Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 76 of 335
Found at i:25504420 original size:50 final size:50
Alignment explanation
Indices: 25504345--25504493 Score: 178
Period size: 50 Copynumber: 3.0 Consensus size: 50
25504335 ATGAGCGTCT
* * * * *
25504345 CGATAATAGGCTCTTATGAGCTTCCC-ATTATTTCGCTCTCTGGAGCTTCC
1 CGATAATTGGCTTTTATGAGCTTCCCGATTA-ATAGCTCTCCGGAGCTTCC
*
25504395 CGATAATTGGCTTTTATGAGCTTCCCGATTAATAGCTTTCCGGAGCTTCC
1 CGATAATTGGCTTTTATGAGCTTCCCGATTAATAGCTCTCCGGAGCTTCC
* * **
25504445 CGAT-ATTGGCTTGTATGAGCTTCCCG-TTAATGGCTCTCCAAAGCTTCC
1 CGATAATTGGCTTTTATGAGCTTCCCGATTAATAGCTCTCCGGAGCTTCC
25504493 C
1 C
25504494 ATTACATGGC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
48 19 0.22
49 21 0.24
50 43 0.49
51 4 0.05
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (50 bp):
CGATAATTGGCTTTTATGAGCTTCCCGATTAATAGCTCTCCGGAGCTTCC
Found at i:25504464 original size:24 final size:23
Alignment explanation
Indices: 25504333--25504479 Score: 98
Period size: 25 Copynumber: 6.0 Consensus size: 23
25504323 ACCACAACTC
* *
25504333 TTATGAGCGTCTCGATAATAGGCT
1 TTATGAGCTTCCCGATAAT-GGCT
* *
25504357 CTTATGAGCTTCCC-ATTATTTCGCT
1 -TTATGAGCTTCCCGA-TA-ATGGCT
* *
25504382 CTCTGGAGCTTCCCGATAATTGGCTT
1 TTAT-GAGCTTCCCGATAA-TGGC-T
*
25504408 TTATGAGCTTCCCGATTAATAGCT
1 TTATGAGCTTCCCGA-TAATGGCT
** *
25504432 TTCCGGAGCTTCCCGATATTGGCT
1 TT-ATGAGCTTCCCGATAATGGCT
*
25504456 TGTATGAGCTTCCCGTTAATGGCT
1 T-TATGAGCTTCCCGATAATGGCT
25504480 CTCCAAAGCT
Statistics
Matches: 94, Mismatches: 19, Indels: 19
0.71 0.14 0.14
Matches are distributed among these distances:
24 30 0.32
25 56 0.60
26 8 0.09
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (23 bp):
TTATGAGCTTCCCGATAATGGCT
Found at i:25504504 original size:49 final size:48
Alignment explanation
Indices: 25504388--25504531 Score: 146
Period size: 49 Copynumber: 2.9 Consensus size: 48
25504378 CGCTCTCTGG
* * * **
25504388 AGCTTCCCGATAATTGGCTTTTATGAGCTTCCCGATTAATAGCTTTCCGG
1 AGCTTCCCGATAA-TGGCTTATATGAGCTTCCCG-TTAATGGCTCTCCAA
* *
25504438 AGCTTCCCGATATTGGCTTGTATGAGCTTCCCGTTAATGGCTCTCCAA
1 AGCTTCCCGATAATGGCTTATATGAGCTTCCCGTTAATGGCTCTCCAA
* * *
25504486 AGCTTCCC-ATTACATGGCTCACATGAGCTTCCCGTTTATGTGCTCT
1 AGCTTCCCGA-TA-ATGGCTTATATGAGCTTCCCGTTAATG-GCTCT
25504532 TATGAGCATT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
47 1 0.01
48 21 0.26
49 41 0.51
50 17 0.21
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (48 bp):
AGCTTCCCGATAATGGCTTATATGAGCTTCCCGTTAATGGCTCTCCAA
Found at i:25504530 original size:25 final size:25
Alignment explanation
Indices: 25504387--25504531 Score: 84
Period size: 25 Copynumber: 5.8 Consensus size: 25
25504377 TCGCTCTCTG
* **
25504387 GAGCTTCCCGATAATTGGCT-TTTAT
1 GAGCTTCCCGTTAA-TGGCTCTACAT
* * **
25504412 GAGCTTCCCGATTAATAGCT-TTCCG
1 GAGCTTCCCG-TTAATGGCTCTACAT
* * **
25504437 GAGCTTCCCGATATTGGCT-TGTAT
1 GAGCTTCCCGTTAATGGCTCTACAT
*
25504461 GAGCTTCCCGTTAATGGCTCTCCA-
1 GAGCTTCCCGTTAATGGCTCTACAT
* *
25504485 AAGCTTCCCATTACATGGCTC-ACAT
1 GAGCTTCCCGTTA-ATGGCTCTACAT
*
25504510 GAGCTTCCCGTTTATGTGCTCT
1 GAGCTTCCCGTTAATG-GCTCT
25504532 TATGAGCATT
Statistics
Matches: 92, Mismatches: 22, Indels: 11
0.74 0.18 0.09
Matches are distributed among these distances:
24 40 0.43
25 49 0.53
26 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTAATGGCTCTACAT
Found at i:25504936 original size:25 final size:25
Alignment explanation
Indices: 25504907--25504956 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25504897 AATTGGTAAG
25504907 TTAAATTCAATGTTATACGAACTTA
1 TTAAATTCAATGTTATACGAACTTA
25504932 TTAAATTCAATGTTATACGAACTTA
1 TTAAATTCAATGTTATACGAACTTA
25504957 CTAAGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (25 bp):
TTAAATTCAATGTTATACGAACTTA
Found at i:25509408 original size:20 final size:20
Alignment explanation
Indices: 25509379--25509416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25509369 GAGAAAAAGT
*
25509379 TGAAAAAAAATGAAAAGAAA
1 TGAAAAAAAATAAAAAGAAA
*
25509399 TGAAAGAAAATAAAAAGA
1 TGAAAAAAAATAAAAAGA
25509417 TAATCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
TGAAAAAAAATAAAAAGAAA
Found at i:25512259 original size:40 final size:40
Alignment explanation
Indices: 25512204--25512344 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
25512194 TGAATGATAC
* *
25512204 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
25512244 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * *
25512284 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
*
25512324 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
25512345 ATTGCGCTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 92 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:25512361 original size:80 final size:80
Alignment explanation
Indices: 25512204--25512371 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
25512194 TGAATGATAC
* * * * *
25512204 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTA
* *
25512269 TGCGAGTTGTTATAT
66 CGCGAGTGGTTATAT
* *
25512284 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATT
* **
25512348 GCGCTTGTGGTTATAT
65 ACGCGAGTGGTTATAT
25512364 CC-GGCTAA
1 CCGGGCTAA
25512372 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 67 0.89
81 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTA
CGCGAGTGGTTATAT
Found at i:25512639 original size:40 final size:40
Alignment explanation
Indices: 25512595--25512675 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
25512585 ATGATTATGA
25512595 GAATGTGTATTACTAAAGTGATCCATTTAGCTATGTGAAT
1 GAATGTGTATTACTAAAGTGATCCATTTAGCTATGTGAAT
25512635 GAATGTGTATTACTAAAGTGATCCATTTAGCTATGTGAAT
1 GAATGTGTATTACTAAAGTGATCCATTTAGCTATGTGAAT
25512675 G
1 G
25512676 TAATACTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (40 bp):
GAATGTGTATTACTAAAGTGATCCATTTAGCTATGTGAAT
Found at i:25513880 original size:8 final size:8
Alignment explanation
Indices: 25513867--25513891 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25513857 ATTAGGGACT
25513867 AAAATGTG
1 AAAATGTG
25513875 AAAATGTG
1 AAAATGTG
25513883 AAAATGTG
1 AAAATGTG
25513891 A
1 A
25513892 GGGGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:25514368 original size:42 final size:43
Alignment explanation
Indices: 25514267--25514415 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 43
25514257 ATGTGTTTTT
** * * * *
25514267 GTGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTAG
1 GTGTAAGACCATGTCTGGGACATCGGCATCGA-TATTTGA-TTAC
* * *
25514311 GTGTAAGACCATGTCTGGGTCATCGGCATCG-TGTTTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATATTTGATTAC
* *
25514353 GTGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATATTTGATTAC
*
25514396 ATGTAAGACCATGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
25514416 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.35
43 31 0.35
44 26 0.30
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATATTTGATTAC
Found at i:25514391 original size:43 final size:43
Alignment explanation
Indices: 25514253--25514424 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
25514243 ACATAGGATC
* * * ** *
25514253 CGATATGTGTTTTTGTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
* * * *
25514296 CGACT-TATGATTTAGGTGTAAGACCATGTCTGGGTCATCGGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACATTGGCAT
* *
25514340 CG-TGTTTGATTTCGTGTAAGACCCTGTCTGGGACATTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
* * **
25514382 CGATATTTGATTACATGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
25514425 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 29 0.27
43 50 0.47
44 27 0.25
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
Found at i:25521033 original size:28 final size:28
Alignment explanation
Indices: 25521001--25521069 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
25520991 GCGTAGATCA
25521001 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
25521029 CGAAATTACCCCTAAAGAGTAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAC
25521057 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
25521070 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:25527804 original size:18 final size:18
Alignment explanation
Indices: 25527783--25527818 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25527773 TATTACTTTA
25527783 GCAATTT-TTATTTTTATT
1 GCAATTTATT-TTTTTATT
25527801 GCAATTTATTTTTTTATT
1 GCAATTTATTTTTTTATT
25527819 TTTATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
GCAATTTATTTTTTTATT
Found at i:25527838 original size:24 final size:24
Alignment explanation
Indices: 25527785--25527839 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
25527775 TTACTTTAGC
25527785 AATTTTTATTTTTATTGCAATTTAT
1 AATTTTTATTTTTATT-CAATTTAT
* *
25527810 -TTTTTTATTTTTATT-TATTTACT
1 AATTTTTATTTTTATTCAATTTA-T
25527833 AATTTTT
1 AATTTTT
25527840 CTCCCTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.20
23 1 0.04
24 19 0.76
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
AATTTTTATTTTTATTCAATTTAT
Found at i:25531163 original size:3 final size:3
Alignment explanation
Indices: 25531155--25531188 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
25531145 TTCTTAGTAT
*
25531155 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25531189 CATTTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25533451 original size:31 final size:31
Alignment explanation
Indices: 25533298--25533447 Score: 264
Period size: 31 Copynumber: 4.8 Consensus size: 31
25533288 AAAGTCCTTC
25533298 CATAAATCATATCACTGGGCCGAAGCATTTT
1 CATAAATCATATCACTGGGCCGAAGCATTTT
25533329 CATAAATCATATCACTGGGCCGAAGCATTTT
1 CATAAATCATATCACTGGGCCGAAGCATTTT
* * *
25533360 CATAAATCATCTCACTGGGCTGAAGCTTTTT
1 CATAAATCATATCACTGGGCCGAAGCATTTT
*
25533391 CATAAATCATATCACTGGGCCGAAGCCTTTT
1 CATAAATCATATCACTGGGCCGAAGCATTTT
25533422 CATAAATCATATCACTGGGCCGAAGC
1 CATAAATCATATCACTGGGCCGAAGC
25533448 CTTTACTGTA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
CATAAATCATATCACTGGGCCGAAGCATTTT
Found at i:25533524 original size:42 final size:42
Alignment explanation
Indices: 25533477--25533566 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
25533467 GCCCTTAGGA
* *
25533477 CCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGC
1 CCATTTCAATAACACATGTAATGTCAATGAATGTATGCAAGC
25533519 CCATTTCAATAACACATGTAATGTCAATGAATGTATGCAAGC
1 CCATTTCAATAACACATGTAATGTCAATGAATGTATGCAAGC
25533561 CCATTT
1 CCATTT
25533567 TGGGAAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
CCATTTCAATAACACATGTAATGTCAATGAATGTATGCAAGC
Found at i:25533739 original size:24 final size:25
Alignment explanation
Indices: 25533714--25533781 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
25533704 CTCTTTTAAT
25533714 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
25533739 AACT-GGGCAAA-CCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
25533762 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
25533782 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.26
24 17 0.45
25 11 0.29
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:25533840 original size:15 final size:16
Alignment explanation
Indices: 25533813--25533842 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25533803 ACCATATCCC
25533813 ATGCAATATGTCATGT
1 ATGCAATATGTCATGT
25533829 ATGCAA-ATGTCATG
1 ATGCAATATGTCATG
25533843 CCCATATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (16 bp):
ATGCAATATGTCATGT
Found at i:25534613 original size:27 final size:27
Alignment explanation
Indices: 25534583--25534647 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25534573 GGGCATATTC
25534583 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
25534610 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
25534637 GTCTTTTTACC
1 GTCATTTTACC
25534648 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:25534730 original size:27 final size:27
Alignment explanation
Indices: 25534700--25534877 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
25534690 GTAAATCTAC
*
25534700 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
25534727 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTAT
* * *
25534753 AAAAGTCAAGGGTATTTCTGTAATTTTTT
1 -AAA-CCAAGGGTATTTCAGTAATTTTAT
** * **
25534782 AAATTAGGGGTATTTTTGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
25534809 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
25534836 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* *
25534863 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
25534878 TGGTAATCCT
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.02
27 98 0.78
28 23 0.18
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:25534794 original size:55 final size:54
Alignment explanation
Indices: 25534704--25534832 Score: 134
Period size: 55 Copynumber: 2.4 Consensus size: 54
25534694 ATCTACAAAC
*
25534704 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT-TAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTAT-AAA-T
* * ** * * *
25534759 CAAGGGTATTTCTGTAATTTTTTAAATTAGGGGTATTTTTGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTATAAAT
** *
25534813 TGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
25534833 CACAAACCAG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 18 0.29
55 43 0.69
56 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTATAAAT
Found at i:25534901 original size:81 final size:81
Alignment explanation
Indices: 25534763--25534918 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
25534753 AAAAGTCAAG
* ** * * ** * *
25534763 GGTATTTCTGTAATTTTTTAAATTAGGGGTATTTTTGTAATTTTATAAATTGAGGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATCCTATAAATAGAGGGTATTTCAGT
25534828 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
**
25534844 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATCCTATCCTATAG-GGGTATTTCAG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATCCTAT-AAATAGAGGGTATTTCAG
25534908 TAATTTCACAA
65 TAATTTCACAA
25534919 TCTAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 60 0.95
82 3 0.05
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATCCTATAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:25534924 original size:27 final size:27
Alignment explanation
Indices: 25534762--25534925 Score: 111
Period size: 27 Copynumber: 6.1 Consensus size: 27
25534752 TAAAAGTCAA
* *** *
25534762 GGGTATTTCTGTAATTTTTTAAATTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
** * * *
25534789 GGGTATTTTTGTAATTTTATAAA-TTG
1 GGGTATTTCGGTAATTTCACAAACTAG
*
25534815 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTCGGTAATTTCACAAACTAG
* *
25534843 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
25534870 GGGTATTTTGGTAATCCTATC-C-TA-TAG
1 GGGTATTTCGGTAAT--T-TCACAAACTAG
* *
25534897 GGGTATTTCAGTAATTTCACAATCTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
25534924 GG
1 GG
25534926 TAAAATGGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 2 0.02
27 98 0.90
28 2 0.02
29 2 0.02
30 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:25534947 original size:27 final size:27
Alignment explanation
Indices: 25534917--25535086 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
25534907 GTAATTTCAC
* * *
25534917 AATCTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
25534944 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
25534971 AATCGAGGGTAAAA-TGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
25534997 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
25535024 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
25535051 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
25535078 AATCGAGGG
1 AATCGAGGG
25535087 CATTTCAGTA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.19
27 104 0.81
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:25534981 original size:80 final size:80
Alignment explanation
Indices: 25534917--25535086 Score: 286
Period size: 80 Copynumber: 2.1 Consensus size: 80
25534907 GTAATTTCAC
* * *
25534917 AATCTAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
25534982 AAATGTAATTCTATA
66 AAATGTAATTCTATA
*
25534997 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
25535062 AAATGGTAATTCTACA
66 AAAT-GTAATTCTATA
25535078 AATCGAGGG
1 AATCGAGGG
25535087 CATTTCAGTA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 65 0.77
81 19 0.23
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (80 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAATGTAATTCTATA
Found at i:25535099 original size:54 final size:53
Alignment explanation
Indices: 25534933--25535086 Score: 195
Period size: 53 Copynumber: 2.9 Consensus size: 53
25534923 GGGTAAAATG
* * *
25534933 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG-TAAAA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGATAACA
* *
25534985 TGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG-TGAAACG
1 -GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGAT--AACA
* **
25535040 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
25535087 CATTTCAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 45 0.50
54 43 0.48
55 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (53 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGATAACA
Found at i:25537359 original size:31 final size:31
Alignment explanation
Indices: 25537318--25537401 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
25537308 TTAGTCTTGA
*
25537318 CATAT-ACTGGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
25537348 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
25537379 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
25537402 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:25537476 original size:42 final size:42
Alignment explanation
Indices: 25537429--25537516 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
25537419 CCTTAGGACT
*
25537429 ATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
* *
25537471 ATTTCAATATCGCATGTAATGTCAATGAATGTATGCAAGCCT
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
25537513 ATTT
1 ATTT
25537517 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (42 bp):
ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
Found at i:25537721 original size:25 final size:26
Alignment explanation
Indices: 25537664--25537733 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
25537654 CTCTTTTAAT
*
25537664 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGTCAAAGCCCTTTTCTGATA
*
25537689 AACTGGGTCAAAGCCCTTTTC-GGTA
1 AACTGGGTCAAAGCCCTTTTCTGATA
* *
25537714 AACTGGGTCAGAGCCTTTTT
1 AACTGGGTCAAAGCCCTTTT
25537734 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGTCAAAGCCCTTTTCTGATA
Found at i:25538572 original size:27 final size:27
Alignment explanation
Indices: 25538542--25538606 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
25538532 GGGCATATTC
25538542 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
25538569 GTCACTTTACCCTGCAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
25538596 GTCTTTTTACC
1 GTCATTTTACC
25538607 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:25538690 original size:27 final size:27
Alignment explanation
Indices: 25538660--25538755 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 27
25538650 GTAAATCTAC
25538660 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
25538687 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
25538713 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
25538743 AAATCAGGGGTAT
1 AAACCAAGGGTAT
25538756 GTTGGTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.02
27 31 0.54
28 7 0.12
29 17 0.30
30 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:25538773 original size:27 final size:27
Alignment explanation
Indices: 25538709--25538773 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
25538699 TTTCTATAAT
* * *
25538709 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAAGGGTATGTTGGTAA
** *
25538737 TTTTGTAAATCAGGGGTATGTTGGTAA
1 TTTTACAAATCAAGGGTATGTTGGTAA
25538764 TTTTACAAAT
1 TTTTACAAAT
25538774 TGAGGTTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 23 0.77
28 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.43
Consensus pattern (27 bp):
TTTTACAAATCAAGGGTATGTTGGTAA
Found at i:25538906 original size:27 final size:27
Alignment explanation
Indices: 25538876--25539046 Score: 216
Period size: 27 Copynumber: 6.3 Consensus size: 27
25538866 GTAATTTCAC
* *
25538876 AATCTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
25538903 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
25538930 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
25538957 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
25538984 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
25539011 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
25539038 AATCGAGGG
1 AATCGAGGG
25539047 CATTTCAGTA
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:25538944 original size:54 final size:54
Alignment explanation
Indices: 25538876--25539046 Score: 243
Period size: 54 Copynumber: 3.2 Consensus size: 54
25538866 GTAATTTCAC
* * *
25538876 AATCTAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
*
25538930 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * * * * **
25538984 AATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
25539038 AATCGAGGG
1 AATCGAGGG
25539047 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
Found at i:25538979 original size:81 final size:81
Alignment explanation
Indices: 25538876--25539046 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 81
25538866 GTAATTTCAC
* * * *
25538876 AATCTAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTA
* *
25538941 AAATGGTAATTTTATA
66 AAATGGTAATTCTACA
* *
25538957 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTA
25539022 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
25539038 AATCGAGGG
1 AATCGAGGG
25539047 CATTTCAGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTA
AAATGGTAATTCTACA
Found at i:25539058 original size:81 final size:81
Alignment explanation
Indices: 25538892--25539066 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
25538882 GGGTAAAATG
* * * *
25538892 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
* *
25538957 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
25538973 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
***
25539038 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
25539054 GTAATTTGGTAAA
1 GTAATTTTGTAAA
25539067 CTAAAGTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:25540380 original size:6 final size:6
Alignment explanation
Indices: 25540365--25540413 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
25540355 ATTGAGTCCA
* * *
25540365 TTTATC TTTATG TTTATT TTTATT TTTATT TTTA-T TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
25540412 TT
1 TT
25540414 GTTTTCCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:25540392 original size:18 final size:17
Alignment explanation
Indices: 25540365--25540413 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
25540355 ATTGAGTCCA
*
25540365 TTTATCTTTATGTTTATT
1 TTTATCTTTATTTTTA-T
*
25540383 TTTATTTTTATTTTTAT
1 TTTATCTTTATTTTTAT
*
25540400 TTTATGTTTATTTT
1 TTTATCTTTATTTT
25540414 GTTTTCCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTATCTTTATTTTTAT
Found at i:25540426 original size:29 final size:30
Alignment explanation
Indices: 25540365--25540439 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
25540355 ATTGAGTCCA
*
25540365 TTTATCTTTATGTTTATTTTTATTTTTATT
1 TTTATCTTTATGTTTATTTTTATTTCTATT
25540395 TTTAT-TTTATGTTTATTTTGT-TTTCCTATT
1 TTTATCTTTATGTTTATTTT-TATTT-CTATT
* *
25540425 TTGAGCTTTAT-TTTA
1 TTTATCTTTATGTTTA
25540440 ATTATTATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 17 0.44
30 17 0.44
31 5 0.13
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (30 bp):
TTTATCTTTATGTTTATTTTTATTTCTATT
Found at i:25548781 original size:39 final size:39
Alignment explanation
Indices: 25548727--25548824 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
25548717 ACATTCAGTG
*
25548727 ATTATATCCGGACTTAAAGTCTGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAAGTCTGCAGGCTACGTGCTGGA
*
25548766 ATTATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGA
1 ATTATATCCGGACTTAAAGTCTGCAGGCTACGTGCTGGA
* * *
25548805 AATATGTCCGGGC-TAAAGTC
1 ATTATATCCGGACTTAAAGTC
25548825 CCGTAGGCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.11
39 47 0.89
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAAGTCTGCAGGCTACGTGCTGGA
Found at i:25552293 original size:22 final size:23
Alignment explanation
Indices: 25552267--25552310 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25552257 AACCAAACCA
25552267 ATTCA-ACATATTT-TCAAGATAT
1 ATTCATACATATTTAT-AAGATAT
*
25552289 ATTCATGCATATTTATAAGATA
1 ATTCATACATATTTATAAGATA
25552311 ACGTCATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 13 0.68
24 1 0.05
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTCATACATATTTATAAGATAT
Found at i:25561292 original size:40 final size:40
Alignment explanation
Indices: 25561247--25561414 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
25561237 CGGAATATAA
25561247 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25561287 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25561327 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
25561367 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25561407 CCGGATAT
1 CCGGATAT
25561415 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25561397 original size:80 final size:80
Alignment explanation
Indices: 25561263--25561412 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
25561253 ATAACCACGT
* *
25561263 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
25561328 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
25561343 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
25561406 CCCGGAT
64 CCCGGAT
25561413 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:25567059 original size:14 final size:15
Alignment explanation
Indices: 25567026--25567059 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25567016 TTTCTTCTTT
25567026 TTTTTTTTGGGTTAG
1 TTTTTTTTGGGTTAG
*
25567041 GTTTTTTTGGG-TAG
1 TTTTTTTTGGGTTAG
25567055 TTTTT
1 TTTTT
25567060 CTTTTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (15 bp):
TTTTTTTTGGGTTAG
Found at i:25567075 original size:17 final size:17
Alignment explanation
Indices: 25567055--25567090 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
25567045 TTTTGGGTAG
25567055 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
25567072 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
25567089 TT
1 TT
25567091 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:25567085 original size:12 final size:11
Alignment explanation
Indices: 25567055--25567088 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
25567045 TTTTGGGTAG
25567055 TTTTTCTTTTTC
1 TTTTT-TTTTTC
25567067 TTTTTTTTTTC
1 TTTTTTTTTTC
25567078 TTTGTTTTTTT
1 TTT-TTTTTTT
25567089 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:25567846 original size:88 final size:83
Alignment explanation
Indices: 25567739--25568315 Score: 299
Period size: 88 Copynumber: 7.0 Consensus size: 83
25567729 AACAGACATT
** * *
25567739 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
25567804 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
25567827 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
25567891 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
25567910 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
25567971 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
25567993 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
25568058 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * *
25568081 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
25568146 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
25568164 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
25568224 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * *
25568241 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGG-TCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
25568301 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
25568316 CAGAAATTGA
Statistics
Matches: 384, Mismatches: 68, Indels: 85
0.72 0.13 0.16
Matches are distributed among these distances:
75 7 0.02
76 29 0.08
77 22 0.06
79 64 0.17
80 3 0.01
81 11 0.03
82 38 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 6 0.02
87 19 0.05
88 115 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:25567943 original size:30 final size:30
Alignment explanation
Indices: 25567907--25567968 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
25567897 TTTTGAAAAA
25567907 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
25567937 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
25567967 CA
1 CA
25567969 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:25568087 original size:14 final size:14
Alignment explanation
Indices: 25568064--25568098 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25568054 TGAGTTGATT
25568064 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
25568077 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
25568091 TTTGAAAA
1 TTTGAAAA
25568099 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:25568398 original size:72 final size:73
Alignment explanation
Indices: 25568116--25568645 Score: 411
Period size: 72 Copynumber: 6.8 Consensus size: 73
25568106 ACATGTAACC
* * * *
25568116 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
25568181 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
25568194 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
25568259 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* *
25568272 CAAGG-TCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
25568336 ACGTGTCT
66 GCGTGTCT
* ** * * *
25568344 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
25568408 GCGTGTCC
66 GCGTGTCT
*
25568416 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAATGCAGAAATTGAAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTTGAAA-ACAGAAATTG----
** ** *
25568481 ATGGAAATTGAAAATACCTCGACGTGTGAT
55 A---AAA-T--ACCT-CAGC---GTGT-CT
* * *
25568511 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
25568576 CAGCGTGTC-
64 CAGCGTGTCT
* *
25568585 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
25568646 ACGGAAATTG
Statistics
Matches: 366, Mismatches: 54, Indels: 67
0.75 0.11 0.14
Matches are distributed among these distances:
71 1 0.00
72 69 0.19
73 24 0.07
74 64 0.17
75 21 0.06
76 31 0.08
77 14 0.04
78 5 0.01
79 59 0.16
80 11 0.03
82 1 0.00
83 2 0.01
84 1 0.00
86 1 0.00
87 2 0.01
88 1 0.00
90 11 0.03
91 11 0.03
94 4 0.01
95 1 0.00
96 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:25568596 original size:170 final size:168
Alignment explanation
Indices: 25568312--25568788 Score: 725
Period size: 165 Copynumber: 2.9 Consensus size: 168
25568302 TGATTTTTTG
* * * ** * *
25568312 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
25568375 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
25568439 ATATGAGTTGATTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA-TTTTTTTTTTTGAAAGGCAAAAATTGA
*
25568478 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
25568543 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
25568608 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
25568643 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
25568708 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
25568773 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
25568789 GAAAAAGTAG
Statistics
Matches: 284, Mismatches: 19, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
165 157 0.55
166 27 0.10
167 1 0.00
168 30 0.11
170 69 0.24
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:25568607 original size:74 final size:75
Alignment explanation
Indices: 25568484--25568645 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
25568474 TTGAAAAATG
*
25568484 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
25568549 TTTTGACAACA
65 TTTTGACAACA
* * *
25568560 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
25568623 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
25568635 AAAATTGAAAA
1 GAAATTGAAAA
25568646 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:25568774 original size:74 final size:75
Alignment explanation
Indices: 25568649--25568788 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
25568639 TTGAAAAACG
* *
25568649 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
25568714 TTTTGACAACA
65 TTTTGACAACA
* * *
25568725 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
25568789 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:25568977 original size:212 final size:209
Alignment explanation
Indices: 25568588--25569190 Score: 654
Period size: 212 Copynumber: 2.9 Consensus size: 209
25568578 GCGTGTCCTG
* *
25568588 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAA--AAATTGAAAAACGGA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGA---TTTTG-AA--CAACTAAATTG-AAAACAGA
* * * *
25568651 AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTT
59 AATTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*** * *
25568716 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
121 AAAAC-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
25568781 TTGATTTTGAAAAAGTAGAAATTAAA
185 TTGATTTTGAAAAA-CAAAAATTAAA
25568807 AGG-TTCAAC-CTACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAAT
1 AGGCTT-AACTC-ACCTCTCGCAATATGAGTTGATT-TTGAACAAC-TAAATTGAAAACAGAAAT
**
25568870 TGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACA
62 TGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACA
* * *
25568935 CAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
127 CAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
25569000 TGAAAAACAAAAATTAAA
192 TGAAAAACAAAAATTAAA
* * *
25569018 AGGCTTAACTCACCTCTCGCAATATGA---G----T---CAA-T---TT-AAAACATAAACTAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACTAAATTGAAAACAGAAATTGAA
* * * *
25569068 AATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAA-AC-AA
66 AATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACACAAA
* * * *
25569131 AATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
131 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
25569191 AAAACACAAA
Statistics
Matches: 342, Mismatches: 34, Indels: 43
0.82 0.08 0.10
Matches are distributed among these distances:
192 55 0.16
193 2 0.01
194 65 0.19
195 2 0.01
198 1 0.00
200 3 0.01
203 1 0.00
208 1 0.00
211 31 0.09
212 71 0.21
213 4 0.01
214 40 0.12
216 28 0.08
217 9 0.03
218 2 0.01
219 27 0.08
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (209 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACTAAATTGAAAACAGAAATTGAA
AATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACACAAA
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
AAACAAAAATTAAA
Found at i:25568987 original size:72 final size:71
Alignment explanation
Indices: 25568853--25569018 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
25568843 TGAACAACGT
* * * *
25568853 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
25568918 GAGTTG
66 GAGTTG
*
25568924 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
25568989 TGAGTTG
65 TGAGTTG
**
25568996 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
25569019 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:25569164 original size:70 final size:71
Alignment explanation
Indices: 25569018--25569280 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
25569008 AAAAATTAAA
* * * * *
25569018 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
25569081 GCCCCG
66 GCCCCG
* *
25569087 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAC-AAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
25569151 GTCTTG
66 GCCCCG
* * *
25569157 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
25569220 TGCCCCG
65 TGCCCCG
*
25569227 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
25569281 GGCTTAACTC
Statistics
Matches: 165, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
68 5 0.03
69 28 0.17
70 110 0.67
71 5 0.03
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:25569231 original size:262 final size:256
Alignment explanation
Indices: 25568856--25569447 Score: 1040
Period size: 262 Copynumber: 2.3 Consensus size: 256
25568846 ACAACGTAAA
* * * * *
25568856 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACA-AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
25568921 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
65 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
25568986 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
128 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
25569051 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
193 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
25569116 TGATT
252 TGATT
25569121 TTGAAAACAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
1 TTGAAAACAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
25569186 TGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
66 TGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
25569251 TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
131 TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
*
25569316 AAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
25569377 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAA-AATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
25569442 TTGATT
65 TTGATT
25569448 TTCCTTGAAA
Statistics
Matches: 320, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
256 70 0.22
257 61 0.19
262 127 0.40
264 53 0.17
265 9 0.03
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (256 bp):
TTGAAAACAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
TGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:25576720 original size:19 final size:19
Alignment explanation
Indices: 25576696--25576733 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25576686 TAACATTAAG
*
25576696 AATATATATATATAATATA
1 AATATATATATACAATATA
25576715 AATATATATATACAATATA
1 AATATATATATACAATATA
25576734 CACATATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATATATATACAATATA
Found at i:25576731 original size:13 final size:13
Alignment explanation
Indices: 25576696--25576733 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
25576686 TAACATTAAG
*
25576696 AATATATATATAT
1 AATATAAATATAT
25576709 AATATAAATATAT
1 AATATAAATATAT
25576722 -ATATACAATATA
1 AATATA-AATATA
25576734 CACATATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAAATATAT
Found at i:25576740 original size:19 final size:19
Alignment explanation
Indices: 25576699--25576740 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25576689 CATTAAGAAT
* *
25576699 ATATATATATAATATAAAT
1 ATATATATACAATATAAAC
*
25576718 ATATATATACAATATACAC
1 ATATATATACAATATAAAC
25576737 ATAT
1 ATAT
25576741 GATAAAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATATACAATATAAAC
Found at i:25577594 original size:17 final size:17
Alignment explanation
Indices: 25577574--25577609 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
25577564 TTTTGGTAGG
25577574 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
25577591 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
25577608 TT
1 TT
25577610 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:25577604 original size:12 final size:11
Alignment explanation
Indices: 25577574--25577607 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
25577564 TTTTGGTAGG
25577574 TTTTTCTTTTTC
1 TTTTT-TTTTTC
25577586 TTTTTTTTTTC
1 TTTTTTTTTTC
25577597 TTTGTTTTTTT
1 TTT-TTTTTTT
25577608 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:25581286 original size:21 final size:20
Alignment explanation
Indices: 25581261--25581324 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
25581251 TAGCCTCCGG
25581261 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGC-CTTATGT
*
25581282 GCTTCAG-TTAGCCTTCA-G-
1 GCTTCCGTTTAGCCTT-ATGT
25581300 GCTTCCGTTTAGCTCTTATGT
1 GCTTCCGTTTAGC-CTTATGT
25581321 GCTT
1 GCTT
25581325 TAGCTAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 6 0.17
19 10 0.28
20 10 0.28
21 10 0.28
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCCTTATGT
Found at i:25581286 original size:39 final size:39
Alignment explanation
Indices: 25581243--25581324 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
25581233 GCTCTGATGA
*
25581243 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
* *
25581282 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCTCTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
25581321 GCTT
1 GCTT
25581325 TAGCTAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
Found at i:25581342 original size:39 final size:39
Alignment explanation
Indices: 25581243--25581343 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
25581233 GCTCTGATGA
* * *
25581243 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGCTAGACTTCGGGCTTCCGTTTAGCACTTATGT
* * * *
25581282 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCTCTTATGT
1 GCTTCAGCTAGACTTCGGGCTTCCGTTTAGCACTTATGT
* *
25581321 GCTTTAGCTAGATTTCGGGCTTC
1 GCTTCAGCTAGACTTCGGGCTTC
25581344 AGATCACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGCTAGACTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:25586956 original size:14 final size:14
Alignment explanation
Indices: 25586937--25586967 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25586927 ATCAAATGTA
25586937 TTTAAAAAATTAAT
1 TTTAAAAAATTAAT
25586951 TTTAAAAAATTAAT
1 TTTAAAAAATTAAT
25586965 TTT
1 TTT
25586968 CAGTTAATTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAAAAATTAAT
Found at i:25587996 original size:28 final size:28
Alignment explanation
Indices: 25587965--25588021 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25587955 ATATCAATTA
25587965 TAGGTAAGTATACATACGCTCTATTAAC
1 TAGGTAAGTATACATACGCTCTATTAAC
25587993 TAGGTAAGTATACATACGCTCTATTAAC
1 TAGGTAAGTATACATACGCTCTATTAAC
25588021 T
1 T
25588022 TGAATTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (28 bp):
TAGGTAAGTATACATACGCTCTATTAAC
Found at i:25589224 original size:35 final size:37
Alignment explanation
Indices: 25589160--25589230 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
25589150 AATATAGCTT
25589160 CCAGTGTCATGATTTCTTTTTAAGTTTTGTA-AATTAA
1 CCAGTGTCATGATTTC-TTTTAAGTTTTGTATAATTAA
25589197 CCAGTGTCATGATTTC-TTTAAGTTTTGTATAATT
1 CCAGTGTCATGATTTCTTTTAAGTTTTGTATAATT
25589231 TAGTTGTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 13 0.39
36 4 0.12
37 16 0.48
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.49
Consensus pattern (37 bp):
CCAGTGTCATGATTTCTTTTAAGTTTTGTATAATTAA
Found at i:25591827 original size:91 final size:88
Alignment explanation
Indices: 25591718--25591897 Score: 315
Period size: 91 Copynumber: 2.0 Consensus size: 88
25591708 TTGGAACTTT
*
25591718 GGATAATTGGAGCATGCCCCCACTGTGAGTAAAGACAATGTGATGCAGACGTAAATGGGGTAAAT
1 GGATAATTGGAGCATGCCCCCACTGTGAGTAAAGACAATGTGA--CAGACGAAAAT-GGGTAAAT
25591783 GCAGGAACGGGTTTAGATTTTAGAAG
63 GCAGGAACGGGTTTAGATTTTAGAAG
25591809 GGATAATTGGAGCATGCCCCCACTGTGAGTAAAGACAATGTGACAGACGAAAATGGGTAAATGCA
1 GGATAATTGGAGCATGCCCCCACTGTGAGTAAAGACAATGTGACAGACGAAAATGGGTAAATGCA
*
25591874 GTAACGGGTTTAGATTTTAGAAG
66 GGAACGGGTTTAGATTTTAGAAG
25591897 G
1 G
25591898 ATTTGCATGA
Statistics
Matches: 87, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
88 34 0.39
89 10 0.11
91 43 0.49
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (88 bp):
GGATAATTGGAGCATGCCCCCACTGTGAGTAAAGACAATGTGACAGACGAAAATGGGTAAATGCA
GGAACGGGTTTAGATTTTAGAAG
Found at i:25609451 original size:16 final size:16
Alignment explanation
Indices: 25609425--25609466 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
25609415 AAGAGTTTTG
*
25609425 AATTTAAGTTGAACTA
1 AATTGAAGTTGAACTA
*
25609441 TATTGAAGTTGAACTA
1 AATTGAAGTTGAACTA
*
25609457 AATTTAAGTT
1 AATTGAAGTT
25609467 TTGAATTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (16 bp):
AATTGAAGTTGAACTA
Found at i:25613828 original size:19 final size:18
Alignment explanation
Indices: 25613804--25613843 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
25613794 GTTCAAAACT
*
25613804 AAAAAATTAGAAATTATAA
1 AAAAAATTAAAAATT-TAA
25613823 AAAAAATTAAAAATTTAA
1 AAAAAATTAAAAATTTAA
25613841 AAA
1 AAA
25613844 CTAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAAATTAAAAATTTAA
Found at i:25613833 original size:27 final size:26
Alignment explanation
Indices: 25613798--25613853 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
25613788 AGATGAGTTC
* *
25613798 AAAACTAAAAAATTAGAAATTATAAAA
1 AAAACTAAAAAATTAAAAACTA-AAAA
* *
25613825 AAAATTAAAAATTTAAAAACTAAAAA
1 AAAACTAAAAAATTAAAAACTAAAAA
25613851 AAA
1 AAA
25613854 TAAAGTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAACTAAAAAATTAAAAACTAAAAA
Found at i:25615693 original size:8 final size:8
Alignment explanation
Indices: 25615680--25615710 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
25615670 GAAAAAGAGA
25615680 GAAGAAGG
1 GAAGAAGG
25615688 GAAGAAGG
1 GAAGAAGG
25615696 GAAGAAGG
1 GAAGAAGG
25615704 GAAGAAG
1 GAAGAAG
25615711 AAGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (8 bp):
GAAGAAGG
Found at i:25616302 original size:30 final size:31
Alignment explanation
Indices: 25616262--25616320 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
25616252 TTTTGTTAAA
25616262 ATAATATAAAAAAATAAAATATGAAAATAGT
1 ATAATATAAAAAAATAAAATATGAAAATAGT
*
25616293 ATAAT-TAAAAAAATAAAATTTGAAAATA
1 ATAATATAAAAAAATAAAATATGAAAATA
25616321 AAAAAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (31 bp):
ATAATATAAAAAAATAAAATATGAAAATAGT
Found at i:25616588 original size:30 final size:29
Alignment explanation
Indices: 25616542--25616602 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
25616532 TATGTACTAA
25616542 AATAATATAAAGAAATAAAAAACGAAAAT
1 AATAATATAAAGAAATAAAAAACGAAAAT
* *
25616571 AATATATATTAAA-AAATAATATACGAAAAT
1 AATA-ATA-TAAAGAAATAAAAAACGAAAAT
25616601 AA
1 AA
25616603 AAAAATTACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 20 0.71
31 4 0.14
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (29 bp):
AATAATATAAAGAAATAAAAAACGAAAAT
Found at i:25617005 original size:155 final size:149
Alignment explanation
Indices: 25616409--25617315 Score: 692
Period size: 145 Copynumber: 6.1 Consensus size: 149
25616399 TTTTATGCTG
* * *
25616409 AAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTG-CT
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACGAAAAAAGTGTC-
* ** * *
25616473 AAAATCAGGGTTATTTATTAAAAAATATAAAAA-A-TACT--TA-A-ATAATACATTTGAAGCAT
64 AAAATCAGAGTTATTTATTAAATTATATAAAAACACTACTAATATACATAATACATTTAAAACAT
25616532 TATGTACTAAAATAATATAAA
129 TATGTACTAAAATAATATAAA
* * * *
25616553 GAAATAAAAAACGAAAATAATATATATTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAA
1 -AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG------AAAAAA-TACGAAAAA
* * * * *
25616618 AGTATCAAAATCAGGGTTATTTAGTAAAAAACCCTTAATATAAAGAA-AC-AGT--TA-A-TTAA
58 AGTGTCAAAATCAGAGTTATTTA-T--TAAA---TT-ATATAAA-AACACTACTAATATACATAA
* ** * * *
25616677 TACATTT-GAATTTTTTTTGCTAAAATAATATAAA
115 TACATTTAAAACATTATGTACTAAAATAATATAAA
* * *
25616711 AAATAAAATAAGAAAA-AATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTG-CT
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACGAAAAAAGTGTC-
* * ** *
25616774 AAAATCAGGGATATTTATTGAAAAAATATAAAAA-A-TA-T--TGA-A-ATAATACATTTGAAAC
64 AAAATCAGAGTTATTTATT-AAATTATATAAAAACACTACTAAT-ATACATAATACATTTAAAAC
*
25616832 ATTATGTACTAAAATAATATGAAG
127 ATTATGTACTAAAATAATAT-AAA
*
25616856 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACGAAAAAAGTGTCAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAAAAAAGTGTCAA
*
25616921 AATCAGAGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACATAATACATTTGAAA
66 AATCAGAGTTATTTATTAAATTA-TAT--AAAAACAC-TAC-TAATATACATAATACATTTAAAA
* * *
25616986 CATTTTTTGCTAAAATAATATAAAA
126 CATTATGTACTAAAATAATAT-AAA
* * * * *
25617011 AAATAAAATAGGAAAAGAATATATTTTAAAAAATAATATACGAAAAAATATGAATAAAGTG-CTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAAAAAAGTGTC-A
* ** *
25617075 AAATCAGGGTTATTTATTAAAAAAATATTTAAAACACT--TAA-ATA-AT-AT--ATTTAAAACA
65 AAATCAGAGTTATTTATT-AAATTATA-TAAAAACACTACTAATATACATAATACATTTAAAACA
* *
25617133 TTATGTACTAAAATAAGGGTTTTAA
128 TTATGTACTAAAATAA---TATAAA
* *
25617158 AATTAAATAATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAAAAAA-ACG-AAAAAGTGTC
1 AAAT-AA-AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAAAAAAGTGTC
* *
25617219 AAAACCAGTGTTATTTATTAAATTATATAAAAA-A-TAC---T-TACATAATACATTTAAAACAT
64 AAAATCAGAGTTATTTATTAAATTATATAAAAACACTACTAATATACATAATACATTTAAAACAT
* *
25617278 T-TTTGCTAAAATAATATAAA
129 TATGTACTAAAATAATATAAA
*
25617298 AAATAATATACGAAAATA
1 AAATAAAATACGAAAATA
25617316 TTTTAATTAT
Statistics
Matches: 628, Mismatches: 82, Indels: 111
0.76 0.10 0.14
Matches are distributed among these distances:
138 10 0.02
139 2 0.00
140 9 0.01
141 3 0.00
142 5 0.01
143 32 0.05
144 47 0.07
145 140 0.22
146 27 0.04
147 25 0.04
148 19 0.03
149 19 0.03
150 39 0.06
151 35 0.06
152 3 0.00
153 2 0.00
154 13 0.02
155 110 0.18
156 29 0.05
157 14 0.02
158 27 0.04
159 18 0.03
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (149 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAAAAAAGTGTCAA
AATCAGAGTTATTTATTAAATTATATAAAAACACTACTAATATACATAATACATTTAAAACATTA
TGTACTAAAATAATATAAA
Found at i:25617056 original size:15 final size:14
Alignment explanation
Indices: 25616997--25617060 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
25616987 ATTTTTTGCT
25616997 AAAATAATATA-AA
1 AAAATAATATAGAA
*
25617010 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
25617025 AAGAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
25617040 AAAATAATATACGAA
1 AAAATAATATA-GAA
25617055 AAAATA
1 AAAATA
25617061 TGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:25617115 original size:21 final size:22
Alignment explanation
Indices: 25617091--25617132 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25617081 GGGTTATTTA
25617091 TTAAA-AAAATATTTAAAACAC
1 TTAAATAAAATATTTAAAACAC
*
25617112 TTAAATAATATATTTAAAACA
1 TTAAATAAAATATTTAAAACA
25617133 TTATGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATAAAATATTTAAAACAC
Found at i:25617120 original size:300 final size:293
Alignment explanation
Indices: 25616409--25617313 Score: 1105
Period size: 300 Copynumber: 3.1 Consensus size: 293
25616399 TTTTATGCTG
*
25616409 AAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAA-AATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
*
25616474 AAATCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAGCATTATGTAC
65 AAATCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTAC
* * *
25616539 TAAAATAATATAAAGAAATAAAAAACGAAAATAATATATATTAAAAAATAATATACGAAAATAAA
130 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAC------AAA
* * * * *
25616604 AAAATTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAAAAACCCTTAATATAAAGAAACAG
189 AAAA-TACGAAAAAAGTGTCAAAATCAGAGTTATTTA-T--TAAA---TT-ATATAAAAAAACA-
**
25616669 T--TA-AT---TAATACATTTG-AATTTTTTTTGCTAAAATAATATAAA
245 TACTATATACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA
*
25616711 AAATAAAATAAGAAAAAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAA
1 AAATAAAATACGAAAAAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAA
*
25616776 AATCAGGGATATTTATTGAAAAAATATAAAAAATA-TTGAAATAATACATTTGAAACATTATGTA
66 AATCAGGGTTATTTATT-AAAAAATATAAAAAATACTT-AAATAATACATTTGAAACATTATGTA
*
25616840 CTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
129 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
25616905 ACGAAAAAAGTGTCAAAATCAGAGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATA
194 ACGAAAAAAGTGTCAAAATCAGAGTTATTTATTAAATTA-TATAAAAAAACA--TAC-T-ATATA
25616970 CATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAA
254 CATAATACATTTGAAACATTTTTTGCTAAAATAATAT-AAA
* *
25617011 AAATAAAATAGGAAAAGAATATATTTTAAAAAATAATATACG-AAAAAATATGAATAAAGTGCTA
1 AAATAAAATACGAAAA-AATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
** * * *
25617075 AAATCAGGGTTATTTATTAAAAAAATATTTAAAACACTTAAATAATATATTTAAAACATTATGTA
65 AAATCAGGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTA
* * * * *
25617140 CTAAAATAAGGGTTTTAA-AATTAAATAATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAA
129 CTAAAATAA---TATAAAGAAAT-AA-AATACGAAAATAATATATTTTAAAAAATAAGATACAAA
* *
25617202 AAAA-ACG-AAAAAGTGTCAAAACCAGTGTTATTTATTAAATTATAT--AAAAA-ATAC--T-TA
189 AAAATACGAAAAAAGTGTCAAAATCAGAGTTATTTATTAAATTATATAAAAAAACATACTATATA
*
25617259 CATAATACATTTAAAACA-TTTTTGCTAAAATAATATAAA
254 CATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA
*
25617298 AAATAATATACGAAAA
1 AAATAAAATACGAAAA
25617314 TATTTTAATT
Statistics
Matches: 547, Mismatches: 35, Indels: 57
0.86 0.05 0.09
Matches are distributed among these distances:
287 17 0.03
288 19 0.03
289 32 0.06
290 2 0.00
292 3 0.01
293 1 0.00
294 5 0.01
295 31 0.06
296 8 0.01
297 5 0.01
298 11 0.02
299 24 0.04
300 136 0.25
301 97 0.18
302 125 0.23
303 15 0.03
304 16 0.03
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (293 bp):
AAATAAAATACGAAAAAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAA
AATCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACT
AAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAATAC
GAAAAAAGTGTCAAAATCAGAGTTATTTATTAAATTATATAAAAAAACATACTATATACATAATA
CATTTGAAACATTTTTTGCTAAAATAATATAAA
Found at i:25619272 original size:72 final size:72
Alignment explanation
Indices: 25619179--25619319 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
25619169 AGTCCGAGCG
* *
25619179 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACTATTTCTCGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCTCGG
25619244 GCTCGTC
66 GCTCGTC
* * * *
25619251 ATCGCATTCACTTTCGGCTGATACTTCTTATCATCCAGATTTTGCGGGCAATGACAATTTCTCGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCTCGG
25619316 GCTC
66 GCTC
25619320 ATCGGGGGGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCTCGG
GCTCGTC
Found at i:25623479 original size:15 final size:16
Alignment explanation
Indices: 25623460--25623521 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 16
25623450 TACCTTCTTT
25623460 TTTTCTTCTCCTTCT-
1 TTTTCTTCTCCTTCTA
*
25623475 TTTTCTTCCTTCTCTTCTC
1 TTTTCTT-C-TC-CTTCTA
* *
25623494 CTTTCTT-TCCTTTTA
1 TTTTCTTCTCCTTCTA
25623509 TTTTCTTCTCCTT
1 TTTTCTTCTCCTT
25623522 ACTGCTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 17 0.45
16 8 0.21
17 2 0.05
18 5 0.13
19 6 0.16
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCTTCTCCTTCTA
Found at i:25624111 original size:28 final size:29
Alignment explanation
Indices: 25624027--25624119 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
25624017 TGAAAATCCC
* * * *
25624027 TCTCACATCCCTTTCATCTAGACTCTTCG
1 TCTCTCATCTCTTTCATCAAGGCTCTTCG
* * *
25624056 TCTCTCATCTTTTTTATCAAAGCTCTTCG
1 TCTCTCATCTCTTTCATCAAGGCTCTTCG
* *
25624085 TTTCTCAT-TCTTTCATCAAGGCTCTTCA
1 TCTCTCATCTCTTTCATCAAGGCTCTTCG
25624113 TCTCTCA
1 TCTCTCA
25624120 ACTTGGCTGC
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 22 0.43
29 29 0.57
ACGTcount: A:0.17, C:0.32, G:0.06, T:0.44
Consensus pattern (29 bp):
TCTCTCATCTCTTTCATCAAGGCTCTTCG
Found at i:25627952 original size:15 final size:16
Alignment explanation
Indices: 25627925--25627954 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25627915 TCATTATTAA
25627925 TATTTTTTATAATTTC
1 TATTTTTTATAATTTC
25627941 TATTTTTT-TAATTT
1 TATTTTTTATAATTT
25627955 TGAACTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTTATAATTTC
Found at i:25630824 original size:14 final size:14
Alignment explanation
Indices: 25630792--25630855 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
25630782 AGAGAAAAGA
* *
25630792 TAAAACAAATGAG-
1 TAAAATAAATAAGC
*
25630805 TAAAATGAATAAGC
1 TAAAATAAATAAGC
*
25630819 TAAAATAAAAAAG-
1 TAAAATAAATAAGC
*
25630832 AAATAATAAATAAGC
1 TAA-AATAAATAAGC
25630847 TAAAA-AAAT
1 TAAAATAAAT
25630856 TGAAATTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 16 0.40
14 22 0.55
15 2 0.05
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (14 bp):
TAAAATAAATAAGC
Found at i:25631093 original size:17 final size:17
Alignment explanation
Indices: 25631067--25631100 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25631057 TATAGATGAA
25631067 AATATAATAGTAATAAT
1 AATATAATAGTAATAAT
*
25631084 AATATGATAGTAATAAT
1 AATATAATAGTAATAAT
25631101 GATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
AATATAATAGTAATAAT
Found at i:25631199 original size:3 final size:3
Alignment explanation
Indices: 25631191--25631612 Score: 254
Period size: 3 Copynumber: 138.7 Consensus size: 3
25631181 AATAAGGTGG
* * * * *
25631191 TAA TAA TAA CAA TAG CAA TAA CAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
25631239 TAA TAA TAA TAA TAA T-A TAT TGA TAA TAAA TAA TAA -AA GGAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* *
25631284 AAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * ** * *
25631330 GAA TAA CAA TACA TTAA TGA TAA TAA TATA TGT TGA TAA CAA TAA TAA
1 TAA TAA TAA TA-A -TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* ** * * *
25631378 T-A TAA -AA TAGGA -AA TAA TAG T-A TGC TAA TAA GAA TAG TAA TAGG
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *
25631422 TCAC TAA TAA CAA TAG TAA AAA GAA -AA TAAA TAA TAA TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* *
25631468 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGAA -AA TAA GAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * * * * *
25631513 TAA TAA TAA TAA TACCA TAAA TTA CAA TAG CAA -AG TAA TAA TAA TAG
1 TAA TAA TAA TAA TA--A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
25631560 TGA TAA TAA TAA T-A TAT TAGA CAA TAA TAG TAA -AA TAA TAA GTAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA
25631605 TAA TAA TA
1 TAA TAA TA
25631613 TATTAAATTA
Statistics
Matches: 319, Mismatches: 72, Indels: 56
0.71 0.16 0.13
Matches are distributed among these distances:
2 19 0.06
3 269 0.84
4 24 0.08
5 6 0.02
6 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:25635197 original size:54 final size:51
Alignment explanation
Indices: 25635114--25635267 Score: 145
Period size: 54 Copynumber: 3.0 Consensus size: 51
25635104 CCTCCCATGT
**
25635114 CCCTCTCTCTCTCCATCTTTAAATGAAATGTGTTTCCTTTGAAGCCCATAACA
1 CCCTCTCTCTCTCCATCTTTAAACCAAATGT-TTTCCTTTGAA-CCCATAACA
* * * *
25635167 CCCCTCCCTCTCTCTATCTTTAAACCAAATGCTTTT--TTGCGAAACCATAACA
1 -CCCTCTCTCTCTCCATCTTTAAACCAAATG-TTTTCCTT-TGAACCCATAACA
* *
25635219 -CCT-TCTCTCTCCAACTTTAAGCCAAATGTCTTTCCTTTGAAACCCATAA
1 CCCTCTCTCTCTCCATCTTTAAACCAAATGT-TTTCCTTTG-AACCCATAA
25635268 AAACAACTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
48 1 0.01
49 24 0.29
50 4 0.05
51 10 0.12
52 10 0.12
53 3 0.04
54 29 0.35
55 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.07, T:0.34
Consensus pattern (51 bp):
CCCTCTCTCTCTCCATCTTTAAACCAAATGTTTTCCTTTGAACCCATAACA
Found at i:25636184 original size:21 final size:19
Alignment explanation
Indices: 25636160--25636222 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 19
25636150 AAAATACACG
25636160 CATAATAATACTAAATATATA
1 CATAATAA-A-TAAATATATA
* *
25636181 CATACTAAATATATATATA
1 CATAATAAATAAATATATA
25636200 CATAGTATAAATAAATATATA
1 CATA--ATAAATAAATATATA
25636221 CA
1 CA
25636223 ATACATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 22 0.61
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
CATAATAAATAAATATATA
Found at i:25636187 original size:15 final size:15
Alignment explanation
Indices: 25636167--25636200 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25636157 ACGCATAATA
25636167 ATACTAAATATATAC
1 ATACTAAATATATAC
*
25636182 ATACTAAATATATAT
1 ATACTAAATATATAC
25636197 ATAC
1 ATAC
25636201 ATAGTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:25641699 original size:17 final size:17
Alignment explanation
Indices: 25641662--25641700 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25641652 TATTGAAAGT
* *
25641662 ATATATATACATAATAT
1 ATATATATACATAAAAC
*
25641679 ATATATATATATAAAAC
1 ATATATATACATAAAAC
25641696 ATATA
1 ATATA
25641701 CAATATATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATATACATAAAAC
Found at i:25641978 original size:21 final size:20
Alignment explanation
Indices: 25641939--25642029 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 20
25641929 TACTTCACAA
25641939 ATATATAT-ATACTA-AAAAT
1 ATATATATAATA-TATAAAAT
*
25641958 ATACATAATAATATATAAAAT
1 ATATAT-ATAATATATAAAAT
25641979 ATA-ATAT--TA-A-AAACAT
1 ATATATATAATATATAAA-AT
25641995 ATATATATAATATATGAAAAT
1 ATATATATAATATAT-AAAAT
25642016 ATATATATAATATA
1 ATATATATAATATA
25642030 ATATTAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 18
0.76 0.01 0.22
Matches are distributed among these distances:
15 3 0.05
16 6 0.10
17 6 0.10
19 9 0.15
20 7 0.11
21 27 0.44
22 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
ATATATATAATATATAAAAT
Found at i:25642038 original size:24 final size:24
Alignment explanation
Indices: 25642006--25642053 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25641996 TATATATAAT
25642006 ATATGAAAATATATATATAATATA
1 ATATGAAAATATATATATAATATA
* * *
25642030 ATATTAAAATATTTACATAATATA
1 ATATGAAAATATATATATAATATA
25642054 TACATATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATGAAAATATATATATAATATA
Found at i:25642362 original size:30 final size:32
Alignment explanation
Indices: 25642302--25642364 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
25642292 TAATAAATAC
* *
25642302 AATAAAATAATAAATATATAGAGATTATAATT
1 AATAAAATAATAAATATACAGAGATAATAATT
*
25642334 AATAATAATAATAAATA-ACAGAAAATAATAA
1 AATAA-AATAATAAATATACAG-AGATAATAA
25642365 CAAGTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (32 bp):
AATAAAATAATAAATATACAGAGATAATAATT
Found at i:25642948 original size:2 final size:2
Alignment explanation
Indices: 25642939--25642976 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
25642929 TTTTATGTGT
*
25642939 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25642977 GAGAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25644288 original size:74 final size:72
Alignment explanation
Indices: 25644168--25644394 Score: 275
Period size: 68 Copynumber: 3.2 Consensus size: 72
25644158 TAAATTAAAA
* *
25644168 AAAACAGAAACTGAAAATACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAAC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
25644232 TTGATTTTTG
63 TTGATTTTTG
* *
25644242 ACAAACAGAATATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A-AAACAGAA-ATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
25644307 TGATTTTT-
64 TGATTTTTG
* * * ** *
25644315 --AACA-AAATTGAAAATACCTCAACTTTTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTCG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
25644377 AATTTTG
66 ATTTTTG
25644384 AAAACAGAAAT
1 AAAACAGAAAT
25644395 AAAAACATCA
Statistics
Matches: 133, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
68 53 0.40
69 2 0.02
70 4 0.03
71 4 0.03
72 4 0.03
73 2 0.02
74 42 0.32
75 8 0.06
76 14 0.11
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:25652709 original size:4 final size:4
Alignment explanation
Indices: 25652700--25652739 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
25652690 TGGGATATGC
* *
25652700 AATG AATG AATG AATG AATG AATG AATG CATA AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
25652740 TTAGTCATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:25656380 original size:34 final size:34
Alignment explanation
Indices: 25656331--25656396 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
25656321 TAAATTCGGG
**
25656331 ATAGACAAATAATAAAAGGTTAAGAATATACGAA
1 ATAGACAAATAATAAAACATTAAGAATATACGAA
*
25656365 ATAGAC-AATATATAAAACATTAATAATATACG
1 ATAGACAAATA-ATAAAACATTAAGAATATACG
25656397 TGCGATAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (34 bp):
ATAGACAAATAATAAAACATTAAGAATATACGAA
Found at i:25656616 original size:21 final size:19
Alignment explanation
Indices: 25656592--25656652 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 19
25656582 AAAATACACG
25656592 CATAATAATACTGAATATATA
1 CATAATAA-A-TGAATATATA
*
25656613 CATACTAAAT-ATATATATA
1 CATAATAAATGA-ATATATA
25656632 CATAGTATAAATGAATATATA
1 CATA--ATAAATGAATATATA
25656653 TTTATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 12 0.35
20 1 0.03
21 19 0.56
22 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
CATAATAAATGAATATATA
Found at i:25656623 original size:15 final size:15
Alignment explanation
Indices: 25656599--25656632 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25656589 ACGCATAATA
*
25656599 ATACTGAATATATAC
1 ATACTAAATATATAC
*
25656614 ATACTAAATATATAT
1 ATACTAAATATATAC
25656629 ATAC
1 ATAC
25656633 ATAGTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:25657329 original size:2 final size:2
Alignment explanation
Indices: 25657280--25657311 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25657270 ATATTGAAAG
*
25657280 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25657312 AAACATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25657644 original size:28 final size:25
Alignment explanation
Indices: 25657588--25657663 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 25
25657578 ATACATAATA
*
25657588 ATATATAAAATATAATATTAAAAAC
1 ATATATATAATATAATATTAAAAAC
* *
25657613 ATATATATGTATATAATATATGAAAAAT
1 ATATATAT-AATATAATAT-T-AAAAAC
25657641 ATATATATAATATAATATTAAAA
1 ATATATATAATATAATATTAAAA
25657664 TATTTACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.25
26 10 0.23
27 10 0.23
28 13 0.30
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (25 bp):
ATATATATAATATAATATTAAAAAC
Found at i:25657663 original size:24 final size:26
Alignment explanation
Indices: 25657557--25657678 Score: 108
Period size: 27 Copynumber: 4.7 Consensus size: 26
25657547 AATACTTCAC
* *
25657557 AAATATATATATACTA-AAAATATACA
1 AAATATATATATAATATAATATATA-A
* *
25657583 TAATAATATATAAAATATAATAT-TAA
1 AAAT-ATATATATAATATAATATATAA
* *
25657609 AAACATATATATGTATATAATATATGAA
1 AAATATATATAT-AATATAATATAT-AA
25657637 AAATATATATATAATATAATAT-T-A
1 AAATATATATATAATATAATATATAA
* *
25657661 AAATATTTACATAATATA
1 AAATATATATATAATATA
25657679 TACATATTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
24 17 0.22
25 7 0.09
26 16 0.20
27 22 0.28
28 17 0.22
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATATATATATAATATAATATATAA
Found at i:25657771 original size:9 final size:9
Alignment explanation
Indices: 25657741--25657772 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
25657731 ACATTACTAC
25657741 ATATAATAA
1 ATATAATAA
*
25657750 ATACAATAA
1 ATATAATAA
25657759 ATATAATAA
1 ATATAATAA
25657768 ATATA
1 ATATA
25657773 TAGAGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATAATAA
Found at i:25658315 original size:2 final size:2
Alignment explanation
Indices: 25658310--25658371 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
25658300 TTTTATGTGT
25658310 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
25658351 TA TA TA TA TA TG TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
25658372 GAGAAACAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25662392 original size:22 final size:22
Alignment explanation
Indices: 25662367--25662410 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25662357 TAGTCATATA
25662367 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
25662389 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
25662411 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:25662446 original size:13 final size:14
Alignment explanation
Indices: 25662430--25662471 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25662420 TTTCAATTTT
25662430 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
25662443 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
25662458 ATTTTAAATAATAT
1 ATTTT-AATAATAT
25662472 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:25662456 original size:16 final size:16
Alignment explanation
Indices: 25662434--25662470 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
25662424 AATTTTATTT
25662434 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
25662451 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
25662466 TAATA
1 TAATA
25662471 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:25662512 original size:14 final size:15
Alignment explanation
Indices: 25662488--25662557 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
25662478 CATATTATTG
25662488 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
25662501 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
25662516 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
25662535 AAATATATTAATAAT
1 AAATATTTTAATAAT
25662550 AAAT-TTTT
1 AAATATTTT
25662558 TGTAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 4 0.09
14 9 0.20
15 15 0.33
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:25663774 original size:46 final size:46
Alignment explanation
Indices: 25663707--25663798 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
25663697 TAAATATTTT
25663707 TGGTTTGTTGCTTTTTAGCAAAAACTTTCGAAATTGAGTTTATATA
1 TGGTTTGTTGCTTTTTAGCAAAAACTTTCGAAATTGAGTTTATATA
25663753 TGGTTTGTTGCTTTTTAGCAAAAACTTTCGAAATTGAGTTTATATA
1 TGGTTTGTTGCTTTTTAGCAAAAACTTTCGAAATTGAGTTTATATA
25663799 AAAATTATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (46 bp):
TGGTTTGTTGCTTTTTAGCAAAAACTTTCGAAATTGAGTTTATATA
Found at i:25663910 original size:27 final size:27
Alignment explanation
Indices: 25663859--25663910 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
25663849 TATTAAATGT
*
25663859 ACTTTAAGCATTTGGCCTACCTAACAA
1 ACTTTAAGCATTTGGCCAACCTAACAA
* *
25663886 ACTTTTAGCATTTGGCCAACTTAAC
1 ACTTTAAGCATTTGGCCAACCTAAC
25663911 TTGTCAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (27 bp):
ACTTTAAGCATTTGGCCAACCTAACAA
Found at i:25678366 original size:2 final size:2
Alignment explanation
Indices: 25678353--25678399 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
25678343 AATAAACTAC
*
25678353 AT AT AT AC 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
25678395 AT AT A
1 AT AT A
25678400 ATAGGTAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25680560 original size:15 final size:15
Alignment explanation
Indices: 25680540--25680568 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25680530 GTTTTCAAAA
25680540 ATAAAAAAAAATAAC
1 ATAAAAAAAAATAAC
25680555 ATAAAAAAAAATAA
1 ATAAAAAAAAATAA
25680569 AAAACATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
ATAAAAAAAAATAAC
Found at i:25680572 original size:10 final size:11
Alignment explanation
Indices: 25680536--25680572 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
25680526 TAGGGTTTTC
25680536 AAAAATAAA-A
1 AAAAATAAATA
25680546 AAAAATAACATA
1 AAAAATAA-ATA
25680558 AAAAA-AAATA
1 AAAAATAAATA
25680568 AAAAA
1 AAAAA
25680573 CATAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 16 0.64
11 3 0.12
12 6 0.24
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:25680587 original size:22 final size:21
Alignment explanation
Indices: 25680536--25680595 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
25680526 TAGGGTTTTC
*
25680536 AAAAATAAAAAAAAATAACAT
1 AAAAATAAAATAAAATAACAT
25680557 AAAAA-AAAATAAAA-AACAT
1 AAAAATAAAATAAAATAACAT
*
25680576 AATAAATTAAAATAACATAA
1 AA-AAA-TAAAATAAAATAA
25680596 ATTTTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 7 0.21
20 11 0.33
21 5 0.15
22 8 0.24
23 2 0.06
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATAAAATAAAATAACAT
Found at i:25681948 original size:9 final size:9
Alignment explanation
Indices: 25681934--25682001 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
25681924 ATAAGTATAA
25681934 AATTAACCG
1 AATTAACCG
*
25681943 AATTAATCG
1 AATTAACCG
25681952 AATTAACCG
1 AATTAACCG
*
25681961 AATTACCCG
1 AATTAACCG
25681970 AATT-ACCTG
1 AATTAACC-G
**
25681979 AATTAACTA
1 AATTAACCG
25681988 AATTAACCG
1 AATTAACCG
25681997 AATTA
1 AATTA
25682002 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.92
10 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:25682086 original size:18 final size:18
Alignment explanation
Indices: 25682060--25682097 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25682050 ATTTTTATGA
*
25682060 TTGGGTTGGGTAATTGGG
1 TTGGATTGGGTAATTGGG
*
25682078 TTGGATTGGGTACTTGGG
1 TTGGATTGGGTAATTGGG
25682096 TT
1 TT
25682098 AATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.45, T:0.42
Consensus pattern (18 bp):
TTGGATTGGGTAATTGGG
Found at i:25688525 original size:18 final size:19
Alignment explanation
Indices: 25688482--25688525 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
25688472 TTGTGGAGTT
*
25688482 TATTGATGAAAATTTTATA
1 TATTAATGAAAATTTTATA
*
25688501 TAATTAATGAATATTTTATA
1 T-ATTAATGAAAATTTTATA
25688521 T-TTAA
1 TATTAA
25688526 AAATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 1 0.05
20 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TATTAATGAAAATTTTATA
Found at i:25689310 original size:30 final size:30
Alignment explanation
Indices: 25689274--25689331 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
25689264 CCTATTTGTT
25689274 TTTGTGTAATTGAAT-AATGGTTAGTTCTAA
1 TTTGTGTAATTG-ATGAATGGTTAGTTCTAA
25689304 TTTGTGTAATTGATGAATGGTTAGTTCT
1 TTTGTGTAATTGATGAATGGTTAGTTCT
25689332 GATTGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.26, C:0.03, G:0.22, T:0.48
Consensus pattern (30 bp):
TTTGTGTAATTGATGAATGGTTAGTTCTAA
Done.