Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 47 of 198
Found at i:14044365 original size:2 final size:2
Alignment explanation
Indices: 14044329--14044354 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14044319 TTTTTCTTAG
14044329 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14044355 GAATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14045018 original size:24 final size:24
Alignment explanation
Indices: 14044991--14045042 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14044981 AATCAAAGTC
* *
14044991 AAATATATTAGGCTAATAAATGCT
1 AAATATATTAGACTAATAAATACT
* *
14045015 AAATATATTATACTCATAAATACT
1 AAATATATTAGACTAATAAATACT
14045039 AAAT
1 AAAT
14045043 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATATTAGACTAATAAATACT
Found at i:14049420 original size:24 final size:24
Alignment explanation
Indices: 14049405--14049456 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
14049395 AATCAAAGTC
14049405 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* *
14049429 AAATATATTATGCTCATAAATGCA
1 AAATATATTATGCTAATAAATGCT
14049453 AAAT
1 AAAT
14049457 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:14052213 original size:57 final size:58
Alignment explanation
Indices: 14052120--14052234 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 58
14052110 AATGAAATGG
**
14052120 TGAAAATGGAAAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAAAAATGAGAAACATTTGGAAATGAATATGACTTTCTCCAAAATGAAAA
* * *
14052178 TGAAAATGGAGAAATGA-AATCATTTGGAAATGAATATGACTTTCTCCACAATGAAAA
1 TGAAAATGGAAAAATGAGAAACATTTGGAAATGAATATGACTTTCTCCAAAATGAAAA
14052235 GGACAATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (58 bp):
TGAAAATGGAAAAATGAGAAACATTTGGAAATGAATATGACTTTCTCCAAAATGAAAA
Found at i:14074570 original size:47 final size:47
Alignment explanation
Indices: 14074477--14074576 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 47
14074467 ATCATTTAAG
* * ** *
14074477 TGTGGACAAGCCACCATATTTGCAGTCAAGCTGCCAGGTCAGATATA
1 TGTGGTCAAGCCACCATATTTGCAATCAAGCTGCCAGAACAAATATA
*
14074524 TGTGGTCAAGCCATCATATTTGCAATCAAGCTGCCAGAACAAATATA
1 TGTGGTCAAGCCACCATATTTGCAATCAAGCTGCCAGAACAAATATA
*
14074571 TATGGT
1 TGTGGT
14074577 AAAACCATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (47 bp):
TGTGGTCAAGCCACCATATTTGCAATCAAGCTGCCAGAACAAATATA
Found at i:14080099 original size:3 final size:3
Alignment explanation
Indices: 14080091--14080147 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
14080081 TATCCAGTTT
14080091 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14080139 TAA TAA TAA
1 TAA TAA TAA
14080148 GGAGGAGGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14080427 original size:40 final size:39
Alignment explanation
Indices: 14080375--14080509 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
14080365 GAGTTTGGAT
* * *
14080375 AAAAAACTCCGCTAAAAATCAATCTTTAGCGGCGCTTCTA
1 AAAAAACGCCGCTAAAAATCAGT-TTTAGCGGCGCTTCTC
* * *
14080415 AAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTC
1 AAAAAACGCCGCTAAAAATC-AGTTTTAGCGGCGCTTCTC
* * *
14080455 TAAAAACGCCGCTAAAACTGAGTTTTAGCGGCG-TTCTCC
1 AAAAAACGCCGCTAAAAATCAGTTTTAGCGGCGCTTCT-C
*
14080494 AAAAAGCGCCGC-AAAA
1 AAAAAACGCCGCTAAAA
14080510 GCCTAAGCCC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
38 7 0.09
39 23 0.29
40 47 0.59
41 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATCAGTTTTAGCGGCGCTTCTC
Found at i:14080621 original size:41 final size:41
Alignment explanation
Indices: 14080544--14080863 Score: 364
Period size: 41 Copynumber: 7.8 Consensus size: 41
14080534 TGTGAGTTTT
* * **
14080544 TTGGGACTTTAGCAGCGTTTTTTTCAGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGC
* * * *
14080586 TCAGGGT-TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATAC
1 T-TGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
14080627 TTGGGTCTTTAGCGGCGTTTTTGAAGAATCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
14080668 TTGGGTCTTTAGCAGCGTTTTTGAGGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
14080709 TTGTGTCTTTAGTGGCGTTTTTGAGGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
14080750 TTGGGTCTTTAGCGGCGTTTTTGAGGAAGCGTCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
14080791 TCAGGG-CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATTC
1 T-TGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
14080832 TCT--AT-TTTAGCGGCGTTTTTGGAA-AAGCGCCG
1 T-TGGGTCTTTAGCGGCGTTTTT-GAAGAAGCGCCG
14080864 TAAAAAAAAT
Statistics
Matches: 242, Mismatches: 31, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
39 23 0.10
40 6 0.02
41 197 0.81
42 13 0.05
43 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:14081349 original size:14 final size:14
Alignment explanation
Indices: 14081220--14081352 Score: 65
Period size: 15 Copynumber: 9.4 Consensus size: 14
14081210 GACTTACTAT
* *
14081220 TTTAAGGTTTATGG
1 TTTAGGGTTTAGGG
*
14081234 ATTATGGGTTTAGGG
1 TTTA-GGGTTTAGGG
* * * *
14081249 GTTATGATTTATGG
1 TTTAGGGTTTAGGG
* *
14081263 TTTATGGTTTTAAGG
1 TTTA-GGGTTTAGGG
* *
14081278 -TTGGGGTTTAAGG
1 TTTAGGGTTTAGGG
* *
14081291 TTTAAAGG-TTATGTG
1 TTT-AGGGTTTA-GGG
*
14081306 TTAAGGGTTTAGGG
1 TTTAGGGTTTAGGG
14081320 TTTTAGGGTTTA-GG
1 -TTTAGGGTTTAGGG
*
14081334 TTTATGGTTTAGGG
1 TTTAGGGTTTAGGG
14081348 TTTAG
1 TTTAG
14081353 ATTAACTAGT
Statistics
Matches: 88, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
13 19 0.22
14 33 0.38
15 36 0.41
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:14081352 original size:7 final size:7
Alignment explanation
Indices: 14081220--14081352 Score: 65
Period size: 7 Copynumber: 18.7 Consensus size: 7
14081210 GACTTACTAT
*
14081220 TTTAAGG
1 TTTAGGG
*
14081227 TTTATGG
1 TTTAGGG
*
14081234 ATTATGGG
1 TTTA-GGG
14081242 TTTAGGG
1 TTTAGGG
* * *
14081249 GTTATGA
1 TTTAGGG
*
14081256 TTTATGG
1 TTTAGGG
*
14081263 TTTATGGT
1 TTTA-GGG
*
14081271 TTTAAGG
1 TTTAGGG
*
14081278 -TTGGGG
1 TTTAGGG
*
14081284 TTTAAGG
1 TTTAGGG
*
14081291 TTTAAAGG
1 TTT-AGGG
*
14081299 -TTATGTG
1 TTTA-GGG
*
14081306 TTAAGGG
1 TTTAGGG
14081313 TTTAGGG
1 TTTAGGG
14081320 TTTTAGGG
1 -TTTAGGG
14081328 TTTA-GG
1 TTTAGGG
*
14081334 TTTATGG
1 TTTAGGG
14081341 TTTAGGG
1 TTTAGGG
14081348 TTTAG
1 TTTAG
14081353 ATTAACTAGT
Statistics
Matches: 95, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
6 11 0.12
7 61 0.64
8 23 0.24
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:14082057 original size:13 final size:15
Alignment explanation
Indices: 14082029--14082060 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
14082019 CTCGTATTAT
14082029 TATTAATTTAATATA
1 TATTAATTTAATATA
14082044 TATTAA-TT-ATATA
1 TATTAATTTAATATA
14082057 TATT
1 TATT
14082061 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:14082270 original size:15 final size:14
Alignment explanation
Indices: 14082250--14082300 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
14082240 ACTTGGTTTT
14082250 TTTATAAAAATATAA
1 TTTATAAAAA-ATAA
14082265 TTTATAAAAAAT-A
1 TTTATAAAAAATAA
* * *
14082278 GTAATAAAAAATAT
1 TTTATAAAAAATAA
14082292 TTTATAAAA
1 TTTATAAAA
14082301 TCACTTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.37
14 9 0.30
15 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTTATAAAAAATAA
Found at i:14082274 original size:16 final size:16
Alignment explanation
Indices: 14082250--14082282 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14082240 ACTTGGTTTT
14082250 TTTATAAAAATA-TAA
1 TTTATAAAAATAGTAA
14082265 TTTATAAAAAATAGTAA
1 TTTAT-AAAAATAGTAA
14082282 T
1 T
14082283 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTATAAAAATAGTAA
Found at i:14087636 original size:23 final size:24
Alignment explanation
Indices: 14087609--14087655 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
14087599 AGCGTATACC
* *
14087609 TTTTTTTTATTTTTGCTATGTCTG
1 TTTTTTTAATTCTTGCTATGTCTG
14087633 TTTTTTTACATTCTTGCTATGTC
1 TTTTTTTA-ATTCTTGCTATGTC
14087656 AACAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.66
Consensus pattern (24 bp):
TTTTTTTAATTCTTGCTATGTCTG
Found at i:14087995 original size:21 final size:21
Alignment explanation
Indices: 14087971--14088011 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14087961 AATTTCACTG
*
14087971 CTACAGTATCCAATCTCACCT
1 CTACAGTAACCAATCTCACCT
*
14087992 CTACAGTAACTAATCTCACC
1 CTACAGTAACCAATCTCACC
14088012 GCCACCGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.27
Consensus pattern (21 bp):
CTACAGTAACCAATCTCACCT
Found at i:14089099 original size:43 final size:43
Alignment explanation
Indices: 14089051--14089192 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
14089041 AAGATTATGT
* * * *
14089051 TTTAGCGGCATTTTTGCTAGAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* ** * *
14089094 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTAATGGTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
14089137 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGTTCTTGGTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
14089180 TTTAGCGGCATTT
1 TTTAGCGGCATTT
14089193 TTAAATAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:14089215 original size:86 final size:86
Alignment explanation
Indices: 14089053--14089213 Score: 196
Period size: 86 Copynumber: 1.9 Consensus size: 86
14089043 GATTATGTTT
* * * * ** **
14089053 TAGCGGCATTTTTGCTAGAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGTAAGAAAAAA
14089118 GCCGCTAAAAGTAATGGTCTA
66 GCCGCTAAAAGTAATGGTCTA
* * * * *
14089139 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGTTCTTGGTCTTTAGCGGCATTTTTAAATAAAAA
1 TAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGT-AAGAAAAA
14089204 AGCCGCTAAA
65 AGCCGCTAAA
14089214 GTTAACGACG
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
86 48 0.79
87 13 0.21
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (86 bp):
TAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGTAAGAAAAAA
GCCGCTAAAAGTAATGGTCTA
Found at i:14089380 original size:18 final size:18
Alignment explanation
Indices: 14089357--14089399 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14089347 ACAAAATACA
14089357 TCAATTTAAATCAATTTT-
1 TCAATTT-AATCAATTTTC
**
14089375 TCAATTTTTTCAATTTTC
1 TCAATTTAATCAATTTTC
14089393 TCAATTT
1 TCAATTT
14089400 CTTTGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTAATCAATTTTC
Found at i:14089401 original size:8 final size:9
Alignment explanation
Indices: 14089367--14089399 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14089357 TCAATTTAAA
14089367 TCAATTTT-
1 TCAATTTTC
*
14089375 TCAATTTTT
1 TCAATTTTC
14089384 TCAATTTTC
1 TCAATTTTC
14089393 TCAATTT
1 TCAATTT
14089400 CTTTGTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (9 bp):
TCAATTTTC
Found at i:14098612 original size:23 final size:23
Alignment explanation
Indices: 14098586--14098630 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
14098576 AGCATCACCT
* *
14098586 AATACACCACATAGGTATTACAG
1 AATACACCACAAAGGCATTACAG
**
14098609 AATATGCCACAAAGGCATTACA
1 AATACACCACAAAGGCATTACA
14098631 AAGAGTTACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (23 bp):
AATACACCACAAAGGCATTACAG
Found at i:14103515 original size:9 final size:9
Alignment explanation
Indices: 14103501--14103534 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14103491 GACTAATGAC
14103501 AAAATTAAA
1 AAAATTAAA
*
14103510 AAAATTATA
1 AAAATTAAA
14103519 AAAATTAAA
1 AAAATTAAA
*
14103528 ACAATTA
1 AAAATTA
14103535 TTTAAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATTAAA
Found at i:14103524 original size:18 final size:18
Alignment explanation
Indices: 14103501--14103535 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14103491 GACTAATGAC
14103501 AAAATTAAAAAAATTATA
1 AAAATTAAAAAAATTATA
*
14103519 AAAATTAAAACAATTAT
1 AAAATTAAAAAAATTAT
14103536 TTAAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAAAAAAATTATA
Found at i:14103827 original size:2 final size:2
Alignment explanation
Indices: 14103820--14103867 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
14103810 ATCAAACCAA
14103820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14103862 AT AT AT
1 AT AT AT
14103868 GTTTAAAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14103949 original size:3 final size:3
Alignment explanation
Indices: 14103941--14103984 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14103931 CATTTAACTC
14103941 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14103985 ACAACTAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14105107 original size:24 final size:27
Alignment explanation
Indices: 14105075--14105124 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
14105065 TAAGATGACT
14105075 ATATGTAAAATT-TT-AATAA-ATAAAA
1 ATATGT-AAATTATTAAATAATATAAAA
14105100 ATAT-TAAATTATTAAATAATATAAA
1 ATATGTAAATTATTAAATAATATAAA
14105125 TACATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
25 9 0.41
26 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATGTAAATTATTAAATAATATAAAA
Found at i:14117807 original size:2 final size:2
Alignment explanation
Indices: 14117794--14117840 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
14117784 NACTTTCTTC
*
14117794 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14117836 TA TA T
1 TA TA T
14117841 CACTTTTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14129950 original size:2 final size:2
Alignment explanation
Indices: 14129943--14129979 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14129933 AGAATCTTGG
*
14129943 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14129980 GCTAGATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14131095 original size:2 final size:2
Alignment explanation
Indices: 14131048--14131078 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14131038 CCCATTAATT
14131048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14131079 CATTATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14131259 original size:107 final size:109
Alignment explanation
Indices: 14131144--14131340 Score: 267
Period size: 107 Copynumber: 1.8 Consensus size: 109
14131134 TTTTCTTTAT
* **
14131144 ATATAATTTTTATATGTTAAATATTTATTTTTCGTG-TACATTATGAGTATGGTAAATTCTAATA
1 ATATAA-TTTTATATGTGAAATATTTATTTTTCCAGATACATTATGAGTATGGTAAATTCTAATA
*
14131208 -TA-AAAATC-AATGAATTATTTCAAAAAAAAATTATTTTTAGTAA
65 TTATAAAATCAAAT-AATTACTTCAAAAAAAAATTATTTTTAGTAA
* * * * *
14131251 ATATAATTTTATATGTGAAATATTTTTTTTTCCAGATATATTGTGGGTATGGTAGATTCTAATAT
1 ATATAATTTTATATGTGAAATATTTATTTTTCCAGATACATTATGAGTATGGTAAATTCTAATAT
14131316 TATAAAATCAAATAATTACTTCAAA
66 TATAAAATCAAATAATTACTTCAAA
14131341 TATCATTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
106 25 0.32
107 30 0.39
108 2 0.03
109 17 0.22
110 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.45
Consensus pattern (109 bp):
ATATAATTTTATATGTGAAATATTTATTTTTCCAGATACATTATGAGTATGGTAAATTCTAATAT
TATAAAATCAAATAATTACTTCAAAAAAAAATTATTTTTAGTAA
Found at i:14131783 original size:28 final size:28
Alignment explanation
Indices: 14131739--14131811 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
14131729 ATGAAAAATA
* *
14131739 AATTAAAAAACTTAAAAGCAT-GTTTATT
1 AATT-AAAAACTTAAAAGAATAGTTTAAT
*
14131767 AATTAAAAACTTGAAAATAATAAGTTTAAT
1 AATTAAAAACTT-AAAAGAAT-AGTTTAAT
*
14131797 AATTAAAAACCTAAA
1 AATTAAAAACTTAAA
14131812 TTAAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 8 0.21
28 10 0.26
29 3 0.08
30 17 0.45
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (28 bp):
AATTAAAAACTTAAAAGAATAGTTTAAT
Found at i:14140720 original size:34 final size:34
Alignment explanation
Indices: 14140682--14140750 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
14140672 TTGAAAGAGT
14140682 AAGGATGTAAAGAAACATAAAATAATAGATTATA
1 AAGGATGTAAAGAAACATAAAATAATAGATTATA
14140716 AAGGATGTAAAGAAACATAAAATAATAGATTATA
1 AAGGATGTAAAGAAACATAAAATAATAGATTATA
14140750 A
1 A
14140751 TTAAGAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.23
Consensus pattern (34 bp):
AAGGATGTAAAGAAACATAAAATAATAGATTATA
Found at i:14147778 original size:47 final size:49
Alignment explanation
Indices: 14147725--14147825 Score: 116
Period size: 47 Copynumber: 2.1 Consensus size: 49
14147715 TTAACTTGCA
*
14147725 AAATTATAAAAGTTTTAAAATA-TTAATTTTGTTAA-AAAATAAATATT
1 AAATTATAAAAGTTTTAAAATATTTAATTTTGTTAATAAAATAAAGATT
* * * ** * *
14147772 AAATTATTAATGTTTTGATTTATTTAATTTTTTTAATAATATAAAGATT
1 AAATTATAAAAGTTTTAAAATATTTAATTTTGTTAATAAAATAAAGATT
14147821 AAATT
1 AAATT
14147826 GATGTATTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 17 0.39
48 12 0.27
49 15 0.34
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (49 bp):
AAATTATAAAAGTTTTAAAATATTTAATTTTGTTAATAAAATAAAGATT
Found at i:14150577 original size:27 final size:27
Alignment explanation
Indices: 14150522--14150578 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
14150512 ACAAATCAAT
* *
14150522 AAAGTTAGTGACCATATTGCAAGGTTTA
1 AAAGTTAGTGACCATAATGCAA-GCTTA
14150550 AAAGTTCAGTGACCATAATGCAA-CTTA
1 AAAGTT-AGTGACCATAATGCAAGCTTA
14150577 AA
1 AA
14150579 TAAAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 6 0.23
29 15 0.58
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (27 bp):
AAAGTTAGTGACCATAATGCAAGCTTA
Found at i:14157140 original size:10 final size:10
Alignment explanation
Indices: 14157106--14157141 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14157096 ATATATAGAA
*
14157106 TTTTTAGAAT
1 TTTTTATAAT
*
14157116 TTTTAATAAT
1 TTTTTATAAT
14157126 TTTTTATAAT
1 TTTTTATAAT
14157136 TTTTTA
1 TTTTTA
14157142 CAGTTCTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:14157741 original size:12 final size:12
Alignment explanation
Indices: 14157724--14157757 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14157714 ATGAAAAAAT
14157724 AATAATTTTAAA
1 AATAATTTTAAA
*
14157736 AATAATCTTAAA
1 AATAATTTTAAA
14157748 AA-AATTTTAA
1 AATAATTTTAA
14157758 TAAAATTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAATTTTAAA
Found at i:14167466 original size:20 final size:18
Alignment explanation
Indices: 14167418--14167468 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
14167408 TAAATTTATG
*
14167418 ATCATTTTGTTGCATTTC
1 ATCATTTTGTTACATTTC
*
14167436 ATCCGTTTTGTTACGATCTTC
1 AT-CATTTTGTTAC-AT-TTC
14167457 ATCATTTTGTTA
1 ATCATTTTGTTA
14167469 ATATGTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 11 0.41
21 5 0.19
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (18 bp):
ATCATTTTGTTACATTTC
Found at i:14172691 original size:137 final size:138
Alignment explanation
Indices: 14172526--14172828 Score: 459
Period size: 138 Copynumber: 2.2 Consensus size: 138
14172516 GCTACAAGTT
* *
14172526 TTATCT-TCCTGACGTTGTAGTGGAGCAGACTGGAGATAGTGAACCTTATTTCCCTGAAGTTGCA
1 TTATCTCT-CTGAAGTTGTAGTGGAGCAGACTGGAGATAGCGAACCTTATTTCCCTGAAGTTGCA
* *
14172590 GTGGAA-TGAATTGAAGCTAT-AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATC
65 GTGGAACAG-ATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATC
14172653 ATAGCAAACC
129 ATAGCAAACC
* * *
14172663 TTATCTCTTTGAAGTTGTAGTGGAGCAGACTGGAGATAGCGAATCTTATTTCCCTGAAGTTGTAG
1 TTATCTCTCTGAAGTTGTAGTGGAGCAGACTGGAGATAGCGAACCTTATTTCCCTGAAGTTGCAG
* **
14172728 TGTAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCAT
66 TGGAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAT
*
14172793 ATCAAACC
131 AGCAAACC
*
14172801 TTATCTCTCTGAAGTTGCAGTGGAGCAG
1 TTATCTCTCTGAAGTTGTAGTGGAGCAG
14172829 GTTGAAGTTA
Statistics
Matches: 150, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
137 72 0.48
138 78 0.52
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (138 bp):
TTATCTCTCTGAAGTTGTAGTGGAGCAGACTGGAGATAGCGAACCTTATTTCCCTGAAGTTGCAG
TGGAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAT
AGCAAACC
Found at i:14172879 original size:44 final size:45
Alignment explanation
Indices: 14172800--14172938 Score: 154
Period size: 45 Copynumber: 3.1 Consensus size: 45
14172790 CATATCAAAC
* *** * * *
14172800 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATGAAGATAGCGAAT
* * *
14172844 CTTATCTCGCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATGAAGATAGCGAAT
* * *
14172889 TTTATTTCCCTGAAGTTACAGTGGAGCAAAATGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATGAAGATAGCGAAT
14172934 CTTAT
1 CTTAT
14172939 TTTTATGAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.42
45 46 0.58
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATGAAGATAGCGAAT
Found at i:14172969 original size:45 final size:45
Alignment explanation
Indices: 14172856--14172958 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
14172846 TATCTCGCTA
* * *
14172856 AAGTTGCAGTGGAGCAAACTGAAGATAGCGAATTTTATTTCCCTG
1 AAGTTGCAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATG
* **
14172901 AAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTTATTTTTATG
1 AAGTTGCAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATG
*
14172946 AAGTTGTAGTGGA
1 AAGTTGCAGTGGA
14172959 ACAGATTGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATG
Found at i:14173130 original size:226 final size:227
Alignment explanation
Indices: 14172663--14173131 Score: 665
Period size: 226 Copynumber: 2.1 Consensus size: 227
14172653 ATAGCAAACC
* ** * * * *
14172663 TTATCTCTTTGAAGTTGTAGTGGAGCAGACTGGAGATAGCGAATCTTATTTCCCTGAAGTTGTAG
1 TTATCTCTCTGAAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATGAAGTTGTAG
* **
14172728 TGTAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCAT
66 TGGAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAT
* * *
14172793 ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCGCTAAA
131 ATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCGCTAAA
* ** *
14172858 GTTGCAGTGGAGCAAACTGAAGATAGCGAATT
196 GTAGCAGTGGAGCAAACTGAAGATAGAAAATA
* * **
14172890 TTATTTCCCTGAAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTTATTTTTATGAAGTTGTAG
1 TTATCTCTCTGAAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATGAAGTTGTAG
* * *
14172955 TGGAACAGATTGAAGCTAT-AAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCAT
66 TGGAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAT
14173019 AAT-AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC-CTTA
131 -ATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCGC-TA
* *
14173082 AAGTAGCAGTGGAGCAGACTGATGATAGAAAATA
194 AAGTAGCAGTGGAGCAAACTGAAGATAGAAAATA
14173116 TTATCTCTCTGAAGTT
1 TTATCTCTCTGAAGTT
14173132 GCAATAGAGC
Statistics
Matches: 212, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
225 1 0.00
226 138 0.65
227 73 0.34
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (227 bp):
TTATCTCTCTGAAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTTATTTCCATGAAGTTGTAG
TGGAACAGATTAAAGCTATAAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAT
ATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCGCTAAA
GTAGCAGTGGAGCAAACTGAAGATAGAAAATA
Found at i:14173360 original size:96 final size:96
Alignment explanation
Indices: 14173192--14173368 Score: 221
Period size: 96 Copynumber: 1.8 Consensus size: 96
14173182 GGACAAGTTG
* * * ** *
14173192 AAGTTACAAGTCTTATCTTCCTGAAGTTGCAATGGAGCAGACTAGAGATAGCGGATCTTATTTCC
1 AAGTTACAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGATAGCAAATCTTATCTCC
*
14173257 CAAAAGTTGTAGTGGAATAGATTAAAGCTAC
66 CAAAAGTTGCAGTGGAATAGATTAAAGCTAC
* * *
14173288 AAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGGTTA-CAAATCTTGTCTC
1 AAGTTACAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAA-GATAGCAAATCTTATCTC
* **
14173352 TCTGAAGTTGCAGTGGA
65 CCAAAAGTTGCAGTGGA
14173369 GCATGTAATG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 64 0.96
97 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (96 bp):
AAGTTACAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGATAGCAAATCTTATCTCC
CAAAAGTTGCAGTGGAATAGATTAAAGCTAC
Found at i:14174748 original size:4 final size:4
Alignment explanation
Indices: 14174739--14174777 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
14174729 TAATTCCCAT
**
14174739 TTTA TTTA TTTA CGTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
14174778 CTTTGTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:14185938 original size:44 final size:43
Alignment explanation
Indices: 14185815--14186717 Score: 539
Period size: 44 Copynumber: 19.9 Consensus size: 43
14185805 AACAGACCAA
* *
14185815 TGAAATTACAGATCTTATAC-CCCTGAAGTTGCAGTGG-GATAGAT
1 TGAAGTTACA-ATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGAT
* *
14185859 TGAAGATCATAGCAAATCTTATCTCACTAAAGTTGCAGTGGAGCAGAT
1 TGAAG-T--TA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
14185907 TGAATTTACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
14185951 TGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGAAACAGAT
1 TGAAGTTA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
14185996 TAAAGTCATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-
1 TGAAG---T---T-ACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * ** *
14186046 TCATA-TTA-AACCTTATCTCCCTAAAGTTGCAGTGGAATAGGT
1 TGA-AGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
14186088 TAAAAATAAACCAATCTTAGCTCTCTGAAGTTGCAATAGAGCAGA-
1 T-GAAGT-TA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
14186133 TCATAG-CA-AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGT
1 TGA-AGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
14186175 TGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
1 TGAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
14186219 TAAAGATAACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGAT
1 TGAAG-TTA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
14186264 TGAAGATAGGCTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
1 TGAAG-T----TAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * *
14186313 TAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGT
1 TGAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
14186357 TGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * * *
14186401 TAAAGAGAGCGAATCTTATTTCCTTGAAGTTGCAGTGGAACAAAT
1 TGAAGTTA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * *
14186446 TAAAGCTATAAATCACATATCTTATCTCTTTGAAGTTGAAGTGGAACAGGT
1 TGAAG---T---T-ACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
14186497 TAAAAATAAATCAATCTTATCTCCCTGAAGTTGCAATGGAGCAAAT
1 T-GAAGT-TA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
14186543 TGAAGACGGGCTACAAAT-TT-TCTCCCTGAAGTTACAGTTGAGCAGAT
1 TG-A-A---GTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * *
14186590 TAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGT
1 TGAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
14186634 TGAAGATACCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGTTA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
14186678 TGAAGCTACTAATCTCATCTCCCTGAAGTTGTAGTGGAGC
1 TGAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGC
14186718 GAATTAAAAC
Statistics
Matches: 672, Mismatches: 127, Indels: 120
0.73 0.14 0.13
Matches are distributed among these distances:
41 54 0.08
42 13 0.02
43 13 0.02
44 243 0.36
45 108 0.16
46 61 0.09
47 33 0.05
48 35 0.05
49 44 0.07
50 4 0.01
51 59 0.09
52 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TGAAGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:14186129 original size:87 final size:91
Alignment explanation
Indices: 14185862--14186350 Score: 298
Period size: 89 Copynumber: 5.4 Consensus size: 91
14185852 GATAGATTGA
* * * *
14185862 AGATCATAGCAAATCTTATCTCACTAAAGTTGCAGTGGAGCAGATT---GAAT---TTACA-ATT
1 AGATCATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGAATAAATCACAGA-T
* * * *
14185920 CTTATCTCCCTGAAGTTGCAGTGGAGC
65 CTTAGCTCTCTGAAGTTGCAATAGAGC
* * * * * *
14185947 AGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGAAACAGATTAAAGTCATAAATCAC
1 AGA-T---CATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAG-AATAAATCAC
* *
14186012 AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
61 AGATCTTAGCTCTCTGAAGTTGCAATAGAGC
** * *
14186043 AGATCATATTAAACCTTATCTCCCTAAAGTTGCAGTGGAATAGGTTAAA-AATAAA-C-CA-ATC
1 AGATCATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGAATAAATCACAGATC
14186104 TTAGCTCTCTGAAGTTGCAATAGAGC
66 TTAGCTCTCTGAAGTTGCAATAGAGC
* * * * *
14186130 AGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--T-TA-CA-AG-TC
1 AGATCATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGAATAAATCACAGATC
* * *
14186189 TTATCTC-CTTGAAGTTGCAGTGGAGC
66 TTAGCTCTC-TGAAGTTGCAATAGAGC
* * * * * * **
14186215 AGACTAAAGATAACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-AT-AGGCTAC
1 AGA-T---CATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGAATAAATC-AC
* * * * * *
14186278 AAATCTTATCTCCCTGAAGTTGTAGTGGAGC
61 AGATCTTAGCTCTCTGAAGTTGCAATAGAGC
* * *
14186309 AGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGA
1 AGATCATAG---CAAACCTTATCTCCCTAAAGTTGCAGTGGA
14186351 GCAGGTTGAA
Statistics
Matches: 328, Mismatches: 47, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
84 1 0.00
85 32 0.10
86 3 0.01
87 70 0.21
88 2 0.01
89 77 0.23
90 8 0.02
91 1 0.00
92 38 0.12
93 32 0.10
94 28 0.09
95 2 0.01
96 33 0.10
97 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (91 bp):
AGATCATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGAATAAATCACAGATC
TTAGCTCTCTGAAGTTGCAATAGAGC
Found at i:14186358 original size:182 final size:179
Alignment explanation
Indices: 14185873--14186717 Score: 687
Period size: 182 Copynumber: 4.7 Consensus size: 179
14185863 GATCATAGCA
* * * * *
14185873 AATCTTATCTCACTAAAGTTGCAGTGGAGCAGATTG-A-AT-TTACAATTCTTATCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACTACAAATCTTATCTCCCTGAAG
* * * * * * * *
14185935 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGAAACAGATTAAA
66 TTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* * * * *
14186000 GTCATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATATTA-
130 GT--T--A-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAAC
* * * * * * * * * *
14186054 AACCTTATCTCCCTAAAGTTGCAGTGGAATAGGTTAAAAATA-AACCAATCTTAGCTCTCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACTACAAATCTTATCTCCCTGAAG
* * * * * *
14186118 TTGCAATAGAGCAGATCATAG---CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG
66 TTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
*
14186180 TTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAACC
131 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAA-C
14186230 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGGCTACAAATCTTATCTCCCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA--CTACAAATCTTATCTCCCTGA
* ** * *
14186295 AGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA
64 AGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * *
14186360 AGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGAGC
129 AGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAAC
* * * * * * **
14186411 GAATCTTATTTCCTTGAAGTTGCAGTGGAACAAATTAAAGCTATAAATCACATATCTTATCTCTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT-ACT-ACAAATCTTATCTCCC
* * * * * * *
14186476 TGAAGTTGAAGTGGAACAGGTTAAAAATAAATCAATCTTATCTCCCTGAAGTTGCAATGGAGCAA
61 TGAAGTTGCAGTGGAGCAGATTAAAGATACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * * **
14186541 ATTGAAGACGGGCTACAAAT-TT-TCTCCCTGAAGTTACAGTTGAGCAGATTAAAG-CCAC
124 ATTG-A-A---GTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAAC
* * * * *
14186599 AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATAC--C-AATCTTATTTCCCTGAA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACTACAAATCTTATCTCCCTGAA
* * * * *
14186661 GTTGCAGTGGAGCAGATTGAAGCTACTAATCTCATCTCCCTGAAGTTGTAGTGGAGC
65 GTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
14186718 GAATTAAAAC
Statistics
Matches: 536, Mismatches: 103, Indels: 52
0.78 0.15 0.08
Matches are distributed among these distances:
172 28 0.05
173 3 0.01
174 6 0.01
175 1 0.00
176 36 0.07
177 1 0.00
179 95 0.18
181 63 0.12
182 122 0.23
183 35 0.07
184 39 0.07
185 2 0.00
186 34 0.06
187 1 0.00
188 33 0.06
189 29 0.05
190 2 0.00
191 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (179 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACTACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAAC
Found at i:14186518 original size:51 final size:50
Alignment explanation
Indices: 14186413--14186543 Score: 137
Period size: 51 Copynumber: 2.7 Consensus size: 50
14186403 AAGAGAGCGA
* * *
14186413 ATCTTATTTCCTTGAAGTTGCAGTGGAACAAATTAAAGCTATAAATCACAT
1 ATCTTATCTCCTTGAAGTTGAAGTGGAACAAATTAAA-CAATAAATCACAT
* **
14186464 ATCTTATCTCTTTGAAGTTGAAGTGGAACAGGTTAAA-AATAAAT--CA-
1 ATCTTATCTCCTTGAAGTTGAAGTGGAACAAATTAAACAATAAATCACAT
* *
14186510 ATCTTATCTCCCTGAAGTTGCAA-TGGAGCAAATT
1 ATCTTATCTCCTTGAAGTTG-AAGTGGAACAAATT
14186544 GAAGACGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 26 0.38
47 4 0.06
49 6 0.09
51 32 0.47
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (50 bp):
ATCTTATCTCCTTGAAGTTGAAGTGGAACAAATTAAACAATAAATCACAT
Found at i:14187098 original size:25 final size:25
Alignment explanation
Indices: 14187070--14187118 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14187060 CCAAGTCCAT
* *
14187070 TTACAACAAACCCAACTGGCCCAAA
1 TTACAAAAAAACCAACTGGCCCAAA
* *
14187095 TTACAAAAAAACCTAGTGGCCCAA
1 TTACAAAAAAACCAACTGGCCCAA
14187119 CAAGCCCAAA
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:0.45, C:0.31, G:0.10, T:0.14
Consensus pattern (25 bp):
TTACAAAAAAACCAACTGGCCCAAA
Found at i:14188343 original size:4 final size:4
Alignment explanation
Indices: 14188334--14188368 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
14188324 TAATTCCCAT
**
14188334 TTTA TTTA TTTA CGTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
14188369 GTCTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:14189443 original size:44 final size:44
Alignment explanation
Indices: 14189395--14189510 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
14189385 AAATTACGAG
*
14189395 TCTTATCTCCCTGAATTTGTAGTGGAGCAGACTGAAGATACCAA
1 TCTTATCTCCCTGAAATTGTAGTGGAGCAGACTGAAGATACCAA
* * * * **
14189439 TCTTATCTCCTTGAAATTGCAGTGGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAATTGTAGTGGAGCAGACTGAAGATACCAA
* *
14189483 TCCTATCTCCCTGAAGTTGTAGTGGAGC
1 TCTTATCTCCCTGAAATTGTAGTGGAGC
14189511 GGATTAAAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCCTGAAATTGTAGTGGAGCAGACTGAAGATACCAA
Found at i:14189529 original size:44 final size:43
Alignment explanation
Indices: 14189398--14189529 Score: 113
Period size: 44 Copynumber: 3.0 Consensus size: 43
14189388 TTACGAGTCT
* * * *
14189398 TATCTCCCTGAATTTGTAGTGGAGCAGACTGAA-GATACCAATCT
1 TATCTCCCTGAAATTGTAGTGGAGCAGATTAAACGAT--CAATCC
* * * * *
14189442 TATCTCCTTGAAATTGCAGTGGAGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAATTGTAGTGGAGCAGATT-AAACGATCAATCC
* * *
14189486 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACGATGAATCC
1 TATCTCCCTGAAATTGTAGTGGAGCAGATT-AAACGATCAATCC
14189530 CATACCTCTG
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
44 66 0.96
45 1 0.01
46 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGAAATTGTAGTGGAGCAGATTAAACGATCAATCC
Found at i:14192183 original size:16 final size:16
Alignment explanation
Indices: 14192162--14192196 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14192152 TTTCAAAATC
14192162 AAAGTCGACCCCTTTT
1 AAAGTCGACCCCTTTT
14192178 AAAGTCGACCCCTTTT
1 AAAGTCGACCCCTTTT
14192194 AAA
1 AAA
14192197 AAAAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (16 bp):
AAAGTCGACCCCTTTT
Found at i:14193141 original size:14 final size:14
Alignment explanation
Indices: 14193124--14193184 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
14193114 TTGGGTATTT
14193124 AGAATAAAAAATCG
1 AGAATAAAAAATCG
** * *
14193138 AGAATTGACAATTG
1 AGAATAAAAAATCG
14193152 AGAATAAAAAATCG
1 AGAATAAAAAATCG
* * *
14193166 AGAACAAGAAATTG
1 AGAATAAAAAATCG
14193180 AGAAT
1 AGAAT
14193185 CAAATTGTGA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (14 bp):
AGAATAAAAAATCG
Found at i:14193178 original size:28 final size:28
Alignment explanation
Indices: 14193124--14193184 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
14193114 TTGGGTATTT
**
14193124 AGAATAAAAAATCGAGAATTGACAATTG
1 AGAATAAAAAATCGAGAAAAGACAATTG
14193152 AGAATAAAAAATCGAGAACAAGA-AATTG
1 AGAATAAAAAATCGAGAA-AAGACAATTG
14193180 AGAAT
1 AGAAT
14193185 CAAATTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (28 bp):
AGAATAAAAAATCGAGAAAAGACAATTG
Found at i:14194849 original size:20 final size:20
Alignment explanation
Indices: 14194824--14194861 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14194814 AAAAAAGCCC
* *
14194824 AAAATTTAAGTTAATTTACT
1 AAAATTAAACTTAATTTACT
14194844 AAAATTAAACTTAATTTA
1 AAAATTAAACTTAATTTA
14194862 ACATAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATTAAACTTAATTTACT
Found at i:14196156 original size:41 final size:41
Alignment explanation
Indices: 14196111--14196263 Score: 200
Period size: 41 Copynumber: 3.7 Consensus size: 41
14196101 TTGTATATAA
* * *
14196111 CACCGGCATAAAGCCTGCTAGGCACCAAGCTCGATACATTT
1 CACCGGCACAAAGCCTGCTAGACATCAAGCTCGATACATTT
14196152 CACCGGCACAAAGCCTGCTAGACATCAAGCTCGATACATTT
1 CACCGGCACAAAGCCTGCTAGACATCAAGCTCGATACATTT
* * * *
14196193 CACCGGCACAAAGCCTGCTAGACATAAAG-TCTGACATAATT
1 CACCGGCACAAAGCCTGCTAGACATCAAGCTC-GATACATTT
* * *
14196234 CACCGGCATAAAGCCTGCTAGGCATAAAGC
1 CACCGGCACAAAGCCTGCTAGACATCAAGC
14196264 CTGAACTTAC
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.02
41 99 0.98
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACATCAAGCTCGATACATTT
Found at i:14197448 original size:16 final size:17
Alignment explanation
Indices: 14197427--14197458 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14197417 AAATATGCAA
14197427 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
14197443 TCACATAACTTCATAT
1 TCACATAACTTCATAT
14197459 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:14199925 original size:34 final size:34
Alignment explanation
Indices: 14199881--14200017 Score: 145
Period size: 34 Copynumber: 4.1 Consensus size: 34
14199871 TGTTAAACAA
* *
14199881 GTTTAGTGCTACTATAATGATCTATTATAAGCAT
1 GTTTATTGCTACCATAATGATCTATTATAAGCAT
* *
14199915 GTTTATTGCTACCATATTGATCTACTATAAGCAT
1 GTTTATTGCTACCATAATGATCTATTATAAGCAT
* * * *
14199949 GATAATTGTTACTAT-ATCGA-CTTATTATAAGCAT
1 GTTTATTGCTACCATAAT-GATC-TATTATAAGCAT
* *
14199983 G-TTATTGCTACCATATTGATCTGTTATAAGCAT
1 GTTTATTGCTACCATAATGATCTATTATAAGCAT
14200016 GT
1 GT
14200018 CATGTTGCAT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
33 26 0.31
34 57 0.69
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
GTTTATTGCTACCATAATGATCTATTATAAGCAT
Found at i:14200736 original size:320 final size:321
Alignment explanation
Indices: 14200154--14202391 Score: 3428
Period size: 320 Copynumber: 7.0 Consensus size: 321
14200144 CGATATTTTT
*
14200154 ATTACTAGCAATTATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
*
14200219 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* *
14200284 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
* *
14200349 GGTAGGATATTTGATAAATTAAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
*
14200414 ATTC-GAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
* * ** * * *
14200474 ATTACTAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
* * * * * * *
14200539 CCGACGAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* * * * ** **
14200604 TCTACAACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
* * *
14200669 GGTAGGATCTTTGATAAGTTGAAACTGTATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* * * * * *
14200734 ATTCTG-AAATATTATAATATTGCTATGTTCTAAAGAGTCGATACTCTGAATCGCTATATG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
* * *
14200794 ATTACTAGCAATCATCTGTAACAGTTAGTGGCTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
* *
14200859 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTAATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* *
14200924 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
14200989 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* *
14201054 ATTC-GAAAATATTATGATATTAATGTGATCTAAAGAATCGATACTCTAAATCGCTATACG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
* *
14201114 ATTACTAGTAATTATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
* * * *
14201179 CCGATGGGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* * * ** ** *
14201244 TCCACAACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTTGTGTGTAATGGAGTTA
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
* *
14201309 GGTAGGATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* * * * * *
14201374 ATTCTG-AAATATTATAATATTAATATGTTCTAAAGAGTCGATACTCTGAACCGCTATACG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
14201434 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
*
14201499 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* *
14201564 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
*
14201629 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
*
14201694 ATTC-GAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
* * ** * * *
14201754 ATTACTAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
* * * * * * *
14201819 CCGACGAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
* * * ** **
14201884 TCCACAACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
* * * *
14201949 GGTAGGATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGGGCATACATAAAATGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* * * * * *
14202014 ATTCTG-AAATATTATAATATTGATATGTTCTAAAGAGTTGATACTCTGAATTGCTATACG
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
* *
14202074 ATTACTAGCAATCATCTGCAACGGTTTGTGGTTCATCCACAACATACTAGAAACTTTTATCTGCA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
*
14202139 CCGATGGGTGGTCATCCATCAATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
*
14202204 TCCACAACGTGGTGTAAATGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
14202269 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* *
14202334 ATTCTGAAAA-ATTATGATATTGATGTGATCTAAAGAATCAATACTCTGAATTGCTATA
261 ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATA
14202392 GGAGTGTGAT
Statistics
Matches: 1711, Mismatches: 201, Indels: 12
0.89 0.10 0.01
Matches are distributed among these distances:
319 2 0.00
320 1703 1.00
321 6 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (321 bp):
ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
TCCACAACGTGGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
ATTCTGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTGAATCGCTATACG
Found at i:14201374 original size:640 final size:640
Alignment explanation
Indices: 14200154--14202391 Score: 4091
Period size: 640 Copynumber: 3.5 Consensus size: 640
14200144 CGATATTTTT
*
14200154 ATTACTAGCAATTATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
14200219 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
14200284 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
*
14200349 GGTAGGATATTTGATAAATTAAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
14200414 ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
261 ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
14200479 TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
326 TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
*
14200544 GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCTAC
391 GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCCAC
14200609 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
456 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
*
14200674 GATCTTTGATAAGTTGAAACTGTATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
521 GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
* *
14200739 GAAATATTATAATATTGCTATGTTCTAAAGAGTCGATACTCTGAATCGCTATATG
586 GAAATATTATAATATTGATATGTTCTAAAGAGTCGATACTCTGAATCGCTATACG
* * *
14200794 ATTACTAGCAATCATCTGTAACAGTTAGTGGCTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
*
14200859 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTAATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
14200924 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
*
14200989 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
*
14201054 ATTCGAAAATATTATGATATTAATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
261 ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
* * ** * * * *
14201119 TAGTAATTATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTACCGAT
326 TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
* *
14201184 GGGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGTGGTTCATCCAC
391 GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCCAC
* *
14201249 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTTGTGTGTAATGGAGTTAGGTAG
456 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
14201314 GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
521 GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
* *
14201379 GAAATATTATAATATTAATATGTTCTAAAGAGTCGATACTCTGAACCGCTATACG
586 GAAATATTATAATATTGATATGTTCTAAAGAGTCGATACTCTGAATCGCTATACG
14201434 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
14201499 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
14201564 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
14201629 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
14201694 ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
261 ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
14201759 TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
326 TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
14201824 GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCCAC
391 GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCCAC
14201889 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
456 AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
* *
14201954 GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGGGCATACATAAAATGTGAATTCT
521 GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
* *
14202019 GAAATATTATAATATTGATATGTTCTAAAGAGTTGATACTCTGAATTGCTATACG
586 GAAATATTATAATATTGATATGTTCTAAAGAGTCGATACTCTGAATCGCTATACG
* *
14202074 ATTACTAGCAATCATCTGCAACGGTTTGTGGTTCATCCACAACATACTAGAAACTTTTATCTGCA
1 ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
* *
14202139 CCGATGGGTGGTCATCCATCAATATTTTTATTACTGGCAATTCATCTGCAGTGATCAGTGGTTCA
66 CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
* * *
14202204 TCCACAACGTGGTGTAAATGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
131 TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
*
14202269 GGTAGGATCTTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
196 GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
* * *
14202334 ATTCTGAAAA-ATTATGATATTGATGTGATCTAAAGAATCAATACTCTGAATTGCTATA
261 ATTC-GAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATA
14202392 GGAGTGTGAT
Statistics
Matches: 1536, Mismatches: 61, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
640 1531 1.00
641 5 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (640 bp):
ATTACTAGCAATCATCTGCAACGGTTAGTGGTTCATCCACAACATACTAGAAACTTTTATCTGTA
CCGATGGGTGGTCATCCATCTATATTTTTATTACTGGCAGTTCATCTGCAGTGATCAGTGGTTCA
TCCACAACATAGTGTAAAGGTAGATGAGTTCTCAAGAACTCTTATTGTAATGTGTAGCGGAGTTG
GGTAGGATATTTGATAAATTGAAATTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGA
ATTCGAAAATATTATGATATTGATGTGATCTAAAGAATCGATACTCTAAATCGCTATACGATTAC
TAGTAATCATTTGCAAAAGTTATTGGTTCGTCCACAACATACTAGAAACTTTTATCTGCACCGAC
GAGTGGTCATCCACCTATATTTTTATTACTAGTAATTCATCTGCAGTGATTAGCGGTTCATCCAC
AACGTGGTGTAAAGGTAGAGGAGTTCTCGAGAACTCTTATTTTGGTGTGTAATGGAGTTGGGTAG
GATCTTTGATAAGTTGAAACTGCATCACCATTAATGAGCATGTGCATACATAAACTGTGAATTCT
GAAATATTATAATATTGATATGTTCTAAAGAGTCGATACTCTGAATCGCTATACG
Found at i:14215686 original size:34 final size:34
Alignment explanation
Indices: 14215636--14215775 Score: 190
Period size: 34 Copynumber: 4.1 Consensus size: 34
14215626 AAGATTTTAA
* *
14215636 TATGCGAACCCTCATGTTGTATAGTATGACATAG
1 TATGCGAACCCCCATGTTATATAGTATGACATAG
*
14215670 TATACGAACCCCCATGTTATATAGTATGACATAG
1 TATGCGAACCCCCATGTTATATAGTATGACATAG
* * *
14215704 CATGTGAACCCCCATGTCATATAGTATGACATAG
1 TATGCGAACCCCCATGTTATATAGTATGACATAG
* * * *
14215738 TATGCGAACCTCAATGTTATATAGAATGACGTAG
1 TATGCGAACCCCCATGTTATATAGTATGACATAG
14215772 TATG
1 TATG
14215776 TGTTGGAACA
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 92 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (34 bp):
TATGCGAACCCCCATGTTATATAGTATGACATAG
Found at i:14227839 original size:43 final size:43
Alignment explanation
Indices: 14227776--14227872 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
14227766 GCTATAGACT
* * **
14227776 ACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTACCACAA
1 ACGCCGCTAAAGATCATGACCTTCAACAACACTTTTACCACAA
* * *
14227819 ACGCCGCTAAAGATCTTGACCTTCAACAACTCTTTTATCACAA
1 ACGCCGCTAAAGATCATGACCTTCAACAACACTTTTACCACAA
14227862 ACGCCGCTAAA
1 ACGCCGCTAAA
14227873 TAACAAACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (43 bp):
ACGCCGCTAAAGATCATGACCTTCAACAACACTTTTACCACAA
Found at i:14231706 original size:14 final size:14
Alignment explanation
Indices: 14231687--14231733 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
14231677 ATCTTAAATA
14231687 CCTAACTCTTAACC
1 CCTAACTCTTAACC
*
14231701 CCTAACTCTTAAAC
1 CCTAACTCTTAACC
* * *
14231715 CTTAAATCTCAACC
1 CCTAACTCTTAACC
14231729 CCTAA
1 CCTAA
14231734 ATCCATACCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (14 bp):
CCTAACTCTTAACC
Found at i:14231736 original size:14 final size:14
Alignment explanation
Indices: 14231673--14231736 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
14231663 CTTAGAATCT
**
14231673 CTAAATCTTAAATAC
1 CTAAATCTT-AACCC
*
14231688 CTAACTCTTAACCC
1 CTAAATCTTAACCC
* *
14231702 CTAACTCTTAAACC
1 CTAAATCTTAACCC
* *
14231716 TTAAATCTCAACCC
1 CTAAATCTTAACCC
14231730 CTAAATC
1 CTAAATC
14231737 CATACCCCCT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
14 32 0.80
15 8 0.20
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
CTAAATCTTAACCC
Found at i:14236692 original size:43 final size:43
Alignment explanation
Indices: 14236543--14236711 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
14236533 CTCGTACAAC
* * * * * *
14236543 GCCAACGTCCCAGACGTGTTCTTACATGTAATCATATATCAAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGAT
* *
14236586 GCC-ACTATCCCAGACAG-GGTCTTACACG--AA-TCAAATACGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAAT-CGAT
* * * * *
14236627 ACCGATGTCCCAGACATAGTCTTACACGTAAACACAAATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGAT
* *
14236670 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATCGA
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGA
14236712 AAATCCTATG
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.03
41 24 0.25
42 3 0.03
43 61 0.63
44 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGAT
Found at i:14237860 original size:91 final size:90
Alignment explanation
Indices: 14237696--14237871 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 90
14237686 CATAATTTCA
* * * * *
14237696 AGTCATTCAGACCACATTTATTGACATCTAAACAACAATTTACTATTGCTTTAATACACCAAACA
1 AGTCATTCAGACAACATTAATTGACAACTAAACAACAATTTACTACTGCATTAATACACCAAACA
*
14237761 ATAGTCCTTAAAACAACATAAATAC
66 ACAGTCCTTAAAACAACATAAATAC
* * *
14237786 AGTCACTT-AGACAACATTAATTGACAACTAAACAAGAATTTTTCTGCTGCATTAATACACCAAA
1 AGTCA-TTCAGACAACATTAATTGACAACTAAACAACAA-TTTACTACTGCATTAATACACCAAA
*
14237850 CAACAGTCCTTAAAATAACATA
64 CAACAGTCCTTAAAACAACATA
14237872 TTTTTCTTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
90 31 0.42
91 43 0.58
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.28
Consensus pattern (90 bp):
AGTCATTCAGACAACATTAATTGACAACTAAACAACAATTTACTACTGCATTAATACACCAAACA
ACAGTCCTTAAAACAACATAAATAC
Found at i:14238230 original size:14 final size:14
Alignment explanation
Indices: 14238203--14238244 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
14238193 GTTATAAAGG
*
14238203 TTATAATAATAAAA
1 TTATTATAATAAAA
*
14238217 -TATATATTATAAAA
1 TTAT-TATAATAAAA
14238231 TTATTATAATAAAA
1 TTATTATAATAAAA
14238245 AAACAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTATTATAATAAAA
Found at i:14239188 original size:43 final size:42
Alignment explanation
Indices: 14239138--14239250 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 42
14239128 GTGTTATCGA
* *
14239138 GTAAGACCACGTCTGGGATGTTGGCATCGACT-TATGTTTACGT
1 GTAAGACCACGTCTGGGATGTTGGCATCGA-TATA-GATTACAT
* *
14239181 GTAAGACC-CTGCCTGGGACAG-TGGCATCGATATGAGATTACAT
1 GTAAGACCAC-GTCTGGGA-TGTTGGCATCGATAT-AGATTACAT
*
14239224 GTAAGACCACATCTGGGATGTTGGCAT
1 GTAAGACCACGTCTGGGATGTTGGCAT
14239251 TGTACGAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.05
43 51 0.89
44 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGATGTTGGCATCGATATAGATTACAT
Found at i:14240295 original size:47 final size:47
Alignment explanation
Indices: 14240241--14240428 Score: 155
Period size: 47 Copynumber: 4.0 Consensus size: 47
14240231 ACCGAATAGG
* *
14240241 TGATGCTTGAATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTT
1 TGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGCCCAATTT
* ** *
14240288 TGATGCTTAAATGTTGTTCAATTTGTTGTATATATGCTGCCCAA-TT
1 TGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGCCCAATTT
* * * * * * *
14240334 TGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAA-TT
1 TGATGCTTAAATGCTGCCCAA-TTTGTTGCATATATGCTGCCCAATTT
* * * ** * * *
14240381 TGTTGCATATATGCTGTTCAATTTTGATGCTTAAATGCTGCCCAATTT
1 TGATGCTTAAATGCTGCCCAA-TTTGTTGCATATATGCTGCCCAATTT
14240429 GTTGTATATA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 18 0.15
47 103 0.84
48 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (47 bp):
TGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGCCCAATTT
Found at i:14240364 original size:70 final size:70
Alignment explanation
Indices: 14240251--14240428 Score: 257
Period size: 70 Copynumber: 2.5 Consensus size: 70
14240241 TGATGCTTGA
* **
14240251 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGTTGTTCAATTTGTTG
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTG
*
14240316 TATAT
66 CATAT
14240321 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTG
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTG
14240386 CATAT
66 CATAT
** * * * *
14240391 ATGCTGTTCAATTTTGATGCTTAAATGCTGCCCAATTT
1 ATGCTGCCCAA-TTTGTTGCATATATGCTGTCCAATTT
14240429 GTTGTATATA
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 75 0.77
71 22 0.23
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (70 bp):
ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTG
CATAT
Found at i:14240384 original size:117 final size:117
Alignment explanation
Indices: 14240250--14240635 Score: 413
Period size: 117 Copynumber: 3.3 Consensus size: 117
14240240 GTGATGCTTG
* *
14240250 AATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGTTGTTCAATTTGTT
1 AATGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGTTCAATTTGTT
*
14240315 GTATATATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCT-TA
66 GTATATATGCTGCCCAATTTGTTGAATATATGCTGTCCAATTTTGATG-TATA
* * **
14240367 AATGCTGCCCAATTTGTTGCATATATGCTGTTCAATTTTGATGCTTAAATGCTGCCCAATTTGTT
1 AATGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGTTCAATTTGTT
* * * * * * *
14240432 GTATATATACTGTCCAATTTTGGTGTAA-AAATG-TTTCTCAA-ATTGTTGTATA
66 GTATATATGCTGCCCAA-TTTGTTG-AATATATGCTGTC-CAATTTTGATGTATA
* * * * ** * * *
14240484 TATGCTACCCAAATTGTTGAATTTATGCTGTAAAATTTTGGTG-TAAAAATGCTGTTCAAATTGT
1 AATGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTGATGCT-TAAATGCTGTTCAATTTGT
* * * *
14240548 TGTATATATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAA
65 TGTATATATGCTGCCCAATTTGTTGAATATATGCTGTCCAATTTTGATGTATA
* * * *
14240601 AATGCTGCTCAAATTGTTGTATATGTGCTGCCCAA
1 AATGCTGCCCAAATTGTTGCATATATGCTGTCCAA
14240636 ATTGTTGTAT
Statistics
Matches: 218, Mismatches: 43, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
115 2 0.01
116 13 0.06
117 189 0.87
118 13 0.06
119 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (117 bp):
AATGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTGTTCAATTTGTT
GTATATATGCTGCCCAATTTGTTGAATATATGCTGTCCAATTTTGATGTATA
Found at i:14240429 original size:47 final size:47
Alignment explanation
Indices: 14240321--14240453 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
14240311 TGTTGTATAT
14240321 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAA
*
14240368 ATGCTGCCCAATTTGTTGCATATATGCTGTTCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAA
* *
14240415 ATGCTGCCCAATTTGTTGTATATATACTGTCCAATTTTG
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTG
14240454 GTGTAAAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAA
Found at i:14240464 original size:47 final size:47
Alignment explanation
Indices: 14240321--14240635 Score: 235
Period size: 47 Copynumber: 6.7 Consensus size: 47
14240311 TGTTGTATAT
* *
14240321 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCT-TAA
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATG-TAAAA
* * *
14240368 ATGCTGCCCAATTTGTTGCATATATGCTGTTCAATTTTGATGCT-TAA
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATG-TAAAA
* *
14240415 ATGCTGCCCAATTTGTTGTATATATACTGTCCAATTTTGGTGTAAAA
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATGTAAAA
* * * * ** * * **
14240462 ATGTTTCTCAAATTGTTGTATATATGCTACCCAA-ATTGTTG-AATTT
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATGTAA-AA
*** * * * * * * * *
14240508 ATGCTGTAAAATTTTGGTGTAAAAATGCTGTTCAA-ATTGTTGTATAT
1 ATGCTGCCCAA-TTTGTTGTATATATGCTGTCCAATTTTGATGTAAAA
* * * *
14240555 ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAA
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATGTAAAA
* * * *
14240602 ATGCTGCTCAAATTGTTGTATATGTGCTGCCCAA
1 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAA
14240636 ATTGTTGTAT
Statistics
Matches: 213, Mismatches: 50, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
45 2 0.01
46 28 0.13
47 182 0.85
48 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGATGTAAAA
Found at i:14240495 original size:70 final size:70
Alignment explanation
Indices: 14240415--14240677 Score: 384
Period size: 70 Copynumber: 3.7 Consensus size: 70
14240405 TGATGCTTAA
* * * *
14240415 ATGCTGCCCAATTTGTTGTATATATACTGTCCAATTTTGGTGTAAAAATGTTTCTCAAATTGTTG
1 ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAAATGTTTCTCAAATTGTTG
14240480 TATAT
66 TATAT
* ** *
14240485 ATGCTACCCAAATTGTTGAATTTATGCTGTAAAATTTTGGTGTAAAAATGCTGT-TCAAATTGTT
1 ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAAATG-TTTCTCAAATTGTT
14240549 GTATAT
65 GTATAT
* *
14240555 ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
1 ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAAATGTTTCTCAAATTGTTG
14240620 TATAT
66 TATAT
* * *
14240625 GTGCTGCCCAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTGAAAATGTT
1 ATGCTGCCCAAATTGTTGAATTTATGCTGTCC-AATTTTGGTGTAAAAATGTT
14240678 GTCTAATTTG
Statistics
Matches: 172, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
70 152 0.88
71 20 0.12
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (70 bp):
ATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTGTAAAAATGTTTCTCAAATTGTTG
TATAT
Found at i:14240521 original size:140 final size:140
Alignment explanation
Indices: 14240391--14240707 Score: 395
Period size: 140 Copynumber: 2.2 Consensus size: 140
14240381 TGTTGCATAT
* * *
14240391 ATGCTGTTCAATTTTGATGCT-TAAATGCTGCCCAATTTGTTGTATATATACTGTCCAATTTTGG
1 ATGCTGTTCAA-ATTGATG-TATAAATGCTGCCCAAATTGTTGAATATATACTGTCCAATTTTGG
* *
14240455 TGTAAAAATGTTTCTCAAATTGTTGTATATATGCTACCCAAATTGTTGAATTTATGCTGTAAAAT
64 TGTAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTGTTGAATTTATGCTGTAAAAT
*
14240520 TTTGGTGTAAAA
129 TTTGGTGCAAAA
* * * *
14240532 ATGCTGTTCAAATTGTTGTATATATGCTGCCCAAATTGTTGAATTTATGCTGTCCAATTTTGGTG
1 ATGCTGTTCAAATTGATGTATAAATGCTGCCCAAATTGTTGAATATATACTGTCCAATTTTGGTG
* * * *
14240597 TAAAAATGCTGCTCAAATTGTTGTATATGTGCTGCCCAAATTGTTGTATTTATGCTGTCCAAATT
66 TAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTGTTGAATTTATGCTGT-AAAATT
**
14240662 TTGGTGTGAAA
130 TTGGTGCAAAA
* * * * *
14240673 ATGTTG-TCTAATTTGGTATATAAATGCTGTCCAAA
1 ATGCTGTTC-AAATTGATGTATAAATGCTGCCCAAA
14240708 ATTGATGTAT
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
139 1 0.01
140 100 0.65
141 52 0.34
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (140 bp):
ATGCTGTTCAAATTGATGTATAAATGCTGCCCAAATTGTTGAATATATACTGTCCAATTTTGGTG
TAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTGTTGAATTTATGCTGTAAAATTT
TGGTGCAAAA
Found at i:14240659 original size:23 final size:23
Alignment explanation
Indices: 14240251--14240661 Score: 231
Period size: 23 Copynumber: 17.6 Consensus size: 23
14240241 TGATGCTTGA
* * *
14240251 ATGCTGCCCAATTTGTTGCATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * *
14240274 ATGCTGTCCAATTTTGATGCT-TAA
1 ATGCTGTCCAA-ATTGTTG-TATAT
* * *
14240298 ATGTTGTTCAATTTGTTGTATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * *
14240321 ATGCTGCCCAATTTGTTGCATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * *
14240344 ATGCTGTCCAATTTTGATGCT-TAA
1 ATGCTGTCCAA-ATTGTTG-TATAT
* * *
14240368 ATGCTGCCCAATTTGTTGCATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * * *
14240391 ATGCTGTTCAATTTTGATGCT-TAA
1 ATGCTGTCCAA-ATTGTTG-TATAT
* *
14240415 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * * * *
14240438 ATACTGTCCAATTTTGGTGTAAAA
1 ATGCTGTCCAA-ATTGTTGTATAT
*
14240462 ATG-TTTCTCAAATTGTTGTATAT
1 ATGCTGTC-CAAATTGTTGTATAT
** * *
14240485 ATGCTACCCAAATTGTTGAATTT
1 ATGCTGTCCAAATTGTTGTATAT
* * * *
14240508 ATGCTGT-AAAATTTTGGTGTAAAA
1 ATGCTGTCCAAA--TTGTTGTATAT
*
14240532 ATGCTGTTCAAATTGTTGTATAT
1 ATGCTGTCCAAATTGTTGTATAT
* * *
14240555 ATGCTGCCCAAATTGTTGAATTT
1 ATGCTGTCCAAATTGTTGTATAT
* * * *
14240578 ATGCTGTCCAATTTTGGTGTAAAA
1 ATGCTGTCCAA-ATTGTTGTATAT
14240602 ATGCTG-CTCAAATTGTTGTATAT
1 ATGCTGTC-CAAATTGTTGTATAT
* * *
14240625 GTGCTGCCCAAATTGTTGTATTT
1 ATGCTGTCCAAATTGTTGTATAT
14240648 ATGCTGTCCAAATT
1 ATGCTGTCCAAATT
14240662 TTGGTGTGAA
Statistics
Matches: 295, Mismatches: 75, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
22 5 0.02
23 190 0.64
24 97 0.33
25 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAAATTGTTGTATAT
Found at i:14244515 original size:15 final size:15
Alignment explanation
Indices: 14244497--14244544 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
14244487 TTTAAAACAC
*
14244497 ATTAAAATGAAATAA
1 ATTAAAATGAAAAAA
*
14244512 ATTACAATGAGAGAAAA
1 ATTAAAATGA-A-AAAA
*
14244529 ATTAATATGAAAAAA
1 ATTAAAATGAAAAAA
14244544 A
1 A
14244545 CATAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 14 0.52
16 2 0.07
17 11 0.41
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (15 bp):
ATTAAAATGAAAAAA
Found at i:14244553 original size:21 final size:20
Alignment explanation
Indices: 14244527--14244583 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
14244517 AATGAGAGAA
14244527 AAATTAATATGAAAAAAACAT
1 AAATTAA-ATGAAAAAAACAT
* *
14244548 AAATTAAAATGTAAAGAAAGAT
1 AAATT-AAATG-AAAAAAACAT
*
14244570 AATTTAAATGAAAA
1 AAATTAAATGAAAA
14244584 GAGAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.10
21 13 0.43
22 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.25
Consensus pattern (20 bp):
AAATTAAATGAAAAAAACAT
Found at i:14244584 original size:21 final size:21
Alignment explanation
Indices: 14244530--14244718 Score: 107
Period size: 21 Copynumber: 8.3 Consensus size: 21
14244520 GAGAGAAAAA
*
14244530 TTAATATGAAAA-AAACATAAAT
1 TTAA-ATGAAAAGAAAAAT-AAT
* * *
14244552 TAAAATGTAAAGAAAGATAAT
1 TTAAATGAAAAGAAAAATAAT
*
14244573 TTAAATGAAAAGAGAAAAAAAAT
1 TTAAATG-AAA-AGAAAAATAAT
14244596 TTAAATGAAATGAGAAAAAATTAAAT
1 TTAAATGAAA--AG-AAAAA-T-AAT
* *
14244622 TTAAATGGAAAGAAAGATAAT
1 TTAAATGAAAAGAAAAATAAT
14244643 TTAAATGAAATGAGAAAAAAAATTAAAT
1 TTAAATGAAA--AG---AAAAA-T-AAT
*
14244671 TTAAATAGAAAA-AAAGATAAT
1 TTAAAT-GAAAAGAAAAATAAT
14244692 TTAAATGAAATGAGAAAAA-AA-
1 TTAAATGAAA--AGAAAAATAAT
14244713 TTAAAT
1 TTAAAT
14244719 TAGAATGGGA
Statistics
Matches: 135, Mismatches: 14, Indels: 37
0.73 0.08 0.20
Matches are distributed among these distances:
20 4 0.03
21 42 0.31
22 18 0.13
23 33 0.24
24 7 0.05
26 16 0.12
27 2 0.01
28 9 0.07
29 4 0.03
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (21 bp):
TTAAATGAAAAGAAAAATAAT
Found at i:14244607 original size:49 final size:46
Alignment explanation
Indices: 14244554--14244869 Score: 175
Period size: 47 Copynumber: 6.6 Consensus size: 46
14244544 ACATAAATTA
14244554 AAATGTAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAAATTTAAATG
1 AAATG-AAA-AAA-ATAATTTAAATGAAAAGAGAAAAAAAATTTAAATG
* * *
14244603 AAATGAGAAAAAATTAAATTTAAATG-GAA-AGAAAGATAATTTAAATG
1 AAATGA-AAAAAA-T-AATTTAAATGAAAAGAGAAAAAAAATTTAAATG
* *
14244650 AAATGAGAAAAAA-AA-TTAAATTTAAATAGAAAAAAAGATAATTTAAATG
1 AAATGA-AAAAAATAATTTAAA-TGAAA-AGAGAAAAA-A-AATTTAAATG
* * * * **
14244699 AAATGAGAAAAA-AA-TTAAATTAGAATGGGAAGAAGGTTAATTTAAATG
1 AAATGAAAAAAATAATTTAAATGA-AAAGAGAA-AA--AAAATTTAAATG
* * * *
14244747 AAATGAGAAAAAAATTAAAGTTAAATCAAATGAG--AAAAAA-TTAAATTA
1 AAAT--GAAAAAAA-T-AATTTAAATGAAAAGAGAAAAAAAATTTAAA-TG
* * *
14244795 AAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAAA-TTAAATTT
1 AAAT--GAA-AAAAATAATTTAAATGAAAAGAGAAAAAAAATTTAAA-TG
*
14244844 AAATTAAAAAAATAATTTAAATGAAA
1 AAATGAAAAAAATAATTTAAATGAAA
14244870 TGGAAATGAA
Statistics
Matches: 217, Mismatches: 27, Indels: 49
0.74 0.09 0.17
Matches are distributed among these distances:
43 5 0.02
44 3 0.01
45 1 0.00
46 19 0.09
47 63 0.29
48 49 0.23
49 54 0.25
50 9 0.04
53 7 0.03
54 7 0.03
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (46 bp):
AAATGAAAAAAATAATTTAAATGAAAAGAGAAAAAAAATTTAAATG
Found at i:14244740 original size:48 final size:48
Alignment explanation
Indices: 14244570--14244772 Score: 275
Period size: 49 Copynumber: 4.2 Consensus size: 48
14244560 AAAGAAAGAT
* * *
14244570 AATTTAAATGAAAAGAGAAAAAAAATTTAAATGAAATGAG-AAAAAATTA
1 AATTTAAATG-GAA-AGAAAGATAATTTAAATGAAATGAGAAAAAAATTA
14244619 AATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATTA
1 AATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAG-AAAAAAATTA
* *
14244668 AATTTAAATAGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTA
1 AATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTA
* * *
14244716 AA-TTAGAATGGGAAGAAGGTTAATTTAAATGAAATGAGAAAAAAATTA
1 AATTTA-AATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTA
*
14244764 AAGTTAAAT
1 AATTTAAAT
14244773 CAAATGAGAA
Statistics
Matches: 140, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
47 26 0.19
48 56 0.40
49 58 0.41
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (48 bp):
AATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTA
Found at i:14244746 original size:97 final size:95
Alignment explanation
Indices: 14244593--14244772 Score: 290
Period size: 97 Copynumber: 1.9 Consensus size: 95
14244583 AGAGAAAAAA
14244593 AATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGA
1 AATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAG-
*
14244658 AAAAAAATTAAATTTAAATAGAAAAAAAGAT
65 AAAAAAATTAAAGTTAAATAGAAAAAAAGAT
* * *
14244689 AATTTAAATGAAATGAGAAAAAAATTAAA-TTAGAATGGGAAGAAGGTTAATTTAAATGAAATGA
1 AATTTAAATGAAATGAG-AAAAAATTAAATTTA-AATGGAAAGAAAGATAATTTAAATGAAATGA
14244753 GAAAAAAATTAAAGTTAAAT
64 GAAAAAAATTAAAGTTAAAT
14244773 CAAATGAGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
96 38 0.49
97 40 0.51
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (95 bp):
AATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGA
AAAAAATTAAAGTTAAATAGAAAAAAAGAT
Found at i:14244801 original size:74 final size:76
Alignment explanation
Indices: 14244593--14244847 Score: 259
Period size: 74 Copynumber: 3.5 Consensus size: 76
14244583 AGAGAAAAAA
* * * * *
14244593 AATTTAAATGAAATGAG--AAAAAATTAAATTTAAATGGAAA-GA-AAGATAATTTAAA-TGAAA
1 AATTTAAATGAAATGAGAAAAAAAATTAAAGTTAAAT-CAAATGAGAA-AAAAATTAAATTAAAA
*
14244653 TGAGAA-AAA-A-
64 TGGGAAGAAAGAT
* * * *
14244663 AA-TTAAATTTAAAT-AGAAAAAAAGA-T-AATTTAAATGAAATGAGAAAAAAATTAAATTAGAA
1 AATTTAAA-TGAAATGAGAAAAAAA-ATTAAAGTTAAATCAAATGAGAAAAAAATTAAATTAAAA
* *
14244724 TGGGAAGAAGGTT
64 TGGGAAGAAAGAT
14244737 AATTTAAATGAAATGAG-AAAAAAATTAAAGTTAAATCAAATGAG-AAAAAATTAAATTAAAATG
1 AATTTAAATGAAATGAGAAAAAAAATTAAAGTTAAATCAAATGAGAAAAAAATTAAATTAAAATG
14244800 GGAAGAAAGAT
66 GGAAGAAAGAT
*
14244811 AATTTAAATGAAATGAGAAAAAAAATTAAATTTAAAT
1 AATTTAAATGAAATGAGAAAAAAAATTAAAGTTAAAT
14244848 TAAAAAAATA
Statistics
Matches: 155, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
69 11 0.07
70 26 0.17
71 16 0.10
72 3 0.02
73 1 0.01
74 58 0.37
75 40 0.26
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.25
Consensus pattern (76 bp):
AATTTAAATGAAATGAGAAAAAAAATTAAAGTTAAATCAAATGAGAAAAAAATTAAATTAAAATG
GGAAGAAAGAT
Found at i:14244828 original size:171 final size:164
Alignment explanation
Indices: 14244537--14244875 Score: 491
Period size: 171 Copynumber: 2.0 Consensus size: 164
14244527 AAATTAATAT
* * *
14244537 GAAAAAAACATAAATTAAAATGTAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAAATTTAAAT
1 GAAAAAAACATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAAAAAAAAAAGTTAAAT
* *
14244602 GAAATGAGAAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATT
66 CAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATT
14244667 AAATTTAAATAGAAAAAAAGATAATTTAAATGAAATG
131 AAATTTAAAT--AAAAAAA-ATAATTTAAATGAAATG
* * * * *
14244704 AGAAAAAAA-TTAAATTAGAATGGGAAGAAGGTTAATTTAAATGAAATGAGAAAAAAATTAAAGT
1 -GAAAAAAACATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA--AGAAAAAAA--AAAGT
*
14244768 TAAATCAAATGAGAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAA
61 TAAATCAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAA
*
14244833 AAATTAAATTTAAATTAAAAAAATAATTTAAATGAAATG
126 AAATTAAATTTAAATAAAAAAAATAATTTAAATGAAATG
14244872 GAAA
1 GAAA
14244876 TGAAATGAAA
Statistics
Matches: 155, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
167 35 0.23
168 25 0.16
169 14 0.09
171 81 0.52
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.24
Consensus pattern (164 bp):
GAAAAAAACATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAAAAAAAAAAGTTAAAT
CAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATT
AAATTTAAATAAAAAAAATAATTTAAATGAAATG
Found at i:14244860 original size:18 final size:20
Alignment explanation
Indices: 14244829--14244865 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
14244819 TGAAATGAGA
14244829 AAAAAAATTAAATTTAAATT
1 AAAAAAATTAAATTTAAATT
14244849 AAAAAAA-T-AATTTAAAT
1 AAAAAAATTAAATTTAAAT
14244866 GAAATGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAAATTAAATTTAAATT
Found at i:14244862 original size:46 final size:48
Alignment explanation
Indices: 14244537--14244875 Score: 151
Period size: 49 Copynumber: 7.1 Consensus size: 48
14244527 AAATTAATAT
* * *
14244537 GAAAAAAACA-TAAATTAAAATGTAAAGAAAGATAATTTAAATGAAAAGA
1 GAAAAAAA-ATTAAATTAAAATG-GAAGAAAAATAATTTAAATGAAATGA
* *
14244586 GAAAAAAAATTTAAA-TGAAATGAGAA-AAAATTAAATTTAAATGGAAA-GA
1 GAAAAAAAA-TTAAATTAAAATG-GAAGAAAAAT-AATTTAAAT-GAAATGA
* * * * * *
14244635 -AAGATAATTTAAA-TGAAAT-G-AGAAAAA-AAATTAAATTTAAAT-A
1 GAAAAAAAATTAAATTAAAATGGAAGAAAAATAATTTAAA-TGAAATGA
* * * * *
14244678 GAAAAAAAGA-T-AATTTAAATGAAATGAGAAAA-AAATTAAATTAGAATGG
1 GAAAAAAA-ATTAAATTAAAATGGAA-GA-AAAATAATTTAAATGA-AATGA
* * * * *
14244727 GAAGAAGGTTAATTTAAA-TGAAATGAGAA-AAAAATTAAAGTTAAATCAAATGA
1 GAA-AA---AAAATTAAATTAAAATG-GAAGAAAAA-T-AATTTAAATGAAATGA
*
14244780 G--AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTAAAAT-GGAAGAAAAATAATTTAAATGAAATGA
* *
14244827 GAAAAAAAATTAAATTTAAAT-TAA-AAAAATAATTTAAATGAAATG-
1 GAAAAAAAATTAAATTAAAATGGAAGAAAAATAATTTAAATGAAATGA
14244872 GAAA
1 GAAA
14244876 TGAAATGAAA
Statistics
Matches: 226, Mismatches: 33, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
43 13 0.06
44 13 0.06
45 9 0.04
46 21 0.09
47 40 0.18
48 34 0.15
49 52 0.23
50 12 0.05
51 4 0.02
52 1 0.00
53 14 0.06
54 13 0.06
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.24
Consensus pattern (48 bp):
GAAAAAAAATTAAATTAAAATGGAAGAAAAATAATTTAAATGAAATGA
Found at i:14244870 original size:5 final size:5
Alignment explanation
Indices: 14244862--14244929 Score: 64
Period size: 5 Copynumber: 12.6 Consensus size: 5
14244852 AAAATAATTT
* *
14244862 AAATG AAATGG AAATG AAATG AAATGG AAATAC AAATG AAATC AAATAG
1 AAATG AAAT-G AAATG AAATG AAAT-G AAAT-G AAATG AAATG AAAT-G
*
14244911 AAATAG AAGTG AAATG AAA
1 AAAT-G AAATG AAATG AAA
14244930 AAAAAAATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 30 0.57
6 23 0.43
ACGTcount: A:0.60, C:0.03, G:0.19, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:14244878 original size:11 final size:10
Alignment explanation
Indices: 14244862--14244929 Score: 64
Period size: 11 Copynumber: 6.3 Consensus size: 10
14244852 AAAATAATTT
14244862 AAATGAAATGG
1 AAATGAAAT-G
14244873 AAATGAAATG
1 AAATGAAATG
*
14244883 AAATGGAAATAC
1 AAAT-GAAAT-G
*
14244895 AAATGAAATC
1 AAATGAAATG
14244905 AAATAGAAATAG
1 AAAT-GAAAT-G
*
14244917 AAGTGAAATG
1 AAATGAAATG
14244927 AAA
1 AAA
14244930 AAAAAAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
10 13 0.27
11 29 0.59
12 7 0.14
ACGTcount: A:0.60, C:0.03, G:0.19, T:0.18
Consensus pattern (10 bp):
AAATGAAATG
Found at i:14244892 original size:22 final size:21
Alignment explanation
Indices: 14244862--14244929 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
14244852 AAAATAATTT
*
14244862 AAATGAAATGGAAATGAAATG
1 AAATGAAATAGAAATGAAATG
* *
14244883 AAATGGAAATACAAATGAAATC
1 AAAT-GAAATAGAAATGAAATG
*
14244905 AAATAGAAATAGAAGTGAAATG
1 AAAT-GAAATAGAAATGAAATG
14244927 AAA
1 AAA
14244930 AAAAAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.60, C:0.03, G:0.19, T:0.18
Consensus pattern (21 bp):
AAATGAAATAGAAATGAAATG
Found at i:14245523 original size:18 final size:18
Alignment explanation
Indices: 14245441--14245529 Score: 90
Period size: 18 Copynumber: 4.7 Consensus size: 18
14245431 AATAAATTAT
*
14245441 AAATTTAAATGAAAACAA
1 AAATTTAAATGAAAATAA
* *
14245459 AAACTGAAATGAAAATAA
1 AAATTTAAATGAAAATAA
*
14245477 AAATTTGAACTGAGAAATAA
1 AAATTT-AAATGA-AAATAA
14245497 TTAAATTTAAATGAAAA-AA
1 --AAATTTAAATGAAAATAA
14245516 ATAATTTAAATGAA
1 A-AATTTAAATGAA
14245530 TTGGAAATGT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 31 0.53
19 7 0.12
20 9 0.15
21 5 0.08
22 6 0.10
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTTAAATGAAAATAA
Found at i:14245547 original size:11 final size:11
Alignment explanation
Indices: 14245533--14245570 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14245523 AAATGAATTG
14245533 GAAATGTAAAT
1 GAAATGTAAAT
14245544 GAAATG-AAAT
1 GAAATGTAAAT
14245554 GGAAAT-TAAAT
1 -GAAATGTAAAT
14245565 GAAATG
1 GAAATG
14245571 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (11 bp):
GAAATGTAAAT
Found at i:14245550 original size:5 final size:5
Alignment explanation
Indices: 14245523--14245573 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
14245513 AAAATAATTT
* *
14245523 AAATG AATTGG AAATG TAAATG AAATG AAATGG AAATT AAATG AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAAT-G AAATG AAATG AAATG
14245571 AAA
1 AAA
14245574 AAAAAAGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 25 0.64
6 14 0.36
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:14245554 original size:16 final size:16
Alignment explanation
Indices: 14245522--14245570 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
14245512 AAAAATAATT
*
14245522 TAAATGAATTGGAAATG
1 TAAATGAAAT-GAAATG
14245539 TAAATGAAATGAAATG
1 TAAATGAAATGAAATG
* *
14245555 GAAATTAAATGAAATG
1 TAAATGAAATGAAATG
14245571 AAAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (16 bp):
TAAATGAAATGAAATG
Found at i:14250519 original size:89 final size:89
Alignment explanation
Indices: 14250372--14250614 Score: 229
Period size: 89 Copynumber: 2.7 Consensus size: 89
14250362 AGTACACGAC
* * * * ** * * *
14250372 AAATTAAATTTACAGATACAATAAAATACAAACATTCTACAATATTAATACACAAAAATATAAAA
1 AAATTAAATTTAAACACACAAAAAAATACAAACATGATAAAAAATTAATACACGAAAATATAAAA
14250437 TTCAAAC-AAAAATAATACGCACT
66 TTCAAACTAAAAATAATACGCACT
* * * * *
14250460 AAATTAAATTTAAACACCCAAGAAACTACAAACA-GATAGATAAAATTAATACACGAAAATTTTA
1 AAATTAAATTTAAACACACAAAAAAATACAAACATGATA-A-AAAATTAATACACGAAAATATAA
* * * * *
14250524 AATTCAAACTATATATAATATGGATT
64 AATTCAAACTAAAAATAATACGCACT
* * * ** *
14250550 AAATTAAATTTACAGACACAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTAAACACACAAAAAAATACAAACATGATAAAAAATTAATACACGAAAATATAAAA
14250615 ATGAAACCTT
Statistics
Matches: 122, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
87 2 0.02
88 28 0.23
89 50 0.41
90 40 0.33
91 2 0.02
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.26
Consensus pattern (89 bp):
AAATTAAATTTAAACACACAAAAAAATACAAACATGATAAAAAATTAATACACGAAAATATAAAA
TTCAAACTAAAAATAATACGCACT
Found at i:14254559 original size:18 final size:18
Alignment explanation
Indices: 14254536--14254591 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
14254526 GAATTAGCAC
14254536 AATTATAAAAAAATT-AT
1 AATTATAAAAAAATTAAT
14254553 AAATTATAAAAGAATATTAAT
1 -AATTATAAAA-AA-ATTAAT
*
14254574 AACTATTAAAAAAATTAA
1 AATTA-TAAAAAAATTAA
14254592 ACACCCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 10 0.30
19 7 0.21
20 9 0.27
21 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AATTATAAAAAAATTAAT
Found at i:14254808 original size:23 final size:22
Alignment explanation
Indices: 14254773--14254816 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
14254763 AAGGTGATAA
14254773 TATAATTTAATTATATATTAAAT
1 TATAATTTAATTA-ATATTAAAT
*
14254796 TATAATATT-ATTAATTTTAAA
1 TATAAT-TTAATTAATATTAAA
14254817 AACTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAATTTAATTAATATTAAAT
Found at i:14263185 original size:21 final size:22
Alignment explanation
Indices: 14263159--14263205 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
14263149 CTCTGCTCAA
* *
14263159 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTACGAAGTACT
14263180 ACTCCACCTGCTACGAAGTACT
1 ACTCCACCTGCTACGAAGTACT
14263202 ACTC
1 ACTC
14263206 ACTCCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTACGAAGTACT
Found at i:14267903 original size:50 final size:49
Alignment explanation
Indices: 14267805--14267923 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 49
14267795 GGATGGACAA
* *
14267805 TTTCAATGCATAGAGATATTTTATCATTCAAATACATGAGAATGGATGG
1 TTTCAATGCATAGAAATATTTTATCATTCAAATACATGAGAATAGATGG
* * * *
14267854 TTTCAATGCATATAAATATTTTTCTCATTCAAATACGTGTGCAA-AGATGG
1 TTTCAATGCATAGAAATA-TTTTATCATTCAAATACATGAG-AATAGATGG
14267904 TTTCAATGCAT-GAAGATATT
1 TTTCAATGCATAGAA-ATATT
14267924 GTTTCTTGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
49 20 0.33
50 38 0.63
51 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (49 bp):
TTTCAATGCATAGAAATATTTTATCATTCAAATACATGAGAATAGATGG
Found at i:14270067 original size:40 final size:40
Alignment explanation
Indices: 14270017--14270237 Score: 261
Period size: 40 Copynumber: 5.6 Consensus size: 40
14270007 ATCGTCAGAT
* * *
14270017 CAACCG-AACACACCAGACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTAATC
* *
14270056 CAACTGAAACACGCTAAACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTAATC
*
14270096 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTAATC
* * * * *
14270136 CGACTGAAATATGCCAAACAGAAGCTTC-TAAGAGCTAGTC
1 CAACCGAAACACGCCAAACAGAAGC-TCATAAGAGCTAATC
* * *
14270176 CACCCGAAACACGCC-AACAAAAGCTTATAAGAGCTAATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTAATC
*
14270215 C-ACCCAAATCACGCCAAACAGAA
1 CAACCGAAA-CACGCCAAACAGAA
14270238 AGTATCACAC
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 6 0.04
39 31 0.20
40 113 0.74
41 2 0.01
ACGTcount: A:0.43, C:0.29, G:0.16, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTAATC
Found at i:14277568 original size:19 final size:19
Alignment explanation
Indices: 14277541--14277581 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14277531 TACATAAGAT
* *
14277541 AAACGAACAAAGAAAACAA
1 AAACAAACAAACAAAACAA
*
14277560 AAACAAACAAACAATACAA
1 AAACAAACAAACAAAACAA
14277579 AAA
1 AAA
14277582 ATAAAACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (19 bp):
AAACAAACAAACAAAACAA
Found at i:14278235 original size:13 final size:12
Alignment explanation
Indices: 14278216--14278256 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
14278206 GTTGGCGATG
14278216 AAAAAAAAGAAA
1 AAAAAAAAGAAA
14278228 AGAAAAAAAGAAA
1 A-AAAAAAAGAAA
14278241 AAAAAAAGAGAAA
1 AAAAAAA-AGAAA
14278254 AAA
1 AAA
14278257 TGGGAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:14278243 original size:21 final size:21
Alignment explanation
Indices: 14278215--14278256 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14278205 AGTTGGCGAT
*
14278215 GAAAAAAAAGAAAAGAAAAAAA
1 GAAAAAAAA-AAGAGAAAAAAA
14278237 GAAAAAAAAAAGAGAAAAAA
1 GAAAAAAAAAAGAGAAAAAA
14278257 TGGGAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAAAGAGAAAAAAA
Found at i:14278303 original size:16 final size:16
Alignment explanation
Indices: 14278282--14278314 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14278272 TGGAGTTTTA
14278282 TGGGG-CTTTTTCTGTT
1 TGGGGCCTTTTT-TGTT
14278298 TGGGGCCTTTTTTGTT
1 TGGGGCCTTTTTTGTT
14278314 T
1 T
14278315 TTTTTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.12, G:0.30, T:0.58
Consensus pattern (16 bp):
TGGGGCCTTTTTTGTT
Found at i:14289578 original size:56 final size:56
Alignment explanation
Indices: 14289492--14289604 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
14289482 CTCCTCTTGC
14289492 TCCCTTGTAACGAAATTGTTATCTTGGCGAAAGACTTTATTACTGCAAGCAATTCG
1 TCCCTTGTAACGAAATTGTTATCTTGGCGAAAGACTTTATTACTGCAAGCAATTCG
*
14289548 TCCCTTGTAACGAAATTGTTATGTTGGCGAAAGACTTTATTACTGCAAGCAATTCG
1 TCCCTTGTAACGAAATTGTTATCTTGGCGAAAGACTTTATTACTGCAAGCAATTCG
14289604 T
1 T
14289605 ATACTTAGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (56 bp):
TCCCTTGTAACGAAATTGTTATCTTGGCGAAAGACTTTATTACTGCAAGCAATTCG
Found at i:14295125 original size:21 final size:22
Alignment explanation
Indices: 14295085--14295125 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14295075 GTCAGATTGA
* *
14295085 AAATTAAAATATATTTAAATCT
1 AAATTAAAATAAATTAAAATCT
14295107 AAATT-AAATAAATTAAAAT
1 AAATTAAAATAAATTAAAAT
14295126 AAAACCACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTAAAATAAATTAAAATCT
Found at i:14298775 original size:31 final size:30
Alignment explanation
Indices: 14298740--14298799 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14298730 GGAGGTGGGA
*
14298740 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
14298771 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
14298800 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:14299027 original size:9 final size:9
Alignment explanation
Indices: 14299013--14299049 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14299003 TATAGTTTGA
14299013 TATTCGAAT
1 TATTCGAAT
14299022 TATTCGAAT
1 TATTCGAAT
*
14299031 TATTCGAGT
1 TATTCGAAT
14299040 TATTCGAAT
1 TATTCGAAT
14299049 T
1 T
14299050 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14299121 original size:9 final size:9
Alignment explanation
Indices: 14299107--14299162 Score: 67
Period size: 9 Copynumber: 6.1 Consensus size: 9
14299097 TTGATTCTAA
14299107 TAACTCGAT
1 TAACTCGAT
14299116 TAACTCGAGT
1 TAACTCGA-T
* * *
14299126 TGATTCGAA
1 TAACTCGAT
14299135 TAACTCGAT
1 TAACTCGAT
*
14299144 TAACTCGAA
1 TAACTCGAT
14299153 TAACTCGAT
1 TAACTCGAT
14299162 T
1 T
14299163 CGTTTAACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 31 0.82
10 7 0.18
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (9 bp):
TAACTCGAT
Found at i:14299136 original size:28 final size:28
Alignment explanation
Indices: 14299092--14299151 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
14299082 GAAAAAAAAT
*
14299092 TCGAGTTGATTCTAATAACTCGATTAAC
1 TCGAGTTGATTCGAATAACTCGATTAAC
14299120 TCGAGTTGATTCGAATAACTCGATTAAC
1 TCGAGTTGATTCGAATAACTCGATTAAC
14299148 TCGA
1 TCGA
14299152 ATAACTCGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (28 bp):
TCGAGTTGATTCGAATAACTCGATTAAC
Found at i:14299439 original size:16 final size:16
Alignment explanation
Indices: 14299391--14299464 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
14299381 AAAATATATT
14299391 TTTTATAATTTTATAAT-
1 TTTT-TAATTTT-TAATG
*
14299408 TTTTAAATAATTTTAATG
1 TTTTTAAT--TTTTAATG
14299426 TTTTTAATTTTTAATGG
1 TTTTTAATTTTTAAT-G
* *
14299443 TTTTT-ATTTTTATTT
1 TTTTTAATTTTTAATG
14299458 TTTTTAA
1 TTTTTAA
14299465 ATTAATTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 5 0.10
16 19 0.40
17 14 0.29
18 10 0.21
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTTAATG
Found at i:14300780 original size:20 final size:20
Alignment explanation
Indices: 14300717--14300781 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
14300707 GGTGAGAATT
*
14300717 AAAAGTTTAGGGGGAAAATA
1 AAAAGTTTTGGGGGAAAATA
*
14300737 AAAAGTTTT--GGG--AGTA
1 AAAAGTTTTGGGGGAAAATA
14300753 AAAA-TTTTGGGGGAAAATA
1 AAAAGTTTTGGGGGAAAATA
14300772 AAAAGTTTTG
1 AAAAGTTTTG
14300782 AGGGTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 4 0.11
16 7 0.19
17 3 0.08
18 3 0.08
19 7 0.19
20 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (20 bp):
AAAAGTTTTGGGGGAAAATA
Found at i:14301075 original size:18 final size:18
Alignment explanation
Indices: 14301052--14301088 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14301042 GTTCGAGTTG
*
14301052 ACTCGAATAACTTGATTA
1 ACTCGAATAACTCGATTA
14301070 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
14301088 A
1 A
14301089 TTTAACTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:14311556 original size:18 final size:20
Alignment explanation
Indices: 14311513--14311557 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
14311503 TGATCCAAGC
14311513 ATACTATATGATAATAAGATT
1 ATACTATATGATAATAAGA-T
*
14311534 GTACTATATGATAA-AAG-T
1 ATACTATATGATAATAAGAT
14311552 ATACTA
1 ATACTA
14311558 CATTATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
20 3 0.14
21 13 0.59
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (20 bp):
ATACTATATGATAATAAGAT
Found at i:14312363 original size:19 final size:19
Alignment explanation
Indices: 14312339--14312379 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
14312329 TTGTTCTCAA
* *
14312339 TTAGTTCTTAAAATCATGT
1 TTAGTTATTAAAAGCATGT
14312358 TTAGTTATTAAAAGCATGT
1 TTAGTTATTAAAAGCATGT
14312377 TTA
1 TTA
14312380 TGCCGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (19 bp):
TTAGTTATTAAAAGCATGT
Found at i:14315421 original size:85 final size:85
Alignment explanation
Indices: 14315270--14315506 Score: 323
Period size: 85 Copynumber: 2.8 Consensus size: 85
14315260 CGTTACTCGG
* * * *
14315270 TGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATTCGGGGAATCAGCACATAGCAACCCC
* * *
14315334 TTTCACAGTTAAGGATATGA
66 TTTCACAATTAAAGATACGA
* * * * *
14315354 TGGAATCAGCAATTAGTAAGCACCTTTATATTCAGTAATTCGGGGAATCAGCACATAGCAACACC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATTCGGGGAATCAGCACATAGCAACCCC
*
14315419 TTTCACAATTAAAGATACGG
66 TTTCACAATTAAAGATACGA
* * *
14315439 TGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATCAGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATTCGGGGAATCAGCACATAGCAACCCC
14315504 TTT
66 TTT
14315507 TTATTTAATG
Statistics
Matches: 131, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
84 20 0.15
85 111 0.85
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (85 bp):
TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATTCGGGGAATCAGCACATAGCAACCCC
TTTCACAATTAAAGATACGA
Found at i:14315448 original size:43 final size:41
Alignment explanation
Indices: 14315275--14315506 Score: 154
Period size: 42 Copynumber: 5.5 Consensus size: 41
14315265 CTCGGTGGAT
* **
14315275 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCACCTTTAAATT-AAAGATACGGGGAA
* * * * *
14315316 TCAACACATAGCAACC-CCTTTCACAGTTAAGGATATGATGGAA
1 TCAGCACATAGCAACCACCTTT-A-AATTAAAGATACG-GGGAA
* * * * *
14315359 TCAGCA-ATTAGTAAGCACCTTTATATT-CAGTAATTCGGGGAA
1 TCAGCACA-TAGCAACCACCTTTAAATTAAAG--ATACGGGGAA
14315401 TCAGCACATAGCAA-CACCTTTCACAATTAAAGATACGGTGGAA
1 TCAGCACATAGCAACCACCTTT-A-AATTAAAGATACGG-GGAA
* * *
14315444 TCAGCACTTAGCAACCACCTTTAAAGTCAATA-ATTCGGGGAA
1 TCAGCACATAGCAACCACCTTTAAA-TTAA-AGATACGGGGAA
*
14315486 TCAGCACTTAGCAACC-CCTTT
1 TCAGCACATAGCAACCACCTTT
14315507 TTATTTAATG
Statistics
Matches: 151, Mismatches: 24, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.01
41 29 0.19
42 53 0.35
43 52 0.34
44 15 0.10
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
TCAGCACATAGCAACCACCTTTAAATTAAAGATACGGGGAA
Found at i:14320534 original size:251 final size:250
Alignment explanation
Indices: 14320092--14320594 Score: 943
Period size: 251 Copynumber: 2.0 Consensus size: 250
14320082 TGGCATGTAC
*
14320092 TTAGGAGTGTCAAGTTGTTTGTAATGTTAATTATATTTTTGATCTAGTTGATTTTGACCACATAT
1 TTAGGAGTGTCAAGTTGTTTGTAATGTTAATTATATTTTCGATCTAGTTGATTTTGACCACATAT
* *
14320157 GGTAACTTATGGAAATGTTGATTTGCTTATGTTCATAGTTTTGGTATATTGCTATTCATAAATAG
66 GGTAACTTATGGAAATGTTGATTTGCTCATGTTCATAGTTTTGGTATATTGATATTCATAAATAG
14320222 ATGACAATTATAATGAGTCAGGAATGCTTTAATCAACTTGTTGTATGGAATGGATAAGTAATAAA
131 ATGACAATTATAATGAGTCAGGAATGCTTTAATCAACTTGTTGTATGGAATGGATAAGTAATAAA
*
14320287 AAATGGTATAAATAGGTGGAATGGCTTGTATTGGTTCAAGTATCCTTTTTGTGAA
196 AAATGGTATAAATAGGTGGAATGGCTTGTATTGGTTCAAGTATCCTTGTTGTGAA
14320342 TTAGGAGTGTCAAGTTGTTTGTAATGTTAATTATATTTTGCGATCTAGTTGATTTTGACCACATA
1 TTAGGAGTGTCAAGTTGTTTGTAATGTTAATTATATTTT-CGATCTAGTTGATTTTGACCACATA
14320407 TGGTAACTTATGGAAATGTTGATTTGCTCATGTTCATAGTTTTGGTATATTGATATTCATAAATA
65 TGGTAACTTATGGAAATGTTGATTTGCTCATGTTCATAGTTTTGGTATATTGATATTCATAAATA
*
14320472 GATGGCAATTATAATGAGTCAGGAATGCTTTAATCAACTTGTTGTATGGAATGGATAAGTAATAA
130 GATGACAATTATAATGAGTCAGGAATGCTTTAATCAACTTGTTGTATGGAATGGATAAGTAATAA
*
14320537 CAAATGGTATAAATAGGTGGAATGGCTTGTATTGGTTCAAGTATCCTTGTTGTGAA
195 AAAATGGTATAAATAGGTGGAATGGCTTGTATTGGTTCAAGTATCCTTGTTGTGAA
14320593 TT
1 TT
14320595 TGTGAATTAG
Statistics
Matches: 246, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
250 39 0.16
251 207 0.84
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (250 bp):
TTAGGAGTGTCAAGTTGTTTGTAATGTTAATTATATTTTCGATCTAGTTGATTTTGACCACATAT
GGTAACTTATGGAAATGTTGATTTGCTCATGTTCATAGTTTTGGTATATTGATATTCATAAATAG
ATGACAATTATAATGAGTCAGGAATGCTTTAATCAACTTGTTGTATGGAATGGATAAGTAATAAA
AAATGGTATAAATAGGTGGAATGGCTTGTATTGGTTCAAGTATCCTTGTTGTGAA
Found at i:14322680 original size:12 final size:12
Alignment explanation
Indices: 14322663--14322689 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14322653 CAAACGCCCA
14322663 TGTGCTAGGCCG
1 TGTGCTAGGCCG
14322675 TGTGCTAGGCCG
1 TGTGCTAGGCCG
14322687 TGT
1 TGT
14322690 AACTTTCTAA
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:0.07, C:0.22, G:0.41, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:14323668 original size:20 final size:20
Alignment explanation
Indices: 14323640--14323696 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
14323630 AATACTATGA
* *
14323640 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
14323660 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
14323680 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
14323697 GCATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:14328815 original size:22 final size:20
Alignment explanation
Indices: 14328774--14328812 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14328764 TAATTTAAAA
14328774 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
14328794 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
14328813 ATGGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:14328822 original size:20 final size:20
Alignment explanation
Indices: 14328777--14328822 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
14328767 TTTAAAATAT
* *
14328777 AAAAATTTATTAATATGTAT
1 AAAAATTTATTAATATATAG
* *
14328797 ATAAATTTATTAATATATGG
1 AAAAATTTATTAATATATAG
14328817 AAAAAT
1 AAAAAT
14328823 AACTTTTCCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAAATTTATTAATATATAG
Done.