Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 19 of 47
Found at i:2809564 original size:41 final size:41
Alignment explanation
Indices: 2809513--2809606 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2809503 ACAATTCAAA
*
2809513 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2809554 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2809595 GTATCGATACAT
1 GTATCGATACAT
2809607 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2809663 original size:13 final size:13
Alignment explanation
Indices: 2809645--2809670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2809635 TACAGCAAGT
2809645 ATGTATCGATACA
1 ATGTATCGATACA
2809658 ATGTATCGATACA
1 ATGTATCGATACA
2809671 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2810733 original size:76 final size:76
Alignment explanation
Indices: 2810643--2810795 Score: 261
Period size: 76 Copynumber: 2.0 Consensus size: 76
2810633 TGACAAGGCA
* *
2810643 ATAGAAGCATATGATATTTTATACAAATGAATTACCTGGGTCAAATAAGGAAAAAGAAAGAAAAA
1 ATAGAAGCATATGATATTTTATACAAATGAATTACCTAGGTCAAACAAGGAAAAAGAAAGAAAAA
2810708 GTAATAATCGT
66 GTAATAATCGT
* *
2810719 ATAGAATCATATGATATTTTATACAAATGAATTACCTAGGTCAAACAAGGAAGAAGAAAGAAAAA
1 ATAGAAGCATATGATATTTTATACAAATGAATTACCTAGGTCAAACAAGGAAAAAGAAAGAAAAA
*
2810784 GTAATGATCGT
66 GTAATAATCGT
2810795 A
1 A
2810796 ATGTATCTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (76 bp):
ATAGAAGCATATGATATTTTATACAAATGAATTACCTAGGTCAAACAAGGAAAAAGAAAGAAAAA
GTAATAATCGT
Found at i:2813875 original size:60 final size:61
Alignment explanation
Indices: 2813722--2813981 Score: 356
Period size: 60 Copynumber: 4.3 Consensus size: 61
2813712 TAGCCCTTCC
* * * **
2813722 AGTCCTCAAAAAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAGTTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--TCCTTT
*
2813785 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTT
* **
2813845 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTT
2813906 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA-CCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTT-T
2813961 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
2813982 TCTCTCCTTT
Statistics
Matches: 182, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
54 2 0.01
55 44 0.24
59 1 0.01
60 59 0.32
61 25 0.14
63 51 0.28
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTT
Found at i:2814064 original size:94 final size:94
Alignment explanation
Indices: 2813903--2814075 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 94
2813893 GGTGGCATTT
* * * *
2813903 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC
1 TTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTAGGTGGCACCTTCTAATCCTC
2813968 AAAGAGCAGGACGCTCTCTCCTTTCACAC
66 AAAGAGCAGGACGCTCTCTCCTTTCACAC
2813997 TTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTAGGTGGCACCTT-TCAATCCT
1 TTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTAGGTGGCACCTTCT-AATCCT
2814061 CAAAGAGCAGGACGC
65 CAAAGAGCAGGACGC
2814076 CTTTTAAAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 1 0.01
94 73 0.99
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (94 bp):
TTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTAGGTGGCACCTTCTAATCCTC
AAAGAGCAGGACGCTCTCTCCTTTCACAC
Found at i:2814070 original size:55 final size:55
Alignment explanation
Indices: 2813996--2814413 Score: 572
Period size: 55 Copynumber: 7.5 Consensus size: 55
2813986 TCCTTTCACA
* * *
2813996 CTTT-AGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTAGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
2814050 CTTTCAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
2814105 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-
1 -CTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCAC
* * *
2814167 TTTTCCAGTCCTCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
2814223 CTTTCAGTCCTCAAAAAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
2814278 CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
2814333 CTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
2814387 CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CTTTC-AGTCCTCAAAGAGCAGGACGC
2814414 TCTCTCCTTT
Statistics
Matches: 326, Mismatches: 26, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
54 8 0.02
55 236 0.72
56 7 0.02
57 21 0.06
58 3 0.01
59 1 0.00
60 3 0.01
61 24 0.07
62 1 0.00
63 22 0.07
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (55 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:2814443 original size:377 final size:368
Alignment explanation
Indices: 2813716--2814682 Score: 1035
Period size: 377 Copynumber: 2.5 Consensus size: 368
2813706 CTCTTTTAGC
* * * *
2813716 CCTTCCAGTCCTCAAAAAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAGTTT
1 CCTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--CT
*
2813781 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-
63 TTTCAGTCCTCAAAGAGCAGGA-GCCTTTTCC----AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2813845 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCATTTTTTAGTC
123 AGTCCTCAAAGAGCAGGA--CC--TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTC
2813910 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
184 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
* *
2813975 AGGACGCTCTCTCCTTTCACACTTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAG
249 AGGACGCTCCCACCTTTCACACTTTAGTCCTCAAAAAGCAGGACACC-TT---A-CCCACAC-A-
*
2814040 TAGGTGGCACCTTTCAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
307 TA-GTGG-ACCTTTCAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCA
* *
2814104 CTTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-T
1 C--CTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
2814168 TTTCCAGTCCTCAAAGAGCAGGA-CACTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
63 TTT-CAGTCCTCAAAGAGCAGGAGC-CTTTTCCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2814231 CCTCAAAAAGCAGGA-C-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
126 CCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAG
*
2814294 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGATG
191 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACG
** * * * *
2814358 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC-GC-T-CTCTC
255 -C---T----CCCAC-C---TT--TCACACTT--TAGTCCTCAAAAAGCAGGACACCTTACCCAC
* * *** * *
2814420 -C-T-TTTG-CCTTTTTGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCA
304 ACATAGTGGACCTTTCAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCA
*
2814481 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
* * *
2814546 CAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTGCAGT
66 CAGTCCTCAAAGAGCAGGA-GC---C-TTTTCCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * **
2814611 CCTCAAAGGGCAGGATGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTC
126 CCTCAAAGAGCAGGA--CC-TTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
*
2814676 AGAGAGC
187 AAAGAGC
2814683 TAGACGTATT
Statistics
Matches: 503, Mismatches: 40, Indels: 74
0.82 0.06 0.12
Matches are distributed among these distances:
374 72 0.14
375 7 0.01
376 2 0.00
377 155 0.31
378 2 0.00
379 6 0.01
380 45 0.09
381 2 0.00
382 28 0.06
383 18 0.04
384 1 0.00
385 12 0.02
386 42 0.08
387 9 0.02
388 19 0.04
389 3 0.01
390 54 0.11
391 6 0.01
392 1 0.00
393 19 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (368 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
CAGTCCTCAAAGAGCAGGAGCCTTTTCCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
GACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCCCA
CCTTTCACACTTTAGTCCTCAAAAAGCAGGACACCTTACCCACACATAGTGGACCTTTCAATCCT
CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCA
Found at i:2814583 original size:61 final size:60
Alignment explanation
Indices: 2814454--2814682 Score: 291
Period size: 61 Copynumber: 3.8 Consensus size: 60
2814444 GCAGGATGCC
* * *
2814454 TTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTTAAAGCCCACACAAGCTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTT-TCT
*
2814514 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 TTTTAAAGCCCACACAAGCTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCT
* * *
2814573 TTTTGCAAAGCCCACACAAGCTGGTGGCACCTTGCAGTCCTCAAAGGGCAGGATGCCTTTTCT
1 TTTT--AAAGCCCACACAAGCTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCC-TTTCT
* ** * * *
2814636 TTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAGAGAGC
1 TTTTAAAGCCCACACAAGCTGGTGGCACTTTTCAGTCCTCAAAGAGC
2814683 TAGACGTATT
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
59 6 0.04
60 30 0.20
61 102 0.69
62 1 0.01
63 8 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (60 bp):
TTTTAAAGCCCACACAAGCTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCT
Found at i:2814656 original size:122 final size:115
Alignment explanation
Indices: 2814437--2814682 Score: 350
Period size: 122 Copynumber: 2.1 Consensus size: 115
2814427 CTTTTTGTCT
2814437 TCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAG
1 TCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAG
2814502 GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
66 GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
2814552 TCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTGCAGTCCTCAA
1 TCAAAGAGCAGGATGC---C-TTTT--AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAA
* * * ** *
2814617 AGGGCAGGATGCCTT-TTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCC
59 AGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
*
2814674 TCAGAGAGC
1 TCAAAGAGC
2814683 TAGACGTATT
Statistics
Matches: 116, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
115 16 0.14
118 1 0.01
119 4 0.03
121 33 0.28
122 62 0.53
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (115 bp):
TCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAG
GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
Found at i:2815557 original size:13 final size:13
Alignment explanation
Indices: 2815539--2815564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2815529 CATTATTCAA
2815539 TGTATCGATACAT
1 TGTATCGATACAT
2815552 TGTATCGATACAT
1 TGTATCGATACAT
2815565 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2815576 original size:20 final size:20
Alignment explanation
Indices: 2815551--2815594 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
2815541 TATCGATACA
2815551 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
*
2815571 TTGTATCGATACATGGATCT
1 TTGTATCGATACATCGATCT
2815591 TTGT
1 TTGT
2815595 TTACCCAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATCGATCT
Found at i:2818373 original size:79 final size:78
Alignment explanation
Indices: 2818215--2818440 Score: 244
Period size: 79 Copynumber: 2.9 Consensus size: 78
2818205 TTTTCATCTC
* * * * * *
2818215 GGGGATACTTCAATCCCGGTTTCATTTCCAAAACATCAATTTT-TC-ATCGGGGATACTCTAACC
1 GGGGATACTTCAATCCCAGTTTTATTTCTAAAATATCAATTTTCACAATCGGGGATACTCCAACC
* *
2818278 TCGTTATTTCCGA
66 CCGTTATTTCCAA
* *
2818291 GGGGATACTCCAATCCCAGTTTTATTTCTAAAATACCAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTTCAATCCCAGTTTTATTTCTAAAATATCAATTTT-CACAATCGGGGATACTCCAAC
2818356 CCCGTTATTTCCAA
65 CCCGTTATTTCCAA
* ** * * *
2818370 GGGGATACTTCAA-CCCCGACCTTATTT-TTAAATCATCGATTTTTCATAATCGGGGATACTCCA
1 GGGGATACTTCAATCCCAG-TTTTATTTCTAAAAT-ATC-AATTTTCACAATCGGGGATACTCCA
2818433 ACCCCGTT
63 ACCCCGTT
2818441 TTCATTTTCA
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
76 37 0.29
78 10 0.08
79 74 0.59
80 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGGATACTTCAATCCCAGTTTTATTTCTAAAATATCAATTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCCAA
Found at i:2818448 original size:51 final size:50
Alignment explanation
Indices: 2818370--2818486 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 50
2818360 TTATTTCCAA
* *
2818370 GGGGATACTTCAACCCCGACCTTATTTT-TAAAT-CATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGACCTTATTTTCAAAATAC-T-GATTTTT-ATAATC
** *
2818421 GGGGATACTCCAACCCCG-TTTTCATTTTCAAAATACTGATTTTTATAATT
1 GGGGATACTCCAACCCCGACCTT-ATTTTCAAAATACTGATTTTTATAATC
*
2818471 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
2818487 TGTTATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
50 22 0.39
51 29 0.51
52 5 0.09
53 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGACCTTATTTTCAAAATACTGATTTTTATAATC
Found at i:2818492 original size:129 final size:130
Alignment explanation
Indices: 2818291--2818585 Score: 330
Period size: 130 Copynumber: 2.3 Consensus size: 130
2818281 TTATTTCCGA
* *
2818291 GGGGATACTCCAATCCCAGTTTTATTTCTAAAATACCAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCCGTTTTATTTCTAAAATACCAATTTTCCACAATCAGGGATACTCCAAC
* * *
2818356 CCCGTTATTTCCAAGGGGATACTTCAACCCCGA-CCTTATTT-TTAAATCA-TCGATTTTTCATA
65 CCCGTTATTTCCAAGGGGATACTCCAACCCCGATCCTTATTTCTGAAA-CACT-GATTTTCCATA
2818418 ATC
128 ATC
** * * *
2818421 GGGGATACTCCAACCCCGTTTTCATTT-TCAAAATACTGATTTT-TATAATTAGGGATACTCCAA
1 GGGGATACTCCAACCCCGTTTT-ATTTCT-AAAATACCAATTTTCCACAATCAGGGATACTCCAA
* * ** *
2818484 CCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTTATTTCTGGAACACTGATTTTCCATAA
64 CCCCGTTATTTCCAAGGGGATACTCCAACCCCGATCCTTATTTCTGAAACACTGATTTTCCATAA
2818549 TC
129 TC
* * * *
2818551 GGGGATACTCTAGCCCCGTTGTTATCTCCAAAATA
1 GGGGATACTCCAACCCCGTT-TTATTTCTAAAATA
2818586 TTAAATTTTC
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
129 56 0.40
130 77 0.55
131 6 0.04
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGTTTTATTTCTAAAATACCAATTTTCCACAATCAGGGATACTCCAACC
CCGTTATTTCCAAGGGGATACTCCAACCCCGATCCTTATTTCTGAAACACTGATTTTCCATAATC
Found at i:2819804 original size:13 final size:13
Alignment explanation
Indices: 2819786--2819811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2819776 TACAGCAAGT
2819786 ATGTATCGATACA
1 ATGTATCGATACA
2819799 ATGTATCGATACA
1 ATGTATCGATACA
2819812 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2822520 original size:21 final size:21
Alignment explanation
Indices: 2822487--2822531 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2822477 TTGCAAGTTG
*
2822487 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2822509 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2822529 AAA
1 AAA
2822532 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2824354 original size:15 final size:15
Alignment explanation
Indices: 2824334--2824364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2824324 TAAAAATGTC
*
2824334 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2824349 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2824364 C
1 C
2824365 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2826457 original size:20 final size:20
Alignment explanation
Indices: 2826378--2826457 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2826368 AATGTCCAAA
*
2826378 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
2826398 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
2826423 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
2826443 TTGTATCGATACATT
1 ATGTATCGATACATT
2826458 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:2826461 original size:13 final size:13
Alignment explanation
Indices: 2826443--2826481 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2826433 ACATTTTTCT
2826443 TTGTATCGATACA
1 TTGTATCGATACA
2826456 TTGTATCGATACA
1 TTGTATCGATACA
*
2826469 ATGTATCGATACA
1 TTGTATCGATACA
2826482 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2826626 original size:21 final size:20
Alignment explanation
Indices: 2826602--2826648 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
2826592 AAATCTTTTG
*
2826602 CAAAATACTT-GTTCTTTACTT
1 CAAAATACTTCGTT-TTT-CAT
*
2826623 CAAATTACTTCGTTTTTCAT
1 CAAAATACTTCGTTTTTCAT
2826643 CAAAAT
1 CAAAAT
2826649 CAGCATCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 12 0.55
22 3 0.14
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTCGTTTTTCAT
Found at i:2830954 original size:19 final size:20
Alignment explanation
Indices: 2830930--2830982 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
2830920 AGCGATACAT
2830930 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
2830949 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
2830970 TGTATCGATACAA
1 TGTATCGATACAA
2830983 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:2832071 original size:127 final size:128
Alignment explanation
Indices: 2831880--2832403 Score: 527
Period size: 127 Copynumber: 4.2 Consensus size: 128
2831870 TTAAAAAGGC
* * * *
2831880 ACAAGTTTAACTCTTAACCTATTCAGAAAGACACAAGTTTGG---TTGACTTGTTTA-AAACAAT
1 ACAAGTTTAACTCCTAACCTATTTAGAAAGATACAAGTTTGGCTTTTGACTTGTTTAGAAA-GAT
* * * * * *
2831941 ACAAGTTAGGCTTTTGACCTATTTAGAAATACACAGGTTCAAATTTTGACTTGTTTGGAAAAAG
65 ACAAGTTTGACTTTTAACCTATTCAAAAAGACACAGGTTCAAATTTTGACTTGTTTGGAAAAAG
* * * *
2832005 ACAAGTTTAATTCCTAACCTATTTAGAAA-ATACAAGTTTAGCTTTTGACTTGTTTAGAGATATA
1 ACAAGTTTAACTCCTAACCTATTTAGAAAGATACAAGTTTGGCTTTTGACTTGTTTAGAAAGATA
* * * * **
2832069 CAAGTTTGACTTTTAACCTATTCAAAAAGATAAAGTTTTAAATTTTGACTTG-TTCAAAAAGAG
66 CAAGTTTGACTTTTAACCTATTCAAAAAGACACAGGTTCAAATTTTGACTTGTTTGGAAAA-AG
* * *
2832132 ACAA-TTTGACTCCTAACCTATTTAGAAAGATATAGGTTTGGCTTTTGACTTGTTTAGAAAGATA
1 ACAAGTTTAACTCCTAACCTATTTAGAAAGATACAAGTTTGGCTTTTGACTTGTTTAGAAAGATA
* * * * * * * ** *
2832196 CAAGTTTGACTTTTGAGCTAGTT-AAAAAGATAGAGATTCAAATTTTGATTTGTTTAGAATGAT
66 CAAGTTTGACTTTTAACCTA-TTCAAAAAGACACAGGTTCAAATTTTGACTTGTTTGGAAAAAG
* * * * * *
2832259 ACAAG-TTGACTCTTAACCTATTTAAAAAGATATAGGTTTGGCCTTTGACTTGTTTAGAAAGATA
1 ACAAGTTTAACTCCTAACCTATTTAGAAAGATACAAGTTTGGCTTTTGACTTGTTTAGAAAGATA
** * *
2832323 TGAG-TTGACTTTTAACCTATTCAAAAAGACACAAGTTAAAATTTTGACTTGTTTGG---AA-
66 CAAGTTTGACTTTTAACCTATTCAAAAAGACACAGGTTCAAATTTTGACTTGTTTGGAAAAAG
*
2832381 ACAAGTTTAACTTCTAACCTATT
1 ACAAGTTTAACTCCTAACCTATT
2832404 CAAAGATATA
Statistics
Matches: 333, Mismatches: 55, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
122 5 0.02
123 15 0.05
124 10 0.03
125 28 0.08
126 68 0.20
127 199 0.60
128 8 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (128 bp):
ACAAGTTTAACTCCTAACCTATTTAGAAAGATACAAGTTTGGCTTTTGACTTGTTTAGAAAGATA
CAAGTTTGACTTTTAACCTATTCAAAAAGACACAGGTTCAAATTTTGACTTGTTTGGAAAAAG
Found at i:2832074 original size:63 final size:64
Alignment explanation
Indices: 2831957--2832403 Score: 245
Period size: 63 Copynumber: 7.1 Consensus size: 64
2831947 TAGGCTTTTG
* * * * * *
2831957 ACCTATTTAGAAATACACAGGTTCAAATTTTGACTTGTTTGGAAAAAGACAAGTTTAATTCCTA
1 ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAATTCCTA
** * * * * *
2832021 ACCTATTTAGAAA-ATACAAGTTTAGCTTTTGACTTGTTTAGAGATATACAAGTTTGACTT-TTA
1 ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTT-AATTCCTA
* * * * * *
2832084 ACCTATTCAAAAAGATA-AAGTTTTAAATTTTGACTTGTTCAAAAAGAGACAA-TTTGACTCCTA
1 ACCTATTTAGAAAGATACAAG-TTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAATTCCTA
* * *** * * * *
2832147 ACCTATTTAGAAAGATATAGGTTTGGCTTTTGACTTGTTTAGAAAGATACAAGTTTGACTT-TTG
1 ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTT-AATTCCTA
* * * * * * * * * * *
2832211 AGCTAGTTAAAAAGATA-GAGATTCAAATTTTGATTTGTTTAGAATGATACAAG-TTGACTCTTA
1 ACCTATTTAGAAAGATACAAG-TTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAATTCCTA
* * * **** * ** * * *
2832274 ACCTATTTAAAAAGATATAGGTTTGGCCTTTGACTTGTTTAGAAAGATATGAGTTGACTT-TTA
1 ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAATTCCTA
* * * * *
2832337 ACCTATTCAAAAAGACACAAGTTAAAATTTTGACTTGTTT-G---GAAACAAGTTTAACTT-CTA
1 ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAA-TTCCTA
2832397 ACCTATT
1 ACCTATT
2832404 CAAAGATATA
Statistics
Matches: 286, Mismatches: 85, Indels: 28
0.72 0.21 0.07
Matches are distributed among these distances:
59 8 0.03
60 11 0.04
62 3 0.01
63 171 0.60
64 92 0.32
65 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (64 bp):
ACCTATTTAGAAAGATACAAGTTTAAATTTTGACTTGTTTAGAAAGAGACAAGTTTAATTCCTA
Found at i:2832082 original size:32 final size:32
Alignment explanation
Indices: 2831922--2832381 Score: 184
Period size: 32 Copynumber: 14.5 Consensus size: 32
2831912 ACAAGTTTGG
* * *
2831922 TTGACTTGTTTA-AAACAATACAAGTTAGGCTT
1 TTGACTTGTTTAGAAA-GATACAAGTTTGACTT
* * * * * ** *
2831954 TTGACCTATTTAGAAATACACAGGTTCAAATT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * *
2831986 TTGACTTGTTTGGAAAAAGACAAGTTT-AATT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * *
2832017 CCTAACCTATTTAGAAA-ATACAAGTTT-AGCTT
1 -TTGACTTGTTTAGAAAGATACAAGTTTGA-CTT
* *
2832049 TTGACTTGTTTAGAGATATACAAGTTTGACTT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * * * * *
2832081 TTAACCTATTCAAAAAGATA-AAGTTTTAAATT
1 TTGACTTGTTTAGAAAGATACAAG-TTTGACTT
* * * *
2832113 TTGACTTGTTCAAAAAGAGACAA-TTTGACTC
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * * * * *
2832144 CTAACCTATTTAGAAAGATATAGGTTTGGCTT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
2832176 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * ** *
2832208 TTGAGCTAG-TTAAAAAGATA-GAGATTCAAATT
1 TTGA-CTTGTTTAGAAAGATACAAG-TTTGACTT
* * *
2832240 TTGATTTGTTTAGAATGATACAAG-TTGACTC
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * * * * * *
2832271 TTAACCTATTTAAAAAGATATAGGTTTGGCCT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
**
2832303 TTGACTTGTTTAGAAAGATATGAG-TTGACTT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
* * * * * * ** *
2832334 TTAACCTATTCAAAAAGACACAAGTTAAAATT
1 TTGACTTGTTTAGAAAGATACAAGTTTGACTT
*
2832366 TTGACTTGTTTGGAAA
1 TTGACTTGTTTAGAAA
2832382 CAAGTTTAAC
Statistics
Matches: 301, Mismatches: 113, Indels: 28
0.68 0.26 0.06
Matches are distributed among these distances:
31 91 0.30
32 199 0.66
33 11 0.04
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TTGACTTGTTTAGAAAGATACAAGTTTGACTT
Found at i:2844666 original size:20 final size:20
Alignment explanation
Indices: 2844641--2844694 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2844631 AAAAGACAGA
*
2844641 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCAAAC
* *
2844661 ATGTATCGATACATTGAAAG
1 ATGTATCGATACATTCAAAC
2844681 ATGTATCGATACAT
1 ATGTATCGATACAT
2844695 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTCAAAC
Found at i:2844734 original size:20 final size:20
Alignment explanation
Indices: 2844709--2844746 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2844699 GTAAAAAGAC
2844709 AGAATGCATCGATACATTGA
1 AGAATGCATCGATACATTGA
*
2844729 AGAATGTATCGATACATT
1 AGAATGCATCGATACATT
2844747 CATACCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATGCATCGATACATTGA
Found at i:2844765 original size:71 final size:73
Alignment explanation
Indices: 2844588--2844746 Score: 234
Period size: 71 Copynumber: 2.2 Consensus size: 73
2844578 TTTTAACTAG
*
2844588 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGGAAAAAAAGACAGAATGTATCGATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGGAAAAAAAGACAGAATGCATCGATAC
*
2844653 ATTCATAC
66 ATTCATAA
* * *
2844661 ATGTATCGATACATTGAAAGATGTATCGATACATCT-GGG-TAAAAAGACAGAATGCATCGATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGGAAAAAAAGACAGAATGCATCGATAC
*
2844724 ATTGA-AGA
66 ATTCATA-A
2844732 ATGTATCGATACATT
1 ATGTATCGATACATT
2844747 CATACCTGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.01
71 41 0.52
72 3 0.04
73 34 0.43
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (73 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATATGGGGAAAAAAAGACAGAATGCATCGATAC
ATTCATAA
Found at i:2844776 original size:20 final size:20
Alignment explanation
Indices: 2844720--2844778 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
2844710 GAATGCATCG
* *
2844720 ATACATTGAAGAATGTATCG
1 ATACATTGAAAAATGTATCA
* * **
2844740 ATACATTCATACCTGTATCA
1 ATACATTGAAAAATGTATCA
2844760 ATACATTGAAAAATGTATC
1 ATACATTGAAAAATGTATC
2844779 GACATATCTG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (20 bp):
ATACATTGAAAAATGTATCA
Found at i:2845552 original size:48 final size:48
Alignment explanation
Indices: 2845500--2845710 Score: 248
Period size: 48 Copynumber: 4.4 Consensus size: 48
2845490 AATGTTCCAG
* * * *
2845500 TTCAAGGCCAACGACATCGAGTTAAGGGAAAAGTGGACAATGTACTGA
1 TTCAAGGCTAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGA
* * * *
2845548 TTCAAGGCTAGCGACATTGAGCTAAAGGAAAAGTAGG-TAATTTGCTGA
1 TTCAAGGCTAACGACATTGAGCTAAGGGAAAAGT-GGACAATGTGCTGA
* *
2845596 TTCAAGGCTAACGACATTGAGCTAGGGGAAAAGTGGACAATGTGTTGA
1 TTCAAGGCTAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGA
* * * * *
2845644 TTCAAGGCCAACAAAATTGAGCTAA--TAAAGGTGGACAATGTGCTGA
1 TTCAAGGCTAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGA
*
2845690 TTCAAGGCTAGCGACATTGAG
1 TTCAAGGCTAACGACATTGAG
2845711 TTAATAAAGG
Statistics
Matches: 136, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
46 35 0.26
47 2 0.01
48 97 0.71
49 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (48 bp):
TTCAAGGCTAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGA
Found at i:2845694 original size:46 final size:46
Alignment explanation
Indices: 2845500--2845736 Score: 217
Period size: 48 Copynumber: 5.0 Consensus size: 46
2845490 AATGTTCCAG
* * * *
2845500 TTCAAGGCCAACGACATCGAGTTAAGGGAAAAGTGGACAATGTACTGA
1 TTCAAGGCTAACGACATTGAGCTAA--GAAAAGTGGACAATGTGCTGA
* * *
2845548 TTCAAGGCTAGCGACATTGAGCTAAAGGAAAAGTAGG-TAATTTGCTGA
1 TTCAAGGCTAACGACATTGAGCT-AA-GAAAAGT-GGACAATGTGCTGA
* *
2845596 TTCAAGGCTAACGACATTGAGCTAGGGGAAAAGTGGACAATGTGTTGA
1 TTCAAGGCTAACGACATTGAGCTA--AGAAAAGTGGACAATGTGCTGA
* * * * *
2845644 TTCAAGGCCAACAAAATTGAGCTAATAAAGGTGGACAATGTGCTGA
1 TTCAAGGCTAACGACATTGAGCTAAGAAAAGTGGACAATGTGCTGA
* * * * * *
2845690 TTCAAGGCTAGCGACATTGAGTTAATAAAGGT-GCCAATATGCTGA
1 TTCAAGGCTAACGACATTGAGCTAAGAAAAGTGGACAATGTGCTGA
2845735 TT
1 TT
2845737 TAATGCCAAC
Statistics
Matches: 158, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
45 13 0.08
46 45 0.28
47 3 0.02
48 93 0.59
49 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (46 bp):
TTCAAGGCTAACGACATTGAGCTAAGAAAAGTGGACAATGTGCTGA
Found at i:2845894 original size:28 final size:28
Alignment explanation
Indices: 2845837--2846583 Score: 685
Period size: 30 Copynumber: 25.5 Consensus size: 28
2845827 CACCAACTTA
2845837 TGTGGGCTTT-AAAGAGGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GG-TGCCACTGACT
* *
2845866 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2845894 TGTGGGCTGTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2845922 TGTAGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2845950 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
2845979 GTGTGGGCTGTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
** *
2846010 TGTGGGCTTTGAAAATGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2846038 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
2846066 TGTGGGCTTTGGAAGGGTTCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
2846094 TGTCTGGGCTTTGAAAGGGTACGCCACTGACT
1 TG--TGGGCTTTGAAAGGGT--GCCACTGACT
* * *
2846126 TGCGGGCTTTAAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
2846154 TATGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
2846184 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* * *
2846214 TGTGGGCTTTGAAAGGATGTCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
2846242 TGTGGTCTTTTG-AAGAGATACCATTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
2846271 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
2846301 TGTGTAGGCTTTGAAAGGGTGCCACCGACT
1 TGTG--GGCTTTGAAAGGGTGCCACTGACT
* **
2846331 TGTGGGCTTTGAAAAGAGTTGCCACCAACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
2846362 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
2846391 TGTGGGTTTTTAAAGAGATGCCACTAAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * *
2846420 TGCGGGCTTTGAAAAGTGTTGCCACTAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
2846450 TGTGGGCTTTGAAAAGAGTTGCGA-TCGAATT
1 TGTGGGCTTTG-AAAG-GGTGCCACT-G-ACT
2846481 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2846510 TGTGGGCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* * *
2846539 TGTGAGCTTTGAAAAGAGATGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
2846569 TGTGGGGCTTT-AAAG
1 TGT-GGGCTTTGAAAG
2846584 AGATGAACGT
Statistics
Matches: 600, Mismatches: 84, Indels: 68
0.80 0.11 0.09
Matches are distributed among these distances:
28 217 0.36
29 92 0.15
30 220 0.37
31 23 0.04
32 48 0.08
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:2847847 original size:25 final size:25
Alignment explanation
Indices: 2847830--2847882 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
2847820 TTTTTTGTTA
2847830 TTTT-TTCCTTGGTTTTTTTATTTT
1 TTTTGTTCCTTGGTTTTTTTATTTT
** *
2847854 TTTTGTTTTTTGGTTTTTTTAATTT
1 TTTTGTTCCTTGGTTTTTTTATTTT
2847879 TTTT
1 TTTT
2847883 CGGTATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.06, C:0.04, G:0.09, T:0.81
Consensus pattern (25 bp):
TTTTGTTCCTTGGTTTTTTTATTTT
Found at i:2854104 original size:25 final size:25
Alignment explanation
Indices: 2854074--2854122 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2854064 CAGTTGCTTT
*
2854074 CCCGATGGACATTTTACCACTTTTC
1 CCCGATGGACATTCTACCACTTTTC
2854099 CCCGATGGACATTCTACCACTTTT
1 CCCGATGGACATTCTACCACTTTT
2854123 AATGACTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (25 bp):
CCCGATGGACATTCTACCACTTTTC
Found at i:2861921 original size:31 final size:33
Alignment explanation
Indices: 2861858--2861945 Score: 112
Period size: 31 Copynumber: 2.8 Consensus size: 33
2861848 AATACATTGA
*
2861858 AAAATGTATCGATATATCTGAGAAAAAAAAGAC
1 AAAATGTATCGATACATCTGAGAAAAAAAAGAC
* **
2861891 AGAATGTATCGATACATCTG-G-GTAAAAAGAC
1 AAAATGTATCGATACATCTGAGAAAAAAAAGAC
2861922 AAAATGTATCGATACAT-TGA-AAAA
1 AAAATGTATCGATACATCTGAGAAAA
2861946 TGTATCGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 25 0.54
32 1 0.02
33 18 0.39
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (33 bp):
AAAATGTATCGATACATCTGAGAAAAAAAAGAC
Found at i:2861952 original size:51 final size:51
Alignment explanation
Indices: 2861893--2862009 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
2861883 AAAAAGACAG
* * *
2861893 AATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACATTGAAA
1 AATGTATCGATACATCTAGATAAAAAGACAAAATGTATCGATACATTCAAA
** * *
2861944 AATGTATCGATGGATCTAGATAAAAAGACAGAATGTATCGATACATTCATA
1 AATGTATCGATACATCTAGATAAAAAGACAAAATGTATCGATACATTCAAA
*
2861995 CATGTATCGATACAT
1 AATGTATCGATACAT
2862010 TGAAAAATGT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (51 bp):
AATGTATCGATACATCTAGATAAAAAGACAAAATGTATCGATACATTCAAA
Found at i:2862001 original size:20 final size:20
Alignment explanation
Indices: 2861975--2862029 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2861965 AAAAAGACAG
*
2861975 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
2861995 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
2862015 AATGTATCGATACAT
1 AATGTATCGATACAT
2862030 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2863650 original size:20 final size:20
Alignment explanation
Indices: 2863625--2863662 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2863615 TCATGGCCCT
* *
2863625 ATGTATTGATACATAAAGTC
1 ATGTATCGATACACAAAGTC
2863645 ATGTATCGATACACAAAG
1 ATGTATCGATACACAAAG
2863663 GCATATTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACACAAAGTC
Found at i:2868368 original size:22 final size:24
Alignment explanation
Indices: 2868335--2868386 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
2868325 TGCGACACCA
*
2868335 TCAAATGATTTT-TCCAAAA-TTT
1 TCAAATGATTTTCTCAAAAAGTTT
2868357 TCAAAT-ATTTTTCTCAAAAAGTTT
1 TCAAATGA-TTTTCTCAAAAAGTTT
*
2868381 ACAAAT
1 TCAAAT
2868387 TCTCTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 10 0.40
23 6 0.24
24 8 0.32
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (24 bp):
TCAAATGATTTTCTCAAAAAGTTT
Found at i:2869037 original size:13 final size:13
Alignment explanation
Indices: 2869019--2869044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2869009 AAAAAAAAAA
2869019 AAAACTCAAACTT
1 AAAACTCAAACTT
2869032 AAAACTCAAACTT
1 AAAACTCAAACTT
2869045 TTCCTTTGTA
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:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAACTCAAACTT
Found at i:2870319 original size:14 final size:14
Alignment explanation
Indices: 2870274--2870319 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2870264 TTTAGATATA
2870274 ATCTCTT-TATTTT
1 ATCTCTTATATTTT
*
2870287 ATCTACTAATA-TTT
1 ATCT-CTTATATTTT
2870301 ATCTCTTATATTTT
1 ATCTCTTATATTTT
*
2870315 GTCTC
1 ATCTC
2870320 ATAATTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.33
14 16 0.59
15 2 0.07
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (14 bp):
ATCTCTTATATTTT
Found at i:2873393 original size:225 final size:225
Alignment explanation
Indices: 2873002--2873459 Score: 907
Period size: 225 Copynumber: 2.0 Consensus size: 225
2872992 GTGCCCTTAT
2873002 ATTATCAAAGGAAGAATGGATGATTAAAAGCTTGAATTTAAGGTTATAGGGTAAATCAATTAAAG
1 ATTATCAAAGGAAGAATGGATGATTAAAAGCTTGAATTTAAGGTTATAGGGTAAATCAATTAAAG
2873067 AATGAAACTCTGGCTTTCAAAATTAAAGATTTAAAGCATTCCCTACAAGATCGTCAAAGCCAAAT
66 AATGAAACTCTGGCTTTCAAAATTAAAGATTTAAAGCATTCCCTACAAGATCGTCAAAGCCAAAT
2873132 CGATGAATTAGCGAGAGCCTTTGAATAGTGGGAACAAGAATGGCTACAAATGGTTAATCACAAAT
131 CGATGAATTAGCGAGAGCCTTTGAATAGTGGGAACAAGAATGGCTACAAATGGTTAATCACAAAT
2873197 GGCTACAAATGGTTGATTACACACGCCAAA
196 GGCTACAAATGGTTGATTACACACGCCAAA
2873227 ATTATCAAAGGAAGAATGGATGATTAAAAGCTTGAATTTAAGGTTATAGGGTAAATCAATTAAAG
1 ATTATCAAAGGAAGAATGGATGATTAAAAGCTTGAATTTAAGGTTATAGGGTAAATCAATTAAAG
*
2873292 AATGAAACTCTGGCTTTCAAAATTAAAGATTTAAAGCATTCCCTACAAGATTGTCAAAGCCAAAT
66 AATGAAACTCTGGCTTTCAAAATTAAAGATTTAAAGCATTCCCTACAAGATCGTCAAAGCCAAAT
2873357 CGATGAATTAGCGAGAGCCTTTGAATAGTGGGAACAAGAATGGCTACAAATGGTTAATCACAAAT
131 CGATGAATTAGCGAGAGCCTTTGAATAGTGGGAACAAGAATGGCTACAAATGGTTAATCACAAAT
2873422 GGCTACAAATGGTTGATTACACACGCCAAA
196 GGCTACAAATGGTTGATTACACACGCCAAA
2873452 ATTATCAA
1 ATTATCAA
2873460 GACCTTCTTC
Statistics
Matches: 232, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 232 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (225 bp):
ATTATCAAAGGAAGAATGGATGATTAAAAGCTTGAATTTAAGGTTATAGGGTAAATCAATTAAAG
AATGAAACTCTGGCTTTCAAAATTAAAGATTTAAAGCATTCCCTACAAGATCGTCAAAGCCAAAT
CGATGAATTAGCGAGAGCCTTTGAATAGTGGGAACAAGAATGGCTACAAATGGTTAATCACAAAT
GGCTACAAATGGTTGATTACACACGCCAAA
Found at i:2878791 original size:79 final size:79
Alignment explanation
Indices: 2878697--2878947 Score: 281
Period size: 79 Copynumber: 3.2 Consensus size: 79
2878687 ACAAAAAAAT
* * * **
2878697 GGGTTCGGAGTATCTCCTTAGAAATAATGGGGTTCGAGTATCCCCAATGGTGGAAAATTGATGTT
1 GGGTT-GGAGTATCTCCTTAGAAATAATGGGGTTAGAGTATCCTCGATTATGGAAAATTGATGTT
2878762 TTGGAAATAAAATCA
65 TTGGAAATAAAATCA
* * * * *
2878777 GGGTTTGAGTATCTCCTCAGAAATAATGGGGTTAGAGTATCCTTGATTATGAAAAATTGGTGTTT
1 GGGTTGGAGTATCTCCTTAGAAATAATGGGGTTAGAGTATCCTCGATTATGGAAAATTGATGTTT
*
2878842 TGAAAATAAAATCA
66 TGGAAATAAAATCA
* * * ** *
2878856 GGGTTGGAATATC-CCCTCGAAAATAACAGGGTTGGAGTATCCTCGATTATGGAAAATT-AGTGT
1 GGGTTGGAGTATCTCCTTAG-AAATAATGGGGTTAGAGTATCCTCGATTATGGAAAATTGA-TGT
* **
2878919 TTTAGAAATAAAATTG
64 TTTGGAAATAAAATCA
2878935 GGGTTGGAGTATC
1 GGGTTGGAGTATC
2878948 CCCGATTGTG
Statistics
Matches: 142, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
78 3 0.02
79 134 0.94
80 5 0.04
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (79 bp):
GGGTTGGAGTATCTCCTTAGAAATAATGGGGTTAGAGTATCCTCGATTATGGAAAATTGATGTTT
TGGAAATAAAATCA
Found at i:2878954 original size:51 final size:51
Alignment explanation
Indices: 2878884--2879000 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2878874 GAAAATAACA
* * **
2878884 GGGTTGGAGTATCCTCGATTATGGAAAATTAGTGTTTT-AGAAATAAAATTG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGA-AAATAAAACCG
* *
2878935 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCG
*
2878986 GGGTTGGAATATCCC
1 GGGTTGGAGTATCCC
2879001 TTCGGAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCG
Found at i:2881417 original size:20 final size:20
Alignment explanation
Indices: 2881392--2881444 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2881382 TAAAACCCAG
2881392 AATGTATTGATACAATGAAC
1 AATGTATTGATACAATGAAC
*
2881412 AATGTATCGATACAATGAAC
1 AATGTATTGATACAATGAAC
*
2881432 AATAT-TTGATACA
1 AATGTATTGATACA
2881445 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATTGATACAATGAAC
Found at i:2881454 original size:69 final size:70
Alignment explanation
Indices: 2881342--2881495 Score: 249
Period size: 69 Copynumber: 2.2 Consensus size: 70
2881332 AAAATGCCTG
* *
2881342 AATGTATCGATACATTGAAAAATTTATCGATACATCTGGGTAAAACCCAGAATGTATTGATACAA
1 AATGTATCGATACAATGAAAAATTTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAA
2881407 TGAAC
66 TGAAC
* *
2881412 AATGTATCGATACAATGAACAATATT-T-GATACATCTGGGTAAAACCCATAATGTATCGATACA
1 AATGTATCGATACAATGAAAAAT-TTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACA
2881475 ATGAAC
65 ATGAAC
2881481 AATGTATCGATACAA
1 AATGTATCGATACAA
2881496 ATTGTGGAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
69 55 0.70
70 22 0.28
71 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (70 bp):
AATGTATCGATACAATGAAAAATTTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAA
TGAAC
Found at i:2882222 original size:41 final size:41
Alignment explanation
Indices: 2882117--2882253 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 41
2882107 GTACATCTTG
* * *
2882117 CTCTTCGAGGAAAAAAGAAAAAAAGGAAATTAATGTGTCCTA
1 CTCTTTGAGGACAAAAG-AGAAAAGGAAATTAATGTGTCCTA
*
2882159 CTCTTTGAGGACAAAAGAGAAAAGGAAATATAGTGCT-TCCTA
1 CTCTTTGAGGACAAAAGAGAAAAGGAAAT-TAATG-TGTCCTA
** *
2882201 CTCTTTGAGGACAAAAG-GAAAAGGAAAGGAA-GCAGGTCCTA
1 CTCTTTGAGGACAAAAGAGAAAAGGAAATTAATG--TGTCCTA
2882242 CTCTTTGAGGAC
1 CTCTTTGAGGAC
2882254 TAGAAGGTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 38 0.46
42 41 0.50
43 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (41 bp):
CTCTTTGAGGACAAAAGAGAAAAGGAAATTAATGTGTCCTA
Found at i:2882322 original size:61 final size:61
Alignment explanation
Indices: 2882236--2882868 Score: 702
Period size: 61 Copynumber: 10.4 Consensus size: 61
2882226 AAGGAAGCAG
* * *
2882236 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTATAAGGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * * * * *
2882297 GTTCTACTCTTTGAGGACTAAAAGGTGCCA-CTAGTTCGTGTAGGCTTGAAAA--AAGAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTT-GTGTAGGCTTTAAAAGGAA-AAA-GC
* *
2882358 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * * *
2882419 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * * *
2882480 GTCCTGCTTTTTGAGGACTAGAAGGTGCTACCAACTTGTGTAGGCTTTAAAAGGAAAAAGA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * *
2882541 GTTCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG--AAAGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * ** * * * * * *
2882600 GTCCTGCTCTTTAAGAACTGGAAGTTGCCACCAACTTGTATTGGCTTTAGAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * * * * *
2882661 GTCCTGCTCTTTGGGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * * * ** *
2882722 ATCTTGCTTTTTGGGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAA-GC
* * * * * *
2882783 ATCCTGCTTTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
* * *
2882844 GTCCTACTCTTCGAGGACTGAAAGG
1 GTCCTGCTCTTTGAGGACTAAAAGG
2882869 ATAAAAGGTT
Statistics
Matches: 490, Mismatches: 72, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
59 51 0.10
60 12 0.02
61 414 0.84
62 11 0.02
63 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGC
Found at i:2882708 original size:242 final size:242
Alignment explanation
Indices: 2882236--2882868 Score: 799
Period size: 242 Copynumber: 2.6 Consensus size: 242
2882226 AAGGAAGCAG
* * *
2882236 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTATAAGGAAAAAGCGTTC
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAG-GTTC
* * * * *
2882301 TACTCTTTGAGGACTAAAAGGTGCCA-CTAGTTCGTGTAGGC-TTGAAAAAAGAAAGGTGTCCTG
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTT-GTGTAGGCTTTG--AAAGGAAAGGCGTCCTG
* * *
2882364 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
127 CTCTTTAAGAACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* *
2882429 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
192 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
*
2882480 GTCCTGCTTTTTGAGGACTAGAAGGTGCTACCAACTTGTGTAGGCTTTAAAAGGAAAAAGAGTTC
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAG-GTTC
*
2882545 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAA-GCGTCCTGCTC
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGGCGTCCTGCTC
* * * * *
2882609 TTTAAGAACTGGAAGTTGCCACCAACTTGTATTGGCTTTAGAAGGAAAAGGTGTCCTGCTCTTTG
130 TTTAAGAACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
* *
2882674 GGGA-TTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
195 AGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
* * * * ** * *
2882722 ATCTTGCTTTTTGGGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCATC
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGG--TT
* * * * * *
2882786 CTGCTTTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTAC
64 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG-AAAGGCGTCCTGC
** *
2882851 TCTTCGAGGACTGAAAGG
128 TCTTTAAGAACTGAAAGG
2882869 ATAAAAGGTT
Statistics
Matches: 338, Mismatches: 44, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
240 1 0.00
241 9 0.03
242 199 0.59
243 10 0.03
244 112 0.33
245 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (242 bp):
GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGGTTCT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGGCGTCCTGCTCT
TTAAGAACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
Found at i:2883834 original size:14 final size:15
Alignment explanation
Indices: 2883815--2883847 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2883805 AAGTAGGTTC
2883815 TTTTCTTTTCTC-TT
1 TTTTCTTTTCTCATT
*
2883829 TTTTCTTTTTTCATT
1 TTTTCTTTTCTCATT
2883844 TTTT
1 TTTT
2883848 TGTTGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTCTCATT
Found at i:2883856 original size:11 final size:11
Alignment explanation
Indices: 2883842--2883884 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
2883832 TCTTTTTTCA
2883842 TTTTTTTGTTG
1 TTTTTTTGTTG
*
2883853 TTTTTTTTTTG
1 TTTTTTTGTTG
*
2883864 TTTCGTTTTGTTT
1 TTT--TTTTGTTG
2883877 TTTTTTTG
1 TTTTTTTG
2883885 AAAAAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTTG
Found at i:2883859 original size:14 final size:16
Alignment explanation
Indices: 2883842--2883879 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
2883832 TCTTTTTTCA
2883842 TTTTTTTG-TT-GTTT
1 TTTTTTTGTTTCGTTT
2883856 TTTTTTTGTTTCGTTT
1 TTTTTTTGTTTCGTTT
2883872 TGTTTTTT
1 T-TTTTTT
2883880 TTTTGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 2 0.10
16 5 0.24
17 6 0.29
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTCGTTT
Found at i:2894017 original size:28 final size:28
Alignment explanation
Indices: 2893936--2894017 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2893926 TTTTGGAGAT
*
2893936 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2893964 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2893992 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2894018 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2894160 original size:51 final size:51
Alignment explanation
Indices: 2894000--2894170 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2893990 GAAATAACGA
* * *
2894000 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2894052 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2894105 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2894156 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2894171 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2894216 original size:27 final size:27
Alignment explanation
Indices: 2894153--2894227 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
2894143 AAAATAAAGT
*
2894153 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCC-GAGAAATAA
*
2894181 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
*
2894208 CGGGGTTGGAGTGTCCCCGA
1 CGGGGTTGGAGTATCCCCGA
2894228 CTGTGAAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:2896709 original size:13 final size:13
Alignment explanation
Indices: 2896691--2896716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2896681 ACAAAGATCC
2896691 ATGTATCGATACA
1 ATGTATCGATACA
2896704 ATGTATCGATACA
1 ATGTATCGATACA
2896717 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2896712 original size:33 final size:33
Alignment explanation
Indices: 2896670--2896736 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2896660 AAAATTTCCA
***
2896670 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2896703 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2896736 A
1 A
2896737 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2896780 original size:19 final size:18
Alignment explanation
Indices: 2896756--2896823 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2896746 CAGTAGCTAA
2896756 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2896775 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2896790 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2896807 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2896824 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2896796 original size:13 final size:13
Alignment explanation
Indices: 2896778--2896802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2896768 ACAATACTTA
2896778 TGTATCGATACAT
1 TGTATCGATACAT
2896791 TGTATCGATACA
1 TGTATCGATACA
2896803 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2896800 original size:32 final size:32
Alignment explanation
Indices: 2896759--2896821 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2896749 TAGCTAATTA
*
2896759 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2896791 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2896822 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2896903 original size:21 final size:21
Alignment explanation
Indices: 2896879--2896935 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2896869 CATTTGTAGG
2896879 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2896900 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2896921 ATGTATCGATACATT
1 ATGTATCGATACATT
2896936 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2898688 original size:97 final size:97
Alignment explanation
Indices: 2898431--2898677 Score: 370
Period size: 97 Copynumber: 2.5 Consensus size: 97
2898421 TTTTTGATTA
* * * *
2898431 AAAAACGGGGTTAGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCTCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGAAAATTTA
2898496 AGTGAGAATAGAATTTAAACTTTGATACGTTT
66 AGTGAGAATAGAATTTAAACTTTGATACGTTT
* * * *
2898528 AAAAGCGGGGTTGGTGTATCCCCTCAGAGGAATGGGGTTGAAGTGTCCCCGATGGTGAAAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGAAAATTTA
**
2898593 AGTGAGAATA-AGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAGA-ATTTAAACTTTGATACGTTT
* *
2898625 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
2898678 AAATAAAATT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 1 0.01
97 133 0.99
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGAAAATTTA
AGTGAGAATAGAATTTAAACTTTGATACGTTT
Found at i:2900893 original size:20 final size:20
Alignment explanation
Indices: 2900870--2900964 Score: 129
Period size: 20 Copynumber: 4.8 Consensus size: 20
2900860 AAAAAGATAG
*
2900870 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
2900889 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTCATA
*
2900910 CATGTATCGATACATTCATA
1 AATGTATCGATACATTCATA
* * *
2900930 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCATA
2900950 AATGTATCGATACAT
1 AATGTATCGATACAT
2900965 CTGGGTACTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
20 68 0.99
21 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2900924 original size:12 final size:12
Alignment explanation
Indices: 2900891--2900944 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
2900881 ACATTGAAGA
2900891 ATGTATCGATAC
1 ATGTATCGATAC
2900903 A--T-TC-ATAC
1 ATGTATCGATAC
2900911 ATGTATCGATAC
1 ATGTATCGATAC
2900923 A--T-TC-ATAC
1 ATGTATCGATAC
2900931 ATGTATCGATAC
1 ATGTATCGATAC
2900943 AT
1 AT
2900945 TGAAAAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
8 10 0.29
9 4 0.12
10 4 0.12
11 4 0.12
12 12 0.35
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2901949 original size:28 final size:28
Alignment explanation
Indices: 2901836--2902968 Score: 815
Period size: 28 Copynumber: 38.4 Consensus size: 28
2901826 TTTAAGAAAA
*
2901836 AAAGG-TGCCACTAACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* *
2901865 AAAAGAGTTACCA-TCGACTTGTGGGCTTTG
1 -AAAG-GATGCCACT-GACTTGTGGGCTTTG
* * *
2901895 CAAGGGTATGCCACTGACATGTGGGCTTTT
1 -AAAGG-ATGCCACTGACTTGTGGGCTTTG
* *
2901925 AAAGGGTGCCACTGACTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2901953 AAGGGGTACCACTGACTTGTGGCCTATG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* **
2901981 AAAGGGTGCCACAAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2902009 AAA-GAGTACCACCGACTTATGGTCTTTTG
1 AAAGGA-TGCCACTGACTTGTGGGC-TTTG
* *
2902038 -AAGAGATGCCACTAACTTGTAGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
* *
2902066 AAAGGATGCCACTAACTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2902094 AAAGGATGTCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2902122 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2902150 AGAAGGATGCCACTGACTTGTCGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
2902179 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
2902207 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2902235 AAAAGATGCCACTGATTTGTGTGGGCTTTA
1 AAAGGATGCCACTGA-CT-TGTGGGCTTTG
2902265 AGAAGGATGCCACTGACTTGTGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
* *
2902294 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AA-AGGATGCCACTGAC-T-TGTGGGCTTTG
* ** *
2902326 AAATAGGTTGCCACCAACTTGCGTGGGCTTTC
1 -AA-AGGATGCCACTGACTT--GTGGGCTTTG
* * *
2902358 AAATGAGTTGCCACCGATTTGTGTGGGCTTTG
1 AAA-G-GATGCCACTGA-CT-TGTGGGCTTTG
* * *
2902390 AAATAGGTTACCACCGACTTGTGTGGGCTTTG
1 -AA-AGGATGCCACTGAC-T-TGTGGGCTTTG
* * *
2902422 AAATGGGTTGCCACTAACTTGTGTGGGCTTTC
1 AAA--GGATGCCACTGAC-T-TGTGGGCTTTG
* * *
2902454 AAATGAGTTGCCACCGACTTGTGTGGGCTTTT
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTG
* *
2902486 AAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTG
* *
2902518 AAATGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2902546 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2902574 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA--GGATGCCACTGAC-T-TGTGGGCTTTG
* *
2902606 AAATAGGTTGCCACTGACTTGTGTGGGCTTTC
1 -AA-AGGATGCCACTGAC-T-TGTGGGCTTTG
* * * *
2902638 AAATGAGTTGTCACCGATTTGTATGGGCTTTG
1 AAA-G-GATGCCACTGACTTG--TGGGCTTTG
*
2902670 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2902698 GACGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2902726 AAATAGGTTGCCACTGACTTGTGTGGGCTTTC
1 -AA-AGGATGCCACTGAC-T-TGTGGGCTTTG
* *
2902758 AAATGAGTTGCCACAGACTTGTGTGGGCTTTG
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTG
* *
2902790 AAATGATG-CACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2902817 GATGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2902845 AAATGATGCCACTAACTTGTGGACTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2902873 AAAGCGTGCTGCCACGGAGTTGTGGAC-TTA
1 AAA--G-GATGCCACTGACTTGTGGGCTTTG
* * ** *
2902903 AAAGGATGCCACGGAGTTGTGCAC-TTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2902930 AAAGGTTGCCACAGAGTTGTGGGC-TTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2902957 AAAGGGTGCCAC
1 AAAGGATGCCAC
2902969 GGAGTGGTGG
Statistics
Matches: 930, Mismatches: 123, Indels: 103
0.80 0.11 0.09
Matches are distributed among these distances:
27 72 0.08
28 349 0.38
29 69 0.07
30 120 0.13
31 50 0.05
32 261 0.28
33 6 0.01
34 3 0.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2902058 original size:113 final size:111
Alignment explanation
Indices: 2901880--2902871 Score: 631
Period size: 113 Copynumber: 8.4 Consensus size: 111
2901870 AGTTACCATC
* * * *
2901880 GACTTGTGGGCTTTGCAAGGGTATGCCACTGACATGTGGGCTTTTAAAGGGTGCCACTGACTTGT
1 GACTTGTGGGCTTTGAAAGGGTA--CCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGT
* * * * * *
2901945 AGGCTTTGAAGGGGTACCACTGACTTGTGGCCTATGAAAGGGTGCCACA
64 AGGCTTTGAAAGGATGCCACTGACTTGTGG-CTTTGAAAGGATGCCACT
* * * * * *
2901994 AACTTGTGGGCTTTGAAAGAGTACCACCGACTTATGGTCTTTTGAAGAGATGCCACTAACTTGTA
1 GACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTTGAAG-GATGCCACTGACTTGTA
* *
2902059 GGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGGATGTCACT
65 GGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACT
* * *
2902107 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTC
1 GACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT-TGAAGGATGCCACTGACTTGTA
2902172 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
65 GGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACT
* * * * *
2902220 GACTTGTGGGCTTTGAAAAGATGCCACTGATTTGTGTGGGCTTTAAGAAGGATGCCACTGACTTG
1 GACTTGTGGGCTTTGAAAGGGTACCACTGA-CT-TGTGGGCTTT-TGAAGGATGCCACTGACTTG
* * * * *
2902285 TGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACC
63 TAGGCTTTG-AA-AGGATGCCACTGAC-T-TGT-GGCTTTG-AA-AGGATGCCACT
* * * * * * * * *
2902341 AACTTGCGTGGGCTTTCAAATGAGTTGCCACCGATTTGTGTGGGC-TTTGAAATAGGTTACCACC
1 GACTT--GTGGGCTTTGAAA-G-GGTACCACTGA-CT-TGTGGGCTTTTG--A-AGGATGCCACT
* * * * * *
2902405 GACTTGTGTGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTCAAATGAGTTGCCACC
57 GAC-T-TGTAGGCTTTGAAA--GGATGCCACTGAC-T-TGT-GGCTTTGAAA-G-GATGCCACT
* * * * *
2902469 GACTTGTGTGGGCTTTTAAATGAGTTGCCACCGACTTGTGTGGGC-TTTGAAATGATGCCACTGA
1 GAC-T-TGTGGGCTTTGAAA-G-GGTACCACTGAC-T-TGTGGGCTTTTG-AAGGATGCCACTGA
* * * * *
2902533 CTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACC
59 CTTGTAGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAA--GGATGCCACT
* * ** * * *
2902589 GACTTGTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGTCACCG
1 GAC-T-TGTGGGCTTTG-AA-AGGGTACCACTGAC-T-TGTGGGCTTTTGAA-G-GATGCCACTG
* * * *
2902654 ATTTGTATGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGGACGGATGCCACT
58 ACTTGTA--GGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACT
* * ** * *
2902711 GACTTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGCCACAGAC
1 GACTTGTGGGCTTTG-AA-AGGGTACCACTGAC-T-TGTGGGCTTTTGAA-G-GATGCCACTGAC
* * * * *
2902776 TTGTGTGGGCTTTGAAATGATG-CACTAACTTGTGGGCTTTGGATGGATGCCACT
60 -T-TGTAGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACT
* * * * *
2902830 GACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGACTTT
1 GACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
2902872 GAAAGCGTGC
Statistics
Matches: 751, Mismatches: 90, Indels: 73
0.82 0.10 0.08
Matches are distributed among these distances:
112 19 0.03
113 176 0.23
114 27 0.04
115 47 0.06
116 3 0.00
117 23 0.03
118 3 0.00
119 56 0.07
120 136 0.18
121 22 0.03
122 36 0.05
123 13 0.02
124 50 0.07
125 22 0.03
126 23 0.03
127 8 0.01
128 85 0.11
129 1 0.00
130 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (111 bp):
GACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTAG
GCTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAGGATGCCACT
Found at i:2902324 original size:32 final size:32
Alignment explanation
Indices: 2902059--2902865 Score: 674
Period size: 32 Copynumber: 26.9 Consensus size: 32
2902049 CTAACTTGTA
* * *
2902059 GGCTTTG-AA-AGGATGCCACTAAC-T-TGTA
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902087 GGCTTTG-AA-AGGATGTCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
*
2902115 GGCTTTG-AA-AGGGTGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* * *
2902143 GGCTTTGAGA-AGGATGCCACTGAC-T-TGTC
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
*
2902172 GGCTTTG-AA-AGGATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
*
2902200 GGCTTTG-AA-AGGATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902228 GGCTTTGAAA-A-GATGCCACTGATTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
*
2902258 GGCTTT-AAGA-AGGATGCCACTGAC-T-TGTG
1 GGCTTTGAA-ATAGGTTGCCACTGACTTGTGTG
*
2902287 GGCTTTGAAATAGGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
** *
2902319 GGCTTTGAAATAGGTTGCCACCAACTTGCGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* * *
2902351 GGCTTTCAAAT-GAGTTGCCACCGATTTGTGTG
1 GGCTTTGAAATAG-GTTGCCACTGACTTGTGTG
* *
2902383 GGCTTTGAAATAGGTTACCACCGACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902415 GGCTTTGAAATGGGTTGCCACTAACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902447 GGCTTTCAAAT-GAGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATAG-GTTGCCACTGACTTGTGTG
* *
2902479 GGCTTTTAAAT-GAGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATAG-GTTGCCACTGACTTGTGTG
* *
2902511 GGCTTTGAAAT--GATGCCACTGAC-T-TATG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
*
2902539 GGCTTTGAAA-A-GATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902567 GGCTTTGAAATGGGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
2902599 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* * * * *
2902631 GGCTTTCAAAT-GAGTTGTCACCGATTTGTATG
1 GGCTTTGAAATAG-GTTGCCACTGACTTGTGTG
*
2902663 GGCTTTGAAAT--GATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* * *
2902691 GGCTTTG-GA-CGGATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
2902719 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902751 GGCTTTCAAAT-GAGTTGCCACAGACTTGTGTG
1 GGCTTTGAAATAG-GTTGCCACTGACTTGTGTG
* *
2902783 GGCTTTGAAAT--GATG-CACTAAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902810 GGCTTTG-GAT-GGATGCCACTGAC-T-TGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
* *
2902838 GGCTTTGAAAT--GATGCCACTAACTTGTG
1 GGCTTTGAAATAGGTTGCCACTGACTTGTG
2902866 GACTTTGAAA
Statistics
Matches: 682, Mismatches: 66, Indels: 60
0.84 0.08 0.07
Matches are distributed among these distances:
26 2 0.00
27 16 0.02
28 226 0.33
29 53 0.08
30 72 0.11
31 18 0.03
32 294 0.43
33 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (32 bp):
GGCTTTGAAATAGGTTGCCACTGACTTGTGTG
Found at i:2902616 original size:152 final size:149
Alignment explanation
Indices: 2901841--2902876 Score: 991
Period size: 152 Copynumber: 7.0 Consensus size: 149
2901831 GAAAAAAAGG
* * * * *
2901841 TGCCACTAACTTGTGTGGGCTTTGAAA-AGAGTTACCATCGAC-T-TGTGGGCTTTGCAA-GGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGAGT
* * * * * ** * *
2901902 ATGCCACTGACATGTGGGCTTTTAAAGGGTGCCACTGACTTGTAGGCTTTGAAGGGGTACCACTG
65 -TGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
* *
2901967 ACTTGTGGCCTATGAAAGGG-
129 ACTTGTGGGCTTTGAAAGGGT
** * * * * *
2901987 TGCCACAAAC-T-TGTGGGCTTTGAAAGA-G-TACCACCGAC-T-TATGGTCTTTTG-AA-GAGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGC-TTTGAAATGAGT
* * * * * * *
2902044 TGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGGATGTCACTGA
65 TGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
2902109 CTTGTGGGCTTTGAAAGGG-
130 CTTGTGGGCTTTGAAAGGGT
* * * * *
2902128 TGCCACTGAC-T-TGTGGGCTTTGAGA-AGGATGCCACTGAC-T-TGTCGGCTTTGAAA-G-GAT
1 TGCCACTGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTT
*
2902186 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAT
66 GCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA-
* * *
2902251 TTGTGTGGGCTTT-AAGAAGGA
130 CT-TGTGGGCTTTGAA-AGGGT
2902272 TGCCACTGAC-T-TGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-AGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATGA-GT
** * * * *
2902334 TGCCACCAACTTGCGTGGGCTTTCAAATGAGTTGCCACCGATTTGTGTGGGCTTTGAAATAGGTT
65 TGCCACTGACTT--GTGGGCTTTGAAATGA--TGCCACTGA-CT-TGTGGGCTTTGAAA-A-GAT
* *
2902399 ACCACCGACTTGTGTGGGCTTTGAAATGGGT
122 GCCACTGAC-T-TGTGGGCTTTGAAA-GGGT
* * *
2902430 TGCCACTAACTTGTGTGGGCTTTCAAAT-GAGTTGCCACCGACTTGTGTGGGCTTTTAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGAGT
* *
2902494 TGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTGACTTATGGGCTTTGAAAAGATGCCACT
65 TGCCACTGAC-T-TGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT
2902559 GACTTGTGGGCTTTGAAATGGGT
128 GACTTGTGGGCTTTGAAA-GGGT
* * *
2902582 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGTGGGCTTTCAAATGAGTT
1 TGCCACTGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTT
* * * * **
2902647 GTCACCGATTTGTATGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGGACGGATGCCACTG
66 GCCACTGACTTG--TGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
*
2902712 ACTTGTGGGCTTTGAAATAGGT
129 ACTTGTGGGCTTTGAAA-GGGT
* *
2902734 TGCCACTGACTTGTGTGGGCTTTCAAAT-GAGTTGCCACAGACTTGTGTGGGCTTTGAAATGA--
1 TGCCACTGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGAGT
* * * *
2902796 TG-CACTAACTTGTGGGCTTTG-GATGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTA
65 TGCCACTGACTTGTGGGCTTTGAAAT-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
*
2902859 ACTTGTGGACTTTGAAAG
129 ACTTGTGGGCTTTGAAAG
2902877 CGTGCTGCCA
Statistics
Matches: 765, Mismatches: 88, Indels: 74
0.83 0.09 0.08
Matches are distributed among these distances:
140 1 0.00
141 160 0.21
142 38 0.05
143 18 0.02
144 38 0.05
145 14 0.02
146 12 0.02
147 72 0.09
149 18 0.02
150 4 0.01
151 16 0.02
152 208 0.27
153 10 0.01
154 10 0.01
155 15 0.02
156 14 0.02
157 22 0.03
158 21 0.03
159 2 0.00
160 69 0.09
161 2 0.00
162 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (149 bp):
TGCCACTGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTT
GCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAC
TTGTGGGCTTTGAAAGGGT
Found at i:2902920 original size:27 final size:27
Alignment explanation
Indices: 2902882--2903228 Score: 410
Period size: 27 Copynumber: 12.7 Consensus size: 27
2902872 GAAAGCGTGC
2902882 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
2902909 TGCCACGGAGTTGTGCACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
2902936 TGCCACAGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
2902963 TGCCACGGAGTGGTGGACTTTAAAA-AA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * *
2902990 GTGCTGCAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
2903018 TGTCACGGAGTTGTGGATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
2903045 TGCCACGGAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
2903072 TGCCACGAAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
2903099 TGCCACGGAG-TGCTGGACTTTAAAAGGG
1 TGCCACGGAGTTG-TGGAC-TTAAAAGGA
*
2903127 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
2903155 TGCCACGAAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
2903182 TACCATGGAGTTATGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
2903209 TGCCACAGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
2903229 TGAAAAGAAA
Statistics
Matches: 270, Mismatches: 44, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 200 0.74
28 66 0.24
29 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:2903011 original size:82 final size:83
Alignment explanation
Indices: 2902882--2903235 Score: 404
Period size: 82 Copynumber: 4.3 Consensus size: 83
2902872 GAAAGCGTGC
* * * * *
2902882 TGCCACGGAGTTGTGGAC-TT-AAAAG-GATGCCACGGAGTTGTGCACTTAAAAGGTTGCCACAG
1 TGCCACGGAGTTGTGGACTTTAAAAAGTGCTG-CACGAAGTTGTGGACTTAAAAGGATGCCACGG
*
2902944 AGTTGTGGGCTTAAAAGGG
65 AGTTGTGGACTTAAAAGGG
* * *
2902963 TGCCACGGAGTGGTGGACTTTAAAAAAGTGCTGCA-G-AGTTGTGGACTTAAAAGGGTGTCACGG
1 TGCCACGGAGTTGTGGACTTT-AAAAAGTGCTGCACGAAGTTGTGGACTTAAAAGGATGCCACGG
*
2903026 AGTTGTGGATTTAAAAGGG
65 AGTTGTGGACTTAAAAGGG
** *
2903045 TGCCACGGAGTTGTGGACTTTAAAGGGTGC--CACGAAGTTGTGGACTTAAAAGAATGCCACGGA
1 TGCCACGGAGTTGTGGACTTTAAAAAGTGCTGCACGAAGTTGTGGACTTAAAAGGATGCCACGGA
2903108 G-TGCTGGACTTTAAAAGGG
66 GTTG-TGGAC-TTAAAAGGG
* * * *
2903127 TGCCACAGAGTTGTGGACTTT-AAAAG-GATGCCACGAAGTTGTGGACTTAAAAGGATACCATGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGTGCTG-CACGAAGTTGTGGACTTAAAAGGATGCCACGG
* *
2903190 AGTTATGGACTTAAAAGGA
65 AGTTGTGGACTTAAAAGGG
* *
2903209 TGCCACAGAGTTGTGGACTTTGAAAAG
1 TGCCACGGAGTTGTGGACTTTAAAAAG
2903236 AAATGCCACT
Statistics
Matches: 236, Mismatches: 24, Indels: 24
0.83 0.08 0.08
Matches are distributed among these distances:
79 2 0.01
80 4 0.02
81 57 0.24
82 120 0.51
83 42 0.18
84 8 0.03
85 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (83 bp):
TGCCACGGAGTTGTGGACTTTAAAAAGTGCTGCACGAAGTTGTGGACTTAAAAGGATGCCACGGA
GTTGTGGACTTAAAAGGG
Found at i:2908307 original size:48 final size:48
Alignment explanation
Indices: 2908251--2908348 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
2908241 TTGTTTACTC
2908251 TCACTTTACCATTTTTATTGAAATGACATTTATTGTCCGATAAGATGA
1 TCACTTTACCATTTTTATTGAAATGACATTTATTGTCCGATAAGATGA
2908299 TCACTTTACCATTTTTATTGAAATGACATTTATTGTCCGATAAGATGA
1 TCACTTTACCATTTTTATTGAAATGACATTTATTGTCCGATAAGATGA
2908347 TC
1 TC
2908349 CTGACATTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (48 bp):
TCACTTTACCATTTTTATTGAAATGACATTTATTGTCCGATAAGATGA
Found at i:2909661 original size:97 final size:97
Alignment explanation
Indices: 2909412--2909650 Score: 383
Period size: 97 Copynumber: 2.5 Consensus size: 97
2909402 TGAAAAACAA
* *
2909412 GGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGACTGTCCTCGATGATGACAATTTAAGTGAGAA
1 GGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
2909477 TAGAATTTAAACTTTGATGCGTTTAAAAGCGG
66 TAGAATTTAAACTTTGATGCGTTTAAAAGCGG
* *
2909509 GGTTGGAGTATAC-CCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGA
1 GGTTGGAGTAT-CTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
*
2909573 ATA-AGATTTAAACTTTGATGTGTTTAAAAGCGG
65 ATAGA-ATTTAAACTTTGATGCGTTTAAAAGCGG
* *
2909606 GGTTGGAGTATCTCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
2909651 AAATAAAATT
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
96 2 0.02
97 128 0.98
98 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (97 bp):
GGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
TAGAATTTAAACTTTGATGCGTTTAAAAGCGG
Found at i:2911870 original size:20 final size:20
Alignment explanation
Indices: 2911845--2912032 Score: 130
Period size: 20 Copynumber: 8.8 Consensus size: 20
2911835 GTAAAAAGAT
2911845 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
2911865 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
2911885 TA-CATGTATCGATACATTCA
1 -AGAATGTATCGATACATTGA
*
2911905 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
2911925 AAAATGTATCGATACATTTGGGTAAAA
1 AGAATGTATCGATACA-TT--G----A
2911952 AGACAAAATGTATCGATACATTGA
1 AG----AATGTATCGATACATTGA
*
2911976 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* * *
2911996 TA-CATGTATTGATACATTAA
1 -AGAATGTATCGATACATTGA
* *
2912016 AAAATGTATCAATACAT
1 AGAATGTATCGATACAT
2912033 CTGGGTACTT
Statistics
Matches: 141, Mismatches: 12, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.01
20 112 0.79
21 4 0.03
23 1 0.01
24 3 0.02
27 2 0.01
28 1 0.01
30 2 0.01
31 14 0.10
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2911901 original size:12 final size:12
Alignment explanation
Indices: 2911868--2911921 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
2911858 ACATTGAAGA
2911868 ATGTATCGATAC
1 ATGTATCGATAC
2911880 A--T-TC-ATAC
1 ATGTATCGATAC
2911888 ATGTATCGATAC
1 ATGTATCGATAC
2911900 A--T-TC-ATAC
1 ATGTATCGATAC
2911908 ATGTATCGATAC
1 ATGTATCGATAC
2911920 AT
1 AT
2911922 TGAAAAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
8 10 0.29
9 4 0.12
10 4 0.12
11 4 0.12
12 12 0.35
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2911966 original size:91 final size:91
Alignment explanation
Indices: 2911867--2912039 Score: 276
Period size: 91 Copynumber: 1.9 Consensus size: 91
2911857 TACATTGAAG
* *
2911867 AATGTATCGATACATTCATA-CATGTATCGATACATTCATACATGTATCGATACATTGAAAAATG
1 AATGTATCGATACATTCA-AGAATGTATCGATACATTCATACATGTATCGATACATTAAAAAATG
* *
2911931 TATCGATACATTTGGGTAAAAAGACAA
65 TATCAATACATCTGGGTAAAAAGACAA
* *
2911958 AATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATTGATACATTAAAAAATGT
1 AATGTATCGATACATTCAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGT
2912023 ATCAATACATCTGGGTA
66 ATCAATACATCTGGGTA
2912040 CTTTTTCATA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 74 0.99
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (91 bp):
AATGTATCGATACATTCAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGT
ATCAATACATCTGGGTAAAAAGACAA
Found at i:2911991 original size:111 final size:111
Alignment explanation
Indices: 2911797--2912032 Score: 373
Period size: 111 Copynumber: 2.1 Consensus size: 111
2911787 TTTTAACTAG
* * *
2911797 ATGTATTGATACATTGAAAAATATATCGACACATATGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCGACACATATGGGTAAAAAGACAAAATGTATCGATACAT
* * *
2911862 TGAAGAATGTATCGATACATTCATACATGTATCGATACATTCATAC
66 TGAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAA
* * *
2911908 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGACAAAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCGACACATATGGGTAAAAAGACAAAATGTATCGATACAT
*
2911973 TGAAGAATGTATCGATACATTCATACATGTATTGATACATTAAAAA
66 TGAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAA
*
2912019 ATGTATCAATACAT
1 ATGTATCGATACAT
2912033 CTGGGTACTT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (111 bp):
ATGTATCGATACATTGAAAAATATATCGACACATATGGGTAAAAAGACAAAATGTATCGATACAT
TGAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAA
Found at i:2915130 original size:79 final size:80
Alignment explanation
Indices: 2915039--2915210 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 80
2915029 AAATTTAATA
* * * * * *
2915039 TTTTGGAGATAAAAAT-GGGGTCGAAGTACCCCCTCAGAAATAACGGGGTTGGAGTATCCCTAAT
1 TTTTGGAAATAAAAATCGAGGTCGAAGTACCCCCTCAAAAATAACAGGGTTAGAGTATCCCCAAT
*
2915103 GGTGGAAAATTGATG
66 GGTAGAAAATTGATG
* * * * *
2915118 TTTTGGAAAT-AAAATCGAGGTTGGAGTATCTCTTCAAAAATAACAGGGTTAGAGTATCCCCAAT
1 TTTTGGAAATAAAAATCGAGGTCGAAGTACCCCCTCAAAAATAACAGGGTTAGAGTATCCCCAAT
* *
2915182 TGTAGAAAATTGGTG
66 GGTAGAAAATTGATG
*
2915197 TTTTGAAAATAAAA
1 TTTTGGAAATAAAA
2915211 CTGAGGTTGG
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 5 0.07
79 68 0.89
80 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (80 bp):
TTTTGGAAATAAAAATCGAGGTCGAAGTACCCCCTCAAAAATAACAGGGTTAGAGTATCCCCAAT
GGTAGAAAATTGATG
Found at i:2915217 original size:79 final size:79
Alignment explanation
Indices: 2915076--2915226 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 79
2915066 ACCCCCTCAG
* * * * *
2915076 AAATAACGGGGTTGGAGTATCCCTAATGGTGGAAAATTGATGTTTTGGAAATAAAATCGAGGTTG
1 AAATAACAGGGTTAGAGTATCCCCAATGGTAGAAAATTGATGTTTTGAAAATAAAATCGAGGTTG
2915141 GAGTATCTCTTCAA
66 GAGTATCTCTTCAA
* *
2915155 AAATAACAGGGTTAGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAAAA-CTGAGGTT
1 AAATAACAGGGTTAGAGTATCCCCAATGGTAGAAAATTGATGTTTTGAAAATAAAATC-GAGGTT
2915219 GGAGTATC
65 GGAGTATC
2915227 CCCGATTGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 63 0.98
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (79 bp):
AAATAACAGGGTTAGAGTATCCCCAATGGTAGAAAATTGATGTTTTGAAAATAAAATCGAGGTTG
GAGTATCTCTTCAA
Found at i:2915227 original size:51 final size:51
Alignment explanation
Indices: 2915161--2915280 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
2915151 TCAAAAATAA
*
2915161 CAGGGTTAGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAAAA-
1 CAGGGTTGGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAAAAT
* * * *
2915211 CTGAGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAAT
1 CAG-GGTTGGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAAAAT
2915263 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
2915281 TCAGAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
50 2 0.03
51 58 0.94
52 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAAAAT
Found at i:2915296 original size:79 final size:79
Alignment explanation
Indices: 2915213--2915448 Score: 310
Period size: 79 Copynumber: 3.0 Consensus size: 79
2915203 AAATAAAACT
* *
2915213 GAGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCAGGGTTGGAGTATC
1 GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATC
2915278 CCCTCAGAAATAAC
66 CCCTCAGAAATAAC
**** * * * *
2915292 GAGGTTGGAGTATTTTTGATTATGAAAAATTAGTGTTTTGCAAATAAAATCGGGGTTTGAGTATC
1 GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATC
* * * *
2915357 GCTTCAAAAATAAT
66 CCCTCAGAAATAAC
* * * *
2915371 GGGGTTGGAGTATCCCCGATTGTAAAAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATC
1 GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATC
2915436 CCCTCAGAAATAA
66 CCCTCAGAAATAA
2915449 AAACATGAAT
Statistics
Matches: 128, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 128 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (79 bp):
GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATC
CCCTCAGAAATAAC
Found at i:2915354 original size:130 final size:129
Alignment explanation
Indices: 2915080--2915356 Score: 326
Period size: 130 Copynumber: 2.1 Consensus size: 129
2915070 CCTCAGAAAT
*
2915080 AACGGGGTTGGAGTATCCCTAATGGTGGAAAATTGATGTTTTGGAAATAAAATCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCAATGGTGGAAAATTGATGTTTTGGAAATAAAATCGAGGTTGGAGT
* * * *
2915145 ATCTCTTCAAAAATAACAGGGTTAGAGTATCCCCAATTGTAGAAAATTGGTGTTTTGAAAATAA
66 ATCCCCTCAAAAATAACAGGGTTAGAGTATCCCCAATTATAGAAAATTAGTGTTTTGAAAATAA
* * * *
2915209 AACTGAGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATC-AGGGTTGGA
1 AAC-GGGGTTGGAGTATCCCCAATGGTGGAAAATTGATGTTTTGGAAATAAAATCGA-GGTTGGA
* * ***** *
2915273 GTATCCCCTCAGAAATAAC-GAGGTTGGAGTATTTTTGATTAT-GAAAAATTAGTGTTTTGCAAA
64 GTATCCCCTCAAAAATAACAG-GGTTAGAGTATCCCCAATTATAG-AAAATTAGTGTTTTGAAAA
2915336 TAA
127 TAA
*
2915339 AATCGGGGTTTGAGTATC
1 AA-CGGGGTTGGAGTATC
2915357 GCTTCAAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
129 6 0.05
130 117 0.94
131 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (129 bp):
AACGGGGTTGGAGTATCCCCAATGGTGGAAAATTGATGTTTTGGAAATAAAATCGAGGTTGGAGT
ATCCCCTCAAAAATAACAGGGTTAGAGTATCCCCAATTATAGAAAATTAGTGTTTTGAAAATAA
Found at i:2918413 original size:42 final size:41
Alignment explanation
Indices: 2918365--2918456 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
2918355 ACAAAAGAAA
*
2918365 AAAAGGAAATTAAA-TGTGTCATGCTCTTTGAGGACAAAGGAG
1 AAAAGGAAA-TAAAGTGCGTCATGCTCTTTGAGGACAAAGG-G
* *
2918407 AAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACTAAGGG
1 AAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAGGG
2918448 AAAAGGAAA
1 AAAAGGAAA
2918457 GGAAGCCTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 14 0.30
42 32 0.70
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (41 bp):
AAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAGGG
Found at i:2918589 original size:61 final size:59
Alignment explanation
Indices: 2918466--2918883 Score: 331
Period size: 61 Copynumber: 6.9 Consensus size: 59
2918456 AGGAAGCCTC
* * * * * * * *
2918466 TCCTACTCTTTGGGGGCTAGAAGGTGCCACCAACTTGTGCGGGCGTTACAAGGGGAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACC-ACTTGTGTGGGCTTTA-AAAGGAAAAGCG
* * *
2918527 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGTTCATGTGGGCTTTAAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCACTT-GTGTGGGCTTT-AAAAGGAAAAGCG
* *
2918588 TCCTTCTCTTTGAGGAC-AGAAAGGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAAGCG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGG-AAAAGCG
* * * ** *
2918649 TCCTGCTTTTTGAGAACTGAAAGGTGCCATAAACTTGTGTGGGCTTTAAAAGGAAAATGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCA-CCACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* * * * * *
2918710 TCATGCTCTTTGAGGACTAGAAGGTGCCACCAACTAGGGTAGGCTTTAAATA-GAAAATGAG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACC-ACTTGTGTGGGCTTTAAA-AGGAAAA-GCG
* * * * * *
2918771 TTCTGCTCTTTGAGGACTAGAAGATGACATCAACTTGTGTGGGCTTTGAAAGG-AAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCA-CCACTTGTGTGGGCTTTAAAAGGAAAAGCG
* * * ** * *
2918830 TCATGCTTTTTGA-GAGTTGGAAGGTTCCACCAACTTGTATGGGCTTTAAAAGGA
1 TCCTGCTCTTTGAGGA-CTAAAAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGGA
2918884 TGCTTCGGGT
Statistics
Matches: 286, Mismatches: 56, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
58 3 0.01
59 39 0.14
60 18 0.06
61 220 0.77
62 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCACTTGTGTGGGCTTTAAAAGGAAAAGCG
Found at i:2918672 original size:122 final size:122
Alignment explanation
Indices: 2918471--2918883 Score: 372
Period size: 122 Copynumber: 3.4 Consensus size: 122
2918461 GCCTCTCCTA
* * * * **
2918471 CTCTTTGGGGGCTAGAAGGTGCCACCAACTTGTGCGGGCGTTACAAGGGGAAAGCGTCCTGCTCT
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCCTTAAAAGGAAAAAGCGTCCTGCTCT
* ** * * *
2918536 TTGAGGACTAAAAGGTGCCA-CCAGTTCATGTGGGCTTTAAAAAGG-AAAGGCGTCCTT
66 TTGAGAACTAAAAGGTGCCATAAACTT-ATGTGGGCTTT-AAAAGGAAAAGGCGTCATG
* *
2918593 CTCTTTGAGGAC-AGAAAGGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAAGCGTCCTGCTT
1 CTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGCGGGCCTTAAAAGGAAAAAGCGTCCTGCTC
* * * *
2918657 TTTGAGAACTGAAAGGTGCCATAAACTTGTGTGGGCTTTAAAAGGAAAATGTGTCATG
65 TTTGAGAACTAAAAGGTGCCATAAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCATG
* * ** * * * *
2918715 CTCTTTGAGGACTAGAAGGTGCCACCAACTAGGGTAGGCTTTAAATA-GAAAATGAGTTCTGCTC
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCCTTAAA-AGGAAAAAGCGTCCTGCTC
* * * * * * *
2918779 TTTGAGGACTAGAAGATGACATCAACTTGTGTGGGCTTTGAAAGG-AAA-GCGTCATG
65 TTTGAGAACTAAAAGGTGCCATAAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCATG
* * * * ** *
2918835 CTTTTTGA-GAGTTGGAAGGTTCCACCAACTTGTATGGGCTTTAAAAGGA
1 CTCTTTGAGGA-CTAGAAGGTGCCACCAACTTGTGCGGGCCTTAAAAGGA
2918884 TGCTTCGGGT
Statistics
Matches: 242, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
119 3 0.01
120 43 0.18
121 11 0.05
122 179 0.74
123 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (122 bp):
CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCCTTAAAAGGAAAAAGCGTCCTGCTCT
TTGAGAACTAAAAGGTGCCATAAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCATG
Found at i:2918807 original size:183 final size:180
Alignment explanation
Indices: 2918486--2918883 Score: 458
Period size: 183 Copynumber: 2.2 Consensus size: 180
2918476 TGGGGGCTAG
* * * * *
2918486 AAGGTGCCACCAACTTGTGCGGGCGTTACAAGGGGAAAGCGTCCTGCTCTTTGAGGACTAAAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGGAAAAGCGTCATGCTCTTTGAGGACTAAAAGG
** * * * * * * *
2918551 TGCCACCAGTTCATGTGGGCTTTAAAAAGGAAAGGCGTCCTTCTCTTTGAGGACAGAAAGGTGCC
65 TGCCACCAACTCAGGTAGGCTTTAAAAAGAAAAGGAGTCCTGCTCTTTGAGGACAGAAAGATGAC
*
2918616 ACCAACTTGTGTGGGCCTTAAAAGGAAAAAGCGTCCTGCTTTTTGAGAACTGA
130 ACCAACTTGTGTGGGCCTTAAAAGG--AAAGCGTCATGCTTTTTGAGAACTGA
** * *
2918669 AAGGTGCCATAAACTTGTGTGGGCTTTAAAAGGAAAATGTGTCATGCTCTTTGAGGACTAGAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCATGCTCTTTGAGGACTAAAAGG
* * *
2918734 TGCCACCAACT-AGGGTAGGCTTTAAATAGAAAATGAGTTCTGCTCTTTGAGGACTAG-AAGATG
65 TGCCACCAACTCA-GGTAGGCTTTAAAAAGAAAAGGAGTCCTGCTCTTTGAGGAC-AGAAAGATG
* * * ** *
2918797 ACATCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCATGCTTTTTGAGAGTTGG
128 ACACCAACTTGTGTGGGCCTTAAAAGGAAAGCGTCATGCTTTTTGAGAACTGA
* *
2918850 AAGGTTCCACCAACTTGTATGGGCTTTAAAAGGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
2918884 TGCTTCGGGT
Statistics
Matches: 180, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
181 52 0.29
182 8 0.04
183 118 0.66
184 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (180 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCATGCTCTTTGAGGACTAAAAGGT
GCCACCAACTCAGGTAGGCTTTAAAAAGAAAAGGAGTCCTGCTCTTTGAGGACAGAAAGATGACA
CCAACTTGTGTGGGCCTTAAAAGGAAAGCGTCATGCTTTTTGAGAACTGA
Found at i:2919384 original size:13 final size:13
Alignment explanation
Indices: 2919366--2919391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2919356 TACAGCAAGT
2919366 ATGTATCGATACA
1 ATGTATCGATACA
2919379 ATGTATCGATACA
1 ATGTATCGATACA
2919392 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2921642 original size:21 final size:21
Alignment explanation
Indices: 2921609--2921653 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2921599 TTGCAAGTTG
*
2921609 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2921631 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2921651 AAA
1 AAA
2921654 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2923477 original size:15 final size:15
Alignment explanation
Indices: 2923457--2923487 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2923447 TAAAAATGTC
*
2923457 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2923472 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2923487 C
1 C
2923488 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2925354 original size:8 final size:8
Alignment explanation
Indices: 2925341--2925372 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
2925331 ATTTGATTAA
2925341 ATTTTGTG
1 ATTTTGTG
2925349 ATTTTGTG
1 ATTTTGTG
2925357 ATTTTGTG
1 ATTTTGTG
2925365 ATTTTGTG
1 ATTTTGTG
2925373 TTGAATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:2925595 original size:13 final size:13
Alignment explanation
Indices: 2925577--2925612 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2925567 TTTTTCTTTA
*
2925577 TATCGATACATTG
1 TATCGATACAATG
2925590 TATCGATACAATG
1 TATCGATACAATG
2925603 TATCGATACA
1 TATCGATACA
2925613 GGGTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2928175 original size:13 final size:13
Alignment explanation
Indices: 2928157--2928182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2928147 TACAGCAAGT
2928157 ATGTATCGATACA
1 ATGTATCGATACA
2928170 ATGTATCGATACA
1 ATGTATCGATACA
2928183 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2929796 original size:43 final size:42
Alignment explanation
Indices: 2929749--2929848 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
2929739 GCACGTCTTG
2929749 CTTTTCGAGGACAAAAGAAAAAAAGGAAATTAAATGTG-TCCTA
1 CTTTTCGAGGACAAAAGAAAAAAAGGAAA-TAAA-GTGATCCTA
** * * * *
2929792 CTTTTTAAGGAC-AAAGGAGAAAAGGAAATAAAGTGCATCTTG
1 CTTTTCGAGGACAAAAGAAAAAAAGGAAATAAAGTG-ATCCTA
2929834 CTTTTCGAGGACAAA
1 CTTTTCGAGGACAAA
2929849 GGGAAAAGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
40 3 0.07
41 4 0.09
42 27 0.59
43 12 0.26
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (42 bp):
CTTTTCGAGGACAAAAGAAAAAAAGGAAATAAAGTGATCCTA
Found at i:2929816 original size:42 final size:40
Alignment explanation
Indices: 2929769--2929860 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 40
2929759 ACAAAAGAAA
*
2929769 AAAAGGAAATTAAATGTG-TCCTACTTTTTAAGGACAAAGGAG
1 AAAAGGAAA-TAAA-GTGATCCTACTTTTCAAGGACAAAGG-G
* * *
2929811 AAAAGGAAATAAAGTGCATCTTGCTTTTCGAGGACAAAGGG
1 AAAAGGAAATAAAGTG-ATCCTACTTTTCAAGGACAAAGGG
2929852 AAAAGGAAA
1 AAAAGGAAA
2929861 GGAAGCGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
40 3 0.07
41 14 0.32
42 27 0.61
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.22
Consensus pattern (40 bp):
AAAAGGAAATAAAGTGATCCTACTTTTCAAGGACAAAGGG
Found at i:2930014 original size:60 final size:60
Alignment explanation
Indices: 2929869--2930276 Score: 269
Period size: 61 Copynumber: 6.9 Consensus size: 60
2929859 AAGGAAGCGT
* *
2929869 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGATTTACAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAAGC
** * *
2929930 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGTTTGTGT-GGCTTTAAAAAGGA-AAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGATTT-AAAAGGAGAAAGC
* *
2929990 GTCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGG-----AAA--AG---GC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAAGC
* * * *
2930041 GTCTTGCTCTTTGAGGACTGAAAGGTGACACAAACTTGTGTGGGCTTTAAAAGGA-AAAG-
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAAGC
* * * * *
2930100 GTATCATGCTCTTTGAGGACTAGAAGGTACCACCAACTTTTGTGGGCTTTAAATA-GA-AAACGA
1 G--TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGATTTAAA-AGGAGAAA-GC
** * * * * * * * *
2930163 GTTTTTCTCTTTCAGGGCTAGAAGATGCCATCAACTTGTGTGGGCTCTGAAA-G-GAAAGC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAAGC
* * * * * *
2930222 GTTCTGGTTTTTGAGAACTAGAAGGTGTCC-CCAACTTGTATGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACTA-AAGGTG-CCACCAACTTGTGTGGGATTTAAAAGGA
2930277 TGCTTCGGGT
Statistics
Matches: 279, Mismatches: 44, Indels: 48
0.75 0.12 0.13
Matches are distributed among these distances:
51 41 0.15
53 1 0.00
55 3 0.01
56 3 0.01
58 1 0.00
59 39 0.14
60 56 0.20
61 131 0.47
62 3 0.01
63 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAAGC
Found at i:2930056 original size:51 final size:51
Alignment explanation
Indices: 2929984--2930081 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
2929974 TTTAAAAAGG
* *
2929984 AAAGGCGTCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGA
1 AAAGGCGTCCTTCTCTTTGAGGACTGAAAGGTGACACAAACTTGTGTAGGA
2930035 AAAGGCGT-CTTGCTCTTTGAGGACTGAAAGGTGACACAAACTTGTGT
1 AAAGGCGTCCTT-CTCTTTGAGGACTGAAAGGTGACACAAACTTGTGT
2930082 GGGCTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 3 0.07
51 41 0.93
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (51 bp):
AAAGGCGTCCTTCTCTTTGAGGACTGAAAGGTGACACAAACTTGTGTAGGA
Found at i:2931453 original size:61 final size:59
Alignment explanation
Indices: 2931314--2931724 Score: 250
Period size: 61 Copynumber: 6.8 Consensus size: 59
2931304 CGTGTCCTAC
* * * ** * **
2931314 TCTTTGGGGACT-AGAAGGTGCCACCAACTTGTATGGGCTTTACAAGGAGAA-GCATCCTGC
1 TCTTTGAGGACTGA-AAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGGA-AAGGTGTCTTTT
* * *
2931374 TCTTTGAGGACTAAAAGGTGCCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGCGTCTTTT
1 TCTTTGAGGACTGAAAGGTGCCACCACTT-GTGTGGGCTTT-AAAAGGAAAGGTGTCTTTT
* * * **
2931435 TCTTTGAGGTCTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGTGTCCTGCT
1 TCTTTGAGGACTGAAAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGG-AAAGGTGT-CTTTT
* * *
2931497 T-TTTGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGAAATGGTGTCATTC
1 TCTTTGAGGACTGAAAGGTGCCAC-CACTTGTGTGGGCTTTAAAAGGAAA-GGTGTCTTTT
* * * * **
2931557 TCTTTGAGGACT-AGAAGGTGCCACCAACTAGGGTAGGCTTTAAATA-GAAAAGTAGT-TCTGC
1 TCTTTGAGGACTGA-AAGGTGCCACC-ACTTGTGTGGGCTTTAAA-AGGAAAGGT-GTCT-TTT
* * * * **
2931618 TCTTTGAGGACTAGATTA--TGCCATCAACTTGTGTGGGCTTTGAAAGGAAAGCGT-CCTGCT
1 TCTTTGAGGACT-GA-AAGGTGCCA-CCACTTGTGTGGGCTTTAAAAGGAAAG-GTGTCTTTT
* * *
2931678 T-TTTGAGAACT-AGAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGA
1 TCTTTGAGGACTGA-AAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGGA
2931725 TGCTTCGGGT
Statistics
Matches: 277, Mismatches: 50, Indels: 49
0.74 0.13 0.13
Matches are distributed among these distances:
57 2 0.01
58 1 0.00
59 36 0.13
60 50 0.18
61 175 0.63
62 11 0.04
63 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (59 bp):
TCTTTGAGGACTGAAAGGTGCCACCACTTGTGTGGGCTTTAAAAGGAAAGGTGTCTTTT
Found at i:2931533 original size:122 final size:119
Alignment explanation
Indices: 2931314--2931724 Score: 440
Period size: 122 Copynumber: 3.4 Consensus size: 119
2931304 CGTGTCCTAC
* * * * **
2931314 TCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTACAAGGAGAAGCATCCTGCTCTTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGTGTCCTGCTCTTT
* * *
2931379 GAGGACTAAAAGGTGCCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGCGTCTTTT
66 GAGGACTGAAAGGTGCCACAACTT-GTGTGGGCTTT-AAAAGGAAAGGCGTCTTTT
* * *
2931435 TCTTTGAGGTCT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGTGTCCTGCTTT
1 TCTTTGAGGACTAG-AAGGTGCCACCAACTTGTATAGGCTTTAAAAGG-AAAAGTGTCCTGCTCT
* * *
2931499 TTGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGAAATGGTGTCATTC
64 TTGAGGACTGAAAGGTGCCAC-AACTTGTGTGGGCTTTAAAAGGAAA-GGCGTCTTTT
* ** *
2931557 TCTTTGAGGACTAGAAGGTGCCACCAACTAGGGTAGGCTTTAAATA-GAAAAGTAGTTCTGCTCT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAA-AGGAAAAGT-GTCCTGCTCT
* * **
2931621 TTGAGGACTAGATTA--TGCCATCAACTTGTGTGGGCTTTGAAAGGAAA-GCGTCCTGCT
64 TTGAGGACT-GA-AAGGTGCCA-CAACTTGTGTGGGCTTTAAAAGGAAAGGCGT-CTTTT
*
2931678 T-TTTGAGAACTAGAAGGTGCCACCAACTTGTAT-GAGCTTTAAAAGGA
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAG-GCTTTAAAAGGA
2931725 TGCTTCGGGT
Statistics
Matches: 246, Mismatches: 31, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
119 2 0.01
120 42 0.17
121 57 0.23
122 136 0.55
123 8 0.03
124 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (119 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGTGTCCTGCTCTTT
GAGGACTGAAAGGTGCCACAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCTTTT
Found at i:2931624 original size:183 final size:180
Alignment explanation
Indices: 2931305--2931724 Score: 463
Period size: 183 Copynumber: 2.3 Consensus size: 180
2931295 GAAAAGAAGC
* * * *
2931305 GTGTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTACAAGGAGAAGCATC
1 GTGTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGCATC
* ** * * * * * **
2931370 CTGCTCTTTGAGGACTAAAAGGTGCCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGCGTCTTTT
66 ATGCTCTTTGAGGACTAAAAGGTGCCACCAACTAGGGTAGGCTTTAAAAAGAAAAGGAGTCTTGC
*
2931435 TCTTTGAGGTCT-GA-AAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAA
131 TCTTTGAGGACTAGATAA--TGCCACCAACTTGTGTAGGCTTTAAAAGG--AAA
* * *
2931487 GTGTCCTGCTTTTTGAGGACT-GAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGA-AATGGT
1 GTGTCCTGCTTTTTGAGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAA--GC
* * * * *
2931550 GTCATTCTCTTTGAGGACTAGAAGGTGCCACCAACTAGGGTAGGCTTTAAATAGAAAAGTAGT-T
63 ATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTAGGGTAGGCTTTAAAAAGAAAAGGAGTCT
* * * *
2931614 CTGCTCTTTGAGGACTAGATTATGCCATCAACTTGTGTGGGCTTTGAAAGGAAA
128 -TGCTCTTTGAGGACTAGATAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAA
* * *
2931668 GCGTCCTGCTTTTTGAGAACTAGAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGA
1 GTGTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
2931725 TGCTTCGGGT
Statistics
Matches: 199, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
181 56 0.28
182 51 0.26
183 89 0.45
184 2 0.01
185 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (180 bp):
GTGTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGCATC
ATGCTCTTTGAGGACTAAAAGGTGCCACCAACTAGGGTAGGCTTTAAAAAGAAAAGGAGTCTTGC
TCTTTGAGGACTAGATAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAA
Found at i:2932754 original size:41 final size:42
Alignment explanation
Indices: 2932642--2932763 Score: 115
Period size: 41 Copynumber: 2.9 Consensus size: 42
2932632 CTCTTCGAGA
* * * * **
2932642 ACAAAAGAAAAGAAGGAAATTAAA-TGTGTCCTACTATTTTTGG
1 ACAAAAGAGAA-AAGGAAA-TAAAGCGTGTCCTGCTCTTTAAGG
* * *
2932685 ACAAAGGAGAAAAGGAAATAAAGTGTGTCTTGCTCTTTAAGG
1 ACAAAAGAGAAAAGGAAATAAAGCGTGTCCTGCTCTTTAAGG
2932727 ACAAAAG-GAAAAGGAAA-AGAAGCGTGTCCTGCTCTTT
1 ACAAAAGAGAAAAGGAAATA-AAGCGTGTCCTGCTCTTT
2932764 GGGGACAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 30 0.45
42 27 0.40
43 9 0.13
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (42 bp):
ACAAAAGAGAAAAGGAAATAAAGCGTGTCCTGCTCTTTAAGG
Found at i:2932897 original size:61 final size:58
Alignment explanation
Indices: 2932773--2933113 Score: 276
Period size: 61 Copynumber: 5.6 Consensus size: 58
2932763 TGGGGACAAG
* * * * *
2932773 AAGGTGCCACCAACTTGTATGGGCTTTATAAGGAGAAGCAT-CCTGCTTTTTGAGGACTAA
1 AAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGGA-AAG-GTGTCTGCTTTTTGAGGACTGA
* * **
2932833 AAGGTACCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGTGTCTTTTTCTTTGAGGACTGA
1 AAGGTGCCACCACTT-GTGTGGGCTTT-AAAAGGAAAGGTGTCTGCTT-TTTGAGGACTGA
***
2932894 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTTTTGAGGACTGA
1 AAGGTGCCACC-ACTTGTGTGGGCTTTAAAAGG-AAAGGTGT-CTGCTTTTTGAGGACTGA
* *
2932955 AAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGAAATGGTGTCAAGCTTTTTGAGGACT-A
1 AAGGTGCCAC-CACTTGTGTGGGCTTTAAAAGGAAA-GGTGTC-TGCTTTTTGAGGACTGA
* * * * *
2933015 GAAGGTGCCACCAACTGGGGTGGGCTTTAAATAGAAAAGGAGTTCTGCTCTTTGAGGACTAGA
1 -AAGGTGCCACC-ACTTGTGTGGGCTTTAAA-AGGAAAGGTG-TCTGCTTTTTGAGGACT-GA
* * * *
2933078 TTA--TGCCATCAACTTGTGTAGGCTTTGAAAGGAAAG
1 -AAGGTGCCA-CCACTTGTGTGGGCTTTAAAAGGAAAG
2933114 CATCCTACTT
Statistics
Matches: 228, Mismatches: 36, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
59 4 0.02
60 44 0.19
61 163 0.71
62 15 0.07
63 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (58 bp):
AAGGTGCCACCACTTGTGTGGGCTTTAAAAGGAAAGGTGTCTGCTTTTTGAGGACTGA
Found at i:2933008 original size:122 final size:120
Alignment explanation
Indices: 2932759--2933168 Score: 374
Period size: 122 Copynumber: 3.4 Consensus size: 120
2932749 CGTGTCCTGC
* * * * * * *
2932759 TCTTTGGGGACAAGAAGGTGCCACCAACTTGTATGGGCTTTATAAGG-AGAAGCATCCTGCTTTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTTT
* * * * ***
2932823 TGAGGACTAAAAGGTACCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGTGTCTTTT
66 TGAGGACTGAAAGGTGCCACAACTT-GTGTGGGCTTT-AAAAGGAAAGGTGTCAGCT
2932880 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTT
1 TCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTT
2932944 TTGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGAAATGGTGTCAAGCT
65 TTGAGGACTGAAAGGTGCCAC-AACTTGTGTGGGCTTTAAAAGGAAA-GGTGTC-AGCT
* * * * *
2933003 T-TTTGAGGACTAGAAGGTGCCACCAACTGGGGTGGGCTTTAAATA-GAAAAGGA-GTTCTGCTC
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGAAAA-AACGTCCTGCTT
* * * * *
2933065 TTTGAGGACTAGATTA--TGCCATCAACTTGTGTAGGCTTTGAAAGGAAAGCAT-CCTA-CT
64 TTTGAGGACT-GA-AAGGTGCCA-CAACTTGTGTGGGCTTTAAAAGGAAAG-GTGTC-AGCT
* * * *
2933123 T-TTTGAGAACTAGAAGGTGCC-CCAACTTGTATGAGCTTTAATAGGA
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
2933169 TGCTTCGGGT
Statistics
Matches: 245, Mismatches: 31, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
118 1 0.00
119 18 0.07
120 23 0.09
121 53 0.22
122 138 0.56
123 11 0.04
124 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (120 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTTT
TGAGGACTGAAAGGTGCCACAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCAGCT
Found at i:2933069 original size:183 final size:180
Alignment explanation
Indices: 2932771--2933168 Score: 430
Period size: 183 Copynumber: 2.2 Consensus size: 180
2932761 TTTGGGGACA
* **
2932771 AGAAGGTGCCACCAACTTGTATGGGCTTTATAAGGAGAAGCATCCTGCTTTTTGAGGACTAAAAG
1 AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGCATCAAGCTTTTTGAGGACTAAAAG
** * * * **
2932836 GTACCACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGTGTCTTTTTCTTTGAGGACT-GA-AAGGT
66 GTACCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGAGTCTTGCTCTTTGAGGACTAGATAA--T
* * * *
2932899 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTTTTTGAGGACT
129 GCCACCAACTTGTGTAGGCTTTAAAAGG--AAAACATCCTACTTTTTGAGAACT
* * ** *
2932953 -GAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGA-AATGGTGTCAAGCTTTTTGAGGACTAG
1 AG-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAA--GCATCAAGCTTTTTGAGGACTAA
* * * *
2933016 AAGGTGCCACCAACTGGGGTGGGCTTTAAATAGAAAAGGAGT-TCTGCTCTTTGAGGACTAGATT
63 AAGGTACCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGAGTCT-TGCTCTTTGAGGACTAGATA
* * *
2933080 ATGCCATCAACTTGTGTAGGCTTTGAAAGGAAAGCATCCTACTTTTTGAGAACT
127 ATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACATCCTACTTTTTGAGAACT
* *
2933134 AGAAGGTGCC-CCAACTTGTATGAGCTTTAATAGGA
1 AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
2933169 TGCTTCGGGT
Statistics
Matches: 179, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
180 21 0.12
181 31 0.17
182 33 0.18
183 91 0.51
184 2 0.01
185 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (180 bp):
AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGCATCAAGCTTTTTGAGGACTAAAAG
GTACCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGAGTCTTGCTCTTTGAGGACTAGATAATGC
CACCAACTTGTGTAGGCTTTAAAAGGAAAACATCCTACTTTTTGAGAACT
Found at i:2934148 original size:42 final size:40
Alignment explanation
Indices: 2934077--2934216 Score: 138
Period size: 42 Copynumber: 3.4 Consensus size: 40
2934067 GAGCACGTCT
* * * *
2934077 TCCTCTTCGAGAACAAAAGAAAAGAAGGAAATTAAATGTGTCC
1 TCCTCTTTGAGGACAAAGGAGAA-AAGGAAA-TAAA-GTGTCC
*
2934120 TCCTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGGTTGTCT
1 TCCTCTTTGAGGACAAAGGAGAAAAGGAAATAAA-G-TGTCC
*
2934162 TGCTCTTTGAGGACAAAGG-GAAAAGGAAAATAAGAGTGTCC
1 TCCTCTTTGAGGACAAAGGAGAAAAGG-AAATAA-AGTGTCC
* *
2934203 TGCTCTTTGGGGAC
1 TCCTCTTTGAGGAC
2934217 TAGAAGGTGC
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 29 0.34
42 36 0.42
43 20 0.24
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGTCC
Found at i:2934207 original size:41 final size:42
Alignment explanation
Indices: 2934101--2934216 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
2934091 AAAAGAAAAG
* * *
2934101 AAGGAAATTAAATGTGTCCTCCTCTTTGAGGACAAAGGAGAA
1 AAGGAAAATAAAGGTGTCCTGCTCTTTGAGGACAAAGGAGAA
*
2934143 AAGG-AAATAAAGGTTGTCTTGCTCTTTGAGGACAAAGG-GAA
1 AAGGAAAATAAAGG-TGTCCTGCTCTTTGAGGACAAAGGAGAA
*
2934184 AAGGAAAAT-AAGAGTGTCCTGCTCTTTGGGGAC
1 AAGGAAAATAAAG-GTGTCCTGCTCTTTGAGGAC
2934217 TAGAAGGTGC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 34 0.52
42 31 0.48
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (42 bp):
AAGGAAAATAAAGGTGTCCTGCTCTTTGAGGACAAAGGAGAA
Found at i:2934430 original size:61 final size:60
Alignment explanation
Indices: 2934199--2934612 Score: 351
Period size: 61 Copynumber: 6.9 Consensus size: 60
2934189 AAATAAGAGT
* * * * **
2934199 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTACAAGGGGAAGCA
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-A
* * * * *
2934260 -TCCTGCTCTTTGAGGACTAAAAGGTGCTACC-AGTTCGTGTGGGCTTTAAAAAGGAAAGGCA
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAGGAAAAG-A
** * *
2934321 -T-CTTTTTCTTTGAGGACTAAAAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGAAAAAA
1 GTCCTGCTT-TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
* ** * *
2934379 TGTCCTGCTTTTTGAGGACT-GAAACGTGCCATAAACTTGTGTGGGCTTTAAAAGGAAATGGT
1 -GTCCTGCTTTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-AGA
* * * * *
2934441 GTCATGCTCTTTGAGGACTAGAAGGTGGCACCAACTAGGGTGGGCTTTAAATA-GAAAAGGA
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGAAAA-GA
* *** * *
2934502 GTTCTGCTTTTTGAGGACTAGATTATGCCATCAACTTGTGTGGGCTTTGAAAGG-AAAGCA
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-A
* * * *
2934562 -TCCTGCTTTTTGAGAACTAGAAGGTGCCAGCAACTTGTATGAGCTTTAAAA
1 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
2934613 TGATGCTTCG
Statistics
Matches: 283, Mismatches: 55, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
58 1 0.00
59 55 0.19
60 76 0.27
61 149 0.53
62 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (60 bp):
GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
Found at i:2934517 original size:182 final size:181
Alignment explanation
Indices: 2934263--2934612 Score: 404
Period size: 182 Copynumber: 1.9 Consensus size: 181
2934253 GGAAGCATCC
** * * * **
2934263 TGCTCTTTGAGGACTAAAAGGTGCTACCAGTTCGTGTGGGCTTTAAAAAGGAAAGGCATCTTTTT
1 TGCTCTTTGAGGACTAAAAGGTGCTACCAACTAGGGTGGGCTTTAAAAAGAAAAGGCATCTGCTT
*
2934328 CTTTGAGGACTAAAAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGAAAAAATGTCCTGCTTTTT
66 CTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAA--TCCTGCTTTTT
* * * *
2934392 GAGGACT-GAAACGTGCCATAAACTTGTGTGGGCTTTAAAAGGAAATGGTGTCA
129 GAGAACTAG-AACGTGCCAGAAACTTGTATGAGCTTTAAAAGGAAATGGTGTCA
* *
2934445 TGCTCTTTGAGGACTAGAAGGTGGC-ACCAACTAGGGTGGGCTTTAAATAGAAAAGG-AGTTCTG
1 TGCTCTTTGAGGACTAAAAGGT-GCTACCAACTAGGGTGGGCTTTAAAAAGAAAAGGCA--TCTG
* ** * * **
2934508 CTT-TTTGAGGACTAGATTATGCCATCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCTGCTTTT
63 CTTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAATCCTGCTTTT
* *
2934572 TGAGAACTAGAAGGTGCCAGCAACTTGTATGAGCTTTAAAA
128 TGAGAACTAGAACGTGCCAGAAACTTGTATGAGCTTTAAAA
2934613 TGATGCTTCG
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
181 44 0.31
182 61 0.44
183 35 0.25
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (181 bp):
TGCTCTTTGAGGACTAAAAGGTGCTACCAACTAGGGTGGGCTTTAAAAAGAAAAGGCATCTGCTT
CTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAATCCTGCTTTTTGA
GAACTAGAACGTGCCAGAAACTTGTATGAGCTTTAAAAGGAAATGGTGTCA
Found at i:2935575 original size:43 final size:42
Alignment explanation
Indices: 2935519--2935622 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 42
2935509 GAAAGGAGCA
*
2935519 CGTCTTGCCCTTTGAGGACAAAAGAAAAAAAGGAAATTAA-ATG
1 CGTCTTGCTCTTTGAGGACAAAAGAAAAAAA-GAAA-TAAGATG
* * * * *
2935562 CGTCCTGCTCTTTGAGGACAAAGGAGAAACAGAAATAAGGTG
1 CGTCTTGCTCTTTGAGGACAAAAGAAAAAAAGAAATAAGATG
*
2935604 TGTCTTGCTCTTTGAGGAC
1 CGTCTTGCTCTTTGAGGAC
2935623 TAAGGGAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
41 3 0.06
42 23 0.44
43 26 0.50
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (42 bp):
CGTCTTGCTCTTTGAGGACAAAAGAAAAAAAGAAATAAGATG
Found at i:2935614 original size:42 final size:41
Alignment explanation
Indices: 2935519--2935636 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 41
2935509 GAAAGGAGCA
* * *
2935519 CGTCTTGCCCTTTGAGGACAAAAGAAAAAAAGGAAATTAAATG
1 CGTCTTGCTCTTTGAGGAC-AAAGGAGAAAA-GAAATTAAATG
* *
2935562 CGTCCTGCTCTTTGAGGACAAAGGAGAAACAGAAA-TAAGGTG
1 CGTCTTGCTCTTTGAGGACAAAGGAGAAA-AGAAATTAA-ATG
* *
2935604 TGTCTTGCTCTTTGAGGACTAAGG-GAAAAGAAA
1 CGTCTTGCTCTTTGAGGACAAAGGAGAAAAGAAA
2935637 AGGAACCGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 5 0.08
41 7 0.11
42 35 0.54
43 18 0.28
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (41 bp):
CGTCTTGCTCTTTGAGGACAAAGGAGAAAAGAAATTAAATG
Found at i:2935748 original size:61 final size:60
Alignment explanation
Indices: 2935646--2936064 Score: 409
Period size: 61 Copynumber: 6.9 Consensus size: 60
2935636 AAGGAACCGT
* * * *
2935646 GTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGCGTTACAAGGAGAAAGC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGC
* * *
2935707 GTCCTACTCTTTGAGGACTAAAAGGTGCCACC-AGTTCGTGTGGACTTTAAAAAGGAAAGGC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAGGAAAAGC
* * * *
2935768 GTCCTTCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGGGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GC
* * *
2935829 GTCCTACTCTATGAGGACTGAAAGGTACC-CCAAACTTGTGTGGGCTTTAAAAGGAAAAG-
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAGGAAAAGC
* * ** * *
2935888 GTTTCATGCTCTTTGAGGACTTGAAGGTGCCACCAACTTGTGTGGGCTTTAAATA-GAAATGGA
1 G--TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGAAA-AGC
** * * * * * *
2935951 GTTTTTCTCTTTAAGGACTAGAAGATGCCATCAACTTGTGTGGGCTTTGAAAGG-AAAGC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGC
* * * * *
2936010 ATCCTGCT-TTTGGAGAACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
1 GTCCTACTCTTT-GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
2936065 TACTTCGGGT
Statistics
Matches: 298, Mismatches: 46, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
58 3 0.01
59 42 0.14
60 18 0.06
61 221 0.74
62 13 0.04
63 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (60 bp):
GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGC
Found at i:2937670 original size:20 final size:21
Alignment explanation
Indices: 2937647--2937685 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2937637 CAAAGCAATA
*
2937647 TGTATCGATAC-TTCTAGGCT
1 TGTATCAATACTTTCTAGGCT
2937667 TGTATCAATACTTTCTAGG
1 TGTATCAATACTTTCTAGG
2937686 GTTTTGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
TGTATCAATACTTTCTAGGCT
Found at i:2941187 original size:13 final size:13
Alignment explanation
Indices: 2941169--2941193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2941159 GCCACTCTTA
2941169 AAGAAAACAAAAC
1 AAGAAAACAAAAC
2941182 AAGAAAACAAAA
1 AAGAAAACAAAA
2941194 ACTAGCTTAA
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:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (13 bp):
AAGAAAACAAAAC
Found at i:2948616 original size:22 final size:22
Alignment explanation
Indices: 2948590--2948634 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2948580 ATAGTGATGT
* * *
2948590 ATGAACGGTGATGTATCGATAC
1 ATGAACAGCGATGCATCGATAC
*
2948612 ATGAATAGCGATGCATCGATAC
1 ATGAACAGCGATGCATCGATAC
2948634 A
1 A
2948635 AAGTGAGACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (22 bp):
ATGAACAGCGATGCATCGATAC
Found at i:2948709 original size:19 final size:20
Alignment explanation
Indices: 2948662--2948711 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2948652 TGCCAGTTTT
**
2948662 ATGTATCGATACAATTCATG
1 ATGTATCGATACAATTCAAC
* *
2948682 ATGTTTCGATACAA-TGAAC
1 ATGTATCGATACAATTCAAC
2948701 ATGTATCGATA
1 ATGTATCGATA
2948712 TTTAGCAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCAAC
Found at i:2954024 original size:22 final size:22
Alignment explanation
Indices: 2953965--2954065 Score: 141
Period size: 22 Copynumber: 4.6 Consensus size: 22
2953955 ACTATTCATA
*
2953965 ATGTATCAATACATGAATAGTG
1 ATGTATCGATACATGAATAGTG
* ** *
2953987 ATG-AACAGATGTATGAACAGTG
1 ATGTATC-GATACATGAATAGTG
2954009 ATGTATCGATACATGAATAGTG
1 ATGTATCGATACATGAATAGTG
2954031 ATGTATCGATACATGAATAGTG
1 ATGTATCGATACATGAATAGTG
2954053 ATGTATCGATACA
1 ATGTATCGATACA
2954066 AAGTGAGATT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.03
22 64 0.94
23 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (22 bp):
ATGTATCGATACATGAATAGTG
Found at i:2956311 original size:21 final size:20
Alignment explanation
Indices: 2956263--2956320 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2956253 CCATTGAGCC
*
2956263 AAATGTATCGATACAATTCA
1 AAATGTATAGATACAATTCA
* *
2956283 TAATGTATAGATACAATTTA
1 AAATGTATAGATACAATTCA
*
2956303 AACATGTATTGATACAAT
1 AA-ATGTATAGATACAAT
2956321 CACATGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATGTATAGATACAATTCA
Found at i:2958060 original size:16 final size:16
Alignment explanation
Indices: 2958039--2958070 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2958029 AGAAATCCCT
2958039 AAGTGATGGAAAATAA
1 AAGTGATGGAAAATAA
2958055 AAGTGATGGAAAATAA
1 AAGTGATGGAAAATAA
2958071 CTAAGATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
AAGTGATGGAAAATAA
Found at i:2958967 original size:10 final size:10
Alignment explanation
Indices: 2958952--2958996 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
2958942 TTCATTCCTC
2958952 TCTTTTTTTT
1 TCTTTTTTTT
2958962 TC--TTTTTT
1 TCTTTTTTTT
*
2958970 TCTCTTTTTT
1 TCTTTTTTTT
2958980 TCTTTTTTTT
1 TCTTTTTTTT
2958990 T-TTTTTT
1 TCTTTTTT
2958997 GCTATTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.25
9 6 0.19
10 18 0.56
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:2959010 original size:1 final size:1
Alignment explanation
Indices: 2958954--2958996 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
2958944 CATTCCTCTC
* * * *
2958954 TTTTTTTTTCTTTTTTTCTCTTTTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2958997 GCTATTTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:2959903 original size:14 final size:14
Alignment explanation
Indices: 2959884--2959923 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
2959874 CTACGACCCT
2959884 TTTTTATTATTTTA
1 TTTTTATTATTTTA
2959898 TTTTTATTATTATTA
1 TTTTTATTATT-TTA
2959913 TTTTTA-TATTT
1 TTTTTATTATTT
2959924 CTTTAGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.04
14 15 0.60
15 9 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTATTTTA
Found at i:2963301 original size:12 final size:13
Alignment explanation
Indices: 2963275--2963303 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2963265 CAGGAATGGA
2963275 TTTTTGTTGAGTG
1 TTTTTGTTGAGTG
2963288 TTTTTGTTGA-TG
1 TTTTTGTTGAGTG
2963300 TTTT
1 TTTT
2963304 GGCTAAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (13 bp):
TTTTTGTTGAGTG
Found at i:2966610 original size:19 final size:19
Alignment explanation
Indices: 2966586--2966624 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2966576 CGCATTAAAA
2966586 TAGCTAAGTCTTAGAGTTT
1 TAGCTAAGTCTTAGAGTTT
2966605 TAGCTAAGTCTTAGAGTTT
1 TAGCTAAGTCTTAGAGTTT
2966624 T
1 T
2966625 TATTTAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (19 bp):
TAGCTAAGTCTTAGAGTTT
Done.