Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 101 of 135
Found at i:37466075 original size:45 final size:45
Alignment explanation
Indices: 37466026--37466282 Score: 173
Period size: 45 Copynumber: 5.7 Consensus size: 45
37466016 ATTCTCATCT
* * *
37466026 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCGTTTGATTCG
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTACTCGTTAGATTCG
* * * * * *
37466071 TGATGTCATAGCATCTTTTAGCTATGGTCTTACT-ATATAGAATT-G
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTACTCGT-TAG-ATTCG
* *** * *
37466116 TGATGCCATAACGTCTTTCTGTCATGGTCTTACTCGATAGAGTCG
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTACTCGTTAGATTCG
* ** * * *
37466161 TGATGCCATAACGTCTTTCATTCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTACTCGTTAGATTCG
* * * ** *
37466206 TGATGTCATAACGTCTTTTAGTCATGGTCTTACTCATTTATGATAT-G
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTACTC-GTTA-GAT-TCG
* *
37466253 -G-TGCCATAGTGTCTTTCAACTATGGTCTTA
1 TGATGCCATAGCGTCTTTCAACCATGGTCTTA
37466283 TTTATTCTCC
Statistics
Matches: 168, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
44 3 0.02
45 156 0.93
46 6 0.04
47 2 0.01
48 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TGATGCCATAGCGTCTTTCAACCATGGTCTTACTCGTTAGATTCG
Found at i:37466147 original size:90 final size:90
Alignment explanation
Indices: 37466048--37466240 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 90
37466038 GTCTTTCAAC
* * * * * * * *
37466048 CATGGTCTTATTCGTTTGATTCGTGATGTCATAGCATCTTTTAGCT-ATGGTCTTACTATATAGA
1 CATGGTCTTACTCGATAGAGTCGTGATGCCATAACATCTTTCA-CTCATGGTCTTACTAGATAGA
**
37466112 ATTGTGATGCCATAACGTCTTTCT-GT
65 ATCATGATGCCATAACGTCTTT-TAGT
* * *
37466138 CATGGTCTTACTCGATAGAGTCGTGATGCCATAACGTCTTTCATTCATGGTCTTACTCGATAGAA
1 CATGGTCTTACTCGATAGAGTCGTGATGCCATAACATCTTTCACTCATGGTCTTACTAGATAGAA
*
37466203 TCATGATGTCATAACGTCTTTTAGT
66 TCATGATGCCATAACGTCTTTTAGT
37466228 CATGGTCTTACTC
1 CATGGTCTTACTC
37466241 ATTTATGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
89 2 0.02
90 85 0.98
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (90 bp):
CATGGTCTTACTCGATAGAGTCGTGATGCCATAACATCTTTCACTCATGGTCTTACTAGATAGAA
TCATGATGCCATAACGTCTTTTAGT
Found at i:37466278 original size:90 final size:89
Alignment explanation
Indices: 37466092--37466282 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 89
37466082 CATCTTTTAG
* **
37466092 CTATGGTCTTACTATATAGAATTGTGATGCCATAACGTCTTTCTGTCATGGTCTTACTCGATAGA
1 CTATGGTCTTACTAGATAGAATCATGATGCCATAACGTCTTTCTGTCATGGTCTTACTCGATAGA
*
37466157 GTCGTGATGCCATAACGTCTTTCA
66 GTCATGATGCCATAACGTCTTTCA
* * *
37466181 TTCATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTT-TAGTCATGGTCTTACTC-ATT
1 CT-ATGGTCTTACTAGATAGAATCATGATGCCATAACGTCTTTCT-GTCATGGTCTTACTCGA--
* **
37466244 TATGA-T-ATGGTGCCATAGTGTCTTTCAA
62 TA-GAGTCATGATGCCATAACGTCTTTC-A
37466272 CTATGGTCTTA
1 CTATGGTCTTA
37466283 TTTATTCTCC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
89 3 0.04
90 75 0.88
91 5 0.06
92 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (89 bp):
CTATGGTCTTACTAGATAGAATCATGATGCCATAACGTCTTTCTGTCATGGTCTTACTCGATAGA
GTCATGATGCCATAACGTCTTTCA
Found at i:37479910 original size:29 final size:26
Alignment explanation
Indices: 37479849--37479914 Score: 64
Period size: 29 Copynumber: 2.5 Consensus size: 26
37479839 TTGATAAAAG
37479849 ATAATATATAAATTATAAATAATATA
1 ATAATATATAAATTATAAATAATATA
* *
37479875 ATTATATATTAAAATTTATCAAATTAT-TA
1 ATAATATA-T-AAA-TTAT-AAATAATATA
37479904 ATAATAT-TAAA
1 ATAATATATAAA
37479915 GATATTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
26 10 0.30
27 2 0.06
28 3 0.09
29 12 0.36
30 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATATATAAATTATAAATAATATA
Found at i:37493614 original size:64 final size:65
Alignment explanation
Indices: 37493539--37493709 Score: 155
Period size: 66 Copynumber: 2.6 Consensus size: 65
37493529 GCTTACCTCG
* * * * * * * *
37493539 TGTTTACTGTCTTAACAGACTTTATTTGTTCTGTGTTTATTGTCCTAATGGACTA-TCTATTTTA
1 TGTTTATTGTCTCAACAGACTATATTTATTCTATGTTTACTATCCCAATGGACTACTCTATTTTA
** * *
37493603 TGTTTATTGTCTCAATGGACTATCTTTATTCTATGTTTACTATCCCAGTGGACTATCTCTATTTT
1 TGTTTATTGTCTCAACAGACTATATTTATTCTATGTTTACTATCCCAATGGACTA-CTCTATTTT
*
37493668 G
65 A
* * * * * *
37493669 TGTTTATTGTCCCAGCGGACTATCTCTATTCTGTGTTTACT
1 TGTTTATTGTCTCAACAGACTATATTTATTCTATGTTTACT
37493710 GTCTCAGCGG
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
64 43 0.49
66 44 0.51
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (65 bp):
TGTTTATTGTCTCAACAGACTATATTTATTCTATGTTTACTATCCCAATGGACTACTCTATTTTA
Found at i:37493655 original size:33 final size:33
Alignment explanation
Indices: 37493567--37493730 Score: 152
Period size: 33 Copynumber: 5.0 Consensus size: 33
37493557 ACTTTATTTG
* * * *
37493567 TTCTGTGTTTATTGTCCTAATGGACTA--TCTA
1 TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
* * * * *
37493598 TTTTATGTTTATTGTCTCAATGGACTATCTTTA
1 TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
*
37493631 TTCTATGTTTACTATCCCAGTGGACTATCTCTA
1 TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
* * * *
37493664 TTTTGTGTTTATTGTCCCAGCGGACTATCTCTA
1 TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
* * * *
37493697 TTCTGTGTTTACTGTCTCAGCGGACTACCTCTA
1 TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
37493730 T
1 T
37493731 GGATGCCATG
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 23 0.21
33 88 0.79
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (33 bp):
TTCTATGTTTACTGTCCCAGTGGACTATCTCTA
Found at i:37493678 original size:66 final size:65
Alignment explanation
Indices: 37493587--37493730 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 65
37493577 ATTGTCCTAA
* * *
37493587 TGGACTA-TCTATTTTATGTTTATTGTCTCAATGGACTATCTTTATTCTATGTTTACTATCCCAG
1 TGGACTACTCTATTTTATGTTTATTGTCCCAACGGACTATCTCTATTCTATGTTTACTATCCCAG
* * * * *
37493651 TGGACTATCTCTATTTTGTGTTTATTGTCCCAGCGGACTATCTCTATTCTGTGTTTACTGTCTCA
1 TGGACTA-CTCTATTTTATGTTTATTGTCCCAACGGACTATCTCTATTCTATGTTTACTATCCCA
37493716 G
65 G
*
37493717 CGGACTACCTCTAT
1 TGGACTA-CTCTAT
37493731 GGATGCCATG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 7 0.10
66 61 0.90
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (65 bp):
TGGACTACTCTATTTTATGTTTATTGTCCCAACGGACTATCTCTATTCTATGTTTACTATCCCAG
Found at i:37497455 original size:17 final size:17
Alignment explanation
Indices: 37497435--37497476 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
37497425 TTAATTGTTT
37497435 AAATAATTTAGAC-ATCCA
1 AAATAATTT-GACAAT-CA
*
37497453 AATTAATTTGACAATCA
1 AAATAATTTGACAATCA
37497470 AAATAAT
1 AAATAAT
37497477 AGCAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (17 bp):
AAATAATTTGACAATCA
Found at i:37497639 original size:31 final size:32
Alignment explanation
Indices: 37497592--37497664 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 32
37497582 TGATTTAAAA
*
37497592 TTTATTTTTAAATATTATATATTCTAATTA-TT
1 TTTA-TTTGAAATATTATATATTCTAATTACTT
37497624 TTTATTTGAAATATTATATATTCTAATTACTT
1 TTTATTTGAAATATTATATATTCTAATTACTT
37497656 TTTATTTGA
1 TTTATTTGA
37497665 GTTAGTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 24 0.62
32 15 0.38
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (32 bp):
TTTATTTGAAATATTATATATTCTAATTACTT
Found at i:37497661 original size:16 final size:15
Alignment explanation
Indices: 37497611--37497661 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
37497601 AAATATTATA
37497611 TATTCTAATTATTTT
1 TATTCTAATTATTTT
* *
37497626 TATT-TGAAATATTATA
1 TATTCT-AATTATT-TT
37497642 TATTCTAATTACTTTT
1 TATTCTAATTA-TTTT
37497658 TATT
1 TATT
37497662 TGAGTTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
14 1 0.04
15 10 0.36
16 14 0.50
17 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTCTAATTATTTT
Found at i:37505563 original size:21 final size:20
Alignment explanation
Indices: 37505539--37505578 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37505529 ATATAACTTT
37505539 TAATTCTTCAATAAAATCATA
1 TAATTCTTC-ATAAAATCATA
* *
37505560 TAATTTTTCATTAAATCAT
1 TAATTCTTCATAAAATCAT
37505579 TTTAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTCTTCATAAAATCATA
Found at i:37506023 original size:23 final size:24
Alignment explanation
Indices: 37505997--37506056 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
37505987 CGTTTGTTTA
37505997 ATGTTCACGAACAT-TAAATGAAC
1 ATGTTCACGAACATATAAATGAAC
* *
37506020 ATGTTCATGAACATATAATTGAAC
1 ATGTTCACGAACATATAAATGAAC
*
37506044 ATATTCACGAACA
1 ATGTTCACGAACA
37506057 ATGTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (24 bp):
ATGTTCACGAACATATAAATGAAC
Found at i:37526421 original size:82 final size:82
Alignment explanation
Indices: 37526277--37526432 Score: 294
Period size: 82 Copynumber: 1.9 Consensus size: 82
37526267 AGAATCAGTA
*
37526277 TATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCATGTTTCAA
1 TATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCAA
37526342 TGCTAAGACTTCAGTGC
66 TGCTAAGACTTCAGTGC
*
37526359 TATAGCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCAA
1 TATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCAA
37526424 TGCTAAGAC
66 TGCTAAGAC
37526433 AGTATAGATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
TATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCAA
TGCTAAGACTTCAGTGC
Found at i:37527914 original size:40 final size:40
Alignment explanation
Indices: 37527836--37527991 Score: 206
Period size: 40 Copynumber: 3.9 Consensus size: 40
37527826 CATGCCCCTA
*
37527836 TTTGTACTTCGGTA-CCCTAAATGCACATATGTGCCCTTG
1 TTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCTTG
* ** *
37527875 ATTGTACTTTTGTACCCCTGAATGCACATATGTGACCTTG
1 TTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCTTG
* * *
37527915 TTTGTACTTCAGTACCCTTGAATGCACATACGTGCCCTTG
1 TTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCTTG
* * *
37527955 TTTGTACTTCGGTACCCCGGAATGCACTTACGTGCCC
1 TTTGTACTTCGGTACCCCTGAATGCACATATGTGCCC
37527992 CTATTTATAC
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 11 0.11
40 90 0.89
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCTTG
Found at i:37528017 original size:80 final size:80
Alignment explanation
Indices: 37527815--37528017 Score: 232
Period size: 80 Copynumber: 2.5 Consensus size: 80
37527805 ATTATTGAAT
* * * *
37527815 GAATACACATACATGCCCCTATTTGTACTTC-GGTACCCTAAATGCACATATGTGCCCTTGATTG
1 GAATGCACATACGTGCCCCTATTTGTACTTCAGGTACCCTGAATGCACATACGTGCCCTTGATTG
** *
37527879 TACTTTTGTACCCCT
66 TACTTCGGTACCCCG
* * * * *
37527894 GAATGCACATATGTGACCTTGTTTGTACTTCA-GTACCCTTGAATGCACATACGTGCCCTTGTTT
1 GAATGCACATACGTGCCCCTATTTGTACTTCAGGTACCC-TGAATGCACATACGTGCCCTTGATT
37527958 GTACTTCGGTACCCCG
65 GTACTTCGGTACCCCG
* * *
37527974 GAATGCACTTACGTGCCCCTATTTATAC-TCAGGTAACTCTGAAT
1 GAATGCACATACGTGCCCCTATTTGTACTTCAGGT-ACCCTGAAT
37528018 CATATAATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
79 34 0.34
80 64 0.63
81 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (80 bp):
GAATGCACATACGTGCCCCTATTTGTACTTCAGGTACCCTGAATGCACATACGTGCCCTTGATTG
TACTTCGGTACCCCG
Found at i:37553805 original size:59 final size:59
Alignment explanation
Indices: 37553737--37553925 Score: 254
Period size: 60 Copynumber: 3.2 Consensus size: 59
37553727 ATCACCGAAT
*
37553737 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAAT
1 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAAC
* * * * **
37553796 TATGAAAAGGTATAGCTTCGGCTATCGAATATTGAAAAAGGATGGTGACAACCATCAAAC
1 TATGAAAAGGGATAGCTTCGGCTATCGATTA-TGAAAAGGGATGGTGACGACCATTGAAC
* * * * *
37553856 TATGAAAATGAATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACTA-TCAAC
1 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAAC
37553914 TATGAAAAGGGA
1 TATGAAAAGGGA
37553926 CGGTGACGAC
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
58 13 0.12
59 48 0.43
60 50 0.45
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (59 bp):
TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAAC
Found at i:37553832 original size:30 final size:30
Alignment explanation
Indices: 37553739--37553838 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
37553729 CACCGAATTA
*
37553739 TGAAAAGGGATAGCTTCGGCTATCGATTA-
1 TGAAAAGGGATAGCTTCGGCTATCGAATAT
* * * * *
37553768 TGAAAAGGGAT-GGTGACGACCATTGAAT-T
1 TGAAAAGGGATAGCT-TCGGCTATCGAATAT
*
37553797 ATGAAAAGGTATAGCTTCGGCTATCGAATAT
1 -TGAAAAGGGATAGCTTCGGCTATCGAATAT
*
37553828 TGAAAAAGGAT
1 TGAAAAGGGAT
37553839 GGTGACAACC
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
28 2 0.04
29 19 0.37
30 28 0.54
31 3 0.06
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCGGCTATCGAATAT
Found at i:37553861 original size:60 final size:58
Alignment explanation
Indices: 37553737--37553923 Score: 257
Period size: 59 Copynumber: 3.2 Consensus size: 58
37553727 ATCACCGAAT
* * *
37553737 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAAT
1 TATGAAAAGGAATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCA-TCAAC
* * * *
37553796 TATGAAAAGGTATAGCTTCGGCTATCGAATATTGAAAAAGGATGGTGACAACCATCAAAC
1 TATGAAAAGGAATAGCTTCGGCTATCGATTA-TGAAAAGGGATGGTGACGACCATC-AAC
* * *
37553856 TATGAAAATGAATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACTATCAAC
1 TATGAAAAGGAATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
37553914 TATGAAAAGG
1 TATGAAAAGG
37553924 GACGGTGACG
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 12 0.11
59 51 0.46
60 49 0.44
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (58 bp):
TATGAAAAGGAATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
Found at i:37553909 original size:29 final size:29
Alignment explanation
Indices: 37553735--37553940 Score: 114
Period size: 29 Copynumber: 7.0 Consensus size: 29
37553725 TGATCACCGA
* * *
37553735 ATTATGAAAAGGGATAGCT-TCGGCTATCG
1 ATTATGAAAAGGGAT-GGTGACGACTATCG
* *
37553764 ATTATGAAAAGGGATGGTGACGACCATTG
1 ATTATGAAAAGGGATGGTGACGACTATCG
* * * *
37553793 AATTATGAAAAGGTATAGCT-TCGGCTATCG
1 -ATTATGAAAAGGGAT-GGTGACGACTATCG
* * * * *
37553823 AATATTGAAAAAGGATGGTGACAACCATCAA
1 ATTA-TGAAAAGGGATGGTGACGACTATC-G
* * * * *
37553854 ACTATGAAAATGAATAGCT-TC-AGCTATCG
1 ATTATGAAAAGGGAT-GGTGACGA-CTATCG
*
37553883 ATTATGAAAAGGGATGGTGACGACTATCA
1 ATTATGAAAAGGGATGGTGACGACTATCG
* * *
37553912 ACTATGAAAAGGGACGGTGACGACCATCG
1 ATTATGAAAAGGGATGGTGACGACTATCG
37553941 TGATCCCACT
Statistics
Matches: 130, Mismatches: 37, Indels: 20
0.70 0.20 0.11
Matches are distributed among these distances:
28 4 0.03
29 70 0.54
30 49 0.38
31 7 0.05
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACTATCG
Found at i:37567579 original size:22 final size:21
Alignment explanation
Indices: 37567554--37567597 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
37567544 TGATAAACTT
37567554 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
37567576 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
37567597 T
1 T
37567598 CAACAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:37569903 original size:14 final size:14
Alignment explanation
Indices: 37569886--37569913 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37569876 ATTTTTTTTA
37569886 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
37569900 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
37569914 ATCTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
CTTAGTTTTTAACC
Found at i:37576214 original size:18 final size:18
Alignment explanation
Indices: 37576193--37576227 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37576183 AATAAAGTTA
37576193 AAGTGGTTAATTCCAAAC
1 AAGTGGTTAATTCCAAAC
37576211 AAGTGGTTAATTCCAAA
1 AAGTGGTTAATTCCAAA
37576228 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGTGGTTAATTCCAAAC
Found at i:37586849 original size:15 final size:14
Alignment explanation
Indices: 37586829--37586869 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
37586819 ATCTTTTAAA
37586829 TTTTGAAGATTTTTT
1 TTTTGAA-ATTTTTT
37586844 TTTTG-AATTTTTT
1 TTTTGAAATTTTTT
37586857 TTTTGAAAATTTT
1 TTTTG-AAATTTT
37586870 CAAAACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 11 0.46
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (14 bp):
TTTTGAAATTTTTT
Found at i:37597409 original size:28 final size:28
Alignment explanation
Indices: 37597374--37597473 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
37597364 TTTAATAAGT
* * *
37597374 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
37597402 TCACACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
37597430 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
37597458 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
37597474 AATCTCATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:37600005 original size:19 final size:20
Alignment explanation
Indices: 37599971--37600008 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37599961 ATTTAATAAA
37599971 TAAAAATAAAATTCTAAAAC
1 TAAAAATAAAATTCTAAAAC
*
37599991 TAAAACTAAAA-TCTAAAA
1 TAAAAATAAAATTCTAAAA
37600009 GTCTAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAATAAAATTCTAAAAC
Found at i:37600044 original size:20 final size:20
Alignment explanation
Indices: 37599954--37600042 Score: 56
Period size: 20 Copynumber: 4.3 Consensus size: 20
37599944 CATAAAAATT
37599954 ACAAATAATTTAATAAATAAAA
1 ACAAA-AATTTAA-AAATAAAA
* *
37599976 A-TAAAATTCTAAAACT-AAA
1 ACAAAAATT-TAAAAATAAAA
* * * **
37599995 ACTAAAATCTAAAAGTCTAA
1 ACAAAAATTTAAAAATAAAA
37600015 ACAAATAATTTAATAAATAAAA
1 ACAAA-AATTTAA-AAATAAAA
37600037 ACAAAA
1 ACAAAA
37600043 TTCAAAGACT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
19 10 0.19
20 19 0.37
21 12 0.23
22 11 0.21
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (20 bp):
ACAAAAATTTAAAAATAAAA
Found at i:37600097 original size:9 final size:9
Alignment explanation
Indices: 37600083--37600131 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
37600073 GTAGTGATTC
37600083 AATTCGGTT
1 AATTCGGTT
37600092 AATTCGAG-T
1 AATTCG-GTT
*
37600101 AATTCGGGT
1 AATTCGGTT
*
37600110 AATTCGATT
1 AATTCGGTT
37600119 AATTCGGTT
1 AATTCGGTT
37600128 AATT
1 AATT
37600132 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 33 0.94
10 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:37600106 original size:18 final size:18
Alignment explanation
Indices: 37600083--37600131 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
37600073 GTAGTGATTC
37600083 AATTCGGTTAATTCGAGT
1 AATTCGGTTAATTCGAGT
* *
37600101 AATTCGGGTAATTCGATT
1 AATTCGGTTAATTCGAGT
37600119 AATTCGGTTAATT
1 AATTCGGTTAATT
37600132 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGAGT
Found at i:37602742 original size:82 final size:82
Alignment explanation
Indices: 37602643--37602800 Score: 246
Period size: 82 Copynumber: 1.9 Consensus size: 82
37602633 ATTTACAAAT
*
37602643 ATAATTCTATTTATTAAAGATTATTTTCATTTAATAAAATACAATT-AATCTTTTTTATATAAAA
1 ATAATGCTATTTATTAAAGATTATTTTCATTTAATAAAATACAATTAAAT-TTTTTTATATAAAA
37602707 TTTAAACATTTTGTTGAA
65 TTTAAACATTTTGTTGAA
* ***
37602725 ATAATGCTATTTATTAAAGATTATTTTTATTTAATAAAATGTTATTAAATTTTTTTATATAAAAT
1 ATAATGCTATTTATTAAAGATTATTTTCATTTAATAAAATACAATTAAATTTTTTTATATAAAAT
*
37602790 TTAAATATTTT
66 TTAAACATTTT
37602801 ATATTTTACT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
82 66 0.96
83 3 0.04
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (82 bp):
ATAATGCTATTTATTAAAGATTATTTTCATTTAATAAAATACAATTAAATTTTTTTATATAAAAT
TTAAACATTTTGTTGAA
Found at i:37603079 original size:105 final size:107
Alignment explanation
Indices: 37602950--37603146 Score: 380
Period size: 105 Copynumber: 1.9 Consensus size: 107
37602940 AATTAAGTTT
37602950 TCAACTAGCTTAATTATTATAATAAAACGTTGTTATATGACTAACTGTAGCAATAACTATGTGAA
1 TCAACTAGCTTAATTATTATAATAAAACGTTGTTATATGACTAACTGTAGCAATAACTATGTGAA
37603015 TGCTTTTACTTGGAGCTATATTAAAGTTATAAATTTTAATAC
66 TGCTTTTACTTGGAGCTATATTAAAGTTATAAATTTTAATAC
37603057 TCAACTAGC-T-ATTATTATAATAAAACGTTGTTATATGACTAACTGTAGCAATAACTATGTGAA
1 TCAACTAGCTTAATTATTATAATAAAACGTTGTTATATGACTAACTGTAGCAATAACTATGTGAA
37603120 TGCTTTTACTTGGAGCTATATTAAAGT
66 TGCTTTTACTTGGAGCTATATTAAAGT
37603147 GTTANNNNNN
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
105 80 0.89
106 1 0.01
107 9 0.10
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (107 bp):
TCAACTAGCTTAATTATTATAATAAAACGTTGTTATATGACTAACTGTAGCAATAACTATGTGAA
TGCTTTTACTTGGAGCTATATTAAAGTTATAAATTTTAATAC
Found at i:37605480 original size:59 final size:60
Alignment explanation
Indices: 37605371--37605489 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 60
37605361 TTCTACTCTA
**
37605371 ATATAAACATTAAAAAATATTAAGATTACTATATTAAAAATTTTAATAAA-TAAAAAATT
1 ATATAAACATTAAAAAATATTAAGATTAAAATATTAAAAATTTTAATAAATTAAAAAATT
** **
37605430 ATATAAA-ATTATTAAATATTAA-ATTAAAATATTATAAATATTTTTTTAAATTTAAAAAAT
1 ATATAAACATTAAAAAATATTAAGATTAAAATATTA-AAA-ATTTTAATAAA-TTAAAAAAT
37605490 ATGAAAAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
57 10 0.20
58 16 0.32
59 16 0.32
61 8 0.16
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (60 bp):
ATATAAACATTAAAAAATATTAAGATTAAAATATTAAAAATTTTAATAAATTAAAAAATT
Found at i:37607135 original size:30 final size:29
Alignment explanation
Indices: 37607068--37607148 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
37607058 TACTATATCA
** *
37607068 TATCAAAAAGTTCATTTTAGTCTTTCTAT
1 TATCAAAAAGTTCATTTTAGTCCATATAT
*
37607097 TATCAAAAAGTTTATTTTAGTCCATATAT
1 TATCAAAAAGTTCATTTTAGTCCATATAT
*
37607126 GTTTCAAAAA-TTAACATTTTAGT
1 -TATCAAAAAGTT--CATTTTAGT
37607149 TCTTGCATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 27 0.63
30 8 0.19
31 8 0.19
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (29 bp):
TATCAAAAAGTTCATTTTAGTCCATATAT
Found at i:37607433 original size:5 final size:5
Alignment explanation
Indices: 37607423--37607448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37607413 TGAGCATTCG
37607423 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
37607449 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:37608499 original size:59 final size:60
Alignment explanation
Indices: 37608390--37608508 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 60
37608380 TTCTACTCTA
**
37608390 ATATAAACATTAAAAAATATTAAGATTACTATATTAAAAATTTTAATAAA-TAAAAAATT
1 ATATAAACATTAAAAAATATTAAGATTAAAATATTAAAAATTTTAATAAATTAAAAAATT
** **
37608449 ATATAAA-ATTATTAAATATTAA-ATTAAAATATTATAAATATTTTTTTAAATTTAAAAAAT
1 ATATAAACATTAAAAAATATTAAGATTAAAATATTA-AAA-ATTTTAATAAA-TTAAAAAAT
37608509 ATGAAAAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
57 10 0.20
58 16 0.32
59 16 0.32
61 8 0.16
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (60 bp):
ATATAAACATTAAAAAATATTAAGATTAAAATATTAAAAATTTTAATAAATTAAAAAATT
Found at i:37609302 original size:29 final size:26
Alignment explanation
Indices: 37609254--37609310 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 26
37609244 ATTATTAAAA
37609254 TAAAATAAAAATATTAAATAATTTAT
1 TAAAATAAAAATATTAAATAATTTAT
*
37609280 TAAAATAATAAATTATGTTAATAATTTAT
1 TAAAATAA-AAA-TAT-TAAATAATTTAT
37609309 TA
1 TA
37609311 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 3 0.11
28 3 0.11
29 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAAATAAAAATATTAAATAATTTAT
Found at i:37610700 original size:31 final size:30
Alignment explanation
Indices: 37610665--37610724 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
37610655 GGAGGTGGGA
*
37610665 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
37610696 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
37610725 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:37610968 original size:14 final size:15
Alignment explanation
Indices: 37610937--37610976 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
37610927 TATAGTTTGA
*
37610937 TATTCGAA-T-GAAT
1 TATTCGAATTCGAGT
37610950 TATTCG-ATTCGAGT
1 TATTCGAATTCGAGT
37610964 TATTCGAATTCGA
1 TATTCGAATTCGA
37610977 AAACTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 1 0.04
13 7 0.30
14 9 0.39
15 6 0.26
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (15 bp):
TATTCGAATTCGAGT
Found at i:37611044 original size:9 final size:9
Alignment explanation
Indices: 37611027--37611057 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37611017 TCGAGTTGAT
37611027 TCGAATAAC
1 TCGAATAAC
*
37611036 TCGATTAAC
1 TCGAATAAC
37611045 TCGAATAAC
1 TCGAATAAC
37611054 TCGA
1 TCGA
37611058 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:37611940 original size:18 final size:18
Alignment explanation
Indices: 37611913--37611947 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
37611903 TATCTTCTTA
37611913 TTTTGTTTT-AATTTTAG
1 TTTTGTTTTAAATTTTAG
37611930 TTTTAGTTTTAAATTTTA
1 TTTT-GTTTTAAATTTTA
37611948 AACCCCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTGTTTTAAATTTTAG
Found at i:37617916 original size:4 final size:4
Alignment explanation
Indices: 37617907--37617940 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
37617897 TGAAAGAATG
37617907 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
37617941 GGAAATGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:37623065 original size:18 final size:18
Alignment explanation
Indices: 37623039--37623083 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
37623029 CGTTCGTTTC
37623039 CAAAACATTATTC-ATTT
1 CAAAACATTATTCAATTT
*
37623056 ACAAATCATTATTCAATTT
1 -CAAAACATTATTCAATTT
37623075 CAAAACATT
1 CAAAACATT
37623084 TTCTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
CAAAACATTATTCAATTT
Found at i:37626289 original size:9 final size:9
Alignment explanation
Indices: 37626275--37626299 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37626265 TTTTTATGGG
37626275 GAGAGTTTA
1 GAGAGTTTA
37626284 GAGAGTTTA
1 GAGAGTTTA
37626293 GAGAGTT
1 GAGAGTT
37626300 CAACTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (9 bp):
GAGAGTTTA
Found at i:37626715 original size:217 final size:218
Alignment explanation
Indices: 37626465--37626899 Score: 863
Period size: 217 Copynumber: 2.0 Consensus size: 218
37626455 TACTATTAAG
37626465 ATAAGTATTAAATTAAATTAAATATTGAATATTGAATATCAAAATAAGATTATTTTTAGAATAGT
1 ATAAGTATTAAATTAAATTAAATATTGAATATTGAATATCAAAATAAGATTATTTTTAGAATAGT
37626530 TAATCTAAAATTAAATTTTCTGGTGGAGTCCCAGTAGGAGTGTAACTCTTTCATTGCTCAACCAC
66 TAATCTAAAATTAAATTTTCTGGTGGAGTCCCAGTAGGAGTGTAACTCTTTCATTGCTCAACCAC
37626595 TAAAGACCAGCCATCGTCAGATACCGGAACGCCACTGTCGCAGCCGTTGGCATCGCCGTGTCCGG
131 TAAAGACCAGCCATCGTCAGATACCGGAACGCCACTGTCGCAGCCGTTGGCATCGCCGTGTCCGG
37626660 TGATGCAGGTGCGACACCTTTAT
196 TGATGCAGGTGCGACACCTTTAT
37626683 ATAAGTATT-AATTAAATTAAATATTGAATATTGAATATCAAAATAAGATTATTTTTAGAATAGT
1 ATAAGTATTAAATTAAATTAAATATTGAATATTGAATATCAAAATAAGATTATTTTTAGAATAGT
37626747 TAATCTAAAATTAAATTTTCTGGTGGAGTCCCAGTAGGAGTGTAACTCTTTCATTGCTCAACCAC
66 TAATCTAAAATTAAATTTTCTGGTGGAGTCCCAGTAGGAGTGTAACTCTTTCATTGCTCAACCAC
37626812 TAAAGACCAGCCATCGTCAGATACCGGAACGCCACTGTCGCAGCCGTTGGCATCGCCGTGTCCGG
131 TAAAGACCAGCCATCGTCAGATACCGGAACGCCACTGTCGCAGCCGTTGGCATCGCCGTGTCCGG
37626877 TGATGCAGGTGCGACACCTTTAT
196 TGATGCAGGTGCGACACCTTTAT
37626900 GGCACCTCGA
Statistics
Matches: 217, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
217 208 0.96
218 9 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (218 bp):
ATAAGTATTAAATTAAATTAAATATTGAATATTGAATATCAAAATAAGATTATTTTTAGAATAGT
TAATCTAAAATTAAATTTTCTGGTGGAGTCCCAGTAGGAGTGTAACTCTTTCATTGCTCAACCAC
TAAAGACCAGCCATCGTCAGATACCGGAACGCCACTGTCGCAGCCGTTGGCATCGCCGTGTCCGG
TGATGCAGGTGCGACACCTTTAT
Found at i:37632422 original size:35 final size:35
Alignment explanation
Indices: 37632376--37632443 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
37632366 AAGATAAAGG
37632376 AAGTTTAATACAATGTGTGCCTAAAAAGAATGGGT
1 AAGTTTAATACAATGTGTGCCTAAAAAGAATGGGT
37632411 AAGTTTAATACAATGTGTGCCTAAAAAGAATGG
1 AAGTTTAATACAATGTGTGCCTAAAAAGAATGG
37632444 CATCACTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (35 bp):
AAGTTTAATACAATGTGTGCCTAAAAAGAATGGGT
Found at i:37645920 original size:20 final size:20
Alignment explanation
Indices: 37645895--37646021 Score: 69
Period size: 20 Copynumber: 6.3 Consensus size: 20
37645885 TTGTACGGGA
37645895 TTTGCACTTCAGTGCCTCTG
1 TTTGCACTTCAGTGCCTCTG
* * *
37645915 TTTGCACTTCGGTGCCTTTC
1 TTTGCACTTCAGTGCCTCTG
* * * *
37645935 TATACACTTCAGTGTCTTTG
1 TTTGCACTTCAGTGCCTCTG
** * * *
37645955 TTCACACTACTGTGCCTCTA
1 TTTGCACTTCAGTGCCTCTG
* *
37645975 CTTGCACATTC-GTGCCTTTG
1 TTTGCAC-TTCAGTGCCTCTG
**
37645995 CTTT-CACTTTGGTGCCTCTG
1 -TTTGCACTTCAGTGCCTCTG
37646015 TTATGCA
1 TT-TGCA
37646022 TCTATGATCC
Statistics
Matches: 78, Mismatches: 24, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
19 4 0.05
20 68 0.87
21 6 0.08
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTGCACTTCAGTGCCTCTG
Found at i:37652871 original size:19 final size:20
Alignment explanation
Indices: 37652847--37652887 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
37652837 TGATATGTCA
*
37652847 ATGCATAATTT-GTAAAACG
1 ATGCATAATTTAGGAAAACG
*
37652866 ATGCATATTTTAGGAAAACG
1 ATGCATAATTTAGGAAAACG
37652886 AT
1 AT
37652888 CCTATCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGCATAATTTAGGAAAACG
Found at i:37653522 original size:7 final size:7
Alignment explanation
Indices: 37653510--37653538 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
37653500 AATACAATAA
37653510 ATTGATT
1 ATTGATT
37653517 ATTGATT
1 ATTGATT
37653524 ATTGATT
1 ATTGATT
37653531 ATT-ATT
1 ATTGATT
37653537 AT
1 AT
37653539 CACTACCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (7 bp):
ATTGATT
Found at i:37660051 original size:25 final size:25
Alignment explanation
Indices: 37660005--37660107 Score: 109
Period size: 25 Copynumber: 4.2 Consensus size: 25
37659995 GTCATTAGGG
* *
37660005 TTACCAAT-TTCAGCTTGTATGAGC
1 TTACCAATATTCAGCTCGGATGAGC
* *
37660029 TTACCAATACTCAGCTCGCATGAGC
1 TTACCAATATTCAGCTCGGATGAGC
* * *
37660054 TTACCATTATTCATCTCGGAGGAGC
1 TTACCAATATTCAGCTCGGATGAGC
** *
37660079 TTACCGTTGTTCAGCTCGGATGAGC
1 TTACCAATATTCAGCTCGGATGAGC
37660104 TTAC
1 TTAC
37660108 TGTTTATAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 8 0.12
25 58 0.88
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (25 bp):
TTACCAATATTCAGCTCGGATGAGC
Found at i:37668609 original size:20 final size:20
Alignment explanation
Indices: 37668584--37668636 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
37668574 ACCACATTTA
37668584 TGGTAGCTTGTCTG-CAATTC
1 TGGTAGCTTGTCTGTCAA-TC
* *
37668604 TGGTAGCTTATCTGTGAATC
1 TGGTAGCTTGTCTGTCAATC
*
37668624 TGGTGGCTTGTCT
1 TGGTAGCTTGTCT
37668637 ATAAATTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (20 bp):
TGGTAGCTTGTCTGTCAATC
Found at i:37671252 original size:38 final size:40
Alignment explanation
Indices: 37671185--37671263 Score: 108
Period size: 38 Copynumber: 2.0 Consensus size: 40
37671175 TTTAATTAAT
*
37671185 TTTTGAAAATTTAAAAATTCAAAAAATTATAAAAAAATTA
1 TTTTGAAAAATTAAAAATTCAAAAAATTATAAAAAAATTA
* **
37671225 TTTT-AAAAATTAAAAA-TCATAAAATTATTTAAAAATTA
1 TTTTGAAAAATTAAAAATTCAAAAAATTATAAAAAAATTA
37671263 T
1 T
37671264 AAAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 20 0.57
39 11 0.31
40 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (40 bp):
TTTTGAAAAATTAAAAATTCAAAAAATTATAAAAAAATTA
Found at i:37671256 original size:19 final size:19
Alignment explanation
Indices: 37671234--37671273 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37671224 ATTTTAAAAA
*
37671234 TTAAAAATCATAAAATTAT
1 TTAAAAATCATAAAAATAT
*
37671253 TTAAAAATTATAAAAATAT
1 TTAAAAATCATAAAAATAT
37671272 TT
1 TT
37671274 TTTAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATCATAAAAATAT
Found at i:37671306 original size:49 final size:49
Alignment explanation
Indices: 37671187--37671306 Score: 131
Period size: 49 Copynumber: 2.5 Consensus size: 49
37671177 TAATTAATTT
*
37671187 TTGAAAATTTAAAAATTCA--AAAAATTATAAAAAAATTATTTTAAAAA
1 TTGAAAATTTAAAAATTAATTAAAAATTATAAAAAAATTATTTTAAAAA
* * * * *
37671234 TT-AAAAATCATAAAATTATTTAAAAATTATAAAAATATT-TTTTAATATA
1 TTGAAAATTTA-AAAATTAATTAAAAATTATAAAAAAATTATTTTAA-AAA
*
37671283 TTGAAATTTTAAAAATTAATTAAA
1 TTGAAAATTTAAAAATTAATTAAA
37671307 TGCTTATATG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
46 6 0.10
47 8 0.14
48 6 0.10
49 33 0.57
50 5 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (49 bp):
TTGAAAATTTAAAAATTAATTAAAAATTATAAAAAAATTATTTTAAAAA
Found at i:37671722 original size:23 final size:23
Alignment explanation
Indices: 37671696--37671744 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37671686 ATGACGAGAA
* *
37671696 GATAGCCCTCATCTCGATGACGC
1 GATACCCCTCATCTCGACGACGC
**
37671719 GATACCCCTTGTCTCGACGACGC
1 GATACCCCTCATCTCGACGACGC
37671742 GAT
1 GAT
37671745 GCCACGTCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.22
Consensus pattern (23 bp):
GATACCCCTCATCTCGACGACGC
Found at i:37679645 original size:43 final size:42
Alignment explanation
Indices: 37679575--37679737 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 42
37679565 CAACGCCAAC
* * *
37679575 GTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGAAG-GGTCTTACACGAAATCAAATATCGATGCCACT
* * * *
37679618 ATCCCAGATAGGGTCTTACACGAAATCATATA-CGGTGCCAAT
1 GTCCCAGA-AGGGTCTTACACGAAATCAAATATCGATGCCACT
* * *
37679660 GCCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-
1 GTCCCAGA-AGGGTCTTACACG-AAATC-AAATATCGATGCC-ACT
*
37679704 GTCCCA-AACGTGGTCTTACACGAAATCACATATC
1 GTCCCAGAA-G-GGTCTTACACGAAATCAAATATC
37679738 AGAAGCCTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
42 28 0.30
43 40 0.43
44 24 0.26
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
GTCCCAGAAGGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:37681525 original size:38 final size:36
Alignment explanation
Indices: 37681461--37681533 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
37681451 ATTCCAAAAA
* *
37681461 TAATATTATTTTAATAATTTTAATATTAAATTTAATC
1 TAATATTATCTTAATAATATTAATATT-AATTTAATC
37681498 TAATATTTATCTTAATAAATATT-ATATTAATTTAAT
1 TAATA-TTATCTTAAT-AATATTAATATTAATTTAAT
37681534 GTTAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 13 0.41
38 14 0.44
39 5 0.16
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAATATTAATATTAATTTAATC
Found at i:37687556 original size:17 final size:14
Alignment explanation
Indices: 37687510--37687544 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
37687500 AAGCATAGGT
* *
37687510 ATAAAAAAATTTTA
1 ATAATAAAATTATA
37687524 ATAATAAAATTATA
1 ATAATAAAATTATA
37687538 ATAATAA
1 ATAATAA
37687545 TAATCCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAAAATTATA
Found at i:37692118 original size:35 final size:35
Alignment explanation
Indices: 37692079--37692148 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
37692069 TAGTGGTATC
37692079 ACCTACTTCAAACTTCAACCATATCCCAACATTAA
1 ACCTACTTCAAACTTCAACCATATCCCAACATTAA
37692114 ACCTACTTCAAACTTCAACCATATCCCAACATTAA
1 ACCTACTTCAAACTTCAACCATATCCCAACATTAA
37692149 CTCTTCAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (35 bp):
ACCTACTTCAAACTTCAACCATATCCCAACATTAA
Found at i:37693172 original size:364 final size:365
Alignment explanation
Indices: 37692468--37693201 Score: 1129
Period size: 364 Copynumber: 2.0 Consensus size: 365
37692458 TGGCACAATT
* * * *
37692468 TGCTTTTCTCTTTGTACAACTTGGCATTCTCATATGCCAAAAATCTAAACTACTCTAATTCATGT
1 TGCTTTTCTCTTTGTACAACTTGACATTCTAATATACCAAAAATCTAAACTACTCCAATTCATGT
* *
37692533 AGTTGAAACAACCTAGCGTTTTTAGCTAAATTAGGACCAAGATTCAATTTCTTAACAACCATGTA
66 AGTTGAAACAACCTAGCATGTTTAGCTAAATTAGGACCAAGATTCAATTTCTTAACAACCATGTA
*
37692598 TGCTCGCTTTTCTAACTCTATTGGCGAATGATAGTTTTTACTGTAAACAATATGATATGGAGACA
131 TGCTCGCTTTTCTAACTCTATTGGCAAATGATAGTTTTTACTGTAAACAATATGATATGGAGACA
*
37692663 TCCCTAATGGAGTTTTATAAGTTGTCTTATAAGCTCACAAGGCATCATCTAATTGAACCAACCAA
196 TCCCCAATGGAGTTTTATAAGTTGTCTTATAAGCTCACAAGGCATCATCTAATTGAACCAACCAA
* * * * *
37692728 TTTTTCTGAGATGAGTTCACTCTCTTCTCTAGGATTTGCTTAATCTCATGATTTGATACCTCTTC
261 TTTTTCCGAGATGAGTTCACTATATTCTCAAGGATTTGCTTAATCTCATGATTTGATACCTCTGC
* *
37692793 TTAACCATTGGCTTGCGGATGGTAAGCAGTTGCAATTCGG
326 TTAACCATTGGCTTGCAGATGGTAAGCAATTGCAATTCGG
* *
37692833 TGCTTTTCTCTTTGTACAACTTGACATTCTAATATACCAAAAATCTAAA-TTCTTCCAATTCATT
1 TGCTTTTCTCTTTGTACAACTTGACATTCTAATATACCAAAAATCTAAACTAC-TCCAATTCATG
* * * **
37692897 TGGTTGAAACAACCTAGCATGTTTAGCTAACTTAGGATCAAGATTCAA-TTCTTTAACTGCCCA-
65 TAGTTGAAACAACCTAGCATGTTTAGCTAAATTAGGACCAAGATTCAATTTC-TTAAC-AACCAT
*
37692960 GTATGCTCGCTTTTCTAACTCTATTGGCAAATGATAGTTCTTT-CTGTAAACACTATGA-ATGGA
128 GTATGCTCGCTTTTCTAACTCTATTGGCAAATGATAGTT-TTTACTGTAAACAATATGATATGGA
*
37693023 GACATCCCCAACT-GAGTTTTATAAGTTGTCTTATAAGCTCACAAGGCATTATCTAATTGAACCA
192 GACATCCCCAA-TGGAGTTTTATAAGTTGTCTTATAAGCTCACAAGGCATCATCTAATTGAACCA
* * * *
37693087 ATCAATTTTTCCGAGATGAGTTCACTATATTCTCAATGATTTGTTTAATCTCATGGTTTGATACC
256 ACCAATTTTTCCGAGATGAGTTCACTATATTCTCAAGGATTTGCTTAATCTCATGATTTGATACC
37693152 TCTGCTTAACCATTGGCTTGCAGATGGTAAGCAATTGCAATTCGG
321 TCTGCTTAACCATTGGCTTGCAGATGGTAAGCAATTGCAATTCGG
37693197 TGCTT
1 TGCTT
37693202 AACACTGTAC
Statistics
Matches: 336, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
364 174 0.52
365 156 0.46
366 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (365 bp):
TGCTTTTCTCTTTGTACAACTTGACATTCTAATATACCAAAAATCTAAACTACTCCAATTCATGT
AGTTGAAACAACCTAGCATGTTTAGCTAAATTAGGACCAAGATTCAATTTCTTAACAACCATGTA
TGCTCGCTTTTCTAACTCTATTGGCAAATGATAGTTTTTACTGTAAACAATATGATATGGAGACA
TCCCCAATGGAGTTTTATAAGTTGTCTTATAAGCTCACAAGGCATCATCTAATTGAACCAACCAA
TTTTTCCGAGATGAGTTCACTATATTCTCAAGGATTTGCTTAATCTCATGATTTGATACCTCTGC
TTAACCATTGGCTTGCAGATGGTAAGCAATTGCAATTCGG
Found at i:37693870 original size:2 final size:2
Alignment explanation
Indices: 37693858--37693902 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
37693848 TCGGGGGATC
* *
37693858 CT CT TT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37693899 CT CT
1 CT CT
37693903 TTCAATAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:37704394 original size:24 final size:24
Alignment explanation
Indices: 37704359--37704414 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
37704349 TGCTAAAGTA
*
37704359 TTTTTTCTTATTTTGCTTTGAAAT
1 TTTTTTCATATTTTGCTTTGAAAT
37704383 TTTTTTCATATTTTGCTTTGAAAT
1 TTTTTTCATATTTTGCTTTGAAAT
37704407 TTTTTTCA
1 TTTTTTCA
37704415 AATACATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.66
Consensus pattern (24 bp):
TTTTTTCATATTTTGCTTTGAAAT
Found at i:37705856 original size:16 final size:16
Alignment explanation
Indices: 37705814--37705856 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
37705804 GCATTAGAAA
37705814 AGAATTGTAATGGAAT
1 AGAATTGTAATGGAAT
* * *
37705830 AGAGTTATAATTGAAT
1 AGAATTGTAATGGAAT
*
37705846 AGAACTGTAAT
1 AGAATTGTAAT
37705857 AGCAATTCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (16 bp):
AGAATTGTAATGGAAT
Found at i:37705926 original size:44 final size:45
Alignment explanation
Indices: 37705844--37705929 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
37705834 TTATAATTGA
37705844 ATAGAACTGTAATAGCAATTCAACTGTTTGGTTGAATGGAATGGC
1 ATAGAACTGTAATAGCAATTCAACTGTTTGGTTGAATGGAATGGC
* ***
37705889 ATAGAACTGTAATAG-TATTCTTGTGTTTGGTTGAATGGAAT
1 ATAGAACTGTAATAGCAATTCAACTGTTTGGTTGAATGGAAT
37705930 AGAGTTGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.59
45 15 0.41
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (45 bp):
ATAGAACTGTAATAGCAATTCAACTGTTTGGTTGAATGGAATGGC
Found at i:37706132 original size:58 final size:61
Alignment explanation
Indices: 37706032--37706145 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 61
37706022 AATAGGATTG
* *
37706032 TTATTAAATATAATTTAATAAAAACAATAATAAATAATTTAATCATATT-TTAATAAATTTA
1 TTATTAAATATAATTT-ATAAAAACAATAATAAATAACTTAATAATATTCTTAATAAATTTA
* * *
37706093 TTATTAAATATAA-TT-TAACAATAATAATACATAACTTAATAATATTCTTAATA
1 TTATTAAATATAATTTATAAAAACAATAATAAATAACTTAATAATATTCTTAATA
37706146 TAACAATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 26 0.55
59 6 0.13
60 2 0.04
61 13 0.28
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (61 bp):
TTATTAAATATAATTTATAAAAACAATAATAAATAACTTAATAATATTCTTAATAAATTTA
Found at i:37710856 original size:16 final size:16
Alignment explanation
Indices: 37710829--37710866 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37710819 TTTTTATTTA
*
37710829 TATTTA-TTTCATCTT
1 TATTTATTTTCATCTC
*
37710844 TATTTATTTTCATGTC
1 TATTTATTTTCATCTC
37710860 TATTTAT
1 TATTTAT
37710867 ATTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.21, C:0.11, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTTATTTTCATCTC
Found at i:37712301 original size:18 final size:18
Alignment explanation
Indices: 37712259--37712304 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
37712249 TTCTATATAT
* **
37712259 ATATGTATATTTATTTTT
1 ATATATATATTTATTTCC
*
37712277 ATGTATATATTTATTTCC
1 ATATATATATTTATTTCC
37712295 ATATATATAT
1 ATATATATAT
37712305 ACGCATGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
ATATATATATTTATTTCC
Found at i:37720216 original size:43 final size:43
Alignment explanation
Indices: 37720169--37720305 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 43
37720159 AAGCAGATCC
37720169 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTG
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTG
* * * *** * * * * * *
37720212 AAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCG
1 AAGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTTG
*
37720257 AAGATACCAGCCTTGCCTCCCTGGGTTATAGTGGAGCAGGTTG
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTG
37720300 AAGATA
1 AAGATA
37720306 GCAGATCTTG
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 25 0.37
44 23 0.34
45 19 0.28
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (43 bp):
AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTG
Found at i:37720241 original size:88 final size:87
Alignment explanation
Indices: 37720087--37720350 Score: 429
Period size: 88 Copynumber: 3.0 Consensus size: 87
37720077 GGTGAAATTC
* * * * * *
37720087 CCAGTCTTGCCTCCCTGAGTTGTAGTAGAGTAGGTTGAAGATAACAGATCTTACCTTCCTGCATC
1 CCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCT-CATC
*
37720152 GACAGCGAAGCAGATCCAAGATA
65 GACAGCGAAGCAGATCGAAGATA
37720175 CCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATC
1 CCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCT-CATC
37720240 GACAGCGAAGCAGATCGAAGATA
65 GACAGCGAAGCAGATCGAAGATA
*
37720263 CCAGCCTTGCCTCCCTGGGTTATAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCAATC
1 CCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTC-ATC
37720328 GACAGCGAAGCAGATCGAAGATA
65 GACAGCGAAGCAGATCGAAGATA
37720351 TAATTCTATC
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
87 1 0.01
88 165 0.99
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (87 bp):
CCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCATCG
ACAGCGAAGCAGATCGAAGATA
Found at i:37720272 original size:44 final size:45
Alignment explanation
Indices: 37720123--37720350 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 45
37720113 AGAGTAGGTT
* * *
37720123 GAAGATAACAGATCTTACCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATACCAGACCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * ** * * * * * *
37720168 CAAGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATACCAGACCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * *
37720211 GAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATC
1 GAAGATACCAGACCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* ** * * * * * *
37720256 GAAGATACCAG-CCTTGCCTCCCTGGGT-TATAGTGGAGCAGGTT
1 GAAGATACCAGACCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* *
37720299 GAAGATAGCAGATCTTGCCTTCCT-CAATCGACAGCGAAGCAGATC
1 GAAGATACCAGACCTTGCCTTCCTGC-ATCGACAGCGAAGCAGATC
37720344 GAAGATA
1 GAAGATA
37720351 TAATTCTATC
Statistics
Matches: 129, Mismatches: 49, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
43 38 0.29
44 46 0.36
45 45 0.35
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (45 bp):
GAAGATACCAGACCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
Found at i:37720405 original size:44 final size:44
Alignment explanation
Indices: 37720356--37720446 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
37720346 AGATATAATT
*
37720356 CTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTC
1 CTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
*
37720400 CTATCTCCTTGGTCGGCAGTGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
37720444 CTA
1 CTA
37720447 CTTTCCTGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (44 bp):
CTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
Found at i:37720793 original size:44 final size:44
Alignment explanation
Indices: 37720698--37721335 Score: 331
Period size: 44 Copynumber: 14.7 Consensus size: 44
37720688 AAGATGGCAA
* * * ** *
37720698 ATCTAATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
*
37720742 ATTTTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCACAG
* * * *** *
37720786 ATCTTATCTCTCAGAAGTTGCAG-AGAGCAGA-TCGCAT-ATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *
37720827 -TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAG
** ***
37720871 -TCTTATC-CTCCTGAAGTTGCAGTGG-GACAGACCCAAAAT-GGTG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTAAAATCACAG
* ** *
37720914 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAG
* * ** *
37720959 ATCCTATCTCCTTGAAGTTTTAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * * *
37721003 ATCTTATCTCTCTGAAGTTACAG-AGAGCATATCT--CATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAATCACAG
* *
37721044 -TCTTATCTCCCTGAAGTTGCAGTGGAAGCAGACTAATAA--GCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTAA-AATCACAG
* * * ** ***
37721087 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACCCAAAAT-GGTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATCACAG
* * ** *
37721131 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAG
* * * *
37721176 ATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAATCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * *
37721220 ATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCT--CATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAATCACAG
* *
37721261 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAATAAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA-CAG
* * * *
37721304 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
37721336 CTCAAAATGG
Statistics
Matches: 452, Mismatches: 103, Indels: 78
0.71 0.16 0.12
Matches are distributed among these distances:
40 60 0.13
41 25 0.06
42 15 0.03
43 38 0.08
44 252 0.56
45 60 0.13
46 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:37721093 original size:217 final size:215
Alignment explanation
Indices: 37720697--37721355 Score: 1039
Period size: 217 Copynumber: 3.0 Consensus size: 215
37720687 GAAGATGGCA
* * * * * **
37720697 AATCTAATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGCCAATAATTTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCT-CCTGAAGTTG
* * * * *
37720762 CAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCAGAAGTTGCAGAGAGCAGATCGCATATAG
65 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCTAG
* * *
37720827 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
130 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCAGGTCTTATCCCCCTGAAGTTGCA
*
37720892 GTGGGACAGACCCAAAATGGTG
194 GTGGGGCAGACCCAAAATGGTG
*
37720914 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCTTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCC-TGAAGTTG
* *
37720979 TAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCATATCTCATCTAG
65 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCTAG
37721044 TCTTATCTCCCTGAAGTTGCAGTGGAAGCAGACTAATAAGCAGGTCTTATCCCCCTGAAGTTGCA
130 TCTTATCTCCCTGAAGTTGCAGTGG-AGCAGACTAATAAGCAGGTCTTATCCCCCTGAAGTTGCA
37721109 GTGGGGCAGACCCAAAATGGTG
194 GTGGGGCAGACCCAAAATGGTG
*
37721131 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCACTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTC-CTGAAGTTG
*
37721196 CAGTGGAGCGGATTAAAATCACAAATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCTAG
65 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCTAG
* *
37721261 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAGCAGGTCTTATCCCCCTAAAGTTGCA
130 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AATAAGCAGGTCTTATCCCCCTGAAGTTGCA
* *
37721326 GTGGGGCAGACTCAAAATGGCG
194 GTGGGGCAGACCCAAAATGGTG
37721348 AATCTTAT
1 AATCTTAT
37721356 TTCCAGTGGA
Statistics
Matches: 410, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
216 9 0.02
217 390 0.95
218 11 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (215 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCTGAAGTTGC
AGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCTAGT
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGT
GGGGCAGACCCAAAATGGTG
Found at i:37722994 original size:18 final size:18
Alignment explanation
Indices: 37722967--37723039 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
37722957 ATTTTTTTCT
*
37722967 TTTATATATATATGTATA
1 TTTATGTATATATGTATA
37722985 TTTATGTATATAT-T-TA
1 TTTATGTATATATGTATA
37723001 TTTCCATGTATATATACGTATA
1 TTT--ATGTATATAT--GTATA
* *
37723023 TTTTTGAATATAATGTA
1 TTTATGTATAT-ATGTA
37723040 GTTATTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.11
17 1 0.02
18 22 0.49
19 3 0.07
20 6 0.13
21 3 0.07
22 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTATGTATATATGTATA
Found at i:37723633 original size:2 final size:2
Alignment explanation
Indices: 37723628--37723653 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37723618 TTTTTTACAA
37723628 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
37723654 TAATAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37724352 original size:26 final size:26
Alignment explanation
Indices: 37724323--37724379 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
37724313 TTAGTTAAGT
37724323 AGGTGATACATTTTAATGAAACCATA
1 AGGTGATACATTTTAATGAAACCATA
** *
37724349 AGGTTTTTACATTTTAATGAAGCCATA
1 AGG-TGATACATTTTAATGAAACCATA
37724376 AGGT
1 AGGT
37724380 TTTTACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (26 bp):
AGGTGATACATTTTAATGAAACCATA
Found at i:37724359 original size:27 final size:27
Alignment explanation
Indices: 37724329--37724389 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
37724319 AAGTAGGTGA
37724329 TACATTTTAATGAAACCATAAGGTTTT
1 TACATTTTAATGAAACCATAAGGTTTT
*
37724356 TACATTTTAATGAAGCCATAAGGTTTT
1 TACATTTTAATGAAACCATAAGGTTTT
37724383 TACATTT
1 TACATTT
37724390 GGATTTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (27 bp):
TACATTTTAATGAAACCATAAGGTTTT
Found at i:37728639 original size:47 final size:46
Alignment explanation
Indices: 37728580--37728695 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 46
37728570 TTATAGATAA
* ** *
37728580 TTATGTGGTGGCTTGTCAACATTGTGCTATGTGGTTGTTTTCGGA-AT
1 TTATGTGGTGGCTTGTC-ACAATGTGCTATGTGACTGTTTTC-AACAT
*
37728627 TTATGTGATGGCTTGTTCACAATGTGCTATGTGACTGTTTTCAACAT
1 TTATGTGGTGGCTTG-TCACAATGTGCTATGTGACTGTTTTCAACAT
*
37728674 TTATGTGGTAGCTTGTCCACAA
1 TTATGTGGTGGCTTGT-CACAA
37728696 ATTGTGTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 2 0.03
47 55 0.93
48 2 0.03
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (46 bp):
TTATGTGGTGGCTTGTCACAATGTGCTATGTGACTGTTTTCAACAT
Found at i:37734216 original size:13 final size:13
Alignment explanation
Indices: 37734198--37734224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37734188 TGTTTAGCAA
37734198 TTTCCAGCAATTT
1 TTTCCAGCAATTT
37734211 TTTCCAGCAATTT
1 TTTCCAGCAATTT
37734224 T
1 T
37734225 GGCATATTTC
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:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTCCAGCAATTT
Found at i:37742740 original size:2 final size:2
Alignment explanation
Indices: 37742735--37742765 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37742725 ATATTATATA
37742735 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
37742766 TTTATTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37746371 original size:27 final size:27
Alignment explanation
Indices: 37746340--37746403 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
37746330 GAGCATGCAG
*
37746340 TCATTTTATAACGT-AGGGGCATAACAA
1 TCATTTTACAACGTGA-GGGCATAACAA
* *
37746367 TCATTTTACCACGTGAGGGCATAACAG
1 TCATTTTACAACGTGAGGGCATAACAA
37746394 TCATTTTACA
1 TCATTTTACA
37746404 TTAGTCTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (27 bp):
TCATTTTACAACGTGAGGGCATAACAA
Found at i:37747565 original size:5 final size:5
Alignment explanation
Indices: 37747555--37747586 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
37747545 AAGAAAAGCA
37747555 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
37747587 GTATTCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:37748437 original size:18 final size:20
Alignment explanation
Indices: 37748414--37748451 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
37748404 AACATATTGA
37748414 TTATTATA-TATGTA-TAGT
1 TTATTATATTATGTAGTAGT
37748432 TTATTATATTATGTAGTAGT
1 TTATTATATTATGTAGTAGT
37748452 ATATAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTATTATATTATGTAGTAGT
Found at i:37750085 original size:22 final size:21
Alignment explanation
Indices: 37750055--37750096 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37750045 CTAAAGTCCC
37750055 TTCCCTTCTCATTTTCCTTTCT
1 TTCCCTTCTC-TTTTCCTTTCT
*
37750077 TTCCTTTCTCTTTTCCTTTC
1 TTCCCTTCTCTTTTCCTTTC
37750097 CAAAAACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCCCTTCTCTTTTCCTTTCT
Found at i:37751547 original size:11 final size:11
Alignment explanation
Indices: 37751535--37751577 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
37751525 TTTTTACTAA
37751535 AATATTACAAA-
1 AATATTA-AAAT
*
37751546 AAAATTAAAAT
1 AATATTAAAAT
37751557 AATATTAAAAT
1 AATATTAAAAT
37751568 AATA-TAAAAT
1 AATATTAAAAT
37751578 TTTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:37753048 original size:153 final size:153
Alignment explanation
Indices: 37752758--37753048 Score: 444
Period size: 153 Copynumber: 1.9 Consensus size: 153
37752748 NNNNNNNNNN
*
37752758 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAA
1 TTTTATTATTTTACATTAGTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAA
* * *
37752823 ATAAATTTTAAAAAACTATTATTTCGGTCATTTGTTCGTATTTTTTTCTCCGGATTTTATTACTT
66 ATAAATTTAAAAAAACTATTATTTCGGCCATTTGTTCGTATTTTTTTCACCGGATTTTATTACTT
*
37752888 TTAAAAAATATAATATTTTCGAA
131 TAAAAAAATATAATATTTTCGAA
* *
37752911 TTTTATTATTTTACATTAGTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTAA
1 TTTTATTATTTTACATTAGTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAA
* * *
37752975 ATAAATTTAAAAAAAAC-CTTATTTTGGCCCTTTGTTCGTATTTTTTT-ACCGGATTTTATTACT
66 ATAAATTT-AAAAAAACTATTATTTCGGCCATTTGTTCGTATTTTTTTCACCGGATTTTATTACT
37753038 TTCAATAAAAA
130 TT-AA-AAAAA
37753049 CACACTAAAT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
151 17 0.14
152 43 0.34
153 65 0.52
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.52
Consensus pattern (153 bp):
TTTTATTATTTTACATTAGTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAA
ATAAATTTAAAAAAACTATTATTTCGGCCATTTGTTCGTATTTTTTTCACCGGATTTTATTACTT
TAAAAAAATATAATATTTTCGAA
Found at i:37753312 original size:18 final size:19
Alignment explanation
Indices: 37753277--37753314 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37753267 AAAAAGTTTA
*
37753277 TATTATTTTGATATTATTT
1 TATTATTTTGATAATATTT
*
37753296 TATTTTTTTG-TAATATTT
1 TATTATTTTGATAATATTT
37753314 T
1 T
37753315 GGTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TATTATTTTGATAATATTT
Found at i:37755604 original size:22 final size:21
Alignment explanation
Indices: 37755579--37755620 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
37755569 TTAAATATAA
37755579 AATATTAACCAAATTAGCCATC
1 AATATTAACCAAATTA-CCATC
* *
37755601 AATATTTACGAAATTACCAT
1 AATATTAACCAAATTACCAT
37755621 TTTAGTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (21 bp):
AATATTAACCAAATTACCATC
Found at i:37761187 original size:24 final size:23
Alignment explanation
Indices: 37761156--37761202 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
37761146 TATTCACGCA
37761156 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
37761179 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
37761203 CCCATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:37761475 original size:23 final size:23
Alignment explanation
Indices: 37761439--37761482 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
37761429 TAACTAAGCT
37761439 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAA-TTAATTCA
37761463 TACTT-CTTTTCTAATTAATT
1 TACTTACTTTTCTAATTAATT
37761483 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (23 bp):
TACTTACTTTTCTAATTAATTCA
Found at i:37762068 original size:5 final size:5
Alignment explanation
Indices: 37762060--37762114 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
37762050 TATTTAATTT
* *
37762060 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
37762109 ATATA A
1 ATATA A
37762115 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:37762089 original size:27 final size:25
Alignment explanation
Indices: 37762058--37762110 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
37762048 TCTATTTAAT
37762058 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
37762085 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
37762110 T
1 T
37762111 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:37769719 original size:15 final size:16
Alignment explanation
Indices: 37769699--37769738 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
37769689 CTATTTTTAT
37769699 CATCCCTCATCCTT-A
1 CATCCCTCATCCTTCA
*
37769714 CATCCCTCATTCTTCA
1 CATCCCTCATCCTTCA
*
37769730 CATCTCTCA
1 CATCCCTCA
37769739 ATCATCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.20, C:0.45, G:0.00, T:0.35
Consensus pattern (16 bp):
CATCCCTCATCCTTCA
Found at i:37771417 original size:21 final size:21
Alignment explanation
Indices: 37771374--37771415 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37771364 TTTTGTTCAG
37771374 CTCTTACGAGCTTCTGTTAAA
1 CTCTTACGAGCTTCTGTTAAA
37771395 CTCTTACGAGCTTCTGCTTAA
1 CTCTTACGAGCTTCTG-TTAA
37771416 CTTTTGAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTAAA
Found at i:37776336 original size:25 final size:25
Alignment explanation
Indices: 37776308--37776361 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
37776298 TGTAGTGGCA
*
37776308 AGGTGGAAACACAGGTGTGGTAAGG
1 AGGTGGAAACACAGGTGTGATAAGG
*** *
37776333 AGGTGGCGTCACTGGTGTGATAAGG
1 AGGTGGAAACACAGGTGTGATAAGG
37776358 AGGT
1 AGGT
37776362 CAGAGGTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.44, T:0.20
Consensus pattern (25 bp):
AGGTGGAAACACAGGTGTGATAAGG
Found at i:37777840 original size:27 final size:27
Alignment explanation
Indices: 37777808--37777910 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
37777798 TAACATTACT
37777808 GAAATACCCCCGATGGGTAAAATTATC
1 GAAATACCCCCGATGGGTAAAATTATC
*** *
37777835 GAAATACCTTAGAAGGGTAAAATTATC
1 GAAATACCCCCGATGGGTAAAATTATC
* *
37777862 GAAATACCCCCGATAGGTAAAATTACC
1 GAAATACCCCCGATGGGTAAAATTATC
*
37777889 GAAATACCCCCCATAGGGTAAA
1 GAAATACCCCCGAT-GGGTAAA
37777911 CTGATTGTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 57 0.90
28 6 0.10
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCGATGGGTAAAATTATC
Found at i:37780935 original size:86 final size:86
Alignment explanation
Indices: 37780825--37780983 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 86
37780815 GTATTCTTTT
*** ** * **
37780825 TTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATGTATTAAAAAAG-CCCTCAAACTTTTC
1 TTTTTTTGCACTCAATTGGATACTTGAACAGACAAAATACA-TAAAAAAGAACCTCAAACTTTAA
37780889 AAAAAAAATGCAATTAAGCCCC
65 AAAAAAAATGCAATTAAGCCCC
*
37780911 TTTTTTTGCACTCAATTGGGTACTTGAACAGACAAAATACATAAAAAAGAACCTCAAACTTTAAA
1 TTTTTTTGCACTCAATTGGATACTTGAACAGACAAAATACATAAAAAAGAACCTCAAACTTTAAA
37780976 AAAAAAAT
66 AAAAAAAT
37780984 TAAGCCATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 8 0.13
86 55 0.87
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (86 bp):
TTTTTTTGCACTCAATTGGATACTTGAACAGACAAAATACATAAAAAAGAACCTCAAACTTTAAA
AAAAAAATGCAATTAAGCCCC
Found at i:37781177 original size:29 final size:29
Alignment explanation
Indices: 37781139--37781209 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
37781129 GACATGTGGC
37781139 AAAATGATAAAAATTATTAAATGTTAATAA
1 AAAAT-ATAAAAATTATTAAATGTTAATAA
* * * *
37781169 AAAATATAAAATTTTTTAATTTTTAATAA
1 AAAATATAAAAATTATTAAATGTTAATAA
* *
37781198 AAATTAGAAAAA
1 AAAATATAAAAA
37781210 AATATTATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATATAAAAATTATTAAATGTTAATAA
Found at i:37781201 original size:28 final size:30
Alignment explanation
Indices: 37781139--37781200 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
37781129 GACATGTGGC
37781139 AAAATGATAAAAATTATTAAATGTTAATAA
1 AAAATGATAAAAATTATTAAATGTTAATAA
* * * *
37781169 AAAAT-ATAAAATTTTTTAATTTTTAATAA
1 AAAATGATAAAAATTATTAAATGTTAATAA
37781198 AAA
1 AAA
37781201 TTAGAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATGATAAAAATTATTAAATGTTAATAA
Found at i:37781632 original size:9 final size:9
Alignment explanation
Indices: 37781521--37781636 Score: 58
Period size: 9 Copynumber: 12.4 Consensus size: 9
37781511 TTTTAATTTA
37781521 TTTTATAATT
1 TTTTATAA-T
*
37781531 TTTTATGAT
1 TTTTATAAT
* *
37781540 ATTTATAAAA
1 TTTTAT-AAT
*
37781550 TTTTACAAT
1 TTTTATAAT
*
37781559 TTTTATATTCTT
1 TTTTATA---AT
*
37781571 TTTTCTAAT
1 TTTTATAAT
37781580 TTTTAGTAA-
1 TTTTA-TAAT
* *
37781589 ATTTAAAAT
1 TTTTATAAT
*
37781598 TTTTATAAC
1 TTTTATAAT
*
37781607 TTTTATTGA-
1 TTTTA-TAAT
37781616 TTTT-TAAT
1 TTTTATAAT
37781624 TTTTATAAT
1 TTTTATAAT
37781633 TTTT
1 TTTT
37781637 TTGTCACATG
Statistics
Matches: 78, Mismatches: 19, Indels: 19
0.67 0.16 0.16
Matches are distributed among these distances:
7 2 0.03
8 6 0.08
9 46 0.59
10 17 0.22
12 7 0.09
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:37785362 original size:16 final size:17
Alignment explanation
Indices: 37785326--37785364 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
37785316 ATATTTTTAA
37785326 AAAATAAATAAAACTTT
1 AAAATAAATAAAACTTT
*
37785343 -AAATAAAT-AAATTTT
1 AAAATAAATAAAACTTT
37785358 AAAATAA
1 AAAATAA
37785365 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAATAAAACTTT
Found at i:37785568 original size:28 final size:30
Alignment explanation
Indices: 37785497--37785571 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
37785487 ACAATTGTAG
37785497 TTATAAAAAATATAAAATTATATAAAAATTA
1 TTATAAAAAATA-AAAATTATATAAAAATTA
** *
37785528 TTATAAATCATAAATAATTAT-T-AAATTTA
1 TTATAAAAAATAAA-AATTATATAAAAATTA
37785557 TT-TAAAAAATAAAAA
1 TTATAAAAAATAAAAA
37785572 ATACATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 9 0.24
29 8 0.21
30 3 0.08
31 16 0.42
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (30 bp):
TTATAAAAAATAAAAATTATATAAAAATTA
Found at i:37791207 original size:18 final size:18
Alignment explanation
Indices: 37791184--37791219 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37791174 AACTATGTAG
*
37791184 ACCTAGGACGTGCTAATA
1 ACCTAGGACGTACTAATA
37791202 ACCTAGGACGTACTAATA
1 ACCTAGGACGTACTAATA
37791220 TGGAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (18 bp):
ACCTAGGACGTACTAATA
Found at i:37803849 original size:12 final size:12
Alignment explanation
Indices: 37803829--37803858 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37803819 AGCCACACGC
*
37803829 CCGTATGCTAGG
1 CCGTGTGCTAGG
37803841 CCGTGTGCTAGG
1 CCGTGTGCTAGG
37803853 CCGTGT
1 CCGTGT
37803859 AACTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:37808716 original size:26 final size:27
Alignment explanation
Indices: 37808665--37808721 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
37808655 AAAATTTATT
37808665 AAATGACCAAAATACCCTCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
37808692 AAATGACCAAAATACCC-CTAGGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
37808718 AAAT
1 AAAT
37808722 TACCGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:37812016 original size:26 final size:26
Alignment explanation
Indices: 37811975--37812043 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
37811965 GGGGTTATAG
* *
37811975 AGCCTTTGCGGCTATCTCTGAATGCA
1 AGCCTTTGTGGCTATCTCTGAAAGCA
* * *
37812001 CGCCTTTGTGGTTATCTCTGAAAGGA
1 AGCCTTTGTGGCTATCTCTGAAAGCA
37812027 AGCCTTTGTGGCTATCT
1 AGCCTTTGTGGCTATCT
37812044 TAGTTAAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
AGCCTTTGTGGCTATCTCTGAAAGCA
Found at i:37812063 original size:29 final size:29
Alignment explanation
Indices: 37812002--37812205 Score: 154
Period size: 29 Copynumber: 7.2 Consensus size: 29
37811992 CTGAATGCAC
* * *
37812002 GCCTTTGTGGTTATCTC--TGAAAGGAA-
1 GCCTTTGTGGCTATCTCTATTAAAAGAAT
37812028 GCCTTTGTGGCTATCT-TAGTTAAAAGAAT
1 GCCTTTGTGGCTATCTCTA-TTAAAAGAAT
* * **
37812057 ACCTTTGTGG-TGATCTCTATTATAAGTTT
1 GCCTTTGTGGCT-ATCTCTATTAAAAGAAT
* *
37812086 TCATTTGTGGCTATCTC-AGTTAAAAGAAT
1 GCCTTTGTGGCTATCTCTA-TTAAAAGAAT
37812115 GCCTTTGTGGCTATCTCTATTAAAA-ATAT
1 GCCTTTGTGGCTATCTCTATTAAAAGA-AT
* * * *
37812144 GCCTTTGTGGCTATTTCTGTTAAAAGGAC
1 GCCTTTGTGGCTATCTCTATTAAAAGAAT
* * * * *
37812173 GCCTTCGTGGCCATTTTTA-GAAAAGAAT
1 GCCTTTGTGGCTATCTCTATTAAAAGAAT
37812201 GCCTT
1 GCCTT
37812206 CATGGTGAAA
Statistics
Matches: 142, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
26 15 0.11
28 21 0.15
29 102 0.72
30 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTATTAAAAGAAT
Found at i:37812177 original size:58 final size:59
Alignment explanation
Indices: 37812028--37812183 Score: 183
Period size: 58 Copynumber: 2.7 Consensus size: 59
37812018 CTGAAAGGAA
* * * *
37812028 GCCTTTGTGGCTATCTT-AGTTAAAAGAATACCTTTGTGG-TGATCTCTATTATAAGTTT
1 GCCTTTGTGGCTAT-TTCAGTTAAAAGAATGCCTTTGTGGCTGATCTCTATTAAAAATAT
* * *
37812086 TCATTTGTGGCTATCTCAGTTAAAAGAATGCCTTTGTGGCT-ATCTCTATTAAAAATAT
1 GCCTTTGTGGCTATTTCAGTTAAAAGAATGCCTTTGTGGCTGATCTCTATTAAAAATAT
* * * *
37812144 GCCTTTGTGGCTATTTCTGTTAAAAGGACGCCTTCGTGGC
1 GCCTTTGTGGCTATTTCAGTTAAAAGAATGCCTTTGTGGC
37812184 CATTTTTAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 1 0.01
58 80 0.98
59 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (59 bp):
GCCTTTGTGGCTATTTCAGTTAAAAGAATGCCTTTGTGGCTGATCTCTATTAAAAATAT
Found at i:37834194 original size:19 final size:19
Alignment explanation
Indices: 37834184--37834220 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37834174 AAAATATGTT
37834184 AAAA-TATTAAAAAAATTA
1 AAAATTATTAAAAAAATTA
*
37834202 AAAATTATTAAAATAATTA
1 AAAATTATTAAAAAAATTA
37834221 TTAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTATTAAAAAAATTA
Found at i:37834220 original size:28 final size:28
Alignment explanation
Indices: 37834146--37834216 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
37834136 TGAAAACACC
**
37834146 AAAAATATATATATGAT-TTAAAAAAA-T
1 AAAAATATAT-TAAAATATTAAAAAAATT
*
37834173 AAAAATATGTTAAAATATTAAAAAAATT
1 AAAAATATATTAAAATATTAAAAAAATT
37834201 AAAAAT-TATTAAAATA
1 AAAAATATATTAAAATA
37834217 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
27 27 0.71
28 7 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATATATTAAAATATTAAAAAAATT
Found at i:37834229 original size:10 final size:10
Alignment explanation
Indices: 37834184--37834261 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
37834174 AAAATATGTT
37834184 AAAA-TATTA
1 AAAATTATTA
*
37834193 AAAA-AATTA
1 AAAATTATTA
37834202 AAAATTATTAA
1 AAAATTATT-A
37834213 AATAATTATTA
1 AA-AATTATTA
**
37834224 AAAATT-GCA
1 AAAATTATTA
*
37834233 AAAGATT-GTA
1 AAA-ATTATTA
*
37834243 AAAACTATTA
1 AAAATTATTA
37834253 AAAATTATT
1 AAAATTATT
37834262 GTTTTTTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
9 18 0.32
10 25 0.45
11 6 0.11
12 7 0.12
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (10 bp):
AAAATTATTA
Found at i:37840507 original size:18 final size:17
Alignment explanation
Indices: 37840469--37840511 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
37840459 CTAATGTTAT
37840469 AAAAGAAAAAAAAGAAG
1 AAAAGAAAAAAAAGAAG
* * *
37840486 AAAAAGAAAAATAATAAT
1 -AAAAGAAAAAAAAGAAG
37840504 AAAAGAAA
1 AAAAGAAA
37840512 GAAGAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAAG
Found at i:37865005 original size:13 final size:14
Alignment explanation
Indices: 37864970--37865056 Score: 60
Period size: 13 Copynumber: 6.5 Consensus size: 14
37864960 CTAATGTTCC
*
37864970 ATTTCATAT-ATCT
1 ATTTCATATAATCG
37864983 ATTTCTATATAATCG
1 ATTTC-ATATAATCG
*
37864998 A-TTCATATAA-CC
1 ATTTCATATAATCG
*
37865010 ATTTCATAT-ATCT
1 ATTTCATATAATCG
*
37865023 ATTTCTATATAACCG
1 ATTTC-ATATAATCG
* *
37865038 -GTTCATATAA-CC
1 ATTTCATATAATCG
37865050 ATTTCAT
1 ATTTCAT
37865057 TTATTCATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
12 4 0.07
13 35 0.59
14 14 0.24
15 6 0.10
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTTCATATAATCG
Found at i:37865012 original size:40 final size:40
Alignment explanation
Indices: 37864968--37865056 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
37864958 ATCTAATGTT
*
37864968 CCATTTCATATATCTATTTCTATATAATCGATTCATATAA
1 CCATTTCATATATCTATTTCTATATAACCGATTCATATAA
*
37865008 CCATTTCATATATCTATTTCTATATAACCGGTTCATATAA
1 CCATTTCATATATCTATTTCTATATAACCGATTCATATAA
37865048 CCATTTCAT
1 CCATTTCAT
37865057 TTATTCATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (40 bp):
CCATTTCATATATCTATTTCTATATAACCGATTCATATAA
Found at i:37865053 original size:27 final size:27
Alignment explanation
Indices: 37865002--37865054 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
37864992 TAATCGATTC
* * *
37865002 ATATAACCATTTCATATATCTATTTCT
1 ATATAACCAGTTCATATAACCATTTCT
*
37865029 ATATAACCGGTTCATATAACCATTTC
1 ATATAACCAGTTCATATAACCATTTC
37865055 ATTTATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.42
Consensus pattern (27 bp):
ATATAACCAGTTCATATAACCATTTCT
Found at i:37870421 original size:50 final size:49
Alignment explanation
Indices: 37870363--37870494 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 49
37870353 TATTGAAGTT
***
37870363 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCCTTGGCACCGAG
1 ATGAGAGGTCCCAC-TAAGACCATGTCTGGGACATGGCAGGGGCACCGAG
* *
37870413 ATGAGAGGTCCGC-CGTAAGACCATGTCTAGGACATGGCAGGGGCACCGAT
1 ATGAGAGGTCC-CAC-TAAGACCATGTCTGGGACATGGCAGGGGCACCGAG
** *
37870463 ATGAGAACTCCCATCTAAGACCATATCTGGGA
1 ATGAGAGGTCCCA-CTAAGACCATGTCTGGGA
37870495 TATGATATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 66 0.96
51 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (49 bp):
ATGAGAGGTCCCACTAAGACCATGTCTGGGACATGGCAGGGGCACCGAG
Found at i:37870794 original size:12 final size:12
Alignment explanation
Indices: 37870779--37870811 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37870769 GTAAGTAAAC
37870779 AAGT-AAGAGAGA
1 AAGTAAAGA-AGA
37870791 AAGTAAAGAAGA
1 AAGTAAAGAAGA
37870803 AAGTAAAGA
1 AAGTAAAGA
37870812 TCATGATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (12 bp):
AAGTAAAGAAGA
Found at i:37875392 original size:26 final size:26
Alignment explanation
Indices: 37875348--37875425 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
37875338 CACATATCAT
* *
37875348 TTCTTCAAAGTTTGTCATACTTACCA
1 TTCTTTAAAGTTTGCCATACTTACCA
* * **
37875374 TTCTTTAAAGTTAGCCATACATATAA
1 TTCTTTAAAGTTTGCCATACTTACCA
** *
37875400 TTCTTTAGGGTTTTCCATACTTACCA
1 TTCTTTAAAGTTTGCCATACTTACCA
37875426 CTCCTCTCTT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (26 bp):
TTCTTTAAAGTTTGCCATACTTACCA
Found at i:37882825 original size:114 final size:112
Alignment explanation
Indices: 37882520--37882825 Score: 339
Period size: 114 Copynumber: 2.7 Consensus size: 112
37882510 AAAATAAGAA
* ** ** *
37882520 TTAGCGGCGTTTTAGAGAAAGCGCTGCAAAAAACCTAAGCTGAACGACGTCGTTTACCGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCTGCAAAAAACCTAAGCACAACGACACCGTTT-CTGAGCTTT
* * *
37882585 CGGGAATTTAGCGGCGTTTGTAATAAAAGCGACGCTAACGTTCAGGGCT
65 CGGGGATTTAGTGGCATTTGTAATAAAAGC-ACGCTAACGTTCAGGGCT
* * * *
37882634 TTAGCGGCGTTTTTGGGAAAGCGCTGCAAAAAAACCTAATCCCAACGACACCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCTGC-AAAAAACCTAAGCACAACGACACC-GTTTCTGAGCTT
* * * *
37882699 TCGAGTGA-TTAGTGGCATTTTTAATAACATGC-CGCTAATGCTT-AGGGCT
64 TCG-GGGATTTAGTGGCATTTGTAATAA-AAGCACGCTAACG-TTCAGGGCT
* *
37882748 TTAGCGGCGTTTTTGAAAAAGCGCAGCAAGAAAACCTAAGCACAACGACACCGTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCTGCAA-AAAACCTAAGCACAACGACACCGTTTCTGAGC-TT
37882813 TCGGGGATTTAGT
64 TCGGGGATTTAGT
37882826 AGTGGCGTTT
Statistics
Matches: 161, Mismatches: 23, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
113 14 0.09
114 92 0.57
115 47 0.29
116 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (112 bp):
TTAGCGGCGTTTTTGAGAAAGCGCTGCAAAAAACCTAAGCACAACGACACCGTTTCTGAGCTTTC
GGGGATTTAGTGGCATTTGTAATAAAAGCACGCTAACGTTCAGGGCT
Found at i:37882891 original size:76 final size:76
Alignment explanation
Indices: 37882753--37882900 Score: 199
Period size: 76 Copynumber: 1.9 Consensus size: 76
37882743 GGGCTTTAGC
* *
37882753 GGCGTTTTTGAAAAAGCGCAGCAAGAAAACCTAAGCACAACGACACCGTTTCTGAGCTTTTCGGG
1 GGCGTTTTTGAAAAAGCGCAGCAAAAAAAACTAAGCACAACGACACCGTTTCTGAGCTTTTCGGG
37882818 GATTTAGTAGT
66 GATTTAGTAGT
* * * * * * *
37882829 GGCGTTTTTGGAATAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCATTTTCTGTGC-TTTCGG
1 GGCGTTTTTGAAAAAGCGCAGCAAAAAAAACTAAGCACAACGACACC-GTTTCTGAGCTTTTCGG
37882893 GGATTTAG
65 GGATTTAG
37882901 CGGCGTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 54 0.87
77 8 0.13
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (76 bp):
GGCGTTTTTGAAAAAGCGCAGCAAAAAAAACTAAGCACAACGACACCGTTTCTGAGCTTTTCGGG
GATTTAGTAGT
Found at i:37883007 original size:190 final size:190
Alignment explanation
Indices: 37882639--37883013 Score: 429
Period size: 190 Copynumber: 2.0 Consensus size: 190
37882629 GGGCTTTAGC
* * *
37882639 GGCGTTTTTGGGAAAGCGCTGCAAAAAAACCTAATCCCAACGACACCATTTTCTGAGCTTTCGAG
1 GGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACACCATTTTCTGAGCTTTCGAG
* * * * *
37882704 TGATTAGTGGCATTTTTAATAACATGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAAAAAG
66 GGATTAGCGGCATTTTTAATAACATGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTAGAAAAAG
* *
37882769 CGCAGCAAGAAAACCTAAGCACAACGACACCGTTTCTGAGCTTTTCGGGGATTTAGTAGT
131 CGCAGCAAAAAAAACTAAGCACAACGACACCGTTTCTGAGCTTTTCGGGGATTTAGTAGT
* *
37882829 GGCGTTTTT-GGAATAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCATTTTCTGTGCTTTCG-
1 GGCGTTTTTGGGAA-AGCGCCGCAAAAAAAACTAAGCCCAACGACACCATTTTCTGAGCTTTCGA
* ** * **
37882892 GGGATTTAGCGGCGTTTTT-A-AGGATGCGCTGCTAATGCTCAGGGATTTAGCGTCGTTTTAGGT
65 GGGA-TTAGCGGCATTTTTAATAACATGC-C-GCTAATGCTCAGGGATTTAGCGGCGTTTTAGAA
** * *** *
37882955 GTAGCGCCA-CAAAAAAAACTAAGCCCAACGGTGCCGTTGTCTGTGC-TTTCGGGGATTTA
127 AAAGCG-CAGCAAAAAAAACTAAGCACAACGACACCGTT-TCTGAGCTTTTCGGGGATTTA
37883014 ACGGCATTTT
Statistics
Matches: 154, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
188 5 0.03
189 9 0.06
190 132 0.86
191 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (190 bp):
GGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACACCATTTTCTGAGCTTTCGAG
GGATTAGCGGCATTTTTAATAACATGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTAGAAAAAG
CGCAGCAAAAAAAACTAAGCACAACGACACCGTTTCTGAGCTTTTCGGGGATTTAGTAGT
Found at i:37883040 original size:114 final size:114
Alignment explanation
Indices: 37882842--37883054 Score: 336
Period size: 114 Copynumber: 1.9 Consensus size: 114
37882832 GTTTTTGGAA
* * * *
37882842 TAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCATTTTCTGTGCTTTCGGGGATTTAGCGGCGT
1 TAGCGCCACAAAAAAAACTAAGCCCAACGGCACCATTGTCTGTGCTTTCGGGGATTTAACGGCAT
* *
37882907 TTTTAAGGATGCGCTGCTAATGCTCAGGGATTTAGCGTCGTTTTAGGTG
66 TTTTAAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGTCGTTTTAGGTG
** *
37882956 TAGCGCCACAAAAAAAACTAAGCCCAACGGTGCCGTTGTCTGTGCTTTCGGGGATTTAACGGCAT
1 TAGCGCCACAAAAAAAACTAAGCCCAACGGCACCATTGTCTGTGCTTTCGGGGATTTAACGGCAT
*
37883021 TTTTAGGGAAGCGCCGCTAATGCTCAGGGATTTA
66 TTTTAAGGAAGCGCCGCTAATGCTCAGGGATTTA
37883055 AAATAATTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
TAGCGCCACAAAAAAAACTAAGCCCAACGGCACCATTGTCTGTGCTTTCGGGGATTTAACGGCAT
TTTTAAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGTCGTTTTAGGTG
Done.