Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 230 of 255
Found at i:76099972 original size:29 final size:28
Alignment explanation
Indices: 76099933--76099997 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
76099923 GTATAATTTT
*
76099933 TTTAATTTTTTTAATTTGTTAAGAAATA
1 TTTAATTTTTTTAATTTGTTAAAAAATA
76099961 TTTAATATTTTTTAATTTGTTAAAAAATA
1 TTTAAT-TTTTTTAATTTGTTAAAAAATA
*
76099990 ATT-ATTTT
1 TTTAATTTT
76099998 AATATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 3 0.09
28 8 0.24
29 23 0.68
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTAATTTTTTTAATTTGTTAAAAAATA
Found at i:76112086 original size:26 final size:26
Alignment explanation
Indices: 76112034--76112099 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
76112024 TCTTTCTCTT
76112034 TTTC-TTTTCTCATTTTTTCTCTCCTA
1 TTTCATTTTCT-ATTTTTTCTCTCCTA
* * *
76112060 -TTCGTTTTCTATTTTGTTCTTTTCTA
1 TTTCATTTTCTATTTT-TTCTCTCCTA
76112086 TTTCATTTTCTATT
1 TTTCATTTTCTATT
76112100 CTCATTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.24
26 14 0.41
27 12 0.35
ACGTcount: A:0.09, C:0.20, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTCATTTTCTATTTTTTCTCTCCTA
Found at i:76112099 original size:27 final size:25
Alignment explanation
Indices: 76112021--76112099 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 25
76112011 TTTCTCCTTC
*
76112021 TTTTCTTTCTCTTTTTCTTTTCTCATT
1 TTTTCTTT-TCTATTTCTTTTCT-ATT
* *
76112048 TTTTCTCTCCTA-TTCGTTTTCTATT
1 TTTTCTTTTCTATTTC-TTTTCTATT
76112073 TTGTTCTTTTCTATTTCATTTTCTATT
1 TT-TTCTTTTCTATTTC-TTTTCTATT
76112100 CTCATTTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.19
26 16 0.37
27 19 0.44
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.70
Consensus pattern (25 bp):
TTTTCTTTTCTATTTCTTTTCTATT
Found at i:76114369 original size:192 final size:194
Alignment explanation
Indices: 76114007--76114387 Score: 559
Period size: 192 Copynumber: 2.0 Consensus size: 194
76113997 CGATTTATCA
* * *
76114007 AAATTGATTTGAAGTCCTGAGAAAGAGAAGACATTTAGAAGAAATGATTTAAGAGACTTGCATAC
1 AAATTGATTTGAAGTCCTGAGAAAGAGAAGACAGTTAGAAGAAATGATTTAAGAGACCTACATAC
* * *
76114072 TTAAACAAAAGCATTAAAGAAAATGTAGTAACCATAAACAAAAAGTAGGTGATTAATGGGTGGAG
66 TTAAACAAAAACATTAAAGAAAATGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGAGGAG
* * * * *
76114137 CATTTCTCGAGATTTTAATGCCTTGTATGGAACCATTATGATTTGCCGCCAATTGTAGTGATTG
131 CATTTCTCGAGATTTTAATACATTATATAGAACCATTATGATCTGCCGCCAATTGTAGTGATTG
* * * *
76114201 AAATTGATTTGAAGTCTTGTGAGAGAGAA-A-AGTTAGAAGAAATGATTTAAGAGACCTACATGC
1 AAATTGATTTGAAGTCCTGAGAAAGAGAAGACAGTTAGAAGAAATGATTTAAGAGACCTACATAC
* * *
76114264 TTCAACAAAAATATTAAAGAAAATGTAGCAACCATAAACAAAAAGTAGGTGATTAATGTGAGGAG
66 TTAAACAAAAACATTAAAGAAAATGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGAGGAG
* * *
76114329 CATTTCTTGAGATTTTAATATATTATATAGAACTATTATGATCTGCCGCCAATTGTAGT
131 CATTTCTCGAGATTTTAATACATTATATAGAACCATTATGATCTGCCGCCAATTGTAGT
76114388 AATAGTTTAG
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
192 139 0.84
193 1 0.01
194 26 0.16
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (194 bp):
AAATTGATTTGAAGTCCTGAGAAAGAGAAGACAGTTAGAAGAAATGATTTAAGAGACCTACATAC
TTAAACAAAAACATTAAAGAAAATGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGAGGAG
CATTTCTCGAGATTTTAATACATTATATAGAACCATTATGATCTGCCGCCAATTGTAGTGATTG
Found at i:76119397 original size:18 final size:21
Alignment explanation
Indices: 76119360--76119403 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
76119350 ATATTTTTAA
*
76119360 ATTTTAGAATTTCTATAAA-T
1 ATTTTAGAATTTCTAAAAATT
76119380 ATTTT-GAATTT-TAAAAATT
1 ATTTTAGAATTTCTAAAAATT
76119399 ATTTT
1 ATTTT
76119404 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAGAATTTCTAAAAATT
Found at i:76123936 original size:3 final size:3
Alignment explanation
Indices: 76123928--76123953 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
76123918 GAAAATAATG
76123928 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
76123954 CTTTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:76126248 original size:36 final size:37
Alignment explanation
Indices: 76126195--76126264 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
76126185 AAAAAGTGAG
*
76126195 TAGTGCATAGGGTGCCACGTAAGAAG-GTTGAATAAA
1 TAGTGCATAGGGTGCCACGTAACAAGCGTTGAATAAA
*
76126231 TAGTGCATCGGAG-GCCACGTAACAAGCGTTGAAT
1 TAGTGCATAGG-GTGCCACGTAACAAGCGTTGAAT
76126265 CGTTAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 22 0.73
37 8 0.27
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (37 bp):
TAGTGCATAGGGTGCCACGTAACAAGCGTTGAATAAA
Found at i:76138834 original size:42 final size:42
Alignment explanation
Indices: 76138788--76138916 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
76138778 AATTGGACGT
76138788 GCTTTCTTGCCAATTGTGCAGAAAGCTCACCTAGCTGGATGA
1 GCTTTCTTGCCAATTGTGCAGAAAGCTCACCTAGCTGGATGA
* ** * * *
76138830 GCTTTCTTGAC-ATCTGTGTGGAAAGCTCGCCTAGCTAGACGA
1 GCTTTCTTGCCAAT-TGTGCAGAAAGCTCACCTAGCTGGATGA
* * * *
76138872 GC-TT-TTGCCAACTT-TGCAGAAAACACACCCAGCTGGATGC
1 GCTTTCTTGCCAA-TTGTGCAGAAAGCTCACCTAGCTGGATGA
76138912 GCTTT
1 GCTTT
76138917 TCATACCCTT
Statistics
Matches: 67, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
40 23 0.34
41 8 0.12
42 36 0.54
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (42 bp):
GCTTTCTTGCCAATTGTGCAGAAAGCTCACCTAGCTGGATGA
Found at i:76142603 original size:10 final size:11
Alignment explanation
Indices: 76142587--76142628 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
76142577 TGACCTTTCC
76142587 AAGGTATGGG-
1 AAGGTATGGGA
*
76142597 TAGGTATGGGA
1 AAGGTATGGGA
*
76142608 AAGGTATGGGC
1 AAGGTATGGGA
*
76142619 AAGGAATGGG
1 AAGGTATGGG
76142629 TATATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:76146696 original size:18 final size:18
Alignment explanation
Indices: 76146673--76146739 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
76146663 CTCAACTACT
*
76146673 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
76146691 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
* *
76146709 ATATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
76146727 GTATACGTGAATA
1 GTATACGTGAATA
76146740 CTGTCGTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:76146725 original size:36 final size:36
Alignment explanation
Indices: 76146674--76146744 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
76146664 TCAACTACTG
* *
76146674 TATACGTGAACAGTACCGTATACGTGAATAGTGTCA
1 TATACGTAAACAGTACCGTATACGTGAATACTGTCA
*
76146710 TATACGTAAATAGTACCGTATACGTGAATACTGTC
1 TATACGTAAACAGTACCGTATACGTGAATACTGTC
76146745 GTAAATGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (36 bp):
TATACGTAAACAGTACCGTATACGTGAATACTGTCA
Found at i:76146747 original size:18 final size:18
Alignment explanation
Indices: 76146673--76146747 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
76146663 CTCAACTACT
* **
76146673 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGTC
76146691 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTGTC
* * **
76146709 ATATACGTAAATAGTACC
1 GTATACGTGAATAGTGTC
*
76146727 GTATACGTGAATACTGTC
1 GTATACGTGAATAGTGTC
76146745 GTA
1 GTA
76146748 AATGGTCGTA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGTC
Found at i:76147319 original size:11 final size:11
Alignment explanation
Indices: 76147280--76147333 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
76147270 TTGACCTTTC
76147280 CAAGGTATGGG
1 CAAGGTATGGG
* *
76147291 -TAGGTATGAG
1 CAAGGTATGGG
* *
76147301 AAATGTATGGG
1 CAAGGTATGGG
76147312 CAAGGTATGGG
1 CAAGGTATGGG
*
76147323 CAAGGAATGGG
1 CAAGGTATGGG
76147334 TATATTCTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.31, C:0.06, G:0.43, T:0.20
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:76150455 original size:51 final size:51
Alignment explanation
Indices: 76150389--76150514 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 51
76150379 ATGATCATAA
* *
76150389 AAGATATGATATTATAATCTTAGATATCTTAGATATGATAT-TGAATCTTAT
1 AAGATATGATATTATAATCTTAGATATCTTAGATAAGATATGT-AATCTTAG
* * ** *
76150440 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTAATCTTAG
1 AAGATATGATATTATAATCTTAGATATCTTAGATAAGATATGTAATCTTAG
*
76150491 AAGATATGATATTATATTCTTAGA
1 AAGATATGATATTATAATCTTAGA
76150515 GATTTGATGG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (51 bp):
AAGATATGATATTATAATCTTAGATATCTTAGATAAGATATGTAATCTTAG
Found at i:76152372 original size:96 final size:96
Alignment explanation
Indices: 76152202--76152491 Score: 472
Period size: 96 Copynumber: 3.0 Consensus size: 96
76152192 GTGTCCGAGG
* * * * *
76152202 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
76152267 AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
76152298 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
76152363 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
* * *
76152394 AAGTCTGTCATCAAAGGAAATGATGGAGCAGACAATGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
76152459 TAAAGCCGAAGCCAAGAGGGCTAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
76152490 AA
1 AA
76152492 AAAGAAGCGA
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 181 1.00
ACGTcount: A:0.36, C:0.18, G:0.33, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:76153469 original size:51 final size:51
Alignment explanation
Indices: 76153403--76153519 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
76153393 ATGATCATAA
** * * *
76153403 AAGATATGATATTATAATCTTAGATATCTTAGATATGATATGGAATCTTAT
1 AAGATATGATATTATAAGATTACATATCTTAGATAAGATATGGAATCTTAG
* * * *
76153454 AAGATATTATTTTATAAGATTACATATCTTCGATAAGATATGTAATCTTAG
1 AAGATATGATATTATAAGATTACATATCTTAGATAAGATATGGAATCTTAG
76153505 AAGATATGATATTAT
1 AAGATATGATATTAT
76153520 CTTCTTAGAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
AAGATATGATATTATAAGATTACATATCTTAGATAAGATATGGAATCTTAG
Found at i:76154059 original size:37 final size:37
Alignment explanation
Indices: 76154004--76154076 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
76153994 TTGGACTTCA
* * *
76154004 CAAAGAGTGGTGGGGGTGTCCTTTTAACAGCTCACTT
1 CAAAGAGTGATGAGGGTGTCCTTTTAACAACTCACTT
*
76154041 CAAAGAGTGATGATGGTGTCCTTTTAACAACTCACT
1 CAAAGAGTGATGAGGGTGTCCTTTTAACAACTCACT
76154077 ACAAGGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (37 bp):
CAAAGAGTGATGAGGGTGTCCTTTTAACAACTCACTT
Found at i:76154579 original size:105 final size:107
Alignment explanation
Indices: 76154425--76154660 Score: 307
Period size: 105 Copynumber: 2.2 Consensus size: 107
76154415 ACCACACTGT
* * * * *
76154425 AAAAAAAAATTGGTGCTGGCCTGTAGATGGCCGACACTATTACAATTTTCGTGTCCCTATGCAAA
1 AAAAAAAAATTGGTGCTGGCCTGTAAATGGCCAACACCAGTACAATTTTCGTGTCCCGATGCAAA
76154490 ATTTTTTAATTTT-GCCTTCTAATGGCCGACACCAGACTT-A
66 ATTTTTTAATTTTGGCCTTCTAATGGCCGACACCAGACTTCA
* **
76154530 AAAAAAAAATTGGGTGCT-GTCTGTAAATGGCCAACACCAGTACTTTTTTCGTGTCCCGATGCAA
1 AAAAAAAAATT-GGTGCTGGCCTGTAAATGGCCAACACCAGTACAATTTTCGTGTCCCGATGCAA
* * * *
76154594 ATTTTTTTACTTTTGGCCTTCTAATGGCCGGCACCATACTTCAA
65 AATTTTTTAATTTTGGCCTTCTAATGGCCGACACCAGACTTC-A
*
76154638 AAAAAAAAATTTGGTTCTGGCCT
1 AAAAAAAAA-TTGGTGCTGGCCT
76154661 TTGAATGACT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
105 61 0.55
106 30 0.27
108 15 0.14
109 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (107 bp):
AAAAAAAAATTGGTGCTGGCCTGTAAATGGCCAACACCAGTACAATTTTCGTGTCCCGATGCAAA
ATTTTTTAATTTTGGCCTTCTAATGGCCGACACCAGACTTCA
Found at i:76158135 original size:26 final size:28
Alignment explanation
Indices: 76158080--76158144 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
76158070 ACTTGATTAG
*
76158080 ATGAAATGAAAAAAATAAATAAATTTAA
1 ATGAAATGAAAAAAATAAATAAATTAAA
* *
76158108 ATGAAAT-AAGAAAA-AATTAAATTAAA
1 ATGAAATGAAAAAAATAAATAAATTAAA
*
76158134 ATGAAAAGAAA
1 ATGAAATGAAA
76158145 GATAATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 16 0.52
27 8 0.26
28 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (28 bp):
ATGAAATGAAAAAAATAAATAAATTAAA
Found at i:76158151 original size:26 final size:25
Alignment explanation
Indices: 76158083--76158165 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
76158073 TGATTAGATG
* *
76158083 AAATG-AAA-AAAATAAATAAATTT
1 AAATGAAAAGAAAATAATTAAATTA
76158106 AAATGAAATAAGAAAA-AATTAAATTA
1 AAATG-AA-AAGAAAATAATTAAATTA
*
76158132 AAATGAAAAGAAAGATAATTTAAA-TG
1 AAATGAAAAGAAA-ATAA-TTAAATTA
76158158 AAATGAAA
1 AAATGAAA
76158166 TGTAAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
23 5 0.10
24 6 0.12
25 4 0.08
26 26 0.52
27 9 0.18
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (25 bp):
AAATGAAAAGAAAATAATTAAATTA
Found at i:76158161 original size:5 final size:5
Alignment explanation
Indices: 76158153--76158238 Score: 64
Period size: 5 Copynumber: 15.8 Consensus size: 5
76158143 AAGATAATTT
* * *
76158153 AAATG AAATG AAATG TAAATTT AAATG AAATG AAATG TAATTT ATAATG
1 AAATG AAATG AAATG -AAA-TG AAATG AAATG AAATG -AAATG A-AATG
* *
76158202 AATATG AAATG AAATGG AAATTT AAATT AAATG AAAT
1 AA-ATG AAATG AAAT-G AAA-TG AAATG AAATG AAAT
76158239 TGAGATTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
5 40 0.61
6 24 0.36
7 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (5 bp):
AAATG
Found at i:76158214 original size:28 final size:27
Alignment explanation
Indices: 76158153--76158265 Score: 94
Period size: 28 Copynumber: 4.3 Consensus size: 27
76158143 AAGATAATTT
*
76158153 AAATGAAATGAAATGTAAATTTAAATG
1 AAATGAAATGAAATGGAAATTTAAATG
76158180 AAATGAAATG---T---AATTTATAATG
1 AAATGAAATGAAATGGAAATTTA-AATG
*
76158202 AATATGAAATGAAATGGAAATTTAAATT
1 AA-ATGAAATGAAATGGAAATTTAAATG
* * ** *
76158230 AAATGAAATTGAGATTGAAATTGGAATT
1 AAATGAAA-TGAAATGGAAATTTAAATG
76158258 AAATGAAA
1 AAATGAAA
76158266 AAAAAAGTGA
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
21 6 0.08
22 6 0.08
23 8 0.11
24 1 0.01
26 1 0.01
27 16 0.22
28 28 0.39
29 6 0.08
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (27 bp):
AAATGAAATGAAATGGAAATTTAAATG
Found at i:76158238 original size:22 final size:22
Alignment explanation
Indices: 76158121--76158216 Score: 112
Period size: 22 Copynumber: 4.5 Consensus size: 22
76158111 AAATAAGAAA
* *
76158121 AAAT-TAAATTAAAATGAAAAG
1 AAATGTAAATTTAAATGAAATG
76158142 AAA-G-ATAATTTAAATGAAATG
1 AAATGTA-AATTTAAATGAAATG
76158163 AAATGTAAATTTAAATGAAATG
1 AAATGTAAATTTAAATGAAATG
76158185 AAATGT-AATTTATAATGAATATG
1 AAATGTAAATTTA-AATGAA-ATG
76158208 AAATG-AAAT
1 AAATGTAAAT
76158217 GGAAATTTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.02
21 25 0.38
22 28 0.42
23 12 0.18
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (22 bp):
AAATGTAAATTTAAATGAAATG
Found at i:76158251 original size:22 final size:22
Alignment explanation
Indices: 76158148--76158250 Score: 50
Period size: 22 Copynumber: 4.6 Consensus size: 22
76158138 AAAGAAAGAT
* * *
76158148 AATTTAAATGAAATGAAATGTA
1 AATTGAAATTAAATGAAATGGA
* * *
76158170 AATTTAAATGAAATGAAAT-GT
1 AATTGAAATTAAATGAAATGGA
* *
76158191 AATTTATAATGAATATGAAAT-GA
1 AATTGA-AATTAA-ATGAAATGGA
* *
76158214 AATGGAAATTTAAATTAAAT-GA
1 AATTGAAA-TTAAATGAAATGGA
*
76158236 AATTGAGATTGAAAT
1 AATTGAAATT-AAAT
76158251 TGGAATTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.12
22 45 0.66
23 15 0.22
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (22 bp):
AATTGAAATTAAATGAAATGGA
Found at i:76161901 original size:27 final size:27
Alignment explanation
Indices: 76161857--76161921 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
76161847 GTTGTACACC
76161857 ACAAAAAACTCCCATATACAATCCAGT
1 ACAAAAAACTCCCATATACAATCCAGT
* * *
76161884 ACAAAAAACTTCCTTATACAATCCACT
1 ACAAAAAACTCCCATATACAATCCAGT
76161911 A-AAAAGAACTC
1 ACAAAA-AACTC
76161922 ATTTGATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.20
Consensus pattern (27 bp):
ACAAAAAACTCCCATATACAATCCAGT
Found at i:76162495 original size:47 final size:46
Alignment explanation
Indices: 76162371--76162498 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 46
76162361 AGCCAGCACC
* * *
76162371 CAATTTTTGTTTTTTACAGTGTGGTGCTGACCATTCAAAGGCCAGAA
1 CAATTTTTTTTTTTTACAGTCTGGTGCTGGCCATT-AAAGGCCAGAA
* * *
76162418 CCA--TTTTTTTTTTACAGTCTGATGTTGGCCATTATAAGGCCAGAA
1 CAATTTTTTTTTTTTACAGTCTGGTGCTGGCCATTA-AAGGCCAGAA
*
76162463 CAATTTTTTTTCTTTTA-AGTCTGGTGCCGGCCATTA
1 CAATTTTTTTT-TTTTACAGTCTGGTGCTGGCCATTA
76162499 GAATGCCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 37 0.55
47 24 0.36
48 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (46 bp):
CAATTTTTTTTTTTTACAGTCTGGTGCTGGCCATTAAAGGCCAGAA
Found at i:76162525 original size:202 final size:194
Alignment explanation
Indices: 76162061--76162629 Score: 625
Period size: 204 Copynumber: 2.8 Consensus size: 194
76162051 GGCTAGCACC
* * *
76162061 CAATTTTTTTTTAAGTCTGGTGTCGGCTATTAGAACACCAAAAGTAAAAAAATTTACATCGGGAC
1 CAATTTTTTTTTAAGTCTGGTGTCGGCCATTAGAACGCCAAAAGTAAAAAAATTTGCATCGGGAC
* * * * * * * *
76162126 ATGAAAAAAGTACTAGCGTCGACTATCTACAGGCCAGCACCCAAATTTTTTTTAATAGTATGGTG
66 ACGAAAAAAGTACTAGTGTCG-CCATCTACAAGCCAGCACCCAATTTTTTTTTTACAGTGTGGTG
* * * * *
76162191 CCGGCCATTTAAAGGCCAAAACCAAAAATATATATATTTTTTATAGTCTGGTGCCGGCCTTTACA
130 -CGGCCATTCAAAGGCCAGAACC----AT-T-T-T-TTTTTTACAGTCTGATGCCGGCCATTACA
*
76162256 ATGCCAAAA
186 AGGCCAAAA
* *
76162265 CAATTTTTTTTTAAGTCTGATGTCGGCCATTAGAAGGCCAAAAGTAAAAAAATTTGCATCGGGAC
1 CAATTTTTTTTTAAGTCTGGTGTCGGCCATTAGAACGCCAAAAGTAAAAAAATTTGCATCGGGAC
*
76162330 ACGAAAAAAGTACTAGTGCCAGCCATCTACAAGCCAGCACCCAATTTTTGTTTTTTACAGTGTGG
66 ACGAAAAAAGTACTAGTGTC-GCCATCTACAAGCCAGCACCCAA-TTTT-TTTTTTACAGTGTGG
* ** *
76162395 TGCTGACCATTCAAAGGCCAGAACCATTTTTTTTTTACAGTCTGATGTTGGCCATTATAAGGCCA
128 TGC-GGCCATTCAAAGGCCAGAACCATTTTTTTTTTACAGTCTGATGCCGGCCATTACAAGGCCA
*
76162460 GAA
192 AAA
* * * *
76162463 CAATTTTTTTTCTTTTAAGTCTGGTGCCGGCCATTAGAATGCCAAAATTAAAAAATTTTGCATCG
1 CAA---TTTTT-TTTTAAGTCTGGTGTCGGCCATTAGAACGCCAAAAGTAAAAAAATTTGCATCG
** * * *
76162528 GGACACGAAAATTGTACTAGTGTCGGCCATCTACATGCCAACACCAAATTTTTTTTTTACAGTGT
62 GGACACGAAAAAAGTACTAGTGTC-GCCATCTACAAGCCAGCACCCAATTTTTTTTTTACAGTGT
* * *
76162593 GGTGACGGCCACTCAAAGGTCAGAACCAATTTTTTTT
126 GGTG-CGGCCATTCAAAGGCCAGAACCATTTTTTTTT
76162630 AAATACTGGT
Statistics
Matches: 315, Mismatches: 41, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
198 33 0.10
199 1 0.00
200 45 0.14
201 11 0.03
202 91 0.29
204 97 0.31
205 5 0.02
206 32 0.10
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (194 bp):
CAATTTTTTTTTAAGTCTGGTGTCGGCCATTAGAACGCCAAAAGTAAAAAAATTTGCATCGGGAC
ACGAAAAAAGTACTAGTGTCGCCATCTACAAGCCAGCACCCAATTTTTTTTTTACAGTGTGGTGC
GGCCATTCAAAGGCCAGAACCATTTTTTTTTTACAGTCTGATGCCGGCCATTACAAGGCCAAAA
Found at i:76163050 original size:28 final size:29
Alignment explanation
Indices: 76162999--76163059 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
76162989 ATCTTTATAA
*
76162999 ATTTTAAAAACTTAAATTAAAATTTTAGT
1 ATTTTAAAAACTTAAAGTAAAATTTTAGT
* * *
76163028 ATTTTAAGAA-TTAAAGTATAATTTTATT
1 ATTTTAAAAACTTAAAGTAAAATTTTAGT
76163056 ATTT
1 ATTT
76163060 ACTAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTTTAAAAACTTAAAGTAAAATTTTAGT
Found at i:76163696 original size:18 final size:19
Alignment explanation
Indices: 76163660--76163698 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
76163650 CGAAATTGAA
*
76163660 TTCGAATTGAATATATTTG
1 TTCGAATTAAATATATTTG
76163679 TTCGAATTAAAT-TATTTG
1 TTCGAATTAAATATATTTG
76163697 TT
1 TT
76163699 TAGAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
TTCGAATTAAATATATTTG
Found at i:76169215 original size:101 final size:101
Alignment explanation
Indices: 76169087--76169327 Score: 394
Period size: 101 Copynumber: 2.4 Consensus size: 101
76169077 TGAATTGACG
* *
76169087 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAAACCATGGTTGGACCATGACAGTGTTT
1 GATAAGACCATAACTGAGTTATGGCACTATGAATGTAAAACCATGGTTGGACCATGACAGTGTTT
* *
76169152 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGGT
66 ATATGTAAGACCATAGCTGAGCTATGGCATTCTGAT
* * *
76169188 GATAAGACCATAACTGAGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGAGTTATGGCACTATGAATGTAAAACCATGGTTGGACCATGACAGTGTTT
*
76169253 ATATGTAAGACCATAGCTGAGCTATGGCATTTTGAT
66 ATATGTAAGACCATAGCTGAGCTATGGCATTCTGAT
76169289 GATAAGACCATAACT-AGGTTATGGCACTATGAATGTAAA
1 GATAAGACCATAACTGA-GTTATGGCACTATGAATGTAAA
76169328 GGATGAATTG
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
100 1 0.01
101 128 0.99
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGAGTTATGGCACTATGAATGTAAAACCATGGTTGGACCATGACAGTGTTT
ATATGTAAGACCATAGCTGAGCTATGGCATTCTGAT
Found at i:76169300 original size:33 final size:32
Alignment explanation
Indices: 76169154--76169300 Score: 116
Period size: 33 Copynumber: 4.4 Consensus size: 32
76169144 CAGTGTTTAT
* *
76169154 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGAGCTATGGCATTTTG
* * * * *
76169186 GTGATAAGACCATAACTGAGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGAGCTATGGCATTTTG
* * * * *
76169219 AACGTAAGACCATGGTTG-GACCATGGCAGTGTTTAT
1 -ATGTAAGACCATAGCTGAG-CTATGGCA-T-TTT-G
76169255 ATGTAAGACCATAGCTGAGCTATGGCATTTTG
1 ATGTAAGACCATAGCTGAGCTATGGCATTTTG
76169287 ATGATAAGACCATA
1 ATG-TAAGACCATA
76169301 ACTAGGTTAT
Statistics
Matches: 86, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
32 6 0.07
33 54 0.63
34 2 0.02
35 23 0.27
36 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGAGCTATGGCATTTTG
Found at i:76169356 original size:24 final size:24
Alignment explanation
Indices: 76169320--76169388 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
76169310 TGGCACTATG
*
76169320 AATGTAAAGGATGAATTGACGGAA
1 AATGTAAAGGATGAATTGACAGAA
*
76169344 AATGTAAATGATGAATTGACAGAA
1 AATGTAAAGGATGAATTGACAGAA
76169368 AATGTAAAGGATGAATTGACA
1 AATGTAAAGGATGAATTGACA
76169389 ACAAGTTACC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.48, C:0.04, G:0.25, T:0.23
Consensus pattern (24 bp):
AATGTAAAGGATGAATTGACAGAA
Found at i:76172890 original size:10 final size:9
Alignment explanation
Indices: 76172870--76172898 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
76172860 ATAATTTAAA
76172870 ATATAAAAT
1 ATATAAAAT
76172879 ATA-AAAAT
1 ATATAAAAT
76172887 ATATAAAAT
1 ATATAAAAT
76172896 ATA
1 ATA
76172899 AAAGATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATAAAAT
Found at i:76178408 original size:15 final size:15
Alignment explanation
Indices: 76178382--76178422 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
76178372 ATACTCAGTT
*
76178382 ATATTAATATATTTA
1 ATATTAAAATATTTA
*
76178397 ATTTTAAAATATTTA
1 ATATTAAAATATTTA
76178412 ATATTAAAATA
1 ATATTAAAATA
76178423 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:76181878 original size:46 final size:46
Alignment explanation
Indices: 76181826--76182140 Score: 461
Period size: 46 Copynumber: 6.8 Consensus size: 46
76181816 GAGTGTGCTC
*
76181826 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
*
76181872 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
*
76181918 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
76181964 CATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
*
76182010 CCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* *** *
76182056 CATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * *
76182103 CATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
76182141 TATGACATCA
Statistics
Matches: 253, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 211 0.83
47 42 0.17
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:76185761 original size:21 final size:20
Alignment explanation
Indices: 76185705--76185763 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
76185695 AAATTACAAT
* * *
76185705 TAAATACATAAATAATTATA
1 TAAATAAATAGATAAATATA
*
76185725 TAAATAAATAGGTAAATATA
1 TAAATAAATAGATAAATATA
76185745 TTAAATATAAT-GATAAATA
1 -TAAATA-AATAGATAAATA
76185764 GGTAAAAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 16 0.50
21 13 0.41
22 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAATAAATAGATAAATATA
Found at i:76185932 original size:37 final size:37
Alignment explanation
Indices: 76185869--76185961 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
76185859 ATTTAGGCAT
* * *
76185869 TAAAATTAAAATTACATATAAGATATAAAATTAAA-A
1 TAAAATTAAAACTACATTTAAGATATAAAAGTAAAGA
* *
76185905 TAAAATTATAAACTACATTTAATATATAAAAGTAAAGG
1 TAAAATTA-AAACTACATTTAAGATATAAAAGTAAAGA
*
76185943 TAAAATTAAAACTATATTT
1 TAAAATTAAAACTACATTT
76185962 GAAATTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
36 8 0.16
37 33 0.67
38 8 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (37 bp):
TAAAATTAAAACTACATTTAAGATATAAAAGTAAAGA
Found at i:76186558 original size:16 final size:16
Alignment explanation
Indices: 76186527--76186563 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
76186517 ATGTGAAGAA
76186527 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
76186543 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
76186559 TATTA
1 TATTA
76186564 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:76187012 original size:15 final size:16
Alignment explanation
Indices: 76186992--76187042 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
76186982 ATATATATTT
76186992 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
76187007 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
** *
76187024 -TATAATAATTTTTTA
1 TTATTTTAATTTTTAA
76187039 TTAT
1 TTAT
76187043 ATTATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 15 0.50
16 7 0.23
17 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:76187097 original size:21 final size:22
Alignment explanation
Indices: 76187071--76187129 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
76187061 GTTTTAAGAA
*
76187071 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
76187092 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
76187114 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
76187130 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:76187144 original size:26 final size:24
Alignment explanation
Indices: 76187100--76187149 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
76187090 ATTTGTTTTA
*
76187100 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
76187124 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
76187150 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:76191460 original size:6 final size:6
Alignment explanation
Indices: 76191449--76191474 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
76191439 TCAACACATC
76191449 ATAGCA ATAGCA ATAGCA ATAGCA AT
1 ATAGCA ATAGCA ATAGCA ATAGCA AT
76191475 CCAACATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATAGCA
Found at i:76191633 original size:24 final size:22
Alignment explanation
Indices: 76191603--76191683 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 22
76191593 AAATATACAA
76191603 ATAAAATATCTTAAATATTTTATT
1 ATAAAATAT-TTAAATATTTTA-T
* *
76191627 ATAAAATA-TGAAATTAATTTAT
1 ATAAAATATTTAAA-TATTTTAT
*
76191649 ATAAAATATGTTAATAATATTTAAT
1 ATAAAATAT-TT-A-AATATTTTAT
76191674 ATAAAATATT
1 ATAAAATATT
76191684 ATTTTCAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.28
23 6 0.13
24 10 0.21
25 16 0.34
26 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAAAATATTTAAATATTTTAT
Found at i:76191777 original size:23 final size:23
Alignment explanation
Indices: 76191709--76191786 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
76191699 AAAATATAAA
* *
76191709 ATAAGATATCTTAACATAATTTATT
1 ATAAAATAT-TTAA-ATAATTTAGT
76191734 ATAAAATA-TTAAATTAATTTA-T
1 ATAAAATATTTAAA-TAATTTAGT
*
76191756 ATAAAATATGTTAAATAGTTTAGT
1 ATAAAATAT-TTAAATAATTTAGT
76191780 ATCAAAA
1 AT-AAAA
76191787 ACAAAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
22 10 0.22
23 17 0.37
24 8 0.17
25 11 0.24
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (23 bp):
ATAAAATATTTAAATAATTTAGT
Found at i:76192337 original size:14 final size:14
Alignment explanation
Indices: 76192307--76192336 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76192297 TTCCTTTAAA
76192307 TTTCCTCTGTATTT
1 TTTCCTCTGTATTT
76192321 TTTCCTCTGT-TTT
1 TTTCCTCTGTATTT
76192334 TTT
1 TTT
76192337 TTGTGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.03, C:0.20, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTCCTCTGTATTT
Found at i:76192438 original size:17 final size:17
Alignment explanation
Indices: 76192399--76192438 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
76192389 TTTACTTCAT
*
76192399 ATTGTTAATAAAATCTG
1 ATTGTTAATAAAATCAG
**
76192416 GCTGTTAATAAAATCAG
1 ATTGTTAATAAAATCAG
76192433 ATTGTT
1 ATTGTT
76192439 TTCCTTATTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (17 bp):
ATTGTTAATAAAATCAG
Found at i:76200419 original size:5 final size:5
Alignment explanation
Indices: 76200409--76200462 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
76200399 ATAGAAGATA
* * *
76200409 TTATT TTATT TTGTT TTATT TTGTT ATATTAT TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTATT TTATT
76200457 TTATT T
1 TTATT T
76200463 AGGATTAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 31 0.76
6 5 0.12
7 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:76200461 original size:23 final size:23
Alignment explanation
Indices: 76200407--76200461 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
76200397 AAATAGAAGA
*
76200407 TATTATTTTATTTTGTTTTATTT
1 TATTATATTATTTTGTTTTATTT
*
76200430 TGTTATATTATTTAT-TTTTATTT
1 TATTATATTATTT-TGTTTTATTT
*
76200453 TATTTTATT
1 TATTATATT
76200462 TAGGATTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (23 bp):
TATTATATTATTTTGTTTTATTT
Found at i:76202473 original size:55 final size:54
Alignment explanation
Indices: 76202368--76202479 Score: 125
Period size: 55 Copynumber: 2.1 Consensus size: 54
76202358 CAATCCTGCC
* * **** *
76202368 AAATCAACACGGGCATGCGACACGCCCGTGTCTAAAAGTTTTGGTTGAAACTGAT
1 AAATCAACACGGGCATGCGACACGCCCGTGCCCAAAACCCATGGTCGAAACTG-T
* **
76202423 AAATCAACACGGGCCTGCGACACGCCCGTGCCCACCACCCATGGTCGAAACTGT
1 AAATCAACACGGGCATGCGACACGCCCGTGCCCAAAACCCATGGTCGAAACTGT
76202477 AAA
1 AAA
76202480 AATAACACTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
54 4 0.09
55 43 0.91
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.18
Consensus pattern (54 bp):
AAATCAACACGGGCATGCGACACGCCCGTGCCCAAAACCCATGGTCGAAACTGT
Found at i:76215163 original size:7 final size:7
Alignment explanation
Indices: 76215143--76215178 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
76215133 AGGGCATCTA
76215143 AAAAAATG
1 AAAAAA-G
76215151 AAAAAAG
1 AAAAAAG
*
76215158 AGAAAAG
1 AAAAAAG
76215165 AAAAAAG
1 AAAAAAG
76215172 AAAAAAG
1 AAAAAAG
76215179 GGGATCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:76216119 original size:73 final size:73
Alignment explanation
Indices: 76216028--76216297 Score: 373
Period size: 73 Copynumber: 3.7 Consensus size: 73
76216018 TGATGTTTTT
* * * * *
76216028 ATTTCTGTTTTTAAAAAATCAACTCATATTGCAAGAGGTGAGCTGAGCGTCAAGGCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
76216093 TATTTTCA
66 TATTTTCA
*
76216101 ATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
76216166 TATTTTCA
66 TATTTTCA
**
76216174 ATTTCTACTTTTCAAAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCT
1 ATTTCTGTTTTTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACGCT
*
76216238 GAGGTCA-TTTCG
62 GAGGT-ATTTTCA
** *
76216250 ATTTCTGTTTGCCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
76216298 ATTTTAATTT
Statistics
Matches: 177, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
73 106 0.60
74 5 0.03
75 8 0.05
76 57 0.32
77 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (73 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCA
Found at i:76216398 original size:53 final size:54
Alignment explanation
Indices: 76216250--76216427 Score: 286
Period size: 54 Copynumber: 3.3 Consensus size: 54
76216240 GGTCATTTCG
** * *
76216250 ATTTCTGTTTGCCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCATTTTA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
*
76216304 ATTTCTGTTTTTCAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTTTTA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
*
76216358 ATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
*
76216411 ATTTTTGTTTTTCAAAA
1 ATTTCTGTTTTTCAAAA
76216428 TCTACTTTTC
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 50 0.43
54 65 0.57
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
Found at i:76218743 original size:20 final size:21
Alignment explanation
Indices: 76218701--76218741 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
76218691 TTATTATGTA
76218701 TATTATTTTTACTCATTTCTT
1 TATTATTTTTACTCATTTCTT
*
76218722 TATT-TTTTTATTCA-TTCTT
1 TATTATTTTTACTCATTTCTT
76218741 T
1 T
76218742 TAAATACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTTTTACTCATTTCTT
Found at i:76224431 original size:23 final size:21
Alignment explanation
Indices: 76224375--76224435 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
76224365 ATCAGTATAC
76224375 GACACATAAGTGCCTG-AAAT
1 GACACATAAGTGCCTGAAAAT
* *
76224395 GACACACGAGGTGCCTGAAATAT
1 GACACA-TAAGTGCCTGAAA-AT
76224418 GACACATAAAGTGCCTGA
1 GACACAT-AAGTGCCTGA
76224436 TCGGCAAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 2 0.06
23 17 0.52
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (21 bp):
GACACATAAGTGCCTGAAAAT
Found at i:76228427 original size:15 final size:16
Alignment explanation
Indices: 76228392--76228435 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
76228382 CTTTTTACTT
* *
76228392 TATTTAATTTATATTA
1 TATTTAATTAATATAA
76228408 TATTTAATTAATA-AA
1 TATTTAATTAATATAA
*
76228423 TATTTATTTAATA
1 TATTTAATTAATA
76228436 GCAAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTAATTAATATAA
Found at i:76229121 original size:17 final size:17
Alignment explanation
Indices: 76229096--76229137 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
76229086 TTTAAATGAG
76229096 GGATTGTTAATAAAATCT
1 GGATTGTTAATAAAAT-T
76229114 GG-TTGTTAATAAAATT
1 GGATTGTTAATAAAATT
76229130 GGATTGTT
1 GGATTGTT
76229138 TTTCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (17 bp):
GGATTGTTAATAAAATT
Found at i:76231958 original size:45 final size:45
Alignment explanation
Indices: 76231879--76231964 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
76231869 ACGTTAATAC
* * *
76231879 GTATTTAGTACATTGTTGAAAAATAGTATGTTGTTAAATTATTAT
1 GTATTTAATACATTGTTGAAAAATAGAATATTGTTAAATTATTAT
* * *
76231924 GTATTTAATATATTGTTGAGAAATGGAATATTGTTAAATTA
1 GTATTTAATACATTGTTGAAAAATAGAATATTGTTAAATTA
76231965 AGAATTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.45
Consensus pattern (45 bp):
GTATTTAATACATTGTTGAAAAATAGAATATTGTTAAATTATTAT
Found at i:76232880 original size:37 final size:37
Alignment explanation
Indices: 76232839--76232919 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
76232829 CTGAAATATT
**
76232839 TGGAAATGATATATACTTGATATATTGAAACGTGACA
1 TGGAAATGATATATACTTGATATATTGAAAAATGACA
* *
76232876 TGGAAATGCTATTTACTTGATATATTGAAAAATGACA
1 TGGAAATGATATATACTTGATATATTGAAAAATGACA
*
76232913 TGTAAAT
1 TGGAAAT
76232920 ATGTGATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (37 bp):
TGGAAATGATATATACTTGATATATTGAAAAATGACA
Found at i:76235360 original size:24 final size:26
Alignment explanation
Indices: 76235330--76235380 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
76235320 CTGGGTATTC
*
76235330 TATATGT-TCATTT-ATTCTCAGAGG
1 TATATGTAACATTTCATTCTCAGAGG
*
76235354 TATATGTAACATTTCATTTTCAGAGG
1 TATATGTAACATTTCATTCTCAGAGG
76235380 T
1 T
76235381 GATTCTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 5 0.22
26 11 0.48
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (26 bp):
TATATGTAACATTTCATTCTCAGAGG
Found at i:76239598 original size:6 final size:6
Alignment explanation
Indices: 76239587--76239611 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
76239577 TACCAATTTG
76239587 ATTCTA ATTCTA ATTCTA ATTCTA A
1 ATTCTA ATTCTA ATTCTA ATTCTA A
76239612 GTAATTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTCTA
Found at i:76240921 original size:22 final size:22
Alignment explanation
Indices: 76240873--76240923 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
76240863 TTTAATACAC
* *
76240873 TATTAATTTATATTATTATGAAT
1 TATT-ATTTATATTATTATAAAA
76240896 TATTATTTATATTAATT-TAAAA
1 TATTATTTATATT-ATTATAAAA
76240918 TATTAT
1 TATTAT
76240924 ATCTTGGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTATTTATATTATTATAAAA
Found at i:76242774 original size:3 final size:3
Alignment explanation
Indices: 76242766--76242827 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
76242756 TAGAGTAAAG
* * *
76242766 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA GTA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76242814 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
76242828 TCAGATCAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:76243274 original size:18 final size:19
Alignment explanation
Indices: 76243248--76243284 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
76243238 ATACAAATTC
76243248 ACTTCATATA-AAACAAAAA
1 ACTTCATATATAAA-AAAAA
76243267 ACTT-ATATATAAAAAAAA
1 ACTTCATATATAAAAAAAA
76243285 TGTATACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
ACTTCATATATAAAAAAAA
Found at i:76246393 original size:3 final size:3
Alignment explanation
Indices: 76246385--76246410 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
76246375 AACAAATAGG
76246385 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
76246411 GGACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:76254953 original size:27 final size:27
Alignment explanation
Indices: 76254915--76254969 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
76254905 GCAGCAATTA
76254915 GGCTTATTCCTACTGTATATAAATCGT
1 GGCTTATTCCTACTGTATATAAATCGT
*
76254942 GGCTTATTCCTACTGTATGTAAATCGT
1 GGCTTATTCCTACTGTATATAAATCGT
76254969 G
1 G
76254970 TATGTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (27 bp):
GGCTTATTCCTACTGTATATAAATCGT
Found at i:76258036 original size:15 final size:15
Alignment explanation
Indices: 76258018--76258048 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76258008 GAAAAGTATG
76258018 TTTCATTCATTGGCC
1 TTTCATTCATTGGCC
76258033 TTTCATTCATTGGCC
1 TTTCATTCATTGGCC
76258048 T
1 T
76258049 ACCTCTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (15 bp):
TTTCATTCATTGGCC
Found at i:76262071 original size:38 final size:38
Alignment explanation
Indices: 76261953--76262073 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 38
76261943 ATTTAGTACT
76261953 TGTTAAATATTATACAAATTACCCCAAAACACTAATGA
1 TGTTAAATATTATACAAATTACCCCAAAACACTAATGA
** * *** ** *
76261991 TGTTAAA-AAAATTCGTGTTATGCTACAAAA-A-TAGT-A
1 TGTTAAATATTATACAAATTA--CCCCAAAACACTAATGA
76262027 CTTGTTAAATATTATACAAATTACCCCAAAACACTAATGA
1 --TGTTAAATATTATACAAATTACCCCAAAACACTAATGA
76262067 TGTTAAA
1 TGTTAAA
76262074 AAAATTCGTG
Statistics
Matches: 57, Mismatches: 18, Indels: 16
0.63 0.20 0.18
Matches are distributed among these distances:
36 1 0.02
37 16 0.28
38 23 0.40
39 16 0.28
40 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.31
Consensus pattern (38 bp):
TGTTAAATATTATACAAATTACCCCAAAACACTAATGA
Found at i:76262072 original size:76 final size:76
Alignment explanation
Indices: 76261946--76262099 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
76261936 CTTTTAGATT
76261946 TAGTACTTGTTAAATATTATACAAATTACCCCAAAACACTAATGATGTTAAAAAAATTCGTGTTA
1 TAGTACTTGTTAAATATTATACAAATTACCCCAAAACACTAATGATGTTAAAAAAATTCGTGTTA
76262011 TGCTACAAAAA
66 TGCTACAAAAA
76262022 TAGTACTTGTTAAATATTATACAAATTACCCCAAAACACTAATGATGTTAAAAAAATTCGTGTTA
1 TAGTACTTGTTAAATATTATACAAATTACCCCAAAACACTAATGATGTTAAAAAAATTCGTGTTA
76262087 TGCTACAAAAA
66 TGCTACAAAAA
76262098 TA
1 TA
76262100 TATTAAGTAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (76 bp):
TAGTACTTGTTAAATATTATACAAATTACCCCAAAACACTAATGATGTTAAAAAAATTCGTGTTA
TGCTACAAAAA
Found at i:76262463 original size:26 final size:24
Alignment explanation
Indices: 76262432--76262487 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
76262422 AAAATCAACT
76262432 TTAAATACCAAATTAGACAAAAAA-A
1 TTAAATACCAAATTA-A-AAAAAATA
*
76262457 TCTAAATATCAAATTAAAAAAAATA
1 T-TAAATACCAAATTAAAAAAAATA
76262482 TTAAAT
1 TTAAAT
76262488 TTAGATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 11 0.39
25 4 0.14
26 13 0.46
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (24 bp):
TTAAATACCAAATTAAAAAAAATA
Found at i:76264356 original size:15 final size:16
Alignment explanation
Indices: 76264331--76264363 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
76264321 ATATTTTAAA
*
76264331 AATATTCCACAAGGGG
1 AATATTCCACAAGAGG
76264347 AATA-TCCACAAGAGG
1 AATATTCCACAAGAGG
76264362 AA
1 AA
76264364 GTACCAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.15
Consensus pattern (16 bp):
AATATTCCACAAGAGG
Found at i:76267196 original size:17 final size:17
Alignment explanation
Indices: 76267157--76267196 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
76267147 TAAAAAGTTA
*
76267157 AAAATTCAAAATATATT
1 AAAATTCAAAATATATG
76267174 AAAATTCAAAATA-ATG
1 AAAATTCAAAATATATG
76267190 AACAATT
1 AA-AATT
76267197 TTTAGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATTCAAAATATATG
Found at i:76268428 original size:8 final size:8
Alignment explanation
Indices: 76268407--76268437 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
76268397 ATTTAAGTTC
76268407 TTTAAAAGT
1 TTTAAAA-T
76268416 TTTAAAAT
1 TTTAAAAT
76268424 TTTAAAAT
1 TTTAAAAT
76268432 TTTAAA
1 TTTAAA
76268438 TTAGTAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:76269699 original size:15 final size:16
Alignment explanation
Indices: 76269669--76269701 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
76269659 TCCCTTAAAC
*
76269669 AAAATTTCTTACTTTT
1 AAAATTTCTAACTTTT
76269685 AAAATTT-TAACTTTT
1 AAAATTTCTAACTTTT
76269700 AA
1 AA
76269702 TACTATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTCTAACTTTT
Found at i:76273614 original size:28 final size:28
Alignment explanation
Indices: 76273574--76273636 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
76273564 GTCATTATCA
76273574 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
76273602 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
76273630 ACCCCAT
1 ACCCCAT
76273637 TAATATGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:76273797 original size:14 final size:14
Alignment explanation
Indices: 76273757--76273797 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
76273747 AAAAAGAAGA
76273757 TACACTCTCTCTTC
1 TACACTCTCTCTTC
76273771 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
76273782 TACACTCTTTCTTC
1 TACACTCTCTCTTC
76273796 TA
1 TA
76273798 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:76279038 original size:28 final size:28
Alignment explanation
Indices: 76278998--76279060 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
76278988 GTCATTATCA
76278998 ACCCCATAAGTTAT-AGAACTCTTCCTAT
1 ACCCCATAAGTTATGAG-ACTCTTCCTAT
*
76279026 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATGAGACTCTTCCTAT
76279054 ACCCCAT
1 ACCCCAT
76279061 TAATATAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 31 0.94
29 2 0.06
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATGAGACTCTTCCTAT
Found at i:76279222 original size:14 final size:14
Alignment explanation
Indices: 76279182--76279222 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
76279172 AAAAAAAAGA
76279182 TACACTCTCTCTTC
1 TACACTCTCTCTTC
76279196 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
76279207 TACACTCTTTCTTC
1 TACACTCTCTCTTC
76279221 TA
1 TA
76279223 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:76280181 original size:7 final size:7
Alignment explanation
Indices: 76280162--76280216 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
76280152 GAAATTTAAA
*
76280162 ATAAATT
1 ATAATTT
76280169 AT-ATTT
1 ATAATTT
76280175 ATAATTT
1 ATAATTT
76280182 ATAATTT
1 ATAATTT
**
76280189 AT-ATAA
1 ATAATTT
*
76280195 AAAATTT
1 ATAATTT
76280202 ATAAATTT
1 AT-AATTT
76280210 ATAATTT
1 ATAATTT
76280217 GGCACTCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
6 8 0.21
7 23 0.61
8 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
ATAATTT
Found at i:76280183 original size:13 final size:14
Alignment explanation
Indices: 76280162--76280216 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
76280152 GAAATTTAAA
76280162 ATAAATTAT-ATTT
1 ATAAATTATAATTT
*
76280175 ATAATTTATAATTT
1 ATAAATTATAATTT
*
76280189 ATATAA--AAAATTT
1 ATA-AATTATAATTT
76280202 ATAAATTTATAATTT
1 ATAAA-TTATAATTT
76280217 GGCACTCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 2 0.06
13 17 0.52
14 7 0.21
15 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAAATTATAATTT
Found at i:76282319 original size:15 final size:17
Alignment explanation
Indices: 76282294--76282329 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
76282284 ATGTGAATAA
76282294 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
76282310 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
76282326 TATT
1 TATT
76282330 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:76282325 original size:13 final size:14
Alignment explanation
Indices: 76282289--76282335 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
76282279 ATAATATGTG
*
76282289 AATAATATTGTTTAA
1 AATATTATT-TTTAA
76282304 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
76282319 AAT-TTATTATTAA
1 AATATTATTTTTAA
76282332 AATA
1 AATA
76282336 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:76283211 original size:17 final size:18
Alignment explanation
Indices: 76283185--76283218 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
76283175 AGTTTCAATA
76283185 TTACAAATATA-ATATAC
1 TTACAAATATATATATAC
*
76283202 TTACATATATATATATA
1 TTACAAATATATATATA
76283219 AAGTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
TTACAAATATATATATAC
Found at i:76284826 original size:23 final size:22
Alignment explanation
Indices: 76284800--76284867 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
76284790 TATAATAGTA
*
76284800 ATAGTGTTAGAAATATACTACAT
1 ATAGTATTAGAAATATA-TACAT
* *
76284823 ATAGTATTTGAAATCTATACAT
1 ATAGTATTAGAAATATATACAT
* * * *
76284845 AAAATAGTAAAAATATATACAT
1 ATAGTATTAGAAATATATACAT
76284867 A
1 A
76284868 ACTTGTATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (22 bp):
ATAGTATTAGAAATATATACAT
Found at i:76285500 original size:22 final size:21
Alignment explanation
Indices: 76285475--76285523 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
76285465 TAAGACATAT
76285475 AATAAATATAATA-AATATAATA
1 AATAAA-ATAATATAAT-TAATA
*
76285497 AATATAAATATTATAATTAATA
1 AATA-AAATAATATAATTAATA
76285519 AATAA
1 AATAA
76285524 CAGAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAAAATAATATAATTAATA
Found at i:76285512 original size:9 final size:9
Alignment explanation
Indices: 76285471--76285503 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
76285461 ACACTAAGAC
76285471 ATATAATAA
1 ATATAATAA
76285480 ATATAATAA
1 ATATAATAA
76285489 ATATAATAA
1 ATATAATAA
76285498 ATATAA
1 ATATAA
76285504 ATATTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATAATAA
Found at i:76285551 original size:21 final size:19
Alignment explanation
Indices: 76285526--76285565 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
76285516 ATAAATAACA
76285526 GAAAATGAAAACAAGTAAATT
1 GAAAAT-AAAAC-AGTAAATT
*
76285547 GAAAATAAAGCAGTAAATT
1 GAAAATAAAACAGTAAATT
76285566 AACAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (19 bp):
GAAAATAAAACAGTAAATT
Found at i:76285563 original size:19 final size:19
Alignment explanation
Indices: 76285539--76285591 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 19
76285529 AATGAAAACA
*
76285539 AGTAAATTGAAAATAAAGC
1 AGTAAATTGAACATAAAGC
*
76285558 AGTAAATT-AACA-AAAGG
1 AGTAAATTGAACATAAAGC
*
76285575 ACTAAATTGAACATAAA
1 AGTAAATTGAACATAAA
76285592 ATATAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 7 0.24
19 11 0.38
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (19 bp):
AGTAAATTGAACATAAAGC
Found at i:76286409 original size:10 final size:10
Alignment explanation
Indices: 76286383--76286412 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
76286373 GGCCACCGTG
*
76286383 GGCGGTCGCC
1 GGCGGTGGCC
76286393 GGCGGTGGCC
1 GGCGGTGGCC
76286403 GGCGGTGGCC
1 GGCGGTGGCC
76286413 AACGACGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.33, G:0.57, T:0.10
Consensus pattern (10 bp):
GGCGGTGGCC
Found at i:76286847 original size:11 final size:11
Alignment explanation
Indices: 76286823--76286867 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
76286813 TTCTAATACG
*
76286823 TATATATATAT
1 TATATATATTT
*
76286834 TATATGTATTT
1 TATATATATTT
*
76286845 TATATATATTA
1 TATATATATTT
*
76286856 TGTATATATTT
1 TATATATATTT
76286867 T
1 T
76286868 TTAACGCAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:76287073 original size:19 final size:20
Alignment explanation
Indices: 76287049--76287096 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
76287039 TACATTAGTG
76287049 TATATTTTATGTACATAT-A
1 TATATTTTATGTACATATCA
*
76287068 TATATTTTTTGTACATATCA
1 TATATTTTATGTACATATCA
76287088 T-TATTTTAT
1 TATATTTTAT
76287097 ATTATTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTTATGTACATATCA
Found at i:76296504 original size:68 final size:67
Alignment explanation
Indices: 76296421--76296692 Score: 252
Period size: 68 Copynumber: 4.0 Consensus size: 67
76296411 TTTTATTTCA
* *
76296421 AAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTTC
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-TCAATTTTC
76296486 TGT
65 TGT
** * * *
76296489 ATGTTCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACGCGCTGAGGTA--T---TTTT-A
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTTCT
**
76296548 AA
66 GT
*
76296550 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTT-T
*
76296615 GTTGT
64 -CTGT
* * * * *
76296620 CAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCA
1 ----AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA-TTTCA
76296685 A-TTTCTGT
59 ATTTTCTGT
76296693 TTTTCAATTT
Statistics
Matches: 166, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
61 47 0.28
62 5 0.03
64 1 0.01
65 1 0.01
67 3 0.02
68 48 0.29
73 3 0.02
74 38 0.23
75 3 0.02
76 17 0.10
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (67 bp):
AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTTCT
GT
Found at i:76296698 original size:14 final size:14
Alignment explanation
Indices: 76296679--76296705 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76296669 CGCCGAGGTA
76296679 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
76296693 TTTTCAATTTCTG
1 TTTTCAATTTCTG
76296706 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:76296711 original size:14 final size:14
Alignment explanation
Indices: 76296680--76296713 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
76296670 GCCGAGGTAT
**
76296680 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
76296694 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
76296708 TTTCAA
1 TTTCAA
76296714 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:76296731 original size:91 final size:88
Alignment explanation
Indices: 76296604--76296782 Score: 243
Period size: 91 Copynumber: 2.0 Consensus size: 88
76296594 GCTGAGGTAA
* * *
76296604 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGG--ACA
*
76296669 CGCCGAGGTATTTTCAATTTCTGTT
64 CGCCGAGGTAATTTCAATTTCTGTT
* *
76296694 TTTCAATTTCTGCCTT-TCAAAAAAATTAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACA
* *
76296758 TGCTGAGGTAATTTCAATTTCTGTT
64 CGCCGAGGTAATTTCAATTTCTGTT
76296783 GTCAAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
89 25 0.32
90 12 0.15
91 40 0.51
92 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACACG
CCGAGGTAATTTCAATTTCTGTT
Found at i:76296818 original size:75 final size:74
Alignment explanation
Indices: 76296693--76297122 Score: 569
Period size: 75 Copynumber: 5.7 Consensus size: 74
76296683 CAATTTCTGT
* * *
76296693 TTTTCAATTTCTGCCTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
76296758 TGCTGAGGTA
65 TGCTGAGGTA
* * ** *
76296768 ATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
76296833 TGCTGAGGTA
65 TGCTGAGGTA
* *
76296843 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
76296908 CGCTGAGGTA
65 TGCTGAGGTA
* * * ** * *
76296918 ATTTCAATTTCTGTTTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
*
76296981 GTTGAGGTA
66 GCTGAGGTA
* *
76296990 TTTTCAATTTCTGTTTTAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCA
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
76297054 CATGCTGAGGTA
63 CATGCTGAGGTA
*
76297066 TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGT-TTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
76297123 TTCAAATCAC
Statistics
Matches: 312, Mismatches: 34, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
72 63 0.20
73 1 0.00
74 42 0.13
75 138 0.44
76 28 0.09
77 3 0.01
78 37 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
GCTGAGGTA
Found at i:76298777 original size:18 final size:18
Alignment explanation
Indices: 76298743--76298779 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
76298733 CTAATACGTA
*
76298743 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
76298761 TATATATTATGTATATTT
1 TATATATTATATATATTT
76298779 T
1 T
76298780 TTTAATGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:76298928 original size:14 final size:13
Alignment explanation
Indices: 76298909--76298938 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
76298899 TGTGTATATA
76298909 TTTTTTTATGTACG
1 TTTTTTT-TGTACG
76298923 TTTTTTTTGTACG
1 TTTTTTTTGTACG
76298936 TTT
1 TTT
76298939 CCTAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (13 bp):
TTTTTTTTGTACG
Found at i:76311307 original size:28 final size:28
Alignment explanation
Indices: 76311264--76311334 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
76311254 AAATCTCAAA
*
76311264 AAAACCCTAAACCCTACTTTAAATAAAC
1 AAAACCCTAAACCCTAATTTAAATAAAC
*
76311292 AAAACCCTAAATCCTAATTTAAATAAAC
1 AAAACCCTAAACCCTAATTTAAATAAAC
*
76311320 AAAACCCTAACCCCT
1 AAAACCCTAAACCCT
76311335 TAAAAACGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (28 bp):
AAAACCCTAAACCCTAATTTAAATAAAC
Found at i:76323197 original size:30 final size:30
Alignment explanation
Indices: 76323162--76323221 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
76323152 TAGGTAGTTC
76323162 CACACGGATA-ATCCACACGCCCGTGTGTCA
1 CACACGGATAGA-CCACACGCCCGTGTGTCA
* * *
76323192 CACACGGGTAGACTACACGTCCGTGTGTCA
1 CACACGGATAGACCACACGCCCGTGTGTCA
76323222 TGGCCGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.18
Consensus pattern (30 bp):
CACACGGATAGACCACACGCCCGTGTGTCA
Found at i:76326909 original size:72 final size:70
Alignment explanation
Indices: 76326746--76326926 Score: 197
Period size: 72 Copynumber: 2.6 Consensus size: 70
76326736 TGTTTTACTG
* * *
76326746 AAAGCGCCGC--AAAAACCAAAGACAAACGATGCCGTTTCTGAGTTTTTGGGGATTTAGCGACGT
1 AAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTTTTGGGGATTTAGCGACGT
76326809 TTTTA
66 TTTTA
* **** *
76326814 ATCAAGCGCCACTAATTTTCCTAAGACAAACGGTGCCGTTTCGGTAGTTTTT-GGGATTTAGCGG
1 A--AAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGG-AGTTTTTGGGGATTTAGCGA
76326878 CGTTTTTGGA
63 CGTTTTT--A
* *
76326888 AAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTT
1 AAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTT
76326927 TCCAAGCTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
68 1 0.01
70 8 0.09
72 72 0.80
73 7 0.08
74 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (70 bp):
AAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTTTTGGGGATTTAGCGACGT
TTTTA
Found at i:76327071 original size:113 final size:114
Alignment explanation
Indices: 76326870--76327088 Score: 257
Period size: 113 Copynumber: 1.9 Consensus size: 114
76326860 GTTTTTGGGA
* * ***
76326870 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTTTCCAAGCT
1 TTTAGCGGCGTTTATGGAAAAGCGCCGCTAAAAAACATAAGCCAAACGGCACCGTTTTCCAAGCT
* *
76326935 TTCGTGGAATTAGTGGCGCTTTTA-CGATAGCGCCGCTAATGTTCAGGGC
66 TTCGAGGAATTAGCGGCGCTTTTAGCGA-AGCGCCGCTAATGTTCAGGGC
* * *
76326984 TTTAGCGGCGTTTATGGAGAAGCGCCGC-AAAAAACATATGTCC-AACGGCACCGTTTT-CATAT
1 TTTAGCGGCGTTTATGGAAAAGCGCCGCTAAAAAACATAAG-CCAAACGGCACCGTTTTCCA-AG
* * * *
76327046 CTTTTGAGGCATTAGCGGCGTTTTTAGTGAAGCGCCGCTAATG
64 CTTTCGAGGAATTAGCGGCGCTTTTAGCGAAGCGCCGCTAATG
76327089 GTTGGGGTTG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
112 2 0.02
113 56 0.64
114 30 0.34
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTATGGAAAAGCGCCGCTAAAAAACATAAGCCAAACGGCACCGTTTTCCAAGCT
TTCGAGGAATTAGCGGCGCTTTTAGCGAAGCGCCGCTAATGTTCAGGGC
Found at i:76327770 original size:13 final size:13
Alignment explanation
Indices: 76327748--76327789 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
76327738 TGAGTTTGGG
* *
76327748 GTTTAAGGTTTGA
1 GTTTAGGGTTTTA
76327761 GTTTAGGGTTTTA
1 GTTTAGGGTTTTA
*
76327774 G-CTAGGGTTTTA
1 GTTTAGGGTTTTA
76327786 GTTT
1 GTTT
76327790 GGAAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTTA
Found at i:76327946 original size:14 final size:14
Alignment explanation
Indices: 76327918--76328006 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
76327908 TTCCCAAAAA
76327918 TATGGTTTA-GGTT
1 TATGGTTTAGGGTT
76327931 TATGGTTTAGGGTT
1 TATGGTTTAGGGTT
** *
76327945 TACAGTTTAGAGTT
1 TATGGTTTAGGGTT
76327959 TA-GAGTTTTA-GGTT
1 TATG-G-TTTAGGGTT
** *
76327973 TGGGGTTTAGGATT
1 TATGGTTTAGGGTT
* * *
76327987 TAAGATTTAAGGTT
1 TATGGTTTAGGGTT
76328001 TATGGT
1 TATGGT
76328007 ATATATATTG
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
13 13 0.23
14 39 0.68
15 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (14 bp):
TATGGTTTAGGGTT
Found at i:76327973 original size:21 final size:19
Alignment explanation
Indices: 76327921--76328002 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 19
76327911 CCAAAAATAT
76327921 GGTTTAGGTTTATGGTTTAG
1 GGTTTAGGTTTA-GGTTTAG
*
76327941 GGTTTACAGTTTAGAGTTTAG
1 GGTTTA-GGTTTAG-GTTTAG
* *
76327962 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTT-AGGTTTAG
* *
76327983 GATTTAAGATTTAAGGTTTA
1 GGTTT-AGGTTT-AGGTTTA
76328003 TGGTATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.22
21 32 0.65
22 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (19 bp):
GGTTTAGGTTTAGGTTTAG
Found at i:76328642 original size:115 final size:116
Alignment explanation
Indices: 76328440--76328679 Score: 378
Period size: 115 Copynumber: 2.1 Consensus size: 116
76328430 GGCGCTTCAG
* * **
76328440 AAAAAACGTCGCTAAAGGTCATATATTACCGGCGTTTTGTGAAGAAACGCCACAAAATTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
*
76328505 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT-T
66 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
* *
76328555 AAAAAATGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCAC-AAATTGCCTTT
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATT-CCTTT
*
76328619 AACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
65 AACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
76328671 -AAAAACGCC
1 AAAAAACGCC
76328680 ACAAATTCGC
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 5 0.04
115 108 0.95
116 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (116 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
Found at i:76329093 original size:261 final size:261
Alignment explanation
Indices: 76328541--76329250 Score: 1151
Period size: 261 Copynumber: 2.7 Consensus size: 261
76328531 TTGTTTTCTT
*
76328541 TTAGTGGCGCATTTAAAAAAT-GCCGCTAAAA-GTGATATATTACCGGCGTTTTACGAAGAAACG
1 TTAGTGGCGCATTT-GAAAATCGCCGC-AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACG
* * * *
76328604 CCACAAATTGCCTTTAACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATT
64 CCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
* * * * *
76328669 ATAAAAACGCCACAAAT-TCGCAAATCACGAGCTGAGGAAACGGTGTCGTTTCCT-TTTTTATTA
129 ATAAAAACGCCACAAATATTG---TTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTA
* *
76328732 GTGGCGCTTTAGCTAAAGCGCCGCAACAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
191 GTGGCGCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
*
76328797 TTGTTA
256 TTGATA
* *
76328803 TTAGTGGCGCAGTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTATGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
76328868 AGAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
76328933 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
131 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
76328998 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
196 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
76329063 A
261 A
76329064 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
76329129 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
** *
76329194 AAAAACGCCACAAATATT-TATTAATAGCTGAGGAAACGGCGCCGTTTCCTATTTTTA
131 AAAAACGCCACAAATATTGT-TTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTA
76329251 TTAGCTGAAG
Statistics
Matches: 419, Mismatches: 24, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
260 29 0.07
261 263 0.63
262 125 0.30
263 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (261 bp):
TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
A
Found at i:76329857 original size:34 final size:34
Alignment explanation
Indices: 76329807--76329884 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
76329797 CGTAAAAAAT
* * *
76329807 GATTTTCCATCTGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
76329841 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
76329875 GATTTTGCAT
1 GATTTTGCAT
76329885 GCTGGAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
Found at i:76330297 original size:73 final size:74
Alignment explanation
Indices: 76330220--76330376 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 74
76330210 TAAAAGATAA
76330220 AATAATATAT-AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
1 AATAATATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
76330284 AATATTATT
66 AATATTATT
76330293 AATAAT-TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
1 AATAATATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
76330357 AATATTATT
66 AATATTATT
76330366 AATAATTATAT
1 AATAA-TATAT
76330377 TAGTAATGTT
Statistics
Matches: 81, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
72 3 0.04
73 74 0.91
74 1 0.01
75 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (74 bp):
AATAATATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
AATATTATT
Found at i:76330440 original size:19 final size:19
Alignment explanation
Indices: 76330416--76330712 Score: 96
Period size: 19 Copynumber: 16.5 Consensus size: 19
76330406 TATTAAATAA
76330416 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
76330435 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
76330453 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
76330469 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
76330488 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
76330513 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
76330531 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
76330549 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
76330563 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
76330582 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* * *
76330601 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
76330620 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
76330634 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
76330653 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
76330671 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
76330685 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
76330704 TACATAATA
1 TACATAATA
76330713 CATAATAACT
Statistics
Matches: 213, Mismatches: 27, Indels: 76
0.67 0.09 0.24
Matches are distributed among these distances:
14 13 0.06
15 13 0.06
16 13 0.06
17 13 0.06
18 53 0.25
19 85 0.40
21 1 0.00
22 6 0.03
23 1 0.00
25 15 0.07
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:76330495 original size:26 final size:26
Alignment explanation
Indices: 76330412--76330810 Score: 525
Period size: 26 Copynumber: 16.1 Consensus size: 26
76330402 ATTTTATTAA
76330412 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76330438 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
76330465 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76330491 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
76330516 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
76330534 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76330559 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76330585 ATAATACATAATAACTT---AC--AC
1 ATAATACATAATAACTTACAACTTAC
76330606 --AATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76330630 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
76330656 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76330681 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76330707 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76330733 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
76330758 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76330783 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76330809 AT
1 AT
76330811 TTAACTTACA
Statistics
Matches: 331, Mismatches: 21, Indels: 42
0.84 0.05 0.11
Matches are distributed among these distances:
18 12 0.04
19 15 0.05
20 3 0.01
21 2 0.01
22 2 0.01
23 5 0.02
24 2 0.01
25 113 0.34
26 153 0.46
27 15 0.05
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:76330818 original size:11 final size:10
Alignment explanation
Indices: 76330802--76330855 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
76330792 AATAACTTAC
76330802 AACTTACATTT
1 AACTTACA-TT
76330813 AACTTACA-T
1 AACTTACATT
76330822 AA--TACATTT
1 AACTTACA-TT
76330831 AACTTACA-T
1 AACTTACATT
76330840 AACTTACA-T
1 AACTTACATT
76330849 AACTTAC
1 AACTTAC
76330856 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:76330851 original size:18 final size:18
Alignment explanation
Indices: 76330691--76330855 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
76330681 ACAATACATA
76330691 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
76330707 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
76330726 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
76330740 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
76330758 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
76330776 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
76330793 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
76330809 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
76330827 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
76330847 ATAACTTAC
1 ATAACTTAC
76330856 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:76336329 original size:21 final size:21
Alignment explanation
Indices: 76336303--76336373 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
76336293 CTACAACTTA
* *
76336303 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
76336324 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
76336345 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
76336366 AAGCAGAG
1 AAGCAGAG
76336374 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:76336616 original size:14 final size:14
Alignment explanation
Indices: 76336597--76336630 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76336587 ATTGCTATTG
76336597 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
76336611 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
76336625 TTTGCT
1 GTTGCT
76336631 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:76336795 original size:42 final size:42
Alignment explanation
Indices: 76336683--76337028 Score: 372
Period size: 42 Copynumber: 8.2 Consensus size: 42
76336673 CAAAAATAGT
* * *
76336683 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAGCGCCGCTAAAGAACATGATCTTTAGC
* * ** * *
76336727 GGCG-TTTGTAAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
* **** *
76336768 GGCGATTAGAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
*** * *
76336810 GGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
* * *
76336852 GGCATTTTTTTACAAA-CGCCGCTAAAGAACATGTTCTTTAGT
1 GGCGTTTTTTTA-AAAGCGCCGCTAAAGAACATGATCTTTAGC
**
76336894 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
**
76336936 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
** * *
76336978 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
76337020 GGCGTTTTT
1 GGCGTTTTT
76337029 GTTTGTAAAC
Statistics
Matches: 267, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
41 34 0.13
42 224 0.84
43 5 0.02
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
Found at i:76337163 original size:22 final size:22
Alignment explanation
Indices: 76337120--76337163 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
76337110 TAGTGGCGTT
* **
76337120 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
76337142 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
76337164 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:76347417 original size:64 final size:64
Alignment explanation
Indices: 76347295--76347417 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
76347285 CATTCATATT
* * * *
76347295 ACATCTAGTTAGGAGCATTTGCTTCATTTTGATCACAGCATCCTAATTATTTGACATAAACATC
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCACAGCATCCTAATTATTCGACATAAACATC
* *
76347359 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTCGGCATAA
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCACAGCATCCTAATTATTCGACATAA
76347418 GTATAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGATTCATTTCGATCACAGCATCCTAATTATTCGACATAAACATC
Found at i:76347767 original size:45 final size:45
Alignment explanation
Indices: 76347703--76347791 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
76347693 TAACAGGCTG
*
76347703 GAAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTA
1 GAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTA
*
76347748 GAAATGACAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATT
1 GAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATT
76347792 TTAGCCACCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
GAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTA
Found at i:76347790 original size:177 final size:177
Alignment explanation
Indices: 76347488--76347922 Score: 674
Period size: 177 Copynumber: 2.5 Consensus size: 177
76347478 CGGTGAAGTC
* * *
76347488 ACGAGCCTTAACCCTCTAAGTAGTAAGGTAATAGGCTGCAAATTACAGATCTTATCTCCATGTAT
1 ACGAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTAT
* ** * * *
76347553 CAGCTATGGAAAAGATCAGAAATGGCGAGTTTTATCTCCATGTATCGACTATGGAGCAGATTTTA
66 CGGCTATGGAGCAGATCAGAAATGACAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTA
* *
76347618 GCCACCGACCTTATCTCTTTGGGGTAGCAAGAGAGCAGGTTGAAGAT
131 GCCACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * *
76347665 ACGAGTCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGGAAATTACAAATCTTATCTCCATGTAT
1 ACGAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTAT
* *
76347730 CGGCTATGGAGCAGATTAGAAATGACAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
66 CGGCTATGGAGCAGATCAGAAATGACAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTA
76347795 GCCACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
131 GCCACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
** *
76347842 ACGAGCCTTAACCC-CTTAACCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCTCCATGTA
1 ACGAGCCTTAACCCTC-TAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTA
*
76347906 TAGGCTATGGAGCAGAT
65 TCGGCTATGGAGCAGAT
76347923 GTTAGCCACC
Statistics
Matches: 235, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 1 0.00
177 234 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (177 bp):
ACGAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTAT
CGGCTATGGAGCAGATCAGAAATGACAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTA
GCCACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:76347999 original size:132 final size:132
Alignment explanation
Indices: 76347749--76348054 Score: 470
Period size: 132 Copynumber: 2.3 Consensus size: 132
76347739 AGCAGATTAG
* * *
76347749 AAATGACAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGACCTTATCTCTC
1 AAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATGTTAGCCACCGACCTTATCTCTC
76347814 TGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCTTAACCAGTAGGGTAACAGGCT
66 TGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCTTAACCAGTAGGGTAACAGGCT
76347879 GA
131 GA
* * * *
76347881 AAATTATAGATCTTATCTCCATGTATAGGCTATGGAGCAGATGTTAGCCACCGGCCTTATCTCTC
1 AAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATGTTAGCCACCGACCTTATCTCTC
* **
76347946 TGAGGTAGCAAGAGAGCAGGTTGAAGATATGAGCCTTAACCCAC-TAAGTAGTAGGGTAACAGGC
66 TGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCC-CTTAACCAGTAGGGTAACAGGC
76348010 TGA
130 TGA
* * * *
76348013 AAATTACAAAGCTTATCTTCATGTATCGGTTATGGAACAGAT
1 AAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGAT
76348055 CAGAAATGAC
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 155 0.99
133 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
AAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATGTTAGCCACCGACCTTATCTCTC
TGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCTTAACCAGTAGGGTAACAGGCT
GA
Done.