Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 182 of 213
Found at i:54813143 original size:18 final size:19
Alignment explanation
Indices: 54813120--54813156 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
54813110 ACAACGAAGT
*
54813120 AAAAGAAA-GAAAGGAAAA
1 AAAAGAAAGGAAAAGAAAA
54813138 AAAAGAAAGGAAAAGAAAA
1 AAAAGAAAGGAAAAGAAAA
54813157 GAGGAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGGAAAAGAAAA
Found at i:54814622 original size:12 final size:12
Alignment explanation
Indices: 54814605--54814655 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
54814595 AATTATAAAA
54814605 TTATATTAATAT
1 TTATATTAATAT
54814617 TTATATTAA-AT
1 TTATATTAATAT
* *
54814628 ATTAAATATAATAA
1 -TTATAT-TAATAT
*
54814642 TTATATTAAAAT
1 TTATATTAATAT
54814654 TT
1 TT
54814656 TAAATATCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 20 0.65
13 8 0.26
14 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:54814639 original size:25 final size:26
Alignment explanation
Indices: 54814611--54814696 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
54814601 AAAATTATAT
*
54814611 TAATATTTATATT-AAATATTAAATA
1 TAATAATTATATTAAAATATTAAATA
*
54814636 TAATAATTATATTAAAATTTTAAATA
1 TAATAATTATATTAAAATATTAAATA
*
54814662 TCACTAATAATATATTAAAATA-T-AATA
1 T-AATAAT--TATATTAAAATATTAAATA
*
54814689 TAGTAATT
1 TAATAATT
54814697 TATACCTCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
24 1 0.02
25 12 0.23
26 17 0.33
27 10 0.19
28 1 0.02
29 11 0.21
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
TAATAATTATATTAAAATATTAAATA
Found at i:54815182 original size:57 final size:57
Alignment explanation
Indices: 54815111--54815220 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
54815101 ACGACTGTTT
* *
54815111 AACAAGTTTTTCTTTAATCTTATTGAGTATTGCTTCCAATTTTTGGAATTTCTAATC
1 AACAAGTTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
*
54815168 AACAAGTTTTTCTTTAATCCTATTGAGTATTGCTTTCAATGTTTGGAATTTCT
1 AACAAGTTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCT
54815221 GATCTGCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (57 bp):
AACAAGTTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
Found at i:54818763 original size:20 final size:20
Alignment explanation
Indices: 54818738--54818775 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54818728 TTAACTTAAT
*
54818738 AAACCTTATTTTGATTAAAC
1 AAACCTTATTTTAATTAAAC
54818758 AAACCTTATTTTAATTAA
1 AAACCTTATTTTAATTAA
54818776 TCTAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (20 bp):
AAACCTTATTTTAATTAAAC
Found at i:54820314 original size:42 final size:42
Alignment explanation
Indices: 54820262--54820365 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
54820252 TTTTACTTTA
* * *
54820262 TGTTTAGCTCTTATGAGCTTCTATTTAACTCATACGAGTTTT
1 TGTTCAGCTCTTACGAGCTTCTATTTAACTCATACGAGTTTC
* * *
54820304 TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTATTTAACTCATACGAGTTTC
54820346 TGTTCAGCT-TT-CGAGCTTCT
1 TGTTCAGCTCTTACGAGCTTCT
54820366 GTTCAGCTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 9 0.16
41 2 0.04
42 45 0.80
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (42 bp):
TGTTCAGCTCTTACGAGCTTCTATTTAACTCATACGAGTTTC
Found at i:54820367 original size:19 final size:21
Alignment explanation
Indices: 54820262--54820387 Score: 116
Period size: 21 Copynumber: 6.2 Consensus size: 21
54820252 TTTTACTTTA
* *
54820262 TGTTTAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * * * *
54820283 TATTTAACTCATACGAGTTTT
1 TGTTCAGCTCTTACGAGCTTC
54820304 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * *
54820325 TGTTTAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
54820346 TGTTCAGCT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
54820365 TGTTCAGCT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
54820384 TGTT
1 TGTT
54820388 AACGATGTAC
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
19 29 0.34
20 2 0.02
21 54 0.64
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:54825922 original size:16 final size:16
Alignment explanation
Indices: 54825901--54825967 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
54825891 TGAATTACTG
* *
54825901 ATTACAACTCTATTTC
1 ATTACAACTTTATTCC
*
54825917 ATTACAGCTTTATTCC
1 ATTACAACTTTATTCC
54825933 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
* *
54825949 ATTACAACATTATTTC
1 ATTACAACTTTATTCC
54825965 ATT
1 ATT
54825968 CCAATGAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.01, T:0.45
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:54826835 original size:28 final size:29
Alignment explanation
Indices: 54826799--54826853 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
54826789 TAGTTTTTGC
54826799 ATGTGTTTTAAATTCTA-AAAATCTTAATG
1 ATGTGTTTTAAATTCTACAAAAT-TTAATG
**
54826828 ATGT-TTTTTTATTCTACAAAATTTAA
1 ATGTGTTTTAAATTCTACAAAATTTAA
54826854 ATTAGATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (29 bp):
ATGTGTTTTAAATTCTACAAAATTTAATG
Found at i:54826836 original size:29 final size:28
Alignment explanation
Indices: 54826799--54826853 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
54826789 TAGTTTTTGC
54826799 ATGTGTTTTAAATTCTA-AAAATCTTAATG
1 ATGTGTTTT-AATTCTACAAAAT-TTAATG
* *
54826828 ATGTTTTTTTATTCTACAAAATTTAA
1 ATGTGTTTTAATTCTACAAAATTTAA
54826854 ATTAGATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGTGTTTTAATTCTACAAAATTTAATG
Found at i:54834619 original size:13 final size:13
Alignment explanation
Indices: 54834601--54834632 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
54834591 GGCTTAACAT
54834601 TCTGCATATTGAA
1 TCTGCATATTGAA
54834614 TCTGCATATTGAA
1 TCTGCATATTGAA
54834627 TCTGCA
1 TCTGCA
54834633 AAGAACTTTC
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:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (13 bp):
TCTGCATATTGAA
Found at i:54838351 original size:69 final size:69
Alignment explanation
Indices: 54838238--54838366 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
54838228 AATTCTAACA
* * * *
54838238 GTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCGAACATAAAAGAATTCTT
1 GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAATTCTT
54838303 AAAT
66 AAAT
* *
54838307 GTTGTTAAATCAAAATGTTACAAAATCAAAGTTAACGATGTGGAATTGAAAATAAAAGAA
1 GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAA
54838367 AGAAAAAGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (69 bp):
GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAATTCTT
AAAT
Found at i:54838779 original size:16 final size:17
Alignment explanation
Indices: 54838758--54838803 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
54838748 AATCATTAAG
54838758 AAAATT-TTAAAGAGAT
1 AAAATTATTAAAGAGAT
*
54838774 AAAATTAGTTTAAGAGAT
1 AAAATTA-TTAAAGAGAT
*
54838792 AAAAGTATTAAA
1 AAAATTATTAAA
54838804 TTGAGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAATTATTAAAGAGAT
Found at i:54843494 original size:17 final size:17
Alignment explanation
Indices: 54843461--54843495 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54843451 TACTTGAATC
* *
54843461 AATATATTTTTTTTATA
1 AATATATTTGTTATATA
54843478 AATATATTTGTTATATA
1 AATATATTTGTTATATA
54843495 A
1 A
54843496 TTTTGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AATATATTTGTTATATA
Found at i:54848953 original size:30 final size:31
Alignment explanation
Indices: 54848917--54848980 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
54848907 ATTAGTCATC
*
54848917 ATTGGAAA-ATTAAATAA-AGAAA-ATGACTAA
1 ATTGGAAAGATGAAATAATA-AAAGATGA-TAA
54848947 ATTGGAAAGATGAAATAATAAAAGATGATAA
1 ATTGGAAAGATGAAATAATAAAAGATGATAA
54848978 ATT
1 ATT
54848981 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (31 bp):
ATTGGAAAGATGAAATAATAAAAGATGATAA
Found at i:54849940 original size:25 final size:26
Alignment explanation
Indices: 54849911--54849979 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 26
54849901 TTCTTGTGAC
* *
54849911 CTTCCCGATTAATGACTCTCT-TGAG
1 CTTCCAGATTAATGGCTCTCTATGAG
**
54849936 CTTCCAG-TTTGTGGCTCT-TATGAG
1 CTTCCAGATTAATGGCTCTCTATGAG
*
54849960 CTTCCTGATTAATGGCTCTC
1 CTTCCAGATTAATGGCTCTC
54849980 CGGAGCTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 15 0.44
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (26 bp):
CTTCCAGATTAATGGCTCTCTATGAG
Found at i:54849964 original size:49 final size:49
Alignment explanation
Indices: 54849884--54849988 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
54849874 TGGCTCTCAC
* *
54849884 GAGCTTTCCATTTATGGTTCTTGTGACCTTCCCGATTAATGACTCTCTT
1 GAGCTTTCCATTTATGGCTCTTATGACCTTCCCGATTAATGACTCTCTT
* * * * **
54849933 GAGC-TTCCAGTTTGTGGCTCTTATGAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTTCCA-TTTATGGCTCTTATGACCTTCCCGATTAATGACTCTCTT
54849982 GAGCTTT
1 GAGCTTT
54849989 TCGATATTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 5 0.11
49 39 0.85
50 2 0.04
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (49 bp):
GAGCTTTCCATTTATGGCTCTTATGACCTTCCCGATTAATGACTCTCTT
Found at i:54850133 original size:25 final size:25
Alignment explanation
Indices: 54850069--54850133 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
54850059 TTCTCATTAC
*
54850069 ATGGCTCACATGAGCTTCCCGTTAT
1 ATGGCTCACATGAGCTACCCGTTAT
* * *
54850094 ATGGCTCAAAAGAGCTACCCATTTAT
1 ATGGCTCACATGAGCTACCC-GTTAT
54850120 AT-GCTCACATGAGC
1 ATGGCTCACATGAGC
54850134 ATTCCTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 27 0.82
26 6 0.18
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (25 bp):
ATGGCTCACATGAGCTACCCGTTAT
Found at i:54858516 original size:50 final size:50
Alignment explanation
Indices: 54858456--54858578 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 50
54858446 TTCCCGTTTG
* * * *
54858456 TGGCTCTTATGAGCTT-TTTATTAATTGACTCTCCGAAGCTTTTCGATAAC
1 TGGCTCTTATGAACTTCCTAATTAA-TGACTCTCCGAAGCTTTCCGATAAC
* * *
54858506 TGGCTCTTATGAACTTCCTAATTAATGGCTCTCCGGAGCTTTCCGAT-AT
1 TGGCTCTTATGAACTTCCTAATTAATGACTCTCCGAAGCTTTCCGATAAC
* *
54858555 TGGCTCGCT-TGAACTTCCTGATTA
1 TGGCTC-TTATGAACTTCCTAATTA
54858579 TGGCTCTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
49 21 0.34
50 35 0.56
51 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (50 bp):
TGGCTCTTATGAACTTCCTAATTAATGACTCTCCGAAGCTTTCCGATAAC
Found at i:54865240 original size:6 final size:7
Alignment explanation
Indices: 54865220--54865244 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54865210 AAAAATTTTG
54865220 AATAAAA
1 AATAAAA
54865227 AATAAAA
1 AATAAAA
54865234 AATAAAA
1 AATAAAA
54865241 AATA
1 AATA
54865245 CATAGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:54865240 original size:26 final size:25
Alignment explanation
Indices: 54865185--54865243 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
54865175 CACTTAATAG
* *
54865185 AAAAAATTTGATAAAAAATGATAAT
1 AAAAAATTTGATAAAAAATAAAAAT
*
54865210 AAAAATTTTGAATAAAAAATAAAAAAT
1 AAAAAATTTG-ATAAAAAAT-AAAAAT
54865237 AAAAAAT
1 AAAAAAT
54865244 ACATAGACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.32
26 9 0.32
27 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (25 bp):
AAAAAATTTGATAAAAAATAAAAAT
Found at i:54870680 original size:131 final size:132
Alignment explanation
Indices: 54870390--54870974 Score: 620
Period size: 132 Copynumber: 4.4 Consensus size: 132
54870380 TTTTATGAAT
* * * * ** * * *
54870390 AATTTTATTTGAGTTAGCTGATCTTAGATCGTAACTCTGAACAGCTTGTTGATTTAATATTGCAG
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
*
54870455 CTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTT-AGAATCATGA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAG-ATCATGA
54870519 ACA
130 ACA
* * * * *
54870522 AATTTTATTTAAGTTAGCTGATCTCATATTGCAACTCTGAACAACTCGTTGATTTAAGATCACAG
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
* * * * * * **
54870587 TTGATATTGTTAAAGTTCACTGATTTAA-ATCGTAATCTAAGTTCATTTGATTTAAGATTGTGAA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAA
54870651 CA
131 CA
* * * ** ** *
54870653 AATTTTATTTGAGTTAGTTGATTTCATATCACAACTCCAAACAGTTCACTGATTTAAGATCGCAA
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
* * * * * * * * *
54870718 ATGATATTGTTAATGTTTGCTGATTTAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAA
54870783 CA
131 CA
* * * *
54870785 AATTTTAATTAAGTTAGCTGATCTCGA-ATAGCAACT-TCGAACAACTCATTGATTTAATATCGC
1 AATTTTATTTGAGTTAGCTGATCTC-ATATCGCAACTCT-GAACAACTCATTGATTTAAGATCGC
* * * * * *
54870848 AATTGATATTATTAAGGCTCGTTGATTTAAGATCACAAAACTAATTTCATTCGATTTAAGATTAT
64 AATTGATATTGTTAAGGCTCGCTGATTTAAGATCGC-AACCTAAGTTCATTCGATTTAAGATCAT
54870913 GAACA
128 GAACA
* * * *
54870918 AATTTTATTTGAGTTAGTTGATCTCATATCGCAACTATGAACAACTCTTTGGTTTAA
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAA
54870975 AATTGCAGCT
Statistics
Matches: 370, Mismatches: 76, Indels: 13
0.81 0.17 0.03
Matches are distributed among these distances:
131 106 0.29
132 188 0.51
133 75 0.20
134 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (132 bp):
AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAA
CA
Found at i:54870857 original size:263 final size:265
Alignment explanation
Indices: 54870456--54870953 Score: 707
Period size: 263 Copynumber: 1.9 Consensus size: 265
54870446 ATATTGCAGC
* * *
54870456 TGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAGAATCATGAAC
1 TGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAAC
* * *
54870521 AAATTTTATTTAAGTTAGCTGATCTCATATTGCAACTCTGAACAACTCGTTGATTTAAGATCACA
66 AAATTTTAATTAAGTTAGCTGATCTCATATAGCAACTCTGAACAACTCATTGATTTAAGATCACA
* * * ** * * *
54870586 GTTGATATTGTTAAAGTTCACTGATTTAA-ATC-GTAATCTAAGTTCATTTGATTTAAGATTGTG
131 ATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCATTCGATTTAAGATTATG
*
54870649 AACAAATTTTATTTGAGTTAGTTGATTTCATATCACAACTCCAAACAGTTCACTGATTTAAGATC
196 AACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACTCCAAACAGTTCACTGATTTAAGATC
54870714 GCAAA
261 GCAAA
* * * * *
54870719 TGATATTGTTAATGTTTGCTGATTTAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAAC
1 TGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAAC
* *
54870784 AAATTTTAATTAAGTTAGCTGATCTCGA-ATAGCAACT-TCGAACAACTCATTGATTTAATATCG
66 AAATTTTAATTAAGTTAGCTGATCTC-ATATAGCAACTCT-GAACAACTCATTGATTTAAGATCA
* ** *
54870847 CAATTGATATTATTAAGGCTCGTTGATTTAAGATCACAAAACTAATTTCATTCGATTTAAGATTA
129 CAATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCATTCGATTTAAGATTA
*
54870912 TGAACAAATTTTATTTGAGTTAGTTGATCTCATATCGCAACT
194 TGAACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACT
54870954 ATGAACAACT
Statistics
Matches: 204, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
262 1 0.00
263 136 0.67
264 4 0.02
265 63 0.31
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (265 bp):
TGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAAC
AAATTTTAATTAAGTTAGCTGATCTCATATAGCAACTCTGAACAACTCATTGATTTAAGATCACA
ATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCATTCGATTTAAGATTATG
AACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACTCCAAACAGTTCACTGATTTAAGATC
GCAAA
Found at i:54874313 original size:20 final size:20
Alignment explanation
Indices: 54874288--54874327 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
54874278 CGTAAAATAA
*
54874288 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
54874308 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54874328 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:54874317 original size:34 final size:35
Alignment explanation
Indices: 54874273--54874339 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
54874263 CAGTAAAATG
* *
54874273 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* *
54874307 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
54874340 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:54874522 original size:22 final size:24
Alignment explanation
Indices: 54874497--54874547 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
54874487 TTATTTATAA
54874497 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
54874517 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
54874543 ATAAA
1 ATAAA
54874548 AGCATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:54880001 original size:21 final size:23
Alignment explanation
Indices: 54879958--54880002 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
54879948 AACTGACATG
54879958 TAAATAATACATGTTAGAAATCA
1 TAAATAATACATGTTAGAAATCA
54879981 TAAA-AATACATGTTA-AAATCA
1 TAAATAATACATGTTAGAAATCA
54880002 T
1 T
54880003 GTTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (23 bp):
TAAATAATACATGTTAGAAATCA
Found at i:54882730 original size:16 final size:17
Alignment explanation
Indices: 54882705--54882741 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
54882695 CCAAATATAA
54882705 TAAATATTTTT-ATTTT
1 TAAATATTTTTAATTTT
*
54882721 TAAATTTTTTTAATTTT
1 TAAATATTTTTAATTTT
54882738 TAAA
1 TAAA
54882742 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAAATATTTTTAATTTT
Found at i:54891705 original size:13 final size:13
Alignment explanation
Indices: 54891687--54891713 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54891677 TGACAGTTGG
54891687 ATCTAAATTTTAA
1 ATCTAAATTTTAA
54891700 ATCTAAATTTTAA
1 ATCTAAATTTTAA
54891713 A
1 A
54891714 ATTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATCTAAATTTTAA
Found at i:54899079 original size:24 final size:24
Alignment explanation
Indices: 54899047--54899105 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
54899037 TATAATATAA
54899047 TTTTTATAAATTCTATAAAAATAT
1 TTTTTATAAATTCTATAAAAATAT
* *
54899071 TTTTTATAATTTGTATAAAAATAT
1 TTTTTATAAATTCTATAAAAATAT
54899095 TTTTTA-AAATT
1 TTTTTATAAATT
54899106 TAATTTGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTATAAATTCTATAAAAATAT
Found at i:54901486 original size:24 final size:24
Alignment explanation
Indices: 54901441--54901486 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
54901431 CAACAATTTG
* *
54901441 AGAATGAGCTGGTGGAGCATGATC
1 AGAAGGAGCTGGTGGAACATGATC
*
54901465 AGAAGGAGCTGGTGGAATATGA
1 AGAAGGAGCTGGTGGAACATGA
54901487 GTTGTTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.39, T:0.20
Consensus pattern (24 bp):
AGAAGGAGCTGGTGGAACATGATC
Found at i:54903732 original size:37 final size:37
Alignment explanation
Indices: 54903688--54903760 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
54903678 CATCAACAAC
*
54903688 AAAAAAAACCTAATAGTTTTCTTTTAGATGAAGAATA
1 AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAATA
*
54903725 AAAAAAAACTTAATAGTTTTCTTTTAAATGAAGAAT
1 AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAAT
54903761 TGTTCAGACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (37 bp):
AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAATA
Found at i:54911303 original size:26 final size:26
Alignment explanation
Indices: 54911244--54911326 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
54911234 TAGTTCAAGC
*
54911244 GAGCCAAT-ATCAGGAAGCTC-CAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
54911268 GAGGCATTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * *
54911294 GAGCCTTTAATCGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
54911320 GAGCCAT
1 GAGCCAT
54911327 ATAACGGGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 6 0.12
25 12 0.24
26 32 0.64
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:54911334 original size:26 final size:26
Alignment explanation
Indices: 54911256--54911341 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
54911246 GCCAATATCA
* *
54911256 GGAAGCTC-CAAAGAGGCATTAATCA
1 GGAAGCTCACAAAGAGCCATTAATCG
*
54911281 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCATTAATCG
*
54911307 GGAAGCTCACGAAGAGCCATATAA-CG
1 GGAAGCTCACAAAGAGCCAT-TAATCG
*
54911333 GGATGCTCA
1 GGAAGCTCA
54911342 TAAGAGCTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 8 0.15
26 42 0.79
27 3 0.06
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATCG
Found at i:54914257 original size:24 final size:24
Alignment explanation
Indices: 54914230--54914278 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
54914220 CTTTTGGAGA
54914230 GTTGAAAAGGTTTAGAGAATTTTG
1 GTTGAAAAGGTTTAGAGAATTTTG
54914254 GTTGAAAAGGTTTAGAGAATTTTG
1 GTTGAAAAGGTTTAGAGAATTTTG
54914278 G
1 G
54914279 GTGGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.37
Consensus pattern (24 bp):
GTTGAAAAGGTTTAGAGAATTTTG
Found at i:54926748 original size:12 final size:12
Alignment explanation
Indices: 54926711--54926749 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
54926701 TGAGGAGGTG
*
54926711 GGGGTACCATAA
1 GGGGTACAATAA
*
54926723 GAGGTACAATAA
1 GGGGTACAATAA
*
54926735 GGGGTACTATAA
1 GGGGTACAATAA
54926747 GGG
1 GGG
54926750 ATGGAGGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.18
Consensus pattern (12 bp):
GGGGTACAATAA
Found at i:54932641 original size:18 final size:18
Alignment explanation
Indices: 54932608--54932642 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54932598 AAGATTAAGA
* *
54932608 TGGAGGTGGAGGTGGAGG
1 TGGAGGTGAAGATGGAGG
54932626 TGGAGGTGAAGATGGAG
1 TGGAGGTGAAGATGGAG
54932643 ATGAAGAAGA
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:0.23, C:0.00, G:0.60, T:0.17
Consensus pattern (18 bp):
TGGAGGTGAAGATGGAGG
Found at i:54932645 original size:6 final size:6
Alignment explanation
Indices: 54932608--54932633 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54932598 AAGATTAAGA
54932608 TGGAGG TGGAGG TGGAGG TGGAGG TG
1 TGGAGG TGGAGG TGGAGG TGGAGG TG
54932634 AAGATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.65, T:0.19
Consensus pattern (6 bp):
TGGAGG
Found at i:54932986 original size:73 final size:71
Alignment explanation
Indices: 54932862--54933134 Score: 264
Period size: 75 Copynumber: 3.7 Consensus size: 71
54932852 AAAAAAGTTT
* *
54932862 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACAAAAAAAATTAAAAATT-ATT
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTAC--GAAAAATTAAAAATTGTTT
54932926 ATTATTATA
64 A-TATTATA
* *
54932935 TTCTATTGTTTTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACG-AAAAATT-AAAAATTGT
*
54933000 TTGTATTATA
62 TTATATTATA
* *** * *
54933010 TTGTATCACATGTCTT-C-TCAATAATATGCTTATTTACAATCTACGAAAAATGAAAAAAATTGT
1 TTCTATTGTAT-T-TTACATCAATAATATACTTATTTACAATCTACGAAAAAT--TAAAAATTGT
* * *
54933073 TTACATTGTT
62 TTATATTATA
* *
54933083 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATTTACCAAAAA
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAA
54933135 ATGAGAAGCA
Statistics
Matches: 163, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
71 2 0.01
72 8 0.05
73 68 0.42
74 10 0.06
75 70 0.43
76 3 0.02
77 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (71 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAATTAAAAATTGTTTAT
ATTATA
Found at i:54932995 original size:75 final size:73
Alignment explanation
Indices: 54932862--54933136 Score: 290
Period size: 73 Copynumber: 3.7 Consensus size: 73
54932852 AAAAAAGTTT
* *
54932862 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACAAAAAAAATT-AAAAATT-AT
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTAC-GAAAAAATTAAAAAATTGTT
54932925 TATTATTATA
65 TA-TATTATA
* *
54932935 TTCTATTGTTTTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
*
54933000 TTGTATTATA
64 TTATATTATA
* *** * *
54933010 TTGTATCACATGTCTT-C-TCAATAATATGCTTATTTACAATCTACG-AAAAATGAAAAAAATTG
1 TTCTATTGTAT-T-TTACATCAATAATATACTTATTTACAATCTACGAAAAAAT-TAAAAAATTG
* * *
54933072 TTTACATTGTT
63 TTTATATTATA
* *
54933083 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAAT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAAT
54933137 GAGAAGCAAT
Statistics
Matches: 166, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
71 2 0.01
72 8 0.05
73 69 0.42
74 11 0.07
75 65 0.39
76 9 0.05
77 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (73 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGTTT
ATATTATA
Found at i:54944619 original size:49 final size:49
Alignment explanation
Indices: 54944532--54944631 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
54944522 AGGGGCTTGA
*
54944532 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCTAG
1 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
* * *** *
54944581 TTATACTTGAATCCGTGATCGTATAACCATTTTGAACTGGGAGCCCAAG
1 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
54944630 TT
1 TT
54944632 GCAATGCGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
Found at i:54954515 original size:106 final size:106
Alignment explanation
Indices: 54954330--54954530 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
54954320 AAGCTTTAAG
54954330 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAA
54954395 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
54954436 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAA
54954501 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
54954531 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:54955438 original size:22 final size:23
Alignment explanation
Indices: 54955382--54955438 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
54955372 AGTTTAAAAT
54955382 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
54955405 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
54955426 AAAATATATAAAA
1 AAAATATATAAAA
54955439 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:54956169 original size:13 final size:13
Alignment explanation
Indices: 54956151--54956175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54956141 AAATGCGTAG
54956151 ATAAATAAATGAA
1 ATAAATAAATGAA
54956164 ATAAATAAATGA
1 ATAAATAAATGA
54956176 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:54958035 original size:21 final size:21
Alignment explanation
Indices: 54957997--54958036 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
54957987 TTAAACTGGA
* * *
54957997 AAATAACAACATTTAATTTTT
1 AAATAAAAAAATTAAATTTTT
54958018 AAATAAAAAAATTAAATTT
1 AAATAAAAAAATTAAATTT
54958037 CAAACTTCAT
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:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAAAAAATTAAATTTTT
Found at i:54962554 original size:23 final size:23
Alignment explanation
Indices: 54962526--54962623 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
54962516 ATGAGTGCCA
*
54962526 CACTGATATGTAGCCGAAGCTGC
1 CACTGATATGTAGCCGAAGCTAC
**
54962549 CACTGATATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
54962572 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
54962594 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
54962617 CACTGAT
1 CACTGAT
54962624 CAATAACATT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.28
23 46 0.72
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:54962591 original size:45 final size:45
Alignment explanation
Indices: 54962533--54962621 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
54962523 CCACACTGAT
* * * **
54962533 ATGTAGCCGAAGCTGCCACTGATATGTAGTTGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
54962578 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
54962622 ATCAATAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:54962858 original size:75 final size:75
Alignment explanation
Indices: 54962772--54962919 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
54962762 CTATTCCTAA
54962772 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACATTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACATTATCACTTGAATAATTCATGAA
54962837 CAACTTTCAT
66 CAACTTTCAT
*
54962847 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACATTATCACTTGAATAATTCATGAA
54962912 CAACTTTC
66 CAACTTTC
54962920 CTTCCACATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACATTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:54965587 original size:22 final size:22
Alignment explanation
Indices: 54965562--54965614 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
54965552 CAATCCTCTT
* * * *
54965562 TCAATTTTCTCCTATTTTTCTC
1 TCAATTTTCTCATAATTCTCGC
*
54965584 TCAATTCTCTCATAATTCTCGC
1 TCAATTTTCTCATAATTCTCGC
54965606 TCAATTTTC
1 TCAATTTTC
54965615 AATCCTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (22 bp):
TCAATTTTCTCATAATTCTCGC
Found at i:54965594 original size:11 final size:11
Alignment explanation
Indices: 54965519--54965611 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
54965509 CCTTTCCTTT
*
54965519 TCAATTCACTC
1 TCAATTCTCTC
* *
54965530 TTACTTCTCTC
1 TCAATTCTCTC
54965541 T-AATTCAT-TC
1 TCAATTC-TCTC
* *
54965551 TCAATCCTCTT
1 TCAATTCTCTC
*
54965562 TCAATTTTCTC
1 TCAATTCTCTC
* *
54965573 -CTATTTTTCTC
1 TC-AATTCTCTC
54965584 TCAATTCTCTC
1 TCAATTCTCTC
*
54965595 AT-AATTCTCGC
1 -TCAATTCTCTC
54965606 TCAATT
1 TCAATT
54965612 TTCAATCCTC
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
10 10 0.16
11 50 0.81
12 2 0.03
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:54965678 original size:26 final size:25
Alignment explanation
Indices: 54965632--54965692 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
54965622 TTTCAACTCT
*
54965632 CATTTTTTTTATTAAAATTGTATTAA
1 CATTTTTTTAATTAAAATTGT-TTAA
** *
54965658 CATTTTTTTAATTAATTTTGTTTTA
1 CATTTTTTTAATTAAAATTGTTTAA
54965683 CGATTTTTTT
1 C-ATTTTTTT
54965693 CGTATTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (25 bp):
CATTTTTTTAATTAAAATTGTTTAA
Found at i:54966289 original size:15 final size:16
Alignment explanation
Indices: 54966263--54966298 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
54966253 TGGAGTGGGG
*
54966263 ATTTATTTTATTTTTT
1 ATTTATTTTATTTTTA
54966279 ATTTA-TTTATTTTTA
1 ATTTATTTTATTTTTA
54966294 ATTTA
1 ATTTA
54966299 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTATTTTATTTTTA
Found at i:54973092 original size:3 final size:3
Alignment explanation
Indices: 54973086--54973136 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
54973076 GTTGTTGTTT
54973086 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54973134 ATA
1 ATA
54973137 GGATTAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:54977146 original size:20 final size:20
Alignment explanation
Indices: 54977081--54977146 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
54977071 CTTATCTTGT
54977081 TAGCACTACGGTGCTCCTGA
1 TAGCACTACGGTGCTCCTGA
* * * * *
54977101 TAGTACTTTC-GTACTCTTGT
1 TAGCAC-TACGGTGCTCCTGA
54977121 TAGCACTACGGTGCTCCTGA
1 TAGCACTACGGTGCTCCTGA
54977141 TAGCAC
1 TAGCAC
54977147 ATTTCTCCTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (20 bp):
TAGCACTACGGTGCTCCTGA
Found at i:54977173 original size:37 final size:41
Alignment explanation
Indices: 54977075--54977187 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
54977065 TGTGCACTTA
*
54977075 TCTTGTTAGCACTACGGTGCTCCTGATAGTAC-TTTCGTAC
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
54977115 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTC-T-C
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
* * *
54977154 -CTT-TTTGCACTACGGTGCTCCTAATTGCACATTT
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTT
54977188 GTGCCCTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
37 28 0.41
38 3 0.04
39 1 0.01
40 32 0.47
41 4 0.06
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (41 bp):
TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
Found at i:54977233 original size:19 final size:18
Alignment explanation
Indices: 54977209--54977289 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 18
54977199 TATAATTCAC
54977209 TGCCCTGTTTGCACTTCGG
1 TGCCCTGTTTGCACTT-GG
54977228 TGCCCTGTTTGCACTTTGG
1 TGCCCTGTTTGCAC-TTGG
* * *
54977247 TGCTTCTGTATGCACATTTG
1 TGC-CCTGTTTGCAC-TTGG
54977267 TGCCCTGTTTAGCACCTTGG
1 TGCCCTGTTT-GCA-CTTGG
54977287 TGC
1 TGC
54977290 TCCTTGATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 24 0.47
20 26 0.51
21 1 0.02
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.40
Consensus pattern (18 bp):
TGCCCTGTTTGCACTTGG
Found at i:54977260 original size:20 final size:19
Alignment explanation
Indices: 54977209--54977289 Score: 92
Period size: 19 Copynumber: 4.2 Consensus size: 19
54977199 TATAATTCAC
*
54977209 TGCCCTGTTTGCACTTCGG
1 TGCCCTGTTTGCACTTTGG
54977228 TGCCCTGTTTGCACTTTGG
1 TGCCCTGTTTGCACTTTGG
* *
54977247 TGCTTCTGTATGCACATTT-G
1 TGC-CCTGTTTGCAC-TTTGG
*
54977267 TGCCCTGTTTAGCACCTTGG
1 TGCCCTGTTT-GCACTTTGG
54977287 TGC
1 TGC
54977290 TCCTTGATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
19 28 0.54
20 21 0.40
21 3 0.06
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.40
Consensus pattern (19 bp):
TGCCCTGTTTGCACTTTGG
Found at i:54977261 original size:39 final size:40
Alignment explanation
Indices: 54977213--54977290 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
54977203 ATTCACTGCC
* *
54977213 CTGTTTGCAC-TTCGGTGCCCTGTTT-GCACTTTGGTGCTT
1 CTGTATGCACATT-GGTGCCCTGTTTAGCACCTTGGTGCTT
*
54977252 CTGTATGCACATTTGTGCCCTGTTTAGCACCTTGGTGCT
1 CTGTATGCACATTGGTGCCCTGTTTAGCACCTTGGTGCT
54977291 CCTTGATACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (40 bp):
CTGTATGCACATTGGTGCCCTGTTTAGCACCTTGGTGCTT
Found at i:54979642 original size:21 final size:21
Alignment explanation
Indices: 54979616--54979681 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
54979606 AGAACCCAGC
54979616 ACTTTCCCATAGAGTTCAAAG
1 ACTTTCCCATAGAGTTCAAAG
** * **
54979637 ACTTT-CC--AGA-ACCCACC
1 ACTTTCCCATAGAGTTCAAAG
54979654 ACTTTCCCATAGAGTTCAAAG
1 ACTTTCCCATAGAGTTCAAAG
54979675 ACTTTCC
1 ACTTTCC
54979682 ACAATCCTTT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
17 7 0.23
18 5 0.16
20 5 0.16
21 14 0.45
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (21 bp):
ACTTTCCCATAGAGTTCAAAG
Found at i:54979648 original size:38 final size:38
Alignment explanation
Indices: 54979606--54979682 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
54979596 TTGGATTGAA
*
54979606 AGAACCCAGCACTTTCCCATAGAGTTCAAAGACTTTCC
1 AGAACCCACCACTTTCCCATAGAGTTCAAAGACTTTCC
54979644 AGAACCCACCACTTTCCCATAGAGTTCAAAGACTTTCC
1 AGAACCCACCACTTTCCCATAGAGTTCAAAGACTTTCC
54979682 A
1 A
54979683 CAATCCTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.23
Consensus pattern (38 bp):
AGAACCCACCACTTTCCCATAGAGTTCAAAGACTTTCC
Found at i:54986866 original size:69 final size:69
Alignment explanation
Indices: 54986767--54987002 Score: 251
Period size: 69 Copynumber: 3.4 Consensus size: 69
54986757 GTGTAATGCT
* ** * * *
54986767 ATAGCTTGGCTATGGTAACCAATAGAGTCCATCTAGATAGTAAACACGAGGATTTCAAGGTGAAA
1 ATAGCTTAGCTATGACAACCAATAGAGTCCATCCAGACAGTAAACACGAGGATTTCAAGGTGTAA
54986832 GACC
66 GACC
* * * *
54986836 ATAGTTTGGCTATGACAACCAATAGAGTCCA-CCAGGACAGTAAACACAAAGATTTCAAGGTGTA
1 ATAGCTTAGCTATGACAACCAATAGAGTCCATCCA-GACAGTAAACACGAGGATTTCAAGGTGTA
***
54986900 ATTTC
65 AGACC
* * ** * * * *
54986905 ATAGCTCAGCTATGGA-AACCAATAGAGTTCATCGGGACAATAAACACGGGGATTTTAATGTGTA
1 ATAGCTTAGCTAT-GACAACCAATAGAGTCCATCCAGACAGTAAACACGAGGATTTCAAGGTGTA
54986969 AGACC
65 AGACC
54986974 ATAGCTTAGCTATGACAACCAATAGAGTC
1 ATAGCTTAGCTATGACAACCAATAGAGTC
54987003 TGTCAAAACA
Statistics
Matches: 135, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
68 4 0.03
69 128 0.95
70 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (69 bp):
ATAGCTTAGCTATGACAACCAATAGAGTCCATCCAGACAGTAAACACGAGGATTTCAAGGTGTAA
GACC
Found at i:54992090 original size:24 final size:25
Alignment explanation
Indices: 54992041--54992091 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
54992031 CTCGCTTGAA
*
54992041 CTTCCCGATATATGGCTATTCGGAG
1 CTTCCCGATATATGGCTATTCAGAG
* *
54992066 CTTCCCGTTA-ATGGCTCTTCAGAG
1 CTTCCCGATATATGGCTATTCAGAG
54992090 CT
1 CT
54992092 ACCCATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATTCAGAG
Found at i:54992104 original size:24 final size:24
Alignment explanation
Indices: 54992052--54992104 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
54992042 TTCCCGATAT
* * *
54992052 ATGGCTATTCGGAGCTTCCCGTTA
1 ATGGCTATTCAGAGCTACCCATTA
*
54992076 ATGGCTCTTCAGAGCTACCCATTA
1 ATGGCTATTCAGAGCTACCCATTA
*
54992100 TTGGC
1 ATGGC
54992105 CCACATGAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (24 bp):
ATGGCTATTCAGAGCTACCCATTA
Found at i:54995863 original size:5 final size:5
Alignment explanation
Indices: 54995857--54995891 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
54995847 TTGAAACAAT
* *
54995857 CCAAT CCAAA CCAAA CCAAA CCAAA CCAAA TCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA CCAAA CCAAA
54995892 AGCCAAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.57, C:0.37, G:0.00, T:0.06
Consensus pattern (5 bp):
CCAAA
Found at i:55004170 original size:24 final size:23
Alignment explanation
Indices: 55004126--55004170 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
55004116 TTTCTTTTGT
55004126 TTCTTTTTCTAATTCTTTTTCTC
1 TTCTTTTTCTAATTCTTTTTCTC
55004149 TTCTTTCTTC-AATTTCTTTTTC
1 TTCTTT-TTCTAA-TTCTTTTTC
55004171 ACTCTCAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (23 bp):
TTCTTTTTCTAATTCTTTTTCTC
Found at i:55007902 original size:6 final size:6
Alignment explanation
Indices: 55007893--55007953 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
55007883 CAGCAGCAGA
* * *
55007893 AACAAC AACACC AACACC AACACC AGCACC AACACC AACACC AACATC
1 AACACC AACACC AACACC AACACC AACACC AACACC AACACC AACACC
*
55007941 AACCACC ACCACC
1 AA-CACC AACACC
55007954 TTGTGGGTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
6 44 0.92
7 4 0.08
ACGTcount: A:0.48, C:0.49, G:0.02, T:0.02
Consensus pattern (6 bp):
AACACC
Found at i:55008156 original size:24 final size:24
Alignment explanation
Indices: 55008104--55008158 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
55008094 GAGCGGTGAG
* *
55008104 GGAACAGGAAGGGATACCAGAGCTA
1 GGAAGAGGAAGGGATACCAAAGC-A
55008129 -GAAGAGGAAGGAGATACCAAAG-A
1 GGAAGAGGAAGG-GATACCAAAGCA
55008152 GGAAGAG
1 GGAAGAG
55008159 AAAAAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.45, C:0.11, G:0.38, T:0.05
Consensus pattern (24 bp):
GGAAGAGGAAGGGATACCAAAGCA
Found at i:55020722 original size:80 final size:79
Alignment explanation
Indices: 55020621--55020846 Score: 280
Period size: 80 Copynumber: 2.8 Consensus size: 79
55020611 GCTCCTCGTT
* *
55020621 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
55020686 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
55020701 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
55020764 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * *
55020781 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
55020844 GGA
63 GGA
55020847 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
79 9 0.07
80 105 0.83
81 12 0.09
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:55020830 original size:120 final size:120
Alignment explanation
Indices: 55020621--55020846 Score: 300
Period size: 120 Copynumber: 1.9 Consensus size: 120
55020611 GCTCCTCGTT
55020621 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
55020686 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
55020741 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
55020802 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
55020847 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
119 8 0.09
120 75 0.81
121 10 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:55020846 original size:40 final size:39
Alignment explanation
Indices: 55020621--55020846 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 39
55020611 GCTCCTCGTT
* *
55020621 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * *
55020661 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
55020701 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
55020741 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
55020781 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
55020822 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55020847 CATCATTCAA
Statistics
Matches: 165, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 4 0.02
40 148 0.90
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:55028613 original size:40 final size:40
Alignment explanation
Indices: 55028569--55028794 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
55028559 GCTCCTCGTT
* *
55028569 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTAACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAACA
* **
55028609 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAACA
* * **
55028649 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAACA
** * **
55028689 CAAATGCCTTC-GGATCTTAATCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTAACA
* * * * *
55028729 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAACA
55028770 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55028795 CATCATTCAA
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAACA
Found at i:55028670 original size:80 final size:79
Alignment explanation
Indices: 55028569--55028794 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 79
55028559 GCTCCTCGTT
* *
55028569 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTAACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTAGCACAAATGCCTTCGGGACTTAACCCGG
55028634 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * *
55028649 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAATCC
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TAGCACAAATGCCTTCGGGA-CTTAACCC
*
55028712 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * *
55028729 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTAGCACAAATGCCTTCGGGACTTAACCC
55028792 GGA
63 GGA
55028795 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
79 9 0.07
80 103 0.82
81 12 0.10
82 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTAGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:55032744 original size:20 final size:20
Alignment explanation
Indices: 55032706--55032745 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55032696 CCTAAAATGA
**
55032706 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
55032726 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
55032746 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:55044432 original size:35 final size:33
Alignment explanation
Indices: 55044381--55044505 Score: 92
Period size: 33 Copynumber: 3.7 Consensus size: 33
55044371 TGAATTGACG
*
55044381 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGTTGGACCATGGC-AT-TTT-AAT
* *
55044417 G-TAAGACCATAGTTGGGCTATGGCATTTTAAT
1 GATAAGACCATAGTTGGACCATGGCATTTTAAT
* * *** * * *
55044449 GAAAAGACCATAATTGGGTTATGGCACCTTGAAC
1 GATAAGACCATAGTTGGACCATGGCA-TTTTAAT
*
55044483 G-TAAGACCATGGTTGGACCATGG
1 GATAAGACCATAGTTGGACCATGG
55044506 TAGTATATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
32 4 0.06
33 40 0.56
34 7 0.10
35 20 0.28
36 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (33 bp):
GATAAGACCATAGTTGGACCATGGCATTTTAAT
Found at i:55044456 original size:33 final size:34
Alignment explanation
Indices: 55044384--55044474 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 34
55044374 ATTGACGGAT
* * * *
55044384 AAGACCATGGTTGGACCATGGCAATGTTTAAATGT
1 AAGACCATAGTTGGGCTATGGC-ATGTTTAAATGA
55044419 AAGACCATAGTTGGGCTATGGCAT-TTT-AATGAA
1 AAGACCATAGTTGGGCTATGGCATGTTTAAATG-A
* *
55044452 AAGACCATAATTGGGTTATGGCA
1 AAGACCATAGTTGGGCTATGGCA
55044475 CCTTGAACGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 4 0.08
33 24 0.49
34 2 0.04
35 19 0.39
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (34 bp):
AAGACCATAGTTGGGCTATGGCATGTTTAAATGA
Found at i:55044561 original size:105 final size:101
Alignment explanation
Indices: 55044383--55044576 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 101
55044373 AATTGACGGA
* * * * *
55044383 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGTTGGGATATGACATTCTAA
*
55044448 TGAAAAGACCATAATTGGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
* *
55044484 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGTTGGGATATGACATT
1 TAAGACCATGGTTGGACCATGGCA--ATATATA-A-ATGTAAGACCATAGTTGGGATATGACATT
* *
55044549 CTGATGATAAGACCATAACTGGGTTATG
62 CTAATGAAAAGACCATAACTGGGTTATG
55044577 ACACTACAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 23 0.29
103 5 0.06
104 1 0.01
105 50 0.63
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGTTGGGATATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
Found at i:55044592 original size:105 final size:101
Alignment explanation
Indices: 55044383--55044599 Score: 256
Period size: 105 Copynumber: 2.1 Consensus size: 101
55044373 AATTGACGGA
* * * * *
55044383 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGTTGGGATATGACATTCTAA
* * **
55044448 TGAAAAGACCATAATTGGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGACACCTCAAACG
* *
55044484 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGTTGGGATATGACATT
1 TAAGACCATGGTTGGACCATGGCA--ATATATA-A-ATGTAAGACCATAGTTGGGATATGACATT
* * *
55044549 CTGATGATAAGACCATAACTGGGTTATGACA-CTACAAATG
62 CTAATGAAAAGACCATAACTGGGTTATGACACCT-CAAACG
55044589 TAAGACCATGG
1 TAAGACCATGG
55044600 CAGGGTCATG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 23 0.24
103 5 0.05
104 3 0.03
105 66 0.68
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGTTGGGATATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGACACCTCAAACG
Found at i:55044593 original size:33 final size:32
Alignment explanation
Indices: 55044521--55044597 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
55044511 TATATACATG
** * **
55044521 TGTAAGACCATAGTTGGGATATGACATTCTGA
1 TGTAAGACCATAACTGGGATATGACATACAAA
*
55044553 TGATAAGACCATAACTGGGTTATGACACTACAAA
1 TG-TAAGACCATAACTGGGATATGACA-TACAAA
55044587 TGTAAGACCAT
1 TGTAAGACCAT
55044598 GGCAGGGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGATATGACATACAAA
Found at i:55045896 original size:20 final size:20
Alignment explanation
Indices: 55045871--55045916 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
55045861 GTATTGATCC
**
55045871 AGTATCAATACCTTTTATTT
1 AGTATCAATAAATTTTATTT
*
55045891 AGTATCGATAAATTTTATTT
1 AGTATCAATAAATTTTATTT
*
55045911 GGTATC
1 AGTATC
55045917 GATATCTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (20 bp):
AGTATCAATAAATTTTATTT
Found at i:55045917 original size:20 final size:20
Alignment explanation
Indices: 55045883--55045920 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55045873 TATCAATACC
55045883 TTTTATTTAGTATCGATAAA
1 TTTTATTTAGTATCGATAAA
*
55045903 TTTTATTTGGTATCGATA
1 TTTTATTTAGTATCGATA
55045921 TCTCTAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTTATTTAGTATCGATAAA
Found at i:55047008 original size:10 final size:10
Alignment explanation
Indices: 55046995--55047029 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
55046985 TAAAACAAAT
55046995 AGAAAAAGAA
1 AGAAAAAGAA
55047005 AGAAAAAGAA
1 AGAAAAAGAA
*
55047015 AGAGAAAGAA
1 AGAAAAAGAA
55047025 AGAAA
1 AGAAA
55047030 GGAGAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:55047020 original size:16 final size:16
Alignment explanation
Indices: 55046995--55047025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55046985 TAAAACAAAT
55046995 AGAAAAAGAAAGAAAA
1 AGAAAAAGAAAGAAAA
*
55047011 AGAAAGAGAAAGAAA
1 AGAAAAAGAAAGAAA
55047026 GAAAGGAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAA
Found at i:55047965 original size:41 final size:40
Alignment explanation
Indices: 55047902--55048040 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
55047892 AACTTTGAGT
* *
55047902 CGATGAGACACTGAGTGTCAATTTACTACTTCGAATTAATT
1 CGATGAGACACTGAGTGCCAATTTACTACTTCGAATT-ATC
* * * *
55047943 CGATGAGGCACTGGGTGCCAA-TT-C-ACTTCGATTTAGC
1 CGATGAGACACTGAGTGCCAATTTACTACTTCGAATTATC
* * *
55047980 CGATGAGACACTGGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGACACTGAGTGCCAATTTACTACTTCGAATTATC
*
55048020 CGATGAGGCACTGAGTGCCAA
1 CGATGAGACACTGAGTGCCAA
55048041 ATTGGTGTGT
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 20 0.25
38 11 0.14
39 1 0.01
40 31 0.38
41 18 0.22
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGAGTGCCAATTTACTACTTCGAATTATC
Found at i:55049391 original size:17 final size:17
Alignment explanation
Indices: 55049369--55049403 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
55049359 CAATCTATAA
55049369 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
*
55049386 GCCTCCTTTTTTCAATG
1 GCCTCCTTATTTCAATG
55049403 G
1 G
55049404 TGCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (17 bp):
GCCTCCTTATTTCAATG
Found at i:55051088 original size:15 final size:15
Alignment explanation
Indices: 55051068--55051097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55051058 ATAGATGTTG
55051068 CAATAACAAATACAA
1 CAATAACAAATACAA
*
55051083 CAATAATAAATACAA
1 CAATAACAAATACAA
55051098 TAATGGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:55065692 original size:14 final size:15
Alignment explanation
Indices: 55065675--55065703 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55065665 TACATTTTCA
55065675 ATATTTATT-TTTTT
1 ATATTTATTATTTTT
55065689 ATATTTATTATTTTT
1 ATATTTATTATTTTT
55065704 TAAGGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATATTTATTATTTTT
Found at i:55069881 original size:37 final size:37
Alignment explanation
Indices: 55069820--55069965 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
55069810 TACGTATAAT
* *
55069820 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
55069855 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55069892 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
55069929 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55069966 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:55069982 original size:46 final size:46
Alignment explanation
Indices: 55069929--55070197 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
55069919 TAAGTGTAGC
* **
55069929 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
55069975 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55070021 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
55070073 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
55070119 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55070171 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
55070198 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:55070048 original size:52 final size:52
Alignment explanation
Indices: 55069972--55070191 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
55069962 TAGCTAAAGC
* *
55069972 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
55070025 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
55070077 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
55070123 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
55070175 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
55070192 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:55070094 original size:98 final size:98
Alignment explanation
Indices: 55069929--55070197 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
55069919 TAAGTGTAGC
* * *
55069929 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
55069994 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
55070028 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
55070093 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
55070126 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
55070191 GATCAGA
66 GATCAGA
55070198 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:55078353 original size:43 final size:43
Alignment explanation
Indices: 55078287--55078457 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
55078277 GACTCATACA
* *
55078287 ATGCCAACGTCCCAGGC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
* * *
55078330 ATGCCACTGTCCCAGACAGGGTCTTACA-CTAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* * * *
55078371 ATGCCAATGTCCCATACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATA-TCG
*
55078414 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAAAAT-ACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-TAATCACATATCG
55078457 A
1 A
55078458 AATCCTATGT
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
41 28 0.27
42 15 0.14
43 58 0.55
44 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:55078428 original size:84 final size:84
Alignment explanation
Indices: 55078282--55078441 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
55078272 CAGAAGACTC
* * * * *
55078282 ATACAATGCCAACGTCCCAGGCGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCAATGTCCCAGAC
55078347 AG-GGTCTTACACTAATCAA
66 -GTGGTCTTACACTAATCAA
* * *
55078366 ATACGATGCCAATGTCCCATACATGGTCTTACACGTAAACACA-AGTCGATGCCAATGTCCCAGA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCCAATGTCCCAGA
55078430 CGTGGTCTTACA
65 CGTGGTCTTACA
55078442 TGAAAATACA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 2 0.03
84 64 0.97
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCAATGTCCCAGAC
GTGGTCTTACACTAATCAA
Found at i:55083093 original size:20 final size:20
Alignment explanation
Indices: 55083070--55083107 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55083060 TATCAATACC
55083070 TTTTATTTGGTATCGATAAA
1 TTTTATTTGGTATCGATAAA
*
55083090 TTTTCTTTGGTATCGATA
1 TTTTATTTGGTATCGATA
55083108 TCTCTAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTTATTTGGTATCGATAAA
Found at i:55086273 original size:26 final size:26
Alignment explanation
Indices: 55086234--55086283 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
55086224 TTGAGTTAAT
*
55086234 AAAATTCTCTTTGATTTTTCTTTTTA
1 AAAATTCTCTTTGACTTTTCTTTTTA
55086260 AAAATT-TCTCTTGACTTTTCTTTT
1 AAAATTCTCT-TTGACTTTTCTTTT
55086284 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (26 bp):
AAAATTCTCTTTGACTTTTCTTTTTA
Found at i:55094434 original size:4 final size:4
Alignment explanation
Indices: 55094425--55094460 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
55094415 TTATTATTTC
55094425 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
55094461 TAAGAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:55100795 original size:44 final size:44
Alignment explanation
Indices: 55100747--55100984 Score: 129
Period size: 44 Copynumber: 5.5 Consensus size: 44
55100737 TCCACTCCGT
*
55100747 TGCAACTTCAAGGAGATAGGATTAGTTTGTTCTGTCTGCTCCAC
1 TGCAACTTCAAGGAGATAAGATTAGTTTGTTCTGTCTGCTCCAC
* * * *
55100791 TGCAACTTCAGGGAGATAAGACTAG-ATG--C-GATCTGC-CCTC
1 TGCAACTTCAAGGAGATAAGATTAGTTTGTTCTG-TCTGCTCCAC
* * * * * *
55100831 TGCAACTTC-AGAGAGATAAGATTTG-TGGTTTTAATCTGTTCTAC
1 TGCAACTTCAAG-GAGATAAGATTAGTTTGTTCT-GTCTGCTCCAC
* * * * **
55100875 TACAACTTCAGGGAGATAGGATTA-TTGGCTT-TAACCTGCTCCAC
1 TGCAACTTCAAGGAGATAAGATTAGTTTG-TTCT-GTCTGCTCCAC
* * * * *
55100919 TGCAACTTC-AGGAAGATAAGATTCGTCATCTTCAGTCTGCCCCAC
1 TGCAACTTCAAGG-AGATAAGATTAGT-TTGTTCTGTCTGCTCCAC
55100964 TGCAACTTCAA-GAGGATAAGA
1 TGCAACTTCAAGGA-GATAAGA
55100985 CTTGCTTCCT
Statistics
Matches: 145, Mismatches: 33, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.01
40 25 0.17
41 6 0.04
43 8 0.06
44 73 0.50
45 31 0.21
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCAACTTCAAGGAGATAAGATTAGTTTGTTCTGTCTGCTCCAC
Found at i:55100866 original size:128 final size:129
Alignment explanation
Indices: 55100674--55100940 Score: 317
Period size: 128 Copynumber: 2.1 Consensus size: 129
55100664 GTACAACTTA
* * *
55100674 AAGATAAGATCTGACGCGATCTGCTCTACTGCAACTTCAGATAGATGAGATCTGTGGTTCTAATC
1 AAGATAAGATCTGACGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAATC
** * * **
55100739 CACTCCGTTGCAACTTCAAGGAGATAGGATTAGTTTG-TTCT-GTCTGCTCCACTGCAACTTCAG
66 CACTCCACTACAACTTCAAGGAGATAGGATTA-TTGGCTT-TAACCTGCTCCACTGCAACTTCAG
55100802 G
129 G
* * * *
55100803 GAGATAAGA-CTAGATGCGATCTGCCCT-CTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAAT
1 AAGATAAGATCT-GACGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAAT
*** * *
55100866 CTGTTCTACTACAACTTCAGGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGG
65 CCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGG
55100931 AAGATAAGAT
1 AAGATAAGAT
55100941 TCGTCATCTT
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
127 4 0.03
128 90 0.78
129 21 0.18
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (129 bp):
AAGATAAGATCTGACGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAATC
CACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGG
Found at i:55100982 original size:45 final size:44
Alignment explanation
Indices: 55100910--55101015 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 44
55100900 TGGCTTTAAC
* *
55100910 CTGCTCCACTGCAACTTCAGGAAGATAAGA-TTCGTCAT-CTTCAGT
1 CTGCCCCACTGCAACTTCAAGAAGATAAGACTT-G-CATCCTT-AGT
* *
55100955 CTGCCCCACTGCAACTTCAAGAGGATAAGACTTGCTTCCTTAGT
1 CTGCCCCACTGCAACTTCAAGAAGATAAGACTTGCATCCTTAGT
*
55100999 CTGCCCCACTACAACTT
1 CTGCCCCACTGCAACTT
55101016 TGATCTACTT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 21 0.39
45 31 0.57
46 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (44 bp):
CTGCCCCACTGCAACTTCAAGAAGATAAGACTTGCATCCTTAGT
Found at i:55101214 original size:44 final size:44
Alignment explanation
Indices: 55101037--55101482 Score: 155
Period size: 44 Copynumber: 10.1 Consensus size: 44
55101027 GCTTCCTAGA
* *
55101037 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGG
1 GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
* * * * *
55101081 GAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTTAGG
1 GAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-GCC-CAGG
* * **** ** * * * ***
55101125 GAGGTAAAATCCACCATCTTTGATATGCTCCACTACTGTTTAGG
1 GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
*
55101169 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
1 GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
* * * *
55101213 GAGAT-AGA-AT-TATTGGCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-GCC-CAGG
* * * ** * * * **
55101257 GAGGTAAAATCCGCCATCCTT-GATCTGCTCCACTACTGCTTAGG
1 GAGATAAGATCTGTAAT-CTTCAATCTACTCCACTGCTGCCCAGG
* * * *
55101301 GAGATAAGATCTGTAATCTTCAATTTATTCCACTGTTGCCCATG
1 GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
* * * * *
55101345 AAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-GCC-CAGG
* * * * * * * **
55101389 GAGGTAAAATCTGCCATTCTT-GATCTGCTCCACTACTGCTTAGG
1 GAGATAAGATCTG-TAATCTTCAATCTACTCCACTGCTGCCCAGG
* * *
55101433 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCATG
1 GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
55101477 GAGATA
1 GAGATA
55101483 GAATTACTGG
Statistics
Matches: 273, Mismatches: 102, Indels: 54
0.64 0.24 0.13
Matches are distributed among these distances:
41 9 0.03
42 6 0.02
43 71 0.26
44 132 0.48
45 41 0.15
46 10 0.04
47 2 0.01
48 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
GAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCCAGG
Found at i:55101274 original size:132 final size:132
Alignment explanation
Indices: 55101037--55101538 Score: 871
Period size: 132 Copynumber: 3.8 Consensus size: 132
55101027 GCTTCCTAGA
55101037 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
1 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
* * * *
55101102 ATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCACCATCTTTGATATGCTCCACTACTGTTTA
66 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTA
55101167 GG
131 GG
* *
55101169 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCA
1 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
*
55101234 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTA
66 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTA
55101299 GG
131 GG
* * *
55101301 GAGATAAGATCTGTAATCTTCAATTTATTCCACTGTTGCCCATGAAGATAGAATTACTGGCTTCA
1 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
*
55101366 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT-TCTTGATCTGCTCCACTACTGCTT
66 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT-TTGATCTGCTCCACTACTGCTT
55101430 AGG
130 AGG
*
55101433 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCATGGAGATAGAATTACTGGCTTCA
1 GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
*
55101498 ATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATC
66 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
55101539 AACCTACTCC
Statistics
Matches: 350, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
132 350 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
GAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCA
ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTA
GG
Found at i:55102678 original size:17 final size:17
Alignment explanation
Indices: 55102653--55102686 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55102643 TTTTCATTTT
*
55102653 CATCTTTTCATTTTTCA
1 CATCATTTCATTTTTCA
55102670 CATCATTTCATTTTTCA
1 CATCATTTCATTTTTCA
55102687 TTTTTCTTTT
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:0.21, C:0.24, G:0.00, T:0.56
Consensus pattern (17 bp):
CATCATTTCATTTTTCA
Found at i:55102698 original size:7 final size:7
Alignment explanation
Indices: 55102635--55102697 Score: 67
Period size: 7 Copynumber: 8.7 Consensus size: 7
55102625 CCGGTTTTAC
55102635 TTTTTCA
1 TTTTTCA
55102642 TTTTTCA
1 TTTTTCA
55102649 -TTTTCA
1 TTTTTCA
55102655 TCTTTTCA
1 T-TTTTCA
55102663 TTTTTCACA
1 TTTTT--CA
*
55102672 TCATTTCA
1 T-TTTTCA
55102680 TTTTTCA
1 TTTTTCA
55102687 TTTTTC-
1 TTTTTCA
55102693 TTTTT
1 TTTTT
55102698 TTTTGGGACT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 11 0.22
7 22 0.45
8 10 0.20
9 3 0.06
10 3 0.06
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTTCA
Found at i:55103615 original size:20 final size:20
Alignment explanation
Indices: 55103590--55103631 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
55103580 ATGGTTTGGC
55103590 AAAAAAATCGTAAAGAATGA
1 AAAAAAATCGTAAAGAATGA
55103610 AAAAAAATCGTAAAGAATGA
1 AAAAAAATCGTAAAGAATGA
55103630 AA
1 AA
55103632 GAACATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAAAAATCGTAAAGAATGA
Found at i:55106952 original size:10 final size:11
Alignment explanation
Indices: 55106937--55106983 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
55106927 TTTACAGCTT
55106937 TTATTTTTT-G
1 TTATTTTTTGG
55106947 TTA-TTTTT--
1 TTATTTTTTGG
55106955 -TATTTTTTGG
1 TTATTTTTTGG
55106965 TTATTTTTTGG
1 TTATTTTTTGG
55106976 TTATTTTT
1 TTATTTTT
55106984 ATTTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 2 0.06
8 5 0.15
9 5 0.15
10 3 0.09
11 18 0.55
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (11 bp):
TTATTTTTTGG
Found at i:55106967 original size:18 final size:17
Alignment explanation
Indices: 55106935--55106996 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
55106925 GATTTACAGC
55106935 TTTTATTTTTTGTTATT
1 TTTTATTTTTTGTTATT
55106952 TTTTATTTTTTGGTTATT
1 TTTTATTTTTT-GTTATT
* *
55106970 TTTTGGTTATTT-TTA-T
1 TTTT-ATTTTTTGTTATT
55106986 TTTTATTTTTT
1 TTTTATTTTTT
55106997 ACAAACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 5 0.13
16 5 0.13
17 14 0.36
18 10 0.26
19 5 0.13
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTTGTTATT
Found at i:55106968 original size:11 final size:11
Alignment explanation
Indices: 55106954--55106983 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
55106944 TTGTTATTTT
55106954 TTATTTTTTGG
1 TTATTTTTTGG
55106965 TTATTTTTTGG
1 TTATTTTTTGG
55106976 TTATTTTT
1 TTATTTTT
55106984 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (11 bp):
TTATTTTTTGG
Found at i:55107630 original size:28 final size:28
Alignment explanation
Indices: 55107593--55107655 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
55107583 AAGAAAATTG
55107593 TTATTTATTATCACTATTATTATTATTA
1 TTATTTATTATCACTATTATTATTATTA
** * *
55107621 TTATTTATTATCTTTATTTTTATTTTTA
1 TTATTTATTATCACTATTATTATTATTA
55107649 TT-TTTAT
1 TTATTTAT
55107656 ATTAATGCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (28 bp):
TTATTTATTATCACTATTATTATTATTA
Found at i:55107643 original size:12 final size:12
Alignment explanation
Indices: 55107621--55107655 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
55107611 ATTATTATTA
55107621 TTATTTATTATCT
1 TTATTT-TTATCT
*
55107634 TTATTTTTATTT
1 TTATTTTTATCT
55107646 TTATTTTTAT
1 TTATTTTTAT
55107656 ATTAATGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTTATCT
Found at i:55120176 original size:44 final size:44
Alignment explanation
Indices: 55119864--55120795 Score: 265
Period size: 44 Copynumber: 21.2 Consensus size: 44
55119854 GTAACCAGTG
* **
55119864 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * **
55119908 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTG-AGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TTGAAGACGGCAA
** * * * * * ** * *
55119952 GCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * *
55119996 ATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
55120040 ATCTTATCTTTCC-AAG-A-TAGCGGGAAGCATATTTG-AGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAG-TGG-AGCAGA-TTGAAGACGGCAA
** * * * * * * * ** * *
55120084 GCCTTGTTTCCCTGAGCAGCAATGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* *
55120128 ATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
55120172 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * ** * *
55120216 GCCTTGTCTCCCTGAGCAG-AGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * *
55120259 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
55120303 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * * ** * *
55120347 GCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * *
55120391 ATCTTATCTCCCTAAGCAGTGGTGGAACAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
55120435 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * **** *
55120479 GCCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * **
55120523 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * * **
55120567 ATTTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
* * * * * * * **** *
55120611 ACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTATAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * *
55120655 ATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
55120699 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
* * * * * * *
55120743 GTTTTATCTCCTTAACCAGTAGCGGAGCAGATCGAAGACGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
55120787 ATCTTATCT
1 ATCTTATCT
55120796 TTCCAAGATG
Statistics
Matches: 591, Mismatches: 250, Indels: 94
0.63 0.27 0.10
Matches are distributed among these distances:
42 26 0.04
43 71 0.12
44 434 0.73
45 45 0.08
46 15 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
Found at i:55120593 original size:395 final size:396
Alignment explanation
Indices: 55119863--55120743 Score: 1512
Period size: 395 Copynumber: 2.2 Consensus size: 396
55119853 GGTAACCAGT
*
55119863 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* *
55119928 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
* **
55119993 TATATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
131 TAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
* * * *
55120058 AGCGGGAAGCATATTTGAGCCACCAAGCCTTGTTTCCCTGAGCAGCAATGGAGAAGGTTGAAGAT
196 AGCGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAATGGAGAAGGTTGAAGAT
* * *
55120123 TGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAG
261 TATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCAAATCTTATCTTTCCAAG
* *
55120188 ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG-AGCGGAGAAGGTTGAAG
326 ATAGTGGGAAGCAGATTTAAGCCACCAAACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAG
*
55120252 ATTGTA
391 ATTATA
*
55120258 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
55120323 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
* * *
55120388 TAGATCTTATCTCCCTAAGCAGTGGTGGAACAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
131 TAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
* *
55120453 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAT
196 AGCGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAATGGAGAAGGTTGAAGAT
** *
55120518 TATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAATTTTATCTTTCCAAG
261 TATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCAAATCTTATCTTTCCAAG
*
55120583 ATAGTGGGAAGTAGATTTAAGCCACCAAACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAG
326 ATAGTGGGAAGCAGATTTAAGCCACCAAACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAG
55120648 ATTATA
391 ATTATA
*
55120654 GATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
55120719 TGGGAAGCAGATTTAAGCCACCAAG
66 TGGGAAGCAGATTTAAGCCACCAAG
55120744 TTTTATCTCC
Statistics
Matches: 457, Mismatches: 28, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
395 347 0.76
396 110 0.24
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (396 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
TAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
AGCGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAATGGAGAAGGTTGAAGAT
TATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCAAATCTTATCTTTCCAAG
ATAGTGGGAAGCAGATTTAAGCCACCAAACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAG
ATTATA
Found at i:55120795 original size:132 final size:132
Alignment explanation
Indices: 55119863--55120743 Score: 1485
Period size: 132 Copynumber: 6.7 Consensus size: 132
55119853 GGTAACCAGT
*
55119863 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* *
55119928 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55119993 TA
131 TA
* * * *
55119995 TATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * * **
55120060 CGGGAAGCATATTTGAGCCACCAAGCCTTGTTTCCCTGAGCAGCAATGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55120125 TA
131 TA
* *
55120127 GATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
55120192 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG-AGCGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55120256 TA
131 TA
*
55120258 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
55120323 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55120388 TA
131 TA
* *
55120390 GATCTTATCTCCCTAAGCAGTGGTGGAACAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * *
55120455 TGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55120520 TA
131 TA
* * *
55120522 GATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAATTTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * * *
55120587 TGGGAAGTAGATTTAAGCCACCAAACCGTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
55120652 TA
131 TA
*
55120654 GATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
55120719 TGGGAAGCAGATTTAAGCCACCAAG
66 TGGGAAGCAGATTTAAGCCACCAAG
55120744 TTTTATCTCC
Statistics
Matches: 704, Mismatches: 44, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 126 0.18
132 578 0.82
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
TA
Found at i:55120810 original size:88 final size:88
Alignment explanation
Indices: 55120656--55120843 Score: 304
Period size: 88 Copynumber: 2.1 Consensus size: 88
55120646 AGATTATAGA
* * * **
55120656 TCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTG
1 TCTTATCTCCCTAACCAGTAGCGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTG
55120721 GGAAGCAGATTTAAGCCACCAAG
66 GGAAGCAGATTTAAGCCACCAAG
* * *
55120744 TTTTATCTCCTTAACCAGTAGCGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATGGTG
1 TCTTATCTCCCTAACCAGTAGCGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTG
55120809 GGAAGCAGATTTAAGCCACCAAG
66 GGAAGCAGATTTAAGCCACCAAG
55120832 TCTTATCTCCCT
1 TCTTATCTCCCT
55120844 GAAGTTGCAG
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTAACCAGTAGCGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTG
GGAAGCAGATTTAAGCCACCAAG
Found at i:55120836 original size:44 final size:44
Alignment explanation
Indices: 55120700--55120839 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 44
55120690 AGACGGCGAA
55120700 TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
1 TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
* * ** * *** *
55120744 TTTTATCTCCTTAACC-AG-TAG-CGG-AGCAGATCGAAGACGGAAAA
1 TCTTATCT--TT--CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
*
55120788 TCTTATCTTTCCAAGATGGTGGGAAGCAGATTTAAGCCACCAAG
1 TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
55120832 TCTTATCT
1 TCTTATCT
55120840 CCCTGAAGTT
Statistics
Matches: 69, Mismatches: 19, Indels: 16
0.66 0.18 0.15
Matches are distributed among these distances:
40 2 0.03
41 2 0.03
42 4 0.06
43 2 0.03
44 48 0.70
45 2 0.03
46 5 0.07
47 2 0.03
48 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
Found at i:55120876 original size:44 final size:44
Alignment explanation
Indices: 55120828--55120994 Score: 121
Period size: 44 Copynumber: 3.8 Consensus size: 44
55120818 TTTAAGCCAC
55120828 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* *
55120872 CAAGTCTTATACT-CCTGAAGGTGCACT-GAGGCAGACTGAA-TGAA-
1 CAAGTCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGT-AAG
* * * * * ** *
55120916 CAAATCTTATCTCCTTAAAGTTGTAATGGAGTGGA-TTAG-AAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* * *
55120958 GATAGGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CA-A-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
55120995 TCACATCAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 6 0.07
44 74 0.80
45 8 0.09
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
Found at i:55121738 original size:6 final size:6
Alignment explanation
Indices: 55121717--55121754 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
55121707 GATTTACAGC
*
55121717 TTTTA- TTTT-T TGTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
55121755 TACAAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 7 0.24
6 22 0.76
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:55122369 original size:3 final size:3
Alignment explanation
Indices: 55122355--55122428 Score: 87
Period size: 3 Copynumber: 24.3 Consensus size: 3
55122345 AAATTGTTAT
*
55122355 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
55122401 TTA TCT- TTA TTT TTA TTT TTA TTT TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA T
55122429 ATTCATGCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 55 0.92
4 4 0.07
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:55132855 original size:24 final size:22
Alignment explanation
Indices: 55132828--55132874 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
55132818 AAAATGAAAG
55132828 GAAATAGAAAAAAAAAGGAAAAAA
1 GAAATA-AAAAAAAAA-GAAAAAA
* *
55132852 GAAATAATAAAAAAATAAAAAA
1 GAAATAAAAAAAAAAGAAAAAA
55132874 G
1 G
55132875 GGACTTACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (22 bp):
GAAATAAAAAAAAAAGAAAAAA
Found at i:55133918 original size:22 final size:22
Alignment explanation
Indices: 55133887--55133930 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
55133877 CTCTAATTAA
* *
55133887 CAACTGAAATGTATAGTTCATT
1 CAACTAAAATGTACAGTTCATT
55133909 CAACTAAAATGTACAGTTCATT
1 CAACTAAAATGTACAGTTCATT
55133931 TAGATTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
CAACTAAAATGTACAGTTCATT
Found at i:55151866 original size:133 final size:132
Alignment explanation
Indices: 55151624--55151886 Score: 400
Period size: 133 Copynumber: 2.0 Consensus size: 132
55151614 TATGAACTTC
* * *
55151624 CTAAACATTCAAAATGCTTACTTTGTTTCGTTTTCTATTTCTGTAGTGGTTATTTTACAAAACAT
1 CTAAACATTCAAAATGCTTACTCTGTTTCGTTTTCTATTTCTATAGTGGTTATTTTACAAAACAC
* *
55151689 GTCGACTGGATCACCTTGGAGCTCAAACTACCCAGCTTCTGACTCGGTAAACTTTTAAATGTTCT
66 GTCGACTGGATCACCTCGGAGCTCAAACTACCCAGCTTCTGACTCGGTAAACTTTTAAACGTTCT
55151754 TA
131 TA
* * * *
55151756 CTAAGCATTCAAAATGCTTACTCTGTTTCGTTTTTTTATTTCTATAGTGGTTATTTTGCGAAACA
1 CTAAACATTCAAAATGCTTACTCTGTTTCG-TTTTCTATTTCTATAGTGGTTATTTTACAAAACA
* * * *
55151821 CGTCGATTGGATCACCTCGGAGCTCAAACTATCTAGCTTCTGACTCGGTAGACTTTTAAACGTTC
65 CGTCGACTGGATCACCTCGGAGCTCAAACTACCCAGCTTCTGACTCGGTAAACTTTTAAACGTTC
55151886 T
130 T
55151887 GGACTCAGTT
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 28 0.24
133 89 0.76
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (132 bp):
CTAAACATTCAAAATGCTTACTCTGTTTCGTTTTCTATTTCTATAGTGGTTATTTTACAAAACAC
GTCGACTGGATCACCTCGGAGCTCAAACTACCCAGCTTCTGACTCGGTAAACTTTTAAACGTTCT
TA
Found at i:55158565 original size:51 final size:50
Alignment explanation
Indices: 55158496--55158599 Score: 172
Period size: 51 Copynumber: 2.1 Consensus size: 50
55158486 CCTAATGTTG
55158496 AATAATATGAATGATATGTTTAGGTACTTATGTAAATGAATTGAAGTGCAA
1 AATAATATGAATGATATGTTTAGGTACTTATGT-AATGAATTGAAGTGCAA
* * *
55158547 AATAGTATGAATGGTATGTTTAGGTACTTATGTAATGAATTGAAGTGTAA
1 AATAATATGAATGATATGTTTAGGTACTTATGTAATGAATTGAAGTGCAA
55158597 AAT
1 AAT
55158600 GGATATTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
50 19 0.38
51 31 0.62
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (50 bp):
AATAATATGAATGATATGTTTAGGTACTTATGTAATGAATTGAAGTGCAA
Done.