Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 36 of 120
Found at i:9377190 original size:18 final size:17
Alignment explanation
Indices: 9377131--9377196 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
9377121 TTTAGCCTTT
9377131 TTTA-TTATTTTTATTA
1 TTTATTTATTTTTATTA
*
9377147 TTTTCATTTA-TTTTAATA
1 -TTT-ATTTATTTTTATTA
9377165 TTTAATTT-TTATTTATTTA
1 TTT-ATTTATT-TTTA-TTA
9377184 TTTATTTATTTTT
1 TTTATTTATTTTT
9377197 CTTTCTTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 11 0.28
18 19 0.47
19 10 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTTATTA
Found at i:9377296 original size:25 final size:27
Alignment explanation
Indices: 9377267--9377316 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9377257 TAACTTTTAA
*
9377267 TTATTGA-TTGTT-TCTTTTTTTATAT
1 TTATTGATTTGTTATCTATTTTTATAT
*
9377292 TTATTTATTTGTTATCTATTTTTAT
1 TTATTGATTTGTTATCTATTTTTAT
9377317 GCCATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 5 0.24
27 10 0.48
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (27 bp):
TTATTGATTTGTTATCTATTTTTATAT
Found at i:9382383 original size:210 final size:209
Alignment explanation
Indices: 9382010--9382416 Score: 715
Period size: 210 Copynumber: 1.9 Consensus size: 209
9382000 TAGATATCAT
*
9382010 CATCAAAGATGTCATCATCGTAAATGTCATCTGCACAAAAATAATCATAGGCGTCCATGGTCTAA
1 CATCAAAGATGTCATCATCGTAAATGTCATCTGCACAAAAATAATCATAGGCATCCATGGTCTAA
9382075 GAATAATATGATAGAATTTAGAGAAAAGTAGTAAATCTGAAGAATCTATTAATATTGTTAGTTCG
66 GAATAATATGATAGAATTTAGAGAAAAGTAGTAAATCTGAAGAATCTATTAATATTGTTAGTTCG
*
9382140 TATTTATATCCTAAAATTTTCCTAATTATCCTAATAGCAAAGAAGGAATAAAAATCACTAAAACG
131 TATCTATATCCTAAAATTTTCCTAATTATCCTAATAGCAAAGAAGGAAT-AAAATCACTAAAACG
9382205 TTGTCTCACCGGTAA
195 TTGTCTCACCGGTAA
* * *
9382220 CATCAGAGATTTCATCATTGTAAATGTCATCTGCACAAAAATAATCATAGGCATCCATGGTCTAA
1 CATCAAAGATGTCATCATCGTAAATGTCATCTGCACAAAAATAATCATAGGCATCCATGGTCTAA
* * *
9382285 GAATAATATGATAGAATTTAGAGAAATGTATTAAATCTGAAGAATCTGTTAATATTGTTAGTTCG
66 GAATAATATGATAGAATTTAGAGAAAAGTAGTAAATCTGAAGAATCTATTAATATTGTTAGTTCG
* *
9382350 TATCTATATCCTAAAATTTTTCTAATTATCCTAATAGCAAAGAAGGAATAAAATCACTAAAATGT
131 TATCTATATCCTAAAATTTTCCTAATTATCCTAATAGCAAAGAAGGAATAAAATCACTAAAACGT
9382415 TG
196 TG
9382417 CCTTCTCGGC
Statistics
Matches: 187, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
209 17 0.09
210 170 0.91
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (209 bp):
CATCAAAGATGTCATCATCGTAAATGTCATCTGCACAAAAATAATCATAGGCATCCATGGTCTAA
GAATAATATGATAGAATTTAGAGAAAAGTAGTAAATCTGAAGAATCTATTAATATTGTTAGTTCG
TATCTATATCCTAAAATTTTCCTAATTATCCTAATAGCAAAGAAGGAATAAAATCACTAAAACGT
TGTCTCACCGGTAA
Found at i:9386190 original size:73 final size:73
Alignment explanation
Indices: 9386071--9386209 Score: 251
Period size: 73 Copynumber: 1.9 Consensus size: 73
9386061 CGAAAAAAGC
* * *
9386071 AGTTCAAAGTGACCATATTGTCTGTGGTCAAAGGTTAGATAGGATCGAGGGAGAAATGCAATCCA
1 AGTTCAAAGTGACCATATTATCTATGGTCAAAGGTTAGATAGGATCGAAGGAGAAATGCAATCCA
9386136 TAAAGAGT
66 TAAAGAGT
9386144 AGTTCAAAGTGACCATATTATCTATGGTCAAAGGTTAGATAGGATCGAAGGAGAAATGCAATCCA
1 AGTTCAAAGTGACCATATTATCTATGGTCAAAGGTTAGATAGGATCGAAGGAGAAATGCAATCCA
9386209 T
66 T
9386210 GAGGGCAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (73 bp):
AGTTCAAAGTGACCATATTATCTATGGTCAAAGGTTAGATAGGATCGAAGGAGAAATGCAATCCA
TAAAGAGT
Found at i:9387925 original size:18 final size:19
Alignment explanation
Indices: 9387887--9387925 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
9387877 CAATATTCTA
9387887 AACTCTTCCATCAAATTTT
1 AACTCTTCCATCAAATTTT
9387906 AACTCTT-CA-CAAACTTTT
1 AACTCTTCCATCAAA-TTTT
9387924 AA
1 AA
9387926 AAACCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (19 bp):
AACTCTTCCATCAAATTTT
Found at i:9398833 original size:40 final size:40
Alignment explanation
Indices: 9398725--9398818 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
9398715 CTTCGTTGCA
*
9398725 ACATAGCATGTCTATGTTACAACAAACCCCCTTCGTCACG
1 ACATAGCATGTCTATGTTACAACAAACCCCCTTCATCACG
* *
9398765 AAATAGCATGTCTATGTTACAACAAACCCCCTTCATCATG
1 ACATAGCATGTCTATGTTACAACAAACCCCCTTCATCACG
9398805 ACATAGCATGTCTA
1 ACATAGCATGTCTA
9398819 CGTCGCGACA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (40 bp):
ACATAGCATGTCTATGTTACAACAAACCCCCTTCATCACG
Found at i:9399555 original size:12 final size:12
Alignment explanation
Indices: 9399538--9399567 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9399528 AATCCCACTT
9399538 TTATTTTCTATC
1 TTATTTTCTATC
*
9399550 TTATTTTCTATT
1 TTATTTTCTATC
9399562 TTATTT
1 TTATTT
9399568 CATGCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTTTCTATC
Found at i:9400821 original size:220 final size:220
Alignment explanation
Indices: 9400439--9400878 Score: 844
Period size: 220 Copynumber: 2.0 Consensus size: 220
9400429 TAAAGATTAT
* *
9400439 GAAGAGGAAATTGAACATACTCTAAGCATCGAAAATGAGCCTCAATCTCGTGATGAATCGGTTCC
1 GAAGAGGAAATTGAACATACTCTAAGCATCGAAAACGAGCCTCAATCTCGTGATGAATCAGTTCC
9400504 TATGAGTAATTATGATGACCTCGATTCGCAAACTATGGGTTTTCAATTGACAACTACTACCTACA
66 TATGAGTAATTATGATGACCTCGATTCGCAAACTATGGGTTTTCAATTGACAACTACTACCTACA
9400569 GAGATACAAAAGAGAAGCTGGAAATTGAAGAATCTATCAATCAAGGGTTCAACCTTGGAAGGGAC
131 GAGATACAAAAGAGAAGCTGGAAATTGAAGAATCTATCAATCAAGGGTTCAACCTTGGAAGGGAC
9400634 ATAGCTATGATATGCAACGCCTTTG
196 ATAGCTATGATATGCAACGCCTTTG
*
9400659 GAAGAGGAAATTGAACATACTCTAAGCATCGAAAACGAGCCTCAATCTCGTGATGAATTAGTTCC
1 GAAGAGGAAATTGAACATACTCTAAGCATCGAAAACGAGCCTCAATCTCGTGATGAATCAGTTCC
9400724 TATGAGTAATTATGATGACCTCGATTCGCAAACTATGGGTTTTCAATTGACAACTACTACCTACA
66 TATGAGTAATTATGATGACCTCGATTCGCAAACTATGGGTTTTCAATTGACAACTACTACCTACA
*
9400789 GAGATACAAAAGAGAAGTTGGAAATTGAAGAATCTATCAATCAAGGGTTCAACCTTGGAAGGGAC
131 GAGATACAAAAGAGAAGCTGGAAATTGAAGAATCTATCAATCAAGGGTTCAACCTTGGAAGGGAC
9400854 ATAGCTATGATATGCAACGCCTTTG
196 ATAGCTATGATATGCAACGCCTTTG
9400879 TTTTGAAACA
Statistics
Matches: 216, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 216 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (220 bp):
GAAGAGGAAATTGAACATACTCTAAGCATCGAAAACGAGCCTCAATCTCGTGATGAATCAGTTCC
TATGAGTAATTATGATGACCTCGATTCGCAAACTATGGGTTTTCAATTGACAACTACTACCTACA
GAGATACAAAAGAGAAGCTGGAAATTGAAGAATCTATCAATCAAGGGTTCAACCTTGGAAGGGAC
ATAGCTATGATATGCAACGCCTTTG
Found at i:9401569 original size:25 final size:25
Alignment explanation
Indices: 9401541--9401598 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 25
9401531 TATTCCCTAG
*
9401541 TTTAATTTTTGTTAGTTC-TTTATTA
1 TTTAATTTTTATTA-TTCATTTATTA
*
9401566 TTT-A-TTTTATTATTCATTTATTT
1 TTTAATTTTTATTATTCATTTATTA
9401589 TATTAATTTT
1 T-TTAATTTT
9401599 AATCAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.11
23 14 0.52
24 3 0.11
25 4 0.15
26 3 0.11
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTAATTTTTATTATTCATTTATTA
Found at i:9401586 original size:16 final size:15
Alignment explanation
Indices: 9401560--9401593 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
9401550 TGTTAGTTCT
9401560 TTATTATTTATTTTA
1 TTATTATTTATTTTA
9401575 TTATTCATTTATTTTA
1 TTATT-ATTTATTTTA
9401591 TTA
1 TTA
9401594 ATTTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTATTTATTTTA
Found at i:9403331 original size:16 final size:16
Alignment explanation
Indices: 9403310--9403349 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
9403300 AAGAATAGTG
*
9403310 TTTTTGGGACTTTTAA
1 TTTTTGGGACTTGTAA
*
9403326 TTTTTGAGACTTGTAA
1 TTTTTGGGACTTGTAA
9403342 -TTTTGGGA
1 TTTTTGGGA
9403350 TTATTTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (16 bp):
TTTTTGGGACTTGTAA
Found at i:9407125 original size:17 final size:19
Alignment explanation
Indices: 9407084--9407125 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9407074 TTTCTTCTCT
*
9407084 TTGTTTTTTCTTTCACCAGA
1 TTGTTTTTTCTTTCA-CAAA
9407104 TTGTTTTTT-TTTCA-AAA
1 TTGTTTTTTCTTTCACAAA
9407121 TTGTT
1 TTGTT
9407126 GTTGCCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.62
Consensus pattern (19 bp):
TTGTTTTTTCTTTCACAAA
Found at i:9408631 original size:112 final size:112
Alignment explanation
Indices: 9408433--9408652 Score: 388
Period size: 112 Copynumber: 2.0 Consensus size: 112
9408423 AAATTTCAAG
* *
9408433 ATATCTTAAATACTTGGAGGATAAGATGATAAAATGTTTATTTTCTTAATTTCATTTAATAATAT
1 ATATCTTAAATACTTGGAGGATAAGATAATAAAATGTTTAATTTCTTAATTTCATTTAATAATAT
9408498 AATAATTATAAATTTAATGTTATTTACTTACAAGAAAAA-AAAATAGA
66 AATAATTATAAATTTAATGTTA-TTACTTACAAGAAAAATAAAATAGA
*
9408545 ATATCTTAAATATTTGGAGGATAAGATAATAAAATGTTTAATTTCTTAATTTCATTTAATAATAT
1 ATATCTTAAATACTTGGAGGATAAGATAATAAAATGTTTAATTTCTTAATTTCATTTAATAATAT
*
9408610 AATAATTATAAATTTATTGTTATTACTTACAAGAAAAATAAAA
66 AATAATTATAAATTTAATGTTATTACTTACAAGAAAAATAAAA
9408653 AATTAGAGAT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 16 0.16
112 87 0.84
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (112 bp):
ATATCTTAAATACTTGGAGGATAAGATAATAAAATGTTTAATTTCTTAATTTCATTTAATAATAT
AATAATTATAAATTTAATGTTATTACTTACAAGAAAAATAAAATAGA
Found at i:9426118 original size:24 final size:25
Alignment explanation
Indices: 9426091--9426139 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
9426081 TCTCGAACAA
9426091 TATTTGAAA-ATCGAAAAAAATGGG
1 TATTTGAAAGATCGAAAAAAATGGG
*
9426115 TATTTTAAATGATCGAAAAAAATGG
1 TATTTGAAA-GATCGAAAAAAATGG
9426140 AATTCGTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (25 bp):
TATTTGAAAGATCGAAAAAAATGGG
Found at i:9427351 original size:30 final size:28
Alignment explanation
Indices: 9427192--9427656 Score: 191
Period size: 29 Copynumber: 15.9 Consensus size: 28
9427182 GATGCTCGGA
* * *
9427192 GGTAAAATGGTAATTTTTGGACGATCAAG
1 GGTAAAATGGTAATTTTTGAAAGTTC-AG
* * *
9427221 GGTAAAATGGTAATTTTTAGACA-CTCGG
1 GGTAAAATGGTAATTTTT-GAAAGTTCAG
* * *
9427249 GAGAAAAATGGTAATTTTTGGACGTTACAG
1 G-GTAAAATGGTAATTTTTGAAAGTT-CAG
* * * *
9427279 GGTAAAACGATAATTTTTGGACA-CTCGAG
1 GGTAAAATGGTAATTTTT-GAAAGTTC-AG
***
9427308 ACCAAAATGGTAATTTTTGAAAAGTTCAG
1 GGTAAAATGGTAATTTTTG-AAAGTTCAG
* *
9427337 GGTCAAAAAT-GTAATTTTAGACA-TTCGAG
1 GGT--AAAATGGTAATTTTTGAAAGTTC-AG
* * *
9427366 GGTAAAATGGTAATTTCT-AGATGTTTGAG
1 GGTAAAATGGTAATTTTTGA-AAG-TTCAG
**
9427395 GGTAAAATGGTAATTTTTGAAAGTTTGG
1 GGTAAAATGGTAATTTTTGAAAGTTCAG
* **
9427423 GGTTAAAAAT-GTAATTTTTGGACA-TCTTGG
1 GG-T-AAAATGGTAATTTTT-GAAAGT-TCAG
* *
9427453 GGTAAAATGGTAATTTTTGGATGTTCGAG
1 GGTAAAATGGTAATTTTTGAAAGTTC-AG
*
9427482 GGTAAAATGGTAACTTTTTGAAAGCTCTA-
1 GGTAAAATGGTAA-TTTTTGAAAGTTC-AG
* * * * *
9427511 GGTCAAAAAT-TTAATTTTTGGACGTCCGGG
1 GGT--AAAATGGTAATTTTTGAAAGTTC-AG
*
9427541 GGTAAAATGGTAATTTTT-AGAGGTTCAGG
1 GGTAAAATGGTAATTTTTGA-AAGTTCA-G
* * *
9427570 GGTAAAAAT-GCAACTTTGGAAAGTTCGAG
1 GGT-AAAATGGTAATTTTTGAAAGTTC-AG
*
9427599 GGTAAAAAAAT-GTAATTTTTGGAAAGTTCGG
1 GGT---AAAATGGTAATTTTT-GAAAGTTCAG
9427630 AGGTCAAAAT-GTAATTTTTAGAAAGTT
1 -GGT-AAAATGGTAATTTTT-GAAAGTT
9427657 TAAGGGTCAA
Statistics
Matches: 328, Mismatches: 71, Indels: 73
0.69 0.15 0.15
Matches are distributed among these distances:
27 6 0.02
28 32 0.10
29 178 0.54
30 78 0.24
31 23 0.07
32 11 0.03
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.33
Consensus pattern (28 bp):
GGTAAAATGGTAATTTTTGAAAGTTCAG
Found at i:9427368 original size:87 final size:87
Alignment explanation
Indices: 9427163--9427617 Score: 342
Period size: 87 Copynumber: 5.2 Consensus size: 87
9427153 AACAAACGGA
* * * *
9427163 GTCAAAAATGCAATTTTTAG--ATGCTCG-GAGGTAAAATGGTAATTTTTGGACGATCAAGGGTA
1 GTCAAAAATGTAA-TTTTAGACAT-CTCGAG-GGTAAAATGGTAATTTTTGGATGTTCGAGGGTA
* *
9427225 AAATGGTAATTTTTAGACA-CTC-GG
63 AAATGGTAATTTTT-GAAAGTTCAGG
** * * * * *** ***
9427249 GAGAAAAATGGTAATTTTTGGACGT-TAC-AGGGTAAAACGATAATTTTTGGACACTCGAGACCA
1 GTCAAAAAT-GTAA-TTTTAGACATCT-CGAGGGTAAAATGGTAATTTTTGGATGTTCGAGGGTA
9427312 AAATGGTAATTTTTGAAAAGTTCAGG
63 AAATGGTAATTTTTG-AAAGTTCAGG
* * *
9427338 GTCAAAAATGTAATTTTAGACAT-TCGAGGGTAAAATGGTAATTTCTAGATGTTTGAGGGTAAAA
1 GTCAAAAATGTAATTTTAGACATCTCGAGGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAAA
**
9427402 TGGTAATTTTTGAAAGTTTGGG
66 TGGTAATTTTTGAAAGTTCAGG
* * *
9427424 GTTAAAAATGTAATTTTTGGACATCTTG-GGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAA
1 GTCAAAAATGTAA-TTTTAGACATCTCGAGGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAA
*
9427488 ATGGTAACTTTTTGAAAGCTCTA-G
65 ATGGTAA-TTTTTGAAAGTTC-AGG
* * * * * *
9427512 GTCAAAAATTTAATTTTTGGACGTC-CGGGGGTAAAATGGTAATTTTTAGAGGTTC-AGGGGTAA
1 GTCAAAAATGTAA-TTTTAGACATCTCGAGGGTAAAATGGTAATTTTTGGATGTTCGA-GGGT-A
* * *
9427575 AAAT-GCAACTTTGGAAAGTTCGAGG
63 AAATGGTAATTTTTGAAAGTTC-AGG
*
9427600 GTAAAAAAATGTAATTTT
1 GT-CAAAAATGTAATTTT
9427618 TGGAAAGTTC
Statistics
Matches: 297, Mismatches: 54, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
86 29 0.10
87 161 0.54
88 83 0.28
89 24 0.08
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (87 bp):
GTCAAAAATGTAATTTTAGACATCTCGAGGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAAA
TGGTAATTTTTGAAAGTTCAGG
Found at i:9427571 original size:29 final size:28
Alignment explanation
Indices: 9427174--9427576 Score: 215
Period size: 29 Copynumber: 13.9 Consensus size: 28
9427164 TCAAAAATGC
* *
9427174 AATTTTTAGATGCTCGGAGGTAAAATGGT
1 AATTTTTAGACGTTCGG-GGTAAAATGGT
* * *
9427203 AATTTTTGGACGATCAAGGGTAAAATGGT
1 AATTTTTAGACGTTC-GGGGTAAAATGGT
** *
9427232 AATTTTTAGACACTCGGGAGAAAAATGGT
1 AATTTTTAGACGTTCGGG-GTAAAATGGT
* * * *
9427261 AATTTTTGGACGTTACAGGGTAAAACGAT
1 AATTTTTAGACGTT-CGGGGTAAAATGGT
* ** ***
9427290 AATTTTTGGACACTCGAGACCAAAATGGT
1 AATTTTTAGACGTTCG-GGGTAAAATGGT
* * *
9427319 AATTTTTGAAAAGTTCAGGGTCAAAAAT-GT
1 AATTTTT-AGACGTTCGGGGT--AAAATGGT
*
9427349 AA-TTTTAGACATTCGAGGGTAAAATGGT
1 AATTTTTAGACGTTCG-GGGTAAAATGGT
* * *
9427377 AATTTCTAGATGTTTGAGGGTAAAATGGT
1 AATTTTTAGACGTTCG-GGGTAAAATGGT
* *
9427406 AATTTTT-GAAAGTTTGGGGTTAAAAAT-GT
1 AATTTTTAG-ACGTTCGGGG-T-AAAATGGT
* * *
9427435 AATTTTTGGACATCTTGGGGTAAAATGGT
1 AATTTTTAGACGT-TCGGGGTAAAATGGT
* *
9427464 AATTTTTGGATGTTCGAGGGTAAAATGGT
1 AATTTTTAGACGTTCG-GGGTAAAATGGT
* * ** *
9427493 AACTTTTT-GAAAGCTCTAGGTCAAAAAT-TT
1 AA-TTTTTAG-ACGTTCGGGGT--AAAATGGT
* *
9427523 AATTTTTGGACGTCCGGGGGTAAAATGGT
1 AATTTTTAGACGTTC-GGGGTAAAATGGT
*
9427552 AATTTTTAGAGGTTCAGGGGTAAAA
1 AATTTTTAGACGTTC-GGGGTAAAA
9427577 ATGCAACTTT
Statistics
Matches: 287, Mismatches: 63, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
27 5 0.02
28 28 0.10
29 205 0.71
30 39 0.14
31 10 0.03
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (28 bp):
AATTTTTAGACGTTCGGGGTAAAATGGT
Found at i:9429366 original size:17 final size:17
Alignment explanation
Indices: 9429344--9429417 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 17
9429334 TTTTATGAAT
9429344 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* **
9429361 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
9429378 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
9429395 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
9429412 TTTAAA
1 TTTAAA
9429418 AAAGATTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
16 3 0.06
17 44 0.90
18 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9429376 original size:5 final size:6
Alignment explanation
Indices: 9429344--9429417 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
9429334 TTTTATGAAT
* *
9429344 TTTAAA TTTAAA -ATAAA TTTAAA CTT-AA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
9429390 -ATAAA TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
9429418 AAAGATTTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 19 0.35
6 33 0.61
7 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:9429382 original size:34 final size:34
Alignment explanation
Indices: 9429344--9429417 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
9429334 TTTTATGAAT
**
9429344 TTTAAATTTAAAATAAATTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAATTTAAACTTAAAATAAA
*
9429378 TTTAAATTTAAAATAAATTTAATCTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAACTTAAAATAAA
9429412 TTTAAA
1 TTTAAA
9429418 AAAGATTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTAAATTTAAAATAAATTTAAACTTAAAATAAA
Found at i:9429406 original size:23 final size:23
Alignment explanation
Indices: 9429346--9429399 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
9429336 TTATGAATTT
* *
9429346 TAAATTTAAA-ATAAATTTAAAC
1 TAAATTTAAATTTAAATTTAAAA
*
9429368 TTAATTTAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAATTTAAAA
9429391 TAAATTTAA
1 TAAATTTAA
9429400 TCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATTTAAATTTAAATTTAAAA
Found at i:9429426 original size:11 final size:11
Alignment explanation
Indices: 9429346--9429399 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
9429336 TTATGAATTT
9429346 TAAATTTAAAA
1 TAAATTTAAAA
*
9429357 TAAATTTAAAC
1 TAAATTTAAAA
* *
9429368 TTAATTTAAATT
1 TAAATTTAAA-A
9429380 TAAATTTAAAA
1 TAAATTTAAAA
9429391 TAAATTTAA
1 TAAATTTAA
9429400 TCTTAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:9430165 original size:209 final size:209
Alignment explanation
Indices: 9429836--9430815 Score: 1401
Period size: 209 Copynumber: 4.7 Consensus size: 209
9429826 TTTAGAAAGT
*
9429836 TAACCGCTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
1 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
* *
9429901 TTCATTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
66 CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
* * * *
9429966 ATCACTTGCTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCATTTCTTTGTA
131 ATCACTTGTTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCTATA
9430031 TCTCATCAGGAAGG
196 TCTCATCAGGAAGG
* * * *
9430045 TAACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCTAAGATTTG
1 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
* * * *
9430110 CTCACTTTGAGCCTGGTTTCATTGATTTGGTATGCTTCTCTA-TATCTCATCAGGAAGCTGACCT
66 CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGACCG
** ** * *
9430174 CATCACTTGTTTCAATCTGCTTCTCTGTGTCTCATCAGGAAGACGGATCTGGTTCACTTCTCTAT
130 CATCACTTGTTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCTAT
*
9430239 ATCTTATCAGGAAGG
195 ATCTCATCAGGAAGG
* * *
9430254 TAACCGCTTTATTGCTTCGACCTACTTCTCAGTATCTCATCATGAAGCTAAGGTTCGAAGATTTG
1 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
* * *
9430319 CTCACTTTGAGCCTGGTTTTATAGATTTGGTCTACTTCTCAGTATCTCATCCA-GAAGATGACTG
66 CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCAT-CAGGAAGATGACCG
* * *
9430383 CATCACTTGTTTTGATCCACTTATCTATGTCTCATTAGGAAGACGGATCTGGTTCACTTCTCTAT
130 CATCACTTGTTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCTAT
9430448 ATCTCATCAGGAAGG
195 ATCTCATCAGGAAGG
*
9430463 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTA
1 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
* * *
9430528 CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGAGCAC
66 CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
* * ** * *
9430593 ATCACTTGTTTTGATCCACTTCTCTGTGTCTCATC-AGGAGACAAATCTGGTTCACTTCTTTGTA
131 ATCACTTGTTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCTATA
*
9430657 TCTCATCAAGAAGG
196 TCTCATCAGGAAGG
* * * * *
9430671 TAACCGCTTTATTGCTTCGACCTGCTTCTCAATATCTTATCAGGAAGCTGGGGTTCGGAGATTCG
1 TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
* * * * * * *
9430736 CTCA-TATCGAGCTTTGTTTCATTGAGTTGGTATACTTCTCTGTATCTAATCAGGAAGATGACCG
66 CTCACT-TTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCG
* *
9430800 CCTCACTTATTTTGAT
130 CATCACTTGTTTTGAT
9430816 TCGCTCCTCT
Statistics
Matches: 686, Mismatches: 80, Indels: 11
0.88 0.10 0.01
Matches are distributed among these distances:
207 1 0.00
208 164 0.24
209 518 0.76
210 3 0.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (209 bp):
TAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTG
CTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
ATCACTTGTTTTGATCCACTTCTCTATGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCTATA
TCTCATCAGGAAGG
Found at i:9430881 original size:39 final size:39
Alignment explanation
Indices: 9430835--9431061 Score: 138
Period size: 39 Copynumber: 5.8 Consensus size: 39
9430825 TGCCCCATGA
* * *
9430835 TCGGGGTAAGAGATTGGATGGCTGTGATCTACCCCATGG-
1 TCGGGGTAAAAGATCGGATGGCTGTAATCTACCCCA-GGC
* * * * *
9430874 TCGGGGTAAAAGATCGGATGGTTGCAATATGCCCCTA-TC
1 TCGGGGTAAAAGATCGGATGGCTGTAATCTACCCC-AGGC
* * * * * * * **
9430913 TAGGGGTAAGAGATTGGCT-GATGATGATCTGCCTTAGGC
1 TCGGGGTAAAAGATCGGATGGCTG-TAATCTACCCCAGGC
* ** *
9430952 TCGGGGCAAAAGATCGGATGGCTACAATCTGCCCCAGGC
1 TCGGGGTAAAAGATCGGATGGCTGTAATCTACCCCAGGC
* * * * * * *
9430991 TCGGGGTAAGAGATTGGCT-GATGGTGATCTAGCCTAGGC
1 TCGGGGTAAAAGATCGGATGGCT-GTAATCTACCCCAGGC
9431030 TCGGGGTAAAAGATCGGATGGCTGTAATCTAC
1 TCGGGGTAAAAGATCGGATGGCTGTAATCTAC
9431062 TCTACTTGAT
Statistics
Matches: 134, Mismatches: 47, Indels: 14
0.69 0.24 0.07
Matches are distributed among these distances:
38 6 0.04
39 123 0.92
40 5 0.04
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (39 bp):
TCGGGGTAAAAGATCGGATGGCTGTAATCTACCCCAGGC
Found at i:9431059 original size:78 final size:77
Alignment explanation
Indices: 9430823--9431059 Score: 282
Period size: 78 Copynumber: 3.0 Consensus size: 77
9430813 GATTCGCTCC
* * * * *
9430823 TCTGCCCCATGATCGGGGTAAGAGATTGGATGGCT-GTGATCTACCCCATGG-TCGGGGTAAAAG
1 TCTGCCCCA-GCTCGGGGTAAGAGATTGGCT-GATGGTGATCTAGCCTA-GGCTCGGGGTAAAAG
*
9430886 ATCGGATGGTTGCAA
63 ATCGGATGGCTGCAA
* * * * *
9430901 TATGCCCCTATCTAGGGGTAAGAGATTGGCTGATGATGATCT-GCCTTAGGCTCGGGGCAAAAGA
1 TCTGCCCC-AGCTCGGGGTAAGAGATTGGCTGATGGTGATCTAGCC-TAGGCTCGGGGTAAAAGA
*
9430965 TCGGATGGCTACAA
64 TCGGATGGCTGCAA
9430979 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTAGCCTAGGCTCGGGGTAAAAGAT
1 TCTGCCCCA-GCTCGGGGTAAGAGATTGGCTGATGGTGATCTAGCCTAGGCTCGGGGTAAAAGAT
*
9431044 CGGATGGCTGTAA
65 CGGATGGCTGCAA
9431057 TCT
1 TCT
9431060 ACTCTACTTG
Statistics
Matches: 134, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
77 7 0.05
78 123 0.92
79 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (77 bp):
TCTGCCCCAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTAGCCTAGGCTCGGGGTAAAAGATC
GGATGGCTGCAA
Found at i:9431366 original size:50 final size:48
Alignment explanation
Indices: 9431242--9431528 Score: 222
Period size: 50 Copynumber: 5.8 Consensus size: 48
9431232 TTCCATATTT
* * * * *
9431242 TTCTAAGGTATCGGGCTCGTCGTTGCGGCCTCAACCTTTCCCTTCATC
1 TTCTTAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTCATC
* * *
9431290 -TCTTCATGGTACTGGGTTCACCGTTGCAGCCTCAACCTTTCTCATTACATC
1 TTCTT-A-GGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTC-CCTT-CATC
9431341 TTCTTAGGTACCGGGTTCGCCGTTGC-GACCTCAACCTTTCCCTTCGTATC
1 TTCTTAGGTACCGGGTTCGCCGTTGCAG-CCTCAACCTTTCCCTTC--ATC
** * *
9431391 TT-TGTA-GTACTAGGTTCGCCGTTGCAGTCTCAACCTTTCCCATCACATC
1 TTCT-TAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCC-T-TCATC
** * * * *
9431440 TTCTTAGGTACTAGGTTCGTCGTTGCGGCCTCAATCTTTTCCTTCAATC
1 TTCTTAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTC-ATC
* * ** *
9431489 TTTTTAAGGTACCGGATTTACCGTCGCAGCCTCAATCCTT
1 TTCTT-AGGTACCGGGTTCGCCGTTGCAGCCTCAA-CCTT
9431529 CCTTGTCAAA
Statistics
Matches: 191, Mismatches: 31, Indels: 31
0.75 0.12 0.12
Matches are distributed among these distances:
47 3 0.02
48 3 0.02
49 78 0.41
50 94 0.49
51 9 0.05
52 4 0.02
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.36
Consensus pattern (48 bp):
TTCTTAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTCATC
Found at i:9431423 original size:99 final size:99
Alignment explanation
Indices: 9431242--9431490 Score: 320
Period size: 99 Copynumber: 2.5 Consensus size: 99
9431232 TTCCATATTT
* * * * * *
9431242 TTCTAAGGTATCGGGCTCGTCGTTGCGGCCTCAACCTTTCCCTTCATCTCTTCATGGTACTGGGT
1 TTCTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGTACTAGGT
* *
9431307 TCACCGTTGCAGCCTCAACCTTTCTCATTACATC
66 TCACCGTTGCAGCCTCAACCTTTCCCATCACATC
* * * **
9431341 TTCTTAGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCGTATCTTTGTAGTACTAGGT
1 TTCTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGTACTAGGT
* *
9431406 TCGCCGTTGCAGTCTCAACCTTTCCCATCACATC
66 TCACCGTTGCAGCCTCAACCTTTCCCATCACATC
** * *
9431440 TTCTTAGGTACTAGGTTCGTCGTTGCGGCCTCAATCTTTTCCTTCA-ATCTT
1 TTCTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTT
9431491 TTTAAGGTAC
Statistics
Matches: 128, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
98 5 0.04
99 123 0.96
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (99 bp):
TTCTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGTACTAGGT
TCACCGTTGCAGCCTCAACCTTTCCCATCACATC
Found at i:9436705 original size:31 final size:30
Alignment explanation
Indices: 9436635--9436722 Score: 117
Period size: 30 Copynumber: 2.9 Consensus size: 30
9436625 ATATTTTTCA
*
9436635 AATTTTAGGAAAGTTC-AGGGGTAAAAATGT
1 AATTTTTGGAAAGTTCGA-GGGTAAAAATGT
9436665 AA-TTTTGGAAAGTTCGAGGGTAAAAAATGT
1 AATTTTTGGAAAGTTCGAGGGT-AAAAATGT
* *
9436695 AATTTTTGGAAAGTTCGGGGGTCAAAAT
1 AATTTTTGGAAAGTTCGAGGGTAAAAAT
9436723 TTGATTACTG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 16 0.31
30 18 0.35
31 18 0.35
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.31
Consensus pattern (30 bp):
AATTTTTGGAAAGTTCGAGGGTAAAAATGT
Found at i:9436722 original size:30 final size:30
Alignment explanation
Indices: 9436635--9436722 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
9436625 ATATTTTTCA
* *
9436635 AATTTTAGGAAAGTTCAGGGGTAAAAATGT
1 AATTTTTGGAAAGTTCGGGGGTAAAAATGT
*
9436665 AA-TTTTGGAAAGTTCGAGGGTAAAAAATGT
1 AATTTTTGGAAAGTTCGGGGGT-AAAAATGT
*
9436695 AATTTTTGGAAAGTTCGGGGGTCAAAAT
1 AATTTTTGGAAAGTTCGGGGGTAAAAAT
9436723 TTGATTACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 16 0.31
30 17 0.33
31 18 0.35
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.31
Consensus pattern (30 bp):
AATTTTTGGAAAGTTCGGGGGTAAAAATGT
Found at i:9438393 original size:6 final size:6
Alignment explanation
Indices: 9438382--9438456 Score: 75
Period size: 6 Copynumber: 13.0 Consensus size: 6
9438372 TTTTATGAAT
* * ** *
9438382 TTTAAA TTTAAA -ATAAT TTTAAA TTTAAA AGTAAA TTTAAA CTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9438428 TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9438457 AAAGGTTTAG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 11 0.20
6 43 0.80
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:9438401 original size:17 final size:17
Alignment explanation
Indices: 9438382--9438456 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 17
9438372 TTTTATGAAT
*
9438382 TTTAAATTTAAAATAAT
1 TTTAAATTTAAAATAAA
9438399 TTTAAATTTAAAAGTAAA
1 TTTAAATTTAAAA-TAAA
* **
9438417 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
9438434 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
9438451 TTTAAA
1 TTTAAA
9438457 AAAGGTTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
17 37 0.74
18 13 0.26
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9438408 original size:23 final size:23
Alignment explanation
Indices: 9438379--9438456 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 23
9438369 GACTTTTATG
9438379 AATTTTAAATTTAAAATAATTTTA
1 AATTTTAAATTTAAAATAA-TTTA
*
9438403 AATTTAAAAGTAAATTTAAACTTAATTTA
1 AATTT-----TAAATTTAAA-ATAATTTA
9438432 AA-TTTAAATTTAAAATAAATTTA
1 AATTTTAAATTTAAAAT-AATTTA
9438455 AA
1 AA
9438457 AAAGGTTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
22 1 0.02
23 18 0.40
24 5 0.11
28 2 0.04
29 16 0.36
30 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (23 bp):
AATTTTAAATTTAAAATAATTTA
Found at i:9438417 original size:29 final size:29
Alignment explanation
Indices: 9438384--9438439 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
9438374 TTATGAATTT
9438384 TAAATTTAAA-ATAATTTTAAATTTAAAAG
1 TAAATTTAAACATAA-TTTAAATTTAAAAG
*
9438413 TAAATTTAAACTTAATTTAAATTTAAA
1 TAAATTTAAACATAATTTAAATTTAAA
9438440 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TAAATTTAAACATAATTTAAATTTAAAAG
Found at i:9438431 original size:11 final size:11
Alignment explanation
Indices: 9438403--9438457 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
9438393 AATAATTTTA
*
9438403 AATTTAAAAGTA
1 AATTTAAAA-TT
*
9438415 AATTTAAACTT
1 AATTTAAAATT
*
9438426 AATTTAAATTT
1 AATTTAAAATT
*
9438437 AAATTTAAAATA
1 -AATTTAAAATT
9438449 AATTTAAAA
1 AATTTAAAA
9438458 AAGGTTTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 20 0.54
12 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:9438445 original size:29 final size:29
Alignment explanation
Indices: 9438382--9438445 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
9438372 TTTTATGAAT
9438382 TTTAAATTTAAAATAATTTTAAATTTAAA
1 TTTAAATTTAAAATAATTTTAAATTTAAA
** *
9438411 AGTAAATTTAAACTTAA-TTTAAATTTAAA
1 TTTAAATTTAAA-ATAATTTTAAATTTAAA
9438440 TTTAAA
1 TTTAAA
9438446 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTAAATTTAAAATAATTTTAAATTTAAA
Found at i:9439750 original size:27 final size:27
Alignment explanation
Indices: 9439719--9439771 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
9439709 GTAAACACGA
* *
9439719 CATGAAAGAATAGCCTTTGTGGCGAAT
1 CATGAAAGAATAGCCTCTATGGCGAAT
*
9439746 CATGAAAGTATAGCCTCTATGGCGAA
1 CATGAAAGAATAGCCTCTATGGCGAA
9439772 CAATGTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
CATGAAAGAATAGCCTCTATGGCGAAT
Found at i:9441949 original size:456 final size:461
Alignment explanation
Indices: 9441077--9441998 Score: 1451
Period size: 472 Copynumber: 2.0 Consensus size: 461
9441067 TCATGGGCAA
* *
9441077 AGATAATTTCACTATAACGACAAAAAAGAAGAATACAAAAGATGGAGATAAAACTAAATCCTGAA
1 AGATAATTTCACTATAACGACAAAAAAGAAGAATACAAAAGATGGAAATAAAACTAAATCCTAAA
* * *
9441142 ACCCGAAATAAGAACCGTCAACACGTAAACACAAATTTTTTGAAAACTTGTAAAAGCTAATACCT
66 ACCCAAAATAAGAACCGTCAAAACGTAAACACAAATTTTTTGAAAACTTGTAAAAACTAATACCT
** * * *
9441207 AAATGTGTAATTGTTTATCTTTTTAGGATGAAAAAAAGACTTATTTAAAAATTAAATTCGTAGAT
131 AAATGTGTAATTAATTAGCTTTTTAAGATGAAAAAAAGACTTATTTAAAAATTAAATTCATAGAT
*
9441272 CAGATAATATTAAAATAACCAACTAACCTACATTAATCAAAGTTTAAGTGAAAACTAAAACAAAA
196 CAGATAATATTAAAATAACCAACTAACCTACATTAATCAAAGTTTAAGTAAAAACTAAAACAAAA
*
9441337 TTTAACCGAAAAAGAAAAAATAAAAAATGCGAGACATTACTCTACAATTATTTATATGATTTGAC
261 TTTAACCGAAAAAGAAAAAATAAAAAATGCGAGACATTA--C-AC----ATCTATATGA--T-AC
*
9441402 TCTAATAAGATTTCAACAAAAATCTTTTTAAATCCAAGCTTCACATCTAATTTTAATTATATTAA
316 TCTAATAAAATTTCAACAAAAATCTTTTTAAATCCAAGCTTCACATCTAATTTTAATTATATTAA
*
9441467 AATATTAATATAATAATTCATTTTAATTATCATTTGAATTAAGTACAATTCATTAAACCCAAGCA
381 AATATTAATATAATAATACATTTTAATTATCATTTGAATTAAGTACAATTCATTAAACCCAAGCA
9441532 AACATAAAAAATGCGT
446 AACATAAAAAATGCGT
* * *
9441548 AGATAATTTCACTATAATGACAAAAAAGAAGAATACAAAATATGGAAATAAAACTAAATCTTAAA
1 AGATAATTTCACTATAACGACAAAAAAGAAGAATACAAAAGATGGAAATAAAACTAAATCCTAAA
* *
9441613 ACTCAAAATAAGAACCGTCAAAACGTAAACACAAAATTTTTTGAAAGCTTGTAAAAACTAATACC
66 ACCCAAAATAAGAACCGTCAAAACGTAAACAC-AAATTTTTTGAAAACTTGTAAAAACTAATACC
9441678 TAAATGTGTAATTAATTAGCTTTTTAAGATGAAAAAAAGACTTATTTAAAAATTAAATTCATAGA
130 TAAATGTGTAATTAATTAGCTTTTTAAGATGAAAAAAAGACTTATTTAAAAATTAAATTCATAGA
**
9441743 TCAGATAATATTAAAATAACTTACTAACCTACATTAATCAAAGTTTAAGTAAAAACTAAAACAAA
195 TCAGATAATATTAAAATAACCAACTAACCTACATTAATCAAAGTTTAAGTAAAAACTAAAACAAA
* *
9441808 ATTTAATCGAGAAAGAAAAAATAAAAAATGCGAGACA-TA-AC-TCTAT-T-A-ACTCTAATAAA
260 ATTTAACCGAAAAAGAAAAAATAAAAAATGCGAGACATTACACATCTATATGATACTCTAATAAA
*
9441867 ATTTCAACAAAAATTTTTTTAAATCCAAGCTTCACATCTAATTTTAATTATATTAAAATATTAAT
325 ATTTCAACAAAAATCTTTTTAAATCCAAGCTTCACATCTAATTTTAATTATATTAAAATATTAAT
* * **
9441932 ATAATAGTACGTTTTAATTATTGTTTGAATTAAGTACAATTCATTAAACCCAAGCAAACATAAAA
390 ATAATAATACATTTTAATTATCATTTGAATTAAGTACAATTCATTAAACCCAAGCAAACATAAAA
9441997 AA
455 AA
9441999 CACGCATCCT
Statistics
Matches: 422, Mismatches: 28, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
456 136 0.32
460 1 0.00
461 1 0.00
462 4 0.01
467 2 0.00
471 91 0.22
472 187 0.44
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (461 bp):
AGATAATTTCACTATAACGACAAAAAAGAAGAATACAAAAGATGGAAATAAAACTAAATCCTAAA
ACCCAAAATAAGAACCGTCAAAACGTAAACACAAATTTTTTGAAAACTTGTAAAAACTAATACCT
AAATGTGTAATTAATTAGCTTTTTAAGATGAAAAAAAGACTTATTTAAAAATTAAATTCATAGAT
CAGATAATATTAAAATAACCAACTAACCTACATTAATCAAAGTTTAAGTAAAAACTAAAACAAAA
TTTAACCGAAAAAGAAAAAATAAAAAATGCGAGACATTACACATCTATATGATACTCTAATAAAA
TTTCAACAAAAATCTTTTTAAATCCAAGCTTCACATCTAATTTTAATTATATTAAAATATTAATA
TAATAATACATTTTAATTATCATTTGAATTAAGTACAATTCATTAAACCCAAGCAAACATAAAAA
ATGCGT
Found at i:9445523 original size:18 final size:18
Alignment explanation
Indices: 9445500--9445545 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
9445490 ATATTTAATC
9445500 TTTAAAATTTAATAATTT
1 TTTAAAATTTAATAATTT
9445518 TTTAAAATTTAATAATTT
1 TTTAAAATTTAATAATTT
9445536 TTTAAAATTT
1 TTTAAAATTT
9445546 GGTCTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAAATTTAATAATTT
Found at i:9445973 original size:24 final size:24
Alignment explanation
Indices: 9445936--9445982 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9445926 CTCCATCATT
9445936 TAAAAATTAAAAAT-ATATATAATC
1 TAAAAATTAAAAATAATA-ATAATC
9445960 TAAAAA-TATAAAATAATAATAAT
1 TAAAAATTA-AAAATAATAATAAT
9445983 AATTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 16 0.76
25 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATTAAAAATAATAATAATC
Found at i:9446087 original size:24 final size:24
Alignment explanation
Indices: 9446041--9446087 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9446031 GATCAAGGTT
* **
9446041 AATGAAGAATTTTATGCTTGGGCA
1 AATGAAGAATTTTAGGCCCGGGCA
*
9446065 AATGTAGAATTTTAGGCCCGGGC
1 AATGAAGAATTTTAGGCCCGGGC
9446088 CGGTCAGGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (24 bp):
AATGAAGAATTTTAGGCCCGGGCA
Found at i:9447541 original size:30 final size:29
Alignment explanation
Indices: 9447485--9447541 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9447475 TTGTTTTAAT
* *
9447485 GTGCAATTGTATACATAAACTTTAATTTG
1 GTGCAATTGTACACATAAACTCTAATTTG
*
9447514 GTGCAATTGTACACGTGAAACTCTAATT
1 GTGCAATTGTACACAT-AAACTCTAATT
9447542 GTGATTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (29 bp):
GTGCAATTGTACACATAAACTCTAATTTG
Found at i:9447763 original size:29 final size:30
Alignment explanation
Indices: 9447705--9447769 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
9447695 ATAATTTATA
*
9447705 AAAATTGAATCAAATTAAAATTTTAAGTAT
1 AAAATTGAATCAAATTAAAATTTCAAGTAT
* *
9447735 AAAATTGTA-CAAATTCAAAA-TTCATGTAT
1 AAAATTGAATCAAATT-AAAATTTCAAGTAT
*
9447764 ACAATT
1 AAAATT
9447770 ACACATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (30 bp):
AAAATTGAATCAAATTAAAATTTCAAGTAT
Found at i:9449169 original size:18 final size:17
Alignment explanation
Indices: 9449146--9449180 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
9449136 TAACAGATTT
9449146 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
9449164 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
9449181 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:9449698 original size:132 final size:131
Alignment explanation
Indices: 9449462--9449707 Score: 384
Period size: 132 Copynumber: 1.9 Consensus size: 131
9449452 AATAAGAAAG
** * *
9449462 AAAAATCTGGAATACCCACAAAGAGATTATGGGTAAACAAGCTGATTCAGATCAGAAAAATCGGA
1 AAAAATCTAAAATACCCACAAAGAGATTATGGGTAAACAAGCCGATTCAGATCAAAAAAATCGGA
9449527 TTGAGAAACCAATTATTCAAGAACTTGGAATACCCACAAAGATAAATCAACACAAAATCAACAAT
66 TTGAGAAACCAATTATTCAAGAACTTGGAATACCCACAAAGATAAATCAACACAAAATCAACAAT
9449592 A
131 A
* * *
9449593 AAAAATCTAAAATACCCACAAAGGGATTGTGGGTAAACAAGCCGATTTAGATCAAAAAAAATCGG
1 AAAAATCTAAAATACCCACAAAGAGATTATGGGTAAACAAGCCGATTCAGATC-AAAAAAATCGG
* * * *
9449658 ATTGAGAAGCCAATTTTTTAAGAACTTGGAATACCCACAAAGGTAAATCA
65 ATTGAGAAACCAATTATTCAAGAACTTGGAATACCCACAAAGATAAATCA
9449708 GCAGTAAAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
131 47 0.46
132 56 0.54
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (131 bp):
AAAAATCTAAAATACCCACAAAGAGATTATGGGTAAACAAGCCGATTCAGATCAAAAAAATCGGA
TTGAGAAACCAATTATTCAAGAACTTGGAATACCCACAAAGATAAATCAACACAAAATCAACAAT
A
Found at i:9450307 original size:28 final size:28
Alignment explanation
Indices: 9450266--9450333 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 28
9450256 AAACTTTTGA
9450266 TTAAAGAATTAATATAATTTTATAAAAATAATT
1 TTAAA-AA-TAAT-TAATTTTATAAAAA-AA-T
* *
9450299 TTAAAAATAATTGATTTTATTAAAAAAT
1 TTAAAAATAATTAATTTTATAAAAAAAT
9450327 TTAAAAA
1 TTAAAAA
9450334 CCCCTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
30 12 0.36
31 4 0.12
32 2 0.06
33 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
TTAAAAATAATTAATTTTATAAAAAAAT
Found at i:9454198 original size:108 final size:109
Alignment explanation
Indices: 9454004--9454210 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 109
9453994 AATGCTTTAT
* *
9454004 TATTCTAGGGAATTCGAGAAATTATGCCATAACGTACTGGGTATGGTTTTTCTTTGAACCAAAGT
1 TATTCTAGGGAACTCGAGAAATTATGCCATAACGTACTGGGAATGGTTTTTCTTTGAACCAAAGT
** *
9454069 AATCGAGTATCCTATTTAAAATTGATAAATGTTCAATGTTTTTC
66 AATCGAACATCCTATTTAAAATCGATAAATGTTCAATGTTTTTC
*
9454113 TATT-TAGGGAACTCGAGAAATTATGTCC-TAACGTACTGGGAATGGTTTTTCTTTGAACCTAAG
1 TATTCTAGGGAACTCGAGAAATTATG-CCATAACGTACTGGGAATGGTTTTTCTTTGAACCAAAG
*
9454176 TAATTGAACATCCTATTTAAAATCGATAAATGTTC
65 TAATCGAACATCCTATTTAAAATCGATAAATGTTC
9454211 TTTGCTTTCG
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 84 0.93
109 6 0.07
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (109 bp):
TATTCTAGGGAACTCGAGAAATTATGCCATAACGTACTGGGAATGGTTTTTCTTTGAACCAAAGT
AATCGAACATCCTATTTAAAATCGATAAATGTTCAATGTTTTTC
Found at i:9456948 original size:21 final size:21
Alignment explanation
Indices: 9456922--9456968 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9456912 GAGAAGATCG
9456922 AGCTAAAAGCTCGAATAGCCA
1 AGCTAAAAGCTCGAATAGCCA
* *
9456943 AGCTAAAAGCTCGAGTAGCCG
1 AGCTAAAAGCTCGAATAGCCA
9456964 AGCTA
1 AGCTA
9456969 GAGGAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (21 bp):
AGCTAAAAGCTCGAATAGCCA
Found at i:9466919 original size:72 final size:71
Alignment explanation
Indices: 9466789--9466930 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 71
9466779 TTAACCAGTA
* * ** * * *
9466789 TACGATGTTGCTCACACAAGCTGTTGAGAATCCGCAACTTATGCCGGACCTCAACCATCGATACG
1 TACGATGCTACTCACACAAGCTGTCAAGAATCCACAACTTATGCAGGACCTCAACCATCGA-AAG
9466854 GTCCATT
65 GTCCATT
** * *
9466861 TACGATGCTACTCACACAAGCTGTCAAGAATCCACAACTTATGCAGGATTTTAGCCATCGAAAGG
1 TACGATGCTACTCACACAAGCTGTCAAGAATCCACAACTTATGCAGGACCTCAACCATCGAAAGG
9466926 TCCAT
66 TCCAT
9466931 AAAATACACT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
71 8 0.14
72 51 0.86
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (71 bp):
TACGATGCTACTCACACAAGCTGTCAAGAATCCACAACTTATGCAGGACCTCAACCATCGAAAGG
TCCATT
Found at i:9473245 original size:196 final size:196
Alignment explanation
Indices: 9472665--9473901 Score: 1568
Period size: 196 Copynumber: 6.3 Consensus size: 196
9472655 GGATCAATGA
* * *
9472665 AACAACAAATCTTATATCCCTGAAGTTACAGGGAT-TAGATTAAAACTAACATTGGCAAATCTTT
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGA-ATTAAAACTAACATTGGCAAATCTTT
** *
9472729 ATCTCCTTGAAGTTGTAGTGAAGCAAGATGAAGCCATACCAAATCCTATCTT-TCTGAAGTTGCA
65 ATCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCT-TGAAGTTGCA
* * * * * * *
9472793 GTGAAGTAGATTAAAATAGTAGCAAATTTTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGT
129 GTGAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC
9472858 TAC
194 TAC
* * *
9472861 AACAGCAAATCTTATATCCCTGAAGTGATAAGGATC-AGATTAAAACTAACATTGGCAAATCTTT
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGA-ATTAAAACTAACATTGGCAAATCTTT
* * * * *
9472925 ATCTCCTTAAAGTTACAATGAAGCAA-ATGAAGCCACATCAAATCTTAT-TTTTCTGAAGTTGCA
65 ATCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCT-TGAAGTTGCA
* * * *
9472988 GTGAAGCGAATTAAAATAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGGAGCAAGATGAAGC
129 GTGAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC
9473053 TAC
194 TAC
* * *
9473056 AACACCAAATCCTATATCCCTGAAGTTACAAAGATCGAATTAAAACTAACATTGGCAAATTTTTA
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCTTTA
* * * * *
9473121 TCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTGTCTTCTTGAAGTTGCAGT
66 TCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGCAGT
* * ** * *
9473186 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTACTGTGCAGTAAGATGAAGCTA
131 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTA
9473251 C
196 C
* * * *
9473252 AACACTAAATCCTATATCCTTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTTA
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCTTTA
* * * * * * *
9473317 TCTCCTTTAAATTACAGTGAAACAAGATGAAGCCACACCAAATCTTTATCTTCCTAAAGTTACAG
66 TCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATC-CTATCTTCTTGAAGTTGCAG
* * *
9473382 TGAAGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCT
130 TGAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCT
*
9473447 GC
195 AC
* * * * *
9473449 AACACCAAATCTTATATCCTTGAAGTTGCAGGGATCAAATTAAAACTAACATTGACAAATCTTTA
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCTTTA
* * * *
9473514 TCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGTAGT
66 TCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGCAGT
* * * * * *
9473579 GAAGCGGACTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGCAACAAGATGAAGCTG
131 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTA
9473644 C
196 C
* * * * * *
9473645 AACACCAAATCTTATATCCCTAAAATTACAGGGATTGGATTAAACCTAACATTGGCAAATCTTTA
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCTTTA
* * * * * *
9473710 TCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAAT
66 TCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGCAGT
* * * *
9473775 GAAGTGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTGCAGTGGAGTACGATGAAGCTA
131 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTA
9473840 C
196 C
* * * * *
9473841 AAAACCAAATCCTATATCCTTAAAGTTACAAGAATC-AGATTAAAACTAACATTGGCAAATC
1 AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGA-ATTAAAACTAACATTGGCAAATC
9473902 CTACATCCCT
Statistics
Matches: 904, Mismatches: 130, Indels: 14
0.86 0.12 0.01
Matches are distributed among these distances:
194 2 0.00
195 167 0.18
196 562 0.62
197 173 0.19
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (196 bp):
AACACCAAATCTTATATCCCTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCTTTA
TCTCCTTGAAGTTACAGTGAAGCAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGCAGT
GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTA
C
Found at i:9473534 original size:393 final size:389
Alignment explanation
Indices: 9472665--9473901 Score: 1695
Period size: 393 Copynumber: 3.2 Consensus size: 389
9472655 GGATCAATGA
* * * * *
9472665 AACAACAAATCTTATATCCCTGAAGTTACAGGGATTAGATTAAAACTAACATTGGCAAATCTTTA
1 AACACCAAATCCTATATCCCTGAAGTTACAAGGATCAAATTAAAACTAACATTGGCAAATCTTTA
* *
9472730 TCTCCTTGAAGTTGTAGTGAAGCAAGATGAAGCCATACCAAATCCTATCTT-TCTGAAGTTGCAG
66 TCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTATCTTCT-TGAAGTTGCAG
* * * * * * * *
9472794 TGAAGTAGATTAAAATAGTAGCAAATTTTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGTT
130 TGAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTCT-GTGCAGCAAGATGAAGCT
* * *
9472859 ACAACAGCAAATCTTATATCCCTGAAGTGATAAGGATCAGATTAAAACTAACATTGGCAAATCTT
194 ACAACA-CAAATCTTATATCCCTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTT
* * * * *
9472924 TATCTCCTTAAAGTTACAATGAAGCAA-ATGAAGCCACATCAAATCTTATTTTTCTGAAGTTGCA
258 TATCTCCTTAAA-TTACAGTGAAGCAAGATGAAGCCACACCAAATCTTATCTTCCTAAAGTTGCA
* * *
9472988 GTGAAGCGAATTAAAATAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGGAGCAAGATGAAGC
322 GTGAAGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC
9473053 TAC
387 TAC
* * *
9473056 AACACCAAATCCTATATCCCTGAAGTTACAAAGATCGAATTAAAACTAACATTGGCAAATTTTTA
1 AACACCAAATCCTATATCCCTGAAGTTACAAGGATCAAATTAAAACTAACATTGGCAAATCTTTA
* *
9473121 TCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTGTCTTCTTGAAGTTGCAGT
66 TCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTATCTTCTTGAAGTTGCAGT
*
9473186 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTACTGTGCAGTAAGATGAAGCTA
131 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTT-CTGTGCAGCAAGATGAAGCTA
* *
9473251 CAACACTAAATCCTATATCCTTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTT
195 CAACAC-AAATCTTATATCCCTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTT
* *
9473316 ATCTCCTTTAAATTACAGTGAAACAAGATGAAGCCACACCAAATCTTTATCTTCCTAAAGTTACA
259 ATCTCC-TTAAATTACAGTGAAGCAAGATGAAGCCACACCAAATC-TTATCTTCCTAAAGTTGCA
*
9473381 GTGAAGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGC
322 GTGAAGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC
*
9473446 TGC
387 TAC
* * * * *
9473449 AACACCAAATCTTATATCCTTGAAGTTGCAGGGATCAAATTAAAACTAACATTGACAAATCTTTA
1 AACACCAAATCCTATATCCCTGAAGTTACAAGGATCAAATTAAAACTAACATTGGCAAATCTTTA
* * *
9473514 TCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCCACACCAAATCCTATCTTCTTGAAGTTGTAGT
66 TCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTATCTTCTTGAAGTTGCAGT
* * ** * *
9473579 GAAGCGGACTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGCAACAAGATGAAGCTG
131 GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTT-CTGTGCAGCAAGATGAAGCTA
* * * * *
9473644 CAACACCAAATCTTATATCCCTAAAATTACAGGGATTGGATTAAACCTAACATTGGCAAATCTTT
195 CAACA-CAAATCTTATATCCCTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTT
* * * * * *
9473709 ATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAA
259 ATCT-CCTTAAATTACAGTGAAGCAAGATGAAGCCACACCAAATCTTATCTTCCTAAAGTTGCAG
* * * * * *
9473774 TGAAGTGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTGCAGTGGAGTACGATGAAGCT
323 TGAAGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCT
9473839 AC
388 AC
* * * * *
9473841 AAAACCAAATCCTATATCCTTAAAGTTACAAGAATCAGATTAAAACTAACATTGGCAAATC
1 AACACCAAATCCTATATCCCTGAAGTTACAAGGATCAAATTAAAACTAACATTGGCAAATC
9473902 CTACATCCCT
Statistics
Matches: 748, Mismatches: 90, Indels: 15
0.88 0.11 0.02
Matches are distributed among these distances:
390 1 0.00
391 246 0.33
392 153 0.20
393 345 0.46
394 3 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (389 bp):
AACACCAAATCCTATATCCCTGAAGTTACAAGGATCAAATTAAAACTAACATTGGCAAATCTTTA
TCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTATCTTCTTGAAGTTGCAGT
GAAGTGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTCTGTGCAGCAAGATGAAGCTAC
AACACAAATCTTATATCCCTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTTAT
CTCCTTAAATTACAGTGAAGCAAGATGAAGCCACACCAAATCTTATCTTCCTAAAGTTGCAGTGA
AGAGGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTAC
Found at i:9473791 original size:589 final size:587
Alignment explanation
Indices: 9472670--9473901 Score: 1768
Period size: 589 Copynumber: 2.1 Consensus size: 587
9472660 AATGAAACAA
* * * *
9472670 CAAATCTTATATCCCTGAAGTTACAGGGATTAGATTAAAACTAACATTGGCAAATCTTTATCTCC
1 CAAATCCTATATCCTTGAAGTTACAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCC
* ** * * * * *
9472735 TTGAAGTTGTAGTGAAGCAAGATGAAGCCATACCAAATCCTATCTTTCTGAAGTTGCAGTGAAGT
66 TTGAAATTACAGTGAAACAAGATGAAGCCACACCAAATCCTATCTTCCTAAAGTTACAGTGAAGT
* * * *
9472800 AGATTAAAATAGTAGCAAATTTTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGTTACAACA
131 AGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATAAAGCTACAACA
* * * *
9472865 GCAAATCTTATATCCCTGAAGTGATAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTC
196 CCAAATCTTATATCCCTGAAGTGACAAGGATCAAATTAAAACTAACATTGACAAATCTTTATCTC
* * *
9472930 CTTAAAGTTACAATGAAGCAAATGAAGCCACATCAAATCTTATTTTTCTGAAGTTGCAGTGAAGC
261 CTTAAAGTTACAATGAAGCAAATGAAGCCACACCAAATCCTATTTCTCTGAAGTTGCAGTGAAGC
* * * *
9472995 GAATTAAAATAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGGAGCAAGATGAAGCTACAACA
326 GAACTAAAACAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGCAACAAGATGAAGCTACAACA
* * *
9473060 CCAAATCCTATATCCCTGAAGTTACAAAGATCGAATTAAAACTAACATTGGCAAATTTTTATCTC
391 CCAAATCCTATATCCCTAAAATTACAAAGATCGAATTAAAACTAACATTGGCAAATCTTTATCTC
* * * * * *
9473125 CCTGAAGTTGCAGTGGAGCAAGATGAAGCCATACCAAATCCTGTCTTCTTGAAGTTGCAGTGAAG
456 CCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAATGAAG
* * * *
9473190 TGGATTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTACTGTGCAGTAAGATGAAGCTACAAC
521 TGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTACAGTGCAGTAAGATGAAGCTACAAA
9473255 AC
586 AC
* *
9473257 TAAATCCTATATCCTTGAAGTTACAAGGATCGGATTAAAACTAACATTGGCAAATCTTTATCTCC
1 CAAATCCTATATCCTTGAAGTTACAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCC
* *
9473322 TTTAAATTACAGTGAAACAAGATGAAGCCACACCAAATCTTTATCTTCCTAAAGTTACAGTGAAG
66 TTGAAATTACAGTGAAACAAGATGAAGCCACACCAAATC-CTATCTTCCTAAAGTTACAGTGAAG
* * *
9473387 -AGGATTAAAATAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTGCAA
130 TA-GATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATAAAGCTACAA
* *
9473451 CACCAAATCTTATATCCTTGAAGTTG-CAGGGATCAAATTAAAACTAACATTGACAAATCTTTAT
194 CACCAAATCTTATATCCCTGAAG-TGACAAGGATCAAATTAAAACTAACATTGACAAATCTTTAT
* * * * * *
9473515 CTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCCACACCAAATCCTATCTTCT-TGAAGTTGTAGT
258 CTCCTTAAAGTTACAATGAAGCAA-ATGAAGCCACACCAAATCCTAT-TTCTCTGAAGTTGCAGT
* * * *
9473579 GAAGCGGACTAAAACAGTAGCAAATCTTTATCTCCCTGAAGTTGCAATGCAACAAGATGAAGCTG
321 GAAGCGAACTAAAACAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGCAACAAGATGAAGCTA
* ** * * *
9473644 CAACACCAAATCTTATATCCCTAAAATTACAGGGATTGGATTAAACCTAACATTGGCAAATCTTT
386 CAACACCAAATCCTATATCCCTAAAATTACAAAGATCGAATTAAAACTAACATTGGCAAATCTTT
9473709 ATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAA
451 ATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAA
* * *
9473774 TGAAGTGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTGCAGTGGAGTACGATGAAGCT
516 TGAAGTGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTACAGTGCAGTAAGATGAAGCT
9473839 ACAAAAC
581 ACAAAAC
* *
9473846 CAAATCCTATATCCTTAAAGTTACAAGAATCAGATTAAAACTAACATTGGCAAATC
1 CAAATCCTATATCCTTGAAGTTACAAGGATCAGATTAAAACTAACATTGGCAAATC
9473902 CTACATCCCT
Statistics
Matches: 568, Mismatches: 72, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
587 93 0.16
588 150 0.26
589 322 0.57
590 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (587 bp):
CAAATCCTATATCCTTGAAGTTACAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCC
TTGAAATTACAGTGAAACAAGATGAAGCCACACCAAATCCTATCTTCCTAAAGTTACAGTGAAGT
AGATTAAAATAGTAGCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATAAAGCTACAACA
CCAAATCTTATATCCCTGAAGTGACAAGGATCAAATTAAAACTAACATTGACAAATCTTTATCTC
CTTAAAGTTACAATGAAGCAAATGAAGCCACACCAAATCCTATTTCTCTGAAGTTGCAGTGAAGC
GAACTAAAACAGTAGCAAATCTTTATCTCCCTAAAATTGCAATGCAACAAGATGAAGCTACAACA
CCAAATCCTATATCCCTAAAATTACAAAGATCGAATTAAAACTAACATTGGCAAATCTTTATCTC
CCTGAAGTTACAGTGGAGCAAGATGAAGCCAGACCAAATCCTATCTTCCTAAAGTTGCAATGAAG
TGGATTAAAACAGTAGAAAATCTTTATCTCCCTAAAGTTACAGTGCAGTAAGATGAAGCTACAAA
AC
Found at i:9473932 original size:50 final size:50
Alignment explanation
Indices: 9473878--9473992 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
9473868 ACAAGAATCA
* * * * *
9473878 GATTAAAACTAACATTGGCAAATCCTACATCCCTTAAGCTGTAGGGATTG
1 GATTAAAACTAACATTGGCAAACCCTACATCCCTAAAACTATAGGGATCG
* * * *
9473928 GATTAAAACTAATATTGGCATACCCTATATCCCTAAAATTATAGGGATCG
1 GATTAAAACTAACATTGGCAAACCCTACATCCCTAAAACTATAGGGATCG
*
9473978 AATTAAAACTAACAT
1 GATTAAAACTAACAT
9473993 ATTGAATTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (50 bp):
GATTAAAACTAACATTGGCAAACCCTACATCCCTAAAACTATAGGGATCG
Found at i:9476225 original size:29 final size:30
Alignment explanation
Indices: 9476135--9476213 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
9476125 TGACGGGATG
* *
9476135 CAAAAGTGCAAGCCAAAATGGCGGGCAATC
1 CAAAAGTGCAAGCCAAAATGGCCGACAATC
* *
9476165 C-AAAGTGCAAGCCAAAATGGCCAAAAATC
1 CAAAAGTGCAAGCCAAAATGGCCGACAATC
9476194 CAAAAG-GCAAGCCAAAATGG
1 CAAAAGTGCAAGCCAAAATGG
9476214 TTGACAGTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 39 0.89
30 5 0.11
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (30 bp):
CAAAAGTGCAAGCCAAAATGGCCGACAATC
Found at i:9478529 original size:29 final size:29
Alignment explanation
Indices: 9478447--9478530 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
9478437 TGGTGGACAA
* * * *
9478447 TGCAAGCTAAAGTGGCAAAC-ATCCCATG
1 TGCAAGCCAAAATGGCAAACAATCCAAAG
* * * *
9478475 TGCAAACCAAAATGACAGACAGTCCAAAG
1 TGCAAGCCAAAATGGCAAACAATCCAAAG
9478504 TGCAAGCCAAAATGGCAAACAATCCAA
1 TGCAAGCCAAAATGGCAAACAATCCAA
9478531 GAACACACAA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 15 0.35
29 28 0.65
ACGTcount: A:0.44, C:0.25, G:0.18, T:0.13
Consensus pattern (29 bp):
TGCAAGCCAAAATGGCAAACAATCCAAAG
Found at i:9479740 original size:3 final size:3
Alignment explanation
Indices: 9479732--9479770 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9479722 ACAATTTCTT
9479732 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9479771 AAAATACGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9480223 original size:28 final size:27
Alignment explanation
Indices: 9480169--9480244 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
9480159 TTTAGGGTTT
9480169 TGTT-TTG-TTTTAATTTAAATTTTAAA
1 TGTTGTTGATTTTAATTT-AATTTTAAA
*
9480195 TTTTGTTGATTTTAATTT-ATTTTAAAAA
1 TGTTGTTGATTTTAATTTAATTTT--AAA
*
9480223 TGTTGTT--TGTTAATTTAATTTT
1 TGTTGTTGATTTTAATTTAATTTT
9480245 TGATTAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
26 16 0.38
27 8 0.19
28 18 0.43
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (27 bp):
TGTTGTTGATTTTAATTTAATTTTAAA
Found at i:9480245 original size:28 final size:27
Alignment explanation
Indices: 9480176--9480244 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
9480166 TTTTGTTTTG
**
9480176 TTTTAATTTAAATTTTAAATTTTGTTGA
1 TTTTAATTT-AATTTTAAATAATGTTGA
*
9480204 TTTTAATTT-ATTTTAAA-AATGTTGT
1 TTTTAATTTAATTTTAAATAATGTTGA
9480229 TTGTTAATTTAATTTT
1 TT-TTAATTTAATTTT
9480245 TGATTAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 7 0.19
26 15 0.42
27 5 0.14
28 9 0.25
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (27 bp):
TTTTAATTTAATTTTAAATAATGTTGA
Found at i:9481055 original size:21 final size:21
Alignment explanation
Indices: 9481030--9481069 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9481020 TTATTCAATA
*
9481030 AATAAAAATGTTATTTTTTTC
1 AATAAAAATATTATTTTTTTC
*
9481051 AATAAAATTATTATTTTTT
1 AATAAAAATATTATTTTTT
9481070 AACTTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
AATAAAAATATTATTTTTTTC
Found at i:9483427 original size:7 final size:7
Alignment explanation
Indices: 9483414--9483467 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
9483404 TATAACATAA
9483414 TTAAACC
1 TTAAACC
*
9483421 CTAAACC
1 TTAAACC
*
9483428 TTAAATC
1 TTAAACC
9483435 TTAAACC
1 TTAAACC
*
9483442 TTAAATC
1 TTAAACC
9483449 TTAAATCC
1 TTAAA-CC
9483457 -TAAACC
1 TTAAACC
*
9483463 CTAAA
1 TTAAA
9483468 TTTTTAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 2 0.05
7 36 0.92
8 1 0.03
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAACC
Found at i:9483460 original size:14 final size:14
Alignment explanation
Indices: 9483422--9483453 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9483412 AATTAAACCC
9483422 TAAACCTTAAATCT
1 TAAACCTTAAATCT
9483436 TAAACCTTAAATCT
1 TAAACCTTAAATCT
9483450 TAAA
1 TAAA
9483454 TCCTAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAACCTTAAATCT
Found at i:9483468 original size:21 final size:21
Alignment explanation
Indices: 9483415--9483468 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
9483405 ATAACATAAT
* *
9483415 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAATCTTAAATCC
*
9483436 TAAACCTTAAATCTTAAATCC
1 TAAACCCTAAATCTTAAATCC
9483457 TAAACCCTAAAT
1 TAAACCCTAAAT
9483469 TTTTAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACCCTAAATCTTAAATCC
Found at i:9483742 original size:21 final size:22
Alignment explanation
Indices: 9483716--9483759 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
9483706 ATACAGAGAT
*
9483716 TAAGAATATCACATT-AAAAAG
1 TAAGAATATCAAATTCAAAAAG
9483737 TAAGAATATCAAATTCAAAAAG
1 TAAGAATATCAAATTCAAAAAG
9483759 T
1 T
9483760 CTTGATCCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (22 bp):
TAAGAATATCAAATTCAAAAAG
Found at i:9483845 original size:26 final size:26
Alignment explanation
Indices: 9483805--9483856 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9483795 CCCTAAACCA
*
9483805 AAATACAAACATAAAAATTATTAATT
1 AAATACAAACATAAAAATAATTAATT
** *
9483831 AAATACAAATTTAAACATAATTAATT
1 AAATACAAACATAAAAATAATTAATT
9483857 CCAAATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATACAAACATAAAAATAATTAATT
Found at i:9483854 original size:22 final size:23
Alignment explanation
Indices: 9483826--9483878 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9483816 TAAAAATTAT
9483826 TAATTAAATACAAATT-TAAACA
1 TAATTAAATACAAATTATAAACA
* * *
9483848 TAATTAATTCCAAATTCATAAACT
1 TAATTAAATACAAATT-ATAAACA
9483872 TAATTAA
1 TAATTAA
9483879 TTTCAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 14 0.54
24 12 0.46
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATTAAATACAAATTATAAACA
Found at i:9483875 original size:24 final size:22
Alignment explanation
Indices: 9483825--9483886 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
9483815 ATAAAAATTA
*
9483825 TTAATTAAATACAAATTTAAAC
1 TTAATTAATTACAAATTTAAAC
* *
9483847 ATAATTAATTCCAAATTCATAAAC
1 TTAATTAATTACAAATT--TAAAC
*
9483871 TTAATTAATTTCAAAT
1 TTAATTAATTACAAAT
9483887 GAAAATTGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 14 0.42
24 19 0.58
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATTAATTACAAATTTAAAC
Found at i:9486787 original size:27 final size:27
Alignment explanation
Indices: 9486757--9486832 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
9486747 CCATTGGTAC
*
9486757 CGCCTACC-GAATAGGCACTACTAGTGT
1 CGCCTACCAG-ATAGGCACCACTAGTGT
** *
9486784 CGCCTGTCAGGTAGGCACCACTAGTGT
1 CGCCTACCAGATAGGCACCACTAGTGT
** *
9486811 CGCCTGTCAGGTAGGCACCACT
1 CGCCTACCAGATAGGCACCACT
9486833 CAATATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (27 bp):
CGCCTACCAGATAGGCACCACTAGTGT
Found at i:9490493 original size:216 final size:216
Alignment explanation
Indices: 9490031--9490591 Score: 915
Period size: 216 Copynumber: 2.6 Consensus size: 216
9490021 CCAATTCACA
* * *
9490031 AGTCAGTCGGTCCAACCCATTGTTTTGGACTAATACCCCAACTGATTCCTGATCCAGAAAAATTG
1 AGTCAATCGGTCCAACCCATTATTTTGGACTAATACCCCAACTGATTCCTGATCCAAAAAAATTG
* *
9490096 TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAAGGGTAAAAAAATAATCAGG
66 TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAAAGGT-AAAAAATAATCAGC
*
9490161 GTTATATTTTCTTTTCACTCACTTTTCTTCCTTAAAACTTAAAAACCGACCCCAAGTTTTTTTTC
130 GTTATATTTTCTTTTCACTCACTTGTCTTCCTTAAAACTTAAAAACCGACCCCAAGTTTTTTTTC
9490226 CCTTTTCCACTCTCCTCCATCT
195 CCTTTTCCACTCTCCTCCATCT
* **
9490248 AGTCAATTGGTCCAACCCATTATTTTGGACTAATACCCCAACTGATTCCTGATAAAAAAAAATTG
1 AGTCAATCGGTCCAACCCATTATTTTGGACTAATACCCCAACTGATTCCTGATCCAAAAAAATTG
* * *
9490313 TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAATGGTAAAAGATAATCAGCT
66 TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAAAGGTAAAAAATAATCAGCG
* * * *
9490378 TTATATTTTCTTTTCACTTACTTGTCTTCCTTAAAACTTAAAAACTGACTCGAAGTTTTTTTTCC
131 TTATATTTTCTTTTCACTCACTTGTCTTCCTTAAAACTTAAAAACCGACCCCAAGTTTTTTTTCC
*
9490443 CTTTTCCACTCTCCTTCATCT
196 CTTTTCCACTCTCCTCCATCT
* * *
9490464 AGTCAATCGGTACAACCTATTATTTTGGACTAATACCCCAACTGATTCCTGATCCAAAAAAAGTG
1 AGTCAATCGGTCCAACCCATTATTTTGGACTAATACCCCAACTGATTCCTGATCCAAAAAAATTG
* *
9490529 TTTTTCCCTTTTTCCAATTTAGATAAAGATTTGTTTTGATCATTAAAGATAAAAAATAATCAG
66 TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAAAGGTAAAAAATAATCAG
9490592 AAGTTTTTTT
Statistics
Matches: 318, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
216 210 0.66
217 108 0.34
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.39
Consensus pattern (216 bp):
AGTCAATCGGTCCAACCCATTATTTTGGACTAATACCCCAACTGATTCCTGATCCAAAAAAATTG
TTTTTCCCTTTTTCCAATTTAGATTAAGATTTGTTTTGATCATTAAAGGTAAAAAATAATCAGCG
TTATATTTTCTTTTCACTCACTTGTCTTCCTTAAAACTTAAAAACCGACCCCAAGTTTTTTTTCC
CTTTTCCACTCTCCTCCATCT
Found at i:9492279 original size:20 final size:20
Alignment explanation
Indices: 9492251--9492346 Score: 103
Period size: 20 Copynumber: 4.9 Consensus size: 20
9492241 TCACGTTAAC
*
9492251 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
*
9492271 AAATTATTTTTAAAAATA-TA
1 AAATTA-TTTTAAAATTATTA
*
9492291 AAA-T-TTTTAAAATTATTTTT
1 AAATTATTTTAAAATTA--TTA
9492311 AAA--ATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
9492329 AAATTATTTTAAAATTAT
1 AAATTATTTTAAAATTAT
9492347 AATCATCATC
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.16
18 5 0.08
19 1 0.02
20 38 0.59
21 10 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:9492302 original size:29 final size:29
Alignment explanation
Indices: 9492255--9492348 Score: 145
Period size: 29 Copynumber: 3.3 Consensus size: 29
9492245 GTTAACAAAT
*
9492255 AATTTTAAAATTATTAAAATTATTTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
* *
9492284 AAATATAAAATTTTTAAAATTATTTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
*
9492313 AATTTTAAAATTATTAAAATTA-TTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
9492341 AATTATAA
1 AATTATAA
9492349 TCATCATCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 13 0.22
29 45 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTATAAAATTATTAAAATTATTTTTAA
Found at i:9493392 original size:22 final size:22
Alignment explanation
Indices: 9493349--9493392 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9493339 AAAATTATTT
*
9493349 AATAATTTTATCATTTCAAAAA
1 AATAATTTTATAATTTCAAAAA
*
9493371 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-ATAATTTCAAAA
9493393 TCATTTACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAATTTTATAATTTCAAAAA
Found at i:9517636 original size:24 final size:24
Alignment explanation
Indices: 9517590--9517636 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9517580 TTTATTTAAG
* *
9517590 TTAAATTAAATGAGTAATTTTTAT
1 TTAAATTAAATGAGAAATATTTAT
9517614 TTAAATTAAAT-AGAAAATATTTA
1 TTAAATTAAATGAG-AAATATTTA
9517637 CGCCACATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
TTAAATTAAATGAGAAATATTTAT
Found at i:9518397 original size:17 final size:17
Alignment explanation
Indices: 9518375--9518425 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
9518365 TATGACCTAT
*
9518375 GTTCGCATACAACATGG
1 GTTCGCATACAACATAG
9518392 GTTCGCATA-ATATCATAG
1 GTTCGCATACA-A-CATAG
*
9518410 GTTCGCACACAACATA
1 GTTCGCATACAACATA
9518426 ACATATCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (17 bp):
GTTCGCATACAACATAG
Found at i:9518509 original size:14 final size:14
Alignment explanation
Indices: 9518490--9518522 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
9518480 TGTAAGATCA
9518490 CATACAGACAAATT
1 CATACAGACAAATT
9518504 CATACAGACAAATT
1 CATACAGACAAATT
9518518 CATAC
1 CATAC
9518523 CATACGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (14 bp):
CATACAGACAAATT
Found at i:9519805 original size:33 final size:33
Alignment explanation
Indices: 9519767--9519861 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
9519757 GGATGTGACA
*
9519767 ATGAAGCTGCCCCGAGAGATGTTCCAATCAATG
1 ATGAAGCTGCCCCGATAGATGTTCCAATCAATG
* ** * *
9519800 ATGAAGCTACATC-ATTAGATGTTACAATCATTG
1 ATGAAGCTGCCCCGA-TAGATGTTCCAATCAATG
*
9519833 ATGAAGTTG-CCCGATAGATGTTCCAATCA
1 ATGAAGCTGCCCCGATAGATGTTCCAATCA
9519862 CTTATGTTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
32 16 0.33
33 33 0.67
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (33 bp):
ATGAAGCTGCCCCGATAGATGTTCCAATCAATG
Found at i:9523448 original size:14 final size:14
Alignment explanation
Indices: 9523429--9523484 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
9523419 CAACCCAAAA
*
9523429 AGTCAACGGTCAAT
1 AGTCAACGGTCAAC
*
9523443 AGTCAACGATCAAC
1 AGTCAACGGTCAAC
* * *
9523457 AGTTAATGGTTAAC
1 AGTCAACGGTCAAC
*
9523471 AGTCAACAGTCAAC
1 AGTCAACGGTCAAC
9523485 GGTTGGGTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:9528824 original size:90 final size:90
Alignment explanation
Indices: 9528671--9528854 Score: 341
Period size: 90 Copynumber: 2.0 Consensus size: 90
9528661 TTGTAATTTT
*
9528671 ATTCTTAAGAAACCATTTAAAATATATATACTTTAATTTGTAAATAAATTAAGTAATAATAAAAC
1 ATTCTCAAGAAACCATTTAAAATATATATACTTTAATTTGTAAATAAATTAAGTAATAATAAAAC
*
9528736 AATTAATTTCTCACATTTCTAAATA
66 AATTAATTTCCCACATTTCTAAATA
9528761 ATTCTCAAGAAACCATTTAAAATATATATACTTTAATTTGTAAATAAATTAAGTAATAATAAAAC
1 ATTCTCAAGAAACCATTTAAAATATATATACTTTAATTTGTAAATAAATTAAGTAATAATAAAAC
*
9528826 AATTAATTTCCCACATTTCTGAATA
66 AATTAATTTCCCACATTTCTAAATA
9528851 ATTC
1 ATTC
9528855 CAAACTTAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (90 bp):
ATTCTCAAGAAACCATTTAAAATATATATACTTTAATTTGTAAATAAATTAAGTAATAATAAAAC
AATTAATTTCCCACATTTCTAAATA
Found at i:9534480 original size:19 final size:19
Alignment explanation
Indices: 9534447--9534507 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
9534437 ATAGTCAATT
9534447 GGTCAACGG-AGAAGTCAAC
1 GGTCAACGGTA-AAGTCAAC
* *
9534466 GGTCAACGGTCAAGTCAAT
1 GGTCAACGGTAAAGTCAAC
* *
9534485 AGTCAAAGGTTAAAGTCAAC
1 GGTCAACGG-TAAAGTCAAC
9534505 GGT
1 GGT
9534508 TTGGTTGGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (19 bp):
GGTCAACGGTAAAGTCAAC
Found at i:9534537 original size:27 final size:27
Alignment explanation
Indices: 9534499--9534557 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
9534489 AAAGGTTAAA
9534499 GTCAACGGTTTGGTTGGGTTCAGTTCG
1 GTCAACGGTTTGGTTGGGTTCAGTTCG
* *
9534526 GTCAATGGTTTGGTTTGGTTCAGTTCG
1 GTCAACGGTTTGGTTGGGTTCAGTTCG
9534553 GTCAA
1 GTCAA
9534558 GGGGTCGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.39
Consensus pattern (27 bp):
GTCAACGGTTTGGTTGGGTTCAGTTCG
Found at i:9537960 original size:231 final size:231
Alignment explanation
Indices: 9537557--9537976 Score: 777
Period size: 231 Copynumber: 1.8 Consensus size: 231
9537547 CAACAGACAC
* *
9537557 TATATGCCCCAAAAACATAACCTTAGAGTGCCAGAATTCACACTTGCTAAACTTAGCATACAACT
1 TATATGCCCAAAAAACATAACCTTAGAGAGCCAGAATTCACACTTGCTAAACTTAGCATACAACT
*
9537622 GTTTCTCTCTCAAAGTTTGCAAAACAATTCTAAGATGCTCCTCATGCTCAGCCTCAGTCTTAGAG
66 GTTTCACTCTCAAAGTTTGCAAAACAATTCTAAGATGCTCCTCATGCTCAGCCTCAGTCTTAGAG
*
9537687 TAAACTAGAATATCATCTATAAACACTACCACAAACTGATCCAAGTAGGGTTGAAACACTATCAC
131 TAAACTAGAATATCATCTATAAACACTACCAAAAACTGATCCAAGTAGGGTTGAAACACTATCAC
9537752 AAACTTCGAATCTACACGAGTACGCTCAGCAGACTA
196 AAACTTCGAATCTACACGAGTACGCTCAGCAGACTA
* *
9537788 TATATGCCCAAAAAACATAACCTTTGAGAGCCAGAATTCACACTTGCTGAACTTAGCATACAACT
1 TATATGCCCAAAAAACATAACCTTAGAGAGCCAGAATTCACACTTGCTAAACTTAGCATACAACT
*
9537853 GTTTCACTCTCAAAGTTTGCAAAATAATTCTAAGATGCTCCTCATGCTCAGCCTCAGTCTTAGAG
66 GTTTCACTCTCAAAGTTTGCAAAACAATTCTAAGATGCTCCTCATGCTCAGCCTCAGTCTTAGAG
9537918 TAAACTAGAATATCATCTATAAACACTACCAAAAACTGATCCAAGTAGGGTTGAAACAC
131 TAAACTAGAATATCATCTATAAACACTACCAAAAACTGATCCAAGTAGGGTTGAAACAC
9537977 CCTATTCATC
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 182 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (231 bp):
TATATGCCCAAAAAACATAACCTTAGAGAGCCAGAATTCACACTTGCTAAACTTAGCATACAACT
GTTTCACTCTCAAAGTTTGCAAAACAATTCTAAGATGCTCCTCATGCTCAGCCTCAGTCTTAGAG
TAAACTAGAATATCATCTATAAACACTACCAAAAACTGATCCAAGTAGGGTTGAAACACTATCAC
AAACTTCGAATCTACACGAGTACGCTCAGCAGACTA
Found at i:9540471 original size:23 final size:23
Alignment explanation
Indices: 9540388--9540464 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
9540378 CTAATTTATA
9540388 TTCAAAACTAAATAATTAATAAC
1 TTCAAAACTAAATAATTAATAAC
* *
9540411 TTCAAAA-TATATATATTATGTATA-
1 TTCAAAACTAAATA-ATTA-ATA-AC
9540435 TTCAAAACTAAATAATTAATAAC
1 TTCAAAACTAAATAATTAATAAC
9540458 TTCAAAA
1 TTCAAAA
9540465 ACAAATACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 6 0.13
23 20 0.44
24 13 0.29
25 6 0.13
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.35
Consensus pattern (23 bp):
TTCAAAACTAAATAATTAATAAC
Found at i:9550217 original size:15 final size:15
Alignment explanation
Indices: 9550192--9550231 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9550182 ATGACGATGT
*
9550192 TTATGACGAT-GATA
1 TTATGAAGATGGATA
9550206 TCTATGAAGATGGATA
1 T-TATGAAGATGGATA
9550222 TTATGAAGAT
1 TTATGAAGAT
9550232 TGAGAGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 17 0.74
16 5 0.22
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (15 bp):
TTATGAAGATGGATA
Found at i:9555177 original size:19 final size:19
Alignment explanation
Indices: 9555152--9555197 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
9555142 ACTCGGAAGG
9555152 AAGAGCAATACTGGCTCGCT
1 AAGAGCAATACTGGCTCG-T
9555172 -AGAGCAATACTGGCTCGT
1 AAGAGCAATACTGGCTCGT
9555190 AAGAGCAA
1 AAGAGCAA
9555198 AATACTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (19 bp):
AAGAGCAATACTGGCTCGT
Found at i:9557851 original size:45 final size:45
Alignment explanation
Indices: 9557800--9557890 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
9557790 CTAAAGTAAG
9557800 TACTAATTAATTTTATTCTTTACAGGGATCTAATTTACTATCGCT
1 TACTAATTAATTTTATTCTTTACAGGGATCTAATTTACTATCGCT
9557845 TACTAATTAATTTTATTCTTTACAGGGATCTAATTTACTATCGCT
1 TACTAATTAATTTTATTCTTTACAGGGATCTAATTTACTATCGCT
9557890 T
1 T
9557891 TATGCCTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (45 bp):
TACTAATTAATTTTATTCTTTACAGGGATCTAATTTACTATCGCT
Found at i:9557878 original size:23 final size:23
Alignment explanation
Indices: 9557807--9557880 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
9557797 AAGTACTAAT
9557807 TAATTTTATTCTTTACAGGGATC
1 TAATTTTATTCTTTACAGGGATC
*
9557830 TAA-TTTACTATCGCTTACTA---AT-
1 TAATTTTA-T-TC-TTTAC-AGGGATC
9557852 TAATTTTATTCTTTACAGGGATC
1 TAATTTTATTCTTTACAGGGATC
9557875 TAATTT
1 TAATTT
9557881 ACTATCGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
21 2 0.05
22 10 0.25
23 16 0.40
24 2 0.05
25 4 0.10
26 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATTTTATTCTTTACAGGGATC
Found at i:9559638 original size:41 final size:40
Alignment explanation
Indices: 9559593--9559682 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
9559583 GCACTTTTAA
9559593 CGGCG-TTTGGAAAGAAAACGCAGCAAAAGGTAAAGCAATAG
1 CGGCGCTTT-GAAA-AAAACGCAGCAAAAGGTAAAGCAATAG
* * * * *
9559634 CGGCGCTTTTACATAAACGCCGCAAAAGGTAAATCAATAG
1 CGGCGCTTTGAAAAAAACGCAGCAAAAGGTAAAGCAATAG
*
9559674 CAGCGCTTT
1 CGGCGCTTT
9559683 CCTCCAAGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 32 0.76
41 7 0.17
42 3 0.07
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (40 bp):
CGGCGCTTTGAAAAAAACGCAGCAAAAGGTAAAGCAATAG
Found at i:9559724 original size:41 final size:41
Alignment explanation
Indices: 9559671--9559968 Score: 300
Period size: 41 Copynumber: 7.3 Consensus size: 41
9559661 GGTAAATCAA
* * *
9559671 TAGCAGCGCTTTCCTCCAAGTGCCGCTAAAGATCGGGTCAT
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCAT
* *** *
9559712 TAGCGGCACTTTCCAATAAGCACCGCTAAAGGTCGGGTCAT
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCAT
* *
9559753 TAGCGGCAC-TTCC-CCATAAGCGTCGCTAAAGGTCGGGTCAT
1 TAGCGGCGCTTTCCTCC--AAGCGCCGCTAAAGGTCGGGTCAT
* *
9559794 TAGCGGTGCTTTCCTCCAAGCACCGCTAAAGGTCGGGTCAT
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCAT
** * *
9559835 TAGCAACGC-TTCC-CCATAAGCGTCGTTAAAGGTCGGGTCAT
1 TAGCGGCGCTTTCCTCC--AAGCGCCGCTAAAGGTCGGGTCAT
* ***
9559876 TAGCGGTGCTTTCCAATAAGCGCCGCTAAAGGTCGGGTCAT
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCAT
* * *
9559917 TAGCGGCGCTTTCCAT-TAAGCGCCACTAAAAGTCGGGTCAT
1 TAGCGGCGCTTTCC-TCCAAGCGCCGCTAAAGGTCGGGTCAT
*
9559958 TAGTGGCGCTT
1 TAGCGGCGCTT
9559969 ATGAAAGAAG
Statistics
Matches: 214, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 194 0.91
42 8 0.04
43 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.24
Consensus pattern (41 bp):
TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCAT
Found at i:9559793 original size:82 final size:82
Alignment explanation
Indices: 9559694--9560069 Score: 407
Period size: 82 Copynumber: 4.6 Consensus size: 82
9559684 CTCCAAGTGC
* * *
9559694 CGCTAAAGATCGGGTCATTAGCGGCACTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCGG
1 CGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCAG
*
9559759 CACTTCCCCATAAGCGT
66 CGCTTCCCCATAAGCGT
* *** *
9559776 CGCTAAAGGTCGGGTCATTAGCGGTGCTTTCCTCCAAGCACCGCTAAAGGTCGGGTCATTAGCAA
1 CGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCAG
9559841 CGCTTCCCCATAAGCGT
66 CGCTTCCCCATAAGCGT
* * * *
9559858 CGTTAAAGGTCGGGTCATTAGCGGTGCTTTCCAATAAGCGCCGCTAAAGGTCGGGTCATTAGCGG
1 CGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCAG
* *
9559923 CGCTT-TCCATTAAGCGC
66 CGCTTCCCCA-TAAGCGT
* * * ** * ** * **
9559940 CACTAAAAGTCGGGTCATTAGTGGCGCTTATGAAAGAAGCGTCGCTAAAAGTCAAGTCATTAGCA
1 CGCTAAAGGTCGGGTCATTAGCGGCGCTT-TCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCA
*** *
9560005 GCGCTTTTTTCATGAGCGT
65 GCGC-TTCCCCATAAGCGT
* *
9560024 CGCTAAATGTCAGGG-CATTAGCGGCGCTTTCCCATAAGC-CCGCTAA
1 CGCTAAAGGTC-GGGTCATTAGCGGCGCTTTCCAATAAGCACCGCTAA
9560070 TTTATTTAAA
Statistics
Matches: 247, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
81 3 0.01
82 172 0.70
83 37 0.15
84 29 0.12
85 6 0.02
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (82 bp):
CGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCAG
CGCTTCCCCATAAGCGT
Found at i:9559854 original size:123 final size:123
Alignment explanation
Indices: 9559671--9559960 Score: 375
Period size: 123 Copynumber: 2.4 Consensus size: 123
9559661 GGTAAATCAA
* * * ** *
9559671 TAGCAGCGCTTTCCTCCAAGTGCCGCTAAAGATCGGGTCATTAGCGGCACTTTCCAATAAGCACC
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCATTAGCAACACTTCCCAATAAGCACC
* *
9559736 GCTAAAGGTCGGGTCATTAGCGGCACTTCCCCATAAGCGTCGCTAAAGGTCGGGTCAT
66 GCTAAAGGTCGGGTCATTAGCGGCACTTCCCAATAAGCGCCGCTAAAGGTCGGGTCAT
* * * * **
9559794 TAGCGGTGCTTTCCTCCAAGCACCGCTAAAGGTCGGGTCATTAGCAACGCTTCCCCATAAGCGTC
1 TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCATTAGCAACACTTCCCAATAAGCACC
* ** *
9559859 GTTAAAGGTCGGGTCATTAGCGGTGCTTTCCAATAAGCGCCGCTAAAGGTCGGGTCAT
66 GCTAAAGGTCGGGTCATTAGCGGCACTTCCCAATAAGCGCCGCTAAAGGTCGGGTCAT
* * *
9559917 TAGCGGCGCTTTCCAT-TAAGCGCCACTAAAAGTCGGGTCATTAG
1 TAGCGGCGCTTTCC-TCCAAGCGCCGCTAAAGGTCGGGTCATTAG
9559961 TGGCGCTTAT
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
123 142 0.99
124 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (123 bp):
TAGCGGCGCTTTCCTCCAAGCGCCGCTAAAGGTCGGGTCATTAGCAACACTTCCCAATAAGCACC
GCTAAAGGTCGGGTCATTAGCGGCACTTCCCAATAAGCGCCGCTAAAGGTCGGGTCAT
Found at i:9560009 original size:83 final size:81
Alignment explanation
Indices: 9559631--9560054 Score: 255
Period size: 82 Copynumber: 5.2 Consensus size: 81
9559621 GGTAAAGCAA
* * * * * * *
9559631 TAGCGGCGCTTTTACATAAACGCCGC-AAAAGGT-AAATCAATAGCAGCGCTTTCC-TCCAAGTG
1 TAGCGGCGCTTTCAAAGAAGCGCCGCTAAAA-GTCAAGTCATTAGCAGCGCTTTCCAT--AAGCG
*
9559693 CCGCT-AAAGATCGGGTCAT
63 CCACTAAAAG-TCGGGTCAT
* * * * * ** * * * *
9559712 TAGCGGCACTTTCCAATAAGCACCGCTAAAGGTCGGGTCATTAGCGGCACTTCCCCATAAGCGTC
1 TAGCGGCGCTTTCAAAGAAGCGCCGCTAAAAGTCAAGTCATTAGCAGCGCTT-TCCATAAGCGCC
* *
9559777 GCTAAAGGTCGGGTCAT
65 ACTAAAAGTCGGGTCAT
* **** * * ** * * *
9559794 TAGCGGTGCTTTCCTCCAAGCACCGCTAAAGGTCGGGTCATTAGCAACGCTTCCCCATAAGCGTC
1 TAGCGGCGCTTTCAAAGAAGCGCCGCTAAAAGTCAAGTCATTAGCAGCGCTT-TCCATAAGCGCC
** *
9559859 GTTAAAGGTCGGGTCAT
65 ACTAAAAGTCGGGTCAT
* * * * ** *
9559876 TAGCGGTGCTTTCCAATAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCATTAAGCGCC
1 TAGCGGCGCTTTCAAAGAAGCGCCGCTAAAAGTCAAGTCATTAGCAGCGCTTTCCA-TAAGCGCC
9559941 ACTAAAAGTCGGGTCAT
65 ACTAAAAGTCGGGTCAT
* * * * *
9559958 TAGTGGCGCTTATGAAAGAAGCGTCGCTAAAAGTCAAGTCATTAGCAGCGCTTTTTTCATGAGCG
1 TAGCGGCGCTT-TCAAAGAAGCGCCGCTAAAAGTCAAGTCATTAGCAGCGC--TTTCCATAAGCG
* * *
9560023 TCGCTAAATGTCAGGG-CAT
63 CCACTAAAAGTC-GGGTCAT
9560042 TAGCGGCGCTTTC
1 TAGCGGCGCTTTC
9560055 CCATAAGCCC
Statistics
Matches: 279, Mismatches: 54, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
81 25 0.09
82 181 0.65
83 37 0.13
84 28 0.10
85 8 0.03
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (81 bp):
TAGCGGCGCTTTCAAAGAAGCGCCGCTAAAAGTCAAGTCATTAGCAGCGCTTTCCATAAGCGCCA
CTAAAAGTCGGGTCAT
Found at i:9563444 original size:8 final size:8
Alignment explanation
Indices: 9563431--9563632 Score: 94
Period size: 8 Copynumber: 25.2 Consensus size: 8
9563421 AATTTAAAAG
9563431 ATTTAATT
1 ATTTAATT
9563439 ATTTAATT
1 ATTTAATT
9563447 ATTTAATT
1 ATTTAATT
9563455 ATTTAATTAT
1 ATTTAA-T-T
9563465 ATTTAATT
1 ATTTAATT
*
9563473 ATGT--TT
1 ATTTAATT
* *
9563479 AATTAAAT
1 ATTTAATT
9563487 ATTTAATT
1 ATTTAATT
** *
9563495 ATAAACAGT
1 ATTTA-ATT
*
9563504 A-TTAGTT
1 ATTTAATT
* *
9563511 AATTAAAT
1 ATTTAATT
9563519 ATTTAA-T
1 ATTTAATT
* **
9563526 -TTAAAAG
1 ATTTAATT
9563533 ATTTAATT
1 ATTTAATT
9563541 ATTTAATT
1 ATTTAATT
9563549 ATTTAATT
1 ATTTAATT
** *
9563557 AAATATTT
1 ATTTAATT
*
9563565 AATTTAAAAT
1 -ATTT-AATT
*
9563575 ATTTAAGT
1 ATTTAATT
**
9563583 AAATAATT
1 ATTTAATT
9563591 AAATTTAATT
1 --ATTTAATT
9563601 ATTTAATT
1 ATTTAATT
*
9563609 ATGT--TT
1 ATTTAATT
* *
9563615 AATTAAAT
1 ATTTAATT
9563623 ATTTAATT
1 ATTTAATT
9563631 AT
1 AT
9563633 AAACGTATTA
Statistics
Matches: 140, Mismatches: 40, Indels: 28
0.67 0.19 0.13
Matches are distributed among these distances:
6 12 0.09
7 3 0.02
8 99 0.71
9 11 0.08
10 15 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (8 bp):
ATTTAATT
Found at i:9563468 original size:102 final size:102
Alignment explanation
Indices: 9563362--9563866 Score: 349
Period size: 102 Copynumber: 4.9 Consensus size: 102
9563352 TATATTTAAC
* *
9563362 TATTTAATTATGTTTAACTATATATTTAATAATAAACAGTATCAATTAGTTAAATATTTAATTTA
1 TATTTAATTATGTTTAACTAAATATTTAATAATAAACAGTATCAATTAATTAAATATTTAATTTA
9563427 AAAGATTTAATTATTTAATTATTTAATTATTTAATTA
66 AAAGATTTAATTATTTAATTATTTAATTATTTAATTA
* * * *
9563464 TATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTA
1 TATTTAATTATGTTTAACTAAATATTTAATAATAAACAGTATCAATTAATTAAATATTTAATTTA
** *
9563529 AAAGATTTAATTATTTAATTATTTAATTAAATATTTA
66 AAAGATTTAATTATTTAATTATTTAATTATTTAATTA
* * * * * * **
9563566 -ATTTAA-AATATTTAAGTAAATAATTAAATTTAATTATTTA-ATTAT-GTTTAATTAAATATTT
1 TATTTAATTATGTTTAACTAAAT-ATTTAA--TAA-TA--AACAGTATCAATTAATTAAATATTT
* * * * *
9563627 AATTATAAACG-TATTAGTTAATTAAATATTTAATTA-TAAATAGTA
60 AATT-TAAAAGAT-TTAATTATTTAATTATTTAATTATTTAAT--TA
* * * * * ** * *
9563672 TTAGTTAATTAAATATTTAATTTGAAAGATTTAATTATTTTA-ATTAT-ATTTAATTAAATATTT
1 -TATTTAATT--ATGTTTAA-CT-AAATATTTAA-TAATAAACAGTATCAATTAATTAAATATTT
* * * *
9563735 AATTTAAAATA-TTAA--A-GTAAATAATT-A-TATTTAA-T-
60 AATTTAAAAGATTTAATTATTTAATTATTTAATTATTTAATTA
* * * * * * *
9563770 TATTTAATTATGTTTAATTAAATATTTAATTATAAACTGTATTAGTTAATTTAATATTTAATTTG
1 TATTTAATTATGTTTAACTAAATATTTAATAATAAACAGTATCAATTAATTAAATATTTAATTTA
9563835 AAAGATTTAATTATTTTAATTATATTTAATTA
66 AAAGATTTAATTA-TTTAA-T-TATTTAATTA
9563867 AATATTAATT
Statistics
Matches: 318, Mismatches: 55, Indels: 59
0.74 0.13 0.14
Matches are distributed among these distances:
92 3 0.01
93 12 0.04
94 25 0.08
95 11 0.03
97 9 0.03
99 4 0.01
100 12 0.04
101 17 0.05
102 98 0.31
103 12 0.04
104 24 0.08
105 29 0.09
106 6 0.02
107 4 0.01
108 31 0.10
110 1 0.00
111 11 0.03
112 6 0.02
113 3 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (102 bp):
TATTTAATTATGTTTAACTAAATATTTAATAATAAACAGTATCAATTAATTAAATATTTAATTTA
AAAGATTTAATTATTTAATTATTTAATTATTTAATTA
Found at i:9563651 original size:31 final size:32
Alignment explanation
Indices: 9563613--9563693 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
9563603 TTAATTATGT
*
9563613 TTAATTAAATATTTAATTATAAA-CGTATTAG
1 TTAATTAAATATTTAATTATAAATAGTATTAG
9563644 TTAATTAAATATTTAATTATAAATAGTATTAG
1 TTAATTAAATATTTAATTATAAATAGTATTAG
9563676 TTAATTAAATATTTAATT
1 TTAATTAAATATTTAATT
9563694 TGAAAGATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 23 0.48
32 25 0.52
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (32 bp):
TTAATTAAATATTTAATTATAAATAGTATTAG
Found at i:9563713 original size:9 final size:10
Alignment explanation
Indices: 9563700--9563941 Score: 79
Period size: 10 Copynumber: 24.1 Consensus size: 10
9563690 AATTTGAAAG
9563700 ATTTAATTAT
1 ATTTAATTAT
9563710 -TTTAATTAT
1 ATTTAATTAT
9563719 ATTTAATTAAAT
1 ATTTAATT--AT
*
9563731 ATTTAATTTAAA
1 ATTTAA-TT-AT
9563743 ATATTAA--AGT
1 AT-TTAATTA-T
**
9563753 AAATAATTAT
1 ATTTAATTAT
9563763 ATTTAA-T-T
1 ATTTAATTAT
9563771 ATTTAATTAT
1 ATTTAATTAT
*
9563781 GTTTAATTAAAT
1 ATTTAATT--AT
9563793 ATTTAATTAT
1 ATTTAATTAT
9563803 A---AACTGTATT
1 ATTTAA-T-TA-T
*
9563813 AGTTAATTTAAT
1 ATTTAA-TT-AT
*
9563825 ATTTAATTTGAAAG
1 ATTTAA-TT---AT
9563839 ATTTAATTAT
1 ATTTAATTAT
9563849 -TTTAATTAT
1 ATTTAATTAT
9563858 ATTTAATTA-
1 ATTTAATTAT
*
9563867 A-AT-ATTA-
1 ATTTAATTAT
*
9563874 ATTTAA-AAT
1 ATTTAATTAT
* *
9563883 ATTAAAGTA-
1 ATTTAATTAT
*
9563892 A-ATAATTAT
1 ATTTAATTAT
9563901 ATTTAA-T-T
1 ATTTAATTAT
9563909 ATTTAATTAT
1 ATTTAATTAT
*
9563919 GTTTAATTAAAT
1 ATTTAATT--AT
9563931 ATTTAATTAT
1 ATTTAATTAT
9563941 A
1 A
9563942 AACAGTATTA
Statistics
Matches: 177, Mismatches: 23, Indels: 64
0.67 0.09 0.24
Matches are distributed among these distances:
7 7 0.04
8 22 0.12
9 37 0.21
10 50 0.28
11 1 0.01
12 40 0.23
13 12 0.07
14 8 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (10 bp):
ATTTAATTAT
Found at i:9563738 original size:22 final size:22
Alignment explanation
Indices: 9563676--9563803 Score: 85
Period size: 22 Copynumber: 6.0 Consensus size: 22
9563666 ATAGTATTAG
*
9563676 TTAATTAAATATTTAATTTGAAAGAT
1 TTAATTAAATATTTAA-TT---ATAT
9563702 TTAATT--AT-TTTAATTATAT
1 TTAATTAAATATTTAATTATAT
9563721 TTAATTAAATATTTAATT-TA-
1 TTAATTAAATATTTAATTATAT
** **
9563741 AAATATTAAAGTAAATAATTATAT
1 TTA-ATTAAA-TATTTAATTATAT
*
9563765 TTAA-T---TATTTAATTATGT
1 TTAATTAAATATTTAATTATAT
9563783 TTAATTAAATATTTAATTATA
1 TTAATTAAATATTTAATTATA
9563804 AACTGTATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
18 14 0.17
19 10 0.12
20 1 0.01
21 10 0.12
22 28 0.35
23 8 0.10
24 3 0.04
26 6 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTAATTAAATATTTAATTATAT
Found at i:9563755 original size:170 final size:168
Alignment explanation
Indices: 9563477--9563832 Score: 633
Period size: 170 Copynumber: 2.1 Consensus size: 168
9563467 TTAATTATGT
9563477 TTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTAAAAGATTTAATTA
1 TTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTAAAAGATTTAATTA
*
9563542 TTTAATTATTTAATTAAATATTTAATTTAAAATATTTAAGTAAATAATTAAATTTAATTATTTAA
66 TTTAATTATTTAATTAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATTTAA
9563607 TTATGTTTAATTAAATATTTAATTATAAAC-GTATTAG
131 TTATGTTTAATTAAATATTTAATTATAAACTGTATTAG
* *
9563644 TTAATTAAATATTTAATTATAAATAGTATTAGTTAATTAAATATTTAATTTGAAAGATTTAATTA
1 TTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTAAAAGATTTAATTA
*
9563709 TTTTAATTATATTTAATTAAATATTTAATTTAAAATATTAAAGTAAATAATTATATTTAATTATT
66 -TTTAA-T-TATTTAATTAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATT
9563774 TAATTATGTTTAATTAAATATTTAATTATAAACTGTATTAG
128 TAATTATGTTTAATTAAATATTTAATTATAAACTGTATTAG
*
9563815 TTAATTTAATATTTAATT
1 TTAATTAAATATTTAATT
9563833 TGAAAGATTT
Statistics
Matches: 180, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
167 63 0.35
168 5 0.03
169 1 0.01
170 87 0.48
171 24 0.13
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (168 bp):
TTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTAAAAGATTTAATTA
TTTAATTATTTAATTAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATTTAA
TTATGTTTAATTAAATATTTAATTATAAACTGTATTAG
Found at i:9563878 original size:26 final size:26
Alignment explanation
Indices: 9563842--9563917 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
9563832 TTGAAAGATT
*
9563842 TAATTATTTTAATTATATTTAATTAAA
1 TAATTAATTTAA-TATATTTAATTAAA
* * *
9563869 T-ATTAATTTAAAATATTAAAGTAAA
1 TAATTAATTTAATATATTTAATTAAA
9563894 TAATTATATTTAAT-TATTTAATTA
1 TAATTA-ATTTAATATATTTAATTA
9563918 TGTTTAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 12 0.30
26 21 0.52
27 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATTAATTTAATATATTTAATTAAA
Found at i:9563905 original size:170 final size:169
Alignment explanation
Indices: 9563477--9563908 Score: 533
Period size: 170 Copynumber: 2.6 Consensus size: 169
9563467 TTAATTATGT
* *
9563477 TTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAATATTTAATTTAAAAGATTTAATT-
1 TTAATTAAATATTTAATTATAAAGAGTATTAGTTAATT-AATATTTAATTTGAAAGATTTAATTA
** * * *
9563541 ATTTAATTAT--TTAATTAAATATTTAATTTAAAATATTTAAGTAAATAATTAAATTTAATTATT
65 AAATAATTATAAGTAAATAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATT
9563604 TAATTATGTTTAATTAAATATTTAATTATAAACGTATTAG
130 TAATTATGTTTAATTAAATATTTAATTATAAACGTATTAG
*
9563644 TTAATTAAATATTTAATTATAAATAGTATTAGTTAATTAAATATTTAATTTGAAAGATTTAATTA
1 TTAATTAAATATTTAATTATAAAGAGTATTAGTTAATT-AATATTTAATTTGAAAGATTTAATTA
*** ** * *
9563709 TTTTAATTATATTTAATTAAATATTTAATTTAAAATATTAAAGTAAATAATTATATTTAATTATT
65 AAATAATTATAAGTAAATAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATT
9563774 TAATTATGTTTAATTAAATATTTAATTATAAACTGTATTAG
130 TAATTATGTTTAATTAAATATTTAATTATAAAC-GTATTAG
* * * *
9563815 TTAATTTAATATTTAATT-TGAAAGATTTAATTATTTTAATT-ATATTTAA-TT-AAATA-TTAA
1 TTAATTAAATATTTAATTAT-AAAGA-GT-ATTA-GTTAATTAATATTTAATTTGAAAGATTTAA
9563875 TTTAAAAT-ATTA-AAGTAAATAATTATATTTAATT
62 -TTAAAATAATTATAAGTAAATAA--ATATTTAATT
9563909 ATTTAATTAT
Statistics
Matches: 238, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
167 62 0.26
168 16 0.07
169 8 0.03
170 103 0.43
171 30 0.13
172 9 0.04
173 4 0.02
174 6 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.50
Consensus pattern (169 bp):
TTAATTAAATATTTAATTATAAAGAGTATTAGTTAATTAATATTTAATTTGAAAGATTTAATTAA
AATAATTATAAGTAAATAAATATTTAATTTAAAATATTAAAGTAAATAATTAAATTTAATTATTT
AATTATGTTTAATTAAATATTTAATTATAAACGTATTAG
Found at i:9563944 original size:138 final size:137
Alignment explanation
Indices: 9563333--9564066 Score: 691
Period size: 138 Copynumber: 5.5 Consensus size: 137
9563323 CTTGATGAAT
* * * * *
9563333 AAATATTTAATTAAAGAATTATATTTAACTATTTAATTATGTTTAACTATATATTTAATAATAAA
1 AAATATTTAATTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
* * * * * **
9563398 CAGTATCAATTAGTTAAATATTTAATTTAAAAGATTTAATTATTTAAT-TATTTAATTATTTAAT
66 CAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTAATATATTTAATTAAATAAT
9563462 TATATTTA
131 TA-ATTTA
* * * ** *
9563470 ATTATGTTTAATTAAATATTTA-ATTATAAACA-GT-ATTA-G-TTAATTAAATATTTAATT-TA
1 A-AATATTTAATTAAATAATTATATT-TAATTATTTAATTATGTTTAATTAAATATTTAATTATA
* * * *
9563529 AA-AG-ATTTAATT-ATTTAATTATTTAA-TT-AAATATTT-A--ATTTAAAATATTTAAGTAAA
64 AACAGTA-TTAGTTAATTTAA-TATTTAATTTGAAAGATTTAATTATTTAATATATTTAATTAAA
9563586 TAATTAAATTT-
127 TAATT-AATTTA
* ** * *
9563597 AATTATTTAATTATGTTTAATTAAATATTTAATTA-TAAACGTAT-TAGTTAATTAAATATTTAA
1 AAATATTTAATTA--AATAATT--ATATTTAATTATTTAA-TTATGT--TTAATTAAATATTTAA
* *
9563660 TTATAAATAGTATTAGTTAATTAAATATTTAATTTGAAAGATTTAATTATTTTAATTATATTTAA
59 TTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTA-TTTAA-TATATTTAA
*
9563725 TTAAATATTTAATTTA
122 TTAAATAATTAATTTA
* *
9563741 AAATATTAAAGTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
1 AAATATTTAATTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
*
9563806 CTGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTTAATTATATTTAATTAAAT-
66 CAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTA-TTTAA-TATATTTAATTAAATA
9563870 ATTAATTTA
129 ATTAATTTA
* *
9563879 AAATATTAAAGTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
1 AAATATTTAATTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
** * **
9563944 CAGTATTAGTTAATTTAATATTTCCTTTGAAAGATTTAA-T-TCT--T-TCCTT-A-T--AT--T
66 CAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTAATATATTTAATTAAATAAT
**
9563998 TCCTTTA
131 TAATTTA
* * **
9564005 AAATATTTAATTAAATAATTATATTTAATTCTTTAATTAGGTTTCCTTAAATATTTAATTAT
1 AAATATTTAATTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTAT
9564067 GTTTAATTAA
Statistics
Matches: 506, Mismatches: 60, Indels: 73
0.79 0.09 0.11
Matches are distributed among these distances:
126 71 0.14
127 9 0.02
128 22 0.04
129 3 0.01
130 13 0.03
131 14 0.03
132 17 0.03
133 4 0.01
134 15 0.03
135 21 0.04
136 8 0.02
137 20 0.04
138 137 0.27
139 91 0.18
140 15 0.03
141 4 0.01
142 6 0.01
143 10 0.02
144 26 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (137 bp):
AAATATTTAATTAAATAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAA
CAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTAATATATTTAATTAAATAAT
TAATTTA
Found at i:9564060 original size:148 final size:148
Alignment explanation
Indices: 9563903--9564182 Score: 362
Period size: 148 Copynumber: 1.9 Consensus size: 148
9563893 ATAATTATAT
* * * *
9563903 TTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATTTC
1 TTAAATATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTACTTAATTCAATATTTA
* ** * ** *
9563968 CTTTGAAAGATTTAATTCTTTCCTTATATTTCCTTTAAAATATTTAATTAAATAATTATATTTAA
66 CTTTGAAAGATTTAATTATTTAATTAAATTTAATTTAAAATATATAATTAAATAATTATATTTAA
9564033 TTCTTTAATTAGGTTTCC
131 TTCTTTAATTAGGTTTCC
* ** * * ** **
9564051 TTAAATATTTAATTATGTTTAATTAAATCTTTCCTTATAAATAGTCTTACTTCCTTCCCTATTTA
1 TTAAATATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTACTTAATTCAATATTTA
* *
9564116 TTTTGAAAGATTTAATTATTTAATTAAATTTAATTTAAAATATATAATTAAATAATTATTTTTAA
66 CTTTGAAAGATTTAATTATTTAATTAAATTTAATTTAAAATATATAATTAAATAATTATATTTAA
9564181 TT
131 TT
9564183 ATAAAAAACA
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
148 110 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (148 bp):
TTAAATATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTACTTAATTCAATATTTA
CTTTGAAAGATTTAATTATTTAATTAAATTTAATTTAAAATATATAATTAAATAATTATATTTAA
TTCTTTAATTAGGTTTCC
Found at i:9564076 original size:22 final size:22
Alignment explanation
Indices: 9564036--9564078 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9564026 TATTTAATTC
**
9564036 TTTAATTAGGTTTCCTTAAATA
1 TTTAATTAGGTTTAATTAAATA
*
9564058 TTTAATTATGTTTAATTAAAT
1 TTTAATTAGGTTTAATTAAAT
9564079 CTTTCCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTAATTAGGTTTAATTAAATA
Found at i:9570026 original size:15 final size:15
Alignment explanation
Indices: 9570006--9570038 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9569996 ATTTGAAGTT
9570006 ATTGGTTGGATTTGA
1 ATTGGTTGGATTTGA
9570021 ATTGGTTGGATTTGA
1 ATTGGTTGGATTTGA
9570036 ATT
1 ATT
9570039 TACAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGA
Found at i:9570150 original size:43 final size:43
Alignment explanation
Indices: 9570102--9570371 Score: 355
Period size: 43 Copynumber: 6.3 Consensus size: 43
9570092 AATCTGTTAA
* *
9570102 TTTAGCGGCGTTTGTGGGAAAAGC-CTCGTTAAAGAACATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-CGCTAAAGAACATGGTC
* * *
9570145 TTTAGCGGTGTTTGTGGGAAAAGCGCCGTTAAAGAACACGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
* * * * * *
9570188 TTTAGCAGCGTTTGTGGGAGAAGCTCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
* *
9570231 TTTAGCGGTGTTTGTGGGAAAAGTGCCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
*
9570274 TTTAG-GGCGTTTTTGGGAAAAGCGCCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
* * *
9570316 TTTCGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
*
9570359 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
9570372 TTTCACATAA
Statistics
Matches: 196, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 38 0.19
43 157 0.80
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTC
Found at i:9570332 original size:128 final size:129
Alignment explanation
Indices: 9570102--9570371 Score: 382
Period size: 128 Copynumber: 2.1 Consensus size: 129
9570092 AATCTGTTAA
* * *
9570102 TTTAGCGGCGTTTGTGGGAAAAGCCTCGTTAAAGAACATGGTTTTTAGCGGTGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCCTCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
9570167 GCGCCGTTAAAGAACACGGTCTTTAGCAGCGTTTGTGGGAGAAGCTCCACTAAAGACCATGTTC
66 GCGCCGCTAAAGAACACGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTC
* * *
9570231 TTTAGCGGTGTTTGTGGGAAAAGTGC-CGCTAAAGAACATGGTCTTTAG-GGCGTTTTTGGGAAA
1 TTTAGCGGCGTTTGTGGGAAAAG-CCTCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGGAAA
* * * * *
9570294 AGCGCCGCTAAAGAACATGGTCTTTCGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
65 AGCGCCGCTAAAGAACACGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTC
*
9570359 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
9570372 TTTCACATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
128 81 0.65
129 42 0.34
130 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (129 bp):
TTTAGCGGCGTTTGTGGGAAAAGCCTCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGGAAAA
GCGCCGCTAAAGAACACGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTC
Found at i:9581962 original size:8 final size:7
Alignment explanation
Indices: 9581944--9582002 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
9581934 ATTTCACCCA
*
9581944 AAAAAAT
1 AAAAAAG
9581951 AAAAAAGG
1 AAAAAA-G
9581959 AAAAAAG
1 AAAAAAG
9581966 --AAAAG
1 AAAAAAG
9581971 -AAAAAG
1 AAAAAAG
9581977 AAAAGAA-
1 AAAA-AAG
9581984 AAAGAAAG
1 AAA-AAAG
9581992 AAAAAAG
1 AAAAAAG
9581999 AAAA
1 AAAA
9582003 GAGAGAGGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
5 5 0.11
6 5 0.11
7 23 0.51
8 12 0.27
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:9581969 original size:5 final size:5
Alignment explanation
Indices: 9581961--9582004 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
9581951 AAAAAAGGAA
*
9581961 AAAAG AAAAG AAAAAG AAAAG AAAAAG AAAGAA AAAAG AAAAG A
1 AAAAG AAAAG -AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG A
9582005 GAGAGGTCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 20 0.59
6 14 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:9581976 original size:11 final size:11
Alignment explanation
Indices: 9581960--9582004 Score: 74
Period size: 11 Copynumber: 4.1 Consensus size: 11
9581950 TAAAAAAGGA
9581960 AAAAAGAAAAG
1 AAAAAGAAAAG
9581971 AAAAAGAAAAG
1 AAAAAGAAAAG
9581982 AAAAAG-AAAG
1 AAAAAGAAAAG
9581992 AAAAAAGAAAAG
1 -AAAAAGAAAAG
9582004 A
1 A
9582005 GAGAGGTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.12
11 24 0.75
12 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:9581988 original size:6 final size:6
Alignment explanation
Indices: 9581960--9582002 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
9581950 TAAAAAAGGA
*
9581960 AAAAAG -AAAAG AAAAAG -AAAAG AAAAAG AAAGA- AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
9582003 GAGAGAGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 14 0.44
6 18 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:9583018 original size:50 final size:50
Alignment explanation
Indices: 9582964--9583442 Score: 448
Period size: 50 Copynumber: 9.7 Consensus size: 50
9582954 GAAGGAAAAA
* * **
9582964 GTTGAGGCCGCAATGACGAACCCAATACCTTAGAAGATGTGATGGGAAAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
** * *
9583014 GTTGAGGCCGCAGCGGTAAACTCGGTACCTTAGAAGATGTGATGGGAAAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * * * *
9583064 GTTAAGGCCGTAATGACGAACCCGATACCTTAGAAGATGTGATGGGAAAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * * * * * *
9583114 ATTGAGGCCGCAATGGCGAATCCAGTACCAT-GAAGATATGAAGGGAAAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * * *
9583163 GTTGAGGCCACAACGGCAAACCCGATACCAT-GAAGATGTGATGGGAAAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
** * *
9583212 GTTGAGGCCGCAATGATAAACCCGGTACCTTAAAAGATGTAATGGG-AAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * ** * * ** *
9583261 GATTGAAGCCTCAATGGTGAATCCGGTACCATA-AAGACATGAAGGGAAAG
1 G-TTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * **
9583311 GTTGAGGCCGCAACGGTAAACCCATTACCTTAGAAGATGTGATGGG-AAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* * * * * * *
9583360 GATTAAGGTCGCAACGGCGAATCTGGTACCAT-GAAGATGTGATGGGAAAG
1 G-TTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
* *
9583410 GTTGAGGCCGCAAAGGCAAACCCGATACCTTAG
1 GTTGAGGCCGCAATGGCAAACCCGGTACCTTAG
9583443 GAACATGAAG
Statistics
Matches: 340, Mismatches: 82, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
49 157 0.46
50 183 0.54
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (50 bp):
GTTGAGGCCGCAATGGCAAACCCGGTACCTTAGAAGATGTGATGGGAAAG
Found at i:9583220 original size:148 final size:149
Alignment explanation
Indices: 9582961--9583422 Score: 565
Period size: 148 Copynumber: 3.1 Consensus size: 149
9582951 TATGAAGGAA
* * * * * *
9582961 AAAG-TTGAGGCCGCAATGACGAACCCAATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGC
1 AAAGATTGAGGCCGCAATGGCGAATCCAGTACCAT-GAAGATATGAAGGGAAAGGTTGAGGCCGC
* * * * *
9583025 AGCGGTAAACTCGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGTAATGACGAACCCGAT
65 AACGGTAAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGCAATGACGAACCCGGT
9583090 ACCTTAGAAGATGTGATGGG
130 ACCTTAGAAGATGTGATGGG
*
9583110 AAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCACA
1 AAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCA
* * * **
9583175 ACGGCAAACCCGATACCAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAATGATAAACCCGGTA
66 ACGGTAAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGCAATGACGAACCCGGTA
* *
9583239 CCTTAAAAGATGTAATGGG
131 CCTTAGAAGATGTGATGGG
* * * * * * *
9583258 AAGGATTGAAGCCTCAATGGTGAATCCGGTACCATAAAGACATGAAGGGAAAGGTTGAGGCCGCA
1 AAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCA
* * * * *
9583323 ACGGTAAACCC-ATTACCTTAGAAGATGTGATGGG-AAGGATTAAGGTCGCAACGGCGAATCTGG
66 ACGGTAAACCCGA-TACCTTAGAAGATGTGATGGGAAAGG-TTAAGGCCGCAATGACGAACCCGG
*
9583386 TACCAT-GAAGATGTGATGGG
129 TACCTTAGAAGATGTGATGGG
*
9583406 AAAGGTTGAGGCCGCAA
1 AAAGATTGAGGCCGCAA
9583423 AGGCAAACCC
Statistics
Matches: 265, Mismatches: 44, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
147 1 0.00
148 158 0.60
149 80 0.30
150 26 0.10
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (149 bp):
AAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCA
ACGGTAAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGCAATGACGAACCCGGTA
CCTTAGAAGATGTGATGGG
Found at i:9583377 original size:198 final size:198
Alignment explanation
Indices: 9582943--9583441 Score: 522
Period size: 198 Copynumber: 2.5 Consensus size: 198
9582933 ACCAAGGAAA
* * * * * * * * * *
9582943 CATGAAAATATGAAGGAAAAAGTTGAGGCCGCAATGACGAACCCAATACCTTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTAAGGCCACAACGGCAAACCCGATACCAT-GAAGATGTGATG
** * * *
9583008 GGAAAGGTTGAGGCCGCAGCGGTAAACTCGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGGCC
65 GGAAAGGTTGAGGCCGCAAAGGTAAACCCGGTACCTTAAAAGATGTAATGGGAAAGGTTAAGGCC
* ** * * * *
9583073 GTAATGACGAACCCGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCA
130 GTAATGACGAACCCGATACCATAGAAGACATGAAGGGAAAGATTGAGGCCGCAACGGCAAACCCA
9583138 GTAC
195 GTAC
*
9583142 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATGTGATGG
1 CATGAAGATATGAAGGGAAAGGTTAAGGCCACAACGGCAAACCCGATACCATGAAGATGTGATGG
* *
9583207 GAAAGGTTGAGGCCGCAATGATAAACCCGGTACCTTAAAAGATGTAATGGG-AAGGATTGAA-GC
66 GAAAGGTTGAGGCCGCAAAGGTAAACCCGGTACCTTAAAAGATGTAATGGGAAAGG-TT-AAGGC
** * * * *
9583270 C-TCAATGGTGAATCCGGTACCATA-AAGACATGAAGGGAAAGGTTGAGGCCGCAACGGTAAACC
129 CGT-AATGACGAACCCGATACCATAGAAGACATGAAGGGAAAGATTGAGGCCGCAACGGCAAACC
*
9583333 CATTAC
193 CAGTAC
* * * * * * * * *
9583339 CTTAGAAGATGTGATGGG-AAGGATTAAGGTCGCAACGGCGAATCTGGTACCATGAAGATGTGAT
1 CAT-GAAGATATGAAGGGAAAGG-TTAAGGCCACAACGGCAAACCCGATACCATGAAGATGTGAT
* *
9583403 GGGAAAGGTTGAGGCCGCAAAGGCAAACCCGATACCTTA
64 GGGAAAGGTTGAGGCCGCAAAGGTAAACCCGGTACCTTA
9583442 GGAACATGAA
Statistics
Matches: 252, Mismatches: 43, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
197 47 0.19
198 160 0.63
199 45 0.18
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (198 bp):
CATGAAGATATGAAGGGAAAGGTTAAGGCCACAACGGCAAACCCGATACCATGAAGATGTGATGG
GAAAGGTTGAGGCCGCAAAGGTAAACCCGGTACCTTAAAAGATGTAATGGGAAAGGTTAAGGCCG
TAATGACGAACCCGATACCATAGAAGACATGAAGGGAAAGATTGAGGCCGCAACGGCAAACCCAG
TAC
Found at i:9583442 original size:99 final size:99
Alignment explanation
Indices: 9582968--9583442 Score: 467
Period size: 99 Copynumber: 4.8 Consensus size: 99
9582958 GAAAAAGTTG
* * * * *
9582968 AGGCCGCAATGACGAACCCAATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAGCGGTAA
1 AGGCCGCAACGGCGAACCCGATACCAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAA
* *
9583033 ACTCGGTACCTTAGAAGATGTGATGGGAAAGGTTA
65 ACCCGATACCTTAGAAGATGTGATGGGAAAGGTTA
* * * * * * **
9583068 AGGCCGTAATGACGAACCCGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGA
1 AGGCCGCAACGGCGAACCCGATACCAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAA
* * * * *
9583133 ATCC-AGTACCAT-GAAGATATGAAGGGAAAGGTTG
65 ACCCGA-TACCTTAGAAGATGTGATGGGAAAGGTTA
* * * *
9583167 AGGCCACAACGGCAAACCCGATACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAATGATAAA
1 AGGCCGCAACGGCGAACCCGATACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAA
* * *
9583232 CCCGGTACCTTAAAAGATGTAATGGG-AAGGATTGA
66 CCCGATACCTTAGAAGATGTGATGGGAAAGG-TT-A
* * * * * * ** *
9583267 A-GCCTCAATGGTGAATCCGGTACCATAAAGACATGAAGGGAAAGGTTGAGGCCGCAACGGTAAA
1 AGGCCGCAACGGCGAACCCGATACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAA
9583331 CCC-ATTACCTTAGAAGATGTGATGGG-AAGGATTA
66 CCCGA-TACCTTAGAAGATGTGATGGGAAAGG-TTA
* * * * * *
9583365 AGGTCGCAACGGCGAATCTGGTACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAAAGGCAAA
1 AGGCCGCAACGGCGAACCCGATACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAA
9583430 CCCGATACCTTAG
66 CCCGATACCTTAG
9583443 GAACATGAAG
Statistics
Matches: 309, Mismatches: 58, Indels: 17
0.80 0.15 0.04
Matches are distributed among these distances:
98 47 0.15
99 195 0.63
100 67 0.22
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (99 bp):
AGGCCGCAACGGCGAACCCGATACCATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAA
CCCGATACCTTAGAAGATGTGATGGGAAAGGTTA
Found at i:9583609 original size:39 final size:39
Alignment explanation
Indices: 9583555--9584048 Score: 498
Period size: 39 Copynumber: 12.5 Consensus size: 39
9583545 AGTTACATCA
** *
9583555 CCATCCAATCTCTTACCCTAATCATGGGGCAGATTGCAG
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
9583594 CCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCAG
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
9583633 CTATCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCAG
1 C---CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
*
9583675 CCATCATCTAATCTCTTACCCCGATCATTGGGCAGATTGAAG
1 CCATC--C-AATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
9583717 CTATCAAATCTCTTACCCCGATCATGGGGCAGATTGAAG
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
*
9583756 -AATCCAATCTCTTACCCTC-ATCA-GAGGGCAGATTGAAG
1 CCATCCAATCTCTTACCC-CGATCATG-GGGCAGATTGAAG
* *
9583794 ACAATCCAATCTCTTACCCCGATCATGGGGAAGATTGAAG
1 -CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * * *
9583834 ACAATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAG
1 -CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* ** * * *
9583874 -CATCCAATCTCATACCCTAATCATAGGGCATAGTGACA-
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-AG
* * * *
9583912 TCATCCAATCTCTTACCCGGATTATGGGGTAGATTGAAG
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
9583951 -CATCCAATCTCTTA-CCCGATCATGGGGTAAATTGAAG
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
**
9583988 ACATCATCCAATCTCTTACCCCGATCATTAGGCAGATTGAAG
1 -C--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
** * *
9584030 TTATCTAATCTTTTACCCC
1 CCATCCAATCTCTTACCCC
9584049 TAAAATCAAG
Statistics
Matches: 393, Mismatches: 42, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
37 21 0.05
38 74 0.19
39 119 0.30
40 71 0.18
41 16 0.04
42 92 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
Found at i:9583827 original size:33 final size:36
Alignment explanation
Indices: 9583596--9584015 Score: 171
Period size: 42 Copynumber: 10.6 Consensus size: 36
9583586 GATTGCAGCC
*
9583596 ATCCAATCTCTTACCCCGATCATGGGGCAGATCGCAG-CTA
1 ATCCAATCTCTTACCCCGATCAT-GGG-AG-T-GAAGAC-A
* *
9583636 TCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCAGCCA
1 --ATCCAATCTCTTACCCCGATCAT-GGG-AG-T-GAAGACA
* *
9583678 TCATCTAATCTCTTACCCCGATCATTGGGCAGATTGAAG-CT
1 --ATCCAATCTCTTACCCCGATCA-TGGG-AG--TGAAGACA
*
9583719 ATCAAATCTCTTACCCCGATCATGGGGCAGATTGAAG--A
1 ATCCAATCTCTTACCCCGATCAT-GGG-AG--TGAAGACA
*
9583757 ATCCAATCTCTTACCCTC-ATCAGAGGGCAGATTGAAGACA
1 ATCCAATCTCTTACCC-CGATCA-TGGG-AG--TGAAGACA
9583797 ATCCAATCTCTTACCCCGATCATGGGGAAGATTGAAGACA
1 ATCCAATCTCTTACCCCGATCAT-GGG-AG--TGAAGACA
* *
9583837 ATCCAATCTCTTACCCCGATCATGGGGAAAATTAA-AGC-
1 ATCCAATCTCTTACCCCGATCAT-GGG--AGTGAAGA-CA
* ** *
9583875 ATCCAATCTCATACCCTAATCATAGGGCA-T-AGTGACA
1 ATCCAATCTCTTACCCCGATCAT-GGG-AGTGA-AGACA
* *
9583912 TCATCCAATCTCTTACCCGGATTATGGGGTAGATTGAAG-C-
1 --ATCCAATCTCTTACCCCGATCAT-GGG-AG--TGAAGACA
*
9583952 ATCCAATCTCTTA-CCCGATCATGGGGTAAATTGAAGACA
1 ATCCAATCTCTTACCCCGATCAT-GGG---AGTGAAGACA
9583991 TCATCCAATCTCTTACCCCGATCAT
1 --ATCCAATCTCTTACCCCGATCAT
9584016 TAGGCAGATT
Statistics
Matches: 321, Mismatches: 29, Indels: 56
0.79 0.07 0.14
Matches are distributed among these distances:
35 1 0.00
36 2 0.01
37 18 0.06
38 71 0.22
39 64 0.20
40 63 0.20
41 17 0.05
42 81 0.25
43 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (36 bp):
ATCCAATCTCTTACCCCGATCATGGGAGTGAAGACA
Found at i:9583939 original size:77 final size:78
Alignment explanation
Indices: 9583595--9584015 Score: 250
Period size: 77 Copynumber: 5.3 Consensus size: 78
9583585 AGATTGCAGC
* * * * * * *
9583595 CATCCAATCTCTTACCCCGATCATGGGGCAGATCGCAGCTATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGAAAAT--TA--AAGCATCCAATCTCATA-CCCAATCA
* * * * *
9583660 TGGGGCAGATCGCAGCCAT
61 TAGGG-AAATAGAAGACAT
* * * * * * * * *
9583679 CATCTAATCTCTTACCCCGATCATTGGGCAGATTGAAGCTATCAAATCTCTTACCCCGATCATGG
1 CATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAGC-ATCCAATCTCATA-CCCAATCATAG
* *
9583744 GGCAGATTGAAG--A-
64 GG-AAATAGAAGACAT
* * * * *
9583757 -ATCCAATCTCTTACCCTC-ATCA-GAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCC-CGATCATG-GGGAAAATTAAAG-C-ATCCAATCTCATA-CCCAATCA
* *
9583819 TGGGGAAGATTGAAGACA-
61 TAGGGAA-ATAGAAGACAT
9583837 -ATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAGCATCCAATCTCATACCCTAATCATAGG
1 CATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAGCATCCAATCTCATACCC-AATCATAGG
* *
9583901 G-CATAG-TGACAT
65 GAAATAGAAGACAT
* * * * * * * *
9583913 CATCCAATCTCTTACCCGGATTATGGGGTAGATTGAAGCATCCAATCTCTTACCCGATCATGGGG
1 CATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAGCATCCAATCTCATACCCAATCATAGGG
*
9583978 TAAATTGAAGACAT
66 -AAATAGAAGACAT
9583992 CATCCAATCTCTTACCCCGATCAT
1 CATCCAATCTCTTACCCCGATCAT
9584016 TAGGCAGATT
Statistics
Matches: 286, Mismatches: 36, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
75 4 0.01
76 11 0.04
77 84 0.29
78 58 0.20
79 30 0.10
80 33 0.12
81 35 0.12
84 31 0.11
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (78 bp):
CATCCAATCTCTTACCCCGATCATGGGGAAAATTAAAGCATCCAATCTCATACCCAATCATAGGG
AAATAGAAGACAT
Found at i:9584046 original size:118 final size:120
Alignment explanation
Indices: 9583556--9584048 Score: 503
Period size: 118 Copynumber: 4.2 Consensus size: 120
9583546 GTTACATCAC
** * *
9583556 CATCCAATCTCTTACCCTAATCATGGGGCAGATTGCAG-CCATCCAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
* * * * *
9583620 GGGCAGATCGCAGCTATCATCCAATCTCTTACCCCGATCATG-GGGCAGATCGCAGCCAT
66 GGGCAAATTGAAG--ATCATCCAATCTCTTACCCCGATCA-GAGGGCAGATTGAAG--AT
* * * *
9583679 CATCTAATCTCTTACCCCGATCATTGGGCAGATTGAAG-CTATCAAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
*
9583743 GGGCAGATTGAAGA--ATCCAATCTCTTACCCTC-ATCAGAGGGCAGATTGAAGA-
66 GGGCAAATTGAAGATCATCCAATCTCTTACCC-CGATCAGAGGGCAGATTGAAGAT
*
9583795 CAATCCAATCTCTTACCCCGATCATGGGGAAGATTGAAGACAATCCAATCTCTTACCCCGATCAT
1 C-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCAT
* * * ** * * * *
9583860 GGGGAAAATT-AA-AGCATCCAATCTCATACCCTAATCATAGGGCATAGTG-ACAT
65 GGGGCAAATTGAAGATCATCCAATCTCTTACCCCGATCAGAGGGCAGATTGAAGAT
* * *
9583913 CATCCAATCTCTTACCCGGATTATGGGGTAGATTGAAG-C-ATCCAATCTCTTA-CCCGATCATG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
* *
9583975 GGGTAAATTGAAGACATCATCCAATCTCTTACCCCGATCATTA-GGCAGATTGAAG-T
66 GGGCAAATTGAAG--ATCATCCAATCTCTTACCCCGATCA-GAGGGCAGATTGAAGAT
* * *
9584031 TATCTAATCTTTTACCCC
1 CATCCAATCTCTTACCCC
9584049 TAAAATCAAG
Statistics
Matches: 317, Mismatches: 39, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
114 18 0.06
115 15 0.05
116 3 0.01
117 73 0.23
118 104 0.33
119 34 0.11
120 1 0.00
121 1 0.00
123 68 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (120 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
GGGCAAATTGAAGATCATCCAATCTCTTACCCCGATCAGAGGGCAGATTGAAGAT
Found at i:9584947 original size:11 final size:11
Alignment explanation
Indices: 9584931--9584966 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9584921 TTAACCCACG
9584931 AAAATACAAAA
1 AAAATACAAAA
9584942 AAAATACAAAA
1 AAAATACAAAA
**
9584953 TCAATACAAAA
1 AAAATACAAAA
9584964 AAA
1 AAA
9584967 GGAGCATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:9585974 original size:30 final size:29
Alignment explanation
Indices: 9585877--9586018 Score: 112
Period size: 30 Copynumber: 4.8 Consensus size: 29
9585867 TTGACCCCCG
* * * *
9585877 AACTTCCTAAAAATTTGATTTTAACCCCTA
1 AACTTTCTAAAAA-TTCATTTTGACTCCTA
* * *
9585907 AACTATCTAAAAATTTGATTTTAACT-CTCA
1 AACTTTCTAAAAA-TTCATTTTGACTCCT-A
* *
9585937 AATTTTCTAAAAATTACAATTTGACTCCTA
1 AACTTTCTAAAAATT-CATTTTGACTCCTA
9585967 AACTTTCTAAAAACTTCATTTTGAC-CC-A
1 AACTTTCTAAAAA-TTCATTTTGACTCCTA
9585995 AACTTTC-AAAGAATTGCATTTTGA
1 AACTTTCTAAA-AATT-CATTTTGA
9586019 TACCCAAAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.05
28 18 0.19
29 6 0.06
30 63 0.66
31 4 0.04
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTCTAAAAATTCATTTTGACTCCTA
Found at i:9586014 original size:28 final size:29
Alignment explanation
Indices: 9585877--9586037 Score: 89
Period size: 30 Copynumber: 5.4 Consensus size: 29
9585867 TTGACCCCCG
* * * * *
9585877 AACTTCCTAAAAATTTGATTTTAACCCCTA
1 AACTTTCTAAAAACTTCATTTTGA-CCCAA
* * * *
9585907 AACTATCTAAAAATTTGATTTTAACTCTC-A
1 AACTTTCTAAAAACTTCATTTTGAC-C-CAA
* * *
9585937 AATTTTCTAAAAA-TTACAATTTGACTCCTA
1 AACTTTCTAAAAACTT-CATTTTGAC-CCAA
9585967 AACTTTCTAAAAACTTCATTTTGACCC-A
1 AACTTTCTAAAAACTTCATTTTGACCCAA
9585995 AACTTTC-AAAGAA-TTGCATTTTGATACCCAA
1 AACTTTCTAAA-AACTT-CATTTTG--ACCCAA
*
9586026 AACTTTCCAAAA
1 AACTTTCTAAAA
9586038 TTTTAATTTG
Statistics
Matches: 111, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
27 5 0.05
28 17 0.15
29 6 0.05
30 68 0.61
31 12 0.11
32 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36
Consensus pattern (29 bp):
AACTTTCTAAAAACTTCATTTTGACCCAA
Found at i:9586650 original size:104 final size:107
Alignment explanation
Indices: 9586500--9586784 Score: 276
Period size: 109 Copynumber: 2.7 Consensus size: 107
9586490 TGTTTCTTTA
* * * * * * *
9586500 TTTAGGAAACTTGAAAAATTGTG-CTCAAACGTATTGGGTACGATTTTTCTTCGAACCTAAGTAA
1 TTTAGGGAACTCGAAAAATTATGTC-CTAACGTGTTGGGTATGATTTTTCTT-GAACCTAAATAA
* * *
9586564 TTGAATATCTTATTC-AA-AAATCGA-G-GCAATGTTCTT-TTAT
64 TTGAATATCCTATTCGAACAAATCAATGCGCAATATT-TTGTTAT
* ** * * *
9586604 TTTAGGGAAGTCGAGGAATTATGTCTTAATGTGTTGGGTATGATTTTTGTTTGAACCTAAATAAT
1 TTTAGGGAACTCGAAAAATTATGTCCTAACGTGTTGGGTATGATTTTT-CTTGAACCTAAATAAT
* * *
9586669 TGAATATCCTATTCGGAACCAATTAATGCTCAATATTTTGTTAT
65 TGAATATCCTATTC-GAACAAATCAATGCGCAATATTTTGTTAT
* *
9586713 TTTAGGGGACTCGAAAAATTATGTCCTAACGTGTTGGGTATGATTTTGCCTTGAACCTAAATAAT
1 TTTAGGGAACTCGAAAAATTATGTCCTAACGTGTTGGGTATGATTTT-TCTTGAACCTAAATAAT
*
9586778 CGAATAT
65 TGAATAT
9586785 TTTGTTTAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
104 60 0.42
105 3 0.02
106 2 0.01
107 4 0.03
108 3 0.02
109 72 0.50
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (107 bp):
TTTAGGGAACTCGAAAAATTATGTCCTAACGTGTTGGGTATGATTTTTCTTGAACCTAAATAATT
GAATATCCTATTCGAACAAATCAATGCGCAATATTTTGTTAT
Found at i:9589366 original size:16 final size:15
Alignment explanation
Indices: 9589334--9589363 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9589324 ATATTTAATA
9589334 ATTTATACATTTTTT
1 ATTTATACATTTTTT
9589349 ATTTATACATTTTTT
1 ATTTATACATTTTTT
9589364 TATATTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATACATTTTTT
Done.