Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 134 of 145
Found at i:44729619 original size:9 final size:9
Alignment explanation
Indices: 44729605--44729632 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44729595 TGAGTTTTCG
44729605 AATTCGAAT
1 AATTCGAAT
44729614 AATTCGAAT
1 AATTCGAAT
44729623 AATTCGAAT
1 AATTCGAAT
44729632 A
1 A
44729633 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44729717 original size:29 final size:30
Alignment explanation
Indices: 44729684--44729740 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
44729674 CTTTTTTACT
44729684 TTTCCCTCAAAACTTTTACTCCT-TCCCAC
1 TTTCCCTCAAAACTTTTACTCCTCTCCCAC
44729713 TTTCCCTCAAAACTTTTACTCCTCTCCC
1 TTTCCCTCAAAACTTTTACTCCTCTCCC
44729741 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCTCAAAACTTTTACTCCTCTCCCAC
Found at i:44730270 original size:14 final size:15
Alignment explanation
Indices: 44730238--44730272 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44730228 CACAATCGAC
*
44730238 AAAAATAAAAGAGGA
1 AAAAATAAAAGAAGA
*
44730253 AAAAGTAAAAGAAGA
1 AAAAATAAAAGAAGA
44730268 AAAAA
1 AAAAA
44730273 AACATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (15 bp):
AAAAATAAAAGAAGA
Found at i:44732487 original size:2 final size:2
Alignment explanation
Indices: 44732480--44732505 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44732470 TGTGGAAAGC
44732480 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
44732506 GAAAATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44736672 original size:33 final size:33
Alignment explanation
Indices: 44736630--44736700 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
44736620 TAAAGTCTCG
*
44736630 TATAATAGTACATTGTTACAGAAAAATAATTGT
1 TATAATAGTACATTGTTACAGAAAAATAATCGT
* * *
44736663 TATAATAGTATATTGTTATAGAAAGATAATCGT
1 TATAATAGTACATTGTTACAGAAAAATAATCGT
44736696 TATAA
1 TATAA
44736701 ACCCATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (33 bp):
TATAATAGTACATTGTTACAGAAAAATAATCGT
Found at i:44738541 original size:12 final size:13
Alignment explanation
Indices: 44738514--44738544 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44738504 TCATTTAATC
44738514 ATCAAGTTTTTCA
1 ATCAAGTTTTTCA
44738527 ATCAAGTTTTT-A
1 ATCAAGTTTTTCA
44738539 ATCAAG
1 ATCAAG
44738545 CTTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (13 bp):
ATCAAGTTTTTCA
Found at i:44740773 original size:12 final size:13
Alignment explanation
Indices: 44740756--44740786 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44740746 AAGATGAAAG
44740756 CTTGATT-AAAAA
1 CTTGATTGAAAAA
44740768 CTTGATTGAAAAA
1 CTTGATTGAAAAA
44740781 CTTGAT
1 CTTGAT
44740787 GATTAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (13 bp):
CTTGATTGAAAAA
Found at i:44743484 original size:21 final size:21
Alignment explanation
Indices: 44743458--44743527 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
44743448 ATGTTTTACT
44743458 TTCTGTTCAGCTCTT-CTGAGC
1 TTCTGTTCAGCTCTTAC-GAGC
* *
44743479 TTCTGTTTAGCTTTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
**
44743500 TTCTGTTCAATTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
44743521 TTCTGTT
1 TTCTGTT
44743528 GGTGTATTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:44750942 original size:21 final size:19
Alignment explanation
Indices: 44750918--44750964 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
44750908 GTGCATTACT
44750918 TTCTGTTCAACTCTTACGAGC
1 TTCTGTTCAACT-TT-CGAGC
* *
44750939 TTCTGTTTAACTTTTGAGC
1 TTCTGTTCAACTTTCGAGC
44750958 TTCTGTT
1 TTCTGTT
44750965 GGCGTATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 11 0.46
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (19 bp):
TTCTGTTCAACTTTCGAGC
Found at i:44760430 original size:17 final size:18
Alignment explanation
Indices: 44760408--44760441 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44760398 TTATCTAAAT
44760408 AAAATAAAAT-TATTTTC
1 AAAATAAAATATATTTTC
*
44760425 AAAATAATATATATTTT
1 AAAATAAAATATATTTT
44760442 AATTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATAAAATATATTTTC
Found at i:44760471 original size:21 final size:22
Alignment explanation
Indices: 44760425--44760485 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
44760415 AATTATTTTC
44760425 AAAATAATATATATTTTAATTG
1 AAAATAATATATATTTTAATTG
* *
44760447 AAAATAATATCTATTTTTA-TG
1 AAAATAATATATATTTTAATTG
**
44760468 AAAAGTAATGGATATTTT
1 AAAA-TAATATATATTTT
44760486 CTAAATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
AAAATAATATATATTTTAATTG
Found at i:44763574 original size:28 final size:28
Alignment explanation
Indices: 44763533--44763597 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
44763523 TGTTTTCAGA
* ** *
44763533 TTTATTTCGAATTTAGCTTTTTTTTCTTT
1 TTTATTTC-AATTTAACCCTTTTTTATTT
44763562 TTTATTTCAATTTAACCCTTTTTTATTT
1 TTTATTTCAATTTAACCCTTTTTTATTT
44763590 TTT-TTTCA
1 TTTATTTCA
44763598 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 19 0.59
29 8 0.25
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (28 bp):
TTTATTTCAATTTAACCCTTTTTTATTT
Found at i:44763642 original size:3 final size:3
Alignment explanation
Indices: 44763627--44763666 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
44763617 TACTATGACT
* *
44763627 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44763667 CCTTACATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:44767895 original size:6 final size:7
Alignment explanation
Indices: 44767872--44767912 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
44767862 AAAAGTGATG
44767872 TGAAAAA
1 TGAAAAA
44767879 TGAAAAGA
1 TGAAAA-A
44767887 TG-AAAA
1 TGAAAAA
44767893 TGAAAAA
1 TGAAAAA
44767900 TGAAAAA
1 TGAAAAA
*
44767907 AGAAAA
1 TGAAAA
44767913 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 3 0.10
7 25 0.81
8 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (7 bp):
TGAAAAA
Found at i:44769376 original size:44 final size:44
Alignment explanation
Indices: 44769328--44769508 Score: 116
Period size: 44 Copynumber: 4.1 Consensus size: 44
44769318 AAATTCTACT
44769328 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
1 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
** * * ** ** ** * **
44769372 TCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
** * * * * ** *
44769416 TCCCTGTGGTTGCAGTGGAGTACATTGAAG---CCAGAAATTCTAC
1 TCCCTG-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGT-C
44769459 TTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
1 -TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
44769504 TCCCT
1 TCCCT
44769509 AAGCAGTAGT
Statistics
Matches: 95, Mismatches: 36, Indels: 12
0.66 0.25 0.08
Matches are distributed among these distances:
42 6 0.06
43 19 0.20
44 47 0.49
45 16 0.17
46 7 0.07
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTC
Found at i:44769410 original size:132 final size:132
Alignment explanation
Indices: 44769219--44770496 Score: 1615
Period size: 132 Copynumber: 9.7 Consensus size: 132
44769209 GTGGAGCAGG
* * * *
44769219 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGAAGCAGATCGAAA-ACGGTAGATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGATGGCAGATTTTAC
* * *
44769283 CTCCCTGTGGTTGCAGTGAAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAGCAGCGGAAT
65 CTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
44769348 AGA
130 AGA
44769351 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
* *
44769416 TCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAGCAGCGGAATA
66 TCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
44769481 GA
131 GA
44769483 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
* * *
44769548 TCCCAGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCGGCAGTGGAAT
66 TCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
44769612 AGA
130 AGA
*
44769615 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG-GCCAGATCAAAGATGG-TGAATTTTA
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAG-CAGATCAAAGATGGCAG-ATTTTA
* ** *
44769678 CCCCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCGGCAGTGGA
64 CCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGA
44769742 ATAGA
128 ATAGA
*
44769747 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG-GCCAGATCAAAGATGG-TGAATTTTA
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAG-CAGATCAAAGATGGCAG-ATTTTA
* ** * *
44769810 CCCCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGTAGAA
64 CCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
44769875 TAGA
129 TAGA
* *
44769879 TTTAAAGATTTCAGATCTTGTCTTCCC-AAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTT
1 -TTGAAGATTTCAGATCTTGTC-TCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTTT
* * *
44769942 ACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAGTAACTCTA-TCTCCCTGGGCAGCAGTGG
63 ACCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGG
44770006 AATAGA
127 AATAGA
* * * * * * * * *
44770012 CTGAAGATTTTAGATCTTGCCTTCCT--GCA-TAGACACCGAAGAAGATCGAAGACGGCAGATTT
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG----TGGAGCAGATCAAAGATGGCAGATTT
* * *
44770074 TACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGCAATTCTA--TCTCCTAGGGCAGCAGT
62 TACCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTC-CCT-GGGCAGCAGT
44770137 GGAATAGA
125 GGAATAGA
* * * * * ** *
44770145 CTGAAGATTTTAGATCTTG-CTTTCCT--GCA-TAGACAGCGAAGAAGATTGAAGATGGCGGATT
1 TTGAAGATTTCAGATCTTGTC-TCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGCAGATT
**
44770206 TTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTG
61 TTACCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTG
44770271 GAATAGA
126 GAATAGA
* * * *
44770278 TTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
* ** * *
44770343 TCCTTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGCAGCAGTGTAATA
66 TCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
44770408 GA
131 GA
* * *
44770410 TTGAAGATTTCAGATCTTGTCT-CCTCAAGCAGTAGTGGAGCAGATCAAATATGGTAAATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* ** *
44770474 CTCTCTGAAGTTACAGTGGAGTA
65 CTCCCTGTGGTTGCAGTGGAGTA
44770497 TATAGAAAGT
Statistics
Matches: 1048, Mismatches: 71, Indels: 54
0.89 0.06 0.05
Matches are distributed among these distances:
129 3 0.00
130 3 0.00
131 17 0.02
132 680 0.65
133 326 0.31
134 11 0.01
135 5 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
TCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
GA
Found at i:44775374 original size:18 final size:17
Alignment explanation
Indices: 44775353--44775403 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
44775343 TTATAATTTT
44775353 AAAATTAATTAAAAATTCA
1 AAAATT-ATTAAAAATT-A
44775372 AAAA-TATTATCAAAA-TA
1 AAAATTATTA--AAAATTA
44775389 AAAATTATTAAAAAT
1 AAAATTATTAAAAAT
44775404 CATAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 7 0.25
19 8 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTATTAAAAATTA
Found at i:44775410 original size:17 final size:16
Alignment explanation
Indices: 44775353--44775410 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
44775343 TTATAATTTT
44775353 AAAATTAATTAAAAATTC
1 AAAATT-ATTAAAAA-TC
* *
44775371 AAAAATATTATCAAAATA
1 AAAATTATTA--AAAATC
44775389 AAAATTATTAAAAATC
1 AAAATTATTAAAAATC
44775405 ATAAAT
1 A-AAAT
44775411 AAAAAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.18
17 8 0.24
18 15 0.45
19 4 0.12
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTATTAAAAATC
Found at i:44775425 original size:25 final size:22
Alignment explanation
Indices: 44775380--44775426 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
44775370 CAAAAATATT
*
44775380 ATCAAAATAAAAATTATTAAAA
1 ATCAAAATAAAAATTAATAAAA
44775402 ATCATAAATAAAAAATATAATAAAA
1 ATCA-AAAT-AAAAAT-TAATAAAA
44775427 TTTTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 6 0.29
25 7 0.33
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
ATCAAAATAAAAATTAATAAAA
Found at i:44775426 original size:24 final size:24
Alignment explanation
Indices: 44775380--44775450 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 24
44775370 CAAAAATATT
* *
44775380 ATCA-AAATAAAAATTATTA-AAA
1 ATCATAAATAAAAAATATAATAAA
44775402 ATCATAAATAAAAAATATAATAAA
1 ATCATAAATAAAAAATATAATAAA
** * *
44775426 ATTTTAAAT-TAAAATAAAATAAA
1 ATCATAAATAAAAAATATAATAAA
44775449 AT
1 AT
44775451 TTTGGTTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.10
23 27 0.66
24 10 0.24
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (24 bp):
ATCATAAATAAAAAATATAATAAA
Found at i:44777330 original size:32 final size:31
Alignment explanation
Indices: 44777265--44777341 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 31
44777255 ATAATAAAAT
44777265 GAGATAATCTAAC-TTTTTTTTTGAAAGAAA
1 GAGATAATCTAACTTTTTTTTTTGAAAGAAA
44777295 GAGATAATCTAACTTTTTTTTTTGATAA-AAGA
1 GAGATAATCTAACTTTTTTTTTTGA-AAGAA-A
44777327 GAGATAATCTAACTT
1 GAGATAATCTAACTT
44777342 ACTAATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 13 0.30
31 13 0.30
32 18 0.41
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (31 bp):
GAGATAATCTAACTTTTTTTTTTGAAAGAAA
Found at i:44780177 original size:84 final size:84
Alignment explanation
Indices: 44780075--44780326 Score: 432
Period size: 84 Copynumber: 3.0 Consensus size: 84
44780065 TGCCGCAAAA
* *
44780075 AAAATACAACGGCATCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGTT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44780140 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
44780159 AAAATACAATGGCGTCGTTTGGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44780224 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* * * *
44780243 AAAATACAACGGCGTCGTTTAGTGGCCTTTGGTGGCCTTAGTGGCATTTTTTGTCTTGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44780308 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
44780327 GACCTTTTAA
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 158 1.00
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.37
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:44780448 original size:84 final size:84
Alignment explanation
Indices: 44780356--44780523 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
44780346 CTTAAAAAAT
* * *
44780356 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGTCTTAGTGGCGTTTTT-GGTCTAGCGCCGC
1 AAAATACAACGGCATCATTTAGTGGCCTTCGGTGGCCTTAGTGGC-TTTTTCGGTATAGCGCCGC
44780420 TAATGGTCTGTGTTTTTAGC
65 TAATGGTCTGTGTTTTTAGC
* * *
44780440 AAAATACAACGGCATCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCTTTTTCTGTATTGCGCCGCT
1 AAAATACAACGGCATCATTTAGTGGCCTTCGGTGGCCTTAGTGGCTTTTTCGGTATAGCGCCGCT
44780505 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
44780524 GGCGTTTTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
83 5 0.06
84 72 0.94
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (84 bp):
AAAATACAACGGCATCATTTAGTGGCCTTCGGTGGCCTTAGTGGCTTTTTCGGTATAGCGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:44780649 original size:198 final size:198
Alignment explanation
Indices: 44780159--44781031 Score: 1405
Period size: 198 Copynumber: 4.4 Consensus size: 198
44780149 TGTTTTTAGC
* *
44780159 AAAATACAATGGCGTCGTTTGGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
* * *
44780224 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTTGGTGGCCTTAGTGGCA
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
* * * * * **
44780289 TTTTTTGTCTTGCGCCGCTAATGGTCTGTGTTTTTAGCGACCTTTT-AAAAAAAATGCCTTAAAA
131 TTTTTGGTATTGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
44780353 AAT
196 AAT
* *
44780356 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGTCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
* *
44780421 AATGGTCTGTGTTTTTAGCAAAATACAACGGCATCGTTTAGTGGCCTTCGGTGGCCTTAGTGGC-
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
* * *
44780485 TTTTTCTGTATTGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAATGCCGTAAA
131 TTTTT-GGTATTGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAA
44780550 AAAT
195 AAAT
*
44780554 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44780619 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
* *
44780684 TTTTTGGTCTTAG-GCCGCTAATGGTCTGTGTTTTTAGCGGCTTTTTCAAAAAAAACGCCGCAAA
131 TTTTTGGTATT-GCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAA
44780748 AAAT
195 AAAT
* *
44780752 AAAATACAATGGCGTCGTTTAGTGGCCTTCGGTGGTCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44780817 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
* * * ***
44780882 TTTTTGGTATAGCGCCGCTAATGATCT-TTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAA
131 TTTTTGGTATTGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
44780946 AAT
196 AAT
* *
44780949 AAAATACAACGGCGTCGTTTAGTGG-CTACGGTGGCCTTAGTGGCGTTTTTGGTCTGGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
44781013 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
44781032 GGCATTTTTA
Statistics
Matches: 636, Mismatches: 35, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
196 60 0.09
197 221 0.35
198 349 0.55
199 6 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (198 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCG
TTTTTGGTATTGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
AAT
Found at i:44780658 original size:84 final size:84
Alignment explanation
Indices: 44780554--44780721 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
44780544 CGTAAAAAAT
* *
44780554 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTC-TAGCGCCGC
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTCTTAG-GCCGC
44780618 TAATGGTCTGTGTTTTTAGC
65 TAATGGTCTGTGTTTTTAGC
44780638 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTCTTAGGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTCTTAGGCCGCT
44780703 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
44780722 GGCTTTTTCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
84 78 0.96
85 3 0.04
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTCTTAGGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:44780843 original size:84 final size:83
Alignment explanation
Indices: 44780752--44780918 Score: 271
Period size: 84 Copynumber: 2.0 Consensus size: 83
44780742 CGCAAAAAAT
* * * *
44780752 AAAATACAATGGCGTCGTTTAGTGGCCTTCGGTGGTCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
*
44780817 AATGGTCTGTGTTTTTAGC
66 AATGATCT-TGTTTTTAGC
44780836 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
*
44780901 AATGATCTTTTTTTTAGC
66 AATGATCTTGTTTTTAGC
44780919 GGCGTTTTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 9 0.12
84 68 0.88
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (83 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
AATGATCTTGTTTTTAGC
Found at i:44781146 original size:114 final size:113
Alignment explanation
Indices: 44780836--44781212 Score: 614
Period size: 113 Copynumber: 3.3 Consensus size: 113
44780826 TGTTTTTAGC
44780836 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
44780901 AATGATCTTTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAAAAT
66 AATGATCTTTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAAAAT
* * * *
44780949 AAAATACAACGGCGTCGTTTAGTGG-CTACGGTGGCCTTAGTGGCGTTTTTGGTCTGGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
* * * * *
44781013 AATGGTCTGTGTTTTTAGCGGCATTTT-TAGGATAAATGCCGCAAAAAAAT
66 AATGATCT-TTTTTTTAGCGGCGTTTTCT-GGAAAAACGCCGC-AAAAAAT
*
44781063 AAAATAAAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
44781128 AATGATCTTTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAAAAT
66 AATGATCTTTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAAAAT
*
44781176 AAAATACAACGGCGTCGTTTAGTGGCCTTTGGTGGCC
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCC
44781213 TTTTACCTTA
Statistics
Matches: 238, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
112 43 0.18
113 94 0.39
114 58 0.24
115 43 0.18
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (113 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTGGTATAGCGCCGCT
AATGATCTTTTTTTTAGCGGCGTTTTCTGGAAAAACGCCGCAAAAAAT
Found at i:44782267 original size:389 final size:388
Alignment explanation
Indices: 44781726--44782654 Score: 1428
Period size: 389 Copynumber: 2.4 Consensus size: 388
44781716 GTTCATATAA
* * * * * * *
44781726 TTTTAAGGTTTAAGGAGTACTATATATATATTGATTTATATATGGATTATAGATTAGGGGTTTTG
1 TTTTAATGTTTAGGGAGTACTATATATATATGGA--T-T-TAGGGATTATAGATTATGGATTATG
**
44781791 CTTAATTAAGGGTTGGCCGGGATTTAAGGTTT----AGGGG-TTAGGGGTTAGATGTTAGTGGTT
62 CTTAATTAAGGGTTGGCCGGGATTTAAGGTTTAGGGAGGGGTTTAGGGGTTAGATGTTAGTTATT
* * **
44781851 AAGACTTAGGGATTT-TGTGTTTAGGGTTTTAGGGGTCGGGTTACGGTTTT-GGTTTAGATTAA-
127 AAGACTTAGGGATTTAAG-GTTTAGGGTTTCAGGGGTCGGGTTACAATTTTGGGTTTAGATTAAT
44781913 TTTTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAAA
191 TTTTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAAA
**
44781978 TTATGCCTTGAGAGAGATATATATAATAGATAGAGTACGGAAAATTATTTATATCCCTTCAATGG
256 TTATGCCTTGAGAGAGATATATATAATAGATAGAACAC-GAAAA-TATTTATATCCCTTCAATGG
*
44782043 TTAATTTAGGCGGGTTTAATAAGATTAAGGCTTAACTGAGATTTTGAATTTTATACAATTAATTA
319 TTAATTTAGGCGGGTTTAATAAGATTAAGGCTTAACTGAGATTTTGAATTTTATACAAATAATTA
44782108 ATGCT
384 ATGCT
*
44782113 TTTTAATGTTTAGGGAGTACTATATATATATGGATTTAGGGGTTATAGATTATGGATTATGCTTA
1 TTTTAATGTTTAGGGAGTACTATATATATATGGATTTAGGGATTATAGATTATGGATTATGCTTA
* *
44782178 ACTAAGGGTTGGCCGGGATTTAAGGTTTAAGGGAGGGGTTTATGGGTTAGATGTTAGTTATTAAG
66 ATTAAGGGTTGGCCGGGATTTAAGGTTT-AGGGAGGGGTTTAGGGGTTAGATGTTAGTTATTAAG
*
44782243 ACTTAGGGATTTAAGGTTTAGGGTTTCAGGGGTCTGGTTACAATTTTGGGTTTAGATTAATTTTT
130 ACTTAGGGATTTAAGGTTTAGGGTTTCAGGGGTCGGGTTACAATTTTGGGTTTAGATTAATTTTT
44782308 TTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAAATTAT
195 TTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAAATTAT
*
44782373 GCCTTGAGAGAGATATATATAATAGATAGAACACTAAAATATTTATATCCCTTCAATGGTTAATT
260 GCCTTGAGAGAGATATATATAATAGATAGAACACGAAAATATTTATATCCCTTCAATGGTTAATT
* *
44782438 TAGGCGGGTTTAGTAAGATTAAGGTTTAACTGAGATTTTGAATTTTATACAAATAATTAATGCT
325 TAGGCGGGTTTAATAAGATTAAGGCTTAACTGAGATTTTGAATTTTATACAAATAATTAATGCT
44782502 TTTTAATGTTTAGGGAGTACTATATATATATGGATTTAGGGATTATAGATTATGGATTATGCTTA
1 TTTTAATGTTTAGGGAGTACTATATATATATGGATTTAGGGATTATAGATTATGGATTATGCTTA
* * *
44782567 ATTAAGGGTTGGCCGAGATTTATGATTTAGGGGTTAGGGGTTTAGGGGTTA-ATGTTAG-TAGTT
66 ATTAAGGGTTGGCCGGGATTTAAGGTTTA-GGG--AGGGGTTTAGGGGTTAGATGTTAGTTA-TT
* *
44782630 AAGACTTAGGAATTTAGGGTTTAGG
127 AAGACTTAGGGATTTAAGGTTTAGG
44782655 AGAGGACCAA
Statistics
Matches: 498, Mismatches: 31, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
383 51 0.10
384 1 0.00
385 1 0.00
387 31 0.06
388 6 0.01
389 243 0.49
390 49 0.10
391 116 0.23
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (388 bp):
TTTTAATGTTTAGGGAGTACTATATATATATGGATTTAGGGATTATAGATTATGGATTATGCTTA
ATTAAGGGTTGGCCGGGATTTAAGGTTTAGGGAGGGGTTTAGGGGTTAGATGTTAGTTATTAAGA
CTTAGGGATTTAAGGTTTAGGGTTTCAGGGGTCGGGTTACAATTTTGGGTTTAGATTAATTTTTT
TATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAAATTATG
CCTTGAGAGAGATATATATAATAGATAGAACACGAAAATATTTATATCCCTTCAATGGTTAATTT
AGGCGGGTTTAATAAGATTAAGGCTTAACTGAGATTTTGAATTTTATACAAATAATTAATGCT
Found at i:44782877 original size:17 final size:17
Alignment explanation
Indices: 44782855--44782888 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44782845 AAAATTTGAT
44782855 GTAATAGTGGCGTTTTC
1 GTAATAGTGGCGTTTTC
*
44782872 GTAATAGTGGTGTTTTC
1 GTAATAGTGGCGTTTTC
44782889 ACTAAAAACG
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:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (17 bp):
GTAATAGTGGCGTTTTC
Found at i:44783463 original size:28 final size:28
Alignment explanation
Indices: 44783431--44783487 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
44783421 AATAAAAAAA
*
44783431 TAAAAAT-GAAATAAAAACACTAAAATT
1 TAAAAATATAAATAAAAACACTAAAATT
* * *
44783458 TAAAAATATTAGTGAAAACACTAAAATT
1 TAAAAATATAAATAAAAACACTAAAATT
44783486 TA
1 TA
44783488 TAATTATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.26
Consensus pattern (28 bp):
TAAAAATATAAATAAAAACACTAAAATT
Found at i:44783495 original size:28 final size:28
Alignment explanation
Indices: 44783444--44783498 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
44783434 AAATGAAATA
44783444 AAAACACTAAAATTTAAAAATATTAGTG
1 AAAACACTAAAATTTAAAAATATTAGTG
* *
44783472 AAAACACTAAAATTTATAATTATTAGT
1 AAAACACTAAAATTTAAAAATATTAGT
44783499 ACTATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAACACTAAAATTTAAAAATATTAGTG
Found at i:44788656 original size:21 final size:21
Alignment explanation
Indices: 44788630--44788700 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
44788620 CTACAACTTA
*
44788630 AAGCAGAGGCGACAGCGAGGG
1 AAGCAGAGGCTACAGCGAGGG
*
44788651 AAGCAGCGGCTACAGCGAGGG
1 AAGCAGAGGCTACAGCGAGGG
*
44788672 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTACAGCGAGGG
44788693 AAGCAGAG
1 AAGCAGAG
44788701 CAGAGCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTACAGCGAGGG
Found at i:44789154 original size:42 final size:42
Alignment explanation
Indices: 44789108--44789338 Score: 144
Period size: 42 Copynumber: 5.5 Consensus size: 42
44789098 AAAGTGTCGT
* *** *
44789108 TAAAGAACATGTTCTTTAGCGGCGCATATTCACAAACGCCAC
1 TAAAGATCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCAC
* * * *
44789150 TAAAGATCATGTCCTTTAGCGGCACTTAGAAAAAAACGCCGC
1 TAAAGATCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCAC
* * **** **** **
44789192 TAAAGATCTTGTTCTTTAGCGGCG-TTCTTTAGCGGCGTTTAGGC
1 TAAAGATCATGTTCTTTAGCGGCGCATAGAAAAAAACG-CCA--C
* * *
44789236 TAAAGATCATGTTCTTTAGCGGCGCTTATG--AAAAATGCCGC
1 TAAAGATCATGTTCTTTAGCGGCGCATA-GAAAAAAACGCCAC
* * * * *
44789277 TAAAGATCATGTCCTTTAGTGGCGCTTAGAAAAAAATGCCGC
1 TAAAGATCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCAC
44789319 TAAAGATCATGTTCTTTAGC
1 TAAAGATCATGTTCTTTAGC
44789339 AGCGTTCTTT
Statistics
Matches: 144, Mismatches: 38, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
40 1 0.01
41 32 0.22
42 83 0.58
44 26 0.18
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAAGATCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCAC
Found at i:44789220 original size:13 final size:13
Alignment explanation
Indices: 44789202--44789230 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44789192 TAAAGATCTT
44789202 GTTCTTTAGCGGC
1 GTTCTTTAGCGGC
44789215 GTTCTTTAGCGGC
1 GTTCTTTAGCGGC
44789228 GTT
1 GTT
44789231 TAGGCTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.31, T:0.41
Consensus pattern (13 bp):
GTTCTTTAGCGGC
Found at i:44789289 original size:127 final size:128
Alignment explanation
Indices: 44789108--44789352 Score: 384
Period size: 127 Copynumber: 1.9 Consensus size: 128
44789098 AAAGTGTCGT
*
44789108 TAAAGAACATGTTCTTTAGCGGCGCATATTCACAAACGCCACTAAAGATCATGTCCTTTAGCGGC
1 TAAAGAACATGTTCTTTAGCGGCGCATATTCAAAAACGCCACTAAAGATCATGTCCTTTAGCGGC
* *
44789173 ACTTAGAAAAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGTTCTTTAGCGGCGTTTAGGC
66 ACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTCTTTAGCGGCGTTTAGGC
* * * * * *
44789236 TAAAGATCATGTTCTTTAGCGGCGCTTA-TGAAAAATGCCGCTAAAGATCATGTCCTTTAGTGGC
1 TAAAGAACATGTTCTTTAGCGGCGCATATTCAAAAACGCCACTAAAGATCATGTCCTTTAGCGGC
* *
44789300 GCTTAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGTTCTTTAGCG
66 ACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTCTTTAGCG
44789353 ACGCTTATGA
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 80 0.75
128 26 0.25
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (128 bp):
TAAAGAACATGTTCTTTAGCGGCGCATATTCAAAAACGCCACTAAAGATCATGTCCTTTAGCGGC
ACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTCTTTAGCGGCGTTTAGGC
Found at i:44789377 original size:55 final size:55
Alignment explanation
Indices: 44789290--44789393 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
44789280 AGATCATGTC
* * * *
44789290 CTTTAGTGGCGCTTAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGTT
1 CTTTAGCGACGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGTT
*
44789345 CTTTAGCGACGCTTATG-AAAAAACGCCACTAAAGATCATGTTTTTTAGC
1 CTTTAGCGACGCTTA-GAAAAAAACGCCACTAAAGATCATGTTCTTTAGC
44789394 GGCGCTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (55 bp):
CTTTAGCGACGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGTT
Found at i:44789408 original size:42 final size:42
Alignment explanation
Indices: 44789344--44789439 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
44789334 TTAGCAGCGT
* * *
44789344 TCTTTAGCGACGCTTATGAAAAAACGCCACTAAAGATCATGT
1 TCTTTAGCGGCGCTTATGAAAAAACGCCACTAAAGAACATGA
* *
44789386 TTTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGAACATGA
1 TCTTTAGCGGCGCTTATG-AAAAAACGCCACTAAAGAACATGA
44789428 TCTTTAGCGGCG
1 TCTTTAGCGGCG
44789440 TTTTTGTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTATGAAAAAACGCCACTAAAGAACATGA
Found at i:44789415 original size:97 final size:96
Alignment explanation
Indices: 44789246--44789441 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 96
44789236 TAAAGATCAT
* * * *
44789246 GTTCTTTAGCGGCGCTTATGAAAAATGCCGCTAAAGATCATGTCCTTTAGTGGCGCTTAGAAAAA
1 GTTCTTTAGCGACGCTTATGAAAAACGCCACTAAAGATCATGTCCTTTAGCGGCGCTTAGAAAAA
* * *
44789311 AATGCCGCTAAAGATCATGTTCTTTAGCAGC
66 AACGCCGCTAAAGAACATGATCTTTAGCAGC
**
44789342 GTTCTTTAGCGACGCTTATGAAAAAACGCCACTAAAGATCATGTTTTTTAGCGGCGCTTAGAAAA
1 GTTCTTTAGCGACGCTTATG-AAAAACGCCACTAAAGATCATGTCCTTTAGCGGCGCTTAGAAAA
*
44789407 AAACGCCGCTAAAGAACATGATCTTTAGCGGC
65 AAACGCCGCTAAAGAACATGATCTTTAGCAGC
44789439 GTT
1 GTT
44789442 TTTGTTTGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 19 0.21
97 70 0.79
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (96 bp):
GTTCTTTAGCGACGCTTATGAAAAACGCCACTAAAGATCATGTCCTTTAGCGGCGCTTAGAAAAA
AACGCCGCTAAAGAACATGATCTTTAGCAGC
Found at i:44797639 original size:108 final size:109
Alignment explanation
Indices: 44797436--44797651 Score: 398
Period size: 108 Copynumber: 2.0 Consensus size: 109
44797426 AACGGGGTCG
44797436 ACTTGGATTTTGAAAATAAAAACGAAAAAAAGGGAGTCGCCACCAATCTTTTTTTTATGAGGTGT
1 ACTTGGATTTTGAAAATAAAAACGAAAAAAAGGGAGTCGCCACCAATCTTTTTTTTATGAGGTGT
*
44797501 GATTGGATCACCTCAAAAAGTGGTTGTTTTTAATGAACGGTTTA
66 GATTGGATCACCTCAAAAAGCGGTTGTTTTTAATGAACGGTTTA
*
44797545 ACTTGGATTTTGAAAATAAAAACGAAAAAAGGGGAGTCGCCACCAATC-TTTTTTTATGAGGTGT
1 ACTTGGATTTTGAAAATAAAAACGAAAAAAAGGGAGTCGCCACCAATCTTTTTTTTATGAGGTGT
*
44797609 GATTGGATCACCTCTAAAAGCGGTTGTTTTTAATGAACGGTTT
66 GATTGGATCACCTCAAAAAGCGGTTGTTTTTAATGAACGGTTT
44797652 GATTTTATTA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 57 0.55
109 47 0.45
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (109 bp):
ACTTGGATTTTGAAAATAAAAACGAAAAAAAGGGAGTCGCCACCAATCTTTTTTTTATGAGGTGT
GATTGGATCACCTCAAAAAGCGGTTGTTTTTAATGAACGGTTTA
Found at i:44798823 original size:15 final size:14
Alignment explanation
Indices: 44798793--44798826 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
44798783 AGGCGCCATG
*
44798793 AGTAAATAATTAAT
1 AGTAAATAAGTAAT
44798807 AGTAAAGTAAGTAAT
1 AGTAAA-TAAGTAAT
44798822 AGTAA
1 AGTAA
44798827 TAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (14 bp):
AGTAAATAAGTAAT
Found at i:44801692 original size:43 final size:43
Alignment explanation
Indices: 44801498--44802213 Score: 567
Period size: 43 Copynumber: 16.5 Consensus size: 43
44801488 TGGTGGCTTA
* * * * * * *
44801498 AATCTGCTTCACTATTGCTTAGGAAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACT-ACCGTCTTC
* * * * *
44801542 GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCGTCTTC
* * *
44801586 AACCTGTTCCACTACTGCTTAGGGAGATAGGACT--CATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * *** * *
44801627 GACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * * * * *
44801670 AATCTGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACT-ACCGTCTTC
* *
44801714 GATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * * *** * *
44801757 GACCTGCTTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * * ** *
44801800 AATCTACTTCACTACTGCTTAGGAAGATAATATTCACCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACT-ACCGTCTTC
* * ** * *
44801844 AATCTGCTACGCTACTGCTTAGGGAGATAAAATCTACCATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCGTCTTC
* * * *
44801888 GACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
*** * *
44801931 AA-CTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
1 AATC-TGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * * * *
44801974 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACT-ACCGTCTTC
* * * * * *
44802018 GATCTGTTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCGTCTTC
* * * *
44802062 GACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
*
44802105 AA-CTTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTC
1 AATC-TGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* * *** * *
44802148 GACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
* *
44802191 AATCTACTTCACTACTGCTTAGG
1 AATCTGCTCCACTACTGCTTAGG
44802214 AAGAGATTCG
Statistics
Matches: 541, Mismatches: 119, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
41 38 0.07
42 2 0.00
43 274 0.51
44 224 0.41
45 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGTCTTC
Found at i:44801918 original size:174 final size:174
Alignment explanation
Indices: 44801498--44802138 Score: 828
Period size: 174 Copynumber: 3.7 Consensus size: 174
44801488 TGGTGGCTTA
* * * *
44801498 AATCTGCTTCACTATTGCTTAGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
* * * * **
44801563 GAGAGATAAGATCTACCATCTTTAACCTGTTCCACTACTGCTTAGGGAGATAGGACTCAT--CTT
66 GGGAGATAGGA-CTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
** * * * * * ** * *
44801626 CGACCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTA
130 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* * * * *
44801670 AATCTGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
* *
44801735 GGGAGATAGGACTACCATCTTCGACCTGCTTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
* * *
44801800 AATCTACTTCACTACTGCTTAGGAAGATAATATTCACCGTCTTC
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* * * * *
44801844 AATCTGCTACGCTACTGCTTAGGGAGATAA-AATCTACCATCTTTGACCTGCTCCACTACTACTT
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-ACCATCTTCGACCTGCTCCACTACTACTT
*
44801908 AGGGAGATAGGACTACCATCTTCAACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
65 AGGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
44801973 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
130 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* *
44802018 GATCTG-TTCCACTACTGCTTA-GAGAGATAAGA-TCTACCATCTTTGACCTGCTCCACTACTAC
1 AATCTGCTT-CACTACTGCTTAGGA-AGATAAGATTC-ACCATCTTCGACCTGCTCCACTACTAC
*
44802080 TTAGGGAGATAGGACTACCATCTTCAACTTGCTCCACTACTGCTTAGGGAGATAGGACT
63 TTAGGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACT
44802139 ACCATCTTCG
Statistics
Matches: 417, Mismatches: 45, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
171 42 0.10
172 71 0.17
173 34 0.08
174 269 0.65
175 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (174 bp):
AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
GGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
Found at i:44801941 original size:217 final size:217
Alignment explanation
Indices: 44801592--44802217 Score: 591
Period size: 217 Copynumber: 2.9 Consensus size: 217
44801582 CTTTAACCTG
* * * * *
44801592 TTCCACTACTGCTTAGGGAGATAGGA-CT--CATCTTCGACCTGCTCCACTACTGCTTAGGGAGA
1 TTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTCAACCTGCTACACTACTACTTAGGGAGA
** ***** * * * ** * * * * * * *
44801654 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCT
66 TAAAACTACCATCTTCAACCTGCTCCACTACTACTTAGGGAGATAGGACT-ACCATCTTCAACCT
* ** *
44801719 GCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTGCTTCACTACTGCTTAGGGAGA
130 GCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTTCACTACTGCTTAGGAAGA
* **
44801784 TAGGACT-GGTGGCTTAAATCTAC
195 TAAGACTCGCCGGCTTAAATCT-C
* * * * *
44801807 TT-CACTACTGCTTAG-GAAGATAATAT-TCACCGTCTTCAATCTGCTACGCTACTGCTTAGGGA
1 TTCCACTACTGCTTAGAG-AGATAAGATCT-ACCATCTTCAACCTGCTACACTACTACTTAGGGA
**
44801869 GATAAAATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTCAAC
64 GATAAAA-CTACCATCTTCAACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTCAAC
* **** *
44801934 TTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
128 CTGCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTTCACTACTGCTTAGGAA
* * ** *
44801999 GATAAGATTCGCCGTCTTCGATCTG
193 GATAAGACTCGCCGGCTTAAATCTC
** *
44802024 TTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGA
1 TTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTCAACCTGCTACACTACTACTTAGGGAGA
** * * *
44802089 TAGGACTACCATCTTCAACTTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTG
66 TAAAACTACCATCTTCAACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTCAACCTG
**** * *
44802154 CTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGA
131 CTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTTCACTACTGCTTAGGAAGA
44802218 GATTCGCTGT
Statistics
Matches: 339, Mismatches: 62, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
213 1 0.00
214 20 0.06
215 2 0.01
217 221 0.65
218 93 0.27
219 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (217 bp):
TTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTCAACCTGCTACACTACTACTTAGGGAGA
TAAAACTACCATCTTCAACCTGCTCCACTACTACTTAGGGAGATAGGACTACCATCTTCAACCTG
CTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTTCACTACTGCTTAGGAAGAT
AAGACTCGCCGGCTTAAATCTC
Found at i:44802163 original size:174 final size:174
Alignment explanation
Indices: 44801498--44802217 Score: 817
Period size: 174 Copynumber: 4.2 Consensus size: 174
44801488 TGGTGGCTTA
* * * *
44801498 AATCTGCTTCACTATTGCTTAGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
* * * * *
44801563 GAGAGATAAGATCTACCATCTTTAACCTGTTCCACTACTGCTTAGGGAGATAGGACT--CATCTT
66 GGGAGATAGGA-CTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGCAGCTT
** * * * ** * *
44801626 CGACCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTA
130 AAACCTGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* * * * *
44801670 AATCTGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
* * **
44801735 GGGAGATAGGACTACCATCTTCGACCTGCTTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGCAGCTTA
* * * * *
44801800 AATCTACTTCACTACTGCTTAGGAAGATAATATTCACCGTCTTC
131 AACCTGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* * * * *
44801844 AATCTGCTACGCTACTGCTTAGGGAGATAA-AATCTACCATCTTTGACCTGCTCCACTACTACTT
1 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-ACCATCTTCGACCTGCTCCACTACTACTT
* **
44801908 AGGGAGATAGGACTACCATCTTCAACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
65 AGGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGCAGCTT
* *
44801973 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
130 AAACCTGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
* *
44802018 GATCTG-TTCCACTACTGCTTA-GAGAGATAAGA-TCTACCATCTTTGACCTGCTCCACTACTAC
1 AATCTGCTT-CACTACTGCTTAGGA-AGATAAGATTC-ACCATCTTCGACCTGCTCCACTACTAC
* ** *
44802080 TTAGGGAGATAGGACTACCATCTTCAACTTGCTCCACTACTGCTTAGGGAGATAGGACTACCATC
63 TTAGGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGCAGC
** * * * ** * *
44802145 TTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTA
128 TTAAACCTGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
*
44802191 AATCTACTTCACTACTGCTTAGGAAGA
1 AATCTGCTTCACTACTGCTTAGGAAGA
44802218 GATTCGCTGT
Statistics
Matches: 475, Mismatches: 64, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
171 41 0.09
172 71 0.15
173 58 0.12
174 304 0.64
175 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (174 bp):
AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTACTTA
GGGAGATAGGACTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGCAGCTTA
AACCTGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
Found at i:44803543 original size:7 final size:7
Alignment explanation
Indices: 44803513--44803562 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
44803503 CCTTAGCCTC
44803513 TTCATTT
1 TTCATTT
*
44803520 TT-ACTAT
1 TTCA-TTT
44803527 TTCA-TT
1 TTCATTT
44803533 TTCATTT
1 TTCATTT
44803540 TTCA-TT
1 TTCATTT
44803546 TTCATTT
1 TTCATTT
44803553 TTCATCTT
1 TTCAT-TT
44803561 TT
1 TT
44803563 TTTTTGACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 12 0.33
7 19 0.53
8 5 0.14
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
TTCATTT
Found at i:44803557 original size:20 final size:20
Alignment explanation
Indices: 44803513--44803553 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44803503 CCTTAGCCTC
44803513 TTCATTTTTACTATTTCATT
1 TTCATTTTTACTATTTCATT
44803533 TTCATTTTT-C-ATTTTCATT
1 TTCATTTTTACTA-TTTCATT
44803552 TT
1 TT
44803554 TCATCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.05
19 10 0.50
20 9 0.45
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCATTTTTACTATTTCATT
Found at i:44803567 original size:13 final size:13
Alignment explanation
Indices: 44803526--44803557 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
44803516 ATTTTTACTA
44803526 TTTCATTTTCATT
1 TTTCATTTTCATT
44803539 TTTCATTTTCATT
1 TTTCATTTTCATT
44803552 TTTCAT
1 TTTCAT
44803558 CTTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCATTTTCATT
Found at i:44804388 original size:17 final size:18
Alignment explanation
Indices: 44804361--44804395 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44804351 TTGACCTCTC
*
44804361 CTTTTTCTCTTTCTTTTT
1 CTTTTTCTCTTCCTTTTT
44804379 CTTTTT-TCTTCCTTTTT
1 CTTTTTCTCTTCCTTTTT
44804396 TTCCTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTTTCTCTTCCTTTTT
Found at i:44808750 original size:15 final size:14
Alignment explanation
Indices: 44808720--44808753 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
44808710 AGGCGCCATG
*
44808720 AGTAAATAATTAAT
1 AGTAAATAAGTAAT
44808734 AGTAAAGTAAGTAAT
1 AGTAAA-TAAGTAAT
44808749 AGTAA
1 AGTAA
44808754 TAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (14 bp):
AGTAAATAAGTAAT
Found at i:44812286 original size:83 final size:82
Alignment explanation
Indices: 44812112--44812355 Score: 287
Period size: 83 Copynumber: 2.9 Consensus size: 82
44812102 TTAGATAAAA
* * * *
44812112 ACATTTGCAGTTACTGCCACTGGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTACCAC
1 ACATTTGCAGTAACTGCCACTTGTTGTGAGTG--CAACATGGTTGCAGATTAAACAAACTGCCAC
**
44812177 CAGGTTTGTGGA-TGAGCC
64 TGGGTTTGTGGACTGAGCC
* * * * *
44812195 ACATTTGCAGTCACTGCGACTTGTTGTGAATGCAACATGGTTGCAGATCAAACAAACCGCCACTG
1 ACATTTGCAGTAACTGCCACTTGTTGTGAGTGCAACATGGTTGCAGATTAAACAAACTGCCACTG
44812260 GGTTTGTGGACT-AGCC
66 GGTTTGTGGACTGAGCC
* *
44812276 ACATATTTGCAGTAACTACCACTTGTTGTGAGTGCATAACAT-ATTCGCAGATTAAACAAACTGC
1 AC--ATTTGCAGTAACTGCCACTTGTTGTGAGTGC--AACATGGTT-GCAGATTAAACAAACTGC
44812340 CACTGGGTTTGTGGAC
61 CACTGGGTTTGTGGAC
44812356 AAACCACCAC
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
81 43 0.31
82 1 0.01
83 55 0.40
84 2 0.01
85 37 0.27
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (82 bp):
ACATTTGCAGTAACTGCCACTTGTTGTGAGTGCAACATGGTTGCAGATTAAACAAACTGCCACTG
GGTTTGTGGACTGAGCC
Found at i:44812961 original size:21 final size:21
Alignment explanation
Indices: 44812936--44812979 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44812926 GCCTCAGGTC
*
44812936 GTGTGGAAGGGTTACACGGTT
1 GTGTGGAAAGGTTACACGGTT
44812957 GTGTGGAAAGGTTACACGGTT
1 GTGTGGAAAGGTTACACGGTT
44812978 GT
1 GT
44812980 AACACCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.41, T:0.30
Consensus pattern (21 bp):
GTGTGGAAAGGTTACACGGTT
Found at i:44815647 original size:27 final size:26
Alignment explanation
Indices: 44815584--44815656 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 26
44815574 TATTCAAATT
*
44815584 ATAAAATATTTTA-AATTTATATTAAT
1 ATAAAATATTTTATAA-TTATATTAAG
* *
44815610 ATTAATATATTTTATAATTATATTTAG
1 A-TAAAATATTTTATAATTATATTAAG
44815637 ATAAAACTATTCTT-TAATTA
1 ATAAAA-TATT-TTATAATTA
44815657 GTTTAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.13
27 30 0.77
28 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
ATAAAATATTTTATAATTATATTAAG
Found at i:44821161 original size:23 final size:23
Alignment explanation
Indices: 44821070--44821164 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
44821060 TGTGTATCCT
* *
44821070 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGCCTCTTCACTC
* * *
44821093 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGCCTCTTCACTC
* *
44821116 TTCATATTCAAGTCTTTTCACTC
1 TTCATATTCAAGCCTCTTCACTC
44821139 TTCATATTCAAGCCTCTTCACTC
1 TTCATATTCAAGCCTCTTCACTC
44821162 TTC
1 TTC
44821165 TAACTTTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.44
Consensus pattern (23 bp):
TTCATATTCAAGCCTCTTCACTC
Found at i:44830987 original size:18 final size:18
Alignment explanation
Indices: 44830966--44831000 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44830956 TATAAGATAA
*
44830966 ATAAAAAAAAGATAAAAG
1 ATAAAAAAAAGACAAAAG
*
44830984 ATAAAAACAAGACAAAA
1 ATAAAAAAAAGACAAAA
44831001 ATGTGTCAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (18 bp):
ATAAAAAAAAGACAAAAG
Found at i:44831523 original size:12 final size:12
Alignment explanation
Indices: 44831502--44831541 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
44831492 TAAAAAAATA
*
44831502 AAAAATTATTTT
1 AAAAAGTATTTT
44831514 AAAAAGTATTTT
1 AAAAAGTATTTT
44831526 AAAAAGTATTTT
1 AAAAAGTATTTT
44831538 AAAA
1 AAAA
44831542 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:44833240 original size:26 final size:24
Alignment explanation
Indices: 44833196--44833250 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
44833186 CAAATAGTAC
*
44833196 TCATATTTATATAATTAAAATAT-
1 TCATATTTATATAAATAAAATATG
44833219 TCATATTTTATATTAAGATAAAATATG
1 TCATA-TTTATA-TAA-ATAAAATATG
44833246 TCATA
1 TCATA
44833251 AGCCCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
24 6 0.22
25 3 0.11
26 8 0.30
27 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (24 bp):
TCATATTTATATAAATAAAATATG
Found at i:44833619 original size:17 final size:18
Alignment explanation
Indices: 44833592--44833626 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44833582 TAAAACATTT
*
44833592 ATTGTTAATATATTTATA
1 ATTGTTAATATATGTATA
44833610 ATTG-TAATATATGTATA
1 ATTGTTAATATATGTATA
44833627 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
ATTGTTAATATATGTATA
Found at i:44834455 original size:22 final size:23
Alignment explanation
Indices: 44834429--44834474 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
44834419 TCTTGACTTA
44834429 ATAAACAT-TTCTAAATTTTATT
1 ATAAACATATTCTAAATTTTATT
* *
44834451 ATAAATATAGTTCTAATTTTTATT
1 ATAAACATA-TTCTAAATTTTATT
44834475 TTTTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
ATAAACATATTCTAAATTTTATT
Found at i:44839454 original size:23 final size:23
Alignment explanation
Indices: 44839428--44839522 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
44839418 TGAAAAGTTA
44839428 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
44839451 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
44839474 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
44839497 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
44839520 GAA
1 GAA
44839523 AGGATACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:44844876 original size:31 final size:31
Alignment explanation
Indices: 44844838--44844905 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
44844828 GTTTTTGAAT
*
44844838 AGTGACTTAAATTAAAAAATTTGAATAGTTC
1 AGTGACTTAAATGAAAAAATTTGAATAGTTC
**
44844869 AGTGACTTAAATGAAAACTTTTGAATAGTTC
1 AGTGACTTAAATGAAAAAATTTGAATAGTTC
44844900 AGTGAC
1 AGTGAC
44844906 CAAAACGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAAATTTGAATAGTTC
Found at i:44844916 original size:31 final size:31
Alignment explanation
Indices: 44844857--44844919 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
44844847 AATTAAAAAA
** *
44844857 TTTGAATAGTTCAGTGACTTAAATGAAAACT
1 TTTGAATAGTTCAGTGACCAAAACGAAAACT
44844888 TTTGAATAGTTCAGTGACCAAAACGAAAACT
1 TTTGAATAGTTCAGTGACCAAAACGAAAACT
44844919 T
1 T
44844920 ACCCATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (31 bp):
TTTGAATAGTTCAGTGACCAAAACGAAAACT
Found at i:44847268 original size:14 final size:14
Alignment explanation
Indices: 44847249--44847279 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44847239 GACATTTTTT
*
44847249 TTCTAATGATACTA
1 TTCTAACGATACTA
44847263 TTCTAACGATACTA
1 TTCTAACGATACTA
44847277 TTC
1 TTC
44847280 AAACATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:44865589 original size:13 final size:13
Alignment explanation
Indices: 44865571--44865595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44865561 CAATCAAATG
44865571 CACGCAAAATAAA
1 CACGCAAAATAAA
44865584 CACGCAAAATAA
1 CACGCAAAATAA
44865596 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (13 bp):
CACGCAAAATAAA
Found at i:44865794 original size:33 final size:33
Alignment explanation
Indices: 44865753--44865847 Score: 88
Period size: 32 Copynumber: 2.9 Consensus size: 33
44865743 CTTTAATCCA
44865753 GTAT-CACCGCAGTACAACACTCTTCTCGACCC
1 GTATCCACCGCAGTACAACACTCTTCTCGACCC
* ** **
44865785 GTATCCACCGCATTACTCCACTCTTACT-G-GTC
1 GTATCCACCGCAGTACAACACTCTT-CTCGACCC
* * *
44865817 GTATCCACCCCAGTACAGCACTCCTCTCGAC
1 GTATCCACCGCAGTACAACACTCTTCTCGAC
44865848 TCAAGTTCAT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
31 2 0.04
32 26 0.54
33 18 0.38
34 2 0.04
ACGTcount: A:0.22, C:0.41, G:0.13, T:0.24
Consensus pattern (33 bp):
GTATCCACCGCAGTACAACACTCTTCTCGACCC
Found at i:44866246 original size:62 final size:62
Alignment explanation
Indices: 44866166--44866319 Score: 265
Period size: 62 Copynumber: 2.5 Consensus size: 62
44866156 TTAAAACACT
* *
44866166 AAAATTAGAA-AAAGCTTTGTACTATAAATTTTGTAATACAAATTAAATACATTACAACATTA
1 AAAATTGGAACAAA-CTTTGTAATATAAATTTTGTAATACAAATTAAATACATTACAACATTA
*
44866228 AAAATTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTA
1 AAAATTGGAACAAACTTTGTAATATAAATTTTGTAATACAAATTAAATACATTACAACATTA
44866290 AAAATTGGAACAAACTTTGTAATATAAATT
1 AAAATTGGAACAAACTTTGTAATATAAATT
44866320 AGGTACTTTG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
62 85 0.97
63 3 0.03
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.34
Consensus pattern (62 bp):
AAAATTGGAACAAACTTTGTAATATAAATTTTGTAATACAAATTAAATACATTACAACATTA
Found at i:44866262 original size:14 final size:14
Alignment explanation
Indices: 44866243--44866271 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44866233 TGGAACAAAC
44866243 TTTGTAATATAAAT
1 TTTGTAATATAAAT
44866257 TTTGTAATATAAAT
1 TTTGTAATATAAAT
44866271 T
1 T
44866272 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:44866707 original size:142 final size:141
Alignment explanation
Indices: 44866433--44866716 Score: 478
Period size: 142 Copynumber: 2.0 Consensus size: 141
44866423 GTATAATCCA
44866433 CAACGCTTACCTCAAATTTCTCCCTAATGTCCATTTCATTACGAATTCTGGATGATTGCGGATGA
1 CAACGCTTACCTCAAATTTCTCCCTAATGTCCATTTCATTACGAATTCTGGATGATTGCGGATGA
* *
44866498 CCTTTCGGATTCCTATGCAACCCTTTGTCTGGAACAAGCTCAAAAGTTGTCGGAGGCACCTCCCA
66 CCTTTCAGATTCCTACGCAACCCTTTGTCTGGAACAAGCTCAAAAGTTGTCGGAGGCACCTCCCA
44866563 CGTAGACAGGT
131 CGTAGACAGGT
* * *
44866574 CAACGCTTACTGTCAGATTTCTCCCTAATGTCCATTTCATTATGAATTCTGGATGATTGCGGATG
1 CAACGCTTAC-CTCAAATTTCTCCCTAATGTCCATTTCATTACGAATTCTGGATGATTGCGGATG
* * * *
44866639 ACCTTTCAGATTCCTACGCAACCCTTTGTTTGGGACAAGCTCGAAAGTTGTCGGAGGCACCTCTC
65 ACCTTTCAGATTCCTACGCAACCCTTTGTCTGGAACAAGCTCAAAAGTTGTCGGAGGCACCTCCC
44866704 ACGTAGACAGGT
130 ACGTAGACAGGT
44866716 C
1 C
44866717 GGGCAGGACG
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
141 10 0.08
142 123 0.92
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (141 bp):
CAACGCTTACCTCAAATTTCTCCCTAATGTCCATTTCATTACGAATTCTGGATGATTGCGGATGA
CCTTTCAGATTCCTACGCAACCCTTTGTCTGGAACAAGCTCAAAAGTTGTCGGAGGCACCTCCCA
CGTAGACAGGT
Found at i:44871784 original size:120 final size:120
Alignment explanation
Indices: 44871621--44871853 Score: 466
Period size: 120 Copynumber: 1.9 Consensus size: 120
44871611 TCTGCAAACT
44871621 GAAAAAAAAACACATGGAATGAAATGAGAAGAAAGAAAGAAGAGAAACTTAAAAAGTGTACATTT
1 GAAAAAAAAACACATGGAATGAAATGAGAAGAAAGAAAGAAGAGAAACTTAAAAAGTGTACATTT
44871686 TTATTTTACAAAGATCTTTTGAAATTATATAAATTCTAAATTTAAAATCTGAAAA
66 TTATTTTACAAAGATCTTTTGAAATTATATAAATTCTAAATTTAAAATCTGAAAA
44871741 GAAAAAAAAACACATGGAATGAAATGAGAAGAAAGAAAGAAGAGAAACTTAAAAAGTGTACATTT
1 GAAAAAAAAACACATGGAATGAAATGAGAAGAAAGAAAGAAGAGAAACTTAAAAAGTGTACATTT
44871806 TTATTTTACAAAGATCTTTTGAAATTATATAAATTCTAAATTTAAAAT
66 TTATTTTACAAAGATCTTTTGAAATTATATAAATTCTAAATTTAAAAT
44871854 AGTAAATGAC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.28
Consensus pattern (120 bp):
GAAAAAAAAACACATGGAATGAAATGAGAAGAAAGAAAGAAGAGAAACTTAAAAAGTGTACATTT
TTATTTTACAAAGATCTTTTGAAATTATATAAATTCTAAATTTAAAATCTGAAAA
Found at i:44876814 original size:21 final size:21
Alignment explanation
Indices: 44876785--44876824 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44876775 AACATAAGTA
*
44876785 ATATATTAATTAACTTAAAAC
1 ATATATTAATAAACTTAAAAC
* *
44876806 ATATTTTAATAAATTTAAA
1 ATATATTAATAAACTTAAA
44876825 TAAAGAGACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATTAATAAACTTAAAAC
Found at i:44877244 original size:2 final size:2
Alignment explanation
Indices: 44877233--44877263 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
44877223 ATCTATAATT
44877233 TA TA -A 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
44877264 AGTACAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:44878257 original size:508 final size:508
Alignment explanation
Indices: 44877302--44878305 Score: 2008
Period size: 508 Copynumber: 2.0 Consensus size: 508
44877292 ATAAAGACTA
44877302 AGAAGGTTGACTCAAGAACAAATTTTATTTTATTTTTATTTTATTAAATAAATAGAAATATTAAA
1 AGAAGGTTGACTCAAGAACAAATTTTATTTTATTTTTATTTTATTAAATAAATAGAAATATTAAA
44877367 TTAAGGTTCCATCGGAGAATTCAGACCTAAGCATTAATCGAGAGCGATAAGGATGACAGAACTCG
66 TTAAGGTTCCATCGGAGAATTCAGACCTAAGCATTAATCGAGAGCGATAAGGATGACAGAACTCG
44877432 TGAATGTAGAGGATTCTATTGAAAACGAATCCTAATGATTTATCAGGGAAGATGGCGGAACAAAC
131 TGAATGTAGAGGATTCTATTGAAAACGAATCCTAATGATTTATCAGGGAAGATGGCGGAACAAAC
44877497 CAGAGACCAATGCATTTCTTTTTATTTTGATTCTAAGAGGTCATGGGTTAACCTGGCAACTGAAC
196 CAGAGACCAATGCATTTCTTTTTATTTTGATTCTAAGAGGTCATGGGTTAACCTGGCAACTGAAC
44877562 TAGAAAAAGAGTAAATATTCGCCCGCGAAAATTTGAGTTTAATTTTATTTGATTGTTCAATTTTT
261 TAGAAAAAGAGTAAATATTCGCCCGCGAAAATTTGAGTTTAATTTTATTTGATTGTTCAATTTTT
44877627 GTTGATCTAAATCTGATATGAATATGATGAGAAAAAAAAATAGAATAAAGATTCGTTATAACATT
326 GTTGATCTAAATCTGATATGAATATGATGAGAAAAAAAAATAGAATAAAGATTCGTTATAACATT
44877692 ATAACAAAACCAATATAAGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAAT
391 ATAACAAAACCAATATAAGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAAT
44877757 AGAATTTTTAGAACTCAAAATAATTAGAATTTAAATTACAAAGTCAATAAATG
456 AGAATTTTTAGAACTCAAAATAATTAGAATTTAAATTACAAAGTCAATAAATG
44877810 AGAAGGTTGACTCAAGAACAAATTTTATTTTATTTTTATTTTATTAAATAAATAGAAATATTAAA
1 AGAAGGTTGACTCAAGAACAAATTTTATTTTATTTTTATTTTATTAAATAAATAGAAATATTAAA
44877875 TTAAGGTTCCATCGGAGAATTCAGACCTAAGCATTAATCGAGAGCGATAAGGATGACAGAACTCG
66 TTAAGGTTCCATCGGAGAATTCAGACCTAAGCATTAATCGAGAGCGATAAGGATGACAGAACTCG
44877940 TGAATGTAGAGGATTCTATTGAAAACGAATCCTAATGATTTATCAGGGAAGATGGCGGAACAAAC
131 TGAATGTAGAGGATTCTATTGAAAACGAATCCTAATGATTTATCAGGGAAGATGGCGGAACAAAC
44878005 CAGAGACCAATGCATTTCTTTTTATTTTGATTCTAAGAGGTCATGGGTTAACCTGGCAACTGAAC
196 CAGAGACCAATGCATTTCTTTTTATTTTGATTCTAAGAGGTCATGGGTTAACCTGGCAACTGAAC
44878070 TAGAAAAAGAGTAAATATTCGCCCGCGAAAATTTGAGTTTAATTTTATTTGATTGTTCAATTTTT
261 TAGAAAAAGAGTAAATATTCGCCCGCGAAAATTTGAGTTTAATTTTATTTGATTGTTCAATTTTT
44878135 GTTGATCTAAATCTGATATGAATATGATGAGAAAAAAAAATAGAATAAAGATTCGTTATAACATT
326 GTTGATCTAAATCTGATATGAATATGATGAGAAAAAAAAATAGAATAAAGATTCGTTATAACATT
44878200 ATAACAAAACCAATATAAGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAAT
391 ATAACAAAACCAATATAAGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAAT
44878265 AGAATTTTTAGAACTCAAAATAATTAGAATTTAAATTACAA
456 AGAATTTTTAGAACTCAAAATAATTAGAATTTAAATTACAA
44878306 TTATTAATTA
Statistics
Matches: 496, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
508 496 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (508 bp):
AGAAGGTTGACTCAAGAACAAATTTTATTTTATTTTTATTTTATTAAATAAATAGAAATATTAAA
TTAAGGTTCCATCGGAGAATTCAGACCTAAGCATTAATCGAGAGCGATAAGGATGACAGAACTCG
TGAATGTAGAGGATTCTATTGAAAACGAATCCTAATGATTTATCAGGGAAGATGGCGGAACAAAC
CAGAGACCAATGCATTTCTTTTTATTTTGATTCTAAGAGGTCATGGGTTAACCTGGCAACTGAAC
TAGAAAAAGAGTAAATATTCGCCCGCGAAAATTTGAGTTTAATTTTATTTGATTGTTCAATTTTT
GTTGATCTAAATCTGATATGAATATGATGAGAAAAAAAAATAGAATAAAGATTCGTTATAACATT
ATAACAAAACCAATATAAGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAAT
AGAATTTTTAGAACTCAAAATAATTAGAATTTAAATTACAAAGTCAATAAATG
Found at i:44878335 original size:36 final size:36
Alignment explanation
Indices: 44878221--44878347 Score: 114
Period size: 36 Copynumber: 3.5 Consensus size: 36
44878211 AATATAAGAA
* **
44878221 TTTAAATTACAATTATTAATTAAATGTTATGCTAAT
1 TTTAAAATACAATTATTAATTAAAAATTATGCTAAT
* * * * * *
44878257 TTTAAAATAGAATTTTTAGAACTCAAAATAAT--TAGAA
1 TTTAAAATACAATTATT--AATTAAAAATTATGCTA-AT
*
44878294 TTTAAATTACAATTATTAATTAAAAATTATGCTAAT
1 TTTAAAATACAATTATTAATTAAAAATTATGCTAAT
*
44878330 TTTAAAATAGAATTATTA
1 TTTAAAATACAATTATTA
44878348 GAACTCTAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
35 10 0.15
36 33 0.49
37 17 0.25
38 8 0.12
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (36 bp):
TTTAAAATACAATTATTAATTAAAAATTATGCTAAT
Found at i:44878336 original size:73 final size:75
Alignment explanation
Indices: 44878217--44878362 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 75
44878207 AACCAATATA
** *
44878217 AGAATTTAAATTACAATTATTAATTAAATGTTATGCTAATTTTAAAATAGAATTTTTAGAACTC-
1 AGAATTTAAATTACAATTATTAATTAAAAATTATGCTAATTTTAAAATAGAATTATTAGAACTCT
44878281 AAA-ATAATT
66 AAACATAATT
44878290 AGAATTTAAATTACAATTATTAATTAAAAATTATGCTAATTTTAAAATAGAATTATTAGAACTCT
1 AGAATTTAAATTACAATTATTAATTAAAAATTATGCTAATTTTAAAATAGAATTATTAGAACTCT
44878355 AAACATAA
66 AAACATAA
44878363 AATATAGGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 61 0.90
74 3 0.04
75 4 0.06
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (75 bp):
AGAATTTAAATTACAATTATTAATTAAAAATTATGCTAATTTTAAAATAGAATTATTAGAACTCT
AAACATAATT
Found at i:44879167 original size:18 final size:17
Alignment explanation
Indices: 44879134--44879169 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
44879124 ATAACTTAAA
*
44879134 AATTTTATATAAAAAAT
1 AATTTTATAAAAAAAAT
44879151 AATTTTCATAAAAAAAAT
1 AATTTT-ATAAAAAAAAT
44879169 A
1 A
44879170 TTATATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTTTATAAAAAAAAT
Found at i:44879177 original size:16 final size:15
Alignment explanation
Indices: 44879131--44879177 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
44879121 AAAATAACTT
*
44879131 AAAAATTTTATATAA
1 AAAAAATTTATATAA
44879146 AAAATAATTT-TCATAA
1 AAAA-AATTTAT-ATAA
44879162 AAAAAATATTATATAA
1 AAAAAAT-TTATATAA
44879178 GAGTTATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 18 0.67
17 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAAATTTATATAA
Found at i:44883817 original size:23 final size:22
Alignment explanation
Indices: 44883772--44883817 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
44883762 TATAACTCCC
*
44883772 TTATATTTATTTAATTTTAACA
1 TTATATTTATATAATTTTAACA
* *
44883794 TTATATTTCATATATTTTTCACA
1 TTATATTT-ATATAATTTTAACA
44883817 T
1 T
44883818 AAATCATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATTTATATAATTTTAACA
Found at i:44885814 original size:2 final size:2
Alignment explanation
Indices: 44885807--44885841 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44885797 TTATGAATTA
*
44885807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44885842 AAGAAGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:44890674 original size:15 final size:15
Alignment explanation
Indices: 44890635--44890668 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44890625 AACACAAATA
*
44890635 AATACAATAAATATT
1 AATATAATAAATATT
*
44890650 AATATAATAAATTTT
1 AATATAATAAATATT
44890665 AATA
1 AATA
44890669 ACATAATATA
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:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATAATAAATATT
Found at i:44891703 original size:10 final size:10
Alignment explanation
Indices: 44891688--44891716 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
44891678 TAATACTATT
44891688 TTTTCACATG
1 TTTTCACATG
44891698 TTTTCACATG
1 TTTTCACATG
44891708 TTTTCACAT
1 TTTTCACAT
44891717 TAAACTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTCACATG
Found at i:44899242 original size:40 final size:41
Alignment explanation
Indices: 44899182--44899267 Score: 165
Period size: 40 Copynumber: 2.1 Consensus size: 41
44899172 AATTATTTTA
44899182 ATTTTGAAATATAATTATATATTTATTATTAGATAAAAATT
1 ATTTTGAAATATAATTATATATTTATTATTAGATAAAAATT
44899223 ATTTTGAAAT-TAATTATATATTTATTATTAGATAAAAATT
1 ATTTTGAAATATAATTATATATTTATTATTAGATAAAAATT
44899263 ATTTT
1 ATTTT
44899268 CTATTGGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 35 0.78
41 10 0.22
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (41 bp):
ATTTTGAAATATAATTATATATTTATTATTAGATAAAAATT
Found at i:44905305 original size:16 final size:17
Alignment explanation
Indices: 44905272--44905305 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44905262 TATAAAGTTA
*
44905272 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
44905289 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
44905305 A
1 A
44905306 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:44909649 original size:10 final size:10
Alignment explanation
Indices: 44909634--44909685 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
44909624 ATAATCCAAG
44909634 GAAGAAAAAA
1 GAAGAAAAAA
44909644 GAAGAAAAGAA
1 GAAGAAAA-AA
44909655 -AAGAAAAAA
1 GAAGAAAAAA
44909664 TGAAG-AAAAA
1 -GAAGAAAAAA
44909674 -AAGAAAAAA
1 GAAGAAAAAA
44909683 GAA
1 GAA
44909686 AAAGGAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.08
9 7 0.19
10 22 0.59
11 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:44909688 original size:8 final size:8
Alignment explanation
Indices: 44909638--44909688 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
44909628 TCCAAGGAAG
44909638 AAAAAAGA
1 AAAAAAGA
*
44909646 AGAAAAGA
1 AAAAAAGA
44909654 AAAGAAA-A
1 AAA-AAAGA
**
44909662 AATGAAGA
1 AAAAAAGA
44909670 AAAAAAG-
1 AAAAAAGA
44909677 AAAAAAGA
1 AAAAAAGA
44909685 AAAA
1 AAAA
44909689 GGAACGAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 9 0.26
8 22 0.65
9 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:44909697 original size:26 final size:24
Alignment explanation
Indices: 44909642--44909730 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
44909632 AGGAAGAAAA
* * *
44909642 AAGAAGAAAAGAAAAGAAAAAATG
1 AAGAAAAAAAGAAAAAAAAAAAGG
44909666 AAGAAAAAAAGAAAAAAGAAAAAGG
1 AAGAAAAAAAGAAAAAA-AAAAAGG
44909691 AACGAAAGAGAAACGATAAAAAAAGAAAGG
1 AA-GAAA-A-AAA-GA-AAAAAAA-AAAGG
44909721 AA-AAATAAAA
1 AAGAAA-AAAA
44909731 CTAAAATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
24 15 0.28
25 8 0.15
26 4 0.07
27 4 0.07
28 7 0.13
29 4 0.07
30 12 0.22
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.03
Consensus pattern (24 bp):
AAGAAAAAAAGAAAAAAAAAAAGG
Found at i:44911914 original size:15 final size:15
Alignment explanation
Indices: 44911894--44911924 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44911884 TCTTAATTTG
44911894 TCACGACATGTAAGC
1 TCACGACATGTAAGC
44911909 TCACGACATGTAAGC
1 TCACGACATGTAAGC
44911924 T
1 T
44911925 ATCACTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (15 bp):
TCACGACATGTAAGC
Found at i:44913694 original size:33 final size:33
Alignment explanation
Indices: 44913657--44913800 Score: 129
Period size: 33 Copynumber: 4.3 Consensus size: 33
44913647 TCGGCCAAGG
44913657 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
44913690 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
44913732 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
44913759 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
44913792 GGTTGCTAA
1 GGTTGCTAA
44913801 ATGTTGATCC
Statistics
Matches: 89, Mismatches: 7, Indels: 30
0.71 0.06 0.24
Matches are distributed among these distances:
27 22 0.25
28 2 0.02
31 2 0.02
32 2 0.02
33 29 0.33
34 3 0.03
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
41 2 0.02
42 21 0.24
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:44913787 original size:102 final size:102
Alignment explanation
Indices: 44913611--44913852 Score: 423
Period size: 102 Copynumber: 2.4 Consensus size: 102
44913601 ATAGGCCGGA
**
44913611 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCGGCCAAGGGGTTGCTAAGTGCTGATTC
1 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
* *
44913676 CCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACC
66 CCCGATTCATTGGTGGTTGCTAAATGTTGATCCCACC
44913713 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
1 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
44913778 CCCGATTCATTGGTGGTTGCTAAATGTTGATCCCACC
66 CCCGATTCATTGGTGGTTGCTAAATGTTGATCCCACC
* *
44913815 GTATCTTAAATGTGAA-AGGGTTGCTAAGTGCTGATTCC
1 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCC
44913853 ACCGTATCAT
Statistics
Matches: 134, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 21 0.16
102 113 0.84
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (102 bp):
GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
CCCGATTCATTGGTGGTTGCTAAATGTTGATCCCACC
Found at i:44913855 original size:41 final size:43
Alignment explanation
Indices: 44913792--44913895 Score: 158
Period size: 41 Copynumber: 2.5 Consensus size: 43
44913782 ATTCATTGGT
* * *
44913792 GGTTGCTAAATGTTGATCCCACCGTATC-TTAAATGTGAAA-G
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTAAATGTGAAAGG
*
44913833 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTAAATGTGAAAGG
44913876 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
44913896 CCGACTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
41 25 0.44
42 11 0.19
43 21 0.37
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTAAATGTGAAAGG
Found at i:44916691 original size:28 final size:28
Alignment explanation
Indices: 44916651--44916758 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
44916641 AACCGTATAG
*
44916651 TGTGGGCTTTAGCCAAATACAGTAACAA
1 TGTGGGCCTTAGCCAAATACAGTAACAA
*
44916679 TGTGGGCCTTAGCCCAAA-ATAGTAACAA
1 TGTGGGCCTTAG-CCAAATACAGTAACAA
*
44916707 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCAAATACAGTAACAA
* *
44916735 TGTGGGCATTAGCCCAATACAGTA
1 TGTGGGCCTTAGCCAAATACAGTA
44916759 TCAGTACAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 4 0.05
28 64 0.88
29 5 0.07
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCAAATACAGTAACAA
Found at i:44917195 original size:27 final size:27
Alignment explanation
Indices: 44917165--44917349 Score: 124
Period size: 27 Copynumber: 6.9 Consensus size: 27
44917155 GTATAACAAC
* *
44917165 CATTTTACCCTATGGGGGTATTTTAGT
1 CATTTTACCCTGTGGGGGTAATTTAGT
* * * *
44917192 CATTTTACCCTTTGGGAGTATTTTGGT
1 CATTTTACCCTGTGGGGGTAATTTAGT
* * * * *
44917219 TAGTTTATCCT-TCAGGGGT-ATTTCGAT
1 CATTTTACCCTGT-GGGGGTAATTTAG-T
* *
44917246 CATTTTACCCTGTAGGAGTAATTT-GAT
1 CATTTTACCCTGTGGGGGTAATTTAG-T
*** *
44917273 CATTTTATGTTGTGAGGGTAATTTAGT
1 CATTTTACCCTGTGGGGGTAATTTAGT
* **
44917300 CATTTTACCCTGTGGGTGTAATTCGGT
1 CATTTTACCCTGTGGGGGTAATTTAGT
* *
44917327 CATTTTACACTATGGGGGTAATT
1 CATTTTACCCTGTGGGGGTAATT
44917350 CGATCATTTT
Statistics
Matches: 123, Mismatches: 30, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
26 5 0.04
27 112 0.91
28 6 0.05
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTGTGGGGGTAATTTAGT
Found at i:44917346 original size:54 final size:53
Alignment explanation
Indices: 44917165--44917349 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 53
44917155 GTATAACAAC
* * *
44917165 CATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTTTGGGAGTATTTTGGT
1 CATTTTA-CCTATGGGGGTAATTTAGTCATTTTACCCTGTGGGAGTAATTTGGT
* * * * * *
44917219 TAGTTTATCCT-TCAGGGGT-ATTTCGATCATTTTACCCTGTAGGAGTAATTTGAT
1 CATTTTA-CCTAT-GGGGGTAATTTAG-TCATTTTACCCTGTGGGAGTAATTTGGT
** * *
44917273 CATTTTATGT-TGTGAGGGTAATTTAGTCATTTTACCCTGTGGGTGTAATTCGGT
1 CATTTTACCTATG-G-GGGTAATTTAGTCATTTTACCCTGTGGGAGTAATTTGGT
44917327 CATTTTACACTATGGGGGTAATT
1 CATTTTAC-CTATGGGGGTAATT
44917350 CGATCATTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
53 8 0.08
54 85 0.83
55 7 0.07
56 2 0.02
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.44
Consensus pattern (53 bp):
CATTTTACCTATGGGGGTAATTTAGTCATTTTACCCTGTGGGAGTAATTTGGT
Found at i:44917350 original size:27 final size:27
Alignment explanation
Indices: 44917288--44917360 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
44917278 TATGTTGTGA
** * *
44917288 GGGTAATTTAGTCATTTTACCCTGTGG
1 GGGTAATTCGGTCATTTTACACTATGG
*
44917315 GTGTAATTCGGTCATTTTACACTATGG
1 GGGTAATTCGGTCATTTTACACTATGG
*
44917342 GGGTAATTCGATCATTTTA
1 GGGTAATTCGGTCATTTTA
44917361 TTGACCTCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTAATTCGGTCATTTTACACTATGG
Found at i:44921056 original size:5 final size:5
Alignment explanation
Indices: 44921046--44921137 Score: 69
Period size: 5 Copynumber: 17.4 Consensus size: 5
44921036 CAATCCAAGG
*
44921046 AAGAA AAGAA AAGAA AAGAA AAGAA AA-AA TGAAGAA AAGGA AAGAAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA --AAGAA AAGAA AAG-AA
* * * * *
44921093 AAGGAA AAGGA ACGAA AGAGAA ACGATA AAAAA AAGAA AGGAA AA
1 AA-GAA AAGAA AAGAA A-AGAA AAGA-A AAGAA AAGAA AAGAA AA
44921138 ATAAAACTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.03
5 47 0.69
6 16 0.24
7 3 0.04
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:44921100 original size:26 final size:26
Alignment explanation
Indices: 44921051--44921137 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
44921041 CAAGGAAGAA
*
44921051 AAGAAAAGAAAAGAAAAGAAAAAATG
1 AAGAAAAGAAAAGAAAAGAAAAAAGG
* *
44921077 AAGAAAAGGAAAGAAAA-AGGAAAAGG
1 AAGAAAAGAAAAGAAAAGA-AAAAAGG
* * *
44921103 AACGAAAGAGAAACGATAA-AAAAAAGA
1 AA-GAAA-AGAAAAGAAAAGAAAAAAGG
44921130 AAGGAAAA
1 AA-GAAAA
44921138 ATAAAACTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.02
26 24 0.49
27 15 0.31
28 9 0.18
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (26 bp):
AAGAAAAGAAAAGAAAAGAAAAAAGG
Found at i:44930417 original size:20 final size:19
Alignment explanation
Indices: 44930377--44930413 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44930367 CCAAAAATTC
*
44930377 ATTTTAAAAATAAAAAAAT
1 ATTTCAAAAATAAAAAAAT
44930396 ATTTCAAAAATAAAAAAA
1 ATTTCAAAAATAAAAAAA
44930414 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTTCAAAAATAAAAAAAT
Found at i:44930423 original size:19 final size:20
Alignment explanation
Indices: 44930382--44930428 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
44930372 AATTCATTTT
**
44930382 AAAAAT-AAAAAAATATTTC
1 AAAAATAAAAAAAATATTAA
44930401 AAAAATAAAAAAAATA-TAA
1 AAAAATAAAAAAAATATTAA
44930420 AAAAATAAA
1 AAAAATAAA
44930429 TATTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAAAAATATTAA
Found at i:44933067 original size:66 final size:66
Alignment explanation
Indices: 44932989--44933121 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
44932979 ACATGTCCGT
44932989 GTATACTTACTTGATATATGTAAATGAGCATGTAAGCATGATAATTTTGAATATATATCTGATTG
1 GTATACTTACTTGATATATGTAAATGAGCATGTAAGCATGATAATTTTGAATATATATCTGATTG
44933054 G
66 G
* * * *
44933055 GTATATTTACTTGATATATGTATATGAGCATGTAAGCATGGTAATTTTGAATATATATCTGGTTG
1 GTATACTTACTTGATATATGTAAATGAGCATGTAAGCATGATAATTTTGAATATATATCTGATTG
44933120 G
66 G
44933121 G
1 G
44933122 GTGGGGTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (66 bp):
GTATACTTACTTGATATATGTAAATGAGCATGTAAGCATGATAATTTTGAATATATATCTGATTG
G
Found at i:44933949 original size:6 final size:6
Alignment explanation
Indices: 44933938--44933969 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44933928 AAATTTTGGG
44933938 AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
44933970 TTAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:44936640 original size:27 final size:27
Alignment explanation
Indices: 44936610--44936661 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
44936600 TTGTTACTGT
* *
44936610 CTTTTATT-TTTTATTTTTTCATTCTTC
1 CTTTT-TTATTTTATTCTTTAATTCTTC
44936637 CTTTTTTATTTTATTCTTTAATTCT
1 CTTTTTTATTTTATTCTTTAATTCT
44936662 CTTCTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (27 bp):
CTTTTTTATTTTATTCTTTAATTCTTC
Found at i:44938065 original size:24 final size:22
Alignment explanation
Indices: 44938038--44938089 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
44938028 GCTGACTATG
*
44938038 ATTTGTTCTGTATATGAAACTGAA
1 ATTTGTTCTGCATATGAAA-T-AA
* *
44938062 ATTTTTTCTGCATCTGAAATAA
1 ATTTGTTCTGCATATGAAATAA
44938084 ATTTGT
1 ATTTGT
44938090 CATGGATCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 7 0.29
23 1 0.04
24 16 0.67
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (22 bp):
ATTTGTTCTGCATATGAAATAA
Found at i:44949660 original size:6 final size:6
Alignment explanation
Indices: 44949649--44949673 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44949639 CTTAAGTCCA
44949649 AATCTG AATCTG AATCTG AATCTG A
1 AATCTG AATCTG AATCTG AATCTG A
44949674 CTGCATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
AATCTG
Found at i:44955662 original size:27 final size:28
Alignment explanation
Indices: 44955619--44955708 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
44955609 TAGTATCAAT
* * *
44955619 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTATGGGCATTAGCCCAATACAGTA
* *
44955647 ACAGTAT-GGCATTAGCTCAATACAATA
1 ACAGTATGGGCATTAGCCCAATACAGTA
* * *
44955674 ACAATGTGGGCTTTAGCCCAATACAGTA
1 ACAGTATGGGCATTAGCCCAATACAGTA
44955702 ATCAGTA
1 A-CAGTA
44955709 CAATGCAGTG
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
27 21 0.44
28 24 0.50
29 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (28 bp):
ACAGTATGGGCATTAGCCCAATACAGTA
Found at i:44955695 original size:28 final size:28
Alignment explanation
Indices: 44955615--44955707 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
44955605 TATATAGTAT
* *
44955615 CAAT-ACAGTGTGGGCCTTAGCCCATTA
1 CAATAACAGTGTGGGCATTAGCCCAATA
* * *
44955642 CAGTAACAGTAT-GGCATTAGCTCAATA
1 CAATAACAGTGTGGGCATTAGCCCAATA
* *
44955669 CAATAACAATGTGGGCTTTAGCCCAATA
1 CAATAACAGTGTGGGCATTAGCCCAATA
*
44955697 CAGTAATCAGT
1 CAATAA-CAGT
44955708 ACAATGCAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 24 0.47
28 24 0.47
29 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (28 bp):
CAATAACAGTGTGGGCATTAGCCCAATA
Found at i:44955868 original size:26 final size:26
Alignment explanation
Indices: 44955795--44955870 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
44955785 CACCAATATT
* * * *
44955795 GCAGTAAAGCTTCCAGTAATAATAAC
1 GCAGCAAAGCTACCAGTAACAGTAAC
*
44955821 GCAGCAAAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTACCAGTAACAGTAAC
44955847 GCAGCAAAGCTACCAGTAACAGTA
1 GCAGCAAAGCTACCAGTAACAGTA
44955871 TATGTGGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGTAACAGTAAC
Found at i:44956119 original size:27 final size:27
Alignment explanation
Indices: 44956063--44956275 Score: 259
Period size: 27 Copynumber: 8.0 Consensus size: 27
44956053 TATAACAGTC
* *
44956063 ATTTTACCCTTTG-GGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
44956089 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
44956116 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
44956143 ATTTTACCTTTCGAAGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
44956170 ATTTTACCCTTCAAGGGAATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* **
44956197 ATTTTACCCTTCGAGGGCATTTAAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
44956224 CTTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
44956251 ATTTTACCCTTC-AAGGTATTTCGGT
1 ATTTTACCCTTCGAGGGTATTTCGGT
44956276 CCCATTACGA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.15
27 133 0.85
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:44956511 original size:71 final size:71
Alignment explanation
Indices: 44956403--44956541 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
44956393 CTTTTCTAGC
* *
44956403 TTTCGGCTTTTACCGATTTGCAGTTGAGAAAAGGTGTGATTACACACATGTTTACAAGAAGAGTT
1 TTTCGGCTTTTACCAATTTGCAGTTGAGAAAAGGTGTGATTACACACATGTTTACAAGAAAAGTT
44956468 CTAGTT
66 CTAGTT
*
44956474 TTTCGGCTTTTACCAATTTGCAGTTGAGAAAGGGTGTGATTACACACATGTTTACAAGAAAAGTT
1 TTTCGGCTTTTACCAATTTGCAGTTGAGAAAAGGTGTGATTACACACATGTTTACAAGAAAAGTT
44956539 CTA
66 CTA
44956542 TTTCCACGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (71 bp):
TTTCGGCTTTTACCAATTTGCAGTTGAGAAAAGGTGTGATTACACACATGTTTACAAGAAAAGTT
CTAGTT
Found at i:44963901 original size:29 final size:28
Alignment explanation
Indices: 44963853--44963915 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
44963843 TATAATATAT
* *
44963853 ATAAATTAAAATGTTAAAATAAATTTAA
1 ATAAATTAAAATATTAAAATAAATTGAA
* *
44963881 ATAAATTAACAATATTGAAATAAGTTGAA
1 ATAAATTAA-AATATTAAAATAAATTGAA
44963910 ATAAAT
1 ATAAAT
44963916 ATATATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
ATAAATTAAAATATTAAAATAAATTGAA
Found at i:44964124 original size:3 final size:3
Alignment explanation
Indices: 44964112--44964212 Score: 67
Period size: 3 Copynumber: 33.0 Consensus size: 3
44964102 AAAATAAAAA
* ** * * * *
44964112 AAT AAG AAT AAT AAT ACC AAT AAT AAT AAT AAT AAT ACT ACT ACT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
44964160 ACT ACT ACT ACT AAT AAT AAT AAT AAT AAT AAT GAT ACT AAAT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
44964207 AAT AAT
1 AAT AAT
44964213 CTTAAACTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 79 0.94
4 5 0.06
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44966699 original size:40 final size:40
Alignment explanation
Indices: 44966639--44966715 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
44966629 GAAATGTGTA
*
44966639 ATCCCCTACTAGCCAATCACTATGCATCATGCAGAATCAG
1 ATCCCCTACTAGCCAATCACTATGCAACATGCAGAATCAG
* *
44966679 ATCCCCTACTAGCTATTCACTATGCAACATGCAGAAT
1 ATCCCCTACTAGCCAATCACTATGCAACATGCAGAAT
44966716 TAGTCTGGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (40 bp):
ATCCCCTACTAGCCAATCACTATGCAACATGCAGAATCAG
Found at i:44966783 original size:28 final size:28
Alignment explanation
Indices: 44966750--44966837 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
44966740 GAATCAGTAT
*
44966750 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
44966778 AGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * * *
44966806 AATGTGAGCTTTAGCCCAATACAATAATC
1 AGTGTGGGCCTTAGCCCAATACAGTAA-C
44966835 AGT
1 AGT
44966838 AAAATGCAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 50 0.94
29 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:44966975 original size:26 final size:26
Alignment explanation
Indices: 44966946--44967016 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
44966936 CCAATATCGT
* * *
44966946 AGCAAAGCCGCCAGTAATAATAACTC
1 AGCAAAGCTGCCAGTAACAATAACAC
** * *
44966972 AGCAAAATTTCTAGTAACAATAACAC
1 AGCAAAGCTGCCAGTAACAATAACAC
44966998 AGCAAAGCTGCCAGTAACA
1 AGCAAAGCTGCCAGTAACA
44967017 GTATATGTGG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAATAACAC
Found at i:44967240 original size:27 final size:27
Alignment explanation
Indices: 44967212--44967453 Score: 213
Period size: 27 Copynumber: 9.0 Consensus size: 27
44967202 TATAACGATC
*
44967212 ATTTTA-CCTTACAGGGGTATTTCGGTC
1 ATTTTACCCTT-CAGGGGTATTTCGGTA
* **
44967239 ATTTTACCCTTCGGGGGTATTTTTGTA
1 ATTTTACCCTTCAGGGGTATTTCGGTA
* * * *
44967266 ATTTTACCCTTTAAGGGTATTTCGATC
1 ATTTTACCCTTCAGGGGTATTTCGGTA
* * *
44967293 ATTTTACCTTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCAGGGGTATTTCGGTA
* *
44967320 ATTTTACCCTTC-GAGAGTATTTTGGTA
1 ATTTTACCCTTCAG-GGGTATTTCGGTA
* * **
44967347 ATTTTACCTTTCAAGGGTATTTCACTA
1 ATTTTACCCTTCAGGGGTATTTCGGTA
* * * * *
44967374 ATTTTAACTTTAAAGGGTATTTCAGTA
1 ATTTTACCCTTCAGGGGTATTTCGGTA
*
44967401 ATTTTACCCTTC-GAAGGTATTTCGGTA
1 ATTTTACCCTTCAG-GGGTATTTCGGTA
44967428 ATTTTACCCTTC-GAGGGTATTTCGGT
1 ATTTTACCCTTCAG-GGGTATTTCGGT
44967454 CCCATTACGG
Statistics
Matches: 175, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 170 0.97
28 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCAGGGGTATTTCGGTA
Found at i:44967301 original size:81 final size:81
Alignment explanation
Indices: 44967198--44967451 Score: 307
Period size: 81 Copynumber: 3.1 Consensus size: 81
44967188 TTCATCTCCT
** * * *
44967198 AGGGTATAACGATCATTTTACCTTACAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTTT
1 AGGGTATTTCGATCATTTTACCTTACAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTG
44967263 GTAATTTTACCCTTTA
66 GTAATTTTACCCTTTA
* * * *
44967279 AGGGTATTTCGATCATTTTACCTTTCGGGGGTATTTCGATAATTTTACCCTTCGAGAGTATTTTG
1 AGGGTATTTCGATCATTTTACCTTACAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTG
44967344 GTAATTTTA-CCTTTCA
66 GTAATTTTACCCTTT-A
* * * * *
44967360 AGGGTATTTC-ACTAATTTTAACTTTA-AAGGGTATTTCAGTAATTTTACCCTTCGAAGGTATTT
1 AGGGTATTTCGA-TCATTTT-ACCTTACAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTT
* **
44967423 CGGTAATTTTACCCTTCG
64 TGGTAATTTTACCCTTTA
44967441 AGGGTATTTCG
1 AGGGTATTTCG
44967452 GTCCCATTAC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
80 6 0.04
81 133 0.90
82 8 0.05
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (81 bp):
AGGGTATTTCGATCATTTTACCTTACAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTG
GTAATTTTACCCTTTA
Found at i:44968156 original size:34 final size:36
Alignment explanation
Indices: 44968106--44968175 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 36
44968096 AAAAAGATTA
* *
44968106 TTCGGCCAAAGAAGAAAAAAGAGAA-GAGAAGAAAGG
1 TTCGGCC-AAGAAGAAAAAAGAAAAGGAAAAGAAAGG
44968142 TTCGGCC-AGAAGAAAAAAGAAAAGGAAAAGAAAG
1 TTCGGCCAAGAAGAAAAAAGAAAAGGAAAAGAAAG
44968176 TAAAATGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 15 0.48
35 9 0.29
36 7 0.23
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (36 bp):
TTCGGCCAAGAAGAAAAAAGAAAAGGAAAAGAAAGG
Found at i:44969584 original size:6 final size:6
Alignment explanation
Indices: 44969573--44969606 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
44969563 TGATAATATA
44969573 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
44969607 TTTCCTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:44973458 original size:18 final size:18
Alignment explanation
Indices: 44973414--44973461 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
44973404 ATAAAAATAA
44973414 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
44973432 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
44973450 AATGTTTTGAAA
1 AATGTTTTGAAA
44973462 ACGAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:44975887 original size:3 final size:3
Alignment explanation
Indices: 44975879--44975920 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
44975869 TCTTAATATT
44975879 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
44975921 GTGCAGTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:44977010 original size:19 final size:20
Alignment explanation
Indices: 44976966--44977011 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
44976956 AGTAATATAA
44976966 TATATATTTATTTTAATTGAG
1 TATATA-TTATTTTAATTGAG
*
44976987 -A-ATATTATTTT-ATTTAG
1 TATATATTATTTTAATTGAG
44977004 TATATATT
1 TATATATT
44977012 CAATGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.23
18 8 0.36
19 8 0.36
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TATATATTATTTTAATTGAG
Found at i:44979258 original size:50 final size:50
Alignment explanation
Indices: 44979162--44979397 Score: 313
Period size: 50 Copynumber: 4.8 Consensus size: 50
44979152 GATAATAACA
* * *
44979162 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT------TCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
44979206 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
44979256 TGCCAACGCTATGTCCCACACATGGTCTTACATGGGACCTTTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44979306 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44979356 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44979398 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 28 0.17
50 137 0.83
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44981374 original size:17 final size:17
Alignment explanation
Indices: 44981352--44981384 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44981342 CGGCCAAAAG
44981352 GGTATACTGCTCATTTT
1 GGTATACTGCTCATTTT
*
44981369 GGTATACTTCTCATTT
1 GGTATACTGCTCATTT
44981385 CGGTTTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (17 bp):
GGTATACTGCTCATTTT
Done.