Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 131 of 325
Found at i:41815220 original size:54 final size:55
Alignment explanation
Indices: 41815138--41815266 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 55
41815128 ATGTCCTCAC
* *
41815138 CCGTGTAACTCTCTGAG-TACGATCACACGGTTGT-TCACACATCTGTGTGCCAGG
1 CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATC-GTGTGCCAGG
* * * ** **
41815192 CCGTGTAACTCTCTGAGTTGC-CCCACACGTTTGTGTCCCAGGTCGTGTGTTAGG
1 CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATCGTGTGCCAGG
* *
41815246 CCGTGTAACTCACTGACTTGC
1 CCGTGTAACTCTCTGAGTTGC
41815267 ATACAAAAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 54 0.87
55 8 0.13
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (55 bp):
CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATCGTGTGCCAGG
Found at i:41816991 original size:22 final size:22
Alignment explanation
Indices: 41816946--41816987 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41816936 TTCAACTTTC
*
41816946 TTAATTAAGCTTTAATAAATCA
1 TTAATTAAGCTCTAATAAATCA
*
41816968 TTAATTAAGC-CTAATTAATC
1 TTAATTAAGCTCTAATAAATC
41816988 CATTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAATTAAGCTCTAATAAATCA
Found at i:41821500 original size:12 final size:12
Alignment explanation
Indices: 41821483--41821527 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
41821473 GTTTGCTCCA
41821483 AAATCTTGATGT
1 AAATCTTGATGT
*
41821495 AAATCTTGATCT
1 AAATCTTGATGT
**
41821507 AAATCTCAATGT
1 AAATCTTGATGT
41821519 AAATCTTGA
1 AAATCTTGA
41821528 ATCTCGATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (12 bp):
AAATCTTGATGT
Found at i:41827211 original size:28 final size:28
Alignment explanation
Indices: 41827173--41827240 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
41827163 AGTAAGTCCG
*
41827173 CACACTTAGTGCT-TAATAATCAAACTCA
1 CACACTTAGTGCTAT-ACAATCAAACTCA
* *
41827201 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATCAAACTCA
41827229 CACACTTAGTGC
1 CACACTTAGTGC
41827241 CAATCTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACTCA
Found at i:41827795 original size:101 final size:104
Alignment explanation
Indices: 41827624--41827916 Score: 465
Period size: 109 Copynumber: 2.8 Consensus size: 104
41827614 CTTCTTAAAC
* * *
41827624 ATAATATATTAACATATATTAA--AGA--ATAATGCCATAAAATATAATAAACAATTCAAGTCAT
1 ATAATATATTAACATATATTAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCAT
41827685 TAATCCATGCATATTGGTCGGCTACTTTCATC-T-TT-T
66 TAATCCATGCATATTGGTCGGCTACTTTCATCTTATTAT
41827721 ATAATATATTAACATATATTAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCAT
1 ATAATATATTAACATATATTAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCAT
41827786 TAATCCATGCATATTGGTCGGCTACTTTCATCTTTTATTAAAT
66 TAATCCATGCATATTGGTCGGCTACTTTCATC--TTATT--AT
41827829 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
41827894 TTAATCCATGCATATTGGTCGGC
65 TTAATCCATGCATATTGGTCGGC
41827917 CGTTAATTCC
Statistics
Matches: 181, Mismatches: 3, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
97 22 0.12
99 2 0.01
101 66 0.36
104 1 0.01
105 2 0.01
108 21 0.12
109 67 0.37
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (104 bp):
ATAATATATTAACATATATTAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCAT
TAATCCATGCATATTGGTCGGCTACTTTCATCTTATTAT
Found at i:41827877 original size:109 final size:107
Alignment explanation
Indices: 41827603--41827916 Score: 479
Period size: 101 Copynumber: 3.0 Consensus size: 107
41827593 GAAAGATGAA
* *
41827603 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAG---A--ATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* *
41827663 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
41827707 TACTTTCATC--TTT---TATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACA
1 TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
41827766 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
66 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
41827808 TACTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
41827873 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
41827917 CGTTAATTCC
Statistics
Matches: 193, Mismatches: 4, Indels: 21
0.89 0.02 0.10
Matches are distributed among these distances:
96 3 0.02
97 20 0.10
99 1 0.01
100 2 0.01
101 67 0.35
104 10 0.05
105 2 0.01
108 21 0.11
109 67 0.35
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (107 bp):
TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Found at i:41832355 original size:109 final size:105
Alignment explanation
Indices: 41832090--41832389 Score: 482
Period size: 101 Copynumber: 2.9 Consensus size: 105
41832080 TCCTATCTTC
* * *
41832090 TTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTC
1 TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
41832155 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
66 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
*
41832195 TT---TATAATATATTAACATATATT-AAGTATATCATAATGCCATAAAACATAATAAATAATTC
1 TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
*
41832256 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTTATCTTTT
66 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATC---T
41832299 ATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATT
1 -TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATT
*
41832364 CAAGTCATTAATCCATGAATATTGGT
65 CAAGTCATTAATCCATGCATATTGGT
41832390 TGGCCGTTAA
Statistics
Matches: 180, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
101 73 0.41
102 20 0.11
104 1 0.01
105 4 0.02
108 21 0.12
109 61 0.34
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (105 bp):
TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
Found at i:41837034 original size:46 final size:44
Alignment explanation
Indices: 41836976--41837149 Score: 140
Period size: 46 Copynumber: 3.8 Consensus size: 44
41836966 TCACTTGTGT
* *
41836976 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-TA
* *
41837022 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGG--CATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATA
* *
41837067 CGAGCGCTAGTGTAAGACATGTCTGGCACATGCATCGGCCTCGA-GACGTA
1 -GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTA--TA
* *
41837117 -AGCCAGTGTAAGACACGTCTAGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
41837150 ACTATGAGAT
Statistics
Matches: 106, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
45 5 0.05
46 51 0.48
47 28 0.26
48 19 0.18
49 1 0.01
50 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATA
Found at i:41837194 original size:46 final size:44
Alignment explanation
Indices: 41837026--41837196 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 44
41837016 TTATTAGAGC
* * *
41837026 CAGTGTAAGACCATGTCTGGAACATGGCATCGGC-ATTGAGACGAGCG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-TGAGACGTG-G
* * * *
41837073 CTAGTGTAAGACATGTCTGGCACATGCATCGGCCT-CGAGACGTAAGC
1 C-AGTGTAAGACATGTCTGGGACATGCATC-GACTATGAGACGT--GG
* * *
41837120 CAGTGTAAGACACGTCTAGGACATGCATCGACTATGAGATGTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCGACTATGAGACGTGG
*
41837164 CAGTGTAAGACCATGCCTGGGACATGGCATCGA
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGA
41837197 TACAGATATA
Statistics
Matches: 101, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 49 0.49
47 17 0.17
48 10 0.10
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACTATGAGACGTGG
Found at i:41848770 original size:13 final size:14
Alignment explanation
Indices: 41848738--41848772 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
41848728 TAAAAAAATT
41848738 TATATTTTTAAAAA
1 TATATTTTTAAAAA
41848752 TATATTTTTAAAAA
1 TATATTTTTAAAAA
41848766 T-TATTTT
1 TATATTTT
41848773 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATTTTTAAAAA
Found at i:41849908 original size:14 final size:15
Alignment explanation
Indices: 41849877--41849910 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
41849867 TATAGAAGTT
41849877 AAATGGTTATTAAAG
1 AAATGGTTATTAAAG
*
41849892 AAATGGTT-TTAAGG
1 AAATGGTTATTAAAG
41849906 AAATG
1 AAATG
41849911 AACCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (15 bp):
AAATGGTTATTAAAG
Found at i:41850067 original size:24 final size:24
Alignment explanation
Indices: 41850013--41850067 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
41850003 AAATGTATTG
*
41850013 TAGAATTACTGTGAACTGCATTTA
1 TAGAAATACTGTGAACTGCATTTA
* * * *
41850037 CAAAAATATTGTGAACTGTATTTA
1 TAGAAATACTGTGAACTGCATTTA
41850061 TAGAAAT
1 TAGAAAT
41850068 GTCACAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (24 bp):
TAGAAATACTGTGAACTGCATTTA
Found at i:41850205 original size:54 final size:53
Alignment explanation
Indices: 41850125--41850307 Score: 224
Period size: 54 Copynumber: 3.4 Consensus size: 53
41850115 AAGACTGTAG
* * * *
41850125 AAGGTTGTGATCGT-AATCAGCAGACTGTGAGATTTGTAAAATCCTGTAAGTAA
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTT-TAAAATCCTGTAAGTAA
* *
41850178 AAGGTCGTGATCATAAATCAGTGGACTGCGAGATTCTTAAAATCCCGTAAGTAA
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATT-TTAAAATCCTGTAAGTAA
* * *
41850232 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCTTGTAAGTAG
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATT-TTAAAATCCTGTAAGTAA
* **
41850286 AAGGTTGTGATTGTAAATCAGC
1 AAGGTCGTGATCATAAATCAGC
41850308 AAACCGTAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 12 0.11
54 101 0.89
55 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (53 bp):
AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTTTAAAATCCTGTAAGTAA
Found at i:41850328 original size:39 final size:39
Alignment explanation
Indices: 41850280--41850773 Score: 296
Period size: 39 Copynumber: 12.7 Consensus size: 39
41850270 AAAATCTTGT
* * * *
41850280 AAGTAGAAGGTTGTGATTGTAAATCAGCAAACCGTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * * **
41850319 AAGTCGAAGGTCGTGATCATAAATCAGTAGACTGTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* *
41850358 AAG-CTAAAGGTCGTGATCGTAAACCAGCAAACCATAAGA
1 AAGTC-GAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * * * *
41850397 AAGCCGATGAAT-GTGACCGTAAATCAACAAACCATAAGA
1 AAGTCGAAG-GTCGTGATCGTAAATCAGCAAACCATAAGA
* * * * ****** *
41850436 AAGCCAAAGTTTGTGATCGTAAATCAATGGGTCATGAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* **
41850475 AAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * * *
41850514 AAGTCGAAGGTCATGATCGTAAATCAGCAGACCCTAAGT
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * ***
41850553 AAGTCGAAGGTCATGATAGTAAATCAGCAAATTGTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * * * * * *
41850592 AAGTCAAAAGTCATGATTGTAAATCA-CAGACTATAAGG
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* * ** *
41850630 AAGCCAAAGGTCGTGATCGTAAA-CTAGCGGACTATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATC-AGCAAACCATAAGA
* * * * * * *
41850669 AAG-CCAATGACTGTGACCGTAAATCAACAGACTATAAGA
1 AAGTCGAAGGTC-GTGATCGTAAATCAGCAAACCATAAGA
* * * * *****
41850708 AAGTCAAAGTTTGTGATCGTAAATCAACGGGTAATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
* *
41850747 AAGCCGAAGGTCGTGGTCGTAAATCAG
1 AAGTCGAAGGTCGTGATCGTAAATCAG
41850774 TAGACCACGA
Statistics
Matches: 357, Mismatches: 89, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
37 1 0.00
38 35 0.10
39 315 0.88
40 6 0.02
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (39 bp):
AAGTCGAAGGTCGTGATCGTAAATCAGCAAACCATAAGA
Found at i:41850561 original size:78 final size:78
Alignment explanation
Indices: 41850293--41850733 Score: 327
Period size: 78 Copynumber: 5.7 Consensus size: 78
41850283 TAGAAGGTTG
* * * * * * * *
41850293 TGATTGTAAATCAGCAAACCGTAAGAAAGTCGAAGGTCGTGATCATAAATCAGTAGACTGTAAGA
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGA
*
41850358 AAG-CTAAAGGTCG
66 AAGTC-AAAGGTCA
* * * * * * **
41850371 TGATCGTAAACCAGCAAACCATAAGAAAGCCGATGAAT-GTGACCGTAAATCAACAAACCATAAG
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAG-GTCGTGATCGTAAATCAGCAAACTTTAAG
* * **
41850435 AAAGCCAAAGTTTG
65 AAAGTCAAAGGTCA
*** ** *
41850449 TGATCGTAAATCAATGGGTCATGAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGA
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGA
*
41850514 AAGTCGAAGGTCA
66 AAGTCAAAGGTCA
* * * * *
41850527 TGATCGTAAATCAGCAGACCCTAAGTAAGTCGAAGGTCATGATAGTAAATCAGCAAA-TTGTAAG
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTT-TAAG
*
41850591 AAAGTCAAAAGTCA
65 AAAGTCAAAGGTCA
* * * * ** *
41850605 TGATTGTAAATCA-CAGACTATAAGGAAGCCAAAGGTCGTGATCGTAAA-CTAGCGGACTATAAG
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATC-AGCAAACTTTAAG
* * * *
41850668 AAAG-CCAATGACTG
65 AAAGTCAAAGGTC-A
* * * * * * *
41850682 TGACCGTAAATCAACAGACTATAAGAAAGTCAAAGTTTGTGATCGTAAATCA
1 TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCA
41850734 ACGGGTAATA
Statistics
Matches: 286, Mismatches: 68, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
76 6 0.02
77 54 0.19
78 223 0.78
79 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (78 bp):
TGATCGTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGA
AAGTCAAAGGTCA
Found at i:41850593 original size:117 final size:117
Alignment explanation
Indices: 41850285--41850773 Score: 360
Period size: 117 Copynumber: 4.2 Consensus size: 117
41850275 CTTGTAAGTA
* * *
41850285 GAAGGTTGTGATTGTAAATCAGCAAACCGTAAGAAAGTCGAAGGTCGTGATCA-TAAATCAGTAG
1 GAAGGTCGTGATCGTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGAT-AGTAAATCAGTAG
* * * *
41850349 ACTGTAAGAAAGCTAAAGGTCGTGATCGTAAACCAGCAAACCATAAGAAAGCC
65 ATTGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCC
* * * * * * * * * * *
41850402 GATGAAT-GTGACCGTAAATCAACAAACCATAAGAAAGCCAAAGTTTGTGATCGTAAATCAATGG
1 GAAG-GTCGTGATCGTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAG
* ** * * * *
41850466 GTCATGAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTC
65 ATTGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCC
* * * * * * *
41850519 GAAGGTCATGATCGTAAATCAGCAGACCCTAAGTAAGTCGAAGGTCATGATAGTAAATCAGCAAA
1 GAAGGTCGTGATCGTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAGA
* * * * * *
41850584 TTGTAAGAAAGTCAAAAGTCATGATTGTAAATCA-CAGACTATAAGGAAGCC
66 TTGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCC
* ** * * * * ** **
41850635 AAAGGTCGTGATCGTAAA-CTAGCGGACTATAAGAAAG-CCAATGACTGTGACCGTAAATCAACA
1 GAAGGTCGTGATCGTAAATC-AGCAAACCATAAGAAAGTCGAAGGTC-GTGATAGTAAATCAGTA
* * * * * * ***
41850698 GACTATAAGAAAGTCAAAGTTTGTGATCGTAAATCAAC-GGGTAATAAGAAAGCC
64 GATTGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGCAAACT-ATAAGAAAGCC
*
41850752 GAAGGTCGTGGTCGTAAATCAG
1 GAAGGTCGTGATCGTAAATCAG
41850774 TAGACCACGA
Statistics
Matches: 283, Mismatches: 81, Indels: 16
0.74 0.21 0.04
Matches are distributed among these distances:
115 6 0.02
116 86 0.30
117 189 0.67
118 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (117 bp):
GAAGGTCGTGATCGTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAGA
TTGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCC
Found at i:41850835 original size:54 final size:54
Alignment explanation
Indices: 41850753--41850986 Score: 281
Period size: 54 Copynumber: 4.3 Consensus size: 54
41850743 AAGAAAGCCG
* * * *
41850753 AAGGTCGTGGTCGTAAATCAGTAGACCACGAGATTCGTAGAATCTCGTATGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* *
41850807 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTAGTAAAATCCCGTAAGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* * ** * * *
41850861 AAGGTCATGATCATGAATCAACAAACCGCGAGATTCGTAAAATCTTGTAAGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* * * * *
41850915 AAGGTTGTGATCGTAAATCAGTGGA-CAGCGAGATTCGTAAAATCTTGTAAGTAG
1 AAGGTCGTGATCATAAATCAGTAGACCA-CGAGATTCGTAAAATCTCGTAAGTAA
*
41850969 AAGGTCGTGATTATAAAT
1 AAGGTCGTGATCATAAAT
41850987 TAGTGAACTG
Statistics
Matches: 151, Mismatches: 28, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
53 1 0.01
54 150 0.99
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (54 bp):
AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
Found at i:41851012 original size:39 final size:39
Alignment explanation
Indices: 41850963--41851318 Score: 261
Period size: 39 Copynumber: 9.1 Consensus size: 39
41850953 AAAATCTTGT
* ** * **
41850963 AAGTAGAAGGTCGTGATTATAAATTAGTGAACTGTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * *
41851002 AAGTCGAAGGTCGT-AACTGTAAATCAATGAATCGTAAGA
1 AAGTCGAAGGTCGTGATC-GTAAATCAGTGAACCATAAGA
* * ** * * *
41851041 AAGCCGAAAGTTATGGTTGTAAATCAGCGAACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * *
41851080 AAGTCAAAAGTCGTGATCGTAAATCAGTGGACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * *
41851119 AAGTCAAAGGTCATGATCTTAAATCAGTGTACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * *
41851158 AAGTCGAAGGTTGTGATCGTAAATTAG-CAGACTATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGA-ACCATAAGA
* * * * *
41851197 AAGTTGAAGGTCGTGATCATAAATCAGTGGACCGTAAAA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* ** * *
41851236 AAATCGAAGCCCGTGATCATAAATAAGTGGAA-CATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGT-GAACCATAAGA
* * * * *
41851275 AA-ACTGGAGGTCATGATCGTAAATCAGCGGACCATAAGA
1 AAGTC-GAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
41851314 AAGTC
1 AAGTC
41851319 AAAAATTATT
Statistics
Matches: 243, Mismatches: 66, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
38 4 0.02
39 236 0.97
40 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
Found at i:41851333 original size:117 final size:117
Alignment explanation
Indices: 41851059--41851378 Score: 318
Period size: 117 Copynumber: 2.7 Consensus size: 117
41851049 AGTTATGGTT
* * * *
41851059 GTAAATCAGCGAACCATAAGAAAGTCAAAAGTCGTGATCGTAAATCAGTGGACCATAAGAAAGTC
1 GTAAATCAGCGGACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAATC
* * * * * * * * **
41851124 AAAGGTCATGATCTTAAATCAGTGTACCATAAGAAAGTCGAAGGTTGTGATC
66 GAAGGCCGTGATCATAAATAAGTGGAACATAAGAAACTCGAAGGTCATGATC
* * * ** * *
41851176 GTAAATTAGCAGACTATAAGAAAGTTGAAGGTCGTGATCATAAATCAGTGGACCGTAAAAAAATC
1 GTAAATCAGCGGACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAATC
* *
41851241 GAAGCCCGTGATCATAAATAAGTGGAACATAAGAAAACT-GGAGGTCATGATC
66 GAAGGCCGTGATCATAAATAAGTGGAACATAAG-AAACTCGAAGGTCATGATC
* ** * * ***
41851293 GTAAATCAGCGGACCATAAGAAAGTCAAAAATTATTATCATAAATTAGCATACCATAAAAAAAAG
1 GTAAATCAGCGGACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCAT-AAAAAAA-
*
41851358 TCGAAGGCCGTGATCGTAAAT
64 TCGAAGGCCGTGATCATAAAT
41851379 CAGTAGATCA
Statistics
Matches: 160, Mismatches: 40, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
117 130 0.81
118 11 0.07
119 19 0.12
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (117 bp):
GTAAATCAGCGGACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAATC
GAAGGCCGTGATCATAAATAAGTGGAACATAAGAAACTCGAAGGTCATGATC
Found at i:41857021 original size:46 final size:50
Alignment explanation
Indices: 41856789--41857110 Score: 254
Period size: 46 Copynumber: 6.8 Consensus size: 50
41856779 AGGGTATAAT
* * * *
41856789 GCCGATGCCATGTCCCAGACATGGTATTACACTAG--CT-CATC-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGT-AG
* * * * * **
41856836 GTCAATGCCATGTCCCAGACATCGTCTTACACTGACTAT-CGAAATCG-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGTAG
* * *
41856885 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT--
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAG
*
41856935 GCCGATGCCATGTCCCA-ACCATGGTCTTACACT-G-AC-ACATCTCGTA-
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTACATCTCGTAG
*
41856981 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCG-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAG
* * * * *
41857027 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAG
*
41857073 GCCGATGCCATGTCCCAGACCTGGTCTTACACTGGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
41857111 ACAAATAACC
Statistics
Matches: 227, Mismatches: 29, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 65 0.29
47 43 0.19
48 15 0.07
49 39 0.17
50 34 0.15
51 4 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAG
Found at i:41865584 original size:76 final size:76
Alignment explanation
Indices: 41865474--41865629 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
41865464 AATAAGGTGA
41865474 ATCAAATTAACATGAAAAAAAAAAGTGATTGATAATAGTGACATAAAAATAAAAAGTTTAAAATA
1 ATCAAATTAACATGAAAAAAAAAAGTGATTGATAATAGTGACATAAAAATAAAAAGTTTAAAATA
41865539 AAAACTTAGTC
66 AAAACTTAGTC
41865550 ATCAAATTAACATGAAAAAAAAAAGTGATTGATAATAGTGACATAAAAATAAAAAGTTTAAAATA
1 ATCAAATTAACATGAAAAAAAAAAGTGATTGATAATAGTGACATAAAAATAAAAAGTTTAAAATA
41865615 AAAACTTAGTC
66 AAAACTTAGTC
41865626 ATCA
1 ATCA
41865630 CTAATAATAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.58, C:0.07, G:0.10, T:0.25
Consensus pattern (76 bp):
ATCAAATTAACATGAAAAAAAAAAGTGATTGATAATAGTGACATAAAAATAAAAAGTTTAAAATA
AAAACTTAGTC
Found at i:41866073 original size:22 final size:21
Alignment explanation
Indices: 41866036--41866094 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
41866026 TTAAATGAAT
* *
41866036 AAAAATTCTATTTTTTAACAA
1 AAAAAATCTATTTTTTAAAAA
41866057 AAAAAATCTATTATTTTAAAAA
1 AAAAAATCTATT-TTTTAAAAA
*
41866079 ATAAAAA-CTTTTTTTT
1 A-AAAAATCTATTTTTT
41866095 TAATATCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 15 0.45
22 13 0.39
23 5 0.15
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAAATCTATTTTTTAAAAA
Found at i:41866095 original size:22 final size:23
Alignment explanation
Indices: 41866033--41866097 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
41866023 AATTTAAATG
41866033 AATAAAAA-TTCTATTTTTTAACAA
1 AATAAAAACTT-T-TTTTTTAACAA
* * *
41866057 AA-AAAATCTATTATTTTAA-AA
1 AATAAAAACTTTTTTTTTAACAA
41866078 AATAAAAACTTTTTTTTTAA
1 AATAAAAACTTTTTTTTTAA
41866098 TATCAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 21 0.64
23 5 0.15
24 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAAAAACTTTTTTTTTAACAA
Found at i:41866268 original size:24 final size:25
Alignment explanation
Indices: 41866222--41866268 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41866212 CTACGTGCTT
*
41866222 ATTTTTAATTATTTTTAAATAATGC
1 ATTTTTAATTATTTGTAAATAATGC
*
41866247 ATTTTTAATTA-TTGTAATTAAT
1 ATTTTTAATTATTTGTAAATAAT
41866269 TTTTTAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
ATTTTTAATTATTTGTAAATAATGC
Found at i:41875841 original size:43 final size:43
Alignment explanation
Indices: 41875777--41876048 Score: 411
Period size: 43 Copynumber: 6.6 Consensus size: 43
41875767 GACATTACGT
* *
41875777 CTGCTAGGCACGAAGGCCCGAATAAACATCACTGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
41875820 CTACTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41875863 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
41875906 CTGCTAGGCACGAAGGCCCGAATATACATCACCGGTACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41875949 CTGCTAGGCACGAAGGCCCG-ATACACATCA----C-CG--G-
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41875983 C-GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
41876025 CTGCTAGGCATGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
41876049 TAATACCAGC
Statistics
Matches: 208, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.09
34 11 0.05
35 1 0.00
37 2 0.01
38 1 0.00
39 2 0.01
41 1 0.00
42 10 0.05
43 162 0.78
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:41875993 original size:33 final size:34
Alignment explanation
Indices: 41875951--41876017 Score: 127
Period size: 33 Copynumber: 2.0 Consensus size: 34
41875941 TACGAAGCCT
41875951 GCTAGGCACGAAGGCCCG-ATACACATCACCGGC
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
41875984 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
41876018 ACGAAGCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.28, C:0.36, G:0.27, T:0.09
Consensus pattern (34 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGC
Found at i:41876089 original size:38 final size:38
Alignment explanation
Indices: 41876041--41876164 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
41876031 GGCATGAAGG
* * * *
41876041 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
* * *
41876079 CCCTGATATAATACCAGCACGAAACCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** * *
41876117 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAG-ATTTAA
41876156 GCCCGGATA
1 -CCCGGATA
41876165 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:41881522 original size:43 final size:43
Alignment explanation
Indices: 41881472--41881784 Score: 491
Period size: 43 Copynumber: 7.5 Consensus size: 43
41881462 ATTACGTCTA
*
41881472 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
* * *
41881515 CAAGGCACGAAGGCTCGAATACACATCACCAGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41881558 CTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41881601 CTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41881644 CTAGGCACGAAGGCTCGAATACACATCACC-G---G--G---G
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
41881678 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41881721 CTAGGAACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
41881764 CTAGGCACGAAGGCCCGAATA
1 CTAGGCACGAAGGCCCGAATA
41881785 TAATACCAGC
Statistics
Matches: 248, Mismatches: 13, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
34 30 0.12
35 1 0.00
37 1 0.00
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 212 0.85
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
Found at i:41881686 original size:34 final size:34
Alignment explanation
Indices: 41881643--41881709 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
41881633 CACGAAGCCT
*
41881643 GCTAGGCACGAAGGCTCGAATACACATCACCGGG
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGG
41881677 GCTAGGCACGAAGGCCCGAATACACATCACCGG
1 GCTAGGCACGAAGGCCCGAATACACATCACCGG
41881710 CACGAAGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.28, T:0.10
Consensus pattern (34 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGG
Found at i:41881708 original size:120 final size:120
Alignment explanation
Indices: 41881557--41881784 Score: 420
Period size: 120 Copynumber: 1.9 Consensus size: 120
41881547 CACGAAGCCT
*
41881557 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
* *
41881622 TACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGG
66 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGG
*
41881677 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41881742 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
66 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
41881785 TAATACCAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 104 1.00
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.10
Consensus pattern (120 bp):
GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGG
Found at i:41881731 original size:77 final size:77
Alignment explanation
Indices: 41881600--41881752 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
41881590 CACGAAGCCT
* * *
41881600 GCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATA
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41881665 CACATCACCGGG
66 CACATCACCGGG
41881677 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41881742 CACATCACCGG
66 CACATCACCGG
41881753 CACGAAGCCT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.31, C:0.32, G:0.27, T:0.10
Consensus pattern (77 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
CACATCACCGGG
Found at i:41881824 original size:38 final size:38
Alignment explanation
Indices: 41881777--41881900 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
41881767 GGCACGAAGG
* * * * *
41881777 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
41881815 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * **
41881853 CCCGGATATTTTACCAGCACAAAGCCTGCGTGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCG-GGATTTAA
41881892 GCCCGGATA
1 -CCCGGATA
41881901 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 58 0.81
39 6 0.08
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:41887681 original size:89 final size:89
Alignment explanation
Indices: 41887565--41887736 Score: 292
Period size: 89 Copynumber: 1.9 Consensus size: 89
41887555 ATAACCCAGG
*
41887565 TTTGAACAATTAATGTTATTAGAAGTTTT-ATAACTCAAAATTTTTTGCATGATTTATCTTTTGA
1 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTC-AAATTTTTTGCATGATTTATCTTTTGA
41887629 ATATTGAAATGAAATTGTACCCGGA
65 ATATTGAAATGAAATTGTACCCGGA
** *
41887654 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCATTTTTTTTGCATGATTTGTCTTTTGAA
1 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCAAATTTTTTGCATGATTTATCTTTTGAA
41887719 TATTGAAATGAAATTGTA
66 TATTGAAATGAAATTGTA
41887737 ATTGCTTCGG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 72 0.92
90 6 0.08
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (89 bp):
TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCAAATTTTTTGCATGATTTATCTTTTGAA
TATTGAAATGAAATTGTACCCGGA
Found at i:41887861 original size:13 final size:13
Alignment explanation
Indices: 41887843--41887867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41887833 AAATAATAAA
41887843 TAATAAATATTAT
1 TAATAAATATTAT
41887856 TAATAAATATTA
1 TAATAAATATTA
41887868 ATTATTTTGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAAATATTAT
Found at i:41888068 original size:21 final size:22
Alignment explanation
Indices: 41888031--41888075 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
41888021 ATGAAAAAAT
*
41888031 TGTTTAAAAAACGTTTTTTTAA
1 TGTTTAAAAAACGTTTTTTAAA
*
41888053 TGTTTTAAAAAC-TTTTTTAAA
1 TGTTTAAAAAACGTTTTTTAAA
41888074 TG
1 TG
41888076 ATTGTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (22 bp):
TGTTTAAAAAACGTTTTTTAAA
Found at i:41888109 original size:26 final size:28
Alignment explanation
Indices: 41888058--41888112 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
41888048 TTTAATGTTT
*
41888058 TAAAAACTTTTTTAAATGATTGTAATTA
1 TAAAAACTTTTTTAAATGATTATAATTA
41888086 TAAAAACTTTTTT-AAT-ATTATAATTA
1 TAAAAACTTTTTTAAATGATTATAATTA
41888112 T
1 T
41888113 TTTTAGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 10 0.38
27 3 0.12
28 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TAAAAACTTTTTTAAATGATTATAATTA
Found at i:41892027 original size:67 final size:66
Alignment explanation
Indices: 41891871--41892022 Score: 161
Period size: 67 Copynumber: 2.3 Consensus size: 66
41891861 CACTCAGTAC
* * * * * * *
41891871 CACCCATGTGACCTAGCCA-AT-TTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
1 CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTG--CTACACATGA
41891934 AAT
64 AAT
* *
41891937 CACGCATGTGACCTAGCTACATAA-ATCCCGTAGCTCTCTTGTCTACATGGTG-TACACAT-AAT
1 CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATGAA-
41891999 AT
65 AT
41892001 CACCCATGCGACCTAGCTACAT
1 CACCCATGCGACCTAGCTACAT
41892023 CATAATGTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 27 0.36
66 17 0.23
67 29 0.39
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (66 bp):
CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATGAAA
T
Found at i:41892782 original size:30 final size:30
Alignment explanation
Indices: 41892748--41892808 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
41892738 TCCTTAACTC
41892748 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
41892778 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
41892808 A
1 A
41892809 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:41894853 original size:80 final size:83
Alignment explanation
Indices: 41894754--41894923 Score: 186
Period size: 85 Copynumber: 2.1 Consensus size: 83
41894744 TAAACTGCGT
* * * * * *
41894754 AAAAAGTTCTTAAATTTTTTTAGAAAAATAATT-A-CGTTTTTTTTT-ACTCAATTGGGTACTTG
1 AAAAAGTTCTTAAACTTTTTCAAAAAAACAATTAACCGTTTTTTTTTAACTCAACTGGGTACTTA
* *
41894816 AACTTTCAAAATACATTA
66 AACTATCAAAATACATCA
* *
41894834 AAAAAG-TCTTCAAACTTTTTCAAAAAAACAATTAAGCCCTTTTTTTTTTAACTTAACTGGGTAC
1 AAAAAGTTCTT-AAACTTTTTCAAAAAAACAATTAA--CCGTTTTTTTTTAACTCAACTGGGTAC
*
41894898 TTAAACTATCAAAATGCATCA
63 TTAAACTATCAAAATACATCA
41894919 AAAAA
1 AAAAA
41894924 ACTCATTGAC
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.05
80 24 0.33
81 1 0.01
84 10 0.14
85 34 0.47
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (83 bp):
AAAAAGTTCTTAAACTTTTTCAAAAAAACAATTAACCGTTTTTTTTTAACTCAACTGGGTACTTA
AACTATCAAAATACATCA
Found at i:41895089 original size:30 final size:31
Alignment explanation
Indices: 41895047--41895114 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
41895037 AAAATAAATC
41895047 AAAAAAAGTTAT-AAAATTATTAAATTTTAAT
1 AAAAAAAGTTATAAAAATTA-TAAATTTTAAT
*
41895078 AAAAAAA-TTATAAAAAAATTATAAATTTTTAT
1 AAAAAAAGTTAT--AAAAATTATAAATTTTAAT
41895110 AAAAA
1 AAAAA
41895115 TCATAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 4 0.12
31 7 0.21
32 15 0.45
33 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (31 bp):
AAAAAAAGTTATAAAAATTATAAATTTTAAT
Found at i:41895092 original size:11 final size:11
Alignment explanation
Indices: 41895076--41895102 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
41895066 TTAAATTTTA
41895076 ATAAAAAAATT
1 ATAAAAAAATT
41895087 ATAAAAAAATT
1 ATAAAAAAATT
41895098 ATAAA
1 ATAAA
41895103 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAAAAAAATT
Found at i:41895418 original size:29 final size:26
Alignment explanation
Indices: 41895386--41895448 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
41895376 ACATTTTATA
41895386 AATTTTTAATGATTTTTATAAAATTTTAC
1 AATTTTTAAT-ATTTTTAT--AATTTTAC
* *
41895415 AATTTTTTTATATTTTTATAATTTTAT
1 AA-TTTTTAATATTTTTATAATTTTAC
41895442 AATTTTT
1 AATTTTT
41895449 TTCTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 5 0.16
27 9 0.29
29 10 0.32
30 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
AATTTTTAATATTTTTATAATTTTAC
Found at i:41895419 original size:19 final size:19
Alignment explanation
Indices: 41895379--41895465 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
41895369 CCTTAATACA
41895379 TTTTATAAATTTTTA-ATGAT
1 TTTTATAAATTTTTACA--AT
*
41895399 TTTTATAAAATTTTACAAT
1 TTTTATAAATTTTTACAAT
* * *
41895418 TTTTTTATATTTTTATAA-
1 TTTTATAAATTTTTACAAT
* *
41895436 TTTTATAATTTTTTTCTAAT
1 TTTTATAAATTTTTAC-AAT
41895456 TTTTAATAAA
1 TTTT-ATAAA
41895466 ATTTAAATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
18 11 0.21
19 18 0.35
20 18 0.35
21 5 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAAATTTTTACAAT
Found at i:41895498 original size:24 final size:26
Alignment explanation
Indices: 41895454--41895503 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
41895444 TTTTTTTCTA
41895454 ATTTTTAATAAAATTTAAAT-ATTTT
1 ATTTTTAATAAAATTTAAATAATTTT
* *
41895479 ATTTTTATTAATATTT-AATAATTTT
1 ATTTTTAATAAAATTTAAATAATTTT
41895504 TACAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTAATAAAATTTAAATAATTTT
Found at i:41895529 original size:15 final size:15
Alignment explanation
Indices: 41895509--41895538 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41895499 ATTTTTACAA
*
41895509 ATTTTTTTTATTTTT
1 ATTTTTTATATTTTT
41895524 ATTTTTTATATTTTT
1 ATTTTTTATATTTTT
41895539 TTTGCCACAG
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTATATTTTT
Found at i:41895948 original size:16 final size:16
Alignment explanation
Indices: 41895929--41895979 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
41895919 AAGTTAAATG
41895929 AAATTCAAGTCAAGTA
1 AAATTCAAGTCAAGTA
41895945 AAA-TCGAA-TCAAGTA
1 AAATTC-AAGTCAAGTA
*
41895960 AAATTCAAGTCAATTA
1 AAATTCAAGTCAAGTA
41895976 AAAT
1 AAAT
41895980 CGAATCGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (16 bp):
AAATTCAAGTCAAGTA
Found at i:41895958 original size:15 final size:15
Alignment explanation
Indices: 41895938--41895994 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
41895928 GAAATTCAAG
41895938 TCAAGTAAAATCGAA
1 TCAAGTAAAATCGAA
41895953 TCAAGTAAAATTC-AA
1 TCAAGTAAAA-TCGAA
*
41895968 GTCAATTAAAATCGAA
1 -TCAAGTAAAATCGAA
*
41895984 TCGAGTAAAAT
1 TCAAGTAAAAT
41895995 TAGAAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 23 0.64
16 13 0.36
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (15 bp):
TCAAGTAAAATCGAA
Found at i:41895967 original size:31 final size:31
Alignment explanation
Indices: 41895929--41895995 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
41895919 AAGTTAAATG
41895929 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
1 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
* *
41895960 AAATTCAAGTCAATTAAAATCGAATCGAGTA
1 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
41895991 AAATT
1 AAATT
41895996 AGAAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (31 bp):
AAATTCAAGTCAAGTAAAATCGAATCAAGTA
Found at i:41896227 original size:15 final size:15
Alignment explanation
Indices: 41896194--41896227 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41896184 TATTCTTTAG
*
41896194 ATTTTTTAAAAAATT
1 ATTTTTTAAAAAATA
*
41896209 ATTTTTTAAAATATA
1 ATTTTTTAAAAAATA
41896224 ATTT
1 ATTT
41896228 CTTTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTTAAAAAATA
Found at i:41899958 original size:40 final size:40
Alignment explanation
Indices: 41899903--41899983 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
41899893 TAGATGAAAG
41899903 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
1 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
41899943 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
1 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
41899983 A
1 A
41899984 CTTTCCTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (40 bp):
AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
Found at i:41920935 original size:59 final size:59
Alignment explanation
Indices: 41920841--41920958 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
41920831 ATAGCTTAGT
41920841 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
1 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
*
41920900 AAGCTAATATGAAAGAAATAAGCTAGCCTTTCCATACATTAACATGCAAATAATATAAC
1 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
41920959 TTAAGGTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (59 bp):
AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
Found at i:41928620 original size:26 final size:26
Alignment explanation
Indices: 41928589--41928640 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
41928579 TTTTTCCTCC
*
41928589 TCCAACTGCTCTATTTTTCTTTCTAA
1 TCCAACTGCTCTATTTTCCTTTCTAA
41928615 TCCAACTGCTCTATTTTCCTTTCTAA
1 TCCAACTGCTCTATTTTCCTTTCTAA
41928641 CTCCGAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.04, T:0.48
Consensus pattern (26 bp):
TCCAACTGCTCTATTTTCCTTTCTAA
Found at i:41933602 original size:23 final size:24
Alignment explanation
Indices: 41933576--41933628 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
41933566 AAAAGATAGT
41933576 AAAATAGAGA-AATAAAAACAACA
1 AAAATAGAGATAATAAAAACAACA
* * * *
41933599 AAAA-AAATATCATCAAAACAACA
1 AAAATAGAGATAATAAAAACAACA
41933622 AAAATAG
1 AAAATAG
41933629 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.72, C:0.11, G:0.06, T:0.11
Consensus pattern (24 bp):
AAAATAGAGATAATAAAAACAACA
Found at i:41941894 original size:69 final size:69
Alignment explanation
Indices: 41941783--41941921 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
41941773 GATAGGAAAA
*
41941783 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
41941848 GCTG
66 GCTG
41941852 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
41941917 GCTG
66 GCTG
41941921 A
1 A
41941922 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:41954018 original size:23 final size:23
Alignment explanation
Indices: 41953987--41954042 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
41953977 ACATTATTCG
*
41953987 TGAATATGTTCGATTAAGTTAAA
1 TGAATATGTTCGATTAAATTAAA
*
41954010 TGAACATGTTCGATTAAATTAAA
1 TGAATATGTTCGATTAAATTAAA
41954033 TGAATATGTT
1 TGAATATGTT
41954043 TGTGAACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (23 bp):
TGAATATGTTCGATTAAATTAAA
Found at i:41954053 original size:23 final size:23
Alignment explanation
Indices: 41953987--41954055 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
41953977 ACATTATTCG
* * *
41953987 TGAATATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
*
41954010 TGAACATGTTCGATTAAATTAAA
1 TGAACATGTTCGATGAAATTAAA
* *
41954033 TGAATATGTTTG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
41954056 CAAACGAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:41955629 original size:30 final size:31
Alignment explanation
Indices: 41955559--41955630 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
41955549 CAATTTGGTA
* *
41955559 ACTAAAATATTCAAAAGTTTTCATTTAAGTT
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTC
* *
41955590 ATTAAATTATTCAAAAGTTTT-TTTTAAGTC
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTC
*
41955620 ACTAGATTATT
1 ACTAAATTATT
41955631 AAGGTTTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
ACTAAATTATTCAAAAGTTTTCATTTAAGTC
Found at i:41960879 original size:20 final size:20
Alignment explanation
Indices: 41960843--41960881 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41960833 TAAGTTAATT
*
41960843 TTTTTAAGTTTTATTTTAAG
1 TTTTTAAATTTTATTTTAAG
41960863 TTTTTAAATTGTT-TTTTAA
1 TTTTTAAATT-TTATTTTAA
41960882 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTAAATTTTATTTTAAG
Found at i:41962614 original size:129 final size:129
Alignment explanation
Indices: 41962384--41962642 Score: 509
Period size: 129 Copynumber: 2.0 Consensus size: 129
41962374 GATCTTTTAG
*
41962384 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGTGAGTAAGCATAAAAGCTTAGTAAGTT
1 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
41962449 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
66 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
41962513 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
1 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
41962578 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
66 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
41962642 C
1 C
41962643 ATAGGCTTGA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (129 bp):
CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
Found at i:41962953 original size:50 final size:48
Alignment explanation
Indices: 41962839--41963114 Score: 223
Period size: 49 Copynumber: 5.8 Consensus size: 48
41962829 ATGCGGTAAC
* * * * *
41962839 TGCCAATGCCATGTCCCCGACATGGTCTTACACTGGCTATC-ATCATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCT-ATC-A
* * *
41962888 GGTCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGCATATCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGC-TAT-CA
** * * * *
41962938 TGTTGATGCCATGTCCCAGACGTAGTCTTACACTAACACATCGCT-T-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGCTATCA
* *
41962985 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCG-TCTCTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCTATC-A
* * * *
41963030 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTC-ATAAT-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCT-ATCA
41963077 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
41963115 ACACAAGTAC
Statistics
Matches: 188, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 14 0.07
45 14 0.07
46 25 0.13
47 30 0.16
48 22 0.12
49 36 0.19
50 36 0.19
51 6 0.03
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCTATCA
Found at i:41963089 original size:94 final size:95
Alignment explanation
Indices: 41962839--41963112 Score: 286
Period size: 94 Copynumber: 2.9 Consensus size: 95
41962829 ATGCGGTAAC
* * * * * *
41962839 TGCCAATGCCATGTCCCCGACATGGTCTTACACTGGCTATCATCATCGAGGTCGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGTCC
* *
41962904 CAGACATGGTCTTATACTAGCTCTCGCATATCCA
64 CAGACAT-GTCTTACACTAGCACTCG-ATATCCA
** * * ** * ** *
41962938 TGTTGATGCCATGTCCCAGACGTAGTCTTACACT--AACACATCGCT-TAGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCGATGCATGTCCC
* *
41963000 AGACATGTCTTACACTAGCACTCG-TCTCTA
65 AGACATGTCTTACACTAGCACTCGATATCCA
*
41963030 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
41963095 GACATGTCTTACACTAGC
66 GACATGTCTTACACTAGC
41963113 TCACACAAGT
Statistics
Matches: 141, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
92 33 0.23
93 1 0.01
94 55 0.39
95 14 0.10
96 6 0.04
97 3 0.02
98 1 0.01
99 28 0.20
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCGATATCCA
Found at i:41968534 original size:27 final size:27
Alignment explanation
Indices: 41968504--41968708 Score: 225
Period size: 27 Copynumber: 7.6 Consensus size: 27
41968494 ATATTGAGTC
* *
41968504 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
41968531 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
41968557 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
41968585 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
41968612 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
41968639 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41968666 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
*
41968694 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41968709 GTACAATTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.17
27 90 0.58
28 39 0.25
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41968642 original size:54 final size:54
Alignment explanation
Indices: 41968504--41968707 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 54
41968494 ATATTGAGTC
* * * * *
41968504 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
* *
41968557 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAA-T
** *
41968612 CGCACACTTAGTGC-ATCATTTTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCAACATAGTC-AAT
* *
41968666 CGCACACTTAGTGCTACATAGTCAATCTTGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGC
41968708 TGTACAATTT
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
53 23 0.18
54 68 0.52
55 39 0.30
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
Found at i:41976781 original size:27 final size:27
Alignment explanation
Indices: 41976751--41976952 Score: 239
Period size: 27 Copynumber: 7.6 Consensus size: 27
41976741 ATATTGAGTC
* * * *
41976751 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41976778 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
41976805 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
41976832 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41976859 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41976885 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41976912 CGCACACTTAGTGCTACATAGTC-AAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41976938 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41976953 GTACAATTTA
Statistics
Matches: 154, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
26 40 0.26
27 114 0.74
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41976915 original size:80 final size:79
Alignment explanation
Indices: 41976751--41976951 Score: 242
Period size: 80 Copynumber: 2.5 Consensus size: 79
41976741 ATATTGAGTC
* * * * * * **
41976751 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCAT-CAT-TTCATTTCGCACACTTA
* *
41976815 GTGCTACATAGTCAACT
63 GTGCAACATAGTCAAAT
* *
41976832 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
41976897 GCAACATAGTCAAAT
65 GCAACATAGTCAAAT
*
41976912 CGCACACTTAGTGCTACATAGTCAATCGCACACTTAGTGC
1 CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGC
41976952 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 15 0.15
80 51 0.50
81 36 0.35
82 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (79 bp):
CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGTG
CAACATAGTCAAAT
Found at i:41978490 original size:23 final size:24
Alignment explanation
Indices: 41978459--41978505 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
41978449 TCCTCCCTTA
41978459 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
41978481 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
41978506 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:41990647 original size:27 final size:27
Alignment explanation
Indices: 41990587--41990647 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
41990577 TCATGACTAT
41990587 CCGTTTTACCCTCAGTTTACAGAATTA
1 CCGTTTTACCCTCAGTTTACAGAATTA
** *
41990614 CTATTTTACGCTC-GATTTACAGAATTA
1 CCGTTTTACCCTCAG-TTTACAGAATTA
41990641 CCGTTTT
1 CCGTTTT
41990648 TAACTCTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (27 bp):
CCGTTTTACCCTCAGTTTACAGAATTA
Found at i:41995978 original size:6 final size:6
Alignment explanation
Indices: 41995960--41996066 Score: 53
Period size: 6 Copynumber: 16.8 Consensus size: 6
41995950 CTGTCACTTA
* *
41995960 ATTCTG TATTCTG ATTCTG ATTTTG -TTACTAA ATAT-TG ATATCTG ATTCTG
1 ATTCTG -ATTCTG ATTCTG ATTCTG ATT-CT-G AT-TCTG AT-TCTG ATTCTG
*
41996011 ATTCTG -TTACTA ATAT-TG ATTTCTG ATTCTG -TTAACTG ATTCTG ATTTCTG
1 ATTCTG ATT-CTG AT-TCTG A-TTCTG ATTCTG ATT--CTG ATTCTG A-TTCTG
41996062 ATTCT
1 ATTCT
41996067 CATTTTTGGT
Statistics
Matches: 80, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
5 6 0.08
6 44 0.55
7 25 0.31
8 4 0.05
9 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:41996029 original size:31 final size:32
Alignment explanation
Indices: 41995969--41996041 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
41995959 AATTCTGTAT
*
41995969 TCTGATTCTGATTTTGTTACTAAATATTGATA
1 TCTGATTCTGATTCTGTTACTAAATATTGATA
*
41996001 TCTGATTCTGATTCTGTTACT-AATATTGATT
1 TCTGATTCTGATTCTGTTACTAAATATTGATA
41996032 TCTGATTCTG
1 TCTGATTCTG
41996042 TTAACTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 19 0.49
32 20 0.51
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (32 bp):
TCTGATTCTGATTCTGTTACTAAATATTGATA
Found at i:41996034 original size:25 final size:27
Alignment explanation
Indices: 41995998--41996066 Score: 101
Period size: 26 Copynumber: 2.7 Consensus size: 27
41995988 CTAAATATTG
41995998 ATATCTGA-TTCTGATTCTGTT-ACTA
1 ATATCTGATTTCTGATTCTGTTAACTA
*
41996023 ATAT-TGATTTCTGATTCTGTTAACTG
1 ATATCTGATTTCTGATTCTGTTAACTA
41996049 AT-TCTGATTTCTGATTCT
1 ATATCTGATTTCTGATTCT
41996067 CATTTTTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 3 0.08
25 18 0.45
26 19 0.47
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (27 bp):
ATATCTGATTTCTGATTCTGTTAACTA
Found at i:41996062 original size:13 final size:13
Alignment explanation
Indices: 41995996--41996071 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
41995986 TACTAAATAT
41995996 TGATATCTGA-TTC
1 TGAT-TCTGATTTC
*
41996009 TGATTCTG-TTAC
1 TGATTCTGATTTC
*
41996021 TAATAT-TGATTTC
1 TGAT-TCTGATTTC
*
41996034 TGATTCTG-TTAAC
1 TGATTCTGATT-TC
41996047 TGATTCTGATTTC
1 TGATTCTGATTTC
*
41996060 TGATTCTCATTT
1 TGATTCTGATTT
41996072 TTGGTTCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
12 14 0.28
13 34 0.68
14 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.51
Consensus pattern (13 bp):
TGATTCTGATTTC
Found at i:42010033 original size:27 final size:27
Alignment explanation
Indices: 42010003--42010206 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
42009993 ATATTGAGTC
* *
42010003 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
42010030 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
42010056 CGCACACTTAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
42010083 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
42010110 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
42010137 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
42010164 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
42010192 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42010207 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
26 25 0.16
27 112 0.73
28 17 0.11
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42011739 original size:22 final size:23
Alignment explanation
Indices: 42011709--42011754 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
42011699 TCCTCCCTTA
42011709 TTTTATTCA-TCCTTTT-TTTTC
1 TTTTATTCACTCCTTTTATTTTC
*
42011730 TTTTAATTCACTTCTTTTATTTTC
1 TTTT-ATTCACTCCTTTTATTTTC
42011754 T
1 T
42011755 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 6 0.29
24 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTATTCACTCCTTTTATTTTC
Found at i:42018280 original size:27 final size:26
Alignment explanation
Indices: 42018250--42018451 Score: 244
Period size: 27 Copynumber: 7.6 Consensus size: 26
42018240 ATATTGAGTC
* * *
42018250 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAA-T
* *
42018277 CGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAGTCAAT
42018303 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAA-T
** *
42018330 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAA-T
* *
42018357 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCA-AT
*
42018384 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTC-AAT
42018411 CGCACACTTAGTGCTACATAGTCAAT
1 CGCACACTTAGTGCTACATAGTCAAT
42018437 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42018452 GTACAATTTA
Statistics
Matches: 154, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
26 42 0.27
27 110 0.71
28 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATAGTCAAT
Found at i:42018414 original size:81 final size:79
Alignment explanation
Indices: 42018250--42018451 Score: 253
Period size: 80 Copynumber: 2.5 Consensus size: 79
42018240 ATATTGAGTC
* * * * *
42018250 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCTACATAATCAATCGCACACTTAGT
* *
42018315 GCTACATAGTCAACT
65 GCAACATAGTCAAAT
* * * *
42018330 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTA
42018394 GTGCAACATAGTCAAAT
63 GTGCAACATAGTCAAAT
*
42018411 CGCACACTTAGTGCTACATAGTCAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGCT
42018452 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 55 0.53
81 48 0.46
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (79 bp):
CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTG
CAACATAGTCAAAT
Found at i:42019985 original size:23 final size:24
Alignment explanation
Indices: 42019954--42020000 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
42019944 TCCTCCCTTA
42019954 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
42019976 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
42020001 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:42029504 original size:27 final size:27
Alignment explanation
Indices: 42029469--42029827 Score: 429
Period size: 27 Copynumber: 13.3 Consensus size: 27
42029459 CCAAAGTACT
*
42029469 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
**
42029496 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
* *
42029523 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
42029550 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
42029577 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * * *
42029604 CTCAATTTGTAAAATTACCGTTTTATC
1 CTCGATTTATAGAATTACCGTTTTACC
*
42029631 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
**
42029658 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
42029685 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
42029712 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
42029739 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * *
42029766 CTCGATTTGTAAAATTATCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
42029793 CACGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
42029820 CTTGATTT
1 CTCGATTT
42029828 TGAAATTACT
Statistics
Matches: 286, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 278 0.97
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCGTTTTACC
Found at i:42029512 original size:54 final size:54
Alignment explanation
Indices: 42029469--42029821 Score: 503
Period size: 54 Copynumber: 6.5 Consensus size: 54
42029459 CCAAAGTACT
* *
42029469 CTCGATTTATAGAATTACCATTTTACCCTCAGTTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
* * *
42029523 CTCGATTTACAGAATTATCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
* * * * * ** *
42029577 CTCGATTTATAAAATTACCGTTTTACCCTCAATTTGTAAAATTACCGTTTTATC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
42029631 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
*
42029685 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
* * *
42029739 CTCGATTTACAGAATTACCGTTTTACCCTC-GATTTGTAAAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTATAGAATTACT-ATTTTACC
* *
42029793 CACGATTTATAGAATTACCGTTTTACCCT
1 CTCGATTTACAGAATTACCGTTTTACCCT
42029822 TGATTTTGAA
Statistics
Matches: 268, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 266 0.99
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
Found at i:42029861 original size:27 final size:27
Alignment explanation
Indices: 42029831--42030025 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
42029821 TTGATTTTGA
*
42029831 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
42029858 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
42029885 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCAAAATACCCCTGTAGGGTAG
42029912 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
42029939 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
42029966 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
42029993 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
42030020 AATTAC
1 AATTAC
42030026 TATTTTGCCC
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:42029899 original size:54 final size:54
Alignment explanation
Indices: 42029831--42030025 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
42029821 TTGATTTTGA
* * *
42029831 AATTACTAAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
42029885 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
42029939 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * *
42029993 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTAC
42030026 TATTTTGCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:42030268 original size:27 final size:26
Alignment explanation
Indices: 42030226--42030307 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
42030216 GGAGGAAGCA
*
42030226 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
42030253 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * *
42030279 TATTTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
42030306 TT
1 TT
42030308 GACCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:42030427 original size:22 final size:22
Alignment explanation
Indices: 42030395--42030453 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
42030385 CCCGTTATTA
*
42030395 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * *
42030417 ATGGCTTTGTGCCATCTTAACT
1 ATGGCTTTGTGCCAACCTAAAT
*
42030439 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
42030454 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:42033117 original size:6 final size:6
Alignment explanation
Indices: 42033108--42033391 Score: 223
Period size: 6 Copynumber: 46.8 Consensus size: 6
42033098 TTGCATTCAC
* *
42033108 ATTCTG ATTCTG ATTCTG -TCACATA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
42033157 -TTACTA ATACTG ATTCTG ATTCTG ATTCT- ATTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
42033205 ATTCTG -TCACGTA ATTCTG ATTTTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
42033254 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
42033303 ATTCTG ATTTTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
42033351 ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
42033392 CATTTTGGTT
Statistics
Matches: 223, Mismatches: 28, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
5 20 0.09
6 181 0.81
7 17 0.08
8 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:42033255 original size:85 final size:84
Alignment explanation
Indices: 42033108--42033380 Score: 281
Period size: 85 Copynumber: 3.2 Consensus size: 84
42033098 TTGCATTCAC
* * * * *
42033108 ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATT-CTGATTCTG-TTACTAATACTGAT
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTGATTTTG-TTACTAATACTGATT-CTGATTCTGAT
** *
42033171 TCTGATT-CTGATTCTATTACTG
63 TCTG-TTACTGATTCTGATTCTG
42033193 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTTTGTTACTAATACTGATTCTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTGATTTTGTTACTAATACTGATTCTGATTCTGATTC
42033258 TGTTACTGATTCTGATTCTG
65 TGTTACTGATTCTGATTCTG
* * * * *
42033278 ATTCTG-TCACCTAATTCTGAT-TCTGATTCTGATTTTGTTACTAATATTGATTCTGATTCTGAT
1 ATTCTGAT--TCTGATTCTG-TCACTAATTCTGATTTTGTTACTAATACTGATTCTGATTCTGAT
*
42033341 TCTGTTACTAATAT-TGATTCTG
63 TCTGTTACTGAT-TCTGATTCTG
42033363 ATTCTG-TTACTGATTCTG
1 ATTCTGATT-CTGATTCTG
42033381 ATTCTGATTC
Statistics
Matches: 163, Mismatches: 17, Indels: 17
0.83 0.09 0.09
Matches are distributed among these distances:
84 13 0.08
85 137 0.84
86 12 0.07
87 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (84 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTGATTTTGTTACTAATACTGATTCTGATTCTGATTCT
GTTACTGATTCTGATTCTG
Found at i:42033332 original size:73 final size:73
Alignment explanation
Indices: 42033145--42033302 Score: 271
Period size: 73 Copynumber: 2.2 Consensus size: 73
42033135 TCTGATTCTG
* *
42033145 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTATTACTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGTTACTAATACTGATTCTAATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
*
42033210 GTCACGTA
66 GTCACCTA
* *
42033218 ATTCTGATTTTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGTTACTAATACTGATTCTAATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
42033283 GTCACCTA
66 GTCACCTA
42033291 ATTCTGATTCTG
1 ATTCTGATTCTG
42033303 ATTCTGATTT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (73 bp):
ATTCTGATTCTGTTACTAATACTGATTCTAATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
GTCACCTA
Found at i:42041307 original size:46 final size:48
Alignment explanation
Indices: 42041102--42041369 Score: 282
Period size: 46 Copynumber: 5.6 Consensus size: 48
42041092 GCAAGTTGCC
* * *
42041102 GATGCCATGTCCCAGACATGGTCTTACACTGACTAACATCACCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-TCGAGGCT
* * *
42041151 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCT
* * * *
42041201 GATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATTTC-ATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA-GGCT
* *
42041247 GATG-CATGTCCCAGACAT-GTCTTATACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCT
* * * *
42041293 GATG-CATGTCCCAGACAT-GTCTTATACTGGCCTATATCCCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCT
*
42041339 GATGCTATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
42041370 ACTCTCAAAT
Statistics
Matches: 188, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.06
45 15 0.08
46 65 0.35
47 14 0.07
48 10 0.05
49 32 0.17
50 33 0.18
51 7 0.04
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCT
Found at i:42041794 original size:30 final size:30
Alignment explanation
Indices: 42041754--42041810 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
42041744 AATTCACACC
* *
42041754 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
42041784 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
42041811 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:42047478 original size:13 final size:13
Alignment explanation
Indices: 42047460--42047485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42047450 CACAACCGGA
42047460 CAATGGCCCGTGT
1 CAATGGCCCGTGT
42047473 CAATGGCCCGTGT
1 CAATGGCCCGTGT
42047486 TCCTTACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CAATGGCCCGTGT
Found at i:42054947 original size:14 final size:14
Alignment explanation
Indices: 42054928--42054957 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
42054918 CGTCAATAAC
42054928 TCTATACATTTCAA
1 TCTATACATTTCAA
42054942 TCTATACATTTCAA
1 TCTATACATTTCAA
42054956 TC
1 TC
42054958 GCTAATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (14 bp):
TCTATACATTTCAA
Found at i:42060263 original size:40 final size:40
Alignment explanation
Indices: 42060197--42060338 Score: 223
Period size: 40 Copynumber: 3.6 Consensus size: 40
42060187 AACCCAAGTA
* *
42060197 CCTTCGGGAATTAG-CCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42060236 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42060276 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42060316 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42060339 CATCCGAATA
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.13
40 82 0.87
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42068153 original size:40 final size:40
Alignment explanation
Indices: 42068076--42068257 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
42068066 AACCCAAGTA
* *
42068076 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42068115 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42068155 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42068195 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42068235 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42068258 CATTCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 117 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42080016 original size:879 final size:880
Alignment explanation
Indices: 42074187--42080937 Score: 8050
Period size: 880 Copynumber: 7.7 Consensus size: 880
42074177 TATAAGGCGG
* * *
42074187 TATCCACAAGTATACAGGTCGAGTTGTCATATAGTTTTACAATGATTTAGGTGAGTACTCCGAGG
1 TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
* * *
42074252 ATCGTACCCAAAG-AGGCGAGTGCTAGATAAATTCTAACCTAAAAACTAAAAGATCTAATTAGTA
66 ATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
* * * * * *
42074316 CTTTAAATTAGTTATAATATGAAATCATAAAATAAAGGATTTTTAAGGTTGTAATAATAATAAAA
131 CTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAA
* * * * * * *
42074381 GAAATTATTAAAAAGTAATAAACATCAAGAGATAGAAAAGGAGAATCAATAAAATCTTGAATATG
196 CAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATG
* * * * * * * *
42074446 GTTGATTAGCTTGCTTCGATAATCCCCATTAACTATCGTTTGAAGTTTCTCGTTAATCAACTAGT
261 GGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGT
* * * * * * *
42074511 TGCTACCTTAGTAGGACCTT-TAGATCTTCCACTAACATAATGAGTCAACAAGAATTGCTTATCT
326 TGCTACCCTAGTAGGATCTTCT-GATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCT
* * * * * * *
42074575 TTCGACCTCATATTCCAGACTGGCTTAGGATGAAGGTGTTCACAAATGGGTCATACCAAATTTGG
390 TCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGG
* * * *
42074640 GTTAATTCCCACCTTGATGACTTCCTGGGGTTGTCAGGCCTAGGTTTTGTTTCATATTCATCCTT
455 GTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTT
* * * * *
42074705 TCCTAAACAGTTGATCCGTTGAGTAACCCTACAAAACAATCAATAATAGATAATGCCTCCACTCG
520 TCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATC---AATAGATCATACCTCCACTTG
* *
42074770 CTAA-CCCCCTAAAAAGGGATTAGTTCCTCATGAAAGAATGAGGAATGAAGAAATAAAA-TCTGG
582 CTAATCCCCC-AAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAG-AATAAAATTCTGG
** * * *
42074833 GAAAAGTATT-TGCTGGAAACAACTTGGAAGACCATATTATTAAAGAAGTTCTAATAATCCATTA
645 GAAAAGTATTCT-CCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTA
* ** * * ** * * * *
42074897 GTAACAATGTGCACGCATTCCGTAGGGAAAAATGATGTTTTTATCACTAAGTTCTGATGAGATTA
709 GTAACAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTA
* * *
42074962 CATGAATTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCACCTCCGGACGTACTAACGT
774 CATGAGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGT
* ** ** *
42075027 TCTTAGTGTGAATACTATAATAAAATATAGAAATAGGAGGCA
839 CCAGAGTGTGAATACTATAATAAAATATAGAAATACAAGGGA
* * * *
42075069 GTAT-TTGCAAGTA-ACAGGTCAAGTTGTAATATAGTTTTTCAATGATATAGGTGAGTACTCCGA
1 -TATCCT-CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGA
* * * *
42075132 GTATCGTACCCAACAAAAGGCGAGTGCCAAATCAATTCTAACCTAAACACTAAAAGATCTTATTA
64 GGATCGTACCCAA-AGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTA
*
42075197 GTACTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTCTAGGGTTTTTATAATAATA
128 GTACTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATA
* * * * *
42075262 AAATAAAAAATTTAAAAGAAATAAACTTCAAGAGATAAAAAAGGAGAA-GAATCAAATCTTGATT
193 AAACAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATT
* * * * * ** *
42075326 ATTGGTGATTAGCTCGCTTTGGTAATCCCCATCAAGTATCATTTAATCTTCCTCGTCAAGCAACT
258 ATGGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACT
* * ** * * * *
42075391 AGTTACTACCATAGTAGGATCTTCCAAACTTCCACTAACATAATGAGTCAGCAAAGACTATTTAT
323 AGTTGCTACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTAT
** * * * ** *
42075456 CTTCTAACCTCACTGTCCAGAATGGCGTGGGGTGAAGGTGTTCATGGATAGGCCATACCAAATTT
388 CTTCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTT
* *
42075521 GGGTTAATTCCCACCTTGATGACTTCCTAGAGTTGTCAAACCTAGGTTTTGTTTCATG--C-T--
453 GGGTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCC
* * *
42075581 TTTCCCAAACAGCTGATCCATTGAGTAACCCTACAAAACAATCAATAGATCATACCTTCACTCGC
518 TTTCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGC
* * * * * *
42075646 CAATCCCCTAAAAAGGGATTAATTCCTCATGGAAGAATGAGGAATGAAAAATAAAATTTTGGGAA
583 TAATCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAA
* * * * *
42075711 AAGTATTCAT-TAGAAATAAGTTGGAAGAACATATTATTAAAGAAGTTCAAATGATTCTTTAGTA
648 AAGTATTC-TCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTA
* ** * *
42075775 ACAATGTGCAAGAATTGTAAAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTAGCTTACAT
712 ACAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACAT
* * * *** * *
42075840 GAGTTTATATTTTTGTTTCAAGTTGATTGTGAATATGTGACAATCTCTGTACATACTAACGTCCA
777 GAGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCA
* * *
42075905 AAGTGTGAATACTATAATCAAAGATAGAAATACAAGGCGA
842 GAGTGTGAATACTATAATAAAATATAGAAATACAAGG-GA
* * *
42075945 TATCCGT-AAGTATACAAGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAATACTCCAAG
1 TATCC-TCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAG
* * * * * * * *
42076009 GATTGTACCCAAGGGAGGCGGGAGCCAAATCAATTCTAACCTAAACACTAAAAGTTCTAATTAAT
65 GATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGT
* *
42076074 ACTTTAAATTGGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAGTAAA
130 ACTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAA
* * * *
42076139 ATAAAATATTAAAAAGGGATAAACTTCAAGAGATAAAAGAAAGAGAATGAATCAAATCTTGATTA
195 ACAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAA-AAGGAGAATGAATCAAATCTTGATTA
* * *
42076204 TGGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATTGTTTCAAGTTCCTTGTCAATCAACTA
259 TGGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTA
* *
42076269 GTTGCTACCCTAGTAGTATCTTTCT-ATCTTCCACTAACATAACGAGTCAGCATGGACTACTTAT
324 GTTGCTACCCTAGTAGGATC-TTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTAT
* * *
42076333 CTTCCGACCTCATAGTCCAGACTAGCTTGGGGTGAAGGTGTTCATAGATGGGCCATACCAAATTT
388 CTTCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTT
** * * *
42076398 GGGTTAATTCGAACTTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTT-TTTAATGTTCATCC
453 GGGTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCC
* * ** * ** * * * **
42076462 TTTCCTAAACAGTTGATCTATTAAGTAACCCTATGAAACAGTCAATAGATCAGACCTCCAATTAT
518 TTTCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGC
** * * * **
42076527 TAATCCTTCAAATAGGGATTAATTCCTTAT-GAAGAATGAGGAATGAAGAATAAAATGATGGGAA
583 TAATCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAA
* * * * * * *
42076591 AAGTATTCGCTAGAAAAAAGTTGGGAGACAAGATTATTAAAAAAGTTCTAATGATCCTTTAGTAA
648 AAGTATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAA
* ** * * * *
42076656 CAATGTGCAACCATTGTGCAGGTAAAAATGATGTTTTTATCACTAAGTTTTGATGAGCTTACATG
713 CAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATG
* * * * * * *
42076721 AGTTTATGTTTTTGTTTTAAGTTGATTATGAATACGTGACAGCCTCCGGACGTACTAATGTTC-G
778 AGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCAG
* * *
42076785 AAGTGCGAATACTGTAATAACATATAGAAATACAAGAAGG-
843 -AGTGTGAATACTATAATAAAATATAGAAATACAAG--GGA
* * * * *
42076825 TATCCAT-AAGCATACAGGTCGAGTTGTAATATACTTTTACAATAATATAGGTGAGTACTCTG-G
1 TATCC-TCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAG
* * * * * *
42076888 TTATCCTACCCAAA-AGAGGCAAGTGCTAGATCAATTCTAACCTTAACATTAAAAGATCTAATTA
65 -GATCGTACCCAAAGA-AGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTA
* *
42076952 GTACTTTAAATTAGTTAGAGTATGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATA
128 GTACTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATA
* *
42077017 AAACAAAATATTAAAAAAGAATAAACTTCAAGAGATAAAAAAGGAGAATGAATCAAATCTTGATT
193 AAACAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATT
** * * * *
42077082 ATAAGTGATTAGCTCGCCTT-GGTAATCCACATCAACTCTCGTTTTAGGTTCCTCGTCAATAAAC
258 ATGGGTGATTAGCTCG-CTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAAC
* * * * * *
42077146 TAGTTGCCACCCTAGTAGGATTTTAC-GATCTTCCACTAACATGACGTGTCAACAAAGACTACTT
322 TAGTTGCTACCCTAGTAGGATCTT-CTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTT
* ** * *
42077210 ATCTTCCGACCTCACAGTCTAGACTGGCTAAGGTTGAAGGTGTTCACGGATGGGCCATACCAAAT
386 ATCTTCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAAT
* * * * **
42077275 TTGGGTTAATTCCCACCATGATGACTTCCT-GGGATTGTCAAGCCTAAGCTTTATTTCATGCACG
451 TTGGGTTAATTCCCACCTTGATGACTTCCTAGGG-TTGTCAAGCCTAGGTTTTGTTTCATGTTCG
* *
42077339 TCCTTTCCCAAATAGCTGATCCCTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACT
515 TCCTTTCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACT
* * * *
42077404 TGCTAATCCCTCAAAGAGGGATTAGTTCCTCATGAAAGAATAAGGAATGAAGAATAAAATTCTGA
580 TGCTAATCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGG
* * * *
42077469 GAAAAGTATTCTCCAGAAACAAGTTGAAAGACTATATTATTAAAGAAGTTCAAATGATTCTTTAG
645 GAAAAGTATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAG
* * *
42077534 TAAC-A--TGCAAGCATTGTGTAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTAGCTTAC
710 TAACAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTAC
* * * * *
42077596 ATGATTTTATGATTTTGTTTTAGGTTGATTGTGAATATGTGACTGCCTCCGTACGTACTAATGTT
775 ATGAGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTC
* * *
42077661 CAGAGTGAGAATACTGTAATAAAATATAGAAATACAAGGTGT
840 CAGAGTGTGAATACTATAATAAAATATAGAAATACAAGG-GA
* * * * *
42077703 TATTCTCAAGTGTACATGTCAAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGATG
1 TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
* * * * *
42077768 ATTGTACCCTAAGAAGGCAAGTGCTAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGAA
66 ATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
* * *
42077833 CTTTGAATTAGTTATAGTACAAAAGCATAAAATAAA-GATTTTTAGGGTTTTTATAATTATAAAA
131 CTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAA
42077897 CAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATG
196 CAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATG
* * * * *
42077962 GGTGATTAACTTGCTTCGGTAATCCCCATCAACTGTCATTTCAGGTTCCTCGTTAATCAACTAGT
261 GGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGT
* * * *
42078027 TGCTACCCTAGTAGGAT-TTTTCGATCTTCCCCTAACATAATGAGTCAGCAAGGACTACTTATAT
326 TGCTACCCTAGTAGGATCTTCT-GATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCT
* *
42078091 TTCGACCTCACAGTCCAGACTAGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGG
390 TCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGG
* * * * ** *
42078156 GTTAATTCCTACCTTGCTGACTTCTTAGGTTTGTCTGGCCTAGGTTTTGTTTCATGCTCGTCCTT
455 GTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTT
* * * * * * * *
42078221 TCCCAAATAACTAATTCGTTGAGT-ACCTTGACAAAATAATTAATAGATCACACCTCCACTTGCT
520 TCCCAAACAGCTGATCCGTTGAGTAACCCT-ACAAAACAATCAATAGATCATACCTCCACTTGCT
*
42078285 AATCCCCCAAAGAGGGATTAGTTCGCT-ATGGAAGAATGAGGAATGAAGAATAAAATTCTAGGAA
584 AATCCCCCAAAGAGGGATTAGTTC-CTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAA
* *
42078349 AACTATTCGCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCC--T--T--
648 AAGTATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAA
* * * *
42078408 C-A-GT---ATCATTGTGCAAGTAAAAGGGATGCTTTTATCAATAAGTTTTGATGAGCTTACATG
713 CAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATG
* * * * *
42078468 AGTTTATGTTTTTGTTTTAGGTTTATTATGAATATGTGACCGTCTCCGTACGTACTAATGTCTAG
778 AGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCAG
* * * * * * *
42078533 AGTATAAATACTGTAGTAAAATATACAATTAGAAGAGGA
843 AGTGTGAATACTATAATAAAATATAGAAATACAAG-GGA
* * * * *
42078572 TATCCGCAAGTATACAGGTCGAGTTGTAATATAGGTTTACAACGATGTAGGTGAGTACTCTGAGT
1 TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
* * *
42078637 ATCGTACCCAAGGGAA-GTGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGACCTAATTAGT
66 ATCGTACCCAA-AGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGT
* * *
42078701 GCTTTAAATTAGTTATAGTATGAAAGCAT--AATATA--A-----AGGGTTTTTATAATAATAAA
130 ACTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAA
* * * * *
42078757 ACAAAGTATTAAAAAGGAATAAACTTTAAAAGATAGAAAAGAAGAATGAATCAAATCTTAATTAT
195 ACAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTAT
* * *
42078822 GGGTGATTAGCTCGCTTC-GTAATCCCCATCAACTTTCGTTTTAGGTTCCTCGTCAAACAACTAG
260 GGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAG
* * * * * **
42078886 TTGCTACCCTAGTAGGATCTTCCGATCTTCCATTAACATAACGATTTAACAAGGACTGTTTATCT
325 TTGCTACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCT
* * * * * * *
42078951 TCTGACCTCAGAGTCCAAACTGGTTTGGGGTAAAGGTGTTCACGGATGGGCCATACCAAATTTAG
390 TCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGG
* * * * * *
42079016 ATTAAATTCCCACCTT-ATTGACTTCTTGGGGTTTTCAAGCCTAGGTTTTGTTTCAT-TCACATC
455 GTT-AATTCCCACCTTGA-TGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGT-TCGTC
* * * * * * * * * *
42079079 CTTTCCTAAACAACTGATCCATTGTGTAACCCTACAAAATAGTTAATAGATTATACCTCCAGTCG
517 CTTTCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTG
* * * * ** *
42079144 CTAGTCCCCCAGACAAGGATTAGTTCCTCATTAAAGAATGAGGAATGAAGAATTAAATTCTGGGA
582 CTAATCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGA
* ** * *
42079209 AAAGTATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCAAACAATCCTTCAATA
647 AAAGTATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTA
* * * *
42079274 ACAATGTACAAGCATTGTGCAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTACCTTACAT
712 ACAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACAT
* * * * * *
42079339 GAGTATATGATTTT-TTTCAGGTTGATTGTGAATATGAGACCGCCTCCATACGTACTAACATCCA
777 GAGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCA
*
42079403 GAGTGTGAATACTATAAGAAAATATAGAAATACAAGGTGA
842 GAGTGTGAATACTATAATAAAATATAGAAATACAAGG-GA
* * * * * *
42079443 CATTCTCAAGTGTACAGGTCAAGTTGTAATATAGTTTTACAACGATGTAGGTGAGTACTCCGACG
1 TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
* * * * *
42079508 ATCGTACCCTAGGAAGGTGAGTGCCAGATAAATTCTAACCTAAAAACTAAAAGATCTAATTAGTA
66 ATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
*
42079573 CTTTGAATTAGTTATAGTACGAAAGCATAAAATAAA-GATTTTTAGGGTTTTTATAA-ATATAAA
131 CTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATA-ATAAA
*
42079636 ACAAAATATTAAAAAGGAATAAACTTTAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTAT
195 ACAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTAT
** * * * * * ** *
42079701 GGGTGATTAGCTTTCTTCAGTAGTCCACATCAACTGTCGTTTTAGGTTCCTTATCAGTCAACTAG
260 GGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAG
* * *
42079766 TTGCTATCCTAGTAGGATCTTCTGATCTTCCCCTAACATAACGAGTTAGCAAGGACTACTTATCT
325 TTGCTACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCT
* * *
42079831 TCCGACCTCACAGTCTAGACTGGCTTGAGGTGAAGGTGTTTACAGATGGGCCATACCAAATTTGG
390 TCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGG
* * * *
42079896 GTTAATTCCCACCTTGATGACTTCTTAGGGTTGTTAAGCCTAGGTTTTGTTCCATGTTCGTCCTA
455 GTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTT
** * * * * * *
42079961 TCCTGAATAACTAATCCGTTGAGT-ACGCCGT-CAAAATAGTTAATAGATCATACCTCCACTTGC
520 TCCCAAACAGCTGATCCGTTGAGTAAC-CC-TACAAAACAATCAATAGATCATACCTCCACTTGC
* * *
42080024 TAATCCCCCAAAGAGGGACTAGTTCCTTATGGAAGAATGAGGAATGAAGAATAAAATTTTGGGAA
583 TAATCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAA
* * * * * * *
42080089 AACTATT-TGCCATAAAGAAGTTGGAAGACCATATTATTAAAGATGTTCTAACGATCCTTCAATA
648 AAGTATTCT-CCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTA
* * *
42080153 TCAATTTGAAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACAT
712 ACAATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACAT
* * * * * *
42080218 GAGTTTATGTTTTTGTTTCAGGTTCATTGTGAATATGTGACCGTCTCCATATGTACTAAAGTCCA
777 GAGTTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCA
** * *
42080283 GAGTGTGAGCACTATAATAAAATATAGAAACACAAGGCGG
842 GAGTGTGAATACTATAATAAAATATAGAAATACAAGG-GA
* * * **
42080323 TATCCGCAAGTATAGAGGTCGAGTTGTAATATAGTTTTACAATGATATAGGTGAGTACTCTAAGG
1 TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
* *
42080388 ATCGTACCCAAGGGAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
66 ATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
* ** *
42080453 CTTTAAATTAGTTATAGTACGAAAGTATAAAATAAAATATTTTTAGGGTTTTTATAATAGTAAAA
131 CTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAA
* * * * *
42080518 CAAAATAATAAAAAGGAAAAAACTTCAAGAGATATAAAAGGAGAATGAATTAAATCATGATTATG
196 CAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATG
42080583 GGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGT
261 GGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGT
* * * * * * *
42080648 TGCTACCCTGGTAGGATCTTCCT-ATCTTCCTAGTAACATAATGAGTTAGTAAGGATTTCTTATC
326 TGCTACCCTAGTAGGATCTT-CTGATCTTCC-ACTAACATAACGAGTCAGCAAGGACTACTTATC
* * * * * *
42080712 TTTCAACCTCATAGTCCAGACTGGCTTGGGGTGAAGGTATTTACGGATGGGCCATACCAAATTTG
389 TTCCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTG
* ** * * * *
42080777 GGTAAATTCCCACCTTGATGACTTCCCGGGGTTGTCAAGCGTAGGGTTTGTTTTATGTTTGTCCT
454 GGTTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCT
* * * * *
42080842 TTCCCAAATAGCTGATCTGTTGAGTAACCCAACAAAACAGTCAATAGATCATACCTCCGCTTGCT
519 TTCCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCT
*
42080907 AATCCCCCATAGAGGGATTAGTTCCTCATGG
584 AATCCCCCAAAGAGGGATTAGTTCCTCATGG
42080938 TTTTCATAGA
Statistics
Matches: 5019, Mismatches: 761, Indels: 177
0.84 0.13 0.03
Matches are distributed among these distances:
860 152 0.03
861 299 0.06
862 4 0.00
865 1 0.00
866 1 0.00
867 6 0.00
868 1 0.00
869 269 0.05
870 9 0.00
871 210 0.04
872 61 0.01
873 6 0.00
874 8 0.00
875 404 0.08
876 83 0.02
877 687 0.14
878 336 0.07
879 607 0.12
880 895 0.18
881 326 0.06
882 281 0.06
883 231 0.05
884 142 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (880 bp):
TATCCTCAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGG
ATCGTACCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTA
CTTTAAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAA
CAAAATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATG
GGTGATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGT
TGCTACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTT
CCGACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGG
TTAATTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTT
CCCAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAA
TCCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAG
TATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAA
TGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGT
TTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAACGTCCAGAGT
GTGAATACTATAATAAAATATAGAAATACAAGGGA
Found at i:42081097 original size:35 final size:35
Alignment explanation
Indices: 42081051--42081119 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
42081041 TCCAAAAAGT
42081051 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
1 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
*
42081086 TTGAATGCTTTCTACAATTTAGATCTCTTGAGCA
1 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCA
42081120 CAACAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (35 bp):
TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
Found at i:42083820 original size:17 final size:18
Alignment explanation
Indices: 42083800--42083845 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
42083790 TTTTTATCAT
*
42083800 TTATCATTTTTTGGGCA-
1 TTATCATTTATTGGGCAC
* *
42083817 TTATAATTAATTGGGCAC
1 TTATCATTTATTGGGCAC
42083835 TT-TCATTTATT
1 TTATCATTTATT
42083846 AGGCTTTAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (18 bp):
TTATCATTTATTGGGCAC
Found at i:42087545 original size:43 final size:43
Alignment explanation
Indices: 42087497--42087585 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
42087487 GTAGCTATAA
42087497 GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
1 GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
42087540 GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
1 GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
42087583 GTA
1 GTA
42087586 ATTAGACCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (43 bp):
GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
Found at i:42088822 original size:24 final size:25
Alignment explanation
Indices: 42088785--42088831 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
42088775 CACTTAAATA
*
42088785 TCCTGTTATATAGCTATTCGGAGCT
1 TCCTGATATATAGCTATTCGGAGCT
*
42088810 TCCTGATA-ATAGCTTTTCGGAG
1 TCCTGATATATAGCTATTCGGAG
42088832 TACCTGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (25 bp):
TCCTGATATATAGCTATTCGGAGCT
Found at i:42093941 original size:46 final size:46
Alignment explanation
Indices: 42093884--42094204 Score: 187
Period size: 46 Copynumber: 6.9 Consensus size: 46
42093874 GTGTGGGTGA
*
42093884 TATGAGCGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT
*
42093930 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG---GCAT
1 TATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACAT
* * *
42093975 TGA-GACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCG-GCATCAG
1 T-ATGA-GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGACCA-CAT
* * * * * **
42094024 GACGTA-AGCCAGTGTAAGACATGTCTGGAACATGCATCAACTACGG
1 TATG-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT
* * * * * *
42094070 GAT--GTGTCAGTGTAATACCATGTCTGGGACATGGCGTC-AGCACGGA-
1 TATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCAC--AT
* * * * *
42094116 TATGTGTGCTAGGGTAAGACATGTCTGGGACATGCGTC-AGCCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CCACAT
* * * *
42094162 TGTGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 TATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
42094205 TTGATATGTG
Statistics
Matches: 217, Mismatches: 34, Indels: 46
0.73 0.11 0.15
Matches are distributed among these distances:
44 10 0.05
45 23 0.11
46 86 0.40
47 59 0.27
48 34 0.16
49 4 0.02
50 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT
Found at i:42094176 original size:138 final size:138
Alignment explanation
Indices: 42093891--42094238 Score: 373
Period size: 138 Copynumber: 2.5 Consensus size: 138
42093881 TGATATGAGC
* * *
42093891 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGA-TAT--GTGTCAGTGTAAGACCATGT
* ** * *
42093955 CTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA
63 CTGGGACATGGCATCAGCACGGAGACGAGTGCTAGGGTAAGACATGTCTGGGACATGCATCGCCA
*
42094020 TCAGGACGTAA
128 TCAGGACGAAA
* * ** *
42094031 GCCAGTGTAAGACATGTCTGGAACATGCATCAACTACGGGATGTGTCAGTGTAATACCATGTCTG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGATATGTGTCAGTGTAAGACCATGTCTG
* * * * *
42094096 GGACATGGCGTCAGCACGGATATGTGTGCTAGGGTAAGACATGTCTGGGACATGCGTCAGCCA-C
66 GGACATGGCATCAGCACGGAGACGAGTGCTAGGGTAAGACATGTCTGGGACATGCATC-GCCATC
* *
42094160 ATTG-TGAAA
130 A-GGACGAAA
* * * *
42094169 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACT-TGATATGTGTTAGTGTAAGACC-TGTC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACGATATGTGTCAGTGTAAGACCATGTC
42094232 TGGGACA
64 TGGGACA
42094239 CGGTATCGAC
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
138 96 0.55
139 33 0.19
140 44 0.25
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (138 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGATATGTGTCAGTGTAAGACCATGTCTG
GGACATGGCATCAGCACGGAGACGAGTGCTAGGGTAAGACATGTCTGGGACATGCATCGCCATCA
GGACGAAA
Found at i:42101900 original size:34 final size:34
Alignment explanation
Indices: 42101862--42101929 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
42101852 ATAAGTTTAA
42101862 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
1 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
42101896 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
1 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
42101930 TAAGCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (34 bp):
CATGGCATAATCCAACCACAACTTGGCCAAAGCC
Found at i:42105600 original size:40 final size:40
Alignment explanation
Indices: 42105526--42105667 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
42105516 AACCCAAGTA
* *
42105526 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42105565 CCTTCGGGTCTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
**
42105605 CCTTCGGGACTTAGCCCAAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42105645 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42105668 CATTCTAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 12 0.13
40 78 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42116281 original size:26 final size:27
Alignment explanation
Indices: 42116252--42116346 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
42116242 TTGGGTTTTT
42116252 TGTGT-TTCTGTGATTTTTAAAATTTG
1 TGTGTGTTCTGTGATTTTTAAAATTTG
* *
42116278 TGTGTGTTCTG-G-TTGGTTAAAATATATATT
1 TGTGTGTTCTGTGATT--TTTAAA-AT-T-TG
*
42116308 TCTGTGTTTCTGTGATTTTTAAAATTTG
1 TGTGTG-TTCTGTGATTTTTAAAATTTG
42116336 TGTGTGTTCTG
1 TGTGTGTTCTG
42116347 GTTGGTTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 6 0.11
27 15 0.28
28 8 0.15
29 2 0.04
30 8 0.15
31 10 0.19
32 1 0.02
33 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.22, T:0.55
Consensus pattern (27 bp):
TGTGTGTTCTGTGATTTTTAAAATTTG
Found at i:42116342 original size:58 final size:58
Alignment explanation
Indices: 42116252--42116364 Score: 226
Period size: 58 Copynumber: 1.9 Consensus size: 58
42116242 TTGGGTTTTT
42116252 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
1 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
42116310 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATAT
1 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATAT
42116365 ATTTTAGTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.53
Consensus pattern (58 bp):
TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
Found at i:42116355 original size:26 final size:26
Alignment explanation
Indices: 42116268--42116358 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
42116258 TCTGTGATTT
42116268 TTAAAATTTGTGTGTGTTCTGGTTGG
1 TTAAAATTTGTGTGTGTTCTGGTTGG
* * *
42116294 TTAAAATATATATTTCTGTGTTTCTGTGATT-T
1 TT-AAA-AT-T-TGTGTGTG-TTCTG-G-TTGG
42116326 TTAAAATTTGTGTGTGTTCTGGTTGG
1 TTAAAATTTGTGTGTGTTCTGGTTGG
42116352 TTAAAAT
1 TTAAAAT
42116359 ATATATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 10 0.20
27 8 0.16
28 8 0.16
29 2 0.04
30 8 0.16
31 8 0.16
32 3 0.06
33 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.52
Consensus pattern (26 bp):
TTAAAATTTGTGTGTGTTCTGGTTGG
Found at i:42117843 original size:27 final size:26
Alignment explanation
Indices: 42117791--42117850 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42117781 ACATATATAT
*
42117791 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
42117817 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
42117844 ATATCTG
1 ATATCTG
42117851 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:42120293 original size:47 final size:47
Alignment explanation
Indices: 42120169--42120295 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
42120159 ATTGATAAGG
* * * * *
42120169 ACCTACACCATGGCTCATAGCCAAATCAAGCTAACTTATCCCGGAGT
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
* * * * * *
42120216 ATCTATACCATGGCTTGTAACCAAATCAAGGTAACTCCTCTCTGAAT
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
*
42120263 ACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTA
42120296 TTATTCACAC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (47 bp):
ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
Found at i:42123521 original size:23 final size:24
Alignment explanation
Indices: 42123493--42123539 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
42123483 TTTCATCTTG
* * *
42123493 TGAATATATCAAAATATC-ATCTA
1 TGAATAAAACAAAAAATCGATCTA
42123516 TGAATAAAACAAAAAATCGATCTA
1 TGAATAAAACAAAAAATCGATCTA
42123540 GATATGGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (24 bp):
TGAATAAAACAAAAAATCGATCTA
Found at i:42123665 original size:11 final size:11
Alignment explanation
Indices: 42123649--42123674 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42123639 AAATTCAAGG
42123649 TTTTAAAATTA
1 TTTTAAAATTA
42123660 TTTTAAAATTA
1 TTTTAAAATTA
42123671 TTTT
1 TTTT
42123675 TAGTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:42125111 original size:48 final size:48
Alignment explanation
Indices: 42125001--42125214 Score: 279
Period size: 48 Copynumber: 4.5 Consensus size: 48
42124991 GACATTGCTG
* * * *
42125001 TTATGTGAGCCACTGTAAGTCCATGTCTAGGACA-GGCATCAGTATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* *
42125048 TTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
*
42125096 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* * ** *
42125144 TTATGAGAGCCAGTGTAAGA-TATGTCTGGGACATGGCATTGGTATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* * *
42125191 TTATGAGAGCCAATGTCAGACCAT
1 TTATGTGAGCCAGTGTAAGACCAT
42125215 ATCTATGATA
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
47 72 0.48
48 77 0.52
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (48 bp):
TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
Found at i:42125169 original size:95 final size:96
Alignment explanation
Indices: 42124999--42125232 Score: 292
Period size: 95 Copynumber: 2.5 Consensus size: 96
42124989 AAGACATTGC
* * * * * *
42124999 TGTTATGTGAGCCACTGTAAGTCCATGTCTAGGACA-GGCATCAGTATTATTATGTGAGCTAGTG
1 TGTTATGTGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCATTATTATGAGAGCCAGTG
42125063 TAAGACCATGTCTGGGACATGGCATCAGCAT
66 TAAGACCATGTCTGGGACATGGCATCAGCAT
* *
42125094 TGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGAGAGCCAGTG
1 TGTTATGTGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCATTATTATGAGAGCCAGTG
* ** *
42125159 TAAGA-TATGTCTGGGACATGGCATTGGTAT
66 TAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * * *
42125189 TATTATGAGAGCCAATGTCAGACCATATCTATGATATGGCATCG
1 TGTTATGTGAGCCAATGTAAGACCATGTCTAGGACATGGCATCG
42125233 ACGTCGATAT
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
95 90 0.76
96 29 0.24
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (96 bp):
TGTTATGTGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCATTATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCAGCAT
Found at i:42141147 original size:40 final size:39
Alignment explanation
Indices: 42141103--42141286 Score: 228
Period size: 39 Copynumber: 4.6 Consensus size: 39
42141093 AGTGACCATA
*
42141103 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAT
*
42141143 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
* *
42141182 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGATACTAAT
* * *
42141221 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT
* *
42141260 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
42141287 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 72 0.56
40 55 0.43
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42141164 original size:39 final size:40
Alignment explanation
Indices: 42141063--42141286 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
42141053 TTGAATGATG
* * *
42141063 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
42141102 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42141143 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
42141182 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
42141221 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
42141260 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42141287 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 73 0.45
40 75 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42141246 original size:79 final size:78
Alignment explanation
Indices: 42141063--42141286 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
42141053 TTGAATGATG
* * * * *
42141063 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGCT-CGAAGGCAT
*
42141126 TTGTGCGAGATACTAAT
62 TTGTGCGAGATACTAAA
42141143 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGCTCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGCTCGAAGGCATTTG
*
42141207 TGCGAGTTACTAAA
65 TGCGAGATACTAAA
* * * * * *
42141221 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAG-CTCGAAGGCATTT
42141286 G
64 G
42141287 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 34 0.27
79 56 0.45
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGCTCGAAGGCATTTGT
GCGAGATACTAAA
Found at i:42141308 original size:79 final size:79
Alignment explanation
Indices: 42141116--42141319 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
42141106 GGACTAAGAT
** * *
42141116 CCGAAGGCATTTGTGCGAGAT-ACTAATTC-CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCTC-GGTTAAGTCCCGAAGGCATTTGTGCGAGATAC
*
42141178 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
* ** * * *
42141194 TCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCTCGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
42141258 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
42141274 CCGAAGGCATTTGAACGAG-GAGCTATATC-CGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCTCGGTTAAGTCCCGAAGG
42141320 TACGTGATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 33 0.31
79 48 0.46
80 23 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCTCGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:42144657 original size:30 final size:30
Alignment explanation
Indices: 42144623--42144679 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
42144613 ATGAATTGGA
42144623 AGCTTTGGCACTAAGTCCGCGATTTAAACT
1 AGCTTTGGCACTAAGTCCGCGATTTAAACT
**
42144653 AGCTTTGGCACTAAGTGTGCGATTTAA
1 AGCTTTGGCACTAAGTCCGCGATTTAA
42144680 TTAGCTTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTCCGCGATTTAAACT
Found at i:42147033 original size:47 final size:47
Alignment explanation
Indices: 42146931--42147036 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 47
42146921 AATCGATAAG
* * * * *
42146931 TACCTACACCATGGCCCGTAGCCAAATCAAGGTAACTTATTCCAGAG
1 TACCTATACCATAGCCCGTAACCAAATCAAGGTAACTCATTCCAGAA
* * * *
42146978 TACTTATACCATAGCCCTTAACCAAATCAAGGTAACTC-CTCTCTGAA
1 TACCTATACCATAGCCCGTAACCAAATCAAGGTAACTCATTC-CAGAA
42147025 TACCTATACCAT
1 TACCTATACCAT
42147037 GTTCTGTAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 2 0.04
47 46 0.96
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.25
Consensus pattern (47 bp):
TACCTATACCATAGCCCGTAACCAAATCAAGGTAACTCATTCCAGAA
Found at i:42150814 original size:15 final size:15
Alignment explanation
Indices: 42150790--42150819 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42150780 TAATGTATTT
42150790 TTTTGGGGTTTCGGC
1 TTTTGGGGTTTCGGC
*
42150805 TTTTGTGGTTTCGGC
1 TTTTGGGGTTTCGGC
42150820 ATATGTGTTG
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:0.00, C:0.13, G:0.37, T:0.50
Consensus pattern (15 bp):
TTTTGGGGTTTCGGC
Found at i:42167589 original size:25 final size:25
Alignment explanation
Indices: 42167552--42167622 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
42167542 GGGTGTTACA
* * *
42167552 AGCTTACTATTACATGGCTCACATG
1 AGCTCACTGTTACATGGATCACATG
*
42167577 AGCTCACTGTTACATGGATCACATT
1 AGCTCACTGTTACATGGATCACATG
*
42167602 AGCTTC-CTGTTATATGGATCA
1 AGC-TCACTGTTACATGGATCA
42167623 AGAGTGTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
AGCTCACTGTTACATGGATCACATG
Found at i:42198874 original size:45 final size:45
Alignment explanation
Indices: 42198825--42198915 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
42198815 CCAAAACATG
42198825 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
*
42198870 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
42198915 T
1 T
42198916 CACATAATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
Found at i:42198913 original size:21 final size:21
Alignment explanation
Indices: 42198846--42198919 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
42198836 TCATGAACTA
42198846 AGACCACAACTCAATGAGTTC
1 AGACCACAACTCAATGAGTTC
* * **
42198867 AGATGTCACATATATC-ATGAACTC
1 AGA--CCACA-A-CTCAATGAGTTC
42198891 AGACCACAACTCAATGAGTTC
1 AGACCACAACTCAATGAGTTC
*
42198912 AGATCACA
1 AGACCACA
42198920 TAATTCCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
20 2 0.05
21 17 0.44
22 4 0.10
23 4 0.10
24 10 0.26
25 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
AGACCACAACTCAATGAGTTC
Found at i:42224682 original size:29 final size:29
Alignment explanation
Indices: 42224619--42224686 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
42224609 TAATCAACCA
42224619 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
42224648 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
42224677 CGCACACTTA
1 CGCACACTTA
42224687 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Done.