Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 147 of 206
Found at i:44731179 original size:84 final size:84
Alignment explanation
Indices: 44731075--44731230 Score: 294
Period size: 84 Copynumber: 1.9 Consensus size: 84
44731065 CAAAGGATCC
* *
44731075 CGGTGGAATGAGCACTTAGCAACCACCTTATAATCAATGATACGGGTAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
44731140 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
44731159 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
44731224 CCTTTCA
66 CCTTTCA
44731231 TTCATAGAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:44733386 original size:27 final size:27
Alignment explanation
Indices: 44733338--44733392 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
44733328 AAGGAGGCTT
44733338 GCAGATTGTCCATCTGTAAGAATGTTG
1 GCAGATTGTCCATCTGTAAGAATGTTG
* * *
44733365 GCAGATTGTCTATGTGTGAGAATGTTG
1 GCAGATTGTCCATCTGTAAGAATGTTG
44733392 G
1 G
44733393 TGGACTGTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.35
Consensus pattern (27 bp):
GCAGATTGTCCATCTGTAAGAATGTTG
Found at i:44733578 original size:41 final size:39
Alignment explanation
Indices: 44733533--44733637 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 39
44733523 AAACAGGCTT
**
44733533 TTAGCGGCGTTTGGACAAAAAATGCCGAC-AAAAATCGAGCA
1 TTAGCGGCGTTT-TTCAAAAAATGCCG-CTAAAAAT-GAGCA
* *
44733574 TTAGCGGCGTTTTTCAAAAAACGTCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTCAAAAAATGCCGCTAAAAATGAGCA
*
44733613 TTAGCGGAGTTTTTCAAAAAATGCC
1 TTAGCGGCGTTTTTCAAAAAATGCC
44733638 CCAAAAAACC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 28 0.50
40 16 0.29
41 12 0.21
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGTTTTTCAAAAAATGCCGCTAAAAATGAGCA
Found at i:44733739 original size:41 final size:41
Alignment explanation
Indices: 44733679--44733911 Score: 288
Period size: 41 Copynumber: 5.7 Consensus size: 41
44733669 CTGACCTTTC
* * *
44733679 GGGGCTTTAGCGGCGTTTTTCAAAAAACGTCGCTAATGGTT
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
* * * * *
44733720 GGGGCTTTGGCGGCATTTTTCAAAAAGCGCCGCTAATTCTC
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
* * *
44733761 GGGGATTTAGCAGCGTTTTTGAAAAAGCGTCGCTAATGCTA
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
* *
44733802 GTGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTA
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
* * * * *
44733843 GAGGCTTTAGCGGCGTTTCTGAAAAAGCGCCACTAATGC-A
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
*
44733883 GGGGCTTTAGCGGCGTTTTTGAAAAAGCG
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCG
44733912 CCGTTAAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 28 0.17
41 140 0.83
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTA
Found at i:44734301 original size:14 final size:15
Alignment explanation
Indices: 44734266--44734302 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
44734256 TATTTTAAGG
44734266 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
44734281 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
44734296 -TTAGGGA
1 TTTAGGGA
44734303 TTCTGGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.41, T:0.32
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:44734372 original size:15 final size:15
Alignment explanation
Indices: 44734331--44734368 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
44734321 GATTTAAGGT
44734331 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGACG
44734345 TTATGGGGTTAAGA-G
1 TTA-GGGGTTAAGACG
44734360 TTAGGGGTT
1 TTAGGGGTT
44734369 TAAGGTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.34
Consensus pattern (15 bp):
TTAGGGGTTAAGACG
Found at i:44734378 original size:15 final size:13
Alignment explanation
Indices: 44734324--44734380 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 13
44734314 GGGTTGAGAT
44734324 TTAAGGTTTAGGGG
1 TTAAGG-TTAGGGG
*
44734338 TTAGACGTTATGGGG
1 TTA-AGGTTA-GGGG
44734353 TTAAGAGTTAGGGG
1 TTAAG-GTTAGGGG
44734367 TTTAAGGTTTAGGG
1 -TTAAGG-TTAGGG
44734381 ATTCAAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 12 0.33
15 24 0.67
ACGTcount: A:0.23, C:0.02, G:0.40, T:0.35
Consensus pattern (13 bp):
TTAAGGTTAGGGG
Found at i:44734529 original size:14 final size:14
Alignment explanation
Indices: 44734510--44734548 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44734500 ATGATTTTAG
44734510 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
44734524 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
44734538 TTTAAGGTTTA
1 TTTAGGGTTTA
44734549 AGGTTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:44734671 original size:7 final size:7
Alignment explanation
Indices: 44734661--44734687 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44734651 GGGTTTAGGG
44734661 TTTATGT
1 TTTATGT
44734668 TTTATGT
1 TTTATGT
44734675 TTTATGT
1 TTTATGT
44734682 TTTATG
1 TTTATG
44734688 ATTCAGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (7 bp):
TTTATGT
Found at i:44734829 original size:316 final size:311
Alignment explanation
Indices: 44734104--44734829 Score: 804
Period size: 316 Copynumber: 2.3 Consensus size: 311
44734094 TATGATTACT
* *
44734104 GATTTTTTAATTTATATATTAAAAAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
1 GATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
* * * *
44734169 AATATTGAATTAATTATAACTATAGTTTAGGGTTTTTGGTTTAGGGTATAAGATTAATTTAAGAT
66 AATATTGAA-TAATTATGATTATAGTTTAGGGTTTATGATTTAGGGTAT-A-ATTAATTTAAGAT
* * **
44734234 TTAAGGCCGGTTTAGGAGTTACTATTTTAAGGTTTAGGGAGTATGGATTTAGGGAGTATGGATTA
128 TTAA---CGGTTTAAGAGTTACTATTTTAAAGTTTAGGGAGTATGGATTTAGGGAGTACAGATTA
*
44734299 GGGATTCTGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTTATGGGGTTAAGAGTTAG
190 GGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTTATGGGGTTAAGAGTTAG
* * * * * * *
44734364 GGGTTTAAGGTTTAGGGATTCAAGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTA
255 GGGTTTAAGATTCAGGGATTAAAGGATAGGGTTAGAGTTTAGGGTTTAGATTAATTA
* * *
44734421 G-TTTTTTAATTTATATTTTAAAT-ATGTTATTATATTATTGTAAAAGAGATAGTATTAATTTTA
1 GATTTTTTAATTTATATATTAAATAAT-TTCTTATATAATTGTAAAAGAGATAGTATTAATTTTA
* ** *
44734484 AAATATTGAATTAATTATGATTTTAGTTTAGGGTTTATGATTTAGGGTAT-A-TGGTTTAAGGTT
65 AAATATTGAA-TAATTATGATTATAGTTTAGGGTTTATGATTTAGGGTATAATTAATTTAAGATT
* * * * * *
44734547 TAA-GGTTTAAGAGTTACTATTTTAAAGTTTATGGATTATGGGTTTAGGGATTACAGTTTATGGT
129 TAACGGTTTAAGAGTTACTATTTTAAAGTTTAGGGAGTATGGATTTAGGGAGTACAGATTA-GGG
* * * ** * *
44734611 TTTATTGTTTAAGGGTTGGGATTTAAGGTTTAGGGGTTAGGGGTT-TAGGGTTTATGTTTTATGT
193 ATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTTAT-GGGGTTAAG----A-G-
* * * *
44734675 TTTA-TGTTTTATGATTCAGGGTTTAAAGGATAAGGGTTAAGAGTTTAGGGTTTAGATTAATTA
251 -TTAGGGGTTTAAGATTCAGGGATTAAAGGAT-AGGGTT-AGAGTTTAGGGTTTAGATTAATTA
* *
44734738 GTATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGATATAATATTAATTTTA
1 G-ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTA
*
44734803 ATATATT-AA-AATTATGATTATAGTTTA
65 AAATATTGAATAATTATGATTATAGTTTA
44734830 AATTATTTAA
Statistics
Matches: 345, Mismatches: 49, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
308 49 0.14
309 48 0.14
312 12 0.03
313 2 0.01
314 1 0.00
315 21 0.06
316 124 0.36
317 24 0.07
318 2 0.01
319 60 0.17
320 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (311 bp):
GATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
AATATTGAATAATTATGATTATAGTTTAGGGTTTATGATTTAGGGTATAATTAATTTAAGATTTA
ACGGTTTAAGAGTTACTATTTTAAAGTTTAGGGAGTATGGATTTAGGGAGTACAGATTAGGGATT
ATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTTATGGGGTTAAGAGTTAGGGGTTT
AAGATTCAGGGATTAAAGGATAGGGTTAGAGTTTAGGGTTTAGATTAATTA
Found at i:44738004 original size:27 final size:27
Alignment explanation
Indices: 44737974--44738029 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44737964 AATTTCGAGG
*
44737974 TTTACAATTTT-TAATTTTTATTAATTA
1 TTTAC-ATTTTCTAACTTTTATTAATTA
* *
44738001 TTTACGTTTTCTCACTTTTATTAATTA
1 TTTACATTTTCTAACTTTTATTAATTA
44738028 TT
1 TT
44738030 ATTATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTACATTTTCTAACTTTTATTAATTA
Found at i:44739240 original size:43 final size:43
Alignment explanation
Indices: 44739180--44739270 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
44739170 CTTTGAGTTC
* * *
44739180 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
44739222 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
44739265 ATTACC
1 ATTACC
44739271 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:44739648 original size:24 final size:25
Alignment explanation
Indices: 44739621--44739673 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
44739611 TTTTACGAGA
*
44739621 AGCGTCGCTAAAGGTT-TGTTCTAT
1 AGCGCCGCTAAAGGTTATGTTCTAT
*
44739645 AGCGCCGCTAAAGGTTATGTTCTTT
1 AGCGCCGCTAAAGGTTATGTTCTAT
44739670 AGCG
1 AGCG
44739674 GCATTTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (25 bp):
AGCGCCGCTAAAGGTTATGTTCTAT
Found at i:44739715 original size:27 final size:28
Alignment explanation
Indices: 44739677--44739730 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
44739667 TTTAGCGGCA
44739677 TTTGTGACAAAAGCG-CACTAAAGGTCG
1 TTTGTGACAAAAGCGCCACTAAAGGTCG
* *
44739704 TTTGTGACAAAAGTGCCGCTAAAGGTC
1 TTTGTGACAAAAGCGCCACTAAAGGTC
44739731 ATGATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (28 bp):
TTTGTGACAAAAGCGCCACTAAAGGTCG
Found at i:44745886 original size:415 final size:415
Alignment explanation
Indices: 44745116--44745948 Score: 1621
Period size: 415 Copynumber: 2.0 Consensus size: 415
44745106 TGGATATTTT
44745116 AGCCCAAAACGAAATTTATTTTTCCTCAGCAAATATATACAAAATCTGATATAAAAGGACATATA
1 AGCCCAAAACGAAATTTATTTTTCCTCAGCAAATATATACAAAATCTGATATAAAAGGACATATA
44745181 TCCTAATATTATTTTATTCTAATCAATTTAATTTGATTTTAATCAAATGGATTTAATTACCCCTT
66 TCCTAATATTATTTTATTCTAATCAATTTAATTTGATTTTAATCAAATGGATTTAATTACCCCTT
44745246 TAATGCAAATTTTGTCTCCTTATACATGGATATTTCAAAAAATTCCTCCTCTTTGAATGGCTATA
131 TAATGCAAATTTTGTCTCCTTATACATGGATATTTCAAAAAATTCCTCCTCTTTGAATGGCTATA
*
44745311 AAAGGATAAGACTTCTTTTGAATTATTGCTCAAAAATTTCACTCTCTCAAACCGAGATTATTTTC
196 AAAGGATAAGACTTCTTTTGAATTATTGCTAAAAAATTTCACTCTCTCAAACCGAGATTATTTTC
44745376 TCTCAAAATTCTTTTTTTCCTCTCCATATTTTTCAACGTTTTGGTGATAGAAATAGACAACGTTT
261 TCTCAAAATTCTTTTTTTCCTCTCCATATTTTTCAACGTTTTGGTGATAGAAATAGACAACGTTT
44745441 GTTTGTTGATTGCTACAGAAGTGCTACTGCTTTGATCATCGTGTTGTATCCTGAGAGATAGTCGA
326 GTTTGTTGATTGCTACAGAAGTGCTACTGCTTTGATCATCGTGTTGTATCCTGAGAGATAGTCGA
*
44745506 CCAATGTTTCTCCAAGTACTATAGG
391 CCAATGTTTCTCCAAATACTATAGG
*
44745531 AGCCCAACACGAAATTTATTTTTCCTCAGCAAATATATACAAAATCTGATATAAAAGGACATATA
1 AGCCCAAAACGAAATTTATTTTTCCTCAGCAAATATATACAAAATCTGATATAAAAGGACATATA
44745596 TCCTAATATTATTTTATTCTAATCAATTTAATTTGATTTTAATCAAATGGATTTAATTACCCCTT
66 TCCTAATATTATTTTATTCTAATCAATTTAATTTGATTTTAATCAAATGGATTTAATTACCCCTT
*
44745661 TAATGCAAATTTTGTCTCCTTATACATGGATATTTCCAAAAATTCCTCCTCTTTGAATGGCTATA
131 TAATGCAAATTTTGTCTCCTTATACATGGATATTTCAAAAAATTCCTCCTCTTTGAATGGCTATA
*
44745726 AAAGGCTAAGACTTCTTTTGAATTATTGCTAAAAAATTTCACTCTCTCAAACCGAGATTATTTTC
196 AAAGGATAAGACTTCTTTTGAATTATTGCTAAAAAATTTCACTCTCTCAAACCGAGATTATTTTC
44745791 TCTCAAAATTCTTTTTTTCCTCTCCATATTTTTCAACGTTTTGGTGATAGAAATAGACAACGTTT
261 TCTCAAAATTCTTTTTTTCCTCTCCATATTTTTCAACGTTTTGGTGATAGAAATAGACAACGTTT
44745856 GTTTGTTGATTGCTACAGAAGTGCTACTGCTTTGATCATCGTGTTGTATCCTGAGAGATAGTCGA
326 GTTTGTTGATTGCTACAGAAGTGCTACTGCTTTGATCATCGTGTTGTATCCTGAGAGATAGTCGA
44745921 CCAATGTTTCTCCAAATACTATAGG
391 CCAATGTTTCTCCAAATACTATAGG
44745946 AGC
1 AGC
44745949 AGCCAAATCT
Statistics
Matches: 413, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
415 413 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (415 bp):
AGCCCAAAACGAAATTTATTTTTCCTCAGCAAATATATACAAAATCTGATATAAAAGGACATATA
TCCTAATATTATTTTATTCTAATCAATTTAATTTGATTTTAATCAAATGGATTTAATTACCCCTT
TAATGCAAATTTTGTCTCCTTATACATGGATATTTCAAAAAATTCCTCCTCTTTGAATGGCTATA
AAAGGATAAGACTTCTTTTGAATTATTGCTAAAAAATTTCACTCTCTCAAACCGAGATTATTTTC
TCTCAAAATTCTTTTTTTCCTCTCCATATTTTTCAACGTTTTGGTGATAGAAATAGACAACGTTT
GTTTGTTGATTGCTACAGAAGTGCTACTGCTTTGATCATCGTGTTGTATCCTGAGAGATAGTCGA
CCAATGTTTCTCCAAATACTATAGG
Found at i:44751358 original size:41 final size:41
Alignment explanation
Indices: 44751284--44751391 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
44751274 CACCGGCTTA
* * * * * * *
44751284 AAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCA-C
1 AAGCCTGCTAGACATAAAGCCTGAAATAATTCACCGACATC
*
44751324 AAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGACATC
1 -AAGCCTGCTAGACATAAAGCCTGAAATAATTCACCGACATC
* * *
44751366 AAGTCTGCTAGGCATTAAGCCTGAAA
1 AAGCCTGCTAGACATAAAGCCTGAAA
44751392 ATCTCAGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 53 0.98
42 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGCCTGAAATAATTCACCGACATC
Found at i:44759385 original size:15 final size:16
Alignment explanation
Indices: 44759360--44759389 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44759350 TGTTCGCTCA
44759360 ACTTAGCCATTCGCGT
1 ACTTAGCCATTCGCGT
44759376 ACTT-GCCATTCGCG
1 ACTTAGCCATTCGCG
44759390 AAGTTTACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (16 bp):
ACTTAGCCATTCGCGT
Found at i:44763614 original size:25 final size:24
Alignment explanation
Indices: 44763566--44763615 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
44763556 ATCTAATAAT
*
44763566 ACCCAAACCCGAAACAAACCCTAA
1 ACCCAAACCCGAAACAAAACCTAA
* *
44763590 ACCCAAACCCGATTACAAAATCTAA
1 ACCCAAACCCGA-AACAAAACCTAA
44763615 A
1 A
44763616 ATACCTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.50, C:0.36, G:0.04, T:0.10
Consensus pattern (24 bp):
ACCCAAACCCGAAACAAAACCTAA
Found at i:44765215 original size:14 final size:15
Alignment explanation
Indices: 44765196--44765241 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
44765186 TATAATTTTG
44765196 TATTTTTATATAA-A
1 TATTTTTATATAATA
*
44765210 TATTTTTATAGAATA
1 TATTTTTATATAATA
44765225 TCA-TTTTATAT-ATA
1 T-ATTTTTATATAATA
44765239 TAT
1 TAT
44765242 ACAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 16 0.59
15 9 0.33
16 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTTTTATATAATA
Found at i:44765271 original size:16 final size:16
Alignment explanation
Indices: 44765250--44765288 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
44765240 ATACAATTTT
44765250 TTTATTTTATATATAA
1 TTTATTTTATATATAA
* *
44765266 TTTATTCTATATGTAA
1 TTTATTTTATATATAA
44765282 TTT-TTTT
1 TTTATTTT
44765289 TTGTACATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATTTTATATATAA
Found at i:44766520 original size:33 final size:33
Alignment explanation
Indices: 44766483--44766550 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
44766473 TTTAGTAACT
*
44766483 TTTTGGTTAGTATCCTTTTTGGGCTTAACAAAA
1 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
44766516 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
1 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
44766549 TT
1 TT
44766551 ATATTTTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (33 bp):
TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
Found at i:44770889 original size:18 final size:19
Alignment explanation
Indices: 44770852--44770891 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
44770842 TATATTTAAA
44770852 ATAAATTTTAATACAAAAT
1 ATAAATTTTAATACAAAAT
*
44770871 ATAAATTTT-ATATAAAAT
1 ATAAATTTTAATACAAAAT
44770889 ATA
1 ATA
44770892 TTATAAGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATTTTAATACAAAAT
Found at i:44772140 original size:12 final size:12
Alignment explanation
Indices: 44772123--44772148 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44772113 CAAAACAGGC
44772123 TTTTAGCGGCGT
1 TTTTAGCGGCGT
44772135 TTTTAGCGGCGT
1 TTTTAGCGGCGT
44772147 TT
1 TT
44772149 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:44772394 original size:114 final size:113
Alignment explanation
Indices: 44772232--44772542 Score: 448
Period size: 114 Copynumber: 2.8 Consensus size: 113
44772222 GGCGTTTTCC
* * * * *
44772232 AAAAAGCGCCGC-AAAAAACCTAAGCCCAATGACGCCATTTTCTGAGCTTTTGGGGATTTAGCGG
1 AAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCGGGGCTTTAGCGG
44772296 CGTTTTTAAGAAAGCGCCGCTAATG-TTCAGGGCTTTAGCGACGTTTTT
66 CGTTTTTAAGAAAGCGCCGCTAATGCTT-AGGGCTTTAGCGACGTTTTT
* *
44772344 GAAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTTTCGGGGCTTTAGCG
1 -AAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCGGGGCTTTAGCG
* * *
44772409 GCGTTTTTAAGAAAGCGTCGCTAATGCTTAGGTCTTTAGCGGCGTTTTT
65 GCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAGCGACGTTTTT
* * *
44772458 AAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTATGAGCTTTCGGGGCTTTAGC-
1 AA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCGGGGCTTTAGCG
*
44772522 GCGTTTTTAAGTAAGCGCCGC
65 GCGTTTTTAAGAAAGCGCCGC
44772543 AAAATAACCT
Statistics
Matches: 179, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
113 33 0.18
114 144 0.80
115 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (113 bp):
AAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCGGGGCTTTAGCGG
CGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAGCGACGTTTTT
Found at i:44772538 original size:72 final size:73
Alignment explanation
Indices: 44772442--44772650 Score: 321
Period size: 72 Copynumber: 2.9 Consensus size: 73
44772432 ATGCTTAGGT
*
44772442 CTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTATGAGC
1 CTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTGTGAGC
44772507 TTTCGGGG
66 TTTCGGGG
* * * * * *
44772515 CTTTAGC-GCGTTTTTAAGTAAGCGCCGCAAAATAACCTAAGCCCAACCACGCCGTTTTGTGAGC
1 CTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTGTGAGC
*
44772579 TTTTGGGG
66 TTTCGGGG
* *
44772587 ATTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTGTGAG
1 CTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTGTGAG
44772651 NNNNNNNNNN
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
72 63 0.53
73 56 0.47
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (73 bp):
CTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGTCGTTTTGTGAGC
TTTCGGGG
Found at i:44773997 original size:7 final size:7
Alignment explanation
Indices: 44773987--44774035 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
44773977 GATTTAAGGT
44773987 TTAGGGG
1 TTAGGGG
44773994 TTAGGGG
1 TTAGGGG
44774001 TTTAGGGG
1 -TTAGGGG
**
44774009 TTAGATG
1 TTAGGGG
44774016 TTAGGGG
1 TTAGGGG
* *
44774023 TTAAGAG
1 TTAGGGG
44774030 TTAGGG
1 TTAGGG
44774036 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:44774055 original size:15 final size:14
Alignment explanation
Indices: 44773980--44774050 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
44773970 GTGTTGGGAT
44773980 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
*
44773994 TTAGGGGTTTAGGGG
1 TTA-AGGTTTAGGGG
*
44774009 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
*
44774023 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
44774038 TTAAGGTTTAGGG
1 TTAAGGTTTAGGG
44774051 ATTTAGGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
13 2 0.04
14 19 0.41
15 25 0.54
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:44774736 original size:149 final size:151
Alignment explanation
Indices: 44774489--44774834 Score: 615
Period size: 149 Copynumber: 2.3 Consensus size: 151
44774479 AAATTTTAGA
*
44774489 ATAGCAAAACGGCGTAGTTTTGTTCAAAATAAATTTTTTTTGCGGCGTTGCGTTTTTATGAAAAA
1 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGC--TGCG-TTTTATGAAAAA
*
44774554 TGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAA
63 CGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAA
44774619 AAAATAGCCCCCTTTTAGCATAGC
128 AAAATAGCCCCCTTTTAGCATAGC
*
44774643 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGC-GC-TTTTATGAAGAACGC
1 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCTGCGTTTTATGAAAAACGC
*
44774706 CGCTAAAGGTAGGCAATAGTGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAAA
66 CGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAAA
44774771 ATAGCCCCCTTTTAGCATAGC
131 ATAGCCCCCTTTTAGCATAGC
44774792 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
1 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
44774835 CCCGCTAAAG
Statistics
Matches: 188, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
149 141 0.75
151 2 0.01
154 45 0.24
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (151 bp):
ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCTGCGTTTTATGAAAAACGC
CGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAAA
ATAGCCCCCTTTTAGCATAGC
Found at i:44774861 original size:131 final size:131
Alignment explanation
Indices: 44774705--44775113 Score: 561
Period size: 131 Copynumber: 3.0 Consensus size: 131
44774695 ATGAAGAACG
*
44774705 CCGCTAAAGGTAGGCAATAGTGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
44774770 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
44774835 C
131 C
44774836 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
*
44774901 AATAGTCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAA-TTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
*
44774965 G
131 C
* ** * *
44774966 GCGCTTTTATGAA-AAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAA
1 CCGC---TA--AAGGTA-G--GC--AA--TA-GC---GGC-G-TTTTT-ATAAAAAACGCCACAA
44775030 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
47 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
44775095 CAAAATGAATTTTTTTTGC
112 CAAAATGAATTTTTTTTGC
44775114 GGCGCTTTTA
Statistics
Matches: 249, Mismatches: 9, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
130 12 0.05
131 118 0.47
133 2 0.01
134 1 0.00
135 3 0.01
137 2 0.01
139 2 0.01
141 2 0.01
142 2 0.01
145 2 0.01
146 1 0.00
147 4 0.02
148 89 0.36
149 9 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (131 bp):
CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
C
Found at i:44775104 original size:148 final size:149
Alignment explanation
Indices: 44774836--44775140 Score: 585
Period size: 148 Copynumber: 2.1 Consensus size: 149
44774826 TTTTTTTGCC
44774836 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
*
44774901 AATAGTCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAA-TTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
44774965 GGCGCTTTTATGAAAAACG
131 GGCGCTTTTATGAAAAACG
44774984 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
44775049 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
*
44775114 GGCGCTTTTATGAAGAACG
131 GGCGCTTTTATGAAAAACG
44775133 CCGCTAAA
1 CCGCTAAA
44775141 ATAGCCCCCT
Statistics
Matches: 154, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
148 119 0.77
149 35 0.23
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (149 bp):
CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
GGCGCTTTTATGAAAAACG
Found at i:44775111 original size:280 final size:280
Alignment explanation
Indices: 44774556--44775113 Score: 1082
Period size: 279 Copynumber: 2.0 Consensus size: 280
44774546 ATGAAAAATG
44774556 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
44774621 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
* *
44774686 GGCGCTTTTATGAAGAACGCCGCTAAAGGTAGGCAATAGTGGCGTTTTTATAAAAAACGCCACAA
131 GGCGCTTTTATGAAAAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAA
44774751 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
196 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
44774816 CAAAATGAATTTTTTTTGCC
261 CAAAATGAATTTTTTTTGCC
44774836 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
1 CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
*
44774901 AATAGTCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAA-TTTTTTTGC
66 AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
44774965 GGCGCTTTTATGAAAAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAA
131 GGCGCTTTTATGAAAAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAA
44775030 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
196 AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
44775095 CAAAATGAATTTTTTTTGC
261 CAAAATGAATTTTTTTTGC
44775114 GGCGCTTTTA
Statistics
Matches: 275, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
279 156 0.57
280 119 0.43
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (280 bp):
CCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTTAAAA
AATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGC
GGCGCTTTTATGAAAAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCACAA
AATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTT
CAAAATGAATTTTTTTTGCC
Found at i:44775169 original size:91 final size:91
Alignment explanation
Indices: 44775047--44775231 Score: 334
Period size: 91 Copynumber: 2.0 Consensus size: 91
44775037 TTACTTTTAA
*
44775047 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
* *
44775112 GCGGCGCTTTTATGAAGAACGCCGCT
66 GCGGCGCTTTTATGAAAAACGCCACT
44775138 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
*
44775203 GCGGTGCTTTTATGAAAAACGCCACT
66 GCGGCGCTTTTATGAAAAACGCCACT
44775229 AAA
1 AAA
44775232 GGTAGGCAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (91 bp):
AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
GCGGCGCTTTTATGAAAAACGCCACT
Found at i:44775183 original size:239 final size:240
Alignment explanation
Indices: 44774899--44775379 Score: 865
Period size: 240 Copynumber: 2.0 Consensus size: 240
44774889 TTACTTTTAA
* *
44774899 AAAATAGTCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAA-TTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
*
44774963 GCGGCGCTTTTATGAAAAACGCCGCTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
66 GCGGCGCTTTTATGAAAAACGCCACTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
* *
44775028 AAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTG
131 AAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTG
* *
44775093 TTCAAAATGAATTTTTTTTGCGGCGCTTTTATGAAGAACGCCGCT
196 TTCAAAATGAATTTTTTTTGCGGCGCTTTTATGAAAAACACCGCT
44775138 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
*
44775203 GCGGTGCTTTTATGAAAAACGCCACTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
66 GCGGCGCTTTTATGAAAAACGCCACTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
*
44775268 AAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTT
131 AAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTG
*
44775333 TTCAAAATGATTTTTTTTTGCGGCGCTTTTATGAAAAACACCGCT
196 TTCAAAATGAATTTTTTTTGCGGCGCTTTTATGAAAAACACCGCT
44775378 AA
1 AA
44775380 GGTAAACAAT
Statistics
Matches: 231, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
239 55 0.24
240 176 0.76
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (240 bp):
AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
GCGGCGCTTTTATGAAAAACGCCACTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
AAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTG
TTCAAAATGAATTTTTTTTGCGGCGCTTTTATGAAAAACACCGCT
Found at i:44775421 original size:149 final size:149
Alignment explanation
Indices: 44775138--44775419 Score: 451
Period size: 149 Copynumber: 1.9 Consensus size: 149
44775128 GAACGCCGCT
*
44775138 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAGTTTTGTTCAAAATGAATTTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTGTTCAAAATGAATTTTTTTT
* * ** *
44775203 GCGGTGCTTTTATGAAAAACGCCACTAAAGGTAGGCAATAGCGGCGTTTTTATAAAAAACGCCAC
66 GCGGCGCTTTTATGAAAAACACCACTAAAGGTAAACAATAGCGGCGTTTTAATAAAAAACGCCAC
44775268 AAAATAATTTTACTTTTAA
131 AAAATAATTTTACTTTTAA
* *
44775287 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTTTTCAAAATGATTTTTTTTT
1 AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTGTTCAAAATGAATTTTTTTT
* *
44775352 GCGGCGCTTTTATGAAAAACACCGCT-AAGGTAAACAATAGCGGCGTTTATAAT-AAAAACGCCG
66 GCGGCGCTTTTATGAAAAACACCACTAAAGGTAAACAATAGCGGCGTTT-TAATAAAAAACGCCA
44775415 CAAAA
130 CAAAA
44775420 ATCATTTAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
148 34 0.28
149 88 0.72
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (149 bp):
AAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGACGTAATTTTGTTCAAAATGAATTTTTTTT
GCGGCGCTTTTATGAAAAACACCACTAAAGGTAAACAATAGCGGCGTTTTAATAAAAAACGCCAC
AAAATAATTTTACTTTTAA
Found at i:44776727 original size:31 final size:31
Alignment explanation
Indices: 44776689--44776747 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
44776679 TATGTGATAG
*
44776689 AGTCTCGTTTGTGTTTGTTTTTAACCCAAGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAAGT
44776720 AGTCTCGTCTGTGTTTGTTTTTAACCCA
1 AGTCTCGTCTGTGTTTGTTTTTAACCCA
44776748 GGTGCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (31 bp):
AGTCTCGTCTGTGTTTGTTTTTAACCCAAGT
Found at i:44778389 original size:43 final size:42
Alignment explanation
Indices: 44778304--44778391 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
44778294 CTTTGAGTTC
* * *
44778304 ATTACAAGATTTCCTTGATTAAATATATGTATTATATCTTTT
1 ATTACAAGATTTACTTGATTAAATAAATGCATTATATCTTTT
* *
44778346 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTGTATGTTTT
1 ATTA-CAAGATTTACTTGATTAA-ATAAATGCATTATATCTTTT
44778389 ATT
1 ATT
44778392 GCCTTGCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 4 0.10
43 34 0.87
44 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAATAAATGCATTATATCTTTT
Found at i:44778799 original size:43 final size:43
Alignment explanation
Indices: 44778694--44778879 Score: 225
Period size: 43 Copynumber: 4.3 Consensus size: 43
44778684 AGGTTATGTT
* * * *
44778694 TTTAGCGGCGTTT-TCGCGAGAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAATGGTCTTGGTC
*
44778736 TATAGCGGCGTTTGTGGGAAAAGCGCCGCTAATGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAATGGTCTTGGTC
* * * ** *
44778779 TTTAGCGACGTTTTTTGGAAAAGCGCTACTAATGGTCTTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAATGGTCTTGGTC
*
44778822 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAATGGTC-TGAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAATGGTCTTG-GTC
44778865 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
44778880 TTCTAAAAAC
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 31 0.25
43 91 0.75
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAATGGTCTTGGTC
Found at i:44781957 original size:9 final size:8
Alignment explanation
Indices: 44781903--44781959 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 8
44781893 GATTAATACT
44781903 AAATAAAA
1 AAATAAAA
*
44781911 TAAATTTAAAT
1 -AAA--TAAAA
44781922 AAATAAATA
1 AAATAAA-A
44781931 AAATAAAA
1 AAATAAAA
44781939 AAACTAAAA
1 AAA-TAAAA
44781948 AAATGAAAA
1 AAAT-AAAA
44781957 AAA
1 AAA
44781960 AATTTAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 9 0.22
9 25 0.61
10 3 0.07
11 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:44783763 original size:30 final size:30
Alignment explanation
Indices: 44783729--44783789 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
44783719 CACGGGCTGG
* * *
44783729 CACATGGGTGTGTGTCCAGCCCGTGTGGCT
1 CACATAGGTGTGTGCCCAACCCGTGTGGCT
44783759 CACATAGGTGTGTGCCCAACCCGTGTGGCT
1 CACATAGGTGTGTGCCCAACCCGTGTGGCT
44783789 C
1 C
44783790 CTGAAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.25
Consensus pattern (30 bp):
CACATAGGTGTGTGCCCAACCCGTGTGGCT
Found at i:44785599 original size:5 final size:6
Alignment explanation
Indices: 44785585--44785657 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
44785575 GAAATTTAAG
* * * *
44785585 AAAATA AAAATAA AACAACTA AAAACA AAAATA AAAGTA AACATA AAAAGA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
44785636 AAAAGA AAACTA AAAAGA AAAA
1 AAAATA AAAATA AAAATA AAAA
44785658 CAAATAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
6 42 0.79
7 5 0.09
8 5 0.09
9 1 0.02
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:44787810 original size:42 final size:42
Alignment explanation
Indices: 44787751--44787890 Score: 271
Period size: 42 Copynumber: 3.3 Consensus size: 42
44787741 AGTCCCAGAA
44787751 CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
1 CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
44787793 CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
1 CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
*
44787835 CTCACATGGCCATGGACACGTACGTGTGTCCAGGCCGTGTGT
1 CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
44787877 CTCACATGGCCATG
1 CTCACATGGCCATG
44787891 TTTTTACACC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.22
Consensus pattern (42 bp):
CTCACATGGCCATGGACACGCACGTGTGTCCAGGCCGTGTGT
Found at i:44791806 original size:30 final size:30
Alignment explanation
Indices: 44791772--44791832 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44791762 CACGGGCTAG
** * * *
44791772 CACATGGGTGTGTGTCCAGCCCGTGTGGCT
1 CACATGGGCATGTGCCCAACCCATGTGGCT
44791802 CACATGGGCATGTGCCCAACCCATGTGGCT
1 CACATGGGCATGTGCCCAACCCATGTGGCT
44791832 C
1 C
44791833 TTGAAATCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAACCCATGTGGCT
Found at i:44793960 original size:15 final size:14
Alignment explanation
Indices: 44793926--44793965 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
44793916 CTTTCAAGGA
44793926 ATTTTGTGGGTTCTT
1 ATTTT-TGGGTTCTT
44793941 ATTTTTGGGTTCTT
1 ATTTTTGGGTTCTT
44793955 ATTTTTGGGTT
1 ATTTTTGGGTT
44793966 TCGAGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.07, C:0.05, G:0.25, T:0.62
Consensus pattern (14 bp):
ATTTTTGGGTTCTT
Found at i:44798834 original size:15 final size:15
Alignment explanation
Indices: 44798814--44798844 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44798804 GTTATGTAAG
*
44798814 TGAAAGGTCAAGAGT
1 TGAAAGGCCAAGAGT
44798829 TGAAAGGCCAAGAGT
1 TGAAAGGCCAAGAGT
44798844 T
1 T
44798845 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (15 bp):
TGAAAGGCCAAGAGT
Found at i:44800733 original size:6 final size:6
Alignment explanation
Indices: 44800724--44800749 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
44800714 TATATTTTAA
44800724 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
44800750 GTGCAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:44804827 original size:45 final size:46
Alignment explanation
Indices: 44804771--44804861 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
44804761 ATAGTGTGGC
* *
44804771 GTTCATCATATACCAAGGTTTC-ATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAATGGGTCGAG
* *
44804816 GTTCATTATATACCAAGGTTCCTATCATTCTTGATAATGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAATGGGTCGAG
44804862 TTCTTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAATGGGTCGAG
Found at i:44806901 original size:12 final size:14
Alignment explanation
Indices: 44806874--44806905 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
44806864 TTTGGCCTAT
44806874 AAAAATAAAGACAG
1 AAAAATAAAGACAG
44806888 AAAAA-AAA-ACAG
1 AAAAATAAAGACAG
44806900 AAAAAT
1 AAAAAT
44806906 CACACAGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.53
13 3 0.18
14 5 0.29
ACGTcount: A:0.78, C:0.06, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAATAAAGACAG
Found at i:44813106 original size:26 final size:25
Alignment explanation
Indices: 44813059--44813111 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
44813049 CATCTTAAGT
*
44813059 TTTTAATAAATAAGTTAATTATTGAA
1 TTTTAATAAATAAGATAATTATT-AA
* **
44813085 TTTTATTAAATAAGATGCTTATTAA
1 TTTTAATAAATAAGATAATTATTAA
44813110 TT
1 TT
44813112 AATCTAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (25 bp):
TTTTAATAAATAAGATAATTATTAA
Found at i:44813447 original size:22 final size:21
Alignment explanation
Indices: 44813404--44813447 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
44813394 GGGGTTGTTA
*
44813404 TAAAGGAGGCTTAAACATCAT
1 TAAAGGAGGCTTAAACAGCAT
* *
44813425 TAAAGGAGTTCTTAAAGAGCAT
1 TAAAGGAG-GCTTAAACAGCAT
44813447 T
1 T
44813448 TTTATGCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGGAGGCTTAAACAGCAT
Found at i:44813982 original size:46 final size:46
Alignment explanation
Indices: 44813931--44814024 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
44813921 ATAGTGTGGT
* *
44813931 GTTCATCATATACCAAGGTTTCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
*
44813977 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGAGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
44814023 GT
1 GT
44814025 CTCTTAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGAGTCGAG
Found at i:44821582 original size:25 final size:24
Alignment explanation
Indices: 44821521--44821597 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 24
44821511 AAGATAACAA
** *
44821521 GCCACAAAGGCTTTCAGAAAGAGGTA
1 GCCACAAAGGCTTTCAG--AGAATTC
*
44821547 GCCACATAGGCTTTCCAGAGAATTC
1 GCCACAAAGGCTTT-CAGAGAATTC
*
44821572 GCCACAAAGGCTTTTTAGAGAATTC
1 GCCACAAAGGC-TTTCAGAGAATTC
44821597 G
1 G
44821598 TGTTTATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 24 0.56
26 16 0.37
27 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (24 bp):
GCCACAAAGGCTTTCAGAGAATTC
Found at i:44834058 original size:20 final size:20
Alignment explanation
Indices: 44834033--44834094 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
44834023 AAAAATAAAA
44834033 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTA-AAATTAT
44834053 TTTG-AA-TTTTAAAATTTAT
1 TTTGAAATTTTTAAAA-TTAT
44834072 TTT-AAATTTTTAAAAATTAT
1 TTTGAAATTTTT-AAAATTAT
44834092 TTT
1 TTT
44834095 AATTTTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 10 0.27
20 15 0.41
21 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTGAAATTTTTAAAATTAT
Found at i:44834103 original size:21 final size:20
Alignment explanation
Indices: 44833994--44834101 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 20
44833984 ATCTTTTAGA
* * *
44833994 AAATTTTTTAACATTTTTTT
1 AAATTTTTAAAAATTATTTT
* *
44834014 ATAATTTTTAAAAATAAAATTTG
1 A-AATTTTTAAAAAT--TATTTT
*
44834037 AAATTTTTATAAA-TATTTT
1 AAATTTTTAAAAATTATTTT
* *
44834056 GAA-TTTTAAAATTTATTTT
1 AAATTTTTAAAAATTATTTT
44834075 AAATTTTTAAAAATTATTTT
1 AAATTTTTAAAAATTATTTT
44834095 -AATTTTT
1 AAATTTTT
44834102 TTGTAATTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
18 7 0.10
19 21 0.30
20 16 0.23
21 11 0.16
22 11 0.16
23 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATTTTTAAAAATTATTTT
Found at i:44834443 original size:26 final size:26
Alignment explanation
Indices: 44834388--44834454 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
44834378 GAATTATAAA
* * *
44834388 TTTTTACTTATTAATTTGGGTTTGGG
1 TTTTTATTTTTTAATTTGGGTATGGG
44834414 -TTTTATTTTTTATATTTGGG-ATGGG
1 TTTTTATTTTTTA-ATTTGGGTATGGG
44834439 TTTTTAGTTTATTTAA
1 TTTTTA-TTT-TTTAA
44834455 AAAGTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 14 0.41
26 12 0.35
27 4 0.12
28 4 0.12
ACGTcount: A:0.18, C:0.01, G:0.19, T:0.61
Consensus pattern (26 bp):
TTTTTATTTTTTAATTTGGGTATGGG
Found at i:44834744 original size:16 final size:16
Alignment explanation
Indices: 44834698--44834752 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
44834688 TTGGTTCGTT
*
44834698 GTAATGGAATAGA-GC
1 GTAATAGAATAGAGGC
44834713 TGTAAT-GAAATAGAGGC
1 -GTAATAG-AATAGAGGC
44834730 GTAATAGAATAGAGGC
1 GTAATAGAATAGAGGC
44834746 GTAATAG
1 GTAATAG
44834753 GTAATCCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.03
16 32 0.89
17 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.31, T:0.22
Consensus pattern (16 bp):
GTAATAGAATAGAGGC
Found at i:44836800 original size:51 final size:50
Alignment explanation
Indices: 44836723--44836827 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 50
44836713 ATGCTGGTTT
* * *
44836723 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATACAAACAAA
*
44836774 TGATACCCTATCTTGATACATACAACACATGGACACTTAATACAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATACAAACAAA
44836824 TGAT
1 TGAT
44836828 TTATAGCTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 15 0.30
51 35 0.70
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATACAAACAAA
Found at i:44837485 original size:227 final size:227
Alignment explanation
Indices: 44837083--44837503 Score: 797
Period size: 227 Copynumber: 1.9 Consensus size: 227
44837073 GATAGCCGAT
* *
44837083 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCATAACTCAGTGTGAA
1 TGGATCATTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
44837148 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGGGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
44837213 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
44837278 AACCACCTTCGGCCCTATTTGTCAAGAATTGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATTGA
44837310 TGGATCATTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
1 TGGATCATTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
44837375 GATGATTGAGTAGCCTTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
*
44837440 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAATAAAGAAAAACATGGATGATGGAGGATC
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATC
44837504 GGCCCTATTT
Statistics
Matches: 189, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 189 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (227 bp):
TGGATCATTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
AACCACCTTCGGCCCTATTTGTCAAGAATTGA
Found at i:44840761 original size:14 final size:14
Alignment explanation
Indices: 44840742--44840772 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44840732 AATGAACATG
44840742 AATTTCATCTTTTA
1 AATTTCATCTTTTA
44840756 AATTTCATCTTTTA
1 AATTTCATCTTTTA
44840770 AAT
1 AAT
44840773 GCTCGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTCATCTTTTA
Found at i:44842058 original size:43 final size:43
Alignment explanation
Indices: 44842011--44842290 Score: 266
Period size: 43 Copynumber: 6.6 Consensus size: 43
44842001 GTTTTTAGAA
* * *
44842011 ACAAACGCCGCTAAAGACCATGACTTTTAGCAGCGCTTATCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
44842054 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
44842097 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* * *
44842140 ACAAACGCCGCTAAA-AGCCACGATCTTTAGCGACGCTTTTCCC
1 ACAAACGCCGCTAAAGA-CCATGACCTTTAGCGGCGCTTTTCCC
* ** * * * * * * *
44842183 AAAAAACGCCATTGAAGGCCACGACCTTTAGCGACGCTTATACA
1 -ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* * * **
44842227 ACAAACGCCACAATAAAG---ATGACTTTTAGCGACGCTTTT-TA
1 ACAAACGCCGC--TAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
44842268 ACAAACGCCGCTAAA-AACATGAC
1 ACAAACGCCGCTAAAGACCATGAC
44842291 TTTTGAAAAA
Statistics
Matches: 202, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.02
41 16 0.08
42 19 0.09
43 126 0.62
44 33 0.16
45 4 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
Found at i:44842169 original size:129 final size:128
Alignment explanation
Indices: 44842010--44842283 Score: 299
Period size: 129 Copynumber: 2.1 Consensus size: 128
44842000 CGTTTTTAGA
* * *
44842010 AACAAACGCCGCT-AAAGACCATGACTTTTAGC-AGCGCTTATCCC-ACAAACGCCGCTAAAGAC
1 AACAAACGCCGCTAAAAGACCACGACTTTTAGCGA-CGCTTATCCCAAAAAACGCCACTAAAGAC
* * * * * * *
44842072 CATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC-TAAAGACCATGACCTTTAGCGGCGCTTT
65 CACGACCTTTAGCGACGCTTATACAACAAACGCCACATAAAG---ATGACCTTTAGCGACGCTTT
44842136 TCT
127 T-T
* * * * *
44842139 CACAAACGCCGCTAAAAG-CCACGA-TCTTTAGCGACGCTTTTCCCAAAAAACGCCATTGAAGGC
1 AACAAACGCCGCTAAAAGACCACGACT-TTTAGCGACGCTTATCCCAAAAAACGCCACTAAAGAC
*
44842202 CACGACCTTTAGCGACGCTTATACAACAAACGCCACAATAAAGATGACTTTTAGCGACGCTTTTT
65 CACGACCTTTAGCGACGCTTATACAACAAACGCCAC-ATAAAGATGACCTTTAGCGACGCTTTTT
44842267 AACAAACGCCGCTAAAA
1 AACAAACGCCGCTAAAA
44842284 ACATGACTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
128 18 0.15
129 51 0.42
130 48 0.39
132 5 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (128 bp):
AACAAACGCCGCTAAAAGACCACGACTTTTAGCGACGCTTATCCCAAAAAACGCCACTAAAGACC
ACGACCTTTAGCGACGCTTATACAACAAACGCCACATAAAGATGACCTTTAGCGACGCTTTTT
Found at i:44845824 original size:5 final size:5
Alignment explanation
Indices: 44845814--44845842 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
44845804 CAAGACTGCA
44845814 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
44845843 CATACCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:44846939 original size:23 final size:23
Alignment explanation
Indices: 44846895--44846940 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
44846885 AATGTTCGTA
* *
44846895 TTTTTTATTAATTTTTTATTTTG
1 TTTTTTATAAATTATTTATTTTG
44846918 TTTTTTATAAATTGATTT-TTTTG
1 TTTTTTATAAATT-ATTTATTTTG
44846941 CGGCGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (23 bp):
TTTTTTATAAATTATTTATTTTG
Found at i:44847630 original size:7 final size:7
Alignment explanation
Indices: 44847620--44847644 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44847610 ACTAACTCTT
44847620 AACCCCA
1 AACCCCA
44847627 AACCCCA
1 AACCCCA
44847634 AACCCCA
1 AACCCCA
44847641 AACC
1 AACC
44847645 ACTAACCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:44847800 original size:74 final size:74
Alignment explanation
Indices: 44847653--44847800 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
44847643 CCACTAACCT
* *
44847653 CTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGA
1 CTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCAA
*
44847718 CCCCAAATC
66 CACCAAATC
* * * *
44847727 CTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAATCCTAAACCCTAACCTAA
1 CTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCAA
*
44847792 CACTAAATC
66 CACCAAATC
44847801 TATAAACCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (74 bp):
CTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCAA
CACCAAATC
Found at i:44847899 original size:14 final size:15
Alignment explanation
Indices: 44847882--44847912 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44847872 CTTAAATCAG
44847882 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
44847896 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
44847911 AA
1 AA
44847913 ATTATAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:44848349 original size:41 final size:41
Alignment explanation
Indices: 44848292--44848516 Score: 308
Period size: 41 Copynumber: 5.2 Consensus size: 41
44848282 AATGTTCAAT
44848292 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
44848333 TAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
44848374 TAAAGATCTGAGCATTAGCGGCGCTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCA-T--------TAGCGGCGCTTTCTCAAAAACGCCGC
*
44848424 TAAAGATCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
44848465 TAAAGATCTGAGCATTAGCGGCACTTTTTTTC-AAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGC--TTTCTCAAAAACGCCGC
44848507 TAAAGATCTG
1 TAAAGATCTG
44848517 TAAGGTACAA
Statistics
Matches: 167, Mismatches: 6, Indels: 21
0.86 0.03 0.11
Matches are distributed among these distances:
41 100 0.60
42 21 0.13
43 5 0.03
49 1 0.01
50 40 0.24
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:44848423 original size:50 final size:49
Alignment explanation
Indices: 44848348--44848486 Score: 213
Period size: 50 Copynumber: 3.0 Consensus size: 49
44848338 ATCTAAGCAT
44848348 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCG
1 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCG
44848397 CTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGC-G-G
1 -TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCG
44848445 T------GCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGC
1 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGC
44848487 ACTTTTTTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 11
0.89 0.00 0.11
Matches are distributed among these distances:
41 38 0.44
42 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 45 0.52
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (49 bp):
TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCG
Found at i:44848462 original size:91 final size:91
Alignment explanation
Indices: 44848307--44848486 Score: 342
Period size: 91 Copynumber: 2.0 Consensus size: 91
44848297 ATCTGAGCAT
44848307 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCC
1 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCC
44848372 GCTAAAGATCTGAGCATTAGCGGCGC
66 GCTAAAGATCTGAGCATTAGCGGCGC
* *
44848398 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGTGCTTTCTCAAAAACGCC
1 TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCC
44848463 GCTAAAGATCTGAGCATTAGCGGC
66 GCTAAAGATCTGAGCATTAGCGGC
44848487 ACTTTTTTTC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (91 bp):
TAGCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCC
GCTAAAGATCTGAGCATTAGCGGCGC
Found at i:44848656 original size:40 final size:40
Alignment explanation
Indices: 44848570--44848683 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
44848560 TTTTTCTAAA
* *
44848570 AAACGCCGCTAATGC-TAATTTTTAGCGGCGCTTTCCTAG
1 AAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTCCTAG
* *
44848609 AAACGCCGCTAATGCTTGATCTTTAGCGGCGTTTTACGTA-
1 AAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTT-CCTAG
* * *
44848649 AAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTT
1 AAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTT
44848684 TTGTCCAAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 15 0.23
40 47 0.72
41 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (40 bp):
AAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTCCTAG
Found at i:44852158 original size:18 final size:18
Alignment explanation
Indices: 44852135--44852180 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
44852125 AATATCAAAC
* *
44852135 AAAAAAAATACAAGGTAA
1 AAAAAAAATAAAAAGTAA
*
44852153 AAAAAATATAAAAAGTAA
1 AAAAAAAATAAAAAGTAA
*
44852171 ATAAAAAATA
1 AAAAAAAATA
44852181 TTTAATACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAAAAATAAAAAGTAA
Found at i:44856069 original size:20 final size:21
Alignment explanation
Indices: 44856032--44856070 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44856022 GGAACTAAAA
*
44856032 TAAAAAAATATAATATTAGAT
1 TAAAAAAATATAAAATTAGAT
*
44856053 TAAAATAATA-AAAATTAG
1 TAAAAAAATATAAAATTAG
44856071 GCATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAAAAATATAAAATTAGAT
Found at i:44856634 original size:25 final size:25
Alignment explanation
Indices: 44856606--44856664 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
44856596 TACATTAATT
*
44856606 AGAGTTTAAG-TGTGAAACTAAAAAA
1 AGAGTTTAAGAAG-GAAACTAAAAAA
*
44856631 AGAGTTTAAGAAGGAAACTAAAAAT
1 AGAGTTTAAGAAGGAAACTAAAAAA
44856656 AGAGTTTAA
1 AGAGTTTAA
44856665 CTGGGAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (25 bp):
AGAGTTTAAGAAGGAAACTAAAAAA
Found at i:44858593 original size:25 final size:25
Alignment explanation
Indices: 44858565--44858618 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
44858555 CACTGATCAG
*
44858565 AGTTTAAGTGTGAAACTAAAAACAA
1 AGTTTAAGTGGGAAACTAAAAACAA
*
44858590 AGTTTGAGTGGGAAACTAAAAACAA
1 AGTTTAAGTGGGAAACTAAAAACAA
44858615 AGTT
1 AGTT
44858619 CTAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.24
Consensus pattern (25 bp):
AGTTTAAGTGGGAAACTAAAAACAA
Found at i:44858770 original size:13 final size:13
Alignment explanation
Indices: 44858749--44858779 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44858739 GATAATTAAT
*
44858749 AGAACTATAAAAA
1 AGAATTATAAAAA
44858762 AGAATTATAAAAA
1 AGAATTATAAAAA
44858775 AGAAT
1 AGAAT
44858780 AAGACGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (13 bp):
AGAATTATAAAAA
Found at i:44860758 original size:25 final size:25
Alignment explanation
Indices: 44860730--44860836 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
44860720 ACAGCTTGGG
*
44860730 AGAGCATACTGATTTATAGCTCGTA
1 AGAGCATACCGATTTATAGCTCGTA
*
44860755 AGAGCATACCGATTTATATCTCGTA
1 AGAGCATACCGATTTATAGCTCGTA
* * *
44860780 AGAGCATATCGATCTACAGCTCG-A
1 AGAGCATACCGATTTATAGCTCGTA
* * * *
44860804 ATAAGTATACCGATTCACAGCTCGTA
1 A-GAGCATACCGATTTATAGCTCGTA
*
44860830 TGAGCAT
1 AGAGCAT
44860837 TCATGTACGT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
24 2 0.03
25 63 0.95
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (25 bp):
AGAGCATACCGATTTATAGCTCGTA
Found at i:44862154 original size:2 final size:2
Alignment explanation
Indices: 44862147--44862178 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
44862137 TGATGGCTAT
44862147 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44862179 TAAATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:44863799 original size:41 final size:41
Alignment explanation
Indices: 44863742--44863847 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
44863732 AATGAGATAA
* *
44863742 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
44863783 TTCAGACTATACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
44863824 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
44863848 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:44863983 original size:2 final size:2
Alignment explanation
Indices: 44863976--44864011 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44863966 TAGGTGGTTG
44863976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44864012 TTATGGGTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44864171 original size:2 final size:2
Alignment explanation
Indices: 44864164--44864216 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
44864154 TTTATGATCG
44864164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44864206 AT AT AT AT AT A
1 AT AT AT AT AT A
44864217 CATGTATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44865286 original size:23 final size:22
Alignment explanation
Indices: 44865250--44865296 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
44865240 TTTTACTTTA
44865250 TAATAGTACGTTATTATTAATTT
1 TAATAGTACGTTA-TATTAATTT
* * *
44865273 TAATATTACTTTATGTTAATTT
1 TAATAGTACGTTATATTAATTT
44865295 TA
1 TA
44865297 TAAAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (22 bp):
TAATAGTACGTTATATTAATTT
Found at i:44870403 original size:12 final size:13
Alignment explanation
Indices: 44870376--44870404 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44870366 ATATTATAAT
44870376 AAATTAAAGAAAA
1 AAATTAAAGAAAA
44870389 AAATTAAAGAAAA
1 AAATTAAAGAAAA
44870402 AAA
1 AAA
44870405 GAAGAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAATTAAAGAAAA
Found at i:44871626 original size:13 final size:13
Alignment explanation
Indices: 44871610--44871634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44871600 AATCGCTATA
44871610 TGAAATGATTATG
1 TGAAATGATTATG
44871623 TGAAATGATTAT
1 TGAAATGATTAT
44871635 AAGAATTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TGAAATGATTATG
Found at i:44871662 original size:27 final size:27
Alignment explanation
Indices: 44871624--44871676 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44871614 ATGATTATGT
44871624 GAAATGATTATA-AGAATTGGTTATATA
1 GAAATGATTATACAGAA-TGGTTATATA
*
44871651 GAAATAGA-TATACGGAATGGTTATAT
1 GAAAT-GATTATACAGAATGGTTATAT
44871677 GAATCGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (27 bp):
GAAATGATTATACAGAATGGTTATATA
Found at i:44875362 original size:32 final size:33
Alignment explanation
Indices: 44875309--44875375 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 33
44875299 TGATGCCCAT
44875309 TTACTATAAGGTTCTCGATGCACCCTCAAGGTA
1 TTACTATAAGGTTCTCGATGCACCCTCAAGGTA
44875342 TTACTATAAGG-TCTCGATGCACCCTCAAGGTA
1 TTACTATAAGGTTCTCGATGCACCCTCAAGGTA
44875374 TT
1 TT
44875376 CACATTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 23 0.68
33 11 0.32
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
TTACTATAAGGTTCTCGATGCACCCTCAAGGTA
Found at i:44883507 original size:17 final size:15
Alignment explanation
Indices: 44883481--44883515 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 15
44883471 ACGTTCTCTA
44883481 TTTTTTTTCTTTTCGT
1 TTTTTTTTCTTTT-GT
44883497 TTTTTTCTTCTTTTGT
1 TTTTTT-TTCTTTTGT
44883513 TTT
1 TTT
44883516 CTTGACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (15 bp):
TTTTTTTTCTTTTGT
Found at i:44894847 original size:11 final size:11
Alignment explanation
Indices: 44894827--44894856 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44894817 TCCCGAAATC
*
44894827 TAAAAACCATT
1 TAAAACCCATT
44894838 TAAAACCCATT
1 TAAAACCCATT
44894849 TAAAACCC
1 TAAAACCC
44894857 TGTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAACCCATT
Found at i:44900903 original size:15 final size:15
Alignment explanation
Indices: 44900883--44900912 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44900873 ACAATATAGA
44900883 AATCATTAAAAATGT
1 AATCATTAAAAATGT
44900898 AATCATTAAAAATGT
1 AATCATTAAAAATGT
44900913 GACAAAAATG
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:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
AATCATTAAAAATGT
Found at i:44901668 original size:25 final size:25
Alignment explanation
Indices: 44901616--44901709 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
44901606 GTTTCGATCT
** *
44901616 ATAGCTTGTGTGAGCAGGCTCATTTTC
1 ATAGCTTGTGTGAGCATTCT-A-ATTC
*
44901643 ATAGCTTGTGTGAGCATTCTGATTC
1 ATAGCTTGTGTGAGCATTCTAATTC
* **
44901668 ACAGCTCATGTGAGCATTCTAATTC
1 ATAGCTTGTGTGAGCATTCTAATTC
44901693 ACT-GCTTGTGTGAGCAT
1 A-TAGCTTGTGTGAGCAT
44901710 ACATGTACAT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
25 37 0.67
27 18 0.33
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (25 bp):
ATAGCTTGTGTGAGCATTCTAATTC
Found at i:44908516 original size:39 final size:39
Alignment explanation
Indices: 44908473--44908565 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
44908463 CAGGTTCTGT
* * *
44908473 TTCTAGCAAGCTTATTATCAGTGAAATTTTCAGACTTAA
1 TTCTAGCAGGCTTATTACCAATGAAATTTTCAGACTTAA
*
44908512 TTCTAGCAGGCTTATTGCCAATGAAATTTTCAGACTTAA
1 TTCTAGCAGGCTTATTACCAATGAAATTTTCAGACTTAA
*
44908551 TGTCTACCAGGCTTA
1 T-TCTAGCAGGCTTA
44908566 ATGTCGGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.75
40 12 0.25
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (39 bp):
TTCTAGCAGGCTTATTACCAATGAAATTTTCAGACTTAA
Found at i:44911605 original size:27 final size:27
Alignment explanation
Indices: 44911548--44911627 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
44911538 AACTGAACTA
*
44911548 ATCATTCAT-CCTTCATGGGATAATA-T
1 ATCATTCATCCCTT-AAGGGATAATATT
*
44911574 GTCATTCATCCCTTAAGGGATAATATT
1 ATCATTCATCCCTTAAGGGATAATATT
*
44911601 ATCA-TCTATCCCTTAATGGATAATATT
1 ATCATTC-ATCCCTTAAGGGATAATATT
44911628 TCACATCTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 20 0.43
27 27 0.57
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (27 bp):
ATCATTCATCCCTTAAGGGATAATATT
Found at i:44927374 original size:16 final size:16
Alignment explanation
Indices: 44927353--44927388 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
44927343 TTTGGACTGA
44927353 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
44927369 ATTGAATAGATTGAAT
1 ATTGAATAGAATGAAT
44927385 -TTGA
1 ATTGA
44927389 TTATTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:44933958 original size:25 final size:25
Alignment explanation
Indices: 44933930--44933983 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
44933920 TCCAAAAGGA
44933930 AAAACAATT-TAAT-TAAAAAATTATT
1 AAAA-AATTATAATATAAAAAA-TATT
* *
44933955 AAAAATTTATAATATTAAAAATATT
1 AAAAAATTATAATATAAAAAATATT
44933980 AAAA
1 AAAA
44933984 GATAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.12
25 16 0.64
26 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAAATTATAATATAAAAAATATT
Found at i:44938705 original size:5 final size:5
Alignment explanation
Indices: 44938692--44938757 Score: 62
Period size: 5 Copynumber: 13.2 Consensus size: 5
44938682 ATACAAATCG
* * * * *
44938692 TATCT TATCA TATCA TGA-CA TATAA TGTAA TATCA AATCA TATCA TATCA
1 TATCA TATCA TATCA T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA
*
44938742 TATCA TATCA AATCA T
1 TATCA TATCA TATCA T
44938758 TTCCTACCCC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
4 1 0.02
5 48 0.96
6 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (5 bp):
TATCA
Found at i:44938731 original size:25 final size:25
Alignment explanation
Indices: 44938697--44938757 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
44938687 AATCGTATCT
* *
44938697 TATCATATCATGA-CATATAATGTAA
1 TATCAAATCAT-ATCATATAATATAA
* *
44938722 TATCAAATCATATCATATCATATCA
1 TATCAAATCATATCATATAATATAA
44938747 TATCAAATCAT
1 TATCAAATCAT
44938758 TTCCTACCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.36
Consensus pattern (25 bp):
TATCAAATCATATCATATAATATAA
Found at i:44939041 original size:29 final size:28
Alignment explanation
Indices: 44938973--44939041 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
44938963 CACCCCCAAA
*
44938973 ACACATGCATATCATAATCATATATCAT
1 ACACATGCATATCATAATCACATATCAT
* *
44939001 ACATCATACATAT-TTATATCACATATCAT
1 ACA-CATGCATATCATA-ATCACATATCAT
*
44939030 ATTACATGCATA
1 A-CACATGCATA
44939042 CACACATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 5 0.15
29 27 0.82
30 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (28 bp):
ACACATGCATATCATAATCACATATCAT
Found at i:44941582 original size:50 final size:50
Alignment explanation
Indices: 44941467--44941709 Score: 396
Period size: 50 Copynumber: 4.8 Consensus size: 50
44941457 GATAATAACA
* * ** *
44941467 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
44941518 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44941568 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44941618 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44941668 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44941710 TTACCCAAAT
Statistics
Matches: 179, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 147 0.82
51 32 0.18
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44941825 original size:13 final size:13
Alignment explanation
Indices: 44941804--44941834 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44941794 GCTTAGATAA
*
44941804 TCATCAAATAAAT
1 TCATAAAATAAAT
44941817 TCATAAAATAAAT
1 TCATAAAATAAAT
44941830 TCATA
1 TCATA
44941835 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:44943702 original size:29 final size:30
Alignment explanation
Indices: 44943648--44943728 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
44943638 ATTGGACCTG
44943648 AATTTTAAAATATAAAAAGTAAAGAGATTA
1 AATTTTAAAATATAAAAAGTAAAGAGATTA
* *
44943678 AGTTTTTAAAA-ATAAAAA-TATAGAGATTA
1 A-ATTTTAAAATATAAAAAGTAAAGAGATTA
*
44943707 AATTTTAAAATGTTAAAAAGTA
1 AATTTTAAAAT-ATAAAAAGTA
44943729 TAGGGACTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 8 0.19
29 11 0.26
30 14 0.33
31 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (30 bp):
AATTTTAAAATATAAAAAGTAAAGAGATTA
Found at i:44945274 original size:5 final size:5
Alignment explanation
Indices: 44945255--44945327 Score: 64
Period size: 5 Copynumber: 15.0 Consensus size: 5
44945245 AGTGAGACTT
**
44945255 TTAAA TTAAA GTTAAA TTAAA --AGAA TTAAA TTAAA TTAAA --AAA ACAAA
1 TTAAA TTAAA -TTAAA TTAAA TTA-AA TTAAA TTAAA TTAAA TTAAA TTAAA
* *
44945303 TCAAA TCAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
44945328 ATTTTTTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
3 4 0.07
4 2 0.03
5 48 0.80
6 6 0.10
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (5 bp):
TTAAA
Found at i:44945296 original size:20 final size:20
Alignment explanation
Indices: 44945258--44945295 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
44945248 GAGACTTTTA
44945258 AATTAAAGTTAAATTAAAAG
1 AATTAAAGTTAAATTAAAAG
44945278 AATTAAA-TTAAATTAAAA
1 AATTAAAGTTAAATTAAAA
44945296 AAACAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAAGTTAAATTAAAAG
Found at i:44951036 original size:3 final size:3
Alignment explanation
Indices: 44951028--44951055 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44951018 CTCACAGAAG
44951028 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
44951056 GTTGTTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:44951080 original size:3 final size:3
Alignment explanation
Indices: 44951060--44951110 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
44951050 ATGATGGTTG
* *
44951060 TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44951108 TTA
1 TTA
44951111 CCTGAACATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44962987 original size:51 final size:49
Alignment explanation
Indices: 44962932--44963113 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 49
44962922 CATGAACACG
* *
44962932 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAA-CAATAAA-GTTGGTCACA
* * * * *
44962983 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACAATAAAG--TTGGTCACA
* ** * * *
44963034 TGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACAAT-AAAGTTGGTCACA
44963084 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
44963114 TATCGAATGA
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 41 0.37
51 65 0.59
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACAATAAAGTTGGTCACA
Found at i:44963115 original size:101 final size:102
Alignment explanation
Indices: 44962932--44963120 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 102
44962922 CATGAACACG
* ** *
44962932 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAAACATGATCACATGTGTAGTACTAAG
*
44962997 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACC
66 TGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCACC
* ** * * *
44963034 TGTGTAGTACTATGTGAAGGCTACTATGTGAA-CCGTAAAACTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAAACATGATCACATGTGTAGTACTAAG
*
44963098 TGAAGGCTACTACGTGTATCGAA
66 TGAAGGCTACTACGTGTACCGAA
44963121 TGATAAAAGT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
101 45 0.60
102 30 0.40
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAAACATGATCACATGTGTAGTACTAAG
TGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCACC
Found at i:44963380 original size:37 final size:38
Alignment explanation
Indices: 44963311--44963383 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
44963301 ATGTGTGGAA
* **
44963311 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
44963349 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
44963384 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:44965641 original size:42 final size:42
Alignment explanation
Indices: 44965581--44965664 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
44965571 ACGAGTTAGA
44965581 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
*
44965623 ATCTTAATCGACTTTTCCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
44965665 TCAATCTCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (42 bp):
ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
Found at i:44974643 original size:15 final size:15
Alignment explanation
Indices: 44974623--44974653 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44974613 AGTATGCACA
44974623 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
44974638 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
44974653 T
1 T
44974654 GAGCATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TCAATAAATTAAGTC
Found at i:44975878 original size:20 final size:21
Alignment explanation
Indices: 44975834--44975879 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
44975824 CAATGTGTCT
44975834 TGTCTTAACCGAATTAATTAG
1 TGTCTTAACCGAATTAATTAG
**
44975855 -GTCTTAACTTAATTAATT-G
1 TGTCTTAACCGAATTAATTAG
44975874 TGTCTT
1 TGTCTT
44975880 GTTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (21 bp):
TGTCTTAACCGAATTAATTAG
Found at i:44984472 original size:39 final size:39
Alignment explanation
Indices: 44984418--44984497 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
44984408 CAACTTTCTA
44984418 TTGAATTCAAGTGTATGTAAATAATGACCCAAGACTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAAGACTCTC
* *
44984457 TTGAATTCAAGTGTATGTAAATAATGACCCACGGCTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAAGACTCTC
44984496 TT
1 TT
44984498 TATATAGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (39 bp):
TTGAATTCAAGTGTATGTAAATAATGACCCAAGACTCTC
Found at i:44984621 original size:59 final size:61
Alignment explanation
Indices: 44984550--44984666 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
44984540 ATCACTTTAA
* * *
44984550 TATTAAATTAATATAATATTTA-C-CAAGATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAAATAATATAATATTTATCACAAGATAAACATTAAATTAAATTTAATATTAAATTT
* *
44984609 TATTAAAATAATATAATGTTTATCTAGAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTATC-ACAAGATAAACATTAAATTAAATTTAATATTAA
44984667 GATAGTCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATATAATATTTATCACAAGATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:44994700 original size:19 final size:18
Alignment explanation
Indices: 44994674--44994717 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
44994664 ATGCTTTAGG
*
44994674 TTAATTAATTATA-TTTAA
1 TTAATTAAGTA-AGTTTAA
44994692 TTAAGTTAAGTAAGTTTAA
1 TTAA-TTAAGTAAGTTTAA
44994711 TTAATTA
1 TTAATTA
44994718 TTTATCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TTAATTAAGTAAGTTTAA
Found at i:45012930 original size:44 final size:44
Alignment explanation
Indices: 45012867--45012969 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
45012857 TCCCTAAGCA
* *
45012867 ACAGTGGAGCAAATCGAAGCCA-AAAACCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCCAGAAAACC-TATCTCCCTGAGATT
* * * *
45012911 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCCAGAAAACCTATCTCCCTGAGATT
*
45012955 ACAGTGGAGCGGATT
1 ACAGTGGAGCAGATT
45012970 AAAATAAAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 46 0.92
45 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (44 bp):
ACAGTGGAGCAGATTGAAGCCAGAAAACCTATCTCCCTGAGATT
Found at i:45012988 original size:44 final size:45
Alignment explanation
Indices: 45012894--45013404 Score: 159
Period size: 44 Copynumber: 10.9 Consensus size: 45
45012884 AGCCAAAAAC
* * **
45012894 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTAAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGTAAT
* *
45012938 CCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-GAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGTAAT
* * * * * * *
45012982 CTTATCTCTCTGA-AGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAGAAAT
1 CTTATCTCCCTGAGA-TTACAG-TG-G-AG--CGGATTAAAAT--AA--AGTAAT
* * * * *
45013036 CTTATCTCCCTGAGTTTACAGCGAAGCAGATTAAAGCT--AGTAAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAA-ATAAAGTAAT
* * *
45013080 CCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAG-GAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGTAAT
* * * * * *
45013124 CTTATCTCTCTGA-AGTTACAGCGGAGTAGATCGCATCAGATTGAAGCTAGTAAT
1 CTTATCTCCCTGAGA-TTACAG-TG-G-AG--CGGATTAAAAT-AA---AGTAAT
* * * * * *
45013178 CCTATCTTCTTGAGACTACAGTGGAGCGAATTAAAATAAAG-GAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGTAAT
* * * * *
45013222 CTTATCTCTCTGA-AGTTACAGTGGAGTAAATCGTATCAGATTGAAGCTAGTAAT
1 CTTATCTCCCTGAGA-TTACAGTGGAG-----CGGATTAAAAT-AA---AGTAAT
* * * *
45013276 CCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAAAG-GAT
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGTAAT
* * * **
45013320 CTTATCTCTCTGA-AGTTACAGAGGAGCAGATTGAAGCT--AGTAAT
1 CTTATCTCCCTGAGA-TTACAGTGGAGCGGATT-AAAATAAAGTAAT
* * * *
45013364 CCTATCTCCTTGAGATTACAGAGGAGCGGATTAAGATAAAG
1 CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
45013405 GATTTTATCT
Statistics
Matches: 337, Mismatches: 83, Indels: 93
0.66 0.16 0.18
Matches are distributed among these distances:
43 14 0.04
44 177 0.53
45 15 0.04
46 2 0.01
47 4 0.01
48 4 0.01
49 39 0.12
50 5 0.01
51 6 0.02
52 1 0.00
53 8 0.02
54 60 0.18
55 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGTAAT
Found at i:45013150 original size:142 final size:142
Alignment explanation
Indices: 45012894--45013168 Score: 514
Period size: 142 Copynumber: 1.9 Consensus size: 142
45012884 AGCCAAAAAC
* *
45012894 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGAAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAG
*
45012959 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATT
66 TAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATT
45013024 GAAACCAGAAAT
131 GAAACCAGAAAT
*
45013036 CTTATCTCCCTGAGTTTACAGCGAAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGAAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAG
45013101 TAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATT
66 TAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATT
45013166 GAA
131 GAA
45013169 GCTAGTAATC
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 129 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (142 bp):
CTTATCTCCCTGAGATTACAGCGAAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAG
TAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATT
GAAACCAGAAAT
Found at i:45013180 original size:98 final size:98
Alignment explanation
Indices: 45013062--45013446 Score: 531
Period size: 98 Copynumber: 4.0 Consensus size: 98
45013052 TACAGCGAAG
*
45013062 CAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
*
45013127 ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
* * * * *
45013160 CAGATTGAAGCTAGTAATCCTATCTTCTTGAGACTACAGTGGAGCGAATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
* *
45013225 ATCTCTCTGAAGTTACAGTGGAGTAAATCGTAT
66 ATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
* * *
45013258 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
45013323 ATCTCTCTGAAGTTACA---GAG--GA--G---
66 ATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
* * *
45013346 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAG-AGGAGCGGATTAAGATAAAGGATTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTA-GAGCGGATTAAAATAAAGGATCT
* *
45013410 TATCTCTCTAAAGTTACAGTAGAGTAGATCGCAT
65 TATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
45013444 CAG
1 CAG
45013447 GTCTTATCTC
Statistics
Matches: 253, Mismatches: 23, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
88 74 0.29
91 4 0.02
93 3 0.01
95 4 0.02
98 168 0.66
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
Found at i:45013211 original size:142 final size:142
Alignment explanation
Indices: 45012896--45013212 Score: 510
Period size: 142 Copynumber: 2.2 Consensus size: 142
45012886 CCAAAAACCT
* *
45012896 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTA
45012961 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATTGA
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATTGA
*
45013026 AACCAGAAATCT
131 AACCAGAAATCC
* *
45013038 TATCTCCCTGAGTTTACAGCGAAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTA
45013103 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATTGA
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATTGA
* * *
45013168 AGCTAGTAATCC
131 AACCAGAAATCC
* * * *
45013180 TATCTTCTTGAGACTACAGTGGAGC-GAATTAAA
1 TATCTCCCTGAGATTACAGCGGAGCAG-ATTAAA
45013213 ATAAAGGATC
Statistics
Matches: 160, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 1 0.01
142 159 0.99
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTA
GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGATTGA
AACCAGAAATCC
Found at i:45013407 original size:88 final size:88
Alignment explanation
Indices: 45013258--45013428 Score: 281
Period size: 88 Copynumber: 1.9 Consensus size: 88
45013248 TAAATCGTAT
* *
45013258 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCGGATTAAAGTAAAGGATCTT
*
45013323 ATCTCTCTGAAGTTACAGAGGAG
66 ATCTCTCTAAAGTTACAGAGGAG
* *
45013346 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGAGGAGCGGATT-AAGATAAAGGATTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCGGATTAAAG-TAAAGGATCT
45013410 TATCTCTCTAAAGTTACAG
65 TATCTCTCTAAAGTTACAG
45013429 TAGAGTAGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 3 0.04
88 74 0.96
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (88 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCGGATTAAAGTAAAGGATCTT
ATCTCTCTAAAGTTACAGAGGAG
Found at i:45013427 original size:44 final size:44
Alignment explanation
Indices: 45013291--45013428 Score: 122
Period size: 44 Copynumber: 3.1 Consensus size: 44
45013281 CTCCCTGAGA
* * *
45013291 TTACAGTGGAGTGGATTAA-AGTAAAGGATCTTATCTCTCTGAAG
1 TTACAGAGGAGCGGATTAAGA-TAAAGGATCTTATCTCTCTAAAG
* * * * **
45013335 TTACAGAGGAGCAGATTGAAGCT--AGTAATCCTATCTC-CTTGAG
1 TTACAGAGGAGCGGATT-AAGATAAAG-GATCTTATCTCTCTAAAG
*
45013378 ATTACAGAGGAGCGGATTAAGATAAAGGATTTTATCTCTCTAAAG
1 -TTACAGAGGAGCGGATTAAGATAAAGGATCTTATCTCTCTAAAG
45013423 TTACAG
1 TTACAG
45013429 TAGAGTAGAT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
43 10 0.14
44 53 0.74
45 9 0.12
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (44 bp):
TTACAGAGGAGCGGATTAAGATAAAGGATCTTATCTCTCTAAAG
Found at i:45015041 original size:25 final size:28
Alignment explanation
Indices: 45015001--45015059 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
45014991 TAATATTAAT
45015001 TTATTATTATTTGTT-ATTTTC-ATTA-
1 TTATTATTATTTGTTAATTTTCGATTAC
45015026 TTATTA-TATTTGGTTACATTTTCGATTAC
1 TTATTATTATTT-GTTA-ATTTTCGATTAC
45015055 TTATT
1 TTATT
45015060 CTTAAATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.17
25 9 0.31
27 6 0.21
28 4 0.14
29 5 0.17
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.63
Consensus pattern (28 bp):
TTATTATTATTTGTTAATTTTCGATTAC
Found at i:45015138 original size:14 final size:13
Alignment explanation
Indices: 45015106--45015144 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
45015096 GACGAATTAC
45015106 TTTTTTATAATAT
1 TTTTTTATAATAT
45015119 TTTTTTATAACT-T
1 TTTTTTATAA-TAT
45015132 TTATTTTATAATA
1 TT-TTTTATAATA
45015145 GACTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTTATAATAT
Done.