Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 27 of 54
Found at i:11368409 original size:13 final size:13
Alignment explanation
Indices: 11368391--11368415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11368381 GGAGAAATTG
11368391 TGATTTTATAAAA
1 TGATTTTATAAAA
11368404 TGATTTTATAAA
1 TGATTTTATAAA
11368416 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11371551 original size:235 final size:234
Alignment explanation
Indices: 11371121--11371589 Score: 758
Period size: 235 Copynumber: 2.0 Consensus size: 234
11371111 TTTGATGCTT
*
11371121 AGAGACCGATTTTGTGTCCCTAAGGATGATCAGTTAAGACGAGCTATTTTAGAGGAAGCTCATTC
1 AGAGACCGAATTTGTGTCCCTAAGGATGATCAGTTAAGACGAGCTATTTTAGAGGAAGCTCATTC
* * *
11371186 TTCCCCCTATGCTTTACATTCCGGAAGCACCAAGATGTATCGGGCTATTAAAGAAAGTTATTGGT
66 TTCCCCCTATGCTTTACATCCCGGAAGCACCAAGATGTATCAGACTATTAAAGAAAGTTATTGGT
11371251 GGCCGGGTATGAAACGAGATATAACAAAGTTTGTAACAAAATGTCTCACATGCCAACAAATCAAG
131 GGCCGGGTATGAAACGAGATATAACAAAGTTTGTAACAAAATGTCTCACATGCCAACAAATCAAG
*
11371316 ACGGAACATCAGAAACCATCAGGTACTCTTCAACCTTTA
196 ACGGAACATCAAAAACCATCAGGTACTCTTCAACCTTTA
* *
11371355 NAGAGATCGAATTTGTGTCCCTAAGGATGATCAGTTAAGACGAGCTATTTTGGAGGAAGCTCATT
1 -AGAGACCGAATTTGTGTCCCTAAGGATGATCAGTTAAGACGAGCTATTTTAGAGGAAGCTCATT
*
11371420 CTTCCGCCTATGCTTTACATCCCGGAAGCACCAAGATGTATCAGACTATTAAAGAAAGTTATTGG
65 CTTCCCCCTATGCTTTACATCCCGGAAGCACCAAGATGTATCAGACTATTAAAGAAAGTTATTGG
** * * * * * *
11371485 TGGCCGGGTATGAAACGAGATATAGTAGAGTTTGTAGCGAAATGTCTCACGTGTCAACAGATCAA
130 TGGCCGGGTATGAAACGAGATATAACAAAGTTTGTAACAAAATGTCTCACATGCCAACAAATCAA
* * *
11371550 GACGGAGCATCAAAAATCGTCAGGTACTCTTCAACCTTTA
195 GACGGAACATCAAAAACCATCAGGTACTCTTCAACCTTTA
11371590 TCGATTCCTA
Statistics
Matches: 215, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
235 215 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (234 bp):
AGAGACCGAATTTGTGTCCCTAAGGATGATCAGTTAAGACGAGCTATTTTAGAGGAAGCTCATTC
TTCCCCCTATGCTTTACATCCCGGAAGCACCAAGATGTATCAGACTATTAAAGAAAGTTATTGGT
GGCCGGGTATGAAACGAGATATAACAAAGTTTGTAACAAAATGTCTCACATGCCAACAAATCAAG
ACGGAACATCAAAAACCATCAGGTACTCTTCAACCTTTA
Found at i:11384160 original size:29 final size:29
Alignment explanation
Indices: 11384107--11384162 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
11384097 CCGCTAAAGG
* * **
11384107 TTGGTGGAAGGGTTTTTTTTTTTTGAAAA
1 TTGGTGGAAGGGTTATGTTAGTTTGAAAA
11384136 TTGGTGGAAGGGTTATGTTAGTTTGAA
1 TTGGTGGAAGGGTTATGTTAGTTTGAA
11384163 GCTAAAGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (29 bp):
TTGGTGGAAGGGTTATGTTAGTTTGAAAA
Found at i:11392996 original size:30 final size:30
Alignment explanation
Indices: 11392960--11393021 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11392950 ATACATAAAC
*
11392960 ATGTTTAAAATAGCATTGTGAATGCT-TTTG
1 ATGTTTAAAATAGCATTGGGAATG-TGTTTG
*
11392990 ATGTTTAAAATAGCTTTGGGAATGTGTTTG
1 ATGTTTAAAATAGCATTGGGAATGTGTTTG
11393020 AT
1 AT
11393022 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.44
Consensus pattern (30 bp):
ATGTTTAAAATAGCATTGGGAATGTGTTTG
Found at i:11393566 original size:25 final size:25
Alignment explanation
Indices: 11393538--11393609 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
11393528 CTCGCCTCAT
*
11393538 CACGTTTTGAAACCATGTGCTTTGC
1 CACGTTTTGAAACCACGTGCTTTGC
11393563 CACGTTTTGAAACCACGTGCTTTGC
1 CACGTTTTGAAACCACGTGCTTTGC
*
11393588 CACGTTTT-AAACCTACATGCTT
1 CACGTTTTGAAACC-ACGTGCTT
11393610 GTCACATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.11
25 39 0.89
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
CACGTTTTGAAACCACGTGCTTTGC
Found at i:11396335 original size:28 final size:27
Alignment explanation
Indices: 11396299--11396351 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11396289 ATATCCTGGT
*
11396299 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
11396326 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
11396352 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:11396419 original size:20 final size:20
Alignment explanation
Indices: 11396396--11396441 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
11396386 CTTCTAAACC
11396396 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
11396416 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
11396436 TCAAAT
1 TCAAAT
11396442 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:11407949 original size:34 final size:34
Alignment explanation
Indices: 11407835--11407976 Score: 104
Period size: 34 Copynumber: 4.1 Consensus size: 34
11407825 TCAAGGAATC
* * *
11407835 ATGCTTTTTAATGGGAACAAGCATTAAATTCTTACA
1 ATGCCTTTTAATGGGAGCAAGCA-T-AATCCTTACA
** ** ** * *
11407871 ATGGGTTTTTCTGAAAGCAACCACAATCCTTACAA
1 ATGCCTTTTAATGGGAGCAAGCATAATCCTTAC-A
** *
11407906 ATGCCTTTTAATGTTAGCAAGCATAATCCTCACA
1 ATGCCTTTTAATGGGAGCAAGCATAATCCTTACA
* * *
11407940 ATGCGTTTTAATGGGAACAAGCATAACCCTTACA
1 ATGCCTTTTAATGGGAGCAAGCATAATCCTTACA
11407974 ATG
1 ATG
11407977 ATTTTTAACG
Statistics
Matches: 80, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
34 40 0.50
35 25 0.31
36 15 0.19
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (34 bp):
ATGCCTTTTAATGGGAGCAAGCATAATCCTTACA
Found at i:11408487 original size:73 final size:74
Alignment explanation
Indices: 11408389--11408591 Score: 236
Period size: 73 Copynumber: 2.8 Consensus size: 74
11408379 CTAATCTGAA
*
11408389 ACAGAATCAACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGT-TAGAAACTA
1 ACAGAATCAACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGTCT-GAAA-TA
*
11408453 -AGTTTAG-AG
64 GAGGTTAGAAG
* * * * * * * *
11408462 ACATAATCAACTAAATCAATTAAGAAGAAT-GTTAGTCGACTAAGAACTCACTGTCTGCAATAGG
1 ACAGAATCAACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGTCTGAAATAGA
11408526 GGTTAGAAG
66 GGTTAGAAG
* * *
11408535 ATAGAATCAACTTAATCGACTAAGAAGCA-AGTTAGTCAACTAAGAGCTCTCTGTCTG
1 ACAGAATCAACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGTCTG
11408592 CCACCTCAAA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
71 2 0.02
72 30 0.28
73 75 0.70
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (74 bp):
ACAGAATCAACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTCACTGTCTGAAATAGA
GGTTAGAAG
Found at i:11411953 original size:15 final size:15
Alignment explanation
Indices: 11411909--11411954 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
11411899 AGATCAGAGA
11411909 TTTT-GATTTTAAAG
1 TTTTGGATTTTAAAG
*
11411923 CTTTGGATTTTAAAG
1 TTTTGGATTTTAAAG
11411938 TTTTCGG-TTTTAAAG
1 TTTT-GGATTTTAAAG
11411953 TT
1 TT
11411955 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 23 0.82
16 2 0.07
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAAG
Found at i:11415267 original size:17 final size:17
Alignment explanation
Indices: 11415222--11415267 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11415212 TTTATGAGAA
11415222 AAATATGAATTTATAAAAT
1 AAAT-TGAA-TTATAAAAT
**
11415241 AAATAAAATTATAAAAT
1 AAATTGAATTATAAAAT
11415258 AAATTGAATT
1 AAATTGAATT
11415268 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 17 0.74
18 2 0.09
19 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
AAATTGAATTATAAAAT
Found at i:11417809 original size:42 final size:42
Alignment explanation
Indices: 11417672--11417833 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 42
11417662 ATCCCATCAT
* * * **
11417672 CATCAGCTCATGTGCACTCCCTACTCGCACATAGCGAGGTCAG
1 CATCAGCTTATGCGCACT-TCTACTCGCACATAGCTTGGTCAG
* * *
11417715 CATCAGCTCATGTGCACTCCCTACTCGCACATAG-TTGGGTCAG
1 CATCAGCTTATGCGCACT-TCTACTCGCACATAGCTT-GGTCAG
* * * *
11417758 CATCGGCTTATGCGCACTTCAACTCACACATAGCTTGGTCAA
1 CATCAGCTTATGCGCACTTCTACTCGCACATAGCTTGGTCAG
*
11417800 CATCAGCTTATGCGCACTTTTACTCGCACATAGC
1 CATCAGCTTATGCGCACTTCTACTCGCACATAGC
11417834 CGGGTCAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 47 0.45
43 57 0.55
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (42 bp):
CATCAGCTTATGCGCACTTCTACTCGCACATAGCTTGGTCAG
Found at i:11417840 original size:42 final size:42
Alignment explanation
Indices: 11417672--11417846 Score: 163
Period size: 42 Copynumber: 4.1 Consensus size: 42
11417662 ATCCCATCAT
* * * *
11417672 CATCAGCTCATGTGCACTCCCTACTCGCACATAG-CGAGGTCAG
1 CATCAGCTTATGCGCACT-TCTACTCGCACATAGCCG-GGTCAA
* * * ** *
11417715 CATCAGCTCATGTGCACTCCCTACTCGCACATAGTTGGGTCAG
1 CATCAGCTTATGCGCACT-TCTACTCGCACATAGCCGGGTCAA
* * * **
11417758 CATCGGCTTATGCGCACTTCAACTCACACATAGCTTGGTCAA
1 CATCAGCTTATGCGCACTTCTACTCGCACATAGCCGGGTCAA
*
11417800 CATCAGCTTATGCGCACTTTTACTCGCACATAGCCGGGTCAA
1 CATCAGCTTATGCGCACTTCTACTCGCACATAGCCGGGTCAA
*
11417842 TATCA
1 CATCA
11417847 TTACACAATA
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 58 0.51
43 55 0.48
44 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (42 bp):
CATCAGCTTATGCGCACTTCTACTCGCACATAGCCGGGTCAA
Found at i:11418607 original size:2 final size:2
Alignment explanation
Indices: 11418600--11418657 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
11418590 CATAAAAATT
11418600 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
11418642 AG GG AG GG AG AG AG AG
1 AG AG AG AG AG AG AG AG
11418658 TTATGGAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11431115 original size:11 final size:11
Alignment explanation
Indices: 11431099--11431137 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
11431089 CACTGTAAAT
11431099 TTTAAAACAAC
1 TTTAAAACAAC
11431110 TTTAAAACAAC
1 TTTAAAACAAC
11431121 TTT-AAACTAAC
1 TTTAAAAC-AAC
11431132 TTTAAA
1 TTTAAA
11431138 CTCAAAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 4 0.15
11 20 0.77
12 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:11431156 original size:22 final size:22
Alignment explanation
Indices: 11431131--11431174 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11431121 TTTAAACTAA
11431131 CTTT-AAACTCAAAAGCTCTGAT
1 CTTTAAAAC-CAAAAGCTCTGAT
11431153 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
11431175 ACCAACTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:11434248 original size:37 final size:37
Alignment explanation
Indices: 11434206--11434289 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
11434196 AAGAACCTAG
* *
11434206 CATAACCTTTACAAACCATTGCTTTTCATGGATTAAGA
1 CATAACCTTTACAAACCACTGCCTTTCATGGATTAA-A
* * *
11434244 -ATAACTTTTACAATCCACTGCCTTTCTTGGATTAAA
1 CATAACCTTTACAAACCACTGCCTTTCATGGATTAAA
11434280 CATAACCTTT
1 CATAACCTTT
11434290 GCCTTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
36 1 0.03
37 38 0.97
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (37 bp):
CATAACCTTTACAAACCACTGCCTTTCATGGATTAAA
Found at i:11434337 original size:29 final size:30
Alignment explanation
Indices: 11434304--11434375 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
11434294 TTTTAAGGAA
11434304 CAAGCATAGCCTCACTACT-TTTAAAAGAT
1 CAAGCATAGCCTCACTACTATTTAAAAGAT
* * *
11434333 TAAGCAGAAG-CTCACTACTATTTAAAGGAT
1 CAAGCA-TAGCCTCACTACTATTTAAAAGAT
*
11434363 CAAGCATAACCTC
1 CAAGCATAGCCTC
11434376 TTCCTTTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (30 bp):
CAAGCATAGCCTCACTACTATTTAAAAGAT
Found at i:11434408 original size:27 final size:27
Alignment explanation
Indices: 11434357--11434430 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
11434347 CTACTATTTA
*
11434357 AAGGATCAAGCATAACCTCTTCC-TTTC
1 AAGGATCAAGCATAACCT-TACCTTTTC
11434384 AAGGATCAAGCATAACCTTAACCTTTTC
1 AAGGATCAAGCATAACCTT-ACCTTTTC
*
11434412 AAGGAT-AAGGCAAAACCTT
1 AAGGATCAA-GCATAACCTT
11434431 TACAACACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 1 0.02
27 22 0.52
28 19 0.45
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (27 bp):
AAGGATCAAGCATAACCTTACCTTTTC
Found at i:11452953 original size:2 final size:2
Alignment explanation
Indices: 11452946--11452982 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11452936 NNNNNNNNNN
11452946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11452983 TGTGTTGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11465745 original size:2 final size:2
Alignment explanation
Indices: 11465738--11465785 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
11465728 AACATATACG
11465738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11465780 TA TA TA
1 TA TA TA
11465786 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11470690 original size:25 final size:25
Alignment explanation
Indices: 11470658--11470730 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
11470648 ATGTCCCTAA
* *
11470658 CATGTTTTGAACCTATGTGCCTCGT
1 CATGTTTTGAACCTACGTGCCTCGC
* *
11470683 CTTGTTTTGAAACC-ACGTGCTTCGC
1 CATGTTTTG-AACCTACGTGCCTCGC
*
11470708 CATGTTTTGAACCTACATGCCTC
1 CATGTTTTGAACCTACGTGCCTC
11470731 ATCACAGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.10
25 31 0.79
26 4 0.10
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (25 bp):
CATGTTTTGAACCTACGTGCCTCGC
Found at i:11478656 original size:27 final size:27
Alignment explanation
Indices: 11478598--11478658 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
11478588 TCAGGCTGCC
* *
11478598 AAAACAAAATGTTTCTCACTGCAGCGA
1 AAAACAGAATGTTTCTCACTGCAACGA
*
11478625 AAAACAGAATGTTTCTCACTGCAATGA
1 AAAACAGAATGTTTCTCACTGCAACGA
*
11478652 GAAACAG
1 AAAACAG
11478659 TGTCAGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AAAACAGAATGTTTCTCACTGCAACGA
Found at i:11478950 original size:22 final size:21
Alignment explanation
Indices: 11478906--11478950 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
11478896 GCCAAAACAA
*
11478906 AATGTTTCTTGCTACAGCCAG
1 AATGTTTCTTGCTACAGCAAG
* *
11478927 AATGCTTTCTTGCTGCAGTAAG
1 AATG-TTTCTTGCTACAGCAAG
11478949 AA
1 AA
11478951 GCAAGGCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
AATGTTTCTTGCTACAGCAAG
Found at i:11481521 original size:20 final size:20
Alignment explanation
Indices: 11481496--11481534 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11481486 TCAGATTCCT
*
11481496 AAATTTAATGTATTTATCTC
1 AAATTTAATGAATTTATCTC
*
11481516 AAATTTAGTGAATTTATCT
1 AAATTTAATGAATTTATCT
11481535 ATCAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (20 bp):
AAATTTAATGAATTTATCTC
Found at i:11483945 original size:15 final size:15
Alignment explanation
Indices: 11483921--11483953 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11483911 AACACAAAAC
11483921 TTTTCTTGCTCTTGAT
1 TTTTCTTGCTCTTG-T
11483937 TTTTC-TGCTCTTGT
1 TTTTCTTGCTCTTGT
11483951 TTT
1 TTT
11483954 GTTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.12, T:0.67
Consensus pattern (15 bp):
TTTTCTTGCTCTTGT
Found at i:11486095 original size:38 final size:40
Alignment explanation
Indices: 11485996--11486097 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 40
11485986 CTCGACTCAA
*
11485996 GTACATCCCCCCACATCGTGCACATAGCCGGTGCCATCGT
1 GTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCGT
** * * * * *
11486036 GTGTATCTCCCTACATTGTGCACA-A-TCAGTGCCATTGT
1 GTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCGT
11486074 GTACATCCCCCCACATCGTGCACA
1 GTACATCCCCCCACATCGTGCACA
11486098 CAGGCACTAT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 29 0.59
39 1 0.02
40 19 0.39
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.25
Consensus pattern (40 bp):
GTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCGT
Found at i:11487485 original size:28 final size:28
Alignment explanation
Indices: 11487431--11487485 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11487421 GACAAGTGCT
* *
11487431 GGGGCGAAAAATTTACCGATTTGCCCCC
1 GGGGCGAAAAAATTACCGATTTACCCCC
*
11487459 GGGGTGAAAAAATTA-CGATTTTACCCC
1 GGGGCGAAAAAATTACCGA-TTTACCCC
11487486 TATACTCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (28 bp):
GGGGCGAAAAAATTACCGATTTACCCCC
Found at i:11490075 original size:15 final size:15
Alignment explanation
Indices: 11490051--11490083 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11490041 AACAAAACAC
11490051 TTTTCTTGCTCTTGAT
1 TTTTCTTGCTCTT-AT
11490067 TTTTC-TGCTCTTAT
1 TTTTCTTGCTCTTAT
11490081 TTT
1 TTT
11490084 GTTTTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.06, C:0.18, G:0.09, T:0.67
Consensus pattern (15 bp):
TTTTCTTGCTCTTAT
Found at i:11490279 original size:36 final size:36
Alignment explanation
Indices: 11490232--11490305 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
11490222 ACTTTTGGAT
11490232 AAAGGTATTGTTTCAATAATCATCTTATGGCAGGAC
1 AAAGGTATTGTTTCAATAATCATCTTATGGCAGGAC
11490268 AAAGGTATTGTTTCAATAATCATCTTATGGCAGGAC
1 AAAGGTATTGTTTCAATAATCATCTTATGGCAGGAC
11490304 AA
1 AA
11490306 CTATTCATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (36 bp):
AAAGGTATTGTTTCAATAATCATCTTATGGCAGGAC
Found at i:11493627 original size:24 final size:22
Alignment explanation
Indices: 11493571--11493625 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
11493561 GTTAAGTGAG
11493571 TTTTATTTATTATTTAATTTTA
1 TTTTATTTATTATTTAATTTTA
11493593 GTTTTAGTTTATTAGTTTTAATTTT-
1 -TTTTA-TTTATTA--TTTAATTTTA
11493618 TTTTATTT
1 TTTTATTT
11493626 TAATTGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
26 9 0.31
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTATTTATTATTTAATTTTA
Found at i:11494538 original size:14 final size:14
Alignment explanation
Indices: 11494519--11494549 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11494509 CTATGAATCT
11494519 TAATGCCAATGACA
1 TAATGCCAATGACA
*
11494533 TAATGCTAATGACA
1 TAATGCCAATGACA
11494547 TAA
1 TAA
11494550 GATGCCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (14 bp):
TAATGCCAATGACA
Found at i:11496072 original size:41 final size:41
Alignment explanation
Indices: 11496015--11496097 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
11496005 TATATTGAGA
* * * * *
11496015 TATTGGGTTGAACTGTTGATATATTATATGTTATGATAAGT
1 TATTGGATTGAACTGTTAAGATATAATAGGTTATGATAAGT
*
11496056 TATTGGATTGGACTGTTAAGATATAATAGGTTATGATAAGT
1 TATTGGATTGAACTGTTAAGATATAATAGGTTATGATAAGT
11496097 T
1 T
11496098 TAGATTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.43
Consensus pattern (41 bp):
TATTGGATTGAACTGTTAAGATATAATAGGTTATGATAAGT
Found at i:11496406 original size:18 final size:19
Alignment explanation
Indices: 11496360--11496406 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11496350 ATTATTTTTA
11496360 AAAAAATATTAAAAATATAT
1 AAAAAAT-TTAAAAATATAT
* * *
11496380 ATAATATTTAAAAA-ATTT
1 AAAAAATTTAAAAATATAT
11496398 AAAAAATTT
1 AAAAAATTT
11496407 TGAGAAACGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATTTAAAAATATAT
Found at i:11499314 original size:20 final size:22
Alignment explanation
Indices: 11499264--11499316 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
11499254 AAGAATAAAA
11499264 TAAAAT-AATCATATATTAGTT
1 TAAAATAAATCATATATTAGTT
*
11499285 TAAATTATAAATTAT-TATTA-TT
1 TAAA--ATAAATCATATATTAGTT
11499307 TAAAATAAAT
1 TAAAATAAAT
11499317 AAATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 6 0.21
23 7 0.25
24 5 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAAATAAATCATATATTAGTT
Found at i:11503833 original size:9 final size:9
Alignment explanation
Indices: 11503776--11503833 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
11503766 AACAGAATTG
11503776 AAAA-AAAT
1 AAAATAAAT
11503784 -AAATAAAT
1 AAAATAAAT
*
11503792 AAAATTAAT
1 AAAATAAAT
11503801 AATAAT-AAT
1 AA-AATAAAT
*
11503810 ATAAATAGAAA
1 A-AAATA-AAT
11503821 AAAATAAAT
1 AAAATAAAT
11503830 AAAA
1 AAAA
11503834 ACTTTACCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 22 0.54
10 9 0.22
11 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:11505799 original size:17 final size:15
Alignment explanation
Indices: 11505767--11505795 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11505757 CTAACCTTTC
11505767 TTTTTTCTCTCTCCT
1 TTTTTTCTCTCTCCT
11505782 TTTTTTCTCT-TCCT
1 TTTTTTCTCTCTCCT
11505796 CCTTATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTCTCTCTCCT
Found at i:11506343 original size:30 final size:30
Alignment explanation
Indices: 11506303--11506361 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
11506293 TACATAAGCA
*
11506303 TGTTTAGAATAGCATTGAGAATGTTTTTGG
1 TGTTTAGAATAGCATTGAGAATGCTTTTGG
* *
11506333 TGTTTGGAATAGCATTGGGAATGCTTTTG
1 TGTTTAGAATAGCATTGAGAATGCTTTTG
11506362 ATAAAAATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (30 bp):
TGTTTAGAATAGCATTGAGAATGCTTTTGG
Found at i:11512204 original size:13 final size:13
Alignment explanation
Indices: 11512186--11512225 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
11512176 CAATTAATCC
*
11512186 AATAATTTGATTA
1 AATAATTTAATTA
11512199 AATAATTTAATTA
1 AATAATTTAATTA
11512212 AATAATTTAATTA
1 AATAATTTAATTA
11512225 A
1 A
11512226 GTTCTTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
AATAATTTAATTA
Found at i:11512283 original size:35 final size:35
Alignment explanation
Indices: 11512239--11512471 Score: 238
Period size: 35 Copynumber: 6.7 Consensus size: 35
11512229 CTTAAGAAGT
*** *
11512239 CCAATTAACTTAATTGTTTAATTTAATTGATTAGGC
1 CCAA-TAACTTAATTAAATAATTTAATTAATTAGGC
* *
11512275 CCAATAACTTAATTAAACAATTTAATTAATTAAGC
1 CCAATAACTTAATTAAATAATTTAATTAATTAGGC
* *
11512310 CCAATAATTTAATTAAATAATTTTAATCAATTAGGC
1 CCAATAACTTAATTAAATAA-TTTAATTAATTAGGC
* * * * *
11512346 CCAATGACTTAATTAAACAAATTTAATCAATTAAGT
1 CCAATAACTTAATTAAA-TAATTTAATTAATTAGGC
***
11512382 CCAATAACTTAATTGTTTAATTTAATTAATTAGGC
1 CCAATAACTTAATTAAATAATTTAATTAATTAGGC
* *
11512417 TCAATGACTTAATTAAATAATTTAATTAATTAGG-
1 CCAATAACTTAATTAAATAATTTAATTAATTAGGC
* *
11512451 -C-ACAACTTAATTAAACAATTT
1 CCAATAACTTAATTAAATAATTT
11512472 TAATCAAGTG
Statistics
Matches: 164, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
32 17 0.10
33 1 0.01
35 86 0.52
36 58 0.35
37 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (35 bp):
CCAATAACTTAATTAAATAATTTAATTAATTAGGC
Found at i:11512346 original size:71 final size:70
Alignment explanation
Indices: 11512268--11512478 Score: 266
Period size: 71 Copynumber: 3.0 Consensus size: 70
11512258 AATTTAATTG
* *
11512268 ATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAATAATTTAATTAAATAATTT
1 ATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAG-CCAATAACTTAATTAAATAATTT
11512333 TAATCA
65 TAATCA
* ***
11512339 ATTAGGCCCAATGACTTAATTAAACAAATTTAATCAATTAAGTCCAATAACTTAATTGTTTAA-T
1 ATTAGGCCCAATGACTTAATTAAAC-AATTTAATTAATTAAG-CCAATAACTTAATTAAATAATT
*
11512403 TTAATTA
64 TTAATCA
* * * * *
11512410 ATTAGGCTCAATGACTTAATTAAATAATTTAATTAATT-AGGC-ACAACTTAATTAAACAATTTT
1 ATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCCAATAACTTAATTAAATAATTTT
11512473 AATCA
66 AATCA
11512478 A
1 A
11512479 GTGCTTGAGA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
67 12 0.10
68 9 0.08
69 2 0.02
70 12 0.10
71 54 0.45
72 31 0.26
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (70 bp):
ATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCCAATAACTTAATTAAATAATTTT
AATCA
Found at i:11512394 original size:107 final size:103
Alignment explanation
Indices: 11512275--11512478 Score: 273
Period size: 107 Copynumber: 1.9 Consensus size: 103
11512265 TTGATTAGGC
*
11512275 CCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAATAATTTAATTAAATAATTTTAATCAA
1 CCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAATAACTTAATTAAATAA-TTTAATCAA
*
11512340 TTAGGCCCAATGACTTAATTAAACAAATTTAATCAATTAAGT
65 TTAGGCAC-A--ACTTAATTAAACAAATTTAATCAATTAAGT
**** * * * *
11512382 CCAATAACTTAATTGTTTAATTTAATTAATTAGGCTCAATGACTTAATTAAATAATTTAATTAAT
1 CCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAATAACTTAATTAAATAATTTAATCAAT
*
11512447 TAGGCACAACTTAATTAAACAATTTTAATCAA
66 TAGGCACAACTTAATTAAACAAATTTAATCAA
11512479 GTGCTTGAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
103 23 0.27
105 1 0.01
106 15 0.17
107 47 0.55
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (103 bp):
CCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAATAACTTAATTAAATAATTTAATCAAT
TAGGCACAACTTAATTAAACAAATTTAATCAATTAAGT
Found at i:11520446 original size:73 final size:73
Alignment explanation
Indices: 11520306--11520462 Score: 206
Period size: 73 Copynumber: 2.2 Consensus size: 73
11520296 GCAGTGAGCA
* * * *
11520306 CTTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCTAGATTTCAAGT
1 CTTAGTCGACTAACTTACTTCTTAGTAGATTAAGTTGGTTCTGTCTTGAAGTCCAGATTTCAAGT
*
11520371 AGTAGGCT
66 AGTAGACT
* * * * ***
11520379 TTTAGTCGACTAATTTACTTCTTGGTAGATTAAGTTGGTTCTGTCTTGAAGTCCAGGTTTTTGGT
1 CTTAGTCGACTAACTTACTTCTTAGTAGATTAAGTTGGTTCTGTCTTGAAGTCCAGATTTCAAGT
11520444 AGTAGACT
66 AGTAGACT
11520452 CTTAGTCGACT
1 CTTAGTCGACT
11520463 GACCCATTTC
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (73 bp):
CTTAGTCGACTAACTTACTTCTTAGTAGATTAAGTTGGTTCTGTCTTGAAGTCCAGATTTCAAGT
AGTAGACT
Found at i:11520494 original size:73 final size:73
Alignment explanation
Indices: 11520306--11520495 Score: 195
Period size: 73 Copynumber: 2.6 Consensus size: 73
11520296 GCAGTGAGCA
* * *
11520306 CTTAGTCGACTAACTTC-CTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCTAGATTTCAAG
1 CTTAGTCGACTAAC-CCACTTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCAAG
*
11520370 TAGTAGGCT
65 TAGTAGACT
* *** * * * ***
11520379 TTTAGTCGACTAATTTACTTCTTGGTAGATTAAGTTGGTTCTGTCTTGAAGTCCAGGTTTTTGGT
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCAAGT
11520444 AGTAGACT
66 AGTAGACT
* * *
11520452 CTTAGTCGACTGACCCATTTCTTGGTCGACTAAGTCT-TTTCTGT
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGT-TGTTTCTGT
11520496 TCTCAATACT
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
72 1 0.01
73 92 0.98
74 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (73 bp):
CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCAAGT
AGTAGACT
Found at i:11521163 original size:20 final size:20
Alignment explanation
Indices: 11521138--11521184 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
11521128 CCATTCACAA
* *
11521138 TATCATTGACAGAAATTGGT
1 TATCATCGACAGAAAATGGT
11521158 TATCATCGACAGAAAATGGT
1 TATCATCGACAGAAAATGGT
11521178 TATCATC
1 TATCATC
11521185 ATAACAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
TATCATCGACAGAAAATGGT
Found at i:11521433 original size:25 final size:25
Alignment explanation
Indices: 11521401--11521458 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
11521391 CTACCCCTAG
11521401 TTCTCCCCTAAACTTTCTACCATAA
1 TTCTCCCCTAAACTTTCTACCATAA
*
11521426 TTCTCCCCTAAACTTTCTACCTTAA
1 TTCTCCCCTAAACTTTCTACCATAA
11521451 TTCTCCCC
1 TTCTCCCC
11521459 CTTTTTGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (25 bp):
TTCTCCCCTAAACTTTCTACCATAA
Found at i:11528903 original size:35 final size:35
Alignment explanation
Indices: 11528859--11528929 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
11528849 TTTCACCAAG
* *
11528859 CTTTAACAATGGCTTTTACCAGGCTCAGCCAAAAC
1 CTTTAACAATGGCTTTTACCAGGATCAACCAAAAC
* * *
11528894 CTTTCACAATGGTTTTTACCGGGATCAACCAAAAC
1 CTTTAACAATGGCTTTTACCAGGATCAACCAAAAC
11528929 C
1 C
11528930 CAAACTAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTACCAGGATCAACCAAAAC
Found at i:11529560 original size:73 final size:73
Alignment explanation
Indices: 11529412--11529568 Score: 215
Period size: 73 Copynumber: 2.2 Consensus size: 73
11529402 GCAGTGAGCA
* * *
11529412 CTTAGCCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTCTATCTTGAAGTCCAGATTTCTGGC
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGGC
* *
11529477 AGTAGGCT
66 AGGAGACT
* * * * **
11529485 CTTAGTCGACTAATTTACTTCTTGGTCGATTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTTGTT
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGGC
11529550 AGGAGACT
66 AGGAGACT
11529558 CTTAGTCGACT
1 CTTAGTCGACT
11529569 GACCCATTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (73 bp):
CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGGC
AGGAGACT
Found at i:11529580 original size:73 final size:73
Alignment explanation
Indices: 11529412--11529592 Score: 202
Period size: 73 Copynumber: 2.5 Consensus size: 73
11529402 GCAGTGAGCA
* * * *
11529412 CTTAGCCGACTAACTTC-CTTCTTAGTCGATTAAGTTGTTTCTATCTTGAAGTCCAGATTTCTGG
1 CTTAGTCGACTAAC-CCACTTCTTGGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGG
* *
11529476 CAGTAGGCT
65 CAGGAGACT
*** * * **
11529485 CTTAGTCGACTAATTTACTTCTTGGTCGATTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTTGTT
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGGC
11529550 AGGAGACT
66 AGGAGACT
* * *
11529558 CTTAGTCGACTGACCCATTTCTTGGTCGACTAAGT
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGT
11529593 CTTTTCTATT
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
72 1 0.01
73 89 0.99
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (73 bp):
CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTTGGTTCTATCTTGAAGTCCAGATTTCTGGC
AGGAGACT
Found at i:11537330 original size:14 final size:14
Alignment explanation
Indices: 11537311--11537337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11537301 TAGTATAACA
11537311 AAAAAAATAAATAG
1 AAAAAAATAAATAG
11537325 AAAAAAATAAATA
1 AAAAAAATAAATA
11537338 AACAGTGTCT
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:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAATAG
Found at i:11539759 original size:21 final size:21
Alignment explanation
Indices: 11539735--11539776 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11539725 AGACAGAATG
*
11539735 CTCTTAGTTGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
11539756 CTCTTAGTCGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
11539777 ACTGTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (21 bp):
CTCTTAGTCGACTAAGTGCCT
Found at i:11557465 original size:37 final size:37
Alignment explanation
Indices: 11557424--11557533 Score: 112
Period size: 37 Copynumber: 3.0 Consensus size: 37
11557414 ATGATGTTGT
* **
11557424 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *
11557461 ATGATGACATTGAAATGTGAGAGTAGGGAGTGCACAT
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *** *
11557498 ATGGTGGTATTGCCTTGTGCGTGTAGGGAGTGCACA
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
11557534 AGAGATGAAG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.25
Consensus pattern (37 bp):
ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:11561887 original size:15 final size:15
Alignment explanation
Indices: 11561867--11561898 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11561857 GTGGATTGTT
11561867 AGATGCAGGTTTTGA
1 AGATGCAGGTTTTGA
11561882 AGATGCAGGTTTTGA
1 AGATGCAGGTTTTGA
11561897 AG
1 AG
11561899 GAAATAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.31
Consensus pattern (15 bp):
AGATGCAGGTTTTGA
Found at i:11574167 original size:42 final size:42
Alignment explanation
Indices: 11574108--11574224 Score: 189
Period size: 42 Copynumber: 2.8 Consensus size: 42
11574098 TGGACCCAGT
* * **
11574108 TATGTGAGAGTAGGAGTGCACATAAGTCGTTGCTGACTTGGC
1 TATGTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGGC
11574150 TATGTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGGC
1 TATGTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGGC
*
11574192 TATGTGCGAGTGGGAGTGCGCATAAGTCGTTGC
1 TATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
11574225 ATATGAGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (42 bp):
TATGTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGGC
Found at i:11574625 original size:39 final size:39
Alignment explanation
Indices: 11574563--11574650 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
11574553 TCATTCTCAT
* * * *
11574563 TGCAGCCAGAAACTTTCTGTTTCTGGGTTACAATTTCAC
1 TGCAGCGAGAAACATTCTATTTCTGGGTCACAATTTCAC
*
11574602 TGCAGCGAGAAACATTCTATTTCTGGGTCACAATTTCGC
1 TGCAGCGAGAAACATTCTATTTCTGGGTCACAATTTCAC
11574641 TGCAGCGAGA
1 TGCAGCGAGA
11574651 TTCAAGCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (39 bp):
TGCAGCGAGAAACATTCTATTTCTGGGTCACAATTTCAC
Found at i:11581498 original size:20 final size:19
Alignment explanation
Indices: 11581473--11581511 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11581463 TTCAGATTTC
11581473 CAAATTTAATGAATTTATCT
1 CAAA-TTAATGAATTTATCT
*
11581493 CAAATTAGTGAATTTATCT
1 CAAATTAATGAATTTATCT
11581512 ATCAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (19 bp):
CAAATTAATGAATTTATCT
Found at i:11582906 original size:12 final size:12
Alignment explanation
Indices: 11582889--11582913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11582879 AAATCATGAT
11582889 ATGATAGGATAA
1 ATGATAGGATAA
11582901 ATGATAGGATAA
1 ATGATAGGATAA
11582913 A
1 A
11582914 AAGTAATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
ATGATAGGATAA
Found at i:11583910 original size:15 final size:15
Alignment explanation
Indices: 11583886--11583918 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11583876 AACATAACAC
11583886 TTTTCTTGCTCTTGAT
1 TTTTCTTGCTCTTG-T
11583902 TTTTC-TGCTCTTGT
1 TTTTCTTGCTCTTGT
11583916 TTT
1 TTT
11583919 GTTTTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.12, T:0.67
Consensus pattern (15 bp):
TTTTCTTGCTCTTGT
Found at i:11594695 original size:27 final size:27
Alignment explanation
Indices: 11594662--11594715 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
11594652 TGTTAATATT
*
11594662 TAAATTATCAATTATAAATATTTTAAA
1 TAAATTATAAATTATAAATATTTTAAA
*
11594689 TAAATTATAAATTATTAATATTTTAAA
1 TAAATTATAAATTATAAATATTTTAAA
11594716 AATAAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAATTATAAATTATAAATATTTTAAA
Found at i:11594766 original size:22 final size:20
Alignment explanation
Indices: 11594741--11594781 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
11594731 CATATATTAN
11594741 AATAATATTAAATTATAAATAA
1 AATAATATT-AATTA-AAATAA
*
11594763 AATATTATTAATTAAAATA
1 AATAATATTAATTAAAATA
11594782 TTAGTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATATTAATTAAAATAA
Found at i:11594769 original size:14 final size:15
Alignment explanation
Indices: 11594752--11594793 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
11594742 ATAATATTAA
11594752 ATTA-TAAATAAAAT
1 ATTAGTAAATAAAAT
* *
11594766 ATTATTAATTAAAAT
1 ATTAGTAAATAAAAT
*
11594781 ATTAGTAATTAAA
1 ATTAGTAAATAAA
11594794 TTATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATTAGTAAATAAAAT
Found at i:11594780 original size:15 final size:15
Alignment explanation
Indices: 11594760--11594802 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
11594750 AAATTATAAA
11594760 TAAAATATTATTAAT
1 TAAAATATTATTAAT
*
11594775 TAAAATATTAGTAAT
1 TAAAATATTATTAAT
*
11594790 TAAATTA-TATTAA
1 TAAAATATTATTAA
11594803 AATATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TAAAATATTATTAAT
Found at i:11594918 original size:27 final size:26
Alignment explanation
Indices: 11594888--11594944 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
11594878 TGTTAATATT
*
11594888 TAAATTATCAA-TTATTAATATTTTAAA
1 TAAATTAT-AACTTATCAATA-TTTAAA
11594915 TAAATTATAACTTATCAATATTTAAA
1 TAAATTATAACTTATCAATATTTAAA
11594941 -AAAT
1 TAAAT
11594945 GAAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 8 0.29
27 16 0.57
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATTATAACTTATCAATATTTAAA
Found at i:11607267 original size:30 final size:30
Alignment explanation
Indices: 11607231--11607292 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11607221 ATACATAAGC
* *
11607231 ATGTTTAAAATAGCATTGTGAATGCTTTTG
1 ATGTTTAAAATAGCATTGGGAATGATTTTG
*
11607261 ATGTTTAGAATAGCATTGGGAATGATTTTG
1 ATGTTTAAAATAGCATTGGGAATGATTTTG
11607291 AT
1 AT
11607293 AAAAATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.42
Consensus pattern (30 bp):
ATGTTTAAAATAGCATTGGGAATGATTTTG
Found at i:11610142 original size:37 final size:36
Alignment explanation
Indices: 11610087--11610175 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
11610077 ACTATATATA
* * *
11610087 GGATCAAGCATAATCTTTACAAACCACCTT-TTTTCAT
1 GGATTAAGCATAACCTTTACAAACCA--TTACTTTCAT
*
11610124 GGATTAAGCATAACCTTTACAATCCATTACCTTTCAT
1 GGATTAAGCATAACCTTTACAAACCATTA-CTTTCAT
11610161 GGATTAAGCATAACC
1 GGATTAAGCATAACC
11610176 CTAACTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
35 2 0.04
37 44 0.96
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.33
Consensus pattern (36 bp):
GGATTAAGCATAACCTTTACAAACCATTACTTTCAT
Found at i:11610287 original size:29 final size:29
Alignment explanation
Indices: 11610148--11610293 Score: 125
Period size: 30 Copynumber: 5.0 Consensus size: 29
11610138 CTTTACAATC
* * *
11610148 CATTACCTTTCATGGATTAAGCATAACC-
1 CATTACTTTTCAAGGATCAAGCATAACCT
* * * * *
11610176 C-TAACTTTTTTAAGCATCAACCATAACAT
1 CATTAC-TTTTCAAGGATCAAGCATAACCT
* * *
11610205 CACTACTTTTCAAAAGATCAAGCATAAGCT
1 CATTACTTTTC-AAGGATCAAGCATAACCT
* *
11610235 CACTACTATTTAAAGGATCAAGCATAACCT
1 CATTACT-TTTCAAGGATCAAGCATAACCT
*
11610265 CTTTACTTTTCAAGGATCAAGCATAACCT
1 CATTACTTTTCAAGGATCAAGCATAACCT
11610294 TAACCTTTTC
Statistics
Matches: 91, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
27 3 0.03
28 16 0.18
29 26 0.29
30 43 0.47
31 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (29 bp):
CATTACTTTTCAAGGATCAAGCATAACCT
Found at i:11610828 original size:21 final size:20
Alignment explanation
Indices: 11610764--11610831 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
11610754 GTCTAGAGCT
*
11610764 TTCTACTTTTTAAGAATTGA
1 TTCTTCTTTTTAAGAATTGA
* * **
11610784 TTCTTCATTCTTGAGGTGTTGA
1 TTCTTC-TT-TTTAAGAATTGA
11610806 TTCTTCTTGTTTAAGAATTGA
1 TTCTTCTT-TTTAAGAATTGA
11610827 TTCTT
1 TTCTT
11610832 GCCTTTCTAG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
20 5 0.14
21 17 0.47
22 14 0.39
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (20 bp):
TTCTTCTTTTTAAGAATTGA
Found at i:11610830 original size:43 final size:43
Alignment explanation
Indices: 11610764--11610858 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 43
11610754 GTCTAGAGCT
* *
11610764 TTCTACTT-TTTAAGAATTGATTCTT-CA-TTCTTGAGGTGTTGA
1 TTCTTCTTGTTTAAGAATTGATTCTTGCATTTC-T-AGATGTTGA
*
11610806 TTCTTCTTGTTTAAGAATTGATTCTTGCCTTTCTAGATGTTGA
1 TTCTTCTTGTTTAAGAATTGATTCTTGCATTTCTAGATGTTGA
11610849 TTCTTCTTGT
1 TTCTTCTTGT
11610859 CTCACTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
42 7 0.15
43 35 0.74
44 2 0.04
45 3 0.06
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.53
Consensus pattern (43 bp):
TTCTTCTTGTTTAAGAATTGATTCTTGCATTTCTAGATGTTGA
Found at i:11615757 original size:6 final size:6
Alignment explanation
Indices: 11615746--11615787 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
11615736 TATTTCATTC
* *
11615746 ATTTAT ATTTAT ATATAT ATATAT -TTTAT ATTTAT CATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT -ATTTAT
11615788 CTCCTTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTAT
Found at i:11616772 original size:13 final size:12
Alignment explanation
Indices: 11616754--11616794 Score: 50
Period size: 10 Copynumber: 3.5 Consensus size: 12
11616744 TGCTCCTTTC
11616754 TTTTTTCATTGTA
1 TTTTTTC-TTGTA
*
11616767 TTTTTT-TTAT-
1 TTTTTTCTTGTA
11616777 TTTTTTCTTGTA
1 TTTTTTCTTGTA
11616789 TTTTTT
1 TTTTTT
11616795 TGGTTATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 6 0.25
11 6 0.25
12 6 0.25
13 6 0.25
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTGTA
Found at i:11617594 original size:50 final size:51
Alignment explanation
Indices: 11617325--11618027 Score: 836
Period size: 50 Copynumber: 14.1 Consensus size: 51
11617315 AAGCTCGACA
* * * ** * *
11617325 ACTTTGAAATTCATTTTGAAACAT-AATCAACTCCTCATTAGAGGCTTTACA
1 ACTTT-AAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
** * * * *
11617376 ACTTCGAAATCATTTTTCCAAAAATAAAT-AACTCCTAATCCGAGGCTTTACC
1 ACTTTAAAATCA-ATTT-GAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* * *
11617428 ACTTCAAAATCAATTTG-AAAATAAA-CAACTCTTTATCCGAGGCTCT---
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* *
11617474 -CTTCAAAATCAATTTGAAAAATAAA-CAACTCCGCATCCGAGGCTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* *
11617523 ACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCGAGGCTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* * ** * *
11617574 ACTTTAAAATCAATTTAAAAAATAAA-CAACTCTTCATTTGAGGTTCTGCC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* * *
11617624 ACTTTAAAATCAATTTGAAAAAT-AATCAACTCCTCATCCAAGGTTATACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
*
11617674 ACTTTAAAATCAATTTGAAAAATAAATGAACTCCTCATCCGAGGCTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
*
11617725 ACTTTAAAATCAATTTGAAAAATAAATGAACTCCTCATCCGAGGCTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* * *
11617776 ACTCTAAAATCAATTTAAAAAATAAA-CAA---CTCAT-CGAGGTTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* * * *
11617822 ACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCAAGGCTATACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
* *
11617873 ACTTTAAAATCATTTTGAAAAATAAA-CAACTCCTCATCCGAGGCTCTAGC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
*
11617923 ACTTTAAAATCAATTTGAAAAATAAAT-GACTCCTCATCCGAGGCTCTACC
1 ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
*
11617973 ACTTTAAAATCAATTTGAACAACT-AA-CAACTCCTCATCCGAGGCTCT-CC
1 ACTTTAAAATCAATTTGAA-AAATAAATCAACTCCTCATCCGAGGCTCTACC
11618022 AACTTT
1 -ACTTT
11618028 TGATTTTTTT
Statistics
Matches: 570, Mismatches: 61, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
45 16 0.03
46 61 0.11
47 7 0.01
49 29 0.05
50 227 0.40
51 192 0.34
52 35 0.06
53 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (51 bp):
ACTTTAAAATCAATTTGAAAAATAAATCAACTCCTCATCCGAGGCTCTACC
Found at i:11617876 original size:299 final size:293
Alignment explanation
Indices: 11617325--11618027 Score: 898
Period size: 299 Copynumber: 2.4 Consensus size: 293
11617315 AAGCTCGACA
* * * * * **
11617325 ACTTTGAAATTCATTTTGAAACATAATCAACTCCTCAT-TAGAGGCTTTACAACTTCGAAATCAT
1 ACTTT-AAAATCAATTTGAAAAATAATCAACTCCTCATCCA-AGG-TTTACCACTTTAAAATCA-
* * * * *
11617389 TTTTCCAAAAATAAATAACTCCTAATCCGAGGCTTTACCACTTCAAAATCAATTTGAAAATAAAC
62 ATTT-GAAAAATAAATAACTCCTCATCCGAGGCTCTACCACTTTAAAATCAATTTGAAAATAAAC
* * * *
11617454 AACTCTTTATCCGAGGCTCTCTTCAAAATCAATTTGAAAAATAAACAACTCCGCATCCGAGGCTC
126 AACTCCTCATCCGAGGCTCTCCTCAAAATCAATTTAAAAAATAAACAACT-C-CATCCGAGGCTC
* *
11617519 TACCACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCGAGGCTCTACCACTTTAAAAT
189 TACCACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCAAGGCTATACCACTTTAAAAT
* ** *
11617584 CAATTTAAAAAATAAACAACTCTTCATTTGAGGTTCT-GCC
254 CAATTTAAAAAATAAACAACTCCTCATCCGAGGCTCTAG-C
11617624 ACTTTAAAATCAATTTGAAAAATAATCAACTCCTCATCCAAGGTTATACCACTTTAAAATCAATT
1 ACTTTAAAATCAATTTGAAAAATAATCAACTCCTCATCCAAGGTT-TACCACTTTAAAATCAATT
*
11617689 TGAAAAATAAATGAACTCCTCATCCGAGGCTCTACCACTTTAAAATCAATTTGAAAAATAAATGA
65 TGAAAAATAAAT-AACTCCTCATCCGAGGCTCTACCACTTTAAAATCAATTTG-AAAATAAA-CA
*
11617754 ACTCCTCATCCGAGGCTCTACCACTCTAAAATCAATTTAAAAAATAAACAACT-CAT-CGAGGTT
127 ACTCCTCATCCGAGGCTCT--C-CTC-AAAATCAATTTAAAAAATAAACAACTCCATCCGAGGCT
11617817 CTACCACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCAAGGCTATACCACTTTAAAA
188 CTACCACTTTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCAAGGCTATACCACTTTAAAA
* *
11617882 TCATTTTGAAAAATAAACAACTCCTCATCCGAGGCTCTAGC
253 TCAATTTAAAAAATAAACAACTCCTCATCCGAGGCTCTAGC
* * *
11617923 ACTTTAAAATCAATTTGAAAAATAAAT-GACTCCTCATCCGAGGCTCTACCACTTTAAAATCAAT
1 ACTTTAAAATCAATTTGAAAAAT-AATCAACTCCTCATCCAAGG-TTTACCACTTTAAAATCAAT
* *
11617987 TTGAACAACT-AACAACTCCTCATCCGAGGCTCT-CCAACTTT
64 TTGAA-AAATAAATAACTCCTCATCCGAGGCTCTACC-ACTTT
11618028 TGATTTTTTT
Statistics
Matches: 359, Mismatches: 31, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
296 10 0.03
297 44 0.12
298 78 0.22
299 188 0.52
300 11 0.03
301 1 0.00
302 2 0.01
303 25 0.07
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (293 bp):
ACTTTAAAATCAATTTGAAAAATAATCAACTCCTCATCCAAGGTTTACCACTTTAAAATCAATTT
GAAAAATAAATAACTCCTCATCCGAGGCTCTACCACTTTAAAATCAATTTGAAAATAAACAACTC
CTCATCCGAGGCTCTCCTCAAAATCAATTTAAAAAATAAACAACTCCATCCGAGGCTCTACCACT
TTAAAATCAATTTGAAAAATAAATGAACTCTTCATCCAAGGCTATACCACTTTAAAATCAATTTA
AAAAATAAACAACTCCTCATCCGAGGCTCTAGC
Found at i:11631116 original size:14 final size:16
Alignment explanation
Indices: 11631097--11631133 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11631087 CTTAATTAAA
11631097 TATATATT-T-TTATT
1 TATATATTATATTATT
*
11631111 TTTATATTATATTATT
1 TATATATTATATTATT
11631127 TATATAT
1 TATATAT
11631134 ATTTGTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:11632219 original size:18 final size:17
Alignment explanation
Indices: 11632195--11632237 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
11632185 CTCTTTTTTT
* *
11632195 TTTCATTCATTTTTTCA
1 TTTCATTAATTTTTTAA
11632212 TTTGCATTTAATTTTTTAA
1 TTT-CA-TTAATTTTTTAA
11632231 TTTCATT
1 TTTCATT
11632238 TTCATTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 13 0.59
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTCATTAATTTTTTAA
Found at i:11632234 original size:24 final size:24
Alignment explanation
Indices: 11632207--11632252 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11632197 TCATTCATTT
11632207 TTTCATTTGCATTTAATTTTTTAA
1 TTTCATTTGCATTTAATTTTTTAA
* *
11632231 TTTCATTTTCATTTCATTTTTT
1 TTTCATTTGCATTTAATTTTTT
11632253 TGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTCATTTGCATTTAATTTTTTAA
Found at i:11632244 original size:19 final size:19
Alignment explanation
Indices: 11632200--11632244 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11632190 TTTTTTTTCA
*
11632200 TTCATTTTTTCATTTGCAT
1 TTCATTTTTTAATTTGCAT
*
11632219 TTAATTTTTTAATTT-CATT
1 TTCATTTTTTAATTTGCA-T
11632238 TTCATTT
1 TTCATTT
11632245 CATTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (19 bp):
TTCATTTTTTAATTTGCAT
Found at i:11633150 original size:20 final size:21
Alignment explanation
Indices: 11633105--11633152 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
11633095 AGATGTTTAA
*
11633105 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
11633126 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
11633146 AATAATT
1 AATAATT
11633153 TAATGAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:11635278 original size:27 final size:28
Alignment explanation
Indices: 11635248--11635300 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
11635238 ATGTCCTGGT
*
11635248 GGTGG-AAAAGTACAATTTTGCCCCTAG
1 GGTGGCAAAAGTACAATTTTACCCCTAG
* *
11635275 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGGCAAAAGTACAATTTTACCCCT
11635301 TTACTCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (28 bp):
GGTGGCAAAAGTACAATTTTACCCCTAG
Found at i:11639394 original size:20 final size:20
Alignment explanation
Indices: 11639369--11639414 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11639359 TTTTGGCCCC
* *
11639369 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
11639389 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
11639409 ATTTGA
1 ATTTGA
11639415 GGTTTATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:11639415 original size:20 final size:20
Alignment explanation
Indices: 11639378--11639415 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11639368 CATTTGACTT
*
11639378 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
11639398 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
11639416 GTTTATAAGT
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:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Found at i:11640659 original size:13 final size:13
Alignment explanation
Indices: 11640641--11640667 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11640631 GGAGAAATTG
11640641 TGATTTTATAAAA
1 TGATTTTATAAAA
11640654 TGATTTTATAAAA
1 TGATTTTATAAAA
11640667 T
1 T
11640668 TTCTGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11646311 original size:279 final size:279
Alignment explanation
Indices: 11645991--11646548 Score: 1100
Period size: 280 Copynumber: 2.0 Consensus size: 279
11645981 AGTTATAATT
11645991 AGGGCTAATGAGGAAAAATAAGAATGATCTTTCTC-TTTTTTTTTTTTTTACTTTTCCAAATAAG
1 AGGGCTAATGAGGAAAAATAAGAATGATCTTTCTCTTTTTTTTTTTTTTTACTTTTCCAAATAAG
11646055 ATATTAATTTTGGACAACTAAAAATATGCAAATATAAAATAAATGTGAGACAGAATGAGTAATTT
66 ATATTAATTTTGGACAACTAAAAATATGCAAATATAAAATAAATGTGAGACAGAATGAGTAATTT
11646120 CTATCTCTAATTAAAAAATAAAATGCGAATTAAGGGCAAGCATTTATTTAAGCCATTACTTATAC
131 CTATCTCTAATTAAAAAATAAAATGCGAATTAAGGGCAAGCATTTATTTAAGCCATTACTTATAC
11646185 AACCATCCTTAAATTACTCAAACCAAGAACTTGAACTAATAAACCATTTATGTTATATGTAATAA
196 AACCATCCTTAAATTACTCAAACCAAGAACTTGAACTAATAAACCATTTATGTTATATGTAATAA
11646250 TTTTTATTTTACTCTTGAA
261 TTTTTATTTTACTCTTGAA
11646269 NAGGGCTAATGAGGAAAAATAAGAATGATCTTTCTCTTTTTTTTTTTTTTTACTTTTCCAAATAA
1 -AGGGCTAATGAGGAAAAATAAGAATGATCTTTCTCTTTTTTTTTTTTTTTACTTTTCCAAATAA
11646334 GATATTAATTTTGGACAACTAAAAATATGCAAATATAAAATAAATGTGAGACAGAATGAGTAATT
65 GATATTAATTTTGGACAACTAAAAATATGCAAATATAAAATAAATGTGAGACAGAATGAGTAATT
11646399 TCTATCTCTAATTAAAAAATAAAATGCGAATTAAGGGCAAGCATTTATTTAAGCCATTACTTATA
130 TCTATCTCTAATTAAAAAATAAAATGCGAATTAAGGGCAAGCATTTATTTAAGCCATTACTTATA
11646464 CAACCATCCTTAAATTACTCAAACCAAGAACTTGAACTAATAAACCATTTATGTTATATGTAATA
195 CAACCATCCTTAAATTACTCAAACCAAGAACTTGAACTAATAAACCATTTATGTTATATGTAATA
11646529 ATTTTTATTTTACTCTTGAA
260 ATTTTTATTTTACTCTTGAA
11646549 CTATATTTGT
Statistics
Matches: 278, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
279 35 0.13
280 243 0.87
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (279 bp):
AGGGCTAATGAGGAAAAATAAGAATGATCTTTCTCTTTTTTTTTTTTTTTACTTTTCCAAATAAG
ATATTAATTTTGGACAACTAAAAATATGCAAATATAAAATAAATGTGAGACAGAATGAGTAATTT
CTATCTCTAATTAAAAAATAAAATGCGAATTAAGGGCAAGCATTTATTTAAGCCATTACTTATAC
AACCATCCTTAAATTACTCAAACCAAGAACTTGAACTAATAAACCATTTATGTTATATGTAATAA
TTTTTATTTTACTCTTGAA
Found at i:11649429 original size:20 final size:20
Alignment explanation
Indices: 11649404--11649443 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11649394 TTCAGATTCC
11649404 CAAATTTAATGAATTTATCT
1 CAAATTTAATGAATTTATCT
*
11649424 CAAATTTAGTGAATTTATCT
1 CAAATTTAATGAATTTATCT
11649444 ATCAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
CAAATTTAATGAATTTATCT
Found at i:11661310 original size:12 final size:12
Alignment explanation
Indices: 11661293--11661324 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11661283 CAAAAGAGCA
11661293 AAAAGATTGCAT
1 AAAAGATTGCAT
11661305 AAAAGATTGCAT
1 AAAAGATTGCAT
11661317 AAAAGATT
1 AAAAGATT
11661325 AGAGGAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (12 bp):
AAAAGATTGCAT
Found at i:11661445 original size:3 final size:3
Alignment explanation
Indices: 11661439--11661476 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11661429 CAGCAGCTTG
11661439 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
11661477 CATCTCACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:11662293 original size:42 final size:42
Alignment explanation
Indices: 11662228--11662351 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
11662218 GTTGATGTGA
* *
11662228 ACCCGGCTATGTGCAAGTAGGAGTGCACATAAGCCATTGCTG
1 ACCCGACTATGTGCAAGTGGGAGTGCACATAAGCCATTGCTG
* *
11662270 ATCCGACTATGTGCAAGTGGGAGTGCACATAAGCCATTGTTG
1 ACCCGACTATGTGCAAGTGGGAGTGCACATAAGCCATTGCTG
* * * *
11662312 ACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
1 ACCCGACTATGTGCAAGTGGGAGTGCACATAAGCCATTGC
11662352 ATATGAAATG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (42 bp):
ACCCGACTATGTGCAAGTGGGAGTGCACATAAGCCATTGCTG
Found at i:11674758 original size:5 final size:5
Alignment explanation
Indices: 11674733--11674781 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
11674723 TGCATTCTAT
* * *
11674733 TTAAC CTAAC CTAAC TTAAC TTAAC TTAAT TTAAC TTAAC TTAAC TTAA
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
11674782 TTAGGGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
TTAAC
Found at i:11674767 original size:20 final size:20
Alignment explanation
Indices: 11674744--11674783 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11674734 TAACCTAACC
11674744 TAACTTAACTTAACTTAATT
1 TAACTTAACTTAACTTAATT
11674764 TAACTTAACTTAACTTAATT
1 TAACTTAACTTAACTTAATT
11674784 AGGGGTCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (20 bp):
TAACTTAACTTAACTTAATT
Found at i:11674840 original size:15 final size:15
Alignment explanation
Indices: 11674820--11674865 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
11674810 TTCTTAAAAT
11674820 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
11674835 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
11674850 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
11674865 A
1 A
11674866 TCTCTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.22
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:11676229 original size:13 final size:13
Alignment explanation
Indices: 11676211--11676235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11676201 TTTCAGAAAA
11676211 TTTATAAAATCAT
1 TTTATAAAATCAT
11676224 TTTATAAAATCA
1 TTTATAAAATCA
11676236 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11676506 original size:13 final size:13
Alignment explanation
Indices: 11676488--11676512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11676478 TTTCAGAAAA
11676488 TTTATAAAATCAT
1 TTTATAAAATCAT
11676501 TTTATAAAATCA
1 TTTATAAAATCA
11676513 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11678392 original size:16 final size:16
Alignment explanation
Indices: 11678373--11678409 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
11678363 CAGTTCGAAT
11678373 CCAAATAAATTTGAAC
1 CCAAATAAATTTGAAC
11678389 CCAAATAAATTTGAAC
1 CCAAATAAATTTGAAC
11678405 CCAAA
1 CCAAA
11678410 GTGACTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (16 bp):
CCAAATAAATTTGAAC
Found at i:11681507 original size:2 final size:2
Alignment explanation
Indices: 11681500--11681537 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11681490 GAAGCAACTA
11681500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11681538 TAATATTCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11683093 original size:15 final size:16
Alignment explanation
Indices: 11683075--11683107 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11683065 TTAATAATTA
*
11683075 AATTATAA-AATTTTT
1 AATTATAATAATATTT
11683090 AATTATAATAATATTT
1 AATTATAATAATATTT
11683106 AA
1 AA
11683108 ATTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTATAATAATATTT
Found at i:11683182 original size:27 final size:25
Alignment explanation
Indices: 11683152--11683208 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
11683142 ATATTAATAT
*
11683152 TAAATTATCAATTATTAATATTTTAAA
1 TAAATTATAAATTA-TAATA-TTTAAA
11683179 TAAATTATAAATTATAATATTTAAA
1 TAAATTATAAATTATAATATTTAAA
*
11683204 AAAAT
1 TAAAT
11683209 AAAATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 5 0.18
27 13 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAATTATAAATTATAATATTTAAA
Found at i:11685327 original size:22 final size:23
Alignment explanation
Indices: 11685275--11685330 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
11685265 TAATCATAAT
*
11685275 AATATTTAAATTATAAAAAATATT
1 AATATTTAAATTAT-AAAAATATA
* *
11685299 AATATTTAAATTAT-CAATTATA
1 AATATTTAAATTATAAAAATATA
11685321 AATATTTAAA
1 AATATTTAAA
11685331 ATAAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.52
24 14 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTTAAATTATAAAAATATA
Found at i:11685338 original size:27 final size:28
Alignment explanation
Indices: 11685305--11685359 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
11685295 TATTAATATT
11685305 TAAATTATCAATTATAAATA-TTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
* *
11685332 TAAATTATTAATTATTAATATTTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
11685360 AATAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAATTATCAATTATAAATATTTTAAAA
Found at i:11685922 original size:22 final size:23
Alignment explanation
Indices: 11685870--11685925 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
11685860 TAATCATAAT
*
11685870 AATATTTAAATTATAAAAAATATT
1 AATATTTAAATTAT-AAAAATATA
* *
11685894 AATATTTAAATTAT-CAATTATA
1 AATATTTAAATTATAAAAATATA
11685916 AATATTTAAA
1 AATATTTAAA
11685926 ATAAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.52
24 14 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTTAAATTATAAAAATATA
Found at i:11685933 original size:27 final size:28
Alignment explanation
Indices: 11685900--11685954 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
11685890 TATTAATATT
11685900 TAAATTATCAATTATAAATA-TTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
* *
11685927 TAAATTATTAATTATTAATATTTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
11685955 AATAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAATTATCAATTATAAATATTTTAAAA
Found at i:11686091 original size:17 final size:17
Alignment explanation
Indices: 11686058--11686091 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11686048 TTAAAATTAT
*
11686058 TAATATTTTAATCATAA
1 TAATATTTCAATCATAA
*
11686075 TAATATTTCAATTATAA
1 TAATATTTCAATCATAA
11686092 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTCAATCATAA
Found at i:11689404 original size:28 final size:28
Alignment explanation
Indices: 11689372--11689457 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
11689362 TCTGGGACAA
* *
11689372 CAATATTATTAAGGATGTTTGCGTTCTT
1 CAATATTATTATGGATGTTTGTGTTCTT
* *
11689400 CAATATTATTATGAATGTTTGTGTTATT
1 CAATATTATTATGGATGTTTGTGTTCTT
* *
11689428 GAATATTATTATGGATATTTGTGTTCTT
1 CAATATTATTATGGATGTTTGTGTTCTT
11689456 CA
1 CA
11689458 TTAATATCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (28 bp):
CAATATTATTATGGATGTTTGTGTTCTT
Found at i:11690875 original size:19 final size:18
Alignment explanation
Indices: 11690837--11690875 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11690827 GTACTCTATT
* *
11690837 TTTCAAAATCATTATTAA
1 TTTCAAAATAATTATAAA
11690855 TTTCAAAATAATTTATAAA
1 TTTCAAAATAA-TTATAAA
11690874 TT
1 TT
11690876 AATTTCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTCAAAATAATTATAAA
Found at i:11692074 original size:28 final size:27
Alignment explanation
Indices: 11692035--11692088 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
11692025 ATGTCCTGGT
*
11692035 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTACCCCTAG
*
11692062 GGTGGCAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACAATTTTACCCCTA
11692089 TTCTCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTAG
Found at i:11699178 original size:55 final size:55
Alignment explanation
Indices: 11699056--11699453 Score: 176
Period size: 55 Copynumber: 7.3 Consensus size: 55
11699046 TTATTAAGTG
* * * * * *
11699056 TAACAACTAAATTTTTCAACATGGCATGCAACAACTAAA-CTTCAATATGACGTG
1 TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
*** * * *
11699110 TAATGGCTACATTTTTCAATACGACGTGCATCAACTAAATTTTCAATATGGCGTA
1 TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
* * ** * *
11699165 TAACAACTACATTTTTC-ATCATGATGTGTAACAACTAAATTTTCACCATAACGTG
1 TAACAACTACATTTTTCAAT-ATGACGTGCAACAACTAAATTTTCAATATGACGTA
* * * * * * * * * *
11699220 TAACAACTA-AATATTCAACAT-AGTGTGTAACAACTACATTTTTGAACATGATGTG
1 TAACAACTACATTTTTCAATATGA-CGTGCAACAACTA-AATTTTCAATATGACGTA
* * * * ** * * * ** *
11699275 TAATAACTAAAATTTT-AACATGATATGTAACAACTAAATCTTCAACATGGTGTG
1 TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
* * * * * * * * * *
11699329 TAACAATTATATTTTCCAACATGGCATGTAACAACTAGATCTTCAATATGACGTG
1 TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
* * * ** ** * * * *
11699384 TAACAACAACATTTTTCTACATGGTGTATAACAACTAAATTTTTAACATGACATG
1 TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
*
11699439 TGACAACTACATTTT
1 TAACAACTACATTTT
11699454 CAGCATAATG
Statistics
Matches: 271, Mismatches: 65, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
53 1 0.00
54 77 0.28
55 187 0.69
56 6 0.02
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (55 bp):
TAACAACTACATTTTTCAATATGACGTGCAACAACTAAATTTTCAATATGACGTA
Found at i:11699208 original size:82 final size:82
Alignment explanation
Indices: 11699122--11699455 Score: 323
Period size: 82 Copynumber: 4.1 Consensus size: 82
11699112 ATGGCTACAT
* * * * * *
11699122 TTTTCAATACGACGTGCATCAACTAAATTTTCAATATGGCGTATAACAACTACATTTTTCATCAT
1 TTTTCAATATGACGTGTAACAACTAAATTTTCAACATGGTGTATAACAACTACATTTTTCAACAT
**
11699187 GATGTGTAACAACTAAA
66 GACATGTAACAACTAAA
** * * * * *
11699204 TTTTCACCATAACGTGTAACAACTAAATATTCAACATAGTGTGTAACAACTACATTTTTGAACAT
1 TTTTCAATATGACGTGTAACAACTAAATTTTCAACATGGTGTATAACAACTACATTTTTCAACAT
** *
11699269 GATGTGTAATAACTAAAA
66 GACATGTAACAACT-AAA
* ** * * * * *
11699287 TTTT-AACATGATATGTAACAACTAAATCTTCAACATGGTGTGTAACAATTATATTTTCCAACAT
1 TTTTCAATATGACGTGTAACAACTAAATTTTCAACATGGTGTATAACAACTACATTTTTCAACAT
* *
11699351 GGCATGTAACAACTAGA
66 GACATGTAACAACTAAA
* * *
11699368 TCTTCAATATGACGTGTAACAAC-AACATTTTTCTACATGGTGTATAACAACTAAATTTTT-AAC
1 TTTTCAATATGACGTGTAACAACTAA-A-TTTTCAACATGGTGTATAACAACTACATTTTTCAAC
* *
11699431 ATGACATGTGACAACTACA
64 ATGACATGTAACAACTAAA
11699450 TTTTCA
1 TTTTCA
11699456 GCATAATGTG
Statistics
Matches: 205, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
81 7 0.03
82 165 0.80
83 33 0.16
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (82 bp):
TTTTCAATATGACGTGTAACAACTAAATTTTCAACATGGTGTATAACAACTACATTTTTCAACAT
GACATGTAACAACTAAA
Found at i:11699432 original size:27 final size:27
Alignment explanation
Indices: 11699053--11699471 Score: 270
Period size: 27 Copynumber: 15.3 Consensus size: 27
11699043 TCATTATTAA
**
11699053 GTGTAACAACTAAATTTTTCAACATGGC
1 GTGTAACAACTAAA-TTTTCAACATGAT
* * * * *
11699081 ATGCAACAACTAAA-CTTCAATATGAC
1 GTGTAACAACTAAATTTTCAACATGAT
*** * * * *
11699107 GTGTAATGGCTACATTTTTCAATACGAC
1 GTGTAACAACTA-AATTTTCAACATGAT
* * * **
11699135 GTGCATCAACTAAATTTTCAATATGGC
1 GTGTAACAACTAAATTTTCAACATGAT
* * *
11699162 GTATAACAACTACATTTTTCATCATGAT
1 GTGTAACAACTA-AATTTTCAACATGAT
* * *
11699190 GTGTAACAACTAAATTTTCACCATAAC
1 GTGTAACAACTAAATTTTCAACATGAT
*
11699217 GTGTAACAACTAAATATTCAACAT-AGT
1 GTGTAACAACTAAATTTTCAACATGA-T
* *
11699244 GTGTAACAACTACATTTTTGAACATGAT
1 GTGTAACAACTA-AATTTTCAACATGAT
*
11699272 GTGTAATAACTAAAATTTT-AACATGAT
1 GTGTAACAACT-AAATTTTCAACATGAT
* * *
11699299 ATGTAACAACTAAATCTTCAACATGGT
1 GTGTAACAACTAAATTTTCAACATGAT
* * **
11699326 GTGTAACAATTATATTTTCCAACATGGC
1 GTGTAACAACTAAATTTT-CAACATGAT
* * * * *
11699354 ATGTAACAACTAGATCTTCAATATGAC
1 GTGTAACAACTAAATTTTCAACATGAT
* *
11699381 GTGTAACAAC-AACATTTTTCTACATGGT
1 GTGTAACAACTAA-A-TTTTCAACATGAT
* * *
11699409 GTATAACAACTAAATTTTTAACATGAC
1 GTGTAACAACTAAATTTTCAACATGAT
* * * * *
11699436 ATGTGACAACTACATTTTCAGCATAAT
1 GTGTAACAACTAAATTTTCAACATGAT
11699463 GTGTAACAA
1 GTGTAACAA
11699472 TTATTTCCAA
Statistics
Matches: 300, Mismatches: 79, Indels: 25
0.74 0.20 0.06
Matches are distributed among these distances:
26 24 0.08
27 157 0.52
28 115 0.38
29 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
GTGTAACAACTAAATTTTCAACATGAT
Found at i:11699475 original size:137 final size:135
Alignment explanation
Indices: 11699053--11699471 Score: 405
Period size: 137 Copynumber: 3.1 Consensus size: 135
11699043 TCATTATTAA
* * ***
11699053 GTGTAACAACTAAATTTTTCAACATGGCATGCAACAACTAAACTTCAATATGACGTGTAATGGCT
1 GTGTAACAACTAAA-TTTTCAACATGGCATGTAACAACTAATCTTCAATATGACGTGTAACAACT
* * * * * * *
11699118 ACATTTTTCAATACGA-CGTGCAT--CAACTAAATTTTCAATATGGCGTATAACAACTACATTTT
65 ACATTTTTC--TAC-ATGGTGTATAACAACTAAATTTTTAACATGACATGTAACAACTACA-TTT
*
11699180 TCATCATGAT
126 TCAACATGAT
* ** * * * *
11699190 GTGTAACAACTAAATTTTCACCATAACGTGTAACAACTAAATATTCAACAT-AGTGTGTAACAAC
1 GTGTAACAACTAAATTTTCAACATGGCATGTAACAACT-AATCTTCAATATGA-CGTGTAACAAC
** * * * * * * *
11699254 TACATTTTTGAACATGATGTGTAATAACTAAAATTTTAACATGATATGTAACAACTAAATCTTCA
64 TACATTTTTCTACATGGTGTATAACAACTAAATTTTTAACATGACATGTAACAACTACATTTTCA
*
11699319 ACATGGT
129 ACATGAT
* *
11699326 GTGTAACAATTATATTTTCCAACATGGCATGTAACAACTAGATCTTCAATATGACGTGTAACAAC
1 GTGTAACAACTAAATTTT-CAACATGGCATGTAACAACTA-ATCTTCAATATGACGTGTAACAAC
* *
11699391 AACATTTTTCTACATGGTGTATAACAACTAAATTTTTAACATGACATGTGACAACTACATTTTCA
64 TACATTTTTCTACATGGTGTATAACAACTAAATTTTTAACATGACATGTAACAACTACATTTTCA
* *
11699456 GCATAAT
129 ACATGAT
11699463 GTGTAACAA
1 GTGTAACAA
11699472 TTATTTCCAA
Statistics
Matches: 221, Mismatches: 53, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
134 1 0.00
135 5 0.02
136 47 0.21
137 167 0.76
138 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (135 bp):
GTGTAACAACTAAATTTTCAACATGGCATGTAACAACTAATCTTCAATATGACGTGTAACAACTA
CATTTTTCTACATGGTGTATAACAACTAAATTTTTAACATGACATGTAACAACTACATTTTCAAC
ATGAT
Found at i:11703746 original size:4 final size:4
Alignment explanation
Indices: 11703737--11703768 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
11703727 ATATTTATAA
11703737 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11703769 NACCAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11703860 original size:2 final size:2
Alignment explanation
Indices: 11703840--11703877 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
11703830 TTTTTGAACA
11703840 AT AT -T AT AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11703878 GTAACTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11714416 original size:19 final size:19
Alignment explanation
Indices: 11714394--11714432 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11714384 TTATTGATTA
*
11714394 TAATTAA-AATTATAATCAT
1 TAATTAATAATAATAA-CAT
11714413 TAATTAATAATAATAACAT
1 TAATTAATAATAATAACAT
11714432 T
1 T
11714433 TATTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTAATAATAATAACAT
Found at i:11725382 original size:25 final size:25
Alignment explanation
Indices: 11725327--11725384 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
11725317 TAAAGGAACG
11725327 TAATTATAGAAATTAGAAATCACCA
1 TAATTATAGAAATTAGAAATCACCA
** * *
11725352 CGATTATAGAAGTT-GAGAATCATCA
1 TAATTATAGAAATTAGA-AATCACCA
11725377 TAATTATA
1 TAATTATA
11725385 AGGATTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (25 bp):
TAATTATAGAAATTAGAAATCACCA
Found at i:11725403 original size:9 final size:9
Alignment explanation
Indices: 11725389--11725415 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11725379 ATTATAAGGA
11725389 TTTTATTTT
1 TTTTATTTT
11725398 TTTTATTTT
1 TTTTATTTT
11725407 TTTTATTTT
1 TTTTATTTT
11725416 AAAGATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTATTTT
Found at i:11729926 original size:25 final size:24
Alignment explanation
Indices: 11729896--11729960 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
11729886 TATAAGAATG
11729896 TAATTATAGGATTTAGAAATCACCA
1 TAATTATAGGATTTAG-AATCACCA
* * *
11729921 TGATTATAGAGATTGAGAATCATCA
1 TAATTATAG-GATTTAGAATCACCA
11729946 TAATTATAGGGATTT
1 TAATTATA-GGATTT
11729961 TATTTTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 26 0.79
26 7 0.21
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (24 bp):
TAATTATAGGATTTAGAATCACCA
Found at i:11729994 original size:9 final size:9
Alignment explanation
Indices: 11729958--11729997 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
11729948 ATTATAGGGA
11729958 TTTTATTTT
1 TTTTATTTT
*
11729967 CTTTATTTT
1 TTTTATTTT
*
11729976 CTTTATTTT
1 TTTTATTTT
11729985 TTTTATTTT
1 TTTTATTTT
11729994 TTTT
1 TTTT
11729998 CTCTTTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTATTTT
Found at i:11734570 original size:2 final size:2
Alignment explanation
Indices: 11734558--11734602 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
11734548 CTATCAATAC
11734558 AT AT A- AT AT AT AT AT AT AT AT AT AT AT -T ACT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
11734599 AT AT
1 AT AT
11734603 TTTCGTCCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11737273 original size:161 final size:161
Alignment explanation
Indices: 11737002--11737324 Score: 574
Period size: 161 Copynumber: 2.0 Consensus size: 161
11736992 TAAATGGTAT
* * ** *
11737002 GGCAATATATAATGATTGTCTATATAAAAGAAAGGTGCTGCCGTCATTTATCAATTAACGCTATG
1 GGCAACATATAATGATTGTCTATATAAAAGAAAGATGCCACCGTCAGTTATCAATTAACGCTATG
*
11737067 TGGACACAAATATCTTTCCTGAGTTACTTTCTTCTAGATAGTTTCAATATCCCAGCTAATTAAAT
66 TGGACACAAATATCTTTCCTGAATTACTTTCTTCTAGATAGTTTCAATATCCCAGCTAATTAAAT
11737132 ACAGCATAAAAGAGAGCCTTAGCTGTCAGAA
131 ACAGCATAAAAGAGAGCCTTAGCTGTCAGAA
* *
11737163 GGCAACATATAATGATTGTCTATATAAAAGAAAGATGCCACTGTCAGTTATCAATTGACGCTATG
1 GGCAACATATAATGATTGTCTATATAAAAGAAAGATGCCACCGTCAGTTATCAATTAACGCTATG
11737228 TGGACACAAATATCTTTCCTGAATTACTTTCTTCTAGATAGTTTCAATATCCCAGCTAATTAAAT
66 TGGACACAAATATCTTTCCTGAATTACTTTCTTCTAGATAGTTTCAATATCCCAGCTAATTAAAT
11737293 ACAGCATAAAAGAGAGCCTTAGCTGTCAGAA
131 ACAGCATAAAAGAGAGCCTTAGCTGTCAGAA
11737324 G
1 G
11737325 CAGATGCAAA
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 154 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (161 bp):
GGCAACATATAATGATTGTCTATATAAAAGAAAGATGCCACCGTCAGTTATCAATTAACGCTATG
TGGACACAAATATCTTTCCTGAATTACTTTCTTCTAGATAGTTTCAATATCCCAGCTAATTAAAT
ACAGCATAAAAGAGAGCCTTAGCTGTCAGAA
Found at i:11739668 original size:6 final size:6
Alignment explanation
Indices: 11739654--11739691 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
11739644 TAGCTAAATT
*
11739654 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG AAAAGG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
11739692 GAAACTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11742732 original size:19 final size:19
Alignment explanation
Indices: 11742708--11742749 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11742698 GAGTGTTCTT
* *
11742708 TCTTCATTGCCAATTTACC
1 TCTTCATTGCCAACTTAAC
11742727 TCTTCATTGCCAACTTAAC
1 TCTTCATTGCCAACTTAAC
11742746 TCTT
1 TCTT
11742750 ACAAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (19 bp):
TCTTCATTGCCAACTTAAC
Found at i:11754813 original size:20 final size:23
Alignment explanation
Indices: 11754769--11754819 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
11754759 GGAGGGGAAA
11754769 AGAGACAGATAATAGAATCAGAG
1 AGAGACAGATAATAGAATCAGAG
*
11754792 AGAGACA-A-AATA-AATTAGAG
1 AGAGACAGATAATAGAATCAGAG
*
11754812 AGAAACAG
1 AGAGACAG
11754820 GGGAAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 13 0.52
21 4 0.16
22 1 0.04
23 7 0.28
ACGTcount: A:0.57, C:0.08, G:0.24, T:0.12
Consensus pattern (23 bp):
AGAGACAGATAATAGAATCAGAG
Found at i:11756417 original size:22 final size:22
Alignment explanation
Indices: 11756386--11756443 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11756376 AGTGGTATAT
* *
11756386 ATACATATACATATATAAATAC
1 ATACACATACATACATAAATAC
*
11756408 ATACACATACATACATACATAC
1 ATACACATACATACATAAATAC
* *
11756430 ACATACATA-ATACA
1 ATACACATACATACA
11756444 GTATTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (22 bp):
ATACACATACATACATAAATAC
Done.