Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 145 of 328
Found at i:42344580 original size:38 final size:39
Alignment explanation
Indices: 42344537--42344619 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
42344527 CTCTTCATCC
*
42344537 ACTATAGAAAAATGATACATTTATAACATTATCAAACTT
1 ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
42344576 -CTATAGAAAAATGATACATTTATAACATTAACAAACTT
1 ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
42344614 ACTATA
1 ACTATA
42344620 TGACCGTACC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 37 0.88
39 5 0.12
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (39 bp):
ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
Found at i:42344599 original size:19 final size:19
Alignment explanation
Indices: 42344539--42344599 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
42344529 CTTCATCCAC
42344539 TATAGAAAAATGATACATT
1 TATAGAAAAATGATACATT
** * *
42344558 TATA-ACATTATCAAAC-TT
1 TATAGA-AAAATGATACATT
42344576 CTATAGAAAAATGATACATT
1 -TATAGAAAAATGATACATT
42344596 TATA
1 TATA
42344600 ACATTAACAA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (19 bp):
TATAGAAAAATGATACATT
Found at i:42346740 original size:40 final size:40
Alignment explanation
Indices: 42346681--42346898 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
42346671 AAGCCAAGTA
* * * *
42346681 CCTTCGGGATTTA-ACCGGATATAACT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACGAATG
*
42346720 CCTCCGGGA-TATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACT-TAGCCCGGATATAGTAACTCGCACGAATG
*
42346760 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
42346800 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
42346840 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
42346880 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42346899 TTATCATCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 146 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:42350065 original size:40 final size:40
Alignment explanation
Indices: 42350010--42350259 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
42350000 AACATTGGAA
42350010 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42350050 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42350090 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42350130 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42350170 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42350209 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42350250 CTATATCCGG
1 ATATATCCGG
42350260 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42358242 original size:40 final size:40
Alignment explanation
Indices: 42358187--42358436 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
42358177 AACATTGGAA
42358187 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42358227 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42358267 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42358307 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42358347 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42358386 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42358427 CTATATCCGG
1 ATATATCCGG
42358437 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42360854 original size:14 final size:15
Alignment explanation
Indices: 42360817--42360861 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
42360807 AAGCTTCTAA
42360817 AGTGCTAAATACCCT
1 AGTGCTAAATACCCT
*
42360832 AGTGCTAAATTCCCT
1 AGTGCTAAATACCCT
42360847 AG-GCTAAATACCCT
1 AGTGCTAAATACCCT
42360861 A
1 A
42360862 AACCCTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
AGTGCTAAATACCCT
Found at i:42365664 original size:42 final size:43
Alignment explanation
Indices: 42365551--42365710 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 43
42365541 AGCTCGTACA
* * * * *
42365551 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTA-AATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGAAATCATAA-GTCG
* *
42365594 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGAAATCA-AA-TACG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGAAATCATAAGT-CG
* *
42365636 ATTCCAACGTCCTAGATGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG-AAATCATAAGTCG
42365680 ATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATGCCAACGTCCCAGATGTGGTCTTACACGA
42365711 TAACACATAT
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 37 0.38
44 33 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGAAATCATAAGTCG
Found at i:42365697 original size:44 final size:42
Alignment explanation
Indices: 42365551--42365709 Score: 171
Period size: 44 Copynumber: 3.7 Consensus size: 42
42365541 AGCTCGTACA
* * * *
42365551 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAA-ATCG
* *
42365594 ATGCC-ACTGTCCCAAACAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGTAAATCAAAT-CG
* *
42365636 ATTCCAACGTCCTAGATGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCA-AA-TCG
42365680 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG
42365710 ATAACACATA
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 3 0.03
42 30 0.31
43 30 0.31
44 33 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAAATCG
Found at i:42365703 original size:86 final size:85
Alignment explanation
Indices: 42365554--42365710 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 85
42365544 TCGTACAATG
* *
42365554 CCAACGTCCCAGACGTGGTCTTACATGTAATTAAATATCGATGCCACTGTCCCAAACAGGGTCTT
1 CCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTT
42365619 ACACGAAATCAAATACGATT
66 ACACGAAATCAAATACGATT
* * * * *
42365639 CCAACGTCCTAGATGTGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGA-TGTGG
1 CCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAAACAG-GG
42365701 TCTTACACGA
62 TCTTACACGA
42365711 TAACACATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
85 26 0.43
86 31 0.51
87 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTT
ACACGAAATCAAATACGATT
Found at i:42367524 original size:40 final size:40
Alignment explanation
Indices: 42367439--42367589 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
42367429 AATTGAATGA
* * *
42367439 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
42367479 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
42367520 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
42367559 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42367590 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:42367603 original size:40 final size:40
Alignment explanation
Indices: 42367476--42367605 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
42367466 ATGCTGGAAA
* * * *
42367476 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
42367516 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
42367556 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
42367596 TTATATCCGG
1 TTATATCCGG
42367606 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:42374032 original size:94 final size:95
Alignment explanation
Indices: 42373791--42374104 Score: 277
Period size: 94 Copynumber: 3.3 Consensus size: 95
42373781 CTTCATCGAG
* * * * * * * * *
42373791 GCCGATACCTTGTCCCAGACGTGGTCTTACACTAGCTCTCATATGTAC-ATACTGATGCACGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTA-AT-CGAGACTGATGCATGTCC
* * *
42373855 CAGACATGTCTTACACTAGCACT-A-CGCTTA-
64 CAGACATGTATTACACTAGCGCTCATC-CTAAC
* * * * *
42373885 GCCGATGAC-TATCCCAGACAT-GTCTTACACTGGCTATCTTTATCGAGGCTGATGCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATCGAGACTGATGCATGTCCCA
* *
42373948 GACATGTATTATACTGGCGCTCATCGCT-AC
66 GACATGTATTACACTAGCGCTCATC-CTAAC
* * *
42373978 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-TATAAT-GTGATTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCT-TAATCGAGACTGATGCATGTCCC
* * * * *
42374041 AGACATGTCTTACACTAGTGCTCGTCTTAAT
65 AGACATGTATTACACTAGCGCTCATCCTAAC
42374072 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
42374105 AGCTCTCACA
Statistics
Matches: 179, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
90 1 0.01
91 32 0.18
92 18 0.10
93 22 0.12
94 87 0.49
95 19 0.11
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATCGAGACTGATGCATGTCCCA
GACATGTATTACACTAGCGCTCATCCTAAC
Found at i:42374084 original size:47 final size:47
Alignment explanation
Indices: 42373741--42374106 Score: 185
Period size: 47 Copynumber: 7.8 Consensus size: 47
42373731 TGGGTTTAGT
*
42373741 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-GGCT-ATCTTCATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGGCTCATCTT-A---A
* * * * * *
42373790 GGCCGATACCTTGTCCCAGACGTGGTCTTACACTAGCTCTCATATGTACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-GCTCATCT-TA-A
* * * * *
42373840 TACTGATG-CACGTCCCAGACAT-GTCTTACACTA-GCACTACGCTT-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGGCTC-A-TCTTAA
* *
42373885 -GCCGATGAC-TATCCCAGACAT-GTCTTACACT-GGCT-ATCTTTATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGGCTCATC-TTA---A
* * * * * * *
42373931 GGCTGATG-CATGTCCTAGACAT-GTATTATACTGGCGCTCATCGCT-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-GCTCATC-TTAA
* *
42373977 CGCTGATGCCATGTCCCAGACATGGTCTTACACT-GGCT-AT-TATAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGGCTCATCT-TAA
* * *
42374022 TG-TGATTGATGCATGTCCCAGACAT-GTCTTACACTAGTGCTCGTCTTAA
1 TGCCGA-TG--CCATGTCCCAGACATGGTCTTACACTAG-GCTCATCTTAA
42374071 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
42374107 CTCTCACATA
Statistics
Matches: 244, Mismatches: 42, Indels: 63
0.70 0.12 0.18
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
44 31 0.13
45 8 0.03
46 25 0.10
47 69 0.28
48 36 0.15
49 51 0.21
50 13 0.05
51 2 0.01
52 4 0.02
53 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGGCTCATCTTAA
Found at i:42379111 original size:40 final size:40
Alignment explanation
Indices: 42379067--42379218 Score: 150
Period size: 40 Copynumber: 3.8 Consensus size: 40
42379057 ATATCACGAT
42379067 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAATAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAATAAC
* * *
42379107 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCT-AC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTA-ATAAC
* * * *
42379147 TAGCACAATTGCCTTCGGGTCTTAACCCGG--TT-ATAAT
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAATAAC
* * *
42379184 TTCCAGCATAATTGTCTTCGGGGCTTAGCCCGGAT
1 TTGCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGAT
42379219 ATCATTCAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 3 0.03
39 1 0.01
40 79 0.89
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAATAAC
Found at i:42387207 original size:40 final size:40
Alignment explanation
Indices: 42387133--42387278 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
42387123 CCGCACCAAG
* * * * * *
42387133 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
42387173 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
42387213 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
42387253 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
42387279 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:42387293 original size:40 final size:40
Alignment explanation
Indices: 42387165--42387316 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
42387155 ATCACGATTT
* * * **
42387165 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
42387205 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
42387245 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
42387285 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
42387317 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:42394820 original size:27 final size:27
Alignment explanation
Indices: 42394481--42394838 Score: 409
Period size: 27 Copynumber: 13.3 Consensus size: 27
42394471 TGATTTACAA
* *
42394481 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42394508 AATTACCGAAGTACCCCTGTAGGCTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42394535 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
42394562 AATTATTGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42394589 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42394616 AATTATCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42394643 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
42394670 AATTACCGAGATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42394697 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42394724 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42394751 AATTACCGAAATA-CCCTCGTAGAGTAGG
1 AATTACCGAAATACCCCT-GTAGGGTA-G
*
42394779 AA-TACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
42394805 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
42394832 AATTACC
1 AATTACC
42394839 ATTTTACCCC
Statistics
Matches: 280, Mismatches: 45, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 10 0.04
27 261 0.93
28 9 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:42395287 original size:31 final size:31
Alignment explanation
Indices: 42395240--42395380 Score: 183
Period size: 31 Copynumber: 4.5 Consensus size: 31
42395230 TTGCATTCAC
* *
42395240 ATTCGGATTTTGATTCTGTTACCTGGTACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
42395271 ATTTTGATTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
42395302 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
42395333 ATTCTGATTCTGATTCAGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
42395364 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
42395381 AGTTCTGATA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 96 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:42395308 original size:6 final size:6
Alignment explanation
Indices: 42395293--42395389 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
42395283 ATTCTGTTAC
* * * *
42395293 CTGATA CTGATT CTGATT TTGATT TTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
42395342 CTGATT CAG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
42395390 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 62 0.86
7 4 0.06
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:42395365 original size:62 final size:62
Alignment explanation
Indices: 42395240--42395405 Score: 183
Period size: 62 Copynumber: 2.7 Consensus size: 62
42395230 TTGCATTCAC
* * * * * * * *
42395240 ATTCGGATTTTGATTCTGTTACCTGGTACTGATTTTGATTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCAGTCACCTAATACTG
* *
42395302 ATTCTGATTTTGATTTTGTTACCTGATACTGATTCTGATTCTGATTCAGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCAGTCACCTAATACTG
* * * *
42395364 ATTCTGATTCTGATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCTGATTTTGATTCT-GTTACCTGATACTGATTCTGATTCTG
42395406 TAATGGGTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
61 18 0.20
62 67 0.76
63 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCAGTCACCTAATACTG
Found at i:42399239 original size:40 final size:40
Alignment explanation
Indices: 42399171--42399314 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 40
42399161 GAATTTAGCT
* *
42399171 GGATATAG-CAACTCGCACGAATGCCTTCGGGACTTAGCCC
1 GGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCC
*
42399211 GGACATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
*
42399251 GGATATAGTCACTAGCACAAATGCCTCCGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
*
42399291 GGATATAATCACTAGCACAAATGC
1 GGATATAGTCACTAGCACAAATGC
42399315 TGTAACACCC
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 96 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (40 bp):
GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
Found at i:42401063 original size:25 final size:25
Alignment explanation
Indices: 42401035--42401113 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
42401025 ACTCGGCCCT
42401035 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
42401060 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
42401082 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
42401107 ATCACAT
1 ATCACAT
42401114 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:42401162 original size:49 final size:48
Alignment explanation
Indices: 42400985--42401195 Score: 311
Period size: 47 Copynumber: 4.4 Consensus size: 48
42400975 CCCTTCGGGA
* * * * *
42400985 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42401032 CCTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
42401079 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42401126 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
42401175 CTTATCACATATGTATACACT
1 CTTATCACATAT-TATACACT
42401196 GTGACAGCCC
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
47 97 0.64
49 55 0.36
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42402930 original size:124 final size:122
Alignment explanation
Indices: 42402710--42402931 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
42402700 GAATTATGTG
* * * * *
42402710 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
42402775 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
42402832 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
42402896 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
42402932 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:42402975 original size:40 final size:40
Alignment explanation
Indices: 42402890--42403040 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
42402880 AATTGAATGA
* * * *
42402890 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
42402930 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
42402971 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
42403010 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42403041 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:42403054 original size:40 final size:40
Alignment explanation
Indices: 42402927--42403056 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
42402917 ATGCTGGAAA
* * *
42402927 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
42402967 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42403007 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42403047 TTATATCCGG
1 TTATATCCGG
42403057 TTATATTCCA
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42403055 original size:80 final size:80
Alignment explanation
Indices: 42402889--42403056 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
42402879 AAATTGAATG
* *
42402889 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
42402954 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
42402969 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
42403032 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
42403049 ATATCCGG
1 ATATCCGG
42403057 TTATATTCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:42405198 original size:30 final size:30
Alignment explanation
Indices: 42405162--42405292 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
42405152 GACAAGATTG
* * * * *
42405162 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
42405192 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
42405220 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
42405250 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
42405279 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42405293 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:42405253 original size:58 final size:58
Alignment explanation
Indices: 42405162--42405292 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
42405152 GACAAGATTG
* * * * * *
42405162 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
42405220 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
42405279 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42405293 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:42413223 original size:30 final size:31
Alignment explanation
Indices: 42413136--42413267 Score: 168
Period size: 30 Copynumber: 4.5 Consensus size: 31
42413126 GACAAGATTG
* * * * *
42413136 GCACTAAGTGTGCGGGTTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
*
42413167 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
42413195 GCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
42413225 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
42413254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42413268 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 31 0.33
31 18 0.19
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (31 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATATA
Found at i:42413252 original size:59 final size:59
Alignment explanation
Indices: 42413136--42413267 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
42413126 GACAAGATTG
* * * * * *
42413136 GCACTAAGTGTGCGGGTTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
*
42413195 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATA
42413254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42413268 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 26 0.41
59 36 0.56
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
Found at i:42422107 original size:40 final size:40
Alignment explanation
Indices: 42422022--42422172 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
42422012 AATTGAATGA
* * * *
42422022 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
42422062 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
42422103 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
42422142 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42422173 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:42422186 original size:40 final size:40
Alignment explanation
Indices: 42422059--42422188 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
42422049 ATGCTGGAAA
* * *
42422059 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
42422099 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42422139 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42422179 TTATATCCGG
1 TTATATCCGG
42422189 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42422187 original size:80 final size:80
Alignment explanation
Indices: 42422021--42422188 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
42422011 AAATTGAATG
* *
42422021 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
42422086 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
42422101 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
42422164 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
42422181 ATATCCGG
1 ATATCCGG
42422189 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:42423617 original size:49 final size:49
Alignment explanation
Indices: 42423545--42423711 Score: 255
Period size: 49 Copynumber: 3.4 Consensus size: 49
42423535 GGGGTGTTAC
*
42423545 ATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGT
1 ATACGCTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATGT
*
42423594 ATACGCTTTCACATTCGTTACATCGGCCATTAGGCCTTATCACATATGT
1 ATACGCTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATGT
* *
42423643 ATACGCTTTCACATTCATCT-CATCGGCCATTAGGCCTTAACACATATATAT
1 ATACGCTTTCACATTCAT-TACATCGGCCATTAGGCCTTATCAC--ATATGT
*
42423694 ATACACTTTCACATTCAT
1 ATACGCTTTCACATTCAT
42423712 CGCGTAGAAT
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
49 86 0.79
50 1 0.01
51 22 0.20
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (49 bp):
ATACGCTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATGT
Found at i:42428112 original size:47 final size:47
Alignment explanation
Indices: 42427898--42428256 Score: 227
Period size: 47 Copynumber: 7.6 Consensus size: 47
42427888 GTTTCAATGC
* *
42427898 CATGTCCCAGACATGGTCTTACACTGGCTATCTTCATAGAGGCGGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * * *
42427946 CCATGTCCCAGACATGGTTTTACACTAGC--TCTT-ATATGTACATGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCAT-CG---AGGCCGATG
* * * * *
42427996 CATGTCCCAAACATGTCTTACACTAGC-A-CTAC-CCTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATC-GAGGCCGATG
* *
42428040 CATGTCCCAAACACGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * ** * * *
42428087 CATGTCCCAGACATGTTTTATACTGGCGCTCATC-TCTATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * *
42428133 CCATGTCCCAGACATGGTCTTGCACTGGCTAT-TATAAT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCT-TCATCGAGGCCGATG
* ** * * **
42428181 CATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
*
42428227 CCATGTCCCAAACATGGTCTTACACTGGCT
1 -CATGTCCCAGACAT-GTCTTACACTGGCT
42428257 CTCACATAAC
Statistics
Matches: 240, Mismatches: 51, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
44 31 0.13
45 3 0.01
46 34 0.14
47 81 0.34
48 44 0.18
49 40 0.17
50 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
Found at i:42428181 original size:141 final size:140
Alignment explanation
Indices: 42427898--42428252 Score: 353
Period size: 141 Copynumber: 2.5 Consensus size: 140
42427888 GTTTCAATGC
* *
42427898 CATGTCCCAGACATGGTCTTACACTGGCTATCTTCATAGAGGCGGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACA-CGTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGG
* * * *
42427963 TTTTACACTAGCTCTTATATGTACATGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTAC
65 TTTTACACTAGCGCTCATATCTA-ATGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTAC
**
42428028 CCTTAGCCGATG
129 AATTAGCCGATG
* *
42428040 CATGTCCCAAACACGTCTTACACTGGCTATCTTCATCGAGGCCGATG-CATGTCCCAGACAT-GT
1 CATGTCCCAGACACGTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGGT
* * * * * * *
42428103 TTTATACTGGCGCTCATCTCT-ATGCCGATGCCATGTCCCAGACATGGTCTTGCACTGGCTATTA
66 TTTACACTAGCGCTCATATCTAATGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTA
* * *
42428167 TAATGTGGCTGATG
128 CAAT-TAGCCGATG
* * ** * *
42428181 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCA-ATA--CCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACACGTCTTACACTGGCTATC-T-TCATAGAGGCCGATGCCATGTCCCAGACATG
*
42428243 GTCTTACACT
64 GTTTTACACT
42428253 GGCTCTCACA
Statistics
Matches: 175, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
137 8 0.05
138 13 0.07
139 28 0.16
140 24 0.14
141 77 0.44
142 22 0.13
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACACGTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGGT
TTTACACTAGCGCTCATATCTAATGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTACAA
TTAGCCGATG
Found at i:42428186 original size:94 final size:93
Alignment explanation
Indices: 42427898--42428256 Score: 336
Period size: 94 Copynumber: 3.8 Consensus size: 93
42427888 GTTTCAATGC
* * ** * * *
42427898 CATGTCCCAGACATGGTCTTACACTGGCTA-TCTTCATAGAGGCGGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATC-TCTATGCCGATGCCATGTCCCAAACATG
* * * *
42427962 GTTTTACACTAGCTCTTATATGTACATGCTGATG
63 GTCTTACACTGGCTATTATATGT---GGCTGATG
* * *
42427996 CATGTCCCAAACATGTCTTACACTAGCACT-A-CCCT-TAGCCGATG-CATGTCCCAAACA-CGT
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAT-GCCGATGCCATGTCCCAAACATGGT
* *
42428056 CTTACACTGGCTATCT-TCATCGAGGCCGATG
65 CTTACACTGGCTAT-TAT-AT-GTGGCTGATG
* * * * *
42428087 CATGTCCCAGACATGTTTTATACTGGCGCTCATCTCTATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAAACATGGTC
*
42428152 TTGCACTGGCTATTATAATGTGGCTGATG
66 TTACACTGGCTATTAT-ATGTGGCTGATG
* * * *
42428181 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACCGATGCCATGTCCCAAACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAAACATGGTC
42428246 TTACACTGGCT
66 TTACACTGGCT
42428257 CTCACATAAC
Statistics
Matches: 213, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
91 31 0.15
92 15 0.07
93 25 0.12
94 96 0.45
95 19 0.09
96 1 0.00
97 13 0.06
98 13 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAAACATGGTC
TTACACTGGCTATTATATGTGGCTGATG
Found at i:42432369 original size:37 final size:37
Alignment explanation
Indices: 42432319--42432392 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
42432309 AAGTAAGAGC
42432319 TTATCCCTTAGATGCTAATTTATTAAACTTGAATGAT
1 TTATCCCTTAGATGCTAATTTATTAAACTTGAATGAT
*
42432356 TTATCCGTTAGATGCTAATTTATTAAACTTGAATGAT
1 TTATCCCTTAGATGCTAATTTATTAAACTTGAATGAT
42432393 GTATATCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (37 bp):
TTATCCCTTAGATGCTAATTTATTAAACTTGAATGAT
Found at i:42432415 original size:37 final size:37
Alignment explanation
Indices: 42432326--42432406 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
42432316 AGCTTATCCC
* *
42432326 TTAGATGCTAATTTATTAAACTTGAATGATTTATCCG
1 TTAGATCCTAATTTATTAAACTTGAATGATTTATCAG
* *
42432363 TTAGATGCTAATTTATTAAACTTGAATGATGTATATCAT
1 TTAGATCCTAATTTATTAAACTTGAATGAT-T-TATCAG
42432402 TTAGA
1 TTAGA
42432407 CCTCTTTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 30 0.75
38 1 0.03
39 9 0.22
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.43
Consensus pattern (37 bp):
TTAGATCCTAATTTATTAAACTTGAATGATTTATCAG
Found at i:42446124 original size:13 final size:13
Alignment explanation
Indices: 42446106--42446132 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42446096 TTTGTAGAGG
42446106 TATTTTATCTGTT
1 TATTTTATCTGTT
42446119 TATTTTATCTGTT
1 TATTTTATCTGTT
42446132 T
1 T
42446133 TCCCATCTAT
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:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TATTTTATCTGTT
Found at i:42454590 original size:40 final size:40
Alignment explanation
Indices: 42454507--42454750 Score: 242
Period size: 40 Copynumber: 6.1 Consensus size: 40
42454497 CGGGATTTAA
* * * * * *
42454507 CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
42454547 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
42454587 CCGGATTTGGTAACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
42454627 CCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
42454667 CCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
42454707 CCGGATGTAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
42454747 CCGG
1 CCGG
42454751 GTATCAATCA
Statistics
Matches: 174, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 170 0.98
41 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:42461151 original size:21 final size:23
Alignment explanation
Indices: 42461126--42461178 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
42461116 CAGAGGTACT
42461126 CGTGGAAG-GG-GT-ACAAGAGGC
1 CGTGGAAGAGGCGTGAC-AGAGGC
42461147 CGTGGAAGAGGCCGTGACAGAGGC
1 CGTGGAAGAGG-CGTGACAGAGGC
42461171 CGTGGAAG
1 CGTGGAAG
42461179 TGCTCGGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.29
22 2 0.07
24 16 0.57
25 2 0.07
ACGTcount: A:0.26, C:0.17, G:0.47, T:0.09
Consensus pattern (23 bp):
CGTGGAAGAGGCGTGACAGAGGC
Found at i:42461157 original size:12 final size:12
Alignment explanation
Indices: 42461140--42461178 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
42461130 GAAGGGGTAC
42461140 AAGAGGCCGTGG
1 AAGAGGCCGTGG
42461152 AAGAGGCCGT-G
1 AAGAGGCCGTGG
42461163 ACAGAGGCCGTGG
1 A-AGAGGCCGTGG
42461176 AAG
1 AAG
42461179 TGCTCGGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.28, C:0.18, G:0.46, T:0.08
Consensus pattern (12 bp):
AAGAGGCCGTGG
Found at i:42462414 original size:27 final size:27
Alignment explanation
Indices: 42462382--42462468 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
42462372 CCTTATGGAT
42462382 GGTACTGAAAATTGCGAAGAGGGATAA
1 GGTACTGAAAATTGCGAAGAGGGATAA
* *
42462409 GGTACTGAAAATTGCGCTACTAAATGGAT--
1 GGTACTGAAAATTGCG--A--AGAGGGATAA
*
42462438 GGTACTGAAAATTGCAAAGAGGGATAA
1 GGTACTGAAAATTGCGAAGAGGGATAA
42462465 GGTA
1 GGTA
42462469 GTTGTAATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
25 6 0.12
27 21 0.43
29 16 0.33
31 6 0.12
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (27 bp):
GGTACTGAAAATTGCGAAGAGGGATAA
Found at i:42463611 original size:17 final size:16
Alignment explanation
Indices: 42463589--42463620 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
42463579 CCTTCTCACA
42463589 TTTTCTTTTCTTCCATC
1 TTTTCTTTTC-TCCATC
42463606 TTTTCTTTTCTCCAT
1 TTTTCTTTTCTCCAT
42463621 AGCCGAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCTTTTCTCCATC
Found at i:42464549 original size:27 final size:26
Alignment explanation
Indices: 42464517--42464576 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
42464507 TTTACAAAAC
*
42464517 TACCCCTAAGTATGAAAATTTCCATTA
1 TACCCCTAAG-ATGAAAATTACCATTA
* *
42464544 TACCCCT-AGGTGCAAATTACCATTA
1 TACCCCTAAGATGAAAATTACCATTA
42464569 TACCCCTA
1 TACCCCTA
42464577 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 20 0.69
26 2 0.07
27 7 0.24
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.30
Consensus pattern (26 bp):
TACCCCTAAGATGAAAATTACCATTA
Found at i:42464707 original size:22 final size:23
Alignment explanation
Indices: 42464681--42464755 Score: 60
Period size: 28 Copynumber: 2.9 Consensus size: 23
42464671 GCAGGAAGTG
42464681 TTCTGGTGGCTATGCCACAAATA
1 TTCTGGTGGCTATGCCACAAATA
42464704 TCTGTTTCTGGTGGCTATGCCACAAATA
1 -----TTCTGGTGGCTATGCCACAAATA
*
42464732 TCTGTTCTGGTGGCTCTGCCACAA
1 ----TTCTGGTGGCTATGCCACAA
42464756 TATCTTTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
TTCTGGTGGCTATGCCACAAATA
Found at i:42464751 original size:27 final size:26
Alignment explanation
Indices: 42464679--42464792 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 26
42464669 ATGCAGGAAG
42464679 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
42464706 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTATGCCAC-AATATC
*
42464734 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * * *
42464760 TTTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
42464787 TGTTCT
1 TGTTCT
42464793 AGCAGCCATG
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 11 0.14
27 42 0.52
28 27 0.34
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:42472923 original size:15 final size:15
Alignment explanation
Indices: 42472903--42472936 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
42472893 CCTTTATGCG
*
42472903 ATTTAGTTCACCTAA
1 ATTTAGTTCACCAAA
42472918 ATTTAGTTCACCAAA
1 ATTTAGTTCACCAAA
42472933 ATTT
1 ATTT
42472937 TCATGTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (15 bp):
ATTTAGTTCACCAAA
Found at i:42479680 original size:24 final size:24
Alignment explanation
Indices: 42479632--42479695 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
42479622 TGGATTATGT
42479632 AGAAAGAATAAAGAAATGG-AAAAA
1 AGAAAGAA-AAAGAAATGGAAAAAA
*
42479656 AGAAAGAAAGAGAATAT-GAAGAAAA
1 AGAAAGAAAAAGAA-ATGGAA-AAAA
* *
42479681 ACAAAGAAAAGGAAA
1 AGAAAGAAAAAGAAA
42479696 AAAAAAGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.18
24 12 0.36
25 15 0.45
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.06
Consensus pattern (24 bp):
AGAAAGAAAAAGAAATGGAAAAAA
Found at i:42480896 original size:29 final size:29
Alignment explanation
Indices: 42480863--42480927 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
42480853 GTGACGAGAT
*
42480863 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
42480892 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
42480921 CGGCACT
1 TGGCACT
42480928 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:42485953 original size:40 final size:41
Alignment explanation
Indices: 42485898--42486101 Score: 303
Period size: 40 Copynumber: 5.1 Consensus size: 41
42485888 CGGATGATAA
* *
42485898 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
42485938 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
42485978 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* **
42486018 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
42486058 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATAT
42486098 CCGG
1 CCGG
42486102 TTAAAGCCCG
Statistics
Matches: 154, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 4 0.03
40 150 0.97
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:42493958 original size:40 final size:40
Alignment explanation
Indices: 42493903--42494012 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
42493893 CGGATGATAA
*
42493903 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
42493943 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
42493983 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
42494013 ACTATATATC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 66 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:42494029 original size:20 final size:21
Alignment explanation
Indices: 42494004--42494044 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
42493994 CCCGAAGGCA
42494004 TTTGTGCGAACTA-TATATCC
1 TTTGTGCGAACTACTATATCC
42494024 TTTGTGCGAACTACTATATCC
1 TTTGTGCGAACTACTATATCC
42494045 GGGCTAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (21 bp):
TTTGTGCGAACTACTATATCC
Found at i:42497967 original size:34 final size:34
Alignment explanation
Indices: 42497924--42497992 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
42497914 AATTCTCAAA
* *
42497924 AGAATGACCTTCCCCATGATACATACAGGAAACT
1 AGAATGACCTTCCCCACGATACACACAGGAAACT
42497958 AGAATGACCTTCCCCACGATACACACAGGAAACT
1 AGAATGACCTTCCCCACGATACACACAGGAAACT
42497992 A
1 A
42497993 CTTTAAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.17
Consensus pattern (34 bp):
AGAATGACCTTCCCCACGATACACACAGGAAACT
Found at i:42503320 original size:17 final size:17
Alignment explanation
Indices: 42503295--42503328 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42503285 ATTAATTAAT
* *
42503295 TTTTTAAAATTTAAAAA
1 TTTTAAAAATTCAAAAA
42503312 TTTTAAAAATTCAAAAA
1 TTTTAAAAATTCAAAAA
42503329 AAATAAAACA
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:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAAAATTCAAAAA
Found at i:42503335 original size:17 final size:16
Alignment explanation
Indices: 42503315--42503354 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
42503305 TTAAAAATTT
42503315 TAAAAATTCAAAAAAAA
1 TAAAAATT-AAAAAAAA
*
42503332 TAAAACATTAAAAAATA
1 TAAAA-ATTAAAAAAAA
42503349 TAAAAA
1 TAAAAA
42503355 AATTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAATTAAAAAAAA
Found at i:42503354 original size:18 final size:17
Alignment explanation
Indices: 42503316--42503360 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
42503306 TAAAAATTTT
42503316 AAAAATTCAAAAAAAATA
1 AAAAATT-AAAAAAAATA
* *
42503334 AAACATTAAAAAATATAA
1 AAAAATTAAAAAAAAT-A
42503352 AAAAATTAA
1 AAAAATTAA
42503361 TATTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATTAAAAAAAATA
Found at i:42504402 original size:16 final size:17
Alignment explanation
Indices: 42504369--42504402 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42504359 GTAATTAATA
*
42504369 AAATATTGTAAAATTAT
1 AAATATTGTAAAACTAT
42504386 AAATATT-TAAAACTAT
1 AAATATTGTAAAACTAT
42504402 A
1 A
42504403 CAAATCTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATTGTAAAACTAT
Found at i:42504868 original size:33 final size:33
Alignment explanation
Indices: 42504826--42504892 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
42504816 TTGGTGGCAG
42504826 TTCAATTAATAAATGATGAACACGTATATCATT
1 TTCAATTAATAAATGATGAACACGTATATCATT
*
42504859 TTCAATTAATAAATGATGAATACGTATATCATT
1 TTCAATTAATAAATGATGAACACGTATATCATT
42504892 T
1 T
42504893 GGTGTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (33 bp):
TTCAATTAATAAATGATGAACACGTATATCATT
Found at i:42512191 original size:2 final size:2
Alignment explanation
Indices: 42512184--42512214 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42512174 ATCTATTCGG
42512184 AT AT AT AT 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 A
42512215 CACTTAAGCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42513362 original size:10 final size:10
Alignment explanation
Indices: 42513340--42513370 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
42513330 ATGAAGCCAA
42513340 ATTATCA-TT
1 ATTATCATTT
42513349 ATTATCATTT
1 ATTATCATTT
42513359 ATTATCATTT
1 ATTATCATTT
42513369 AT
1 AT
42513371 ACTCCACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTATCATTT
Found at i:42516466 original size:16 final size:15
Alignment explanation
Indices: 42516440--42516471 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
42516430 ACTAGATCGG
42516440 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
42516455 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
42516471 C
1 C
42516472 GGTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:42516910 original size:27 final size:26
Alignment explanation
Indices: 42516870--42516980 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
42516860 AGGAAGCGTC
* *
42516870 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
42516897 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
42516924 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* ***
42516951 CTGGTGACTCTATTACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
42516977 CTGG
1 CTGG
42516981 CAGCCATGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:42520782 original size:28 final size:28
Alignment explanation
Indices: 42520717--42520788 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
42520707 ATAGTGAATC
*
42520717 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
42520746 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
42520774 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42520789 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 18 0.44
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:42520810 original size:30 final size:28
Alignment explanation
Indices: 42520716--42520810 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 28
42520706 TATAGTGAAT
* *
42520716 CCGCACACTTAGTGCTATATGTATTC-AAC
1 CCGCACACTTAGTGCTATA--CAATCAAAC
* *
42520745 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
42520773 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
42520803 CCGCACAC
1 CCGCACAC
42520811 CAATCTTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.07
28 23 0.40
29 18 0.32
30 12 0.21
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:42522296 original size:28 final size:28
Alignment explanation
Indices: 42522235--42522332 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
42522225 TCACAAATTG
** * *
42522235 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
42522264 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
42522292 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
42522320 GCACTAAGTGTGC
1 GCACTAAGTGTGC
42522333 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:42530362 original size:16 final size:15
Alignment explanation
Indices: 42530336--42530367 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
42530326 ACTAGATCGG
42530336 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
42530351 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
42530367 C
1 C
42530368 GGTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:42530833 original size:27 final size:26
Alignment explanation
Indices: 42530784--42530894 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
42530774 AGGAAGCGTC
* *
42530784 CTGGTGGCTATGCTACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
42530811 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
42530838 CTGGTGGCTCTGCCACGATTATCT-ATT
1 CTGGTGGCTCTGCCAC-ATTATCTGA-T
* ** *
42530865 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
42530891 CTGG
1 CTGG
42530895 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:42530868 original size:54 final size:53
Alignment explanation
Indices: 42530784--42530894 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
42530774 AGGAAGCGTC
* * *
42530784 CTGGTGGCTATGCTACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACAT-TATCTGTT
* * *
42530838 CTGGTGGCTCTGCCACGATTATCT-ATTCTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTACCACATTATCTGTT
42530891 CTGG
1 CTGG
42530895 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 13 0.26
54 37 0.74
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATTATCTGTT
Found at i:42531916 original size:14 final size:15
Alignment explanation
Indices: 42531899--42531927 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42531889 TAACGAAAAT
42531899 TTCACACAT-ATAAA
1 TTCACACATAATAAA
42531913 TTCACACATAATAAA
1 TTCACACATAATAAA
42531928 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:42534259 original size:64 final size:64
Alignment explanation
Indices: 42534158--42534286 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
42534148 ATAGCTAAAA
42534158 TTTAGATTGAATCCACCCGAATACCTAATGCTGATACTACGTGACCCAAAAAACTGACTTCACT
1 TTTAGATTGAATCCACCCGAATACCTAATGCTGATACTACGTGACCCAAAAAACTGACTTCACT
*
42534222 TTTAGATTGAATCCACCCGAATACCTAATGCTGATACTACGTGACCCAGAAAACTGACTTCACT
1 TTTAGATTGAATCCACCCGAATACCTAATGCTGATACTACGTGACCCAAAAAACTGACTTCACT
42534286 T
1 T
42534287 AACCAGAACT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.27
Consensus pattern (64 bp):
TTTAGATTGAATCCACCCGAATACCTAATGCTGATACTACGTGACCCAAAAAACTGACTTCACT
Found at i:42539556 original size:14 final size:15
Alignment explanation
Indices: 42539539--42539567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42539529 TCACGAAAAT
42539539 TTCACACAT-ATAAA
1 TTCACACATAATAAA
42539553 TTCACACATAATAAA
1 TTCACACATAATAAA
42539568 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:42542428 original size:47 final size:46
Alignment explanation
Indices: 42542326--42542584 Score: 195
Period size: 47 Copynumber: 5.5 Consensus size: 46
42542316 GCGGCAATGC
* ** *
42542326 AAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGAGCCAGAGT
1 AAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGAGCCAGTGT
* * *
42542372 AAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGAGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGAGCCAGTGT
* * * *
42542420 AAGACATGTTTGGGACATGCATCGGCCTCGACAGA-GATAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGG-CAC-AGAGATGAGAGCCAGTGT
* * * * * *
42542467 AAAACGTGTCTGGGACACGCATCGGCTA-AGAG-T-TGTGCTAGTGT
1 AAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGAGCCAGTGT
* * * *
42542511 AAGACATGTCTAGGACATGCATCAGCACGCATATATGAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCCAGTGT
*
42542559 AAGACCATGTCTCGGACATGGCATCG
1 AAGA-CATGTCTGGGACAT-GCATCG
42542585 ACAATTTATC
Statistics
Matches: 165, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
45 3 0.02
46 14 0.08
47 63 0.38
48 38 0.23
49 13 0.08
50 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCACAGAGATGAGAGCCAGTGT
Found at i:42549973 original size:47 final size:45
Alignment explanation
Indices: 42549875--42550133 Score: 168
Period size: 47 Copynumber: 5.6 Consensus size: 45
42549865 GTGCGCTAGT
* **
42549875 GTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGA
1 GTAAGACATGTCTGGGACATGCATCGG-CACAAGATGAGAGCCAGA
* *
42549921 GTAAGACCATGTCTGGGAAATGGCATCGGCACAGAGATGAGTGCCAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCACA-AGATGAGAGCCAGA
* * * * *
42549969 -TAAGATATGTTTGGGACATGCATCGGCCTCGACAGA-GATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGG-CAC-A-AGATGAGAGCCAGA
* * * * * * *
42550015 GTAAGACGTGTCTAGGACATGCATCGGC-TAAGA-GTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCACAAGATG-AGAGCCAGA
* * * *
42550059 GTAAGGCATGTCTGGGACATGCATCAGCATGC-ATATAGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCA--CAAGAT-GAGAGCCAGA
*
42550106 GTAAGACCATGTCTCGGACATGGCATCG
1 GTAAGA-CATGTCTGGGACAT-GCATCG
42550134 ACAATTTATC
Statistics
Matches: 165, Mismatches: 34, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 30 0.18
45 7 0.04
46 29 0.18
47 59 0.36
48 31 0.19
49 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCACAAGATGAGAGCCAGA
Found at i:42553733 original size:40 final size:40
Alignment explanation
Indices: 42553674--42553815 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
42553664 AAATTGAATG
* * *
42553674 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
42553714 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
42553754 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
42553794 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
42553816 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:42553816 original size:40 final size:39
Alignment explanation
Indices: 42553713--42553841 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
42553703 TGCTGGAAAT
* * *
42553713 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
42553753 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
42553793 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
42553833 TATATCCGG
1 TATATCCGG
42553842 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:42564224 original size:40 final size:40
Alignment explanation
Indices: 42564159--42564406 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
42564149 TCTTCGGAAT
* ** *
42564159 TTAG-CCGGATATAACTACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
42564198 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
42564238 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
42564278 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
42564318 TTAACCCGGATATAGCAACTCGGACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
42564358 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTTGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
42564398 TTAGCCCGG
1 TTAGCCCGG
42564407 GTATCATTCA
Statistics
Matches: 187, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
39 3 0.02
40 183 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:42564387 original size:120 final size:120
Alignment explanation
Indices: 42564159--42564406 Score: 383
Period size: 120 Copynumber: 2.1 Consensus size: 120
42564149 TCTTCGGAAT
* * *
42564159 TTAG-CCGGATATAACTACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
* *
42564223 AAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGGC
** *
42564278 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGGAC
1 TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
* *
42564343 AAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTTGGGGC
66 AAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGGC
42564398 TTAGCCCGG
1 TTAGCCCGG
42564407 GTATCATTCA
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 4 0.03
120 112 0.96
121 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGGC
Found at i:42572446 original size:40 final size:40
Alignment explanation
Indices: 42572401--42572625 Score: 332
Period size: 40 Copynumber: 5.7 Consensus size: 40
42572391 ATAACCACAA
* * *
42572401 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
42572441 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
42572481 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--AACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
42572519 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
42572559 G-ACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* *
42572598 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
42572626 GTATCATTCA
Statistics
Matches: 171, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
38 37 0.22
39 33 0.19
40 101 0.59
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:42572608 original size:117 final size:118
Alignment explanation
Indices: 42572401--42572625 Score: 382
Period size: 117 Copynumber: 1.9 Consensus size: 118
42572391 ATAACCACAA
* *
42572401 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
42572466 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAACTC
66 CGGATATAACAACTAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAAACTC
42572519 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCG-ACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
42572583 CGGATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
66 CGGATATAA-CAACTAGCACAAATGCCTTCGGGGCTTAGCCCGG
42572626 GTATCATTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
117 61 0.60
118 40 0.40
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (118 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATAACAACTAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAAACTC
Found at i:42575848 original size:29 final size:29
Alignment explanation
Indices: 42575806--42575878 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
42575796 GGTGACAGAT
42575806 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
42575835 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
42575864 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
42575879 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:42575916 original size:28 final size:28
Alignment explanation
Indices: 42575806--42575915 Score: 134
Period size: 29 Copynumber: 3.9 Consensus size: 28
42575796 GGTGACAGAT
42575806 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTT-AAAAGTA
42575835 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTT-AAAAGTA
* *
42575864 TGGCACTAAGTGTGCGAA--TTTAAATTA
1 TGGCACTAAGTGTGC-AAGCTTAAAAGTA
* *
42575891 TCGGCACTATGTGTGCGAGCTTAAA
1 T-GGCACTAAGTGTGCAAGCTTAAA
42575916 TCACATGGCA
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.10
28 15 0.21
29 48 0.67
30 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAAAGTA
Found at i:42575935 original size:29 final size:27
Alignment explanation
Indices: 42575806--42575936 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 27
42575796 GGTGACAGAT
42575806 TGGCACTAAGTGTGC-AAGCTTGAAAAGT-A
1 TGGCACTAAGTGTGCGAA-CTT--AAA-TCA
42575835 TGGCACTAAGTGTGC-AAGCTTGAAAAGT-A
1 TGGCACTAAGTGTGCGAA-CTT--AAA-TCA
* *
42575864 TGGCACTAAGTGTGCGAATTTAAATTA
1 TGGCACTAAGTGTGCGAACTTAAATCA
* *
42575891 TCGGCACTATGTGTGCGAGCTTAAATCACA
1 T-GGCACTAAGTGTGCGAACTTAAAT--CA
*
42575921 TGGCACTAAGGGTGCG
1 TGGCACTAAGTGTGCG
42575937 TGATCGATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.01
27 5 0.06
28 21 0.23
29 59 0.66
30 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (27 bp):
TGGCACTAAGTGTGCGAACTTAAATCA
Found at i:42583788 original size:29 final size:29
Alignment explanation
Indices: 42583746--42583847 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
42583736 GTGACAAGAT
42583746 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
42583775 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
42583804 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
42583833 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
42583848 GAATTTAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:42583866 original size:29 final size:29
Alignment explanation
Indices: 42583834--42583906 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
42583824 TGAAAAGTAT
* * *
42583834 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
42583863 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
42583892 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
42583907 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:42583867 original size:58 final size:58
Alignment explanation
Indices: 42583747--42583906 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 58
42583737 TGACAAGATT
*
42583747 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGC-AAGCTTGAAAAGTAT
1 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-CTTGAAAAGTAC
*
42583805 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-TTTAAATTA-TAC
1 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAA--AGTAC
* * *
42583863 GGCACTATGTGTGCGAGCTT-AAATCA-CATGGCACTAAGTGTGCG
1 GGCACTAAGTGTGCAAGCTTGAAA--AGTATGGCACTAAGTGTGCG
42583907 TGATCGATTA
Statistics
Matches: 92, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
57 8 0.09
58 80 0.87
59 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (58 bp):
GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAAAGTAC
Found at i:42588882 original size:34 final size:34
Alignment explanation
Indices: 42588839--42588904 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
42588829 AGTGTTTTGT
* *
42588839 AAATAATGAGTTATTTTATGGCTGAATGTTGTGC
1 AAATAATGAGTTATTTTACGACTGAATGTTGTGC
* *
42588873 AAATGATGAGTTCTTTTACGACTGAATGTTGT
1 AAATAATGAGTTATTTTACGACTGAATGTTGT
42588905 TGTATCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (34 bp):
AAATAATGAGTTATTTTACGACTGAATGTTGTGC
Found at i:42597034 original size:20 final size:20
Alignment explanation
Indices: 42596996--42597034 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42596986 ACAGCCACAG
*
42596996 ATAATATTCTTTCATTCAAC
1 ATAATATTCTTTCAATCAAC
42597016 ATAAT-TTCTTATCAATCAA
1 ATAATATTCTT-TCAATCAA
42597035 GCAAAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATTCTTTCAATCAAC
Found at i:42610615 original size:17 final size:17
Alignment explanation
Indices: 42610593--42610639 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
42610583 ATCACTAGGA
42610593 ACTATGTGATTATGAGC
1 ACTATGTGATTATGAGC
42610610 ACTATGTGATTATGAGC
1 ACTATGTGATTATGAGC
* *
42610627 TC-ATGAGATTATG
1 ACTATGTGATTATG
42610640 TGATGTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (17 bp):
ACTATGTGATTATGAGC
Found at i:42610656 original size:14 final size:14
Alignment explanation
Indices: 42610637--42610671 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
42610627 TCATGAGATT
42610637 ATGTGATGTATGTA
1 ATGTGATGTATGTA
42610651 ATGTGATGTATGTA
1 ATGTGATGTATGTA
42610665 ATGTGAT
1 ATGTGAT
42610672 ACAGGTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
ATGTGATGTATGTA
Found at i:42612821 original size:37 final size:37
Alignment explanation
Indices: 42612654--42612821 Score: 162
Period size: 37 Copynumber: 4.6 Consensus size: 37
42612644 GTACATGGCT
* *
42612654 ATGGCATAATCCAAGGAGGTTCGCCAGA-TTGCCTAC
1 ATGGCATAATCCAAGGAGGTCCGCCAAACTTGCCTAC
* * * * * *
42612690 ATGGCATAATCTAGGGAGGTTCGTCAAACTTTCTTAC
1 ATGGCATAATCCAAGGAGGTCCGCCAAACTTGCCTAC
**
42612727 ATGGCATAAT-CAAGGAAGGTCCGTTAAACTTGCCTAC
1 ATGGCATAATCCAAGG-AGGTCCGCCAAACTTGCCTAC
* * * *
42612764 ATGGCATAAT-CTAGGAAGGTCCACCAAACTTTCATAC
1 ATGGCATAATCCAAGG-AGGTCCGCCAAACTTGCCTAC
*
42612801 ATGGCATGATCCAAGGAGGTC
1 ATGGCATAATCCAAGGAGGTC
42612822 TGCTAGATTT
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
36 27 0.25
37 78 0.72
38 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (37 bp):
ATGGCATAATCCAAGGAGGTCCGCCAAACTTGCCTAC
Found at i:42612846 original size:74 final size:73
Alignment explanation
Indices: 42612654--42612836 Score: 226
Period size: 74 Copynumber: 2.5 Consensus size: 73
42612644 GTACATGGCT
* * * **
42612654 ATGGCATAATCCAAGGAGGT-TCGCCAGATTGCCTACATGGCATAATCTAGGGAGGTTCGTCAAA
1 ATGGCATAATCCAAGGAGGTCT-GCTAGATTGCCTACATGGCATAATCTAGGAAGGTCCACCAAA
*
42612718 CTTTCTTAC
65 CTTTCATAC
* * *
42612727 ATGGCATAAT-CAAGGAAGGTCCGTTAAACTTGCCTACATGGCATAATCTAGGAAGGTCCACCAA
1 ATGGCATAATCCAAGG-AGGTCTGCTAGA-TTGCCTACATGGCATAATCTAGGAAGGTCCACCAA
42612791 ACTTTCATAC
64 ACTTTCATAC
*
42612801 ATGGCATGATCCAAGGAGGTCTGCTAGATTTGCCTA
1 ATGGCATAATCCAAGGAGGTCTGCTAGA-TTGCCTA
42612837 GGTGACATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
72 5 0.05
73 17 0.18
74 65 0.71
75 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (73 bp):
ATGGCATAATCCAAGGAGGTCTGCTAGATTGCCTACATGGCATAATCTAGGAAGGTCCACCAAAC
TTTCATAC
Found at i:42614595 original size:43 final size:43
Alignment explanation
Indices: 42614513--42614598 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
42614503 GCAACCAAAG
*
42614513 AACTAATTAACTTCAACCATCTGAACGATTATCGATTTACTAT
1 AACTAATTAACTTCAACCATCTAAACGATTATCGATTTACTAT
* * * * * *
42614556 AACTGATTAGCTTCGACCATCTAAATGATTGTCGGTTTACTAT
1 AACTAATTAACTTCAACCATCTAAACGATTATCGATTTACTAT
42614599 CAAAATTGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (43 bp):
AACTAATTAACTTCAACCATCTAAACGATTATCGATTTACTAT
Found at i:42615016 original size:34 final size:34
Alignment explanation
Indices: 42614973--42615075 Score: 163
Period size: 34 Copynumber: 3.0 Consensus size: 34
42614963 TAAGTAGTTA
*
42614973 ATTAAGTAAAAAGGAATAAATCGTAAAATA-TGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAA-AGTGTG
*
42615007 ATTAAGTAAAAAGGACTCAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
*
42615041 ATTAAGTAAAAATGACTAAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
42615075 A
1 A
42615076 AAGTTGAGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 1 0.02
34 63 0.98
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.25
Consensus pattern (34 bp):
ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
Found at i:42615249 original size:32 final size:31
Alignment explanation
Indices: 42615186--42615257 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
42615176 TGGATAGGTT
*
42615186 TTAATGTAATTATGATAATTTTTAAAAGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAAGTTAA
*
42615218 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAAGTTAA
*
42615250 TTACGTAA
1 TTAAGTAA
42615258 AAGATGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.23
31 6 0.17
32 21 0.60
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAAGTTAA
Found at i:42616106 original size:40 final size:40
Alignment explanation
Indices: 42616008--42616158 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 40
42615998 AATTATTTTA
* ** * * *
42616008 TGATTGCACATAAGTGCCTTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGCAACCC
* * *
42616048 TAATTGTACATACATGCCCCTGTTTGTACTTTGGCAACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGCAACCC
* * * * *
42616088 TGATTGCACGTACGTGCCCCTATTTGTACTTTAGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGCAACCC
* * * **
42616128 AGATTGCACATATGTACCCCTAATTGTACTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTT
42616159 CGGTGCCTTG
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTTGGCAACCC
Found at i:42616398 original size:43 final size:43
Alignment explanation
Indices: 42616337--42616424 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
42616327 TGGAAGGATC
42616337 ATTCAATCGGCTCACACTATCCATCTAAGTTGGTAGTTTTTGT
1 ATTCAATCGGCTCACACTATCCATCTAAGTTGGTAGTTTTTGT
42616380 ATTCAATCGGCTCACACTATCCATCTAAGTTGGTAGTTTTTGT
1 ATTCAATCGGCTCACACTATCCATCTAAGTTGGTAGTTTTTGT
42616423 AT
1 AT
42616425 CTCCTAGGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (43 bp):
ATTCAATCGGCTCACACTATCCATCTAAGTTGGTAGTTTTTGT
Found at i:42623220 original size:16 final size:16
Alignment explanation
Indices: 42623199--42623229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42623189 ACTAATTTAG
*
42623199 TTGATTGTTAAACTAA
1 TTGATTATTAAACTAA
42623215 TTGATTATTAAACTA
1 TTGATTATTAAACTA
42623230 TGAGCCAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (16 bp):
TTGATTATTAAACTAA
Found at i:42624385 original size:54 final size:54
Alignment explanation
Indices: 42624316--42624426 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
42624306 TGTACTTTCC
*
42624316 ACACGGCCTGCGACACAGCCATGTGACCCT-A-GTCAATGAGTTACACGGGTAGAG
1 ACACGGCCTGCGACAC-GAC-TGTGACCCTCAGGTCAATGAGTTACACGGGTAGAG
* * *** *
42624370 ACACGGGCTGGGACACGACTGTGTGTCTCAGGTCAATGAGTTACATGGGTAGAG
1 ACACGGCCTGCGACACGACTGTGACCCTCAGGTCAATGAGTTACACGGGTAGAG
42624424 ACA
1 ACA
42624427 TGAGTTGGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
52 6 0.12
53 3 0.06
54 39 0.81
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (54 bp):
ACACGGCCTGCGACACGACTGTGACCCTCAGGTCAATGAGTTACACGGGTAGAG
Found at i:42627066 original size:24 final size:22
Alignment explanation
Indices: 42627039--42627092 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
42627029 TAAGGATGTT
42627039 TAAAAATAAAATTTAAGAACTAA
1 TAAAAATAAAATTTAA-AACTAA
* **
42627062 CTAAACATAATGTTTAAAACTAA
1 -TAAAAATAAAATTTAAAACTAA
*
42627085 TAATAATA
1 TAAAAATA
42627093 CAGATGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 13 0.52
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAAATAAAATTTAAAACTAA
Found at i:42633706 original size:3 final size:3
Alignment explanation
Indices: 42633700--42633776 Score: 102
Period size: 3 Copynumber: 25.0 Consensus size: 3
42633690 TCATGATTTG
*
42633700 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
42633748 ATT A-T ATT CCTT ATTT ATT ATAT ATT ATT
1 ATT ATT ATT -ATT A-TT ATT AT-T ATT ATT
42633777 CTAATATTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 56 0.85
4 8 0.12
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:42635727 original size:41 final size:41
Alignment explanation
Indices: 42635667--42635749 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
42635657 AAAAAGTAGA
**
42635667 TAGTAAATGTATCGCTTGGAAAAGCTTACGGGATTTGATCT
1 TAGTAAATGTATCGCTTGGAAAAGCTTACAAGATTTGATCT
*
42635708 TAGTAAATGTATC-CTTTGGAAAAGCTTGCAAGATTTGATCT
1 TAGTAAATGTATCGC-TTGGAAAAGCTTACAAGATTTGATCT
42635749 T
1 T
42635750 GGCACATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (41 bp):
TAGTAAATGTATCGCTTGGAAAAGCTTACAAGATTTGATCT
Found at i:42646392 original size:53 final size:55
Alignment explanation
Indices: 42646323--42646529 Score: 170
Period size: 53 Copynumber: 3.8 Consensus size: 55
42646313 TTCCTTTTTA
* *
42646323 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * *
42646376 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACAT-GGTATCCTTGCCTTATCGT
** * * * * * * **
42646431 AGTTTATCAATGCCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTTGT-AA
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * * * * *
42646485 AACTTACCAATGTCTTGCCTTGGCATGTTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
42646530 AAACCTTAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 43 0.36
54 37 0.31
55 38 0.32
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
Found at i:42646478 original size:55 final size:52
Alignment explanation
Indices: 42646335--42646480 Score: 132
Period size: 55 Copynumber: 2.7 Consensus size: 52
42646325 CTTACCATTT
* * *
42646335 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGAT-TCCTTGCCTTATGAACTCACCAATG
* * * ** * *
42646388 CCATGCCTTGGCATGGTCTTACATAGGA-TCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACAT--GATTCCTTGCCTTAT-G-AACTCACCAATG
*
42646443 CCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTT
1 CCATGTCTTGACATGGTCTTACATGA-TTCCTTGCCTT
42646481 GTAAAACTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
53 34 0.47
54 1 0.01
55 38 0.52
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (52 bp):
CCATGTCTTGACATGGTCTTACATGATTCCTTGCCTTATGAACTCACCAATG
Found at i:42648178 original size:2 final size:2
Alignment explanation
Indices: 42648171--42648217 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
42648161 CTAACCCAAC
42648171 AT AT 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 AT AT
42648213 AT AT A
1 AT AT A
42648218 AGCAAAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42649645 original size:44 final size:44
Alignment explanation
Indices: 42649595--42650229 Score: 421
Period size: 44 Copynumber: 14.0 Consensus size: 44
42649585 TTTCTTGAAC
* *
42649595 TGGAGCAGATTAAAGCTGTAAATCTTATCTCTCGGAAGTTGCAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
* * * *
42649639 TAGAGCAGATTGAAGCTACAAATCTTATCT-TCCTGAAGTTGTAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCT-CTGAAGTTGCAG
* *
42649683 TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
*
42649727 TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGC-AG
* * * * *
42649771 TGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
*
42649815 TGGAGCAGATTAAAGCTGTAAATTACAAATCTTACCT-TCCTGAAGTTGCAG
1 TGGAGCAGATTAAAGCTG-------CAAATCTTATCTCT-CTGAAGTTGCAG
* *
42649866 TGGAGTAGATTGAAA--TG-ATAAGTCCTATAC-CTCTGAAGTTGCAG
1 TGGAGCAGATT-AAAGCTGCA-AA-TCTTAT-CTCTCTGAAGTTGCAG
* * *
42649910 TAGG-TCAGATTAAATCTACCATAGCAAGTCTTATCTC-CTTGAAGTTGCAG
1 T-GGAGCAGATT-AA---AGC-T-GCAAATCTTATCTCTC-TGAAGTTGCAG
* * * *
42649960 TGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTC-CTTGAAATTGCAG
1 TGG---AG-C-AGA-TTA-AAGCTGCAAATCTTATCTCTC-TGAAGTTGCAG
* * * * * * * *
42650011 TGGAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
* * * * * * *
42650055 TGGAACAGATTGAAGTTACAATTCTTATCTCCCTGAAGTTGTAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
* ** * * * *
42650099 TGGAGCGGATTGGAGCTACAAATTTTATCTCCCTGAAGTTGTAG
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
* * *
42650143 TGGAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAG
1 TGGAGCAGATT-AAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
* * * *
42650187 TGGAGCAGATTAAAACTACAAGTCTAATCTC-CTTGAAGTTGCA
1 TGGAGCAGATTAAAGCTGCAAATCTTATCTCTC-TGAAGTTGCA
42650230 ATGGGTTAGA
Statistics
Matches: 476, Mismatches: 75, Indels: 80
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.00
43 7 0.01
44 357 0.75
45 8 0.02
46 2 0.00
47 1 0.00
48 2 0.00
49 4 0.01
50 21 0.04
51 60 0.13
52 5 0.01
53 2 0.00
54 1 0.00
55 3 0.01
56 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TGGAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAG
Found at i:42649687 original size:88 final size:88
Alignment explanation
Indices: 42649595--42650229 Score: 482
Period size: 88 Copynumber: 7.0 Consensus size: 88
42649585 TTTCTTGAAC
* * * *
42649595 TGGAGCAGATTAAAGCTGTAAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTGAAGCTACAA
1 TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
*
42649660 ATCTTATCTTCCTGAAGTTGTAG
66 ATCTTATCTTCCTGAAGTTGCAG
* *
42649683 TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTGCAA
1 TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
42649748 ATCTTATC-TCTCTGAAGTT-CAAG
66 ATCTTATCTTC-CTGAAGTTGC-AG
* ** * *
42649771 TGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAA
1 TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-----
*
42649836 ATTACAAATCTTACCTTCCTGAAGTTGCAG
61 --TACAAATCTTATCTTCCTGAAGTTGCAG
* * * * * *
42649866 TGGAGTAGATTGAAA--TGATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCT
1 TGGAGCAGATT-AAAGCTG-TAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCT
42649927 ACCATAGCAAGTCTTATC-TCCTTGAAGTTGCAG
62 A-C--A--AA-TCTTATCTTCC-TGAAGTTGCAG
** * * * * *
42649960 TGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCTTGAAATTGCAGTGGAGTAGATTGAA
1 TGGAGCAGATTAAAGCT----G-T--AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * * *
42650025 GATACGAGTCTCATCTCCCTGAAGTTGCAG
59 GCTACAAATCTTATCTTCCTGAAGTTGCAG
* * * * **
42650055 TGGAACAGATTGAAG-T-TACAATTCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGGAGCTAC
1 TGGAGCAGATTAAAGCTGTA-AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
42650118 AAATTTTATCTCCCTGAAGTTGTAG
64 AAATCTTATCTTCCTGAAGTTGCAG
* ** ** *
42650143 TGGAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACA
1 TGGAGCAGATT-AAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* *
42650207 AGTCTAATC-TCCTTGAAGTTGCA
65 AATCTTATCTTCC-TGAAGTTGCA
42650230 ATGGGTTAGA
Statistics
Matches: 434, Mismatches: 74, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
86 1 0.00
87 6 0.01
88 248 0.57
89 6 0.01
90 1 0.00
91 1 0.00
93 8 0.02
94 28 0.06
95 90 0.21
96 11 0.03
99 2 0.00
100 4 0.01
101 28 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (88 bp):
TGGAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
ATCTTATCTTCCTGAAGTTGCAG
Found at i:42649731 original size:132 final size:134
Alignment explanation
Indices: 42649595--42650229 Score: 540
Period size: 132 Copynumber: 4.6 Consensus size: 134
42649585 TTTCTTGAAC
* * * *
42649595 TGGAGCAGATTAAAGCTGTAAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTGAAGCTACAA
1 TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
*
42649660 ATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGCTG-T-AAATCTTATCTCCCTGAAGTT
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTT
42649723 GCAG
131 GCAG
42649727 TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAGTGGAGCAGATTGAAGCTACA
1 TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGC-AGTGGAGCAGATTGAAGCTACA
* * * * *
42649791 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAAATTACAAATCTTACCTTCCT
65 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG---A-TA-AAATCTTATCTCCCT
42649856 GAAGTTGCAG
125 GAAGTTGCAG
* * * *
42649866 TGGAGTAGATTGAAA--TG-ATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATC
1 TGGAGTAGATT-AAAGCTGCA-AA-TCTTAT-CTCTCTGAAGTTGCAGT-GGAGCAGATTGAAGC
** * *
42649926 TACCATAGCAAGTCTTATC-TCCTTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAAT
61 TA-C--A--AA-TCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCT----GATA-AAAT
* *
42649990 CTTATCTCCTTGAAATTGCAG
114 CTTATCTCCCTGAAGTTGCAG
* * * * * * * * *
42650011 TGGAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAA
1 TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
* * * * ** * *
42650076 TTCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGGAGCT-A-CAAATTTTATCTCCCTGAAGTT
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTT
*
42650139 GTAG
131 GCAG
* * * * * *
42650143 TGGAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACA
1 TGGAGTAGATT-AAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
42650207 AGTCTAATC-TCCTTGAAGTTGCA
65 AATCTTATCTTCC-TGAAGTTGCA
42650230 ATGGGTTAGA
Statistics
Matches: 403, Mismatches: 67, Indels: 66
0.75 0.12 0.12
Matches are distributed among these distances:
131 3 0.01
132 182 0.45
133 2 0.00
137 2 0.00
138 4 0.01
139 91 0.23
140 11 0.03
142 2 0.00
144 10 0.02
145 93 0.23
146 2 0.00
149 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (134 bp):
TGGAGTAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTT
GCAG
Found at i:42649960 original size:50 final size:49
Alignment explanation
Indices: 42649899--42650019 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 49
42649889 CCTATACCTC
* * * *
42649899 TGAAGTTGCAGTAGG-TCAGATTAAATCTACCA-TAGCAAGTCTTATCTCCT
1 TGAAGTTGCAGT-GGAT-AGACTAAAGCTACAACTA-CAAATCTTATCTCCT
42649949 TGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCT
1 TGAAGTTGCAGTGG-ATAGACTAAAGCTACAA-CTACAAATCTTATCTCCT
*
42650000 TGAAATTGCAGTGGAGTAGA
1 TGAAGTTGCAGTGGA-TAGA
42650020 TTGAAGATAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
49 2 0.03
50 25 0.41
51 32 0.52
52 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (49 bp):
TGAAGTTGCAGTGGATAGACTAAAGCTACAACTACAAATCTTATCTCCT
Found at i:42652065 original size:14 final size:14
Alignment explanation
Indices: 42652046--42652074 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42652036 GATGGCTTCC
42652046 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
42652060 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
42652074 A
1 A
42652075 CTAGTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.34, T:0.48
Consensus pattern (14 bp):
ATGTTTCTTGTGGG
Found at i:42660839 original size:33 final size:33
Alignment explanation
Indices: 42660797--42660863 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
42660787 AATGTGGAAG
42660797 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
1 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
42660830 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
1 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
42660863 T
1 T
42660864 ACTTCCAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.06, C:0.24, G:0.15, T:0.55
Consensus pattern (33 bp):
TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
Found at i:42672101 original size:7 final size:7
Alignment explanation
Indices: 42672086--42672116 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
42672076 ATGATGGAAT
*
42672086 TGTGTGA
1 TGTGAGA
42672093 TGTGAGA
1 TGTGAGA
42672100 TGTGAGA
1 TGTGAGA
42672107 TGTGAGA
1 TGTGAGA
42672114 TGT
1 TGT
42672117 CTAGGAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (7 bp):
TGTGAGA
Found at i:42673431 original size:63 final size:63
Alignment explanation
Indices: 42673234--42673432 Score: 163
Period size: 63 Copynumber: 3.2 Consensus size: 63
42673224 GCTGTGTGGT
* * * * * *
42673234 AGGCCGTGTAACTTACTATTTTCAAATTTGAGG-CACACGGGCTAAGGACACAGGCATGTGTCC
1 AGGCCGTGTAACTCACTGTTTT-GAATTTAAGGTCACACGGGCTAAGGACACGGGCGTGTGTCC
* * * * * ** * *
42673297 AGGCCGAGTAAGTCATTG-TTTGTA-TTATTGGTCACACAAGCTACA-GACACGGGTGTGTGCCC
1 AGGCCGTGTAACTCACTGTTTTGAATTTA-AGGTCACACGGGCTA-AGGACACGGGCGTGTGTCC
* * * *
42673359 AAGCTGTGTAACTCACTGTTTTGGATTTAAGGTCACACGGGCCAAGGACACGGGCGTGTGTCC
1 AGGCCGTGTAACTCACTGTTTTGAATTTAAGGTCACACGGGCTAAGGACACGGGCGTGTGTCC
*
42673422 TGGCCGTGTAA
1 AGGCCGTGTAA
42673433 GGGGTTATAA
Statistics
Matches: 100, Mismatches: 30, Indels: 12
0.70 0.21 0.08
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 39 0.39
63 53 0.53
64 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (63 bp):
AGGCCGTGTAACTCACTGTTTTGAATTTAAGGTCACACGGGCTAAGGACACGGGCGTGTGTCC
Found at i:42680350 original size:132 final size:132
Alignment explanation
Indices: 42680113--42680377 Score: 460
Period size: 132 Copynumber: 2.0 Consensus size: 132
42680103 TTGACTAATT
* *
42680113 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCGTACCAAATAAGATAAATGCTTTCTA
1 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
*
42680178 TCTATATTGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAGA-ATATTAACAGAAACA
66 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAA-ACATATTAACAGAAACA
42680242 AAA
130 AAA
* *
42680245 TTGTACTATCAAATATTGGAATAATTTTTGTTTGATTTCATACCAAATAAGATAAATACTTTCTA
1 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
*
42680310 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAACATATTAACAGAAATAA
66 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAACATATTAACAGAAACAA
42680375 AA
131 AA
42680377 T
1 T
42680378 ATTTGGGCAT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
131 1 0.01
132 125 0.99
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (132 bp):
TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAACATATTAACAGAAACAA
AA
Found at i:42683617 original size:79 final size:81
Alignment explanation
Indices: 42683483--42683665 Score: 248
Period size: 79 Copynumber: 2.3 Consensus size: 81
42683473 TCGAATGATG
* * *
42683483 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGGTTAAATCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGTTAAATCCCGAAGGCATT
42683547 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * *
42683562 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGTTAAATCCCGAAGGCAT
*
42683625 TTGTGTGAGTTACTATA
65 TTGTGCGAGTTACTATA
* *
42683642 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42683666 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 61 0.67
80 30 0.33
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGTTAAATCCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42683635 original size:40 final size:40
Alignment explanation
Indices: 42683483--42683667 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 40
42683473 TCGAATGATG
* * *
42683483 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
42683523 TCTGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42683563 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42683602 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42683643 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42683668 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 36 0.29
40 80 0.64
41 9 0.07
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42683689 original size:79 final size:79
Alignment explanation
Indices: 42683484--42683692 Score: 239
Period size: 79 Copynumber: 2.6 Consensus size: 79
42683474 CGAATGATGT
* *
42683484 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCTGGGTTAAATCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATC-CGGTTAAATCCCGAAGGCATT
*
42683547 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * *
42683564 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGGCATTT
*
42683627 GTGTGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
* **
42683643 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAAT
42683693 TCCAAGGTAC
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
78 2 0.02
79 66 0.61
80 41 0.38
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATCCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:42694336 original size:2 final size:2
Alignment explanation
Indices: 42694329--42694364 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
42694319 CTTACATGCT
*
42694329 TA TA TA TA TA TA TA TA TA TA TA CA 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
42694365 GATAACATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Done.