Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 40 of 279
Found at i:13442894 original size:24 final size:25
Alignment explanation
Indices: 13442788--13442881 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
13442778 AGGAAGTGCT
*
13442788 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
13442813 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
13442838 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
13442862 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
13442882 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13443150 original size:31 final size:31
Alignment explanation
Indices: 13443091--13443270 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
13443081 GGGCCATACC
* * *
13443091 ATTTATAGTAAAGGCTTC-GACCAATGATATG
1 ATTTAT-GAAAAGGCTTCGGCCCAGTGATATG
13443122 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
* *
13443153 ATTTATGATAAGGCTTCAGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
13443184 ATTTATGATAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
* *
13443215 ATTTATGATAAGGCTTCGGCCTAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
* *
13443246 TTTTATGAAAAGGCTTCGGCTCAGT
1 ATTTATGAAAAGGCTTCGGCCCAGT
13443271 AACCGTTAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
30 10 0.07
31 127 0.93
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGATATG
Found at i:13446225 original size:37 final size:37
Alignment explanation
Indices: 13446162--13446299 Score: 215
Period size: 37 Copynumber: 3.8 Consensus size: 37
13446152 AGCTCAGACG
* * *
13446162 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
13446199 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
13446236 TAATCTCCACACATAGTCATCGGG-CTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
13446272 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
13446300 TAGAGCTCGG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 35 0.37
37 59 0.63
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:13446283 original size:73 final size:74
Alignment explanation
Indices: 13446163--13446299 Score: 224
Period size: 73 Copynumber: 1.9 Consensus size: 74
13446153 GCTCAGACGA
* *
13446163 AATCTCCACACGAAGTTATCAGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCAGGGCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
13446228 CCCGGACAT
66 CCCGGACAT
*
13446237 AATCTCCACAC-ATAGTCATC-GGGCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGA-AGTCATCAGGGCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
13446300 TAGAGCTCGG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
73 42 0.71
74 17 0.29
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCAGGGCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
CCCGGACAT
Found at i:13446774 original size:96 final size:96
Alignment explanation
Indices: 13446560--13447662 Score: 2084
Period size: 96 Copynumber: 11.5 Consensus size: 96
13446550 ATCGAAGCTT
* * * *
13446560 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
* *
13446625 AGGCTTTATCAC--ATATATACGCTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
* * *
13446654 TTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13446719 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13446750 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13446815 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13446846 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13446911 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13446942 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447007 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447038 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447103 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447134 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447199 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447230 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447295 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447326 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447391 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447422 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447487 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
13447518 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
13447583 AGGCCTTATCACATATATATACACTTTCACA
66 AGGCCTTATCACATATATATACACTTTCACA
* * *
13447614 TTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
13447663 TATTCAAATA
Statistics
Matches: 996, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
94 73 0.07
96 923 0.93
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATT
AGGCCTTATCACATATATATACACTTTCACA
Found at i:13450300 original size:27 final size:26
Alignment explanation
Indices: 13450270--13451363 Score: 483
Period size: 27 Copynumber: 40.7 Consensus size: 26
13450260 TTAGTTTACC
13450270 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
*
13450297 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
* *
13450324 AAATCACCAAAATACCCCTGGTTTCTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
*
13450351 AAATTACCAAAATACCCTTGTTT-TACA
1 AAATTACCAAAATACCCTGGTTTGT--A
*
13450378 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
13450405 AAATTACC-AAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
13450431 AAACTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* * * *
13450458 AAATTATCAAAATAACCTTAGTTTGCA
1 AAATTACCAAAAT-ACCCTGGTTTGTA
* * *
13450485 AAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATA-CCCTGGTTTGTA
** **
13450512 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
** **
13450539 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* * *
13450566 AAATTACCAAAGTACCCTCGATT-TA
1 AAATTACCAAAATACCCTGGTTTGTA
***** * *
13450591 CATAATTACTGTTTTACCCTCGATT-TA
1 -A-AATTACCAAAATACCCTGGTTTGTA
* **** * *
13450618 CAGAATTATCGTTTTACCCTCGATTTATA
1 -A-AATTACCAAAATACCCT-GGTTTGTA
* * *** * *
13450647 GAATTACTATTTTACCCTCGATT-TA
1 AAATTACCAAAATACCCTGGTTTGTA
***** * **
13450672 CAGAATTACTGTTTTACCCTCGATTTACA
1 -A-AATTACCAAAATACCCT-GGTTTGTA
* * **
13450701 AAATTACTAAAATACCCTTGTATTACA
1 AAATTACCAAAATACCCTGGT-TTGTA
* **
13450728 AAATTACCAAAATACCCTCGATCAGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* *
13450755 AAATTACCAAATTACCCTGGTCTGTA
1 AAATTACCAAAATACCCTGGTTTGTA
*
13450781 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
13450808 AAATTACCATAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
13450835 AAATTACCAAAATACTACTGGTTTGTG
1 AAATTACCAAAATAC-CCTGGTTTGTA
**
13450862 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*
13450889 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
* * *
13450916 AAATTACCAAAATACCCTGATTTCTG
1 AAATTACCAAAATACCCTGGTTTGTA
** ****
13450942 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
** **
13450969 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* * *
13450996 AAATTACCAAAGTACCCTCGATT-TA
1 AAATTACCAAAATACCCTGGTTTGTA
***** * *
13451021 CATAATTACTGTTTTACCCTCGATTTATA
1 -A-AATTACCAAAATACCCT-GGTTTGTA
* * **** * *
13451050 GAATTATCGTTTTACCCTTGATTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
* * *** * *
13451077 GAATTACTATTTTACCCTTGATT-TA
1 AAATTACCAAAATACCCTGGTTTGTA
***** * **
13451102 CAGAATTACTGTTTTACCCTCGATTTACA
1 -A-AATTACCAAAATACCCT-GGTTTGTA
* * **
13451131 AAATTACTAAAATACCCTTGTATTACA
1 AAATTACCAAAATACCCTGGT-TTGTA
* **
13451158 AAATTACCAAAATACCCTCGATCAGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* * *
13451185 AAATTAGCAAATTACCCTGGTCTGTA
1 AAATTACCAAAATACCCTGGTTTGTA
*
13451211 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
* *
13451238 AAATTACCATAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
13451265 AAATTACCAAAATACCACTAGTTTGTG
1 AAATTACCAAAATACC-CTGGTTTGTA
**
13451292 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* ** **
13451319 AAATTACCAAAATGCCCCTAATTTACA
1 AAATTACCAAAAT-ACCCTGGTTTGTA
*
13451346 AAATTACAAAAATACCCT
1 AAATTACCAAAATACCCT
13451364 TGACTTTCTA
Statistics
Matches: 861, Mismatches: 164, Indels: 85
0.78 0.15 0.08
Matches are distributed among these distances:
25 9 0.01
26 118 0.14
27 697 0.81
28 30 0.03
29 7 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:13451075 original size:430 final size:433
Alignment explanation
Indices: 13450541--13451390 Score: 1537
Period size: 430 Copynumber: 2.0 Consensus size: 433
13450531 GACTTGTAAA
13450541 ATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACATAATTACTGTTTT
1 ATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACATAATTACTGTTTT
13450606 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTT
66 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTT
13450671 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGTATTACAAAATTACC
131 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGTATTACAAAATTACC
13450736 AAAATACCCTCGATCAGTAAAATTACCAAATTACCCTGGTCTGTAAAATTACTAAAATACCCCTG
196 AAAATACCCTCGATCAGTAAAATTACCAAATTACCCTGGTCTGTAAAATTACTAAAATACCCCTG
* *
13450801 GTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAAAATACTACTGGTTTGTGAAAT
261 GTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAAT
* * ** *
13450866 TACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATAC
326 TACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATAC
*
13450931 CC-TGA-TTTCT-GAAATTACT-GAAATACCCTCAACCTGTAAA
391 CCTTGACTTTCTAAAAATTA-TAGAAATACCCTCAACCTGTAAA
13450971 ATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACATAATTACTGTTTT
1 ATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACATAATTACTGTTTT
* * *
13451036 ACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
66 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTT
13451101 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGTATTACAAAATTACC
131 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGTATTACAAAATTACC
* *
13451166 AAAATACCCTCGATCAGTAAAATTAGCAAATTACCCTGGTCTGTAAAATTACTAAAATACCCTTG
196 AAAATACCCTCGATCAGTAAAATTACCAAATTACCCTGGTCTGTAAAATTACTAAAATACCCCTG
13451231 GTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAAT
261 GTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAAT
*
13451296 TACCAAAATACCCTCAATTTGTAAAATTACCAAAATGCCCCTAATTTACAAAATTACAAAAATAC
326 TACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATAC
13451361 CCTTGACTTTCTAAAAATTATAGAAATACC
391 CCTTGACTTTCTAAAAATTATAGAAATACC
13451391 ATTGGTTTGT
Statistics
Matches: 402, Mismatches: 14, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
430 379 0.94
431 3 0.01
432 6 0.01
433 14 0.03
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (433 bp):
ATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACATAATTACTGTTTT
ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTT
ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGTATTACAAAATTACC
AAAATACCCTCGATCAGTAAAATTACCAAATTACCCTGGTCTGTAAAATTACTAAAATACCCCTG
GTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAAT
TACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATAC
CCTTGACTTTCTAAAAATTATAGAAATACCCTCAACCTGTAAA
Found at i:13451241 original size:80 final size:80
Alignment explanation
Indices: 13451130--13451336 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
13451120 CTCGATTTAC
** *
13451130 AAAATTACTAAAATACCCTTGTATTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTAGCA
1 AAAATTACTAAAATACCCTTGT-TTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
* *
13451194 AATTACC-CTGGTCTGT
64 AAATACCACTAGTCTGT
* * **
13451210 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTT-GTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
13451275 AATACCACTAGTTTGT
65 AATACCACTAGTCTGT
* * ** *
13451291 GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATGCCCC
1 AAAATTACTAAAATACCCT-TGTTTGTAAAATTACCAAAATACCCC
13451337 TAATTTACAA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 57 0.53
81 48 0.45
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTAGTCTGT
Found at i:13451482 original size:27 final size:27
Alignment explanation
Indices: 13451439--13451512 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
13451429 AAATGACTAA
*
13451439 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
13451466 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
13451493 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
13451513 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:13451516 original size:27 final size:27
Alignment explanation
Indices: 13451452--13451516 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
13451442 ACCCCTATTA
*
13451452 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
13451479 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
13451506 GGTAAAATGAC
1 GGTAAAATGAC
13451517 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:13454103 original size:56 final size:56
Alignment explanation
Indices: 13454017--13454151 Score: 225
Period size: 56 Copynumber: 2.4 Consensus size: 56
13454007 CCATGGCATC
* * *
13454017 GATATATGTGTGTGAGTAAGACCACGTTTAATTTGTTGGCATCGATTTGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
* *
13454073 GATATATTTGTGCGAGTATGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
13454129 GATATATGTGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
13454152 CTGTCTGGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
Found at i:13457048 original size:15 final size:15
Alignment explanation
Indices: 13457028--13457057 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13457018 CAACACTTGT
13457028 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
13457043 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
13457058 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:13463218 original size:16 final size:15
Alignment explanation
Indices: 13463196--13463230 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13463186 CTATGGAAGT
13463196 GGGAAAGAGGAACAA
1 GGGAAAGAGGAACAA
*
13463211 GNGGAAAGAGTAACAA
1 G-GGAAAGAGGAACAA
13463227 GGGA
1 GGGA
13463231 CTTTGTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.49, C:0.06, G:0.40, T:0.03
Consensus pattern (15 bp):
GGGAAAGAGGAACAA
Found at i:13465228 original size:22 final size:22
Alignment explanation
Indices: 13465200--13465245 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13465190 AGCCGAAAAA
13465200 CCATAGATTTGGGGGCTTATAG
1 CCATAGATTTGGGGGCTTATAG
13465222 CCATAGATTTGGGGGCTTATAG
1 CCATAGATTTGGGGGCTTATAG
13465244 CC
1 CC
13465246 GAAACTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (22 bp):
CCATAGATTTGGGGGCTTATAG
Found at i:13472466 original size:39 final size:40
Alignment explanation
Indices: 13472394--13472643 Score: 258
Period size: 40 Copynumber: 6.3 Consensus size: 40
13472384 ACCCAATTAT
* * ** * *
13472394 CTTCAGGATTTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
13472432 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
13472472 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
13472512 CTTCAGGACTTAGCCCGGA-ATTAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
* * *
13472552 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
* * *
13472592 CTTTGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
13472632 CTTCGGGACTTA
1 CTTCGGGACTTA
13472644 ACCCCGTTAG
Statistics
Matches: 183, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 9 0.05
39 19 0.10
40 153 0.84
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:13472488 original size:40 final size:40
Alignment explanation
Indices: 13472434--13472643 Score: 280
Period size: 40 Copynumber: 5.2 Consensus size: 40
13472424 CACAAGGCCG
* * *
13472434 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
*
13472474 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
* *
13472514 TCAGGACTTAGCCCGGAATTAGTAACTTGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
* *
13472554 TCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
* * * *
13472594 TTGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
13472634 TCGGGACTTA
1 TCGGGACTTA
13472644 ACCCCGTTAG
Statistics
Matches: 153, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 151 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
Found at i:13480555 original size:39 final size:40
Alignment explanation
Indices: 13480483--13480732 Score: 267
Period size: 40 Copynumber: 6.3 Consensus size: 40
13480473 ACCCAATTAT
* * ** * *
13480483 CTTCAGGATTTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
13480521 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
13480561 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
13480601 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
* * *
13480641 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
* * *
13480681 CTTCGGGACTTAGCCCGGA-ATTAATCCCTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
13480721 CTTCGGGACTTA
1 CTTCGGGACTTA
13480733 ACCCCGTTAG
Statistics
Matches: 188, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 9 0.05
39 19 0.10
40 158 0.84
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:13480577 original size:40 final size:40
Alignment explanation
Indices: 13480523--13480732 Score: 298
Period size: 40 Copynumber: 5.2 Consensus size: 40
13480513 CACAAGGCCG
* * * *
13480523 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
13480563 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
13480603 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
*
13480643 TCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
* ** * *
13480683 TCGGGACTTAGCCCGGAATTAATCCCTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
13480723 TCGGGACTTA
1 TCGGGACTTA
13480733 ACCCCGTTAG
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 156 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
Found at i:13480871 original size:22 final size:22
Alignment explanation
Indices: 13480843--13480888 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13480833 CATTCCCATT
13480843 TTCGGTTTGCTTCATGACATGA
1 TTCGGTTTGCTTCATGACATGA
13480865 TTCGGTTTGCTTCATGACATGA
1 TTCGGTTTGCTTCATGACATGA
13480887 TT
1 TT
13480889 TCTATGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (22 bp):
TTCGGTTTGCTTCATGACATGA
Found at i:13482881 original size:93 final size:93
Alignment explanation
Indices: 13482624--13482883 Score: 297
Period size: 93 Copynumber: 2.8 Consensus size: 93
13482614 AGCTGTTACA
* * * * * *
13482624 ATAGCAGATTACCGCATTGCACTATACCGCACGTACGTTAGCTGTGCTACATACTATTGGCTGAA
1 ATAGCAGATTACCGCATTGCACTGTACCGCAAGTACATTAGCTGCGCTACGTACTATTGACTGAA
* *
13482689 CTGACAGTTTTACTGCAAACCTATCGGT
66 CTGGCAGTTTCACTGCAAACCTATCGGT
* * * * * * *
13482717 ATAGCAGATTACCGCATTGCACTGTACCGTATGTATATTAGCTGCACAATGTA-TCATTGACAGA
1 ATAGCAGATTACCGCATTGCACTGTACCGCAAGTACATTAGCTGCGCTACGTACT-ATTGACTGA
* *
13482781 ACAGGCAGTTTCACTGCAAATCTATCGGT
65 ACTGGCAGTTTCACTGCAAACCTATCGGT
* * * * *
13482810 ATAGCGGATTACCGCATTACACTGTACCGCAAGTACATTAGCTACGCTACGTACTATTGTCTGAT
1 ATAGCAGATTACCGCATTGCACTGTACCGCAAGTACATTAGCTGCGCTACGTACTATTGACTGAA
*
13482875 TTGGCAGTT
66 CTGGCAGTT
13482884 CATACTACTT
Statistics
Matches: 135, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
92 1 0.01
93 133 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (93 bp):
ATAGCAGATTACCGCATTGCACTGTACCGCAAGTACATTAGCTGCGCTACGTACTATTGACTGAA
CTGGCAGTTTCACTGCAAACCTATCGGT
Found at i:13491071 original size:27 final size:27
Alignment explanation
Indices: 13491030--13491175 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
13491020 TGGATAAGTT
*
13491030 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
13491057 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
13491084 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
13491111 ATAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
13491138 GTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
13491165 GTAAAATTACC
1 GTAGAATTACC
13491176 ATTTTGTCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:13491974 original size:27 final size:26
Alignment explanation
Indices: 13491922--13491981 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
13491912 ATATATATAT
*
13491922 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
13491948 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
13491975 ATATCTG
1 ATATCTG
13491982 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:13493365 original size:29 final size:29
Alignment explanation
Indices: 13493323--13493383 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
13493313 AGAGGTAGCG
13493323 TCTCATGATCGAGGTGCCGGGGACGACGC
1 TCTCATGATCGAGGTGCCGGGGACGACGC
*
13493352 TCTCATGATCGAGGTGTCGGGGACGACGC
1 TCTCATGATCGAGGTGCCGGGGACGACGC
13493381 TCT
1 TCT
13493384 GTCCCAGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.21
Consensus pattern (29 bp):
TCTCATGATCGAGGTGCCGGGGACGACGC
Found at i:13497748 original size:27 final size:27
Alignment explanation
Indices: 13497710--13497854 Score: 218
Period size: 27 Copynumber: 5.4 Consensus size: 27
13497700 TGGATAAGTT
* *
13497710 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
13497737 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
13497764 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
13497791 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
13497818 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
13497845 GTAGAATTAC
1 GTAGAATTAC
13497855 CAAGATACCC
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:13497785 original size:54 final size:53
Alignment explanation
Indices: 13497710--13497878 Score: 241
Period size: 54 Copynumber: 3.2 Consensus size: 53
13497700 TGGATAAGTT
* * *
13497710 GTAGAATTATTGAAATACCCCTATAGGGTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCTTGTAGG
*
13497764 GTAGAATTACTGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCTTGTAGG
* * *
13497818 GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCAAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACGAA-ATACCCTTGTAGG
13497872 GTA-AATT
1 GTAGAATT
13497879 TACCATTTTG
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
53 6 0.06
54 98 0.94
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (53 bp):
GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACGAAATACCCTTGTAGG
Found at i:13497862 original size:27 final size:26
Alignment explanation
Indices: 13497722--13497883 Score: 164
Period size: 27 Copynumber: 6.0 Consensus size: 26
13497712 AGAATTATTG
* **
13497722 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTA-CC
* *
13497749 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTAC-C
*
13497776 AAATACCCCTGTAGGATAGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
* * *
13497802 GAAATACCCTTGTAGGGTAGAAATACTG
1 -AAATACCCCTGTAGGGTAGAATTAC-C
13497830 AAATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
* *
13497856 AAGATACCCTTGTGGGGTA-AATTTACC
1 AA-ATACCCCTGTAGGGTAGAA-TTACC
13497883 A
1 A
13497884 TTTTGCCCCT
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.03
27 111 0.97
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
AAATACCCCTGTAGGGTAGAATTACC
Found at i:13498578 original size:27 final size:26
Alignment explanation
Indices: 13498534--13498585 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13498524 CTTGCTGCAA
*
13498534 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
13498561 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
13498586 ACAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:13500258 original size:34 final size:33
Alignment explanation
Indices: 13500211--13500277 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
13500201 CATCATTAGC
*
13500211 GGTTCAGGACTAAACCGAGAACTCACGAAAATT
1 GGTTCAGGACTAAACCGAGAACTCACAAAAATT
* **
13500244 NGGTTCAGGGCTAAACTTAGAACTCACAAAAATT
1 -GGTTCAGGACTAAACCGAGAACTCACAAAAATT
13500278 ATAAGAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.21
Consensus pattern (33 bp):
GGTTCAGGACTAAACCGAGAACTCACAAAAATT
Found at i:13503096 original size:24 final size:25
Alignment explanation
Indices: 13503047--13503099 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
13503037 TTTTTGTTTG
* *
13503047 ACTGAAATAATTGATTGACTGATCA
1 ACTGAAATAATTCACTGACTGATCA
13503072 ACTGAAAT-ATTCACTGACT-ATTCA
1 ACTGAAATAATTCACTGACTGA-TCA
13503096 ACTG
1 ACTG
13503100 GAAGTGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.64
25 8 0.32
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (25 bp):
ACTGAAATAATTCACTGACTGATCA
Found at i:13504988 original size:5 final size:5
Alignment explanation
Indices: 13504978--13505006 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13504968 TTTTAACAAG
13504978 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
13505007 TGAGTTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:13508643 original size:62 final size:59
Alignment explanation
Indices: 13508530--13508646 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
13508520 ATTATTTTAA
* * * * *
13508530 TATTAAATTAATACAATATTTATGAAGATAAATATTAGATTAAGTTTAATATTAAATAT
1 TATTAAAATAATACAATATTTATCAAGATAAACATAAAATTAAGTTTAATATTAAATAT
* *
13508589 TATTAAAATAATAGAATATTTATCTACAAGATAAACATAAAATTAATTTTAATATTAA
1 TATTAAAATAATACAATATTTA--T-CAAGATAAACATAAAATTAAGTTTAATATTAA
13508647 GATAATCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.42
61 1 0.02
62 27 0.56
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATACAATATTTATCAAGATAAACATAAAATTAAGTTTAATATTAAATAT
Found at i:13513419 original size:40 final size:40
Alignment explanation
Indices: 13513325--13513468 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
13513315 TACTCGTATG
*
13513325 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
13513366 ACATCCGGACTAAGAT-CTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
13513406 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
13513446 ATATCC-GGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
13513469 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.18
40 43 0.49
41 27 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:13522103 original size:70 final size:74
Alignment explanation
Indices: 13522014--13522161 Score: 223
Period size: 76 Copynumber: 2.0 Consensus size: 74
13522004 TTTTTTTATA
* *
13522014 TAAAATCTATAATAGAAACTATATAA-TTTT-T-A-GTAATAATATGACATAACATAATATTATA
1 TAAAATCTAAAATAGAAACTATATAATTTTTATAATATAATAATATGACATAACATAATATTATA
13522075 CACGTTGCT
66 CACGTTGCT
13522084 TAAAATCTAAAATAGAAACTATATAATTTTTAATAATTATAATAATATGACATAACATAATATTA
1 TAAAATCTAAAATAGAAACTATATAATTTTT-ATAA-TATAATAATATGACATAACATAATATTA
*
13522149 TACAGGTTGCT
64 TACACGTTGCT
13522160 TA
1 TA
13522162 CTTTTAAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
70 25 0.36
71 4 0.06
73 1 0.01
74 1 0.01
76 38 0.55
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (74 bp):
TAAAATCTAAAATAGAAACTATATAATTTTTATAATATAATAATATGACATAACATAATATTATA
CACGTTGCT
Found at i:13526962 original size:40 final size:41
Alignment explanation
Indices: 13526878--13527062 Score: 229
Period size: 40 Copynumber: 4.6 Consensus size: 41
13526868 TCGAATGATG
* * *
13526878 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
13526918 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
13526958 TCCGGGCTAAG-CCCGAAGGAATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
13526997 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
13527037 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13527063 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 36 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:13527084 original size:79 final size:78
Alignment explanation
Indices: 13526915--13527085 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 78
13526905 CTAAGTGACC
* *
13526915 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGAAT
1 ATATCCGG-TTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAAT
**
13526980 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * * *
13526994 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGA
*
13527058 ATTTGAACGAG-TAGCT
63 ATTGGAACGAGTTA-CT
13527074 ATATCCGGTTAA
1 ATATCCGGTTAA
13527086 ATTCTGAAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 51 0.65
80 25 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
ATATCCGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAATT
GGAACGAGTTACT
Found at i:13536024 original size:47 final size:47
Alignment explanation
Indices: 13535973--13536226 Score: 364
Period size: 47 Copynumber: 5.3 Consensus size: 47
13535963 GTGAATGTAC
*
13535973 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
13536020 ATATATGTGATAAGGCCTAATGGAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCC---T--AATGGCCGATGTGATGAATGTGAAAGTGT
*
13536072 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
13536119 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
13536166 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
13536213 ATAAATGTGATAAG
1 ATATATGTGATAAG
13536227 TCCCGAAGGG
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
47 140 0.75
49 1 0.01
50 1 0.01
52 45 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:13540316 original size:12 final size:12
Alignment explanation
Indices: 13540299--13540325 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13540289 ATTCCGAAGT
13540299 ATATATATATAC
1 ATATATATATAC
13540311 ATATATATATAC
1 ATATATATATAC
13540323 ATA
1 ATA
13540326 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:13540840 original size:27 final size:27
Alignment explanation
Indices: 13540809--13540986 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13540799 TAAATTGTAC
13540809 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13540836 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13540862 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13540890 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13540918 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13540945 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13540972 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13540987 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13540923 original size:82 final size:81
Alignment explanation
Indices: 13540810--13540965 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13540800 AAATTGTACA
* *
13540810 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13540874 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13540891 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13540956 TGCGAGTTGA
65 TGCGAATTGA
13540966 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13540977 original size:82 final size:81
Alignment explanation
Indices: 13540806--13540986 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13540796 GATTAAATTG
* *
13540806 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13540871 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13540887 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13540951 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13540969 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13540987 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13552098 original size:40 final size:41
Alignment explanation
Indices: 13552002--13552106 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
13551992 CGAATGATGT
*
13552002 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
13552042 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
13552082 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13552107 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:13553763 original size:100 final size:100
Alignment explanation
Indices: 13553590--13553790 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
13553580 AATGTAGCTA
13553590 TGGTCTTACACCTTCAACCTCTTAGAGGTGTCACTTCAAAGGACCTTATCGTCGTCGCAGTGTCG
1 TGGTCTTACACCTTCAACCTCTTAGAGGTGTCACTTCAAAGGACCTTATCGTCGTCGCAGTGTCG
13553655 CCCCATAGAGCCTTTTGACCGTCATTATGGTGTTG
66 CCCCATAGAGCCTTTTGACCGTCATTATGGTGTTG
13553690 TGGTCTTACACCTTCAACCTCTTAGAGGTGTCACTTCAAAGGACCTTATCGTCGTCGCAGTGTCG
1 TGGTCTTACACCTTCAACCTCTTAGAGGTGTCACTTCAAAGGACCTTATCGTCGTCGCAGTGTCG
13553755 CCCCATAGAGCCTTTTGACCGTCATTATGGTGTTG
66 CCCCATAGAGCCTTTTGACCGTCATTATGGTGTTG
13553790 T
1 T
13553791 TCGATGGAAC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (100 bp):
TGGTCTTACACCTTCAACCTCTTAGAGGTGTCACTTCAAAGGACCTTATCGTCGTCGCAGTGTCG
CCCCATAGAGCCTTTTGACCGTCATTATGGTGTTG
Found at i:13555836 original size:102 final size:102
Alignment explanation
Indices: 13555660--13555860 Score: 402
Period size: 102 Copynumber: 2.0 Consensus size: 102
13555650 GGTTTTTTCC
13555660 AAAAATCTTTCAGATTTGGTCAGAACAAATTTGGAAAATTCTGGTTAGAGATTGAGGAATGGGGT
1 AAAAATCTTTCAGATTTGGTCAGAACAAATTTGGAAAATTCTGGTTAGAGATTGAGGAATGGGGT
13555725 GTAGTGATCTACTCTTTTTGGTTTACTAGTATGAAAA
66 GTAGTGATCTACTCTTTTTGGTTTACTAGTATGAAAA
13555762 AAAAATCTTTCAGATTTGGTCAGAACAAATTTGGAAAATTCTGGTTAGAGATTGAGGAATGGGGT
1 AAAAATCTTTCAGATTTGGTCAGAACAAATTTGGAAAATTCTGGTTAGAGATTGAGGAATGGGGT
13555827 GTAGTGATCTACTCTTTTTGGTTTACTAGTATGA
66 GTAGTGATCTACTCTTTTTGGTTTACTAGTATGA
13555861 CGCATATAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (102 bp):
AAAAATCTTTCAGATTTGGTCAGAACAAATTTGGAAAATTCTGGTTAGAGATTGAGGAATGGGGT
GTAGTGATCTACTCTTTTTGGTTTACTAGTATGAAAA
Found at i:13556113 original size:17 final size:18
Alignment explanation
Indices: 13556079--13556113 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13556069 TTTAGATTTT
13556079 TTTTTTCAAATATCATTAC
1 TTTTTTCAAATA-CATTAC
13556098 TTTTTTCAAATA-ATTA
1 TTTTTTCAAATACATTA
13556114 ATTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTCAAATACATTAC
Found at i:13556731 original size:16 final size:17
Alignment explanation
Indices: 13556699--13556731 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13556689 ATAATTTTTT
*
13556699 ATTTTTTTAATAGTTAA
1 ATTTTTTAAATAGTTAA
13556716 ATTTTTTAAATA-TTAA
1 ATTTTTTAAATAGTTAA
13556732 TATAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTTTAAATAGTTAA
Found at i:13556739 original size:22 final size:23
Alignment explanation
Indices: 13556705--13556752 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13556695 TTTTATTTTT
*
13556705 TTAATAGTTAAATT-TTTTAAATA
1 TTAATAGTAAAATTATTTTAAA-A
13556728 TTAATA-TAAAATTATTTTAAAA
1 TTAATAGTAAAATTATTTTAAAA
13556750 TTA
1 TTA
13556753 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATAGTAAAATTATTTTAAAA
Found at i:13559571 original size:31 final size:31
Alignment explanation
Indices: 13559533--13559611 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
13559523 TTTAACGGTT
* *
13559533 ACTGGGCCAAAGCCTTTTCATAAATTATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
13559564 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
13559595 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
13559612 ACAATAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:13559844 original size:25 final size:25
Alignment explanation
Indices: 13559816--13559889 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
13559806 TCTGGAGGCC
13559816 TAGCCTCTTTTAATAACTGGGGCAA
1 TAGCCTCTTTTAATAACTGGGGCAA
*
13559841 TAGCCTCTTTTAATAACTAGGGCAA
1 TAGCCTCTTTTAATAACTGGGGCAA
13559866 -AGCC-CTTTTCAATAAACTGGGGCA
1 TAGCCTCTTTT-AAT-AACTGGGGCA
13559890 TAAGCCCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.11
24 7 0.16
25 33 0.73
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
TAGCCTCTTTTAATAACTGGGGCAA
Found at i:13559899 original size:26 final size:26
Alignment explanation
Indices: 13559817--13560010 Score: 202
Period size: 26 Copynumber: 7.3 Consensus size: 26
13559807 CTGGAGGCCT
13559817 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
13559841 TAGCCTCTTTT-AAT-AACTAGGGCA-A
1 -AGCC-CTTTTCAATAAACTGGGGCATA
13559866 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
13559892 AGCCCTTTTCGGTAAACTGGGGCATAA
1 AGCCCTTTTCAATAAACTGGGGCAT-A
*
13559919 GCTTATGCCCTTTTCAATAAACTAGGGCATA
1 ----A-GCCCTTTTCAATAAACTGGGGCATA
***
13559950 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
13559976 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
13560002 AGCCCTTTT
1 AGCCCTTTT
13560011 GCACTTCCTC
Statistics
Matches: 146, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.03
24 7 0.05
25 32 0.22
26 77 0.53
27 2 0.01
31 2 0.01
32 21 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:13559957 original size:58 final size:52
Alignment explanation
Indices: 13559855--13560010 Score: 224
Period size: 58 Copynumber: 2.9 Consensus size: 52
13559845 CTCTTTTAAT
*
13559855 AACTAGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
* *
13559906 AACTGGGGCATAAGCTTATGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCAT-A----A-GCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
13559964 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
13560011 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
51 9 0.10
52 33 0.35
53 2 0.02
57 2 0.02
58 48 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:13559995 original size:84 final size:81
Alignment explanation
Indices: 13559847--13560004 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 81
13559837 GCAATAGCCT
**
13559847 CTTTTAATAACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGG
1 CTTTTAATAACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
13559912 GGCATAAGCTTATGCC
66 GGCATAAGCTTATGCC
***
13559928 CTTTTCAATAAACTAGGGCATAAGCCCTTTTTGGTAAACTGGGGCATAAGCCCTTTTCAATAAAC
1 CTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAAC
13559993 TGGGGCATAAGC
63 TGGGGCATAAGC
13560005 CCTTTTGCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 5 0.07
82 3 0.04
83 10 0.14
84 51 0.74
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (81 bp):
CTTTTAATAACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
GGCATAAGCTTATGCC
Found at i:13575865 original size:40 final size:40
Alignment explanation
Indices: 13575788--13576044 Score: 448
Period size: 40 Copynumber: 6.5 Consensus size: 40
13575778 AAACCAAGTA
* *
13575788 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
13575827 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13575867 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13575907 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13575947 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
13575987 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13576027 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13576045 TTATCAATCC
Statistics
Matches: 211, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
39 24 0.11
40 187 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13584568 original size:40 final size:40
Alignment explanation
Indices: 13584487--13584663 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
13584477 AAACCAAGTA
** *
13584487 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
13584526 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13584566 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
13584606 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13584645 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13584664 TTATCATNNN
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.38
40 76 0.61
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13584640 original size:79 final size:80
Alignment explanation
Indices: 13584487--13584663 Score: 245
Period size: 79 Copynumber: 2.2 Consensus size: 80
13584477 AAACCAAGTA
** * *
13584487 CCTTCGGGGTTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
13584551 TAACTCGCACAATTG
66 TAACTAGCACAAATG
13584566 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
13584628 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
13584645 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13584664 TTATCATNNN
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:13589764 original size:29 final size:29
Alignment explanation
Indices: 13589731--13589828 Score: 169
Period size: 29 Copynumber: 3.4 Consensus size: 29
13589721 AGCATGAATG
13589731 TGAATGTGATTTGGGCCTAATGAGCCATA
1 TGAATGTGATTTGGGCCTAATGAGCCATA
13589760 TGAATGTGATTTGGGCCTAATGAGCCATA
1 TGAATGTGATTTGGGCCTAATGAGCCATA
* *
13589789 TGAATGTGATTTGGGCCTAATGGGCTATA
1 TGAATGTGATTTGGGCCTAATGAGCCATA
*
13589818 TGAATGAGATT
1 TGAATGTGATT
13589829 GGATGTGATC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.28, C:0.11, G:0.29, T:0.33
Consensus pattern (29 bp):
TGAATGTGATTTGGGCCTAATGAGCCATA
Found at i:13589836 original size:39 final size:39
Alignment explanation
Indices: 13589792--13589869 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13589782 AGCCATATGA
*
13589792 ATGTGATTTGGGCCTAATGGGCTATATGAATGAGATTGG
1 ATGTGATCTGGGCCTAATGGGCTATATGAATGAGATTGG
13589831 ATGTGATCTGGGCCTAATGGGCTATATGAATGAGATTGG
1 ATGTGATCTGGGCCTAATGGGCTATATGAATGAGATTGG
13589870 GCCTAGTGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.09, G:0.33, T:0.32
Consensus pattern (39 bp):
ATGTGATCTGGGCCTAATGGGCTATATGAATGAGATTGG
Found at i:13597533 original size:14 final size:14
Alignment explanation
Indices: 13597488--13597547 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
13597478 AACAAAATTG
13597488 AAATGAAAATAAAAA
1 AAAT-AAAATAAAAA
* *
13597503 TCAAA-AGAATAAGAA
1 --AAATAAAATAAAAA
13597518 AAATAAAATAAAAA
1 AAATAAAATAAAAA
13597532 AAACT-AAATAAAAA
1 AAA-TAAAATAAAAA
13597546 AA
1 AA
13597548 CAGGAGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.08
14 22 0.59
15 9 0.24
17 3 0.08
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:13598272 original size:41 final size:41
Alignment explanation
Indices: 13598215--13598296 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
13598205 GGCATGGAGA
*
13598215 TATCGTAGGGAAGGGGGGAGAGCTGAGGCCTTCGAGCAGCT
1 TATCGTAGGGAAGGGGGAAGAGCTGAGGCCTTCGAGCAGCT
13598256 TATCGTAGGGAAGGGGGAAGAGCTGAGGCCTTCGAGCAGCT
1 TATCGTAGGGAAGGGGGAAGAGCTGAGGCCTTCGAGCAGCT
13598297 GGGGTCGTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.43, T:0.17
Consensus pattern (41 bp):
TATCGTAGGGAAGGGGGAAGAGCTGAGGCCTTCGAGCAGCT
Found at i:13624970 original size:46 final size:46
Alignment explanation
Indices: 13624823--13624945 Score: 246
Period size: 46 Copynumber: 2.7 Consensus size: 46
13624813 TGTAACCCGC
13624823 CCCTAAGTGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
1 CCCTAAGTGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
13624869 CCCTAAGTGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
1 CCCTAAGTGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
13624915 CCCTAAGTGAACTCGGACTCAACTCAACGAG
1 CCCTAAGTGAACTCGGACTCAACTCAACGAG
13624946 TTCGAATGCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCCTAAGTGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCAT
Found at i:13625408 original size:30 final size:30
Alignment explanation
Indices: 13625374--13625433 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13625364 ATTTAATTCC
13625374 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
13625404 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
13625434 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:13629327 original size:177 final size:177
Alignment explanation
Indices: 13629019--13629386 Score: 713
Period size: 177 Copynumber: 2.1 Consensus size: 177
13629009 GAAAAATCAT
*
13629019 AATTTTGTA--AAAGTTAGGGGGCAAAAATGTAATTTTTCCATAATGTGATATTTGGATTGAAAT
1 AATTTTGTACCAAGGTTAGGGGGCAAAAATGTAATTTTTCCATAATGTGATATTTGGATTGAAAT
13629082 AAATAATATGAGTGTTAAATGAGCTGAATGTGTTGTTATAGATCAAGAAACGCGTGGAATCAACC
66 AAATAATATGAGTGTTAAATGAGCTGAATGTGTTGTTATAGATCAAGAAACGCGTGGAATCAACC
13629147 TCGAACGGGGGAAAGAAAAGATTTTGGACTAAATTGCAAAATTCCCA
131 TCGAACGGGGGAAAGAAAAGATTTTGGACTAAATTGCAAAATTCCCA
13629194 AATTTTGTACCAAGGTTAGGGGGCAAAAATGTAATTTTTCCATAATGTGATATTTGGATTGAAAT
1 AATTTTGTACCAAGGTTAGGGGGCAAAAATGTAATTTTTCCATAATGTGATATTTGGATTGAAAT
13629259 AAATAATATGAGTGTTAAATGAGCTGAATGTGTTGTTATAGATCAAGAAACGCGTGGAATCAACC
66 AAATAATATGAGTGTTAAATGAGCTGAATGTGTTGTTATAGATCAAGAAACGCGTGGAATCAACC
13629324 TCGAACGGGGGAAAGAAAAGATTTTGGACTAAATTGCAAAATTCCCA
131 TCGAACGGGGGAAAGAAAAGATTTTGGACTAAATTGCAAAATTCCCA
13629371 AATTTTGTACCAAGGT
1 AATTTTGTACCAAGGT
13629387 AAGTTTGTAT
Statistics
Matches: 190, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
175 9 0.05
177 181 0.95
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (177 bp):
AATTTTGTACCAAGGTTAGGGGGCAAAAATGTAATTTTTCCATAATGTGATATTTGGATTGAAAT
AAATAATATGAGTGTTAAATGAGCTGAATGTGTTGTTATAGATCAAGAAACGCGTGGAATCAACC
TCGAACGGGGGAAAGAAAAGATTTTGGACTAAATTGCAAAATTCCCA
Found at i:13629749 original size:79 final size:79
Alignment explanation
Indices: 13629660--13629839 Score: 360
Period size: 79 Copynumber: 2.3 Consensus size: 79
13629650 GGGATGTATC
13629660 CCATGTAGACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGAATGTGTGCTC
1 CCATGTAGACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGAATGTGTGCTC
13629725 CCAAGTGAAGGACA
66 CCAAGTGAAGGACA
13629739 CCATGTAGACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGAATGTGTGCTC
1 CCATGTAGACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGAATGTGTGCTC
13629804 CCAAGTGAAGGACA
66 CCAAGTGAAGGACA
13629818 CCATGTAGACAAGAGAGCTACA
1 CCATGTAGACAAGAGAGCTACA
13629840 AGATAAATTG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 101 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (79 bp):
CCATGTAGACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGAATGTGTGCTC
CCAAGTGAAGGACA
Found at i:13630643 original size:25 final size:25
Alignment explanation
Indices: 13630615--13630667 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
13630605 TGAGTTTTGT
13630615 AACTCGAGTTATGATTTATTTAGTG
1 AACTCGAGTTATGATTTATTTAGTG
* *
13630640 AACTTGAGTTATGGTTTATTTAGTG
1 AACTCGAGTTATGATTTATTTAGTG
13630665 AAC
1 AAC
13630668 ATGACGCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (25 bp):
AACTCGAGTTATGATTTATTTAGTG
Found at i:13644646 original size:43 final size:43
Alignment explanation
Indices: 13644526--13644649 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
13644516 AGCTCGTATA
* * *
13644526 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATATCG
* * * *** *
13644568 ATGCCACTGTCCTAGAAAGGGTCTTACACAAAATCATATAAT-G
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACAT-ATCG
* *
13644611 ATGCCAATGTCCCAGACATGGTCTTAAATGTAATCACAT
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACAT
13644650 CCCGGTAATC
Statistics
Matches: 61, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
42 5 0.08
43 54 0.89
44 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATATCG
Found at i:13652505 original size:29 final size:29
Alignment explanation
Indices: 13652439--13652545 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
13652429 TACATATATG
**
13652439 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCACATT
* * * *
13652467 CAAATGGCCCATCT-GGCCTAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCACATT
*
13652496 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCACATT
* *
13652525 CATATGGCCTATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
13652546 ATCATATTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 17 0.27
29 47 0.73
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCACATT
Found at i:13652767 original size:16 final size:16
Alignment explanation
Indices: 13652748--13652782 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13652738 ATTTTCGTTA
13652748 TTTCAGCATTTCGACT
1 TTTCAGCATTTCGACT
*
13652764 TTTCGGCATTTCGACT
1 TTTCAGCATTTCGACT
13652780 TTT
1 TTT
13652783 GTCGATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCAGCATTTCGACT
Found at i:13655780 original size:38 final size:38
Alignment explanation
Indices: 13655737--13655812 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
13655727 TTCATCCTTT
13655737 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
13655775 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
13655813 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:13657095 original size:40 final size:40
Alignment explanation
Indices: 13657001--13657145 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
13656991 TACTCGAATG
*
13657001 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
13657042 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
13657082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
13657122 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
13657146 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:13684478 original size:12 final size:12
Alignment explanation
Indices: 13684461--13684493 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
13684451 CCGTGTGTGA
13684461 CACACGGTCTAG
1 CACACGGTCTAG
13684473 CACACGGTCTAG
1 CACACGGTCTAG
13684485 CACACGGTC
1 CACACGGTC
13684494 AGTTTCACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.15
Consensus pattern (12 bp):
CACACGGTCTAG
Found at i:13685176 original size:56 final size:56
Alignment explanation
Indices: 13685090--13685209 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
13685080 ACAAGGGATG
13685090 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
13685146 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
13685202 ATGGGCAA
1 ATGGGCAA
13685210 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:13686473 original size:79 final size:81
Alignment explanation
Indices: 13686337--13686519 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
13686327 TCGAATGATG
* *
13686337 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
13686401 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
13686416 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
13686478 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
13686496 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
13686520 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:13686535 original size:40 final size:40
Alignment explanation
Indices: 13686338--13686521 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
13686328 CGAATGATGT
* * * *
13686338 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
13686378 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
13686418 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13686456 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13686497 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13686522 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:13686543 original size:79 final size:79
Alignment explanation
Indices: 13686390--13686554 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13686380 GGACTAAGAT
* **
13686390 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
13686455 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
13686469 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
13686532 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
13686548 CCGAAGG
1 CCGAAGG
13686555 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:13689661 original size:20 final size:21
Alignment explanation
Indices: 13689632--13689683 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
13689622 AAAATCCATG
* *
13689632 TATATATATTATATATT-ATA
1 TATATTTATTATACATTAATA
13689652 TATATTTATTA-ACATTAATA
1 TATATTTATTATACATTAATA
*
13689672 TAAATTT-TTATA
1 TATATTTATTATA
13689684 ATAATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATTTATTATACATTAATA
Found at i:13689771 original size:11 final size:10
Alignment explanation
Indices: 13689744--13689774 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
13689734 ATGAAAAATT
13689744 AAGAAAGAAA
1 AAGAAAGAAA
13689754 AAGAAAGAAA
1 AAGAAAGAAA
13689764 AAGCAAAGAAA
1 AAG-AAAGAAA
13689775 GGGAGAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:13690513 original size:25 final size:25
Alignment explanation
Indices: 13690465--13690513 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13690455 CATAATTGAA
* * *
13690465 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
13690490 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
13690514 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:13695333 original size:27 final size:27
Alignment explanation
Indices: 13695293--13695372 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
13695283 TGTGGTAGAT
*
13695293 ACAGATAATCGTGGCAGAGCCACCAGA
1 ACAGATAATTGTGGCAGAGCCACCAGA
13695320 ACAGA-AATATGTGGCAGAGCCACCAGA
1 ACAGATAAT-TGTGGCAGAGCCACCAGA
* *
13695347 TCAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
13695373 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (27 bp):
ACAGATAATTGTGGCAGAGCCACCAGA
Found at i:13696158 original size:19 final size:19
Alignment explanation
Indices: 13696122--13696160 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13696112 TTTTCATCAT
* *
13696122 AGTAAAATAAAATAATAAA
1 AGTAAAAGAAAACAATAAA
*
13696141 AGTAAAAGAAAACCATAAA
1 AGTAAAAGAAAACAATAAA
13696160 A
1 A
13696161 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (19 bp):
AGTAAAAGAAAACAATAAA
Found at i:13702219 original size:49 final size:49
Alignment explanation
Indices: 13702147--13702241 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
13702137 TCTAGGAAAA
*
13702147 ATCCTACCTTGAGTTTCTAGGGGTATATCCCTATACAGTTTGTTTAAAG
1 ATCCTACCTTGAGTTTCTAGGGGTACATCCCTATACAGTTTGTTTAAAG
13702196 ATCCTACCTTGAGTTTCTAGGGGTACATCCCTATACAGTTTGTTTA
1 ATCCTACCTTGAGTTTCTAGGGGTACATCCCTATACAGTTTGTTTA
13702242 CCCTAACCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (49 bp):
ATCCTACCTTGAGTTTCTAGGGGTACATCCCTATACAGTTTGTTTAAAG
Found at i:13704961 original size:28 final size:27
Alignment explanation
Indices: 13704906--13705017 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
13704896 AACATGGCTC
* * *
13704906 CCAGAACAGATAA-CGTGACAAAGTCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
13704932 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTGGCAGAGCCA
* *
13704960 CCAGAACAGA-AATATGTGGTAGAGCCA
1 CCAGAACAGATAAT-CGTGGCAGAGCCA
* * *
13704987 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
13705014 CCAG
1 CCAG
13705018 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.65
28 18 0.24
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGGCAGAGCCA
Found at i:13719026 original size:46 final size:46
Alignment explanation
Indices: 13718961--13719280 Score: 478
Period size: 46 Copynumber: 7.0 Consensus size: 46
13718951 TTATCTTTGA
* * * * * *
13718961 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
13719007 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
13719053 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
13719099 CATGTTGCCTTGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
13719145 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** *
13719191 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
13719237 CATGTTGCCATGGTATCTTCCAACCACGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
13719281 TTCAGAAAGC
Statistics
Matches: 255, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 255 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:13724484 original size:46 final size:46
Alignment explanation
Indices: 13724343--13724485 Score: 198
Period size: 46 Copynumber: 3.1 Consensus size: 46
13724333 TGTCATAGTG
* * *
13724343 TCTTTCAACTATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTA
1 TCTTTCAACAATGGTCTTATTCATTTCCAGTCATGTTGCCATGGTA
* * * * *
13724389 TCTGTCAACCATGGTCTTGTTCATTT-TATGTCACGTTGCCATGGTA
1 TCTTTCAACAATGGTCTTATTCATTTCCA-GTCATGTTGCCATGGTA
13724435 TCTTTCAACAATGGTCTTATTCATTTCCAGTCATGTTGCCATGGTA
1 TCTTTCAACAATGGTCTTATTCATTTCCAGTCATGTTGCCATGGTA
13724481 TCTTT
1 TCTTT
13724486 TGTAATATCC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 82 0.99
47 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (46 bp):
TCTTTCAACAATGGTCTTATTCATTTCCAGTCATGTTGCCATGGTA
Found at i:13730163 original size:46 final size:46
Alignment explanation
Indices: 13730078--13730245 Score: 237
Period size: 46 Copynumber: 3.7 Consensus size: 46
13730068 GGGGTGTTAC
*** ** *
13730078 ATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTACACATTTCATAACATGTTGCCATGGT
* *
13730124 ATCTTTTAACCATGGTCTTACACATGTCATAACATGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTACACATTTCATAACATGTTGCCATGGT
* * *
13730170 ATCTTTCAACCATGGTCTTACACCTTTCATATCATGTTGTCATGGT
1 ATCTTTCAACCATGGTCTTACACATTTCATAACATGTTGCCATGGT
13730216 ATCTTTCAACCATGGTCTTACACATTTCAT
1 ATCTTTCAACCATGGTCTTACACATTTCAT
13730246 TTCAGAAAGC
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 108 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
ATCTTTCAACCATGGTCTTACACATTTCATAACATGTTGCCATGGT
Found at i:13730196 original size:21 final size:21
Alignment explanation
Indices: 13730172--13730244 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
13730162 GCCATGGTAT
13730172 CTTTCAACCATGGTCTTACAC
1 CTTTCAACCATGGTCTTACAC
* *** *
13730193 CTTTCATATCATGTTGTCATGGTAT
1 CTTTCA-ACCATG--GTC-TTACAC
13730218 CTTTCAACCATGGTCTTACAC
1 CTTTCAACCATGGTCTTACAC
*
13730239 ATTTCA
1 CTTTCA
13730245 TTTCAGAAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
21 13 0.35
22 8 0.22
24 8 0.22
25 8 0.22
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (21 bp):
CTTTCAACCATGGTCTTACAC
Found at i:13735663 original size:31 final size:31
Alignment explanation
Indices: 13735625--13735689 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
13735615 CCTTTTCATA
13735625 TTTCATATTTCATGA-CACTGGGCCGAAGCCT
1 TTTCATATTTCAT-ATCACTGGGCCGAAGCCT
*
13735656 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATCACTGGGCCGAAGCCT
13735687 TTT
1 TTT
13735690 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATATCACTGGGCCGAAGCCT
Found at i:13735934 original size:24 final size:24
Alignment explanation
Indices: 13735881--13735998 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
13735871 GCTTTATCGT
*
13735881 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
13735906 GTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13735930 ATAACTGGTGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13735953 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13735976 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13735999 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 45 0.54
24 28 0.33
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13736073 original size:20 final size:20
Alignment explanation
Indices: 13736048--13736114 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
13736038 TTATGAATAC
13736048 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13736068 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13736088 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13736108 ACCATGT
1 ATCATGT
13736115 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13736079 original size:11 final size:11
Alignment explanation
Indices: 13736048--13736103 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
13736038 TTATGAATAC
13736048 ATCATGTGCAT
1 ATCATGTGCAT
*
13736059 ATCA--TACAT
1 ATCATGTGCAT
13736068 ATCATGTGCAT
1 ATCATGTGCAT
*
13736079 ATCA--TACAT
1 ATCATGTGCAT
*
13736088 GTCATGTGCAT
1 ATCATGTGCAT
13736099 ATCAT
1 ATCAT
13736104 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:13742855 original size:40 final size:40
Alignment explanation
Indices: 13742820--13743770 Score: 1618
Period size: 40 Copynumber: 23.6 Consensus size: 40
13742810 TACTCGCTCG
* ** * * *
13742820 AATGCCTTCGGGACATAGCCCGGATGTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
* * * *
13742860 AATGCCTTCGGGACTTAACCCGGATA-TAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
*
13742900 AATCCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
** * * *
13742940 AATGCCTTCGGGACTTAGAGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTT--AG------CCCGGAACTAGTCACTAGCGCA
* * * *
13742988 AATGCCTTCGGGACTTAACCCGGATA-TAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
13743028 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743068 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743108 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743148 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743188 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743228 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743268 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743308 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743348 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743388 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743428 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743468 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743508 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743548 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743588 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743628 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743668 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743708 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
13743748 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
13743771 TTATCATCCG
Statistics
Matches: 877, Mismatches: 22, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
39 2 0.00
40 839 0.96
42 2 0.00
46 1 0.00
48 33 0.04
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
Found at i:13750733 original size:40 final size:40
Alignment explanation
Indices: 13750663--13751600 Score: 1282
Period size: 40 Copynumber: 23.5 Consensus size: 40
13750653 GAGCCAGGTA
* * * *
13750663 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
13750702 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13750742 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13750782 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13750822 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13750862 CCTTCGAGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13750902 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13750942 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13750982 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751022 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751062 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13751102 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751142 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751182 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13751222 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751262 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751302 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13751342 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751382 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751422 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13751462 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751502 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
13751542 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13751582 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13751601 TTATCATCCG
Statistics
Matches: 798, Mismatches: 86, Indels: 29
0.87 0.09 0.03
Matches are distributed among these distances:
39 19 0.02
40 773 0.97
41 6 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13750890 original size:120 final size:120
Alignment explanation
Indices: 13750663--13751600 Score: 1596
Period size: 120 Copynumber: 7.8 Consensus size: 120
13750653 GAGCCAGGTA
* * * * * * **
13750663 CCTTCGGGATTTAA-CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATGTA
1 CCTTCGGGACTTAACCCGGATATAG-TAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTA
* * * * * *
13750726 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATC
65 GTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
13750782 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATA-T
1 CCTTCGGGACTTAACCCGGATA-TAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGA-ACT
* * * * * *
13750845 AGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACAAATG
64 AGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13750902 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13750967 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13751022 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13751087 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13751142 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13751207 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13751262 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13751327 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13751382 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13751447 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13751502 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
13751567 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
66 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
13751601 TTATCATCCG
Statistics
Matches: 791, Mismatches: 22, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
119 15 0.02
120 775 0.98
121 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATCCCTTCGGGACTTAGCCCGGAACTAG
TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13753569 original size:37 final size:37
Alignment explanation
Indices: 13753510--13753611 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
13753500 AGCTCAGACG
* *
13753510 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
13753547 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
13753584 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
13753612 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:13753808 original size:47 final size:47
Alignment explanation
Indices: 13753732--13753842 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
13753722 CTTCGGGACT
* * * *
13753732 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
13753779 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
13753826 TATCACATATATACACT
1 TATCACATATATACACT
13753843 GTCTTGGCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:13759280 original size:31 final size:31
Alignment explanation
Indices: 13759242--13759305 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
13759232 CCTTTTCATA
13759242 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
13759273 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
13759304 TT
1 TT
13759306 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:13759572 original size:23 final size:24
Alignment explanation
Indices: 13759497--13759662 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
13759487 GCTTTATCGT
*
13759497 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
13759522 GTAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13759546 ATAACTGGTGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13759569 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13759593 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13759616 ATAACTCGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13759640 ATAACTGGGGTATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13759663 GCACTTCCTC
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
23 44 0.35
24 72 0.57
25 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13759580 original size:47 final size:47
Alignment explanation
Indices: 13759518--13759661 Score: 234
Period size: 47 Copynumber: 3.1 Consensus size: 47
13759508 CCTAGCCTCT
* * *
13759518 TTTAGTAACTAGGGCAAAAGCCCTTTTAATAACTGGTGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
13759565 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
13759612 TTTAATAACTCGGGCATAAGCCCTTTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
13759659 TTT
1 TTT
13759662 TGCACTTCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (47 bp):
TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:13759737 original size:20 final size:20
Alignment explanation
Indices: 13759712--13759778 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
13759702 TTATGAATAC
13759712 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13759732 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13759752 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13759772 ACCATGT
1 ATCATGT
13759779 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13759743 original size:11 final size:11
Alignment explanation
Indices: 13759712--13759767 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
13759702 TTATGAATAC
13759712 ATCATGTGCAT
1 ATCATGTGCAT
*
13759723 ATCA--TACAT
1 ATCATGTGCAT
13759732 ATCATGTGCAT
1 ATCATGTGCAT
*
13759743 ATCA--TACAT
1 ATCATGTGCAT
*
13759752 GTCATGTGCAT
1 ATCATGTGCAT
13759763 ATCAT
1 ATCAT
13759768 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:13764006 original size:68 final size:67
Alignment explanation
Indices: 13763934--13764083 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
13763924 CATCATGTGT
* * * *
13763934 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
13763996 ATGTAG
62 ATGTAG
** * *
13764002 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
13764067 AG
66 AG
13764069 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
13764084 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:13764039 original size:64 final size:64
Alignment explanation
Indices: 13763958--13764141 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
13763948 AGACATTATG
* *
13763958 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
13764022 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13764087 AA
63 AA
* * * *
13764089 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
13764142 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13767271 original size:28 final size:29
Alignment explanation
Indices: 13767240--13767305 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
13767230 TAAAGTGTTT
*
13767240 TTTGACGAAAA-TGTCAATT-AGGGATTAA
1 TTTGA-GAAAAGTGTAAATTGAGGGATTAA
*
13767268 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGAGAAAAGTGTAAATTGAGGGATTAA
* *
13767297 ATTGTGAAA
1 TTTGAGAAA
13767306 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 12 0.38
29 15 0.47
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
TTTGAGAAAAGTGTAAATTGAGGGATTAA
Found at i:13767782 original size:40 final size:40
Alignment explanation
Indices: 13767717--13767828 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
13767707 ACTATGTTTG
*
13767717 GCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
* * *
13767757 GCACTTAGTGTGC-TAATTGGA-ATAGCTTCAGCTATATGTG
1 GCACTTAGTGTGCGT--TTCGAGATAGCTTCAGCTATATATA
* * * *
13767797 GCACTAAGTGTACGATACTGAGATAGCTTCAG
1 GCACTTAGTGTGCGTTTC-GAGATAGCTTCAG
13767829 TTTAATGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 42 0.72
41 14 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
Found at i:13771582 original size:6 final size:7
Alignment explanation
Indices: 13771567--13771597 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13771557 GGCCAACACC
13771567 TTTTCTT
1 TTTTCTT
13771574 TTTTCTT
1 TTTTCTT
13771581 TTTTC-T
1 TTTTCTT
13771587 TTTTCTT
1 TTTTCTT
13771594 TTTT
1 TTTT
13771598 TTAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:13771598 original size:14 final size:14
Alignment explanation
Indices: 13771567--13771597 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13771557 GGCCAACACC
13771567 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
13771581 TTTTC-TTTTTCTT
1 TTTTCTTTTTTCTT
13771594 TTTT
1 TTTT
13771598 TTAAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTCTTTTTTCTT
Found at i:13771754 original size:9 final size:9
Alignment explanation
Indices: 13771740--13771774 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
13771730 ACTGTTTCTT
13771740 TTTTTTTTC
1 TTTTTTTTC
13771749 TTTTTTTTC
1 TTTTTTTTC
13771758 TTTTTTTTTC
1 -TTTTTTTTC
13771768 TTTTTTT
1 TTTTTTT
13771775 GCTCCTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:13771754 original size:10 final size:10
Alignment explanation
Indices: 13771734--13771774 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
13771724 ATAACTACTG
13771734 TTTCTTTTTT
1 TTTCTTTTTT
13771744 TTT-TCTTTTT
1 TTTCT-TTTTT
13771754 TTTCTTTTTT
1 TTTCTTTTTT
13771764 TTTCTTTTTT
1 TTTCTTTTTT
13771774 T
1 T
13771775 GCTCCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.03
10 27 0.93
11 1 0.03
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:13771763 original size:19 final size:20
Alignment explanation
Indices: 13771734--13771774 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
13771724 ATAACTACTG
13771734 TTTCTTTTTTTTTTCTTTTT
1 TTTCTTTTTTTTTTCTTTTT
13771754 TTTC-TTTTTTTTTCTTTTT
1 TTTCTTTTTTTTTTCTTTTT
13771773 TT
1 TT
13771775 GCTCCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTTCTTTTTTTTTTCTTTTT
Found at i:13771783 original size:19 final size:19
Alignment explanation
Indices: 13771742--13771783 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13771732 TGTTTCTTTT
* **
13771742 TTTTTTCTTTTTTTTCTTT
1 TTTTTTCTTTTTTTGCTCC
13771761 TTTTTTCTTTTTTTGCTCC
1 TTTTTTCTTTTTTTGCTCC
13771780 TTTT
1 TTTT
13771784 CATCTTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTCTTTTTTTGCTCC
Found at i:13772531 original size:30 final size:30
Alignment explanation
Indices: 13772485--13772578 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
13772475 TTTTATTATG
*
13772485 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13772516 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
13772546 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13772576 CCA
1 CCA
13772579 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13772540 original size:15 final size:15
Alignment explanation
Indices: 13772495--13772572 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
13772485 CCAATATCTC
13772495 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13772510 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13772525 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13772540 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
13772555 GATACCCATATCTTT
1 GATACCCATATCTTT
13772570 GAT
1 GAT
13772573 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13777274 original size:30 final size:30
Alignment explanation
Indices: 13777228--13777321 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
13777218 TTTTATTATG
*
13777228 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13777259 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
13777289 ACATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13777319 CCA
1 CCA
13777322 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13777283 original size:15 final size:15
Alignment explanation
Indices: 13777238--13777315 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
13777228 CCAATATCTC
13777238 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13777253 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13777268 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
13777283 GACTTTACAT-TATTT
1 GA-TACCCATATCTTT
13777298 GATACCCATATCTTT
1 GATACCCATATCTTT
13777313 GAT
1 GAT
13777316 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13777539 original size:37 final size:37
Alignment explanation
Indices: 13777497--13777587 Score: 123
Period size: 37 Copynumber: 2.4 Consensus size: 37
13777487 TTATTATTAA
13777497 ATTTTAATA-AGATTATTATTAAGA-ATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAA-ATATAATTTAATCAT
* *
13777534 ATTTTAATATAATTATTATTAAATATAATTTAATAAAA
1 ATTTTAATATAATTATTATTAAATATAATTTAAT-CAT
13777572 ATTTTAATATAATTAT
1 ATTTTAATATAATTAT
13777588 ATTTTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
36 1 0.02
37 30 0.61
38 18 0.37
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (37 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATCAT
Found at i:13778419 original size:13 final size:14
Alignment explanation
Indices: 13778401--13778429 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13778391 AATAATTTAG
13778401 ATAAAAA-TTAAAT
1 ATAAAAATTTAAAT
13778414 ATAAAAATTTAAAT
1 ATAAAAATTTAAAT
13778428 AT
1 AT
13778430 TTCATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAAAATTTAAAT
Found at i:13778671 original size:27 final size:27
Alignment explanation
Indices: 13778641--13778694 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13778631 AGTAAGTAGA
13778641 TAAAAAGCTACTTATGGAGAAATTTTT
1 TAAAAAGCTACTTATGGAGAAATTTTT
13778668 TAAAAAGCTACTTATGGAGAAATTTTT
1 TAAAAAGCTACTTATGGAGAAATTTTT
13778695 CAATCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
TAAAAAGCTACTTATGGAGAAATTTTT
Found at i:13780566 original size:30 final size:29
Alignment explanation
Indices: 13780496--13780637 Score: 108
Period size: 31 Copynumber: 4.7 Consensus size: 29
13780486 AGATCAAATA
*
13780496 TTTCAAAATGGTT-AAATAAGGGTCT-AACAT
1 TTTCAAAAT-GTTCAAATAA-GG-CTAAACCT
* **
13780526 TTATTAAAATGTTCAAATGAAGATTAAACCT
1 TT-TCAAAATGTTCAAAT-AAGGCTAAACCT
*
13780557 TTTCAAAATGTTCAAATAAAGGCCAAACCT
1 TTTCAAAATGTTCAAAT-AAGGCTAAACCT
* * *
13780587 TTTCGAAAGTGATCAAATAAGGGCTAAAACT
1 TTTC-AAAATGTTCAAATAA-GGCTAAACCT
*
13780618 TTTCAAAATTGCTCAAATAA
1 TTTCAAAA-TGTTCAAATAA
13780638 TGACTTCTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
30 38 0.42
31 50 0.56
32 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (29 bp):
TTTCAAAATGTTCAAATAAGGCTAAACCT
Found at i:13785241 original size:29 final size:28
Alignment explanation
Indices: 13785208--13785271 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
13785198 TAATTATTTG
13785208 AATTAATTAATATT-AATATAAAAT-TAAAA
1 AATTAATT-ATATTAAAT-TAAAATAT-AAA
13785237 AATTATATTATATTAAATTAAAATATAAA
1 AATTA-ATTATATTAAATTAAAATATAAA
13785266 AATTAA
1 AATTAA
13785272 ATCTTAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
28 1 0.03
29 24 0.75
30 7 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTAATTATATTAAATTAAAATATAAA
Found at i:13785254 original size:23 final size:25
Alignment explanation
Indices: 13785212--13785259 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
13785202 TATTTGAATT
13785212 AATTAATATTAATATAAAATTAAAA
1 AATTAATATTAATATAAAATTAAAA
*
13785237 AATT-ATATT-ATATTAAATTAAAA
1 AATTAATATTAATATAAAATTAAAA
13785260 TATAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 5 0.23
25 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTAATATTAATATAAAATTAAAA
Found at i:13786449 original size:31 final size:29
Alignment explanation
Indices: 13786414--13786510 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 29
13786404 ACATTCAGTA
*
13786414 ACTAAAATGTAACAACACTATAACGTAAGTG
1 ACTAAAATGTAACAACAC-A-AACATAAGTG
* ***
13786445 ACTAAAATTTAACATTTCAAACATAAGTG
1 ACTAAAATGTAACAACACAAACATAAGTG
* * *
13786474 ACTAAAATGTAACATCAGAGAAACATTAGTG
1 ACTAAAATGTAACA--ACACAAACATAAGTG
13786505 ACTAAA
1 ACTAAA
13786511 CTATAATATC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 22 0.42
30 1 0.02
31 30 0.57
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
ACTAAAATGTAACAACACAAACATAAGTG
Found at i:13786522 original size:31 final size:31
Alignment explanation
Indices: 13786463--13786539 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
13786453 TTAACATTTC
*
13786463 AAACATAAGTGACTAAAATGTAACATCAGAG
1 AAACATAAGTGACTAAAATATAACATCAGAG
* * *
13786494 AAACATTAGTGACTAAACTATAATATCAGAG
1 AAACATAAGTGACTAAAATATAACATCAGAG
*
13786525 AAACAAAAGTGACTA
1 AAACATAAGTGACTA
13786540 TTTTAATAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.21
Consensus pattern (31 bp):
AAACATAAGTGACTAAAATATAACATCAGAG
Done.