9369837--9369965 Score: 147
Period size: 20 Copynumber: 6.5 Consensus size: 20
9369827 TTTGTGTGTG
9369837 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
9369857 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
9369877 TTTGTATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
9369897 ATTACATGATTA-ATTATTTA
1 ATTGCATGATTATA-TATTTA
* *
9369917 TTTGCATTATTA-ATATTTA
1 ATTGCATGATTATATATTTA
* * *
9369936 TTTGTATGATTATTTATCTT-
1 ATTGCATGATTATATAT-TTA
9369956 ATTGCATGAT
1 ATTGCATGAT
9369966 AATTAATATA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 17 0.18
20 74 0.80
21 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:9369897 original size:40 final size:40
Alignment explanation
Indices: 9369838--9369965 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
9369828 TTGTGTGTGA
9369838 TTGCATGATTATATATTTAATTGCATGATTATATATTTAT
1 TTGCATGATTATATATTTAATTGCATGATTATATATTTAT
* *
9369878 TTGTATGATTATATATTTAATTACATGATTA-ATTATTTAT
1 TTGCATGATTATATATTTAATTGCATGATTATA-TATTTAT
* * * *
9369918 TTGCATTATTA-ATATTTATTTGTATGATTATTTATCTTA-
1 TTGCATGATTATATATTTAATTGCATGATTATATAT-TTAT
9369957 TTGCATGAT
1 TTGCATGAT
9369966 AATTAATATA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
39 28 0.37
40 48 0.63
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (40 bp):
TTGCATGATTATATATTTAATTGCATGATTATATATTTAT
Found at i:9369948 original size:59 final size:60
Alignment explanation
Indices: 9369841--9369979 Score: 178
Period size: 59 Copynumber: 2.3 Consensus size: 60
9369831 TGTGTGATTG
*
9369841 CATGATT-ATATATTTAATTGCATGATTATATATTTATTTGTATGATTATATAT-TTAATTA
1 CATGATTAAT-TATTTATTTGCATGATTATATATTTATTTGTATGATTATATATCTT-ATTA
* * *
9369901 CATGATTAATTATTTATTTGCATTATTA-ATATTTATTTGTATGATTATTTATCTTATTG
1 CATGATTAATTATTTATTTGCATGATTATATATTTATTTGTATGATTATATATCTTATTA
*
9369960 CATGA-TAATTAATATATTTG
1 CATGATTAATT-ATTTATTTG
9369980 TGTGATATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
58 5 0.07
59 39 0.55
60 25 0.35
61 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (60 bp):
CATGATTAATTATTTATTTGCATGATTATATATTTATTTGTATGATTATATATCTTATTA
Found at i:9369978 original size:40 final size:39
Alignment explanation
Indices: 9369902--9370004 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 39
9369892 ATTTAATTAC
*
9369902 ATGATTAATTATTTATTTGCAT--TATTAATATTTATTTGT
1 ATGATTATTTATTTA-TTGCATGATATTAATA-TTATTTGT
9369941 ATGATTATTTATCTTATTGCATGATAATTAATA-TATTTGT
1 ATGATTATTTAT-TTATTGCATGAT-ATTAATATTATTTGT
*
9369981 GTGA-TATTTTATATTATTGCATGA
1 ATGATTA-TTTAT-TTATTGCATGA
9370005 CAATATTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
39 19 0.34
40 29 0.52
41 1 0.02
42 7 0.12
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (39 bp):
ATGATTATTTATTTATTGCATGATATTAATATTATTTGT
Found at i:9370055 original size:24 final size:25
Alignment explanation
Indices: 9370023--9370077 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9370013 TCTGAATGAT
9370023 AATTT-TTGCATAATA-TGATTT-A
1 AATTTATTGCATAATATTGATTTGA
*
9370045 ATATTTATTGCATGATATTGATTTGA
1 A-ATTTATTGCATAATATTGATTTGA
9370071 AATTTAT
1 AATTTAT
9370078 GATTTTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 4 0.14
24 9 0.32
25 12 0.43
26 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (25 bp):
AATTTATTGCATAATATTGATTTGA
Found at i:9371544 original size:18 final size:18
Alignment explanation
Indices: 9371521--9371560 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9371511 TTCAATAAGG
9371521 TTGATATGGTGCCAACTA
1 TTGATATGGTGCCAACTA
9371539 TTGATATGGTGCCAACTA
1 TTGATATGGTGCCAACTA
9371557 TTGA
1 TTGA
9371561 AGAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (18 bp):
TTGATATGGTGCCAACTA
Found at i:9376142 original size:23 final size:24
Alignment explanation
Indices: 9376116--9376160 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9376106 AATCTGTTGG
* *
9376116 GATTGC-TGAAGTTAAAAAAGATA
1 GATTGCATGAAATGAAAAAAGATA
*
9376139 GATTTCATGAAATGAAAAAAGA
1 GATTGCATGAAATGAAAAAAGA
9376161 GTTTTGATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.24
Consensus pattern (24 bp):
GATTGCATGAAATGAAAAAAGATA
Found at i:9377162 original size:26 final size:26
Alignment explanation
Indices: 9377071--9377162 Score: 68
Period size: 26 Copynumber: 3.5 Consensus size: 26
9377061 ATTGTTCTAA
* *
9377071 CATTC-ATTATTTGGATATTTTATACC
1 CATTCAATTA-TTGAATATTTGATACC
9377097 CATTCAATTATTGAATGATCATTG-T--C
1 CATTCAATTATTGAAT-AT--TTGATACC
* *
9377123 C-TTCTATTCCTTGAATATTTGATACC
1 CATTCAATT-ATTGAATATTTGATACC
9377149 CATTCAATTATTGA
1 CATTCAATTATTGA
9377163 TTGATTATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 8 0.16
26 24 0.47
27 12 0.24
28 1 0.02
29 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (26 bp):
CATTCAATTATTGAATATTTGATACC
Found at i:9378110 original size:43 final size:42
Alignment explanation
Indices: 9378047--9378283 Score: 228
Period size: 43 Copynumber: 5.5 Consensus size: 42
9378037 TAAGATATCT
*
9378047 CATTTTATTTTTTTCAAAGTTTCAAAGCATTAGTTGTGGGAGAG
1 CATTTTA-TTTTTTCAAAGTTTCAAAGCCTTAGTTGTGGG-GAG
*
9378091 CATTTTATTTTTTCAAAGTTTCAAAGCCTTAGTTATGGGGAG
1 CATTTTATTTTTTCAAAGTTTCAAAGCCTTAGTTGTGGGGAG
* * * *
9378133 CATTTTATTTTTTTTAAAGTTTCAATGCCTTAATTGTGGGGGAT
1 CATTTTA-TTTTTTCAAAGTTTCAAAGCCTTAGTTGT-GGGGAG
* * * * * *
9378177 CATTTTAGTTTTCCAAAGTTTCAATGCCTCAATTGTGAGGGAA
1 CATTTTATTTTTTCAAAGTTTCAAAGCCTTAGTTGTG-GGGAG
* * * *
9378220 CATTTTA-TTTTTCAAAATTTTTACTA-CCTTAGTTATGGGGGAG
1 CATTTTATTTTTTC-AAAGTTTCA-AAGCCTTAGTTGT-GGGGAG
9378263 CATTTTA-TTTTTCAAAAGTTT
1 CATTTTATTTTTTC-AAAGTTT
9378284 TACTACCTCA
Statistics
Matches: 165, Mismatches: 22, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
42 16 0.10
43 129 0.78
44 20 0.12
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (42 bp):
CATTTTATTTTTTCAAAGTTTCAAAGCCTTAGTTGTGGGGAG
Found at i:9379231 original size:19 final size:19
Alignment explanation
Indices: 9379173--9379235 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
9379163 ATTACATGAT
*
9379173 ATTTATTTTTGCATGACTA
1 ATTTATATTTGCATGACTA
* ** *
9379192 ATATATATTTATATGATTA
1 ATTTATATTTGCATGACTA
9379211 ATATTATATTTGCATGA-TA
1 AT-TTATATTTGCATGACTA
9379230 ATTTAT
1 ATTTAT
9379236 TTGCCTAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.11
19 20 0.57
20 11 0.31
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (19 bp):
ATTTATATTTGCATGACTA
Found at i:9379234 original size:32 final size:32
Alignment explanation
Indices: 9379198--9379260 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
9379188 ACTAATATAT
*
9379198 ATTTATATGATTAATATTATATTTGCATGATA
1 ATTTATATGACTAATATTATATTTGCATGATA
* * *
9379230 ATTTATTTGCCTAATATTTTATTTGCATGAT
1 ATTTATATGACTAATATTATATTTGCATGAT
9379261 TAATAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (32 bp):
ATTTATATGACTAATATTATATTTGCATGATA
Found at i:9379308 original size:17 final size:17
Alignment explanation
Indices: 9379269--9379318 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
9379259 ATTAATAGAT
**
9379269 TTGCATGCATTTAATTTGC
1 TTGCATG-ATTT-ATTTAA
9379288 TTGCATGATTTATTTAA
1 TTGCATGATTTATTTAA
9379305 TTGCATGATTTATT
1 TTGCATGATTTATT
9379319 GATTTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.62
18 4 0.14
19 7 0.24
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (17 bp):
TTGCATGATTTATTTAA
Found at i:9379371 original size:25 final size:25
Alignment explanation
Indices: 9379338--9379411 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
9379328 GTATTATTAT
*
9379338 TAATATATTTATTTGCATGATTACC
1 TAATATATTTATTTGCATGATTACA
* * *
9379363 TAATATATTTATGTGTATGATTGCA
1 TAATATATTTATTTGCATGATTACA
* * *
9379388 TGATTATATATATTTACATGATTA
1 T-AATATATTTATTTGCATGATTA
9379412 TATATTTAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 22 0.58
26 16 0.42
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.49
Consensus pattern (25 bp):
TAATATATTTATTTGCATGATTACA
Found at i:9379427 original size:20 final size:20
Alignment explanation
Indices: 9379382--9379462 Score: 112
Period size: 20 Copynumber: 4.2 Consensus size: 20
9379372 TATGTGTATG
9379382 ATTGCATGATTATATA--TA
1 ATTGCATGATTATATATTTA
* *
9379400 TTTACATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
9379420 ATTGCATGATTATATATGTA
1 ATTGCATGATTATATATTTA
*
9379440 TTTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
9379460 ATT
1 ATT
9379463 TTTGGCAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
18 14 0.26
20 39 0.74
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:9379433 original size:38 final size:39
Alignment explanation
Indices: 9379382--9379462 Score: 137
Period size: 40 Copynumber: 2.1 Consensus size: 39
9379372 TATGTGTATG
9379382 ATTGCATGATTATATA-TATTTACATGATTATATATTTA
1 ATTGCATGATTATATAGTATTTACATGATTATATATTTA
*
9379420 ATTGCATGATTATATATGTATTTGCATGATTATATATTTA
1 ATTGCATGATTATATA-GTATTTACATGATTATATATTTA
9379460 ATT
1 ATT
9379463 TTTGGCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 16 0.40
40 24 0.60
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (39 bp):
ATTGCATGATTATATAGTATTTACATGATTATATATTTA
Found at i:9379626 original size:2 final size:2
Alignment explanation
Indices: 9379619--9379657 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9379609 GAATGTTTGT
9379619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9379658 TTTTGGGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9379772 original size:20 final size:21
Alignment explanation
Indices: 9379744--9379785 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
9379734 TTTTTTATGA
9379744 ATTTACATGACTAATAT-TTT
1 ATTTACATGACTAATATATTT
* *
9379764 ATTTGCATGATTAATATATTT
1 ATTTACATGACTAATATATTT
9379785 A
1 A
9379786 CATGAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTACATGACTAATATATTT
Found at i:9379789 original size:17 final size:18
Alignment explanation
Indices: 9379744--9379790 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
9379734 TTTTTTATGA
9379744 ATTTACATGACTAATATTTT
1 ATTTACATGACTAATA--TT
* *
9379764 ATTTGCATGATTAATA-T
1 ATTTACATGACTAATATT
9379781 ATTTACATGA
1 ATTTACATGA
9379791 ATTTAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 10 0.42
20 14 0.58
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (18 bp):
ATTTACATGACTAATATT
Found at i:9379822 original size:17 final size:17
Alignment explanation
Indices: 9379761--9379824 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
9379751 TGACTAATAT
*
9379761 TTTATTTGCATGATTAA
1 TTTATTTGCATGATTTA
* *
9379778 TATATTTACATGAATTTAA
1 TTTATTTGCATG-ATTT-A
**
9379797 TTTGCTTGCATGATTTA
1 TTTATTTGCATGATTTA
*
9379814 TTTAATTGCAT
1 TTTATTTGCAT
9379825 TATTATTAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 20 0.56
18 7 0.19
19 9 0.25
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.52
Consensus pattern (17 bp):
TTTATTTGCATGATTTA
Found at i:9379846 original size:24 final size:25
Alignment explanation
Indices: 9379812--9379904 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
9379802 TTGCATGATT
* * *
9379812 TATTTAATTGCATTATTA-TTAATA
1 TATTTATTTGCATGATTACCTAATA
9379836 TATTTATTTGCATGATTACCTAATA
1 TATTTATTTGCATGATTACCTAATA
* ** * * *
9379861 TATTTATGTGTGTGATTGCATGATTA
1 TATTTATTTGCATGATTACCT-AATA
9379887 TATTTATTTGCATGATTA
1 TATTTATTTGCATGATTA
9379905 TATATTTAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 16 0.30
25 21 0.39
26 17 0.31
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (25 bp):
TATTTATTTGCATGATTACCTAATA
Found at i:9379899 original size:18 final size:18
Alignment explanation
Indices: 9379876--9379963 Score: 99
Period size: 18 Copynumber: 4.7 Consensus size: 18
9379866 ATGTGTGTGA
9379876 TTGCATGATTATATTTAT
1 TTGCATGATTATATTTAT
9379894 TTGCATGATTATATATTTAAT
1 TTGCATGA-T-TATATTT-AT
9379915 TT-CATGATTAATTATTTAT
1 TTGCATGATT-A-TATTTAT
9379934 TTGCA-GATTAATATTTAT
1 TTGCATGATT-ATATTTAT
*
9379952 TTGTATGATTAT
1 TTGCATGATTAT
9379964 TTCTATTATT
Statistics
Matches: 62, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
18 22 0.35
19 17 0.27
20 19 0.31
21 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (18 bp):
TTGCATGATTATATTTAT
Found at i:9379934 original size:40 final size:36
Alignment explanation
Indices: 9379879--9379963 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 36
9379869 TGTGTGATTG
9379879 CATGATTATATTTATTTGCATGATTATATATTTAATTT
1 CATGATTATATTTATTTGCA-GATTA-ATATTTAATTT
9379917 CATGATTAATTATTTATTTGCAGATTAATATTT-ATTT
1 CATGATT-A-TATTTATTTGCAGATTAATATTTAATTT
*
9379954 GTATGATTAT
1 -CATGATTAT
9379964 TTCTATTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
36 1 0.02
37 5 0.12
38 19 0.44
39 6 0.14
40 12 0.28
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (36 bp):
CATGATTATATTTATTTGCAGATTAATATTTAATTT
Found at i:9379979 original size:58 final size:58
Alignment explanation
Indices: 9379876--9379994 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
9379866 ATGTGTGTGA
* *
9379876 TTGCATGATTATATTTATTTGCATGATTATATATTTAATTTCATGATTAATT-ATTTAT
1 TTGCATGATTATATTTATTTGCATGATTATATATTTAATTACATGA-TAATTAATATAT
* * *
9379934 TTGCA-GATTAATATTTATTTGTATGATTATTTCTATT-ATTACATGATAATTAATATAT
1 TTGCATGATT-ATATTTATTTGCATGATTATATAT-TTAATTACATGATAATTAATATAT
9379992 TTG
1 TTG
9379995 TGTGATATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 9 0.17
58 42 0.79
59 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (58 bp):
TTGCATGATTATATTTATTTGCATGATTATATATTTAATTACATGATAATTAATATAT
Found at i:9380942 original size:16 final size:16
Alignment explanation
Indices: 9380921--9380971 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
9380911 TTTAACATAA
9380921 TTAAATATTTAAAATT
1 TTAAATATTTAAAATT
*
9380937 TTAAATATTT--ATTT
1 TTAAATATTTAAAATT
*
9380951 TTAAAAATTCTAAAATT
1 TTAAATATT-TAAAATT
9380968 TTAA
1 TTAA
9380972 TAATTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 11 0.38
15 1 0.03
16 10 0.34
17 7 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATATTTAAAATT
Found at i:9384943 original size:17 final size:17
Alignment explanation
Indices: 9384921--9384965 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
9384911 ATAAACTGAG
9384921 ATAAAATAAAATTACAA
1 ATAAAATAAAATTACAA
9384938 ATAAAAT-AAATTACAA
1 ATAAAATAAAATTACAA
9384954 ATAAAAATAAAA
1 AT-AAAATAAAA
9384966 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.42
17 12 0.46
18 3 0.12
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAATAAAATTACAA
Found at i:9384963 original size:6 final size:6
Alignment explanation
Indices: 9384923--9384977 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
9384913 AAACTGAGAT
* * * *
9384923 AAAATA AAATTA CAAAT- AAAAT- AAATTA CAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
9384969 AAAA-A AAAA
1 AAAATA AAAA
9384978 CAAATAAAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:9384975 original size:16 final size:17
Alignment explanation
Indices: 9384923--9384976 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
9384913 AAACTGAGAT
* *
9384923 AAAATAAAATTACAAAT
1 AAAATAAAAATACAAAA
*
9384940 AAAAT-AAATTACAAATA
1 AAAATAAAAATACAAA-A
9384957 AAAATAAAAATA-AAAA
1 AAAATAAAAATACAAAA
9384973 AAAA
1 AAAA
9384977 ACAAATAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 15 0.45
17 13 0.39
18 5 0.15
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATACAAAA
Found at i:9386326 original size:22 final size:23
Alignment explanation
Indices: 9386295--9386337 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
9386285 TTTAGTGTAT
*
9386295 ATTTTTAAAAATAAAA-ATATTA
1 ATTTTAAAAAATAAAATATATTA
9386317 ATTTTAAAAAATAAAATATAT
1 ATTTTAAAAAATAAAATATAT
9386338 GTTATCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTTAAAAAATAAAATATATTA
Found at i:9388591 original size:3 final size:3
Alignment explanation
Indices: 9388583--9388625 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9388573 GTATGTTGGT
9388583 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
9388626 TAATCTCAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9393946 original size:27 final size:26
Alignment explanation
Indices: 9393900--9393959 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
9393890 TTTTTGGTAT
* * *
9393900 ATAAAATTATAATAAGATAAGATAAA
1 ATAATATTATAATAAAATAAAATAAA
*
9393926 ATAATATTATGAATAAAATAAAATTAA
1 ATAATATTAT-AATAAAATAAAATAAA
9393953 ATAATAT
1 ATAATAT
9393960 CATTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAAATAAA
Found at i:9399964 original size:20 final size:20
Alignment explanation
Indices: 9399941--9399994 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
9399931 AGTGATATAT
9399941 TTAATTAATCATAAAATT-AA
1 TTAATTAAT-ATAAAATTAAA
*
9399961 TTAATTAATTATATAATTAAA
1 TTAATTAA-TATAAAATTAAA
*
9399982 TTAAATAATATAA
1 TTAATTAATATAA
9399995 TTAATTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTAATATAAAATTAAA
Found at i:9402665 original size:91 final size:91
Alignment explanation
Indices: 9402466--9402657 Score: 303
Period size: 91 Copynumber: 2.1 Consensus size: 91
9402456 GCTTATTAGG
* *
9402466 GATCTTCCTTCAAGATTATTGGGGAATTTGGTTATACACCAAAATATGGGGAATGGACTAAAGAC
1 GATCTTCCTTCAAGATTATTGGGAAATTTGGTTATACACCAAAATATAGGGAATGGACTAAAGAC
* *
9402531 ATGGTATATTAATTCAAGACATTGAA
66 ATGGTACATTAATTCAAGACATTAAA
* *
9402557 GAACTTCCTTCAAGATTATTGGGAAATTTGGTTATACACCAAAATATAGGGAATGGACTGAAGAC
1 GATCTTCCTTCAAGATTATTGGGAAATTTGGTTATACACCAAAATATAGGGAATGGACTAAAGAC
* *
9402622 ATGGTGCATTACTTCAAGACATTAAA
66 ATGGTACATTAATTCAAGACATTAAA
*
9402648 TATCTTCCTT
1 GATCTTCCTT
9402658 GACGATTACT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (91 bp):
GATCTTCCTTCAAGATTATTGGGAAATTTGGTTATACACCAAAATATAGGGAATGGACTAAAGAC
ATGGTACATTAATTCAAGACATTAAA
Found at i:9403207 original size:84 final size:85
Alignment explanation
Indices: 9403060--9403237 Score: 209
Period size: 84 Copynumber: 2.1 Consensus size: 85
9403050 AGAACCTAAC
* * * * *
9403060 TTCCAAGCACAATGAAGATCTTGAGACTTGAGCCAACATGTCTCATAGTGATGCCAAGGATTCAA
1 TTCCAAGCACAATGAAGATCTTAAGACTTAAGCCAACATGTCTCATAGTGATACAAAGAATTCAA
**
9403125 GTTAGAGATGAGA-CCTGAT
66 ACTAGAGATGAGAGCCTGAT
* *
9403144 TTCCAAGCATAATGAAGATCTTAAGACTTAAGCCAACGA-GT-TGCGTAGTGATACAAAGAATTC
1 TTCCAAGCACAATGAAGATCTTAAGACTTAAGCCAAC-ATGTCT-CATAGTGATACAAAGAATTC
* * *
9403207 AAACTGGAGATGTGAGCTTGAT
64 AAACTAGAGATGAGAGCCTGAT
9403229 TTCCAAGCA
1 TTCCAAGCA
9403238 AAAAAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 63 0.80
85 15 0.19
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (85 bp):
TTCCAAGCACAATGAAGATCTTAAGACTTAAGCCAACATGTCTCATAGTGATACAAAGAATTCAA
ACTAGAGATGAGAGCCTGAT
Found at i:9403397 original size:41 final size:41
Alignment explanation
Indices: 9403308--9403442 Score: 135
Period size: 41 Copynumber: 3.3 Consensus size: 41
9403298 TTGCACAAAC
** * * ** *
9403308 TGATCCATCTAGAAGCATGATGAAAGATTATTTTATACAAGG
1 TGATCCATGAAGAAGCAAGATG-AAGATTAATTTGGACAAGT
* *
9403350 TAATCCATGAAGAAGCAAGATGAAGATTAATTTGGATAAGT
1 TGATCCATGAAGAAGCAAGATGAAGATTAATTTGGACAAGT
* * * *
9403391 TGATCCATAAAGAGGCATGATGAAGATTACTTTGGACAAGT
1 TGATCCATGAAGAAGCAAGATGAAGATTAATTTGGACAAGT
*
9403432 TGATCTATGAA
1 TGATCCATGAA
9403443 TCTTTTGCTT
Statistics
Matches: 76, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 58 0.76
42 18 0.24
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (41 bp):
TGATCCATGAAGAAGCAAGATGAAGATTAATTTGGACAAGT
Found at i:9404378 original size:32 final size:32
Alignment explanation
Indices: 9404310--9404443 Score: 99
Period size: 32 Copynumber: 4.2 Consensus size: 32
9404300 TTTTTTTTAG
* ** * * *
9404310 AGTTTAAACTCATGCTTAAAAGTAACATAAGC
1 AGTTTAAGCTCATGCTTAGGAGCAACATGAGT
*
9404342 AGTTTAAGCTCATGCTTAGGAGCAATATGAGT
1 AGTTTAAGCTCATGCTTAGGAGCAACATGAGT
* * ** *
9404374 AGTTTAGGTTTGTGCTTGGGAGCAACATGAGT
1 AGTTTAAGCTCATGCTTAGGAGCAACATGAGT
* * * * *
9404406 AGTTTAGGCTCTTG-TCTAGGAACTATATGAGT
1 AGTTTAAGCTCATGCT-TAGGAGCAACATGAGT
9404438 AGTTTA
1 AGTTTA
9404444 GGCTTGTGCG
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
31 1 0.01
32 80 0.99
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (32 bp):
AGTTTAAGCTCATGCTTAGGAGCAACATGAGT
Found at i:9404390 original size:64 final size:64
Alignment explanation
Indices: 9404330--9404475 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 64
9404320 CATGCTTAAA
* * *
9404330 AGTAACATAAGCAGTTTAAGCTCATG-CTTAGGAGCAATATGAGTAGTTTAGGTTTGTGCTTGGG
1 AGTAACATAAGCAGTTTAAGCTCATGTC-TAGGAACAATATGAGTAGTTTAGGCTTGTGCTTAGG
* * * * * * *
9404394 AGCAACATGAGTAGTTTAGGCTCTTGTCTAGGAACTATATGAGTAGTTTAGGCTTGTGCGTAGG
1 AGTAACATAAGCAGTTTAAGCTCATGTCTAGGAACAATATGAGTAGTTTAGGCTTGTGCTTAGG
* *
9404458 AGTAACATTAGCATTTTA
1 AGTAACATAAGCAGTTTA
9404476 CACTTGTGCT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
64 66 0.99
65 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (64 bp):
AGTAACATAAGCAGTTTAAGCTCATGTCTAGGAACAATATGAGTAGTTTAGGCTTGTGCTTAGG
Found at i:9404444 original size:32 final size:33
Alignment explanation
Indices: 9404354--9404458 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 33
9404344 TTTAAGCTCA
*
9404354 TGCTTAGGAGCAATATGAGTAGTTTAGG-TTTG
1 TGCTTAGGAACAATATGAGTAGTTTAGGCTTTG
* * *
9404386 TGCTTGGGAGCAACATGAGTAGTTTAGGCTCTTG
1 TGCTTAGGAACAATATGAGTAGTTTAGGCT-TTG
*
9404420 T-C-TAGGAACTATATGAGTAGTTTAGGC-TTG
1 TGCTTAGGAACAATATGAGTAGTTTAGGCTTTG
*
9404450 TGCGTAGGA
1 TGCTTAGGA
9404459 GTAACATTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.06
31 1 0.02
32 52 0.83
33 2 0.03
34 4 0.06
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.34
Consensus pattern (33 bp):
TGCTTAGGAACAATATGAGTAGTTTAGGCTTTG
Found at i:9409007 original size:105 final size:105
Alignment explanation
Indices: 9408822--9409010 Score: 263
Period size: 105 Copynumber: 1.8 Consensus size: 105
9408812 TTCTTCAGCA
* * * * * *
9408822 AAAATCCACTTCAAGGGTTAGGTGAACTTGATCTTGCATTTTTCAAAAGTTATTGAGACTTGTTC
1 AAAATCCACTTCAAGGGTCAAGTAAACTTGATCTTGAATTCTTCAAAAGTCATTGAGACTTGTTC
9408887 TTAAATGCCTTAAAGGTCTTGTAGAATTAATCTTGAATGC
66 TTAAATGCCTTAAAGGTCTTGTAGAATTAATCTTGAATGC
* * *
9408927 AAAATCCACTTCAAGGGTCAAGTAAACTTGTTCTTGAATTCTTCAAAGGTCGTTGAGACTTGTTC
1 AAAATCCACTTCAAGGGTCAAGTAAACTTGATCTTGAATTCTTCAAAAGTCATTGAGACTTGTTC
* *
9408992 TTGAA-GGCTTCAAAGGTCT
66 TTAAATGCCTT-AAAGGTCT
9409011 AGTTGACTTG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 4 0.06
105 68 0.94
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (105 bp):
AAAATCCACTTCAAGGGTCAAGTAAACTTGATCTTGAATTCTTCAAAAGTCATTGAGACTTGTTC
TTAAATGCCTTAAAGGTCTTGTAGAATTAATCTTGAATGC
Found at i:9409452 original size:21 final size:20
Alignment explanation
Indices: 9409413--9409458 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
9409403 AGCGACATAT
9409413 TTAATTAATCATAAAATTAA
1 TTAATTAATCATAAAATTAA
* *
9409433 TTAATTATATGATTAAATTAA
1 TTAATTA-ATCATAAAATTAA
*
9409454 GTAAT
1 TTAAT
9409459 ACCATTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:9411396 original size:18 final size:18
Alignment explanation
Indices: 9411375--9411427 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
9411365 TAAAGTTTCG
9411375 CAAGAGTTCAAAAATTCA
1 CAAGAGTTCAAAAATTCA
* **
9411393 CAAGAGATCAAAAATTTT
1 CAAGAGTTCAAAAATTCA
9411411 CAAGAGTTCAAAAATTC
1 CAAGAGTTCAAAAATTC
9411428 GTAAGTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (18 bp):
CAAGAGTTCAAAAATTCA
Found at i:9411556 original size:58 final size:58
Alignment explanation
Indices: 9411424--9411639 Score: 267
Period size: 56 Copynumber: 3.8 Consensus size: 58
9411414 GAGTTCAAAA
* * * * ** *
9411424 ATTCGTAAGTAATTTCAAATATTCAGAAATGAAATTTCCAAATTTTG-TATTGTAAAG
1 ATTCATAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
*** *
9411481 ATTTGCAAATAATTTCAAAGATTCACAAATGAGATTTTAAAATTTTGCAATTGTAAAG
1 ATTCATAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
* *
9411539 ATTCATAAATAATTTCAAAGATTCAC--ATGAAATTTTAAAATTTTGCGATTGTAAAA
1 ATTCATAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
* * *
9411595 ATTCATAGATAATTTCAAAGTTTCGCAAATGAAATTTTAAAATTT
1 ATTCATAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTT
9411640 CACATCCAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
56 50 0.36
57 39 0.28
58 49 0.36
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (58 bp):
ATTCATAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
Found at i:9411624 original size:114 final size:114
Alignment explanation
Indices: 9411424--9411639 Score: 276
Period size: 114 Copynumber: 1.9 Consensus size: 114
9411414 GAGTTCAAAA
* * * * * *
9411424 ATTCGTAAGTAATTTCAAATATTCAGAAATGAAATTTCCAAATTTTGTATTGTAAAGATTTGCAA
1 ATTCATAAATAATTTCAAAGATTCA-AAATGAAATTTCAAAATTTTGGATTGTAAAGAATTGCAA
*
9411489 ATAATTTCAAAGATTCACAAATGAGATTTTAAAATTTTGCAATTGTAAAG
65 ATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
* *
9411539 ATTCATAAATAATTTCAAAGATTC-ACATGAAATTTTAAAATTTTGCGATTGTAAA-AATT-CAT
1 ATTCATAAATAATTTCAAAGATTCAAAATGAAATTTCAAAATTTTG-GATTGTAAAGAATTGCA-
* *
9411601 AGATAATTTCAAAGTTTCGCAAATGAAATTTTAAAATTT
64 A-ATAATTTCAAAGATTCACAAATGAAATTTTAAAATTT
9411640 CACATCCAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
112 2 0.02
113 22 0.25
114 42 0.48
115 21 0.24
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (114 bp):
ATTCATAAATAATTTCAAAGATTCAAAATGAAATTTCAAAATTTTGGATTGTAAAGAATTGCAAA
TAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGTAAAG
Found at i:9411652 original size:56 final size:56
Alignment explanation
Indices: 9411420--9411644 Score: 202
Period size: 58 Copynumber: 3.9 Consensus size: 56
9411410 TCAAGAGTTC
* * * * ** ***
9411420 AAAAATTCGTAAGTAATTTCAAATATTCAGAAATGAAATTTCCAAATTTTGTATTGT
1 AAAAATTCATAAATAATTTCAAAGATTC-CAAATGAAATTTTAAAATTTCACATTGT
* *** *
9411477 AAAGATTTGCAAATAATTTCAAAGATTCACAAATGAGATTTTAAAATTTTGCA-ATTGT
1 AAAAATTCATAAATAATTTCAAAGATTC-CAAATGAAATTTTAAAA-TTT-CACATTGT
* * **
9411535 AAAGATTCATAAATAATTTCAAAGATT-CACATGAAATTTTAAAATTTTGCGATTGT
1 AAAAATTCATAAATAATTTCAAAGATTCCAAATGAAATTTTAAAATTTCAC-ATTGT
* *
9411591 AAAAATTCATAGATAATTTCAAAGTTTCGCAAATGAAATTTTAAAATTTCACAT
1 AAAAATTCATAAATAATTTCAAAGATTC-CAAATGAAATTTTAAAATTTCACAT
9411645 CCAAAAATAA
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
55 3 0.02
56 44 0.32
57 39 0.28
58 52 0.38
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (56 bp):
AAAAATTCATAAATAATTTCAAAGATTCCAAATGAAATTTTAAAATTTCACATTGT
Found at i:9411658 original size:22 final size:22
Alignment explanation
Indices: 9411633--9411695 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 22
9411623 ATGAAATTTT
*
9411633 AAAATTTCACA-TCCAAAAATA
1 AAAAATTCACATTCCAAAAATA
*
9411654 AAAAATTCACATTCGAAAAATTTA
1 AAAAATTCACATTCCAAAAA--TA
*
9411678 AAAGATTCACATT-CAAAA
1 AAAAATTCACATTCCAAAA
9411696 TGAATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.29
22 7 0.20
23 4 0.11
24 14 0.40
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATTCACATTCCAAAAATA
Found at i:9411696 original size:22 final size:21
Alignment explanation
Indices: 9411630--9411696 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
9411620 CAAATGAAAT
* *
9411630 TTTAAAATTTCACATCCAAAA
1 TTTAAAAATTCACATTCAAAA
* *
9411651 ATAAAAAATTCACATTCGAAAAA
1 TTTAAAAATTCACATTC--AAAA
9411674 TTTAAAAGATTCACATTCAAAA
1 TTTAAAA-ATTCACATTCAAAA
9411696 T
1 T
9411697 GAATTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 13 0.35
22 5 0.14
23 9 0.24
24 10 0.27
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (21 bp):
TTTAAAAATTCACATTCAAAA
Found at i:9412040 original size:39 final size:38
Alignment explanation
Indices: 9411978--9412059 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
9411968 TTCATAGCCG
*
9411978 AAATCCTATCTTGAAAATTTTTCCTTAACCAAGGATCA
1 AAATCATATCTTGAAAATTTTTCCTTAACCAAGGATCA
* * *
9412016 AAATCATATCTTTGAACAA-TTTTCCTTAATCGAGGATTA
1 AAATCATATC-TTGAA-AATTTTTCCTTAACCAAGGATCA
9412055 AAATC
1 AAATC
9412060 TCATTCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 9 0.24
39 27 0.71
40 2 0.05
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (38 bp):
AAATCATATCTTGAAAATTTTTCCTTAACCAAGGATCA
Found at i:9415215 original size:12 final size:12
Alignment explanation
Indices: 9415198--9415222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9415188 TCATGTGCAC
9415198 ATGCATTCATTG
1 ATGCATTCATTG
9415210 ATGCATTCATTG
1 ATGCATTCATTG
9415222 A
1 A
9415223 AACCCTAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGCATTCATTG
Found at i:9415238 original size:14 final size:14
Alignment explanation
Indices: 9415218--9415275 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
9415208 TGATGCATTC
9415218 ATTGAAACCCTAAA
1 ATTGAAACCCTAAA
*
9415232 CTTGAAA-CCTAGAA
1 ATTGAAACCCTA-AA
*
9415246 ATTGAAACCCCAAA
1 ATTGAAACCCTAAA
* *
9415260 TTTTCAAACCCTAAA
1 -ATTGAAACCCTAAA
9415275 A
1 A
9415276 CTTAACTCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.12
14 16 0.47
15 14 0.41
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTGAAACCCTAAA
Found at i:9415371 original size:26 final size:26
Alignment explanation
Indices: 9415342--9415392 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
9415332 CTCTAAACTC
* *
9415342 TAAACCCTAAATCGAAAACCCTAAAT
1 TAAACCCTAAAACCAAAACCCTAAAT
* *
9415368 TAAACCTTAAAACCTAAACCCTAAA
1 TAAACCCTAAAACCAAAACCCTAAA
9415393 CTTTAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (26 bp):
TAAACCCTAAAACCAAAACCCTAAAT
Found at i:9415399 original size:14 final size:14
Alignment explanation
Indices: 9415279--9415399 Score: 65
Period size: 14 Copynumber: 8.6 Consensus size: 14
9415269 CCTAAAACTT
9415279 AACTCTAAACCCTA
1 AACTCTAAACCCTA
*
9415293 AATTCCATGAAACCCT-
1 AACT-C-T-AAACCCTA
* *
9415309 AACGCCTAAATCCTA
1 AAC-TCTAAACCCTA
* * *
9415324 AAATCT-TACTCTA
1 AACTCTAAACCCTA
9415337 AACTCTAAACCCTA
1 AACTCTAAACCCTA
*
9415351 AA-TCGAAAACCCTA
1 AACTC-TAAACCCTA
*
9415365 AA-T-TAAACCTTAA
1 AACTCTAAACCCT-A
9415378 AAC-CTAAACCCTA
1 AACTCTAAACCCTA
*
9415391 AACTTTAAA
1 AACTCTAAA
9415400 TTACAAATCT
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
12 6 0.08
13 18 0.23
14 40 0.51
15 4 0.05
16 4 0.05
17 7 0.09
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (14 bp):
AACTCTAAACCCTA
Found at i:9416505 original size:10 final size:9
Alignment explanation
Indices: 9416484--9416534 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
9416474 AGTGGAAATT
9416484 TAAAAAATAA
1 TAAAAAA-AA
9416494 TAAAGAAAAA
1 TAAA-AAAAA
9416504 TAAAAAAAA
1 TAAAAAAAA
9416513 TTGAAAAAAAA
1 -T-AAAAAAAA
9416524 -AAGAAAAAA
1 TAA-AAAAAA
9416533 TA
1 TA
9416535 TCTTGGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 11 0.31
10 12 0.33
11 11 0.31
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:9419701 original size:39 final size:39
Alignment explanation
Indices: 9419656--9419730 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
9419646 AAGAAAGTTT
* * * *
9419656 TCTTTTGTAGTATAGGATGAAA-GAAGTCTCGAAAGAATA
1 TCTTTTGTAATAAAAGATGAAATG-AGTCTCAAAAGAATA
9419695 TCTTTTGTAATAAAAGATGAAATGAGTCTCAAAAGA
1 TCTTTTGTAATAAAAGATGAAATGAGTCTCAAAAGA
9419731 GTTTGTGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.97
40 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (39 bp):
TCTTTTGTAATAAAAGATGAAATGAGTCTCAAAAGAATA
Found at i:9420049 original size:6 final size:7
Alignment explanation
Indices: 9420032--9420063 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9420022 GCTTTTTCCA
9420032 AAAAAAT
1 AAAAAAT
9420039 AAAAAAT
1 AAAAAAT
9420046 AAAAAAT
1 AAAAAAT
*
9420053 AAAAAAC
1 AAAAAAT
9420060 AAAA
1 AAAA
9420064 CCACTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:9420362 original size:5 final size:5
Alignment explanation
Indices: 9420349--9420392 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
9420339 GGAGGCATGT
*
9420349 AAAGA AAAGC AAAGA AAAGA AAA-A AAA-A AGAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A-AAGA AAAGA AAAGA
9420393 GATAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 6 0.17
5 27 0.77
6 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:9420403 original size:13 final size:13
Alignment explanation
Indices: 9420359--9420392 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
9420349 AAAGAAAAGC
9420359 AAAGAAAAGAA-A
1 AAAGAAAAGAAGA
9420371 AAA-AAAAGAAGA
1 AAAGAAAAGAAGA
9420383 AAAGAAAAGA
1 AAAGAAAAGA
9420393 GATAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.35
12 7 0.35
13 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAGA
Found at i:9420919 original size:26 final size:27
Alignment explanation
Indices: 9420871--9420936 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
9420861 GGAAAAGAAA
**
9420871 AAAAAGAAAA-AAAAAGAGGGAAAAT-
1 AAAAAGAAAAGAAAAAGAAAGAAAATG
9420896 AAGAAAGAAAAGAAAAA-AAAGAAAATG
1 AA-AAAGAAAAGAAAAAGAAAGAAAATG
9420923 AAAAA-AAAAGAAAA
1 AAAAAGAAAAGAAAA
9420937 TCATGTTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 11 0.31
26 18 0.50
27 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (27 bp):
AAAAAGAAAAGAAAAAGAAAGAAAATG
Found at i:9420936 original size:9 final size:9
Alignment explanation
Indices: 9420863--9420920 Score: 62
Period size: 9 Copynumber: 6.0 Consensus size: 9
9420853 CGCTCGAAGG
9420863 AAAAGAAAA
1 AAAAGAAAA
9420872 AAAAGAAAAA
1 AAAAG-AAAA
9420882 AAAAGAGGGAAA
1 AAAAGA---AAA
* *
9420894 ATAAGAAAG
1 AAAAGAAAA
9420903 AAAAGAAAA
1 AAAAGAAAA
9420912 AAAAGAAAA
1 AAAAGAAAA
9420921 TGAAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.59
10 9 0.22
12 8 0.20
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:9421723 original size:19 final size:22
Alignment explanation
Indices: 9421699--9421740 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
9421689 TTATTGGATT
9421699 AAAAAAA-T-AAAAAAA-AAGA
1 AAAAAAATTGAAAAAAACAAGA
9421718 AAAAAAATTGAAAAAAACAAGA
1 AAAAAAATTGAAAAAAACAAGA
9421740 A
1 A
9421741 TGGATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 7 0.35
22 5 0.25
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (22 bp):
AAAAAAATTGAAAAAAACAAGA
Found at i:9422346 original size:33 final size:33
Alignment explanation
Indices: 9422306--9422409 Score: 120
Period size: 33 Copynumber: 3.1 Consensus size: 33
9422296 CGGCGACATT
9422306 CGAGCTTTTACAAAATTCTTTGATGGTGATATC
1 CGAGCTTTTACAAAATTCTTTGATGGTGATATC
* * *
9422339 CGGGCTTTTGTCAAAACTT-TCTCGATGGTGATATC
1 CGAGCTTTT-ACAAAA-TTCT-TTGATGGTGATATC
* * *
9422374 CAAGCTTATACAAAATCCTTTGATGGTGATATC
1 CGAGCTTTTACAAAATTCTTTGATGGTGATATC
9422407 CGA
1 CGA
9422410 AGTTGTTTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
33 24 0.42
34 12 0.21
35 21 0.37
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (33 bp):
CGAGCTTTTACAAAATTCTTTGATGGTGATATC
Found at i:9423283 original size:97 final size:96
Alignment explanation
Indices: 9423160--9423437 Score: 256
Period size: 97 Copynumber: 2.9 Consensus size: 96
9423150 ATTTTAAAGC
* * ** * * *
9423160 TAGAG-ATTTTAAAGTGACTTGGCTATGTTAATAAAAGCATTTTTCAAAATTGATTTTTAAAGTC
1 TAGAGAATTTTAAAGTCACCTACCTATGTTTATAGAAGCATTTTTCAAAATTGATTTTTAAAGTT
*
9423224 ACTTGTATATATTTATATGAACCCTTTCTAGA
66 ACCTGTATATATTTATATGAACCCTTTCTA-A
* * * **
9423256 TAGAGAATTTTAAAGTCACCTACCTATGTTTATAGGAATC-GTTTCCAAACAAAGATTTTTAAAG
1 TAGAGAATTTTAAAGTCACCTACCTATGTTTATA-GAAGCATTTTTCAAA-ATTGATTTTTAAAG
** * * * *
9423320 TTACCTGCCTATGTTTATAAGAGCCCTTTTTAA
64 TTACCTGTATATATTTATATGAACCCTTTCTAA
** * * * *
9423353 -AGTTAACTTTTAAAATCAACTACCTATTTTTATAGGAGCATTTTTCAAAATTGATTTTTAAAGT
1 TAGAGAA-TTTTAAAGTCACCTACCTATGTTTATAGAAGCATTTTTCAAAATTGATTTTTAAAGT
* *
9423417 TACCTCTTTATATTTATATGA
65 TACCTGTATATATTTATATGA
9423438 GCTCTTCTAA
Statistics
Matches: 142, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
96 41 0.29
97 62 0.44
98 39 0.27
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (96 bp):
TAGAGAATTTTAAAGTCACCTACCTATGTTTATAGAAGCATTTTTCAAAATTGATTTTTAAAGTT
ACCTGTATATATTTATATGAACCCTTTCTAA
Found at i:9423288 original size:49 final size:49
Alignment explanation
Indices: 9423235--9423348 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
9423225 CTTGTATATA
* * * * *
9423235 TTTATATGAACCCTTTCTAGATAGAGAATTTTAAAGTCACCTACCTATG
1 TTTATAAGAACCCTTTCCAAACAAAGAATTTTAAAGTCACCTACCTATG
* * * * * *
9423284 TTTATAGGAATCGTTTCCAAACAAAGATTTTTAAAGTTACCTGCCTATG
1 TTTATAAGAACCCTTTCCAAACAAAGAATTTTAAAGTCACCTACCTATG
*
9423333 TTTATAAGAGCCCTTT
1 TTTATAAGAACCCTTT
9423349 TTAAAGTTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (49 bp):
TTTATAAGAACCCTTTCCAAACAAAGAATTTTAAAGTCACCTACCTATG
Found at i:9423337 original size:98 final size:97
Alignment explanation
Indices: 9423211--9423389 Score: 216
Period size: 98 Copynumber: 1.8 Consensus size: 97
9423201 TTTCAAAATT
* * * * *
9423211 GATTTTTAAAGTCACTTGTATATATTTATATGAACCCTTTCTAGATAGAGAA-TTTTAAAGTCAC
1 GATTTTTAAAGTCACCTGCATATATTTATAAGAACCCTTTCTA-A-AGAGAACTTTTAAAATCAA
9423275 CTACCTATGTTTATAGGAATCGTTTCCAAACAAA
64 CTACCTATGTTTATAGGAATCGTTTCCAAACAAA
* * * * * **
9423309 GATTTTTAAAGTTACCTGCCTATGTTTATAAGAGCCCTTTTTAAAGTTAACTTTTAAAATCAACT
1 GATTTTTAAAGTCACCTGCATATATTTATAAGAACCCTTTCTAAAGAGAACTTTTAAAATCAACT
*
9423374 ACCTATTTTTATAGGA
66 ACCTATGTTTATAGGA
9423390 GCATTTTTCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
96 4 0.06
97 28 0.42
98 35 0.52
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (97 bp):
GATTTTTAAAGTCACCTGCATATATTTATAAGAACCCTTTCTAAAGAGAACTTTTAAAATCAACT
ACCTATGTTTATAGGAATCGTTTCCAAACAAA
Found at i:9424241 original size:21 final size:20
Alignment explanation
Indices: 9424217--9424255 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9424207 TTGTGAAACG
9424217 TTTTAGATCATGTTTTTATAA
1 TTTTAGATCAT-TTTTTATAA
* *
9424238 TTTTTGATGATTTTTTAT
1 TTTTAGATCATTTTTTAT
9424256 GCATTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTAGATCATTTTTTATAA
Found at i:9425868 original size:7 final size:7
Alignment explanation
Indices: 9425853--9425951 Score: 55
Period size: 7 Copynumber: 14.3 Consensus size: 7
9425843 TTAAACGTTG
*
9425853 AACCATA
1 AACCCTA
9425860 AACCCTA
1 AACCCTA
*
9425867 AA-CTTCA
1 AACCCT-A
*
9425874 AA-CCTT
1 AACCCTA
*
9425880 AACCCCA
1 AACCCTA
*
9425887 AACCGTA
1 AACCCTA
9425894 AACCCT-
1 AACCCTA
*
9425900 AACTCT-
1 AACCCTA
9425906 AACCCTA
1 AACCCTA
9425913 AACCCTA
1 AACCCTA
*
9425920 AA-CTTA
1 AACCCTA
*
9425926 TACCCTA
1 AACCCTA
9425933 AACCAACCTA
1 AA-C--CCTA
9425943 AACCCTA
1 AACCCTA
9425950 AA
1 AA
9425952 ACTAATCATG
Statistics
Matches: 70, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
6 18 0.26
7 44 0.63
8 1 0.01
9 1 0.01
10 6 0.09
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:9425930 original size:20 final size:19
Alignment explanation
Indices: 9425887--9425936 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
9425877 CTTAACCCCA
*
9425887 AACCGTAAACCCTAACTCT
1 AACCCTAAACCCTAACTCT
9425906 AACCCTAAACCCTAAACT-T
1 AACCCTAAACCCT-AACTCT
9425925 ATACCCTAAACC
1 A-ACCCTAAACC
9425937 AACCTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (19 bp):
AACCCTAAACCCTAACTCT
Found at i:9432311 original size:963 final size:964
Alignment explanation
Indices: 9429788--9432929 Score: 5808
Period size: 963 Copynumber: 3.3 Consensus size: 964
9429778 TGACCTCTAT
*
9429788 ACTTTGCTCACTTTGGTCCTTGAAGACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
1 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
* * *
9429853 TTCTTCTTGGGCCTCAAATTTTGTATTTACTTAGTCAATGACTAGTTGTGAGTCATTATACACAA
66 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
* *
9429918 GAAGGCTTTTTACATTCAAGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
131 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
9429983 TCATTATTTTGAGGCCTTGAAGTCGAA-TTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
196 TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
*
9430047 TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTTAGGTT
261 TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTTAGGTC
* *
9430112 TTTTCTTTTTTCCATTTATCAACCTTTTTAAGCTATTATCAGTTTTAGTCGAGGTATACTCGATG
326 TTTTCTTTTTTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
*
9430177 ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGCGTAGGTCATATTCACT
391 ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGTGTAGGTCATATTCACT
9430242 AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
456 AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
* *
9430307 GCTAGTCAATTAGAACATTAACTTCGTTGGGCCTTGGTT-TAAATAGTACAGGGGGAGAAAAGAG
521 GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCT-AATAGTATAGGGGGAGAAAAGAG
9430371 AAACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTT
585 AAACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTT
* * * * *
9430436 AAAAATTTT-AAAAATGGCAGGCATTGATCTACTGATCCTAACATAAATTTACTTAGAGCAATAA
650 GAAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAA
* *
9430500 CTTTTTTGGTCAACTTTTGCACTTCTTTTACTAAAGTCGATGCCTTCATATCTAAGATGGTTTGA
715 CTCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTCATATCTAAGATGGTTTGA
*
9430565 ACTTTTTATGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATG
780 ACTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATG
*
9430630 ACATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATATGTTAAAGGTCTT
845 ACATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTT
9430695 TTCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAA-AACCATGTCATCA
910 TTCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAACAACCATGTCATCA
*
9430749 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATTTGGCC
1 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
*
9430814 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGACACTATACACAA
66 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
* *
9430879 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATAAATGCTTTATAGTTAGCT
131 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
* *
9430944 TTATTATTTTGAGGCCTGGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
196 TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
* *
9431009 TCAGAATTAGAACGGCCTTACTTGTTTAGTTTATATCTTACCCATTAACAAAAAGTTTTTAGGTC
261 TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTTAGGTC
9431074 TTTTCTTTTTTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
326 TTTTCTTTTTTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
*
9431139 ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGTGTAGGTCATATTCGCT
391 ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGTGTAGGTCATATTCACT
*
9431204 AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAAAATCTACTTGAGTG
456 AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
*
9431269 GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCTAATAGTATAGGGGGAGAAAAGAAA
521 GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCTAATAGTATAGGGGGAGAAAAGAGA
9431334 AACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTTG
586 AACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTTG
9431399 AAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAAC
651 AAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAAC
* **
9431464 TCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTTATATCTAAGATGGTTCAAA
716 TCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTCATATCTAAGATGGTTTGAA
*
9431529 CTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTAACATGA
781 CTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATGA
*
9431594 CATCAAATGCATATTTGCTCAAATTGAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTTT
846 CATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTTT
* *
9431659 TCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGTTCTTAACAGCCATGTCATCA
911 TCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAACAACCATGTCATCA
9431713 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
1 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
* *
9431778 TTCTTCTTGGGCTTCAAATTATGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
66 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
9431843 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
131 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
*
9431908 TCATTATTTTGAGGCTTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
196 TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
*
9431973 TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTCAGGTC
261 TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTTAGGTC
*
9432038 TTTTCTTTTGTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
326 TTTTCTTTTTTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
*
9432103 ACAAAGTCATCTAGCATTTGT-ACTTAAGAGCTGACCTAGGTAGAATGTGTAGGTCATATTCACT
391 ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGTGTAGGTCATATTCACT
*
9432167 AAGCTCAACTGCCTACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
456 AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
9432232 GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCTAATAGTATAGGGGGAGAAAAGAGA
521 GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCTAATAGTATAGGGGGAGAAAAGAGA
* *
9432297 AACATTTGAGCTTTTCAAAGGTTCTTTAGCATTGAAATATCCATCTGAAATATGAGATGTTTTTG
586 AACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTTG
9432362 AAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAAC
651 AAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAAC
9432427 TCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTCATATCTAAGATGGTTTGAA
716 TCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTCATATCTAAGATGGTTTGAA
9432492 CTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATGA
781 CTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATGA
9432557 CATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTTT
846 CATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTTT
9432622 TCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAACAACCATGTCATCA
911 TCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAACAACCATGTCATCA
9432676 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
1 ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
9432741 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
66 TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
9432806 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
131 TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
9432871 TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTG
196 TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTG
9432930 CGTTTTGAAT
Statistics
Matches: 2108, Mismatches: 69, Indels: 6
0.97 0.03 0.00
Matches are distributed among these distances:
961 210 0.10
962 420 0.20
963 1068 0.51
964 410 0.19
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (964 bp):
ACTTTGCTCACTTTGGTCCTTGAAAACATGGTCAAGTGTGCCAGTGTTATGGATAAGATCTGGCC
TTCTTCTTGGGCCTCAAATTCTGCATTTACTTAGTCAATGACTAGTTGTGAGTCACTATACACAA
TAAGGCTTTTTACATTCAGGTTGGTAACTAGTCTCAAGTCAATGATCAATGCTTTATATTTAGCT
TCATTATTTTGAGGCCTTGAAGTCGAACTTTAGAACATACTAGAACTGTACATTTTTTGGGTTGA
TCAGAATTAGAACGGCCCTACTTGTTTAGTTTATAACTTACCCATTAACAAAAAGTTTTTAGGTC
TTTTCTTTTTTCCATTTATCAACCTTTTCAAGCTATTATCAGTTTCAGTCGAGGTATACTCGATG
ACAAAGTCATCTAGCATTTGTGACTTAAGAGCTGACCTAGGCAGAATGTGTAGGTCATATTCACT
AAGCTCAACTGCCCACTTGATCAATCTTTTTGATAGTTCAAGTTTTTGTAGAATCTACTTGAGTG
GCTAGTCAGTTAGAACATTAACTTCGTTGGGCCTTGGTTCTAATAGTATAGGGGGAGAAAAGAGA
AACATTTGAGCTTTTTAAAGGTTCTTTAGCATTGAAATATCCATATGAAATATGAGATGTTTTTG
AAATTTTTAAAAAATGGCAAGCATTGATCTACTGATCCCAACATAAATTTGCTTAGAGCAATAAC
TCTTTTGGTCAACTTTTGCACTTCTTTTACTAAGGTCGATGCCTTCATATCTAAGATGGTTTGAA
CTTTTTGTGATTTACCTCTATCCCCTTTTAGTTGATCATGTAACCGAGTAACTTGCCTGACATGA
CATCAAATGCATATTTGCTCAAATTAAGCCTCATGTTATACTTTCAAAATGTGTTAAAGGTCTTT
TCTAAATCCTTTAGGTGCATGGCCAAGCTTTTGCTCTTAACAACCATGTCATCA
Found at i:9433307 original size:13 final size:14
Alignment explanation
Indices: 9433289--9433321 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9433279 CAACATGTAG
*
9433289 AAATTAGATAGA-A
1 AAATTACATAGAGA
9433302 AAATTACATAGAGA
1 AAATTACATAGAGA
9433316 AAATTA
1 AAATTA
9433322 TACAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (14 bp):
AAATTACATAGAGA
Done.