Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 137 of 310
Found at i:44426109 original size:140 final size:140
Alignment explanation
Indices: 44425857--44426135 Score: 540
Period size: 140 Copynumber: 2.0 Consensus size: 140
44425847 TCACAACTCG
*
44425857 AAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAG
1 AAAATCAGTTTTGTAATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAG
44425922 AATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACT
66 AATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACT
44425987 ACACTGACCA
131 ACACTGACCA
44425997 AAAATCAGTTTTGTAATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAG
1 AAAATCAGTTTTGTAATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAG
*
44426062 AATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACT
66 AATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACT
44426127 ACACTGACC
131 ACACTGACC
44426136 TTTTCCCATT
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (140 bp):
AAAATCAGTTTTGTAATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAG
AATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACT
ACACTGACCA
Found at i:44426369 original size:48 final size:48
Alignment explanation
Indices: 44426298--44426392 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
44426288 AACAGGGAAA
44426298 ATATATAGTATGACCCCTAATTATCTCTGGTCAATTTATAGTGAATTC
1 ATATATAGTATGACCCCTAATTATCTCTGGTCAATTTATAGTGAATTC
*
44426346 ATATATGGTATGACCCCTAATTATCTCTGGTCAATTTATAGTGAATT
1 ATATATAGTATGACCCCTAATTATCTCTGGTCAATTTATAGTGAATT
44426393 TCCAAAGTCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (48 bp):
ATATATAGTATGACCCCTAATTATCTCTGGTCAATTTATAGTGAATTC
Found at i:44427462 original size:40 final size:39
Alignment explanation
Indices: 44427364--44427586 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
44427354 TCCTCGTTCA
* * * * *
44427364 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACTC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44427403 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44427442 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44427482 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44427522 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44427563 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44427587 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44427546 original size:80 final size:79
Alignment explanation
Indices: 44427362--44427586 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
44427352 GCTCCTCGTT
* * * * * *
44427362 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACTCAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44427426 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
44427441 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44427506 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
44427521 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44427585 GA
63 GA
44427587 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.31
80 69 0.57
81 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44427595 original size:41 final size:41
Alignment explanation
Indices: 44427518--44427595 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44427508 TTTGTATCTC
* * *
44427518 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44427559 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44427596 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44428909 original size:40 final size:39
Alignment explanation
Indices: 44428865--44428940 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
44428855 TAGGGGGAAA
*
44428865 TTGACATGCAAGTCCCCCCTTTTTCAACATGCACTAAAAT
1 TTGACATGCAAGT-CCCCCTTTGTCAACATGCACTAAAAT
*
44428905 TTGACATGCAAGTCCCCCTTTGTCCACATGCACTAA
1 TTGACATGCAAGTCCCCCTTTGTCAACATGCACTAA
44428941 TAGGTCCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 21 0.62
40 13 0.38
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.29
Consensus pattern (39 bp):
TTGACATGCAAGTCCCCCTTTGTCAACATGCACTAAAAT
Found at i:44434714 original size:44 final size:42
Alignment explanation
Indices: 44434560--44434722 Score: 122
Period size: 44 Copynumber: 3.8 Consensus size: 42
44434550 ATCTTGTACA
**
44434560 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATC-AA-ATCG
* *
44434603 ATGCC-ACTGTCCCAGA--TAGGATCCT--ACATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACGT-GG-TCTTACACAT-AAATCAAAT-CG
* * **
44434645 ATGCAAACGTCCCAGACATTTTCTTACACATAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCA-AA-TCG
44434689 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-ATAA
44434723 CACATATTAG
Statistics
Matches: 93, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
41 5 0.05
42 22 0.24
43 28 0.30
44 33 0.35
45 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCAAATCG
Found at i:44435377 original size:29 final size:29
Alignment explanation
Indices: 44435344--44435402 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44435334 TCAAACTTCC
44435344 CAAAGCTCACATTATCAATAATGGCATAA
1 CAAAGCTCACATTATCAATAATGGCATAA
44435373 CAAAGCTCACATTATCAATAATGGCATAA
1 CAAAGCTCACATTATCAATAATGGCATAA
44435402 C
1 C
44435403 TCAAAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (29 bp):
CAAAGCTCACATTATCAATAATGGCATAA
Found at i:44436781 original size:13 final size:13
Alignment explanation
Indices: 44436763--44436797 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44436753 ATGTTATAAT
44436763 AAAACATAATATA
1 AAAACATAATATA
44436776 AAAACATAATATA
1 AAAACATAATATA
*
44436789 AAAATATAA
1 AAAACATAA
44436798 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAACATAATATA
Found at i:44437737 original size:41 final size:42
Alignment explanation
Indices: 44437617--44437787 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 42
44437607 CATAGGGTTT
* * ** *
44437617 TCGATATGT-ATTCTCATGTAAGACCACGTTTGGGATGTTCGCA
1 TCGATATGTGA-T-TCATGTAAGACCATGTCTGGGACATTGGCA
* *
44437660 TCGATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATT-CATGTAAGACCATGTCTGGGACATTGGCA
* * * *
44437703 TCG-TATTTGATTCATGTAAGACCCTATCTGGGACAGTGGCA
1 TCGATATGTGATTCATGTAAGACCATGTCTGGGACATTGGCA
* * *
44437744 TTGTTATGTGATAGCATGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGAT-TCATGTAAGACCATGTCTGGGACATTGGCA
44437787 T
1 T
44437788 TGTACGATAT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 26 0.25
42 16 0.15
43 62 0.59
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCATGTAAGACCATGTCTGGGACATTGGCA
Found at i:44442652 original size:113 final size:113
Alignment explanation
Indices: 44442454--44442677 Score: 439
Period size: 113 Copynumber: 2.0 Consensus size: 113
44442444 AAAAGTGCCA
*
44442454 GAAAAGTTTCGATCAGTTGAAAGCCCTTTTGACCGAAGCTCTAGTACTAGTTCAACTAGAATCGG
1 GAAAAGTTTCGATCAGTTGAAAGCCCTTTTGACCGAAGCTCCAGTACTAGTTCAACTAGAATCGG
44442519 GTAAATAATTTGTTATTTATGGTGATGCATCTTTAAATGGTTTGTGAT
66 GTAAATAATTTGTTATTTATGGTGATGCATCTTTAAATGGTTTGTGAT
44442567 GAAAAGTTTCGATCAGTTGAAAGCCCTTTTGACCGAAGCTCCAGTACTAGTTCAACTAGAATCGG
1 GAAAAGTTTCGATCAGTTGAAAGCCCTTTTGACCGAAGCTCCAGTACTAGTTCAACTAGAATCGG
44442632 GTAAATAATTTGTTATTTATGGTGATGCATCTTTAAATGGTTTGTG
66 GTAAATAATTTGTTATTTATGGTGATGCATCTTTAAATGGTTTGTG
44442678 CTATGTTTTG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (113 bp):
GAAAAGTTTCGATCAGTTGAAAGCCCTTTTGACCGAAGCTCCAGTACTAGTTCAACTAGAATCGG
GTAAATAATTTGTTATTTATGGTGATGCATCTTTAAATGGTTTGTGAT
Found at i:44445563 original size:22 final size:22
Alignment explanation
Indices: 44445521--44445564 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44445511 AATTATTTAC
* *
44445521 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
44445543 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
44445565 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:44445814 original size:95 final size:95
Alignment explanation
Indices: 44445651--44445839 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
44445641 GGCCGGAAGT
44445651 TGCTAATCAATAGAGCGAATACTATCTAAAAAGGAATTAAATTTTTCGATGCATATACGAAACAT
1 TGCTAATCAATAGAGCGAATACTATCTAAAAAGGAATTAAATTTTTCGATGCATATACGAAACAT
44445716 ACCTTATCGTTTGGATTTTATGAGCGTATC
66 ACCTTATCGTTTGGATTTTATGAGCGTATC
*
44445746 TGCTAATCAATAGAGCGAATACTATCTAAAAAGGAATTAACTTTTTCGATGCATATACGAAACAT
1 TGCTAATCAATAGAGCGAATACTATCTAAAAAGGAATTAAATTTTTCGATGCATATACGAAACAT
*
44445811 ACCTTATCGTTTGGATTTTATGAGTGTAT
66 ACCTTATCGTTTGGATTTTATGAGCGTAT
44445840 TAATTGAAAT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (95 bp):
TGCTAATCAATAGAGCGAATACTATCTAAAAAGGAATTAAATTTTTCGATGCATATACGAAACAT
ACCTTATCGTTTGGATTTTATGAGCGTATC
Found at i:44445960 original size:40 final size:40
Alignment explanation
Indices: 44445902--44446107 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
44445892 GGATTTAGCT
* **
44445902 GGATATAG-CAACTCGCACAAATGCCTTCGGGTTTTAGCCC
1 GGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCC
* *
44445942 GGATATATTCAATAGCACAAAAGCCTTCGGGACTTAGCCC
1 GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
*
44445982 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
44446022 GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
* *
44446062 GGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCC
1 GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
44446102 GGATAT
1 GGATAT
44446108 CATTCGAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 151 0.98
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
GGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCC
Found at i:44451042 original size:27 final size:27
Alignment explanation
Indices: 44451025--44451229 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
44451015 ATATCGAGTC
* *
44451025 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAAAT
*
44451052 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
44451079 CGCACACTTAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
* *
44451106 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATAATCAAA-T
*** ** *
44451134 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAAAT
* **
44451161 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAAAT
* * *
44451188 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
44451215 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44451230 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 131 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAAAT
Found at i:44455761 original size:47 final size:47
Alignment explanation
Indices: 44455692--44455960 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 47
44455682 TATAATGCTA
* * *
44455692 ATGCCATGTCGCAGACTTGGTCTTACACTGGCTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
* * ** *
44455739 ATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATGTCCGTGCCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TAT-CAAGCCG
* * * * * ** **
44455789 ACGCCAAGTCCCAGACATGGTCTTACACTGACACAT-TTTGTAGCTT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
* * *
44455835 ATG-CATGTCCC-GAACAT-GTCTTACACTGGCTTA-CATGTCGAGGCCG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCATC-TATC-AAGCCG
* * *
44455881 ATG-CATGTCCCAGTCAT-GTCTTACACTAGCTC-TCATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATCAA-GCCG
* *
44455927 ATGACATGTCCCAGACATGTTCTTACACTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
44455961 TCGTAATGTG
Statistics
Matches: 173, Mismatches: 35, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 14 0.08
45 14 0.08
46 47 0.27
47 47 0.27
48 14 0.08
49 2 0.01
50 34 0.20
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
Found at i:44456711 original size:13 final size:13
Alignment explanation
Indices: 44456693--44456717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44456683 CTAAAAATGC
44456693 AAAAATCATCAAG
1 AAAAATCATCAAG
44456706 AAAAATCATCAA
1 AAAAATCATCAA
44456718 AATCACTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:44458252 original size:13 final size:13
Alignment explanation
Indices: 44458236--44458269 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
44458226 ATGAGACACG
*
44458236 GCCGTGTGTTTCA
1 GCCGTGTGTCTCA
44458249 GCCGTGTGTCTCA
1 GCCGTGTGTCTCA
44458262 GCCGTGTG
1 GCCGTGTG
44458270 AAGGACACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.26, G:0.35, T:0.32
Consensus pattern (13 bp):
GCCGTGTGTCTCA
Found at i:44459881 original size:106 final size:106
Alignment explanation
Indices: 44459696--44459908 Score: 417
Period size: 106 Copynumber: 2.0 Consensus size: 106
44459686 TTGTTTTTAC
*
44459696 TCCATAAAACTGTAAAGGTCTCACCTTTTTCATCTCACAGTTTCTATTTGCTCTCCAATGGCTCA
1 TCCATAAAACTGTAAAGGTCTCACCTTTTTCATCTCACAGTTGCTATTTGCTCTCCAATGGCTCA
44459761 CCAAACACCATCTTTTTCCACCACTGTAACTCTATGAACAT
66 CCAAACACCATCTTTTTCCACCACTGTAACTCTATGAACAT
44459802 TCCATAAAACTGTAAAGGTCTCACCTTTTTCATCTCACAGTTGCTATTTGCTCTCCAATGGCTCA
1 TCCATAAAACTGTAAAGGTCTCACCTTTTTCATCTCACAGTTGCTATTTGCTCTCCAATGGCTCA
44459867 CCAAACACCATCTTTTTCCACCACTGTAACTCTATGAACAT
66 CCAAACACCATCTTTTTCCACCACTGTAACTCTATGAACAT
44459908 T
1 T
44459909 TTTTAGCAGA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (106 bp):
TCCATAAAACTGTAAAGGTCTCACCTTTTTCATCTCACAGTTGCTATTTGCTCTCCAATGGCTCA
CCAAACACCATCTTTTTCCACCACTGTAACTCTATGAACAT
Found at i:44464836 original size:96 final size:96
Alignment explanation
Indices: 44464672--44464863 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
44464662 ACTAGAAGGT
*
44464672 ACTTGATGCTCGGCTTTAAATTACTGACAACCAAACATATTGACACGTATTCTGTAACGCCCTAA
1 ACTTGATGCTCGGCTTTAAATTACTGACAACCAAACATATCGACACGTATTCTGTAACGCCCTAA
44464737 ATTTTGAGCCTAGATGAAATGGGCTTTAGGC
66 ATTTTGAGCCTAGATGAAATGGGCTTTAGGC
44464768 ACTTGATGCTCGGCTTTAAATTACTGACAACCAAACATATCGACACGTATTCTGTAACGCCCTAA
1 ACTTGATGCTCGGCTTTAAATTACTGACAACCAAACATATCGACACGTATTCTGTAACGCCCTAA
44464833 ATTTTGAGCCTAGATGAAATGGGCTTTAGGC
66 ATTTTGAGCCTAGATGAAATGGGCTTTAGGC
44464864 CTCATAAAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (96 bp):
ACTTGATGCTCGGCTTTAAATTACTGACAACCAAACATATCGACACGTATTCTGTAACGCCCTAA
ATTTTGAGCCTAGATGAAATGGGCTTTAGGC
Found at i:44466119 original size:16 final size:16
Alignment explanation
Indices: 44466100--44466134 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44466090 GGTAAAAGCT
44466100 GAAATGCCGAAAAGTC
1 GAAATGCCGAAAAGTC
* *
44466116 GAAATTCTGAAAAGTC
1 GAAATGCCGAAAAGTC
44466132 GAA
1 GAA
44466135 GGTTTGGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (16 bp):
GAAATGCCGAAAAGTC
Found at i:44466428 original size:29 final size:29
Alignment explanation
Indices: 44466368--44466478 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
44466358 TTTGGGCCGG
* * * * *
44466368 ATGGGCCATATAAATG-AGATTGGGCCTA
1 ATGGGCCATATGAACGTAAATTGGGCTTT
*
44466396 ATGGGCCATATGAATGTAAATTGGGCTTT
1 ATGGGCCATATGAACGTAAATTGGGCTTT
*
44466425 ATGGGCCATATGAACGTGAATTGGGCTTT
1 ATGGGCCATATGAACGTAAATTGGGCTTT
*
44466454 ATGGGCCATATGAACGTGAATTGGG
1 ATGGGCCATATGAACGTAAATTGGG
44466479 TCAGATGGGC
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 15 0.20
29 61 0.80
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAACGTAAATTGGGCTTT
Found at i:44466476 original size:58 final size:57
Alignment explanation
Indices: 44466368--44466522 Score: 181
Period size: 58 Copynumber: 2.7 Consensus size: 57
44466358 TTTGGGCCGG
*
44466368 ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAATGTAAATTGGGCTTT
1 ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTAAATTGGGCTTT
* * * * **
44466425 ATGGGCCATATGAACGTGA-ATTGGGCTTTATGGGCCATATGAACGTGAATTGGG-TCAG
1 ATGGGCCATAT-AA-ATGAGATTGGGCCTAATGGGCCATATGAACGTAAATTGGGCT-TT
*
44466483 ATGGGCCATCTAAATGAGATTGGGCCTAGA-GGGCCATATG
1 ATGGGCCATATAAATGAGATTGGGCCTA-ATGGGCCATATG
44466523 CATGTATGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
56 3 0.04
57 32 0.39
58 44 0.54
59 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (57 bp):
ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTAAATTGGGCTTT
Found at i:44466486 original size:29 final size:29
Alignment explanation
Indices: 44466367--44466522 Score: 137
Period size: 29 Copynumber: 5.4 Consensus size: 29
44466357 ATTTGGGCCG
*
44466367 GATGGGCCATAT-AA-ATGAGATTGGGCCTA
1 GATGGGCCATATGAACGTGA-ATTGGG-CTA
* * *
44466396 -ATGGGCCATATGAATGTAAATTGGGCTT
1 GATGGGCCATATGAACGTGAATTGGGCTA
* *
44466424 TATGGGCCATATGAACGTGAATTGGGCTT
1 GATGGGCCATATGAACGTGAATTGGGCTA
*
44466453 TATGGGCCATATGAACGTGAATTGGG-TCA
1 GATGGGCCATATGAACGTGAATTGGGCT-A
* *
44466482 GATGGGCCATCT-AA-ATGAGATTGGGCCTA
1 GATGGGCCATATGAACGTGA-ATTGGG-CTA
44466511 GA-GGGCCATATG
1 GATGGGCCATATG
44466523 CATGTATGTG
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.03
28 30 0.28
29 73 0.67
30 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
GATGGGCCATATGAACGTGAATTGGGCTA
Found at i:44478531 original size:135 final size:135
Alignment explanation
Indices: 44478289--44478557 Score: 529
Period size: 135 Copynumber: 2.0 Consensus size: 135
44478279 AAACTTAAAA
44478289 ATTTTTCAAAGTTATACAAGTCACACGCCCATTTGAATAGGCTGTGTGCCTCACAAGGCTTTAGA
1 ATTTTTCAAAGTTATACAAGTCACACGCCCATTTGAATAGGCTGTGTGCCTCACAAGGCTTTAGA
*
44478354 CACGCCCGTGTGTCTAGGCCGTGTCAAAATAGGTCATTTGAAAAGCCAATTTGCCACCCAATTTG
66 CACGCCCGTGTGTCCAGGCCGTGTCAAAATAGGTCATTTGAAAAGCCAATTTGCCACCCAATTTG
44478419 GGTCC
131 GGTCC
44478424 ATTTTTCAAAGTTATACAAGTCACACGCCCATTTGAATAGGCTGTGTGCCTCACAAGGCTTTAGA
1 ATTTTTCAAAGTTATACAAGTCACACGCCCATTTGAATAGGCTGTGTGCCTCACAAGGCTTTAGA
44478489 CACGCCCGTGTGTCCAGGCCGTGTCAAAATAGGTCATTTGAAAAGCCAATTTGCCACCCAATTTG
66 CACGCCCGTGTGTCCAGGCCGTGTCAAAATAGGTCATTTGAAAAGCCAATTTGCCACCCAATTTG
44478554 GGTC
131 GGTC
44478558 AAACCTACAA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 133 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (135 bp):
ATTTTTCAAAGTTATACAAGTCACACGCCCATTTGAATAGGCTGTGTGCCTCACAAGGCTTTAGA
CACGCCCGTGTGTCCAGGCCGTGTCAAAATAGGTCATTTGAAAAGCCAATTTGCCACCCAATTTG
GGTCC
Found at i:44479549 original size:42 final size:43
Alignment explanation
Indices: 44479439--44479550 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
44479429 TCTCGTACAT
* *
44479439 TGCCAATGTCCTAGACGTGGTCTTACATGTAATCATATATCGA
1 TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
* *
44479482 TGCCATTGTCCTAGATAG-GGTCTTACATGAAATCAAATAT-GA
1 TGCCAATGTCCTAGA-CGTGGTCTTACATGAAATCAAATATCGA
* *
44479524 TGCCAATGTCCCAGACGTGGCCTTACA
1 TGCCAATGTCCTAGACGTGGTCTTACA
44479551 CGATAACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.39
43 34 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
Found at i:44482848 original size:39 final size:40
Alignment explanation
Indices: 44482644--44482866 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
44482634 TTGAATGCTG
* * * * * *
44482644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
44482684 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
44482724 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
44482764 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
44482804 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
44482843 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44482867 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:44482886 original size:79 final size:80
Alignment explanation
Indices: 44482719--44482901 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
44482709 GTGCGAGATA
* * *
44482719 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44482784 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
44482799 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
44482863 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
44482878 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44482902 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:44483853 original size:56 final size:56
Alignment explanation
Indices: 44483786--44483897 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
44483776 CCCTGTTCCG
*
44483786 CCTTTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGGTCATACCATATATT
1 CCTTTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGATCATACCATATATT
44483842 CCTTTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGATCATACCATATATT
1 CCTTTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGATCATACCATATATT
44483898 TATGGATTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (56 bp):
CCTTTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGATCATACCATATATT
Found at i:44484903 original size:93 final size:93
Alignment explanation
Indices: 44484744--44484914 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
44484734 GGAAGGTTGA
* * * *
44484744 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTGTGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
44484809 TGAGT-TCGAGTTCGTGAGATGTAACTAG
66 TGAGTCT-GAGTTCGTGAGATGTAACTAG
* * * *
44484837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
44484902 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
44484915 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:44484907 original size:46 final size:46
Alignment explanation
Indices: 44484748--44484919 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
44484738 GGTTGAGCAT
* * * * * *
44484748 CCGAACTCATTGAGTTGAGTCCGAGTTCACCTGTGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * *
44484794 CTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
44484839 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
44484887 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44484920 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 1 0.01
46 56 0.55
47 26 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:44500688 original size:14 final size:15
Alignment explanation
Indices: 44500661--44500689 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44500651 GAACTTTTAA
44500661 GTGGTTGAGTTGTGG
1 GTGGTTGAGTTGTGG
44500676 GTGGTTG-GTTGTGG
1 GTGGTTGAGTTGTGG
44500690 CTGAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.03, C:0.00, G:0.55, T:0.41
Consensus pattern (15 bp):
GTGGTTGAGTTGTGG
Found at i:44502226 original size:18 final size:18
Alignment explanation
Indices: 44502203--44502242 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
44502193 CATTATTTAT
44502203 TGCACTGTTTACTATTAC
1 TGCACTGTTTACTATTAC
* *
44502221 TGCACTGTTTAGTGTTAC
1 TGCACTGTTTACTATTAC
44502239 TGCA
1 TGCA
44502243 ATGGCCAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (18 bp):
TGCACTGTTTACTATTAC
Found at i:44505614 original size:13 final size:13
Alignment explanation
Indices: 44505596--44505623 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44505586 ACTGTTTGGC
44505596 AAACTCTTATGTT
1 AAACTCTTATGTT
44505609 AAACTCTTATGTT
1 AAACTCTTATGTT
44505622 AA
1 AA
44505624 GTGAACACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
AAACTCTTATGTT
Found at i:44506918 original size:16 final size:16
Alignment explanation
Indices: 44506897--44506928 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44506887 ATACCAAATA
44506897 CATAAAGCTTAGTAAG
1 CATAAAGCTTAGTAAG
44506913 CATAAAGCTTAGTAAG
1 CATAAAGCTTAGTAAG
44506929 TTTCATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
CATAAAGCTTAGTAAG
Found at i:44507264 original size:47 final size:48
Alignment explanation
Indices: 44507195--44507414 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 48
44507185 TAAGGTACCA
* * ** *
44507195 ATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTC-ATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
* * * *
44507242 ATGCCATGTCCTAGACATGGTCTTACACT-GAC-TATCCTATC-ATAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-CGTCTCGAT-GCCG
* * *
44507290 ATG-CATGTCCCAGAAAT-GTCTTACACTTGCTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
44507336 ATG-CATGTCCCAGACAT-GTCTTACACTAGAAC-T-CGTCTCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG--CTTACGTCTCGATGCCG
*
44507382 ATGCCATGTCCCAAACATGGTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
44507415 CTCATAATGT
Statistics
Matches: 144, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
46 64 0.44
47 62 0.43
48 18 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
Found at i:44507390 original size:93 final size:93
Alignment explanation
Indices: 44507195--44507414 Score: 236
Period size: 93 Copynumber: 2.3 Consensus size: 93
44507185 TAAGGTACCA
* * * * *
44507195 ATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTCATGTCGATGCCATGTCCTAGACAT
1 ATGCCATGTCCCAAACA-TGTCTTACACTAGCTTACATCTCAGGCCGATGCCATGTCCCAGACAT
*
44507260 GGTCTTACACTGACTATCCTATCATAGCTG
65 GGTCTTACACTGAC-ATCCTATCATAGCCG
* *
44507290 ATG-CATGTCCCAGAA-ATGTCTTACACTTGCTTACGTCTCGAGGCCGATG-CATGTCCCAGACA
1 ATGCCATGTCCCA-AACATGTCTTACACTAGCTTACATCTC-AGGCCGATGCCATGTCCCAGACA
* *
44507352 T-GTCTTACACTAGA-ACTCGTCTCGAT-GCCG
64 TGGTCTTACACT-GACA-TCCTATC-ATAGCCG
44507382 ATGCCATGTCCCAAACATGGTCTTACACTAGCT
1 ATGCCATGTCCCAAACAT-GTCTTACACTAGCT
44507415 CTCATAATGT
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
91 1 0.01
92 23 0.22
93 47 0.44
94 30 0.28
95 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
ATGCCATGTCCCAAACATGTCTTACACTAGCTTACATCTCAGGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACATCCTATCATAGCCG
Found at i:44507437 original size:47 final size:46
Alignment explanation
Indices: 44507199--44507438 Score: 154
Period size: 47 Copynumber: 5.1 Consensus size: 46
44507189 GTACCAATGC
* * * *
44507199 CATGTCCCAAACACGGTCTTACACTAGCTTATATCTCAT-GTCGATG
1 CATGTCCCAAACATGGTCTTACACTAGCTT-CATCTCGTGGCCGATG
* * * * * * *
44507245 CCATGTCCTAGACATGGTCTTACACT-GACTATCCTATCATAGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTAG-CT-TCATCTCGTGGCCGATG
* * *
44507293 CATGTCCCAGAA-AT-GTCTTACACTTGCTTACGTCTCGAGGCCGATG
1 CATGTCCCA-AACATGGTCTTACACTAGCTT-CATCTCGTGGCCGATG
* *
44507339 CATGTCCCAGACAT-GTCTTACACTAGAAC-TCGTCTCGAT-GCCGATG
1 CATGTCCCAAACATGGTCTTACACTAG--CTTCATCTCG-TGGCCGATG
* *
44507385 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATAAT-GTGGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTAGCT-TCAT-CTCGTGGCCGATG
44507433 CATGTC
1 CATGTC
44507439 ATAGACATGT
Statistics
Matches: 154, Mismatches: 23, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.01
46 60 0.39
47 61 0.40
48 30 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAAACATGGTCTTACACTAGCTTCATCTCGTGGCCGATG
Found at i:44514953 original size:57 final size:57
Alignment explanation
Indices: 44514859--44514999 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 57
44514849 TATCATATAA
* * * *
44514859 TAGGAGTACCAGTTCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGTGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
* * * *
44514916 TAGGATTACTAGTCCAGGCTAAATCCTTTCTCTAACATATGCTCAGAAGAGCTCAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
* * *
44514973 TAGAATTGCCAGTCCAAGCTAAATCCT
1 TAGGATTACCAGTCCAGGCTAAATCCT
44515000 ATCTATAATG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (57 bp):
TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
Found at i:44517927 original size:40 final size:39
Alignment explanation
Indices: 44517829--44518091 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
44517819 TCCTCGTTCA
* * * *
44517829 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44517868 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44517907 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44517947 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44517987 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44518027 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44518068 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44518092 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44518051 original size:120 final size:119
Alignment explanation
Indices: 44517829--44518091 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
44517819 TCCTCGTTCA
* * *
44517829 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
44517894 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
44517947 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
44518012 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
44518068 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44518092 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:44518100 original size:41 final size:41
Alignment explanation
Indices: 44518023--44518100 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44518013 TTTGTATCTC
* * *
44518023 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44518064 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44518101 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44521560 original size:76 final size:76
Alignment explanation
Indices: 44521467--44521617 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
44521457 CCCAAGTAGG
*
44521467 GATGCGTCACTATAAATGACAAACTCTTTACCCGATTCGGGTTGCACTAAAATTGGAGCTTCAGT
1 GATGCGTCACTATAAATGACAAACTCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGT
*
44521532 CAAGTGAGTTT
66 CAAATGAGTTT
* *
44521543 GATGCGTCACTGTAAATGACAAACTCTTTACCCGATTTGGGTTGCACCAAAATTGGAGCTTCAGT
1 GATGCGTCACTATAAATGACAAACTCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGT
44521608 CAAATGAGTT
66 CAAATGAGTT
44521618 ATCAGTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (76 bp):
GATGCGTCACTATAAATGACAAACTCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGT
CAAATGAGTTT
Found at i:44524149 original size:55 final size:55
Alignment explanation
Indices: 44524078--44524186 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
44524068 TAAATTCAGT
44524078 AGCCCCATGTTTTTGGATTCTGTCAACTGGGGGCTTATTTGACCTTAATTGGTCA
1 AGCCCCATGTTTTTGGATTCTGTCAACTGGGGGCTTATTTGACCTTAATTGGTCA
*
44524133 AGCCCCATGTTTTTGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTC
1 AGCCCCATGTTTTTGGATTCTGTCAACTGGGGGCTTATTTGACCTTAATTGGTC
44524187 CGTTACCGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (55 bp):
AGCCCCATGTTTTTGGATTCTGTCAACTGGGGGCTTATTTGACCTTAATTGGTCA
Found at i:44524895 original size:40 final size:41
Alignment explanation
Indices: 44524840--44524919 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 41
44524830 TTTTTCTAGA
44524840 ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGT-AAAAG
1 ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAAG
44524880 ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAA
1 ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAA
44524920 TCTCCCATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (41 bp):
ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAAG
Found at i:44525572 original size:34 final size:34
Alignment explanation
Indices: 44525529--44525598 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
44525519 GCATGGCTGT
44525529 ACACTTATACATTTCATAAAGTACTCGAAAGACA
1 ACACTTATACATTTCATAAAGTACTCGAAAGACA
*
44525563 ACACTTATACATTTCATTAAGTACTCGAAAGACA
1 ACACTTATACATTTCATAAAGTACTCGAAAGACA
44525597 AC
1 AC
44525599 GATGGGTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (34 bp):
ACACTTATACATTTCATAAAGTACTCGAAAGACA
Found at i:44526340 original size:60 final size:56
Alignment explanation
Indices: 44526265--44526381 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 56
44526255 ACCTATTTTC
*
44526265 TTCCGATTTGGCTTTTGTATTTATTTATTTTTGATGCCTTTGAATCACTGCTTTTGCTTT
1 TTCCGATTTGGCTTTTGTATTTATCTA--TTTGATGCCTTTGAATCACTG-TTTT-CTTT
* * *
44526325 TTCCGATCTT-GCTTTTGTATTTCTCTATTTGATGCTTTTGAATTACTGTTTTCTTT
1 TTCCGAT-TTGGCTTTTGTATTTATCTATTTGATGCCTTTGAATCACTGTTTTCTTT
44526381 T
1 T
44526382 AATCTAATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
56 5 0.10
57 4 0.08
58 19 0.37
60 22 0.42
61 2 0.04
ACGTcount: A:0.13, C:0.15, G:0.14, T:0.58
Consensus pattern (56 bp):
TTCCGATTTGGCTTTTGTATTTATCTATTTGATGCCTTTGAATCACTGTTTTCTTT
Found at i:44528023 original size:46 final size:46
Alignment explanation
Indices: 44527970--44528145 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
44527960 TATTTGGGCA
44527970 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** * *
44528016 TCCGAACTCGTTGAGTTGAGTTCGAGTT-GGTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * **
44528061 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44528109 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44528146 GCGGTTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.59
47 25 0.24
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44528125 original size:93 final size:93
Alignment explanation
Indices: 44527966--44528136 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44527956 GGGATATTTG
* *** *
44527966 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
44528031 TTGAGTTCGAGTTGGTGAGATGTAACTA
66 TTGAGTCCGAGTTGGTGAGATGTAACTA
* *
44528059 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
44528124 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
44528137 CACTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTGGTGAGATGTAACTA
Found at i:44529682 original size:33 final size:32
Alignment explanation
Indices: 44529644--44529710 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
44529634 TGGCTTTATT
* *
44529644 CATCTTTCTAGTTCTTTCAGTTTCCGCTCTTC
1 CATCTTTCTAGTTCATTCAGTATCCGCTCTTC
44529676 NCATCTTTCTAGTTCATTCAGTATCCGCTCTTC
1 -CATCTTTCTAGTTCATTCAGTATCCGCTCTTC
44529709 CA
1 CA
44529711 CTTGTTCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.13, C:0.31, G:0.09, T:0.45
Consensus pattern (32 bp):
CATCTTTCTAGTTCATTCAGTATCCGCTCTTC
Found at i:44532728 original size:29 final size:30
Alignment explanation
Indices: 44532677--44532737 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
44532667 ACTTATTTTA
44532677 TTGTTAATTTTGTTATTATTTTAAAGGAAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
* *
44532707 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
44532736 TT
1 TT
44532738 ACTTATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGAAT
Found at i:44536519 original size:46 final size:46
Alignment explanation
Indices: 44536439--44536527 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
44536429 TTTTATAACA
* *
44536439 TATACTAATTTGATATCTGAATTAAATGCACTTAATAATATTATTT
1 TATACTAATTTGATATCCGAATTAAATGCACTTAAGAATATTATTT
*
44536485 TATACTAATTTGATATCCGAATTAAATTG-GCTTAAGAATATTA
1 TATACTAATTTGATATCCGAATTAAA-TGCACTTAAGAATATTA
44536528 GTTTCAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (46 bp):
TATACTAATTTGATATCCGAATTAAATGCACTTAAGAATATTATTT
Found at i:44539726 original size:48 final size:48
Alignment explanation
Indices: 44539674--44539815 Score: 178
Period size: 48 Copynumber: 3.0 Consensus size: 48
44539664 GCCTCCTGTG
** *
44539674 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTACGCCATCAATC
1 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
* * *
44539722 CATGAACCTCCAAAGAAGCCTCCAATGTATAAACCTAAACCACCACTC
1 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
* * * *
44539770 CATGAACTTCCAAAGAAGCCACCGA-TTCATGAACCTAAACCACCAA
1 CATGAACTTCCAAAGAAGCCTCCAACGT-ATAAACCTAAACCACCAA
44539816 AGCCACCAGT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 80 0.99
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (48 bp):
CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
Found at i:44539931 original size:177 final size:177
Alignment explanation
Indices: 44539724--44540071 Score: 552
Period size: 177 Copynumber: 2.0 Consensus size: 177
44539714 CATCAATCCA
* *
44539724 TGAACCTCCAAAGAAGCCTCCAATGTATAAACCTAAACCACCACTCCATGAACTTCCAAAGAAGC
1 TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
* * *
44539789 CACCGATTCATGAACCTAAACCACCAAAGCCACCAGTTCACGAACCTCCAAAGAAAGAGAAACCA
66 CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
* * *
44539854 GAACACAAGCCACCAATATATGAACCTCCGAAGAAACCACCAGTCCG
131 GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACCAGTCCG
* * * *
44539901 TGAACCTTCAAAGAAGCCTCCAGCGTATAAACCTAAACCACCAGTTCATGAACCTCCAAAGAAGC
1 TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
*
44539966 CACCGATGCATGAATCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
66 CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
* * *
44540031 GAACCCAAGCCACCAGTTTATGAACATCCAAAAAAACCACC
131 GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACC
44540072 TTCTGGTCAC
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 155 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.13
Consensus pattern (177 bp):
TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACCAGTCCG
Found at i:44539985 original size:48 final size:47
Alignment explanation
Indices: 44539887--44539991 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
44539877 ACCTCCGAAG
* * *
44539887 AAACCACCAGTCCGTGAACCTTCAAAGAAGCCTCCAGCGTATAAACCT
1 AAACCACCAGTCCATGAACCTCCAAAGAAGCCACCAGCG-ATAAACCT
* * *
44539935 AAACCACCAGTTCATGAACCTCCAAAGAAGCCACCGATGC-ATGAATCT
1 AAACCACCAGTCCATGAACCTCCAAAGAAGCCACC-A-GCGATAAACCT
44539983 AAACCACCA
1 AAACCACCA
44539992 AAGCCACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 46 0.94
49 1 0.02
50 2 0.04
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.15
Consensus pattern (47 bp):
AAACCACCAGTCCATGAACCTCCAAAGAAGCCACCAGCGATAAACCT
Found at i:44540662 original size:16 final size:16
Alignment explanation
Indices: 44540638--44540668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44540628 CAAAACCAAA
44540638 CTAAACCCAATTAACC
1 CTAAACCCAATTAACC
*
44540654 CTAAGCCCAATTAAC
1 CTAAACCCAATTAAC
44540669 AGGCCCAGAC
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:0.42, C:0.35, G:0.03, T:0.19
Consensus pattern (16 bp):
CTAAACCCAATTAACC
Found at i:44541156 original size:33 final size:35
Alignment explanation
Indices: 44541097--44541161 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
44541087 GAGTATTACG
*
44541097 ATTTTATTTTTTAAAAAGTTATTTATA-ATTTATA
1 ATTTTATTTTTGAAAAAGTTATTTATAGATTTATA
*
44541131 ATTTT-TTTTTGAAAAATTTCA-TTATAGATTT
1 ATTTTATTTTTGAAAAAGTT-ATTTATAGATTT
44541162 TGATAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (35 bp):
ATTTTATTTTTGAAAAAGTTATTTATAGATTTATA
Found at i:44542444 original size:21 final size:21
Alignment explanation
Indices: 44542400--44542445 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
44542390 TATATAAGAA
* *
44542400 ATTTTAGTTTAACTTTTTTAG
1 ATTTTAGTTTAAATTTTTCAG
* *
44542421 ATTTTATTTTAAATTTTTCGG
1 ATTTTAGTTTAAATTTTTCAG
44542442 ATTT
1 ATTT
44542446 ATTCATTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.63
Consensus pattern (21 bp):
ATTTTAGTTTAAATTTTTCAG
Found at i:44546730 original size:25 final size:25
Alignment explanation
Indices: 44546702--44546783 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
44546692 TACTTCTTAT
44546702 TATCACATACAAATCATAATTTAAA
1 TATCACATACAAATCATAATTTAAA
* * * * *
44546727 TATCATCATATATAA--GTACTTCTTAT
1 TATCA-CATACA-AATCATAATT-TAAA
44546753 TATCACATACAAATCATAATTTAAA
1 TATCACATACAAATCATAATTTAAA
44546778 TATCAC
1 TATCAC
44546784 TTTTCTAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 16 0.38
27 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (25 bp):
TATCACATACAAATCATAATTTAAA
Found at i:44546746 original size:51 final size:51
Alignment explanation
Indices: 44546675--44546782 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
44546665 AGTTTAAAAC
44546675 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
1 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
44546726 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
1 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
44546777 ATATCA
1 ATATCA
44546783 CTTTTCTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (51 bp):
ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
Found at i:44550046 original size:23 final size:22
Alignment explanation
Indices: 44550016--44550092 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
44550006 ATTTGATATG
*
44550016 GTTTAAATGCTGGCAAAAGTAT
1 GTTTAAATGCTGCCAAAAGTAT
* * *
44550038 GTTTCAAATGTTGTC-AAAGTAA
1 GTTT-AAATGCTGCCAAAAGTAT
*
44550060 GTTTTAAATGTTGTCCAAAA-TAT
1 G-TTTAAATGCTG-CCAAAAGTAT
44550083 GTTTAAATGC
1 GTTTAAATGC
44550093 CATCCAAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 27 0.60
23 15 0.33
24 3 0.07
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
GTTTAAATGCTGCCAAAAGTAT
Found at i:44550501 original size:35 final size:36
Alignment explanation
Indices: 44550395--44550503 Score: 96
Period size: 36 Copynumber: 3.1 Consensus size: 36
44550385 ACGTAGGGTG
* * * * *
44550395 CATTTATTTTTCAGTTATACCGACTAGTACTGGGCA
1 CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
* * * * * *
44550431 CACTCATTTGTCGGTT-TGATTGACCAACGCAGGGCA
1 CATTTATTTGTCAGTTAT-ATCGACCAATGCTGGGCA
44550467 CATTTATTTGTC-GTTATATCGACCAATGCTGGGCA
1 CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
44550502 CA
1 CA
44550504 CTCATTTTGT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
35 21 0.38
36 34 0.62
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (36 bp):
CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
Found at i:44550513 original size:36 final size:36
Alignment explanation
Indices: 44550424--44550510 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
44550414 CCGACTAGTA
*
44550424 CTGGGCACACTCATTTGTCGGTTTGATTGACCAACG
1 CTGGGCACACTCATTTGTCGGTTTGATCGACCAACG
* * * *
44550460 CAGGGCACATTTATTTGTC-GTTAT-ATCGACCAATG
1 CTGGGCACACTCATTTGTCGGTT-TGATCGACCAACG
44550495 CTGGGCACACTCATTT
1 CTGGGCACACTCATTT
44550511 TGTGATGCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 25 0.60
36 17 0.40
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (36 bp):
CTGGGCACACTCATTTGTCGGTTTGATCGACCAACG
Found at i:44550513 original size:72 final size:73
Alignment explanation
Indices: 44550358--44550513 Score: 192
Period size: 72 Copynumber: 2.2 Consensus size: 73
44550348 GAATGAATGA
* * ** * * *
44550358 ACACTCATTTT-TCGATTTTATCGACCAACGTAGGGTGCATTTATTTTTCAGTTATACCGACTAG
1 ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
44550422 TACTGGGC
66 TACTGGGC
* * *
44550430 ACACTCA-TTTGTCGGTTTGATTGACCAACGCAGGGCACATTTATTTGTC-GTTATATCGACCAA
1 ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
*
44550493 TGCTGGGC
66 TACTGGGC
44550501 ACACTCATTTTGT
1 ACACTCATTTTGT
44550514 GATGCATCGA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
71 28 0.39
72 43 0.61
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (73 bp):
ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
TACTGGGC
Found at i:44552612 original size:29 final size:29
Alignment explanation
Indices: 44552538--44552630 Score: 98
Period size: 31 Copynumber: 3.1 Consensus size: 29
44552528 TATAGTGTAT
* * * *
44552538 TATATATATAATTTTTATATATCAT-ATA
1 TATATATATATTTTTTAAATATTATGTTA
44552566 TATATATATATGTGTTTTAAATATTATGTTA
1 TATATATATAT-T-TTTTAAATATTATGTTA
*
44552597 TATATATATATTTTTTCAATATTATTAGTTA
1 TATATATATATTTTTTAAATATTA-T-GTTA
44552628 TAT
1 TAT
44552631 TTTCTTATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
28 10 0.18
29 12 0.22
30 13 0.24
31 20 0.36
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (29 bp):
TATATATATATTTTTTAAATATTATGTTA
Found at i:44555945 original size:36 final size:36
Alignment explanation
Indices: 44555881--44556007 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 36
44555871 TACCGACCAG
* * * *
44555881 TTGTCAGTTATACTGATCAGTGTTGGGCACACTCAT
1 TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
* *
44555917 TTGTCAGTTTTACCGACCA--GCATCGGGCACATTTAT
1 TTGTCAGTTTTACCGACCAGTGC-T-GGGCACACTCAT
* * *
44555953 TTTTCAGTTATACCAACCAGTGCTGGGCACACTCAT
1 TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
*
44555989 TTGTCAATTTTACCGACCA
1 TTGTCAGTTTTACCGACCA
44556008 ACGCATACTA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 67 0.93
37 1 0.01
38 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (36 bp):
TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
Found at i:44556497 original size:160 final size:160
Alignment explanation
Indices: 44556313--44556607 Score: 504
Period size: 161 Copynumber: 1.8 Consensus size: 160
44556303 TAATAGTTCA
* *
44556313 TATATGCATTAATGATTTAACATTATA-ATATCATGTAATACTATATAATTTATTATCATCTATA
1 TATATGCATTAATGATTAAACATTATATATATCATGTAACACTATATAATTTATTATCATCTATA
*
44556377 AAATAATAATAGCAGTACATTATATATATTACATATGATTATATATTATT-TAGTAGTTGAAATA
66 AAATAATAATAGCAGTACA-T-TATATATTACATATGATTATATATTATTATACTAGTTGAAATA
44556441 TGCTCTAGGTATCTATACTTTTTATACATTTC
129 TGCTCTAGGTATCTATACTTTTTATACATTTC
**
44556473 TATATGCATTAATGATTAAACATTATATATATCATGTAACACTATATCTTTTATTATCATCTATA
1 TATATGCATTAATGATTAAACATTATATATATCATGTAACACTATATAATTTATTATCATCTATA
*
44556538 AAATAATAATAGCAGTACATTATATATTACATATTATTATATATTATTATACTAGTTGAAATATG
66 AAATAATAATAGCAGTACATTATATATTACATATGATTATATATTATTATACTAGTTGAAATATG
44556603 CTCTA
131 CTCTA
44556608 AATCCCTATA
Statistics
Matches: 127, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
159 27 0.21
160 47 0.37
161 53 0.42
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.44
Consensus pattern (160 bp):
TATATGCATTAATGATTAAACATTATATATATCATGTAACACTATATAATTTATTATCATCTATA
AAATAATAATAGCAGTACATTATATATTACATATGATTATATATTATTATACTAGTTGAAATATG
CTCTAGGTATCTATACTTTTTATACATTTC
Found at i:44556619 original size:160 final size:160
Alignment explanation
Indices: 44556313--44556631 Score: 498
Period size: 160 Copynumber: 2.0 Consensus size: 160
44556303 TAATAGTTCA
* *
44556313 TATATGCATTAATGATTTAACATTATAATATCATGTAATACTATATAATTTATTATCATCTATAA
1 TATATGCATTAATGATTAAACATTATAATATCATGTAACACTATATAATTTATTATCATCTATAA
*
44556378 AATAATAATAGCAGTACATTATATATATTACATATGATTATATATTATTTAGTAGTTGAAATATG
66 AATAATAATAGCAGTACATTATATATATTACATATGATTATATATTATTTACTAGTTGAAATATG
** * * *
44556443 CTCTAGGTATCTATACTTTTTATACATTTC
131 CTCTAAATACCTATACTTTTCAGACATTTC
**
44556473 TATATGCATTAATGATTAAACATTATATATATCATGTAACACTATATCTTTTATTATCATCTATA
1 TATATGCATTAATGATTAAACATTATA-ATATCATGTAACACTATATAATTTATTATCATCTATA
*
44556538 AAATAATAATAGCAGTACA-T-TATATATTACATATTATTATATATTATTATACTAGTTGAAATA
65 AAATAATAATAGCAGTACATTATATATATTACATATGATTATATATTATT-TACTAGTTGAAATA
*
44556601 TGCTCTAAATCCCTATACTTTTCAGACATTT
129 TGCTCTAAATACCTATACTTTTCAGACATTT
44556632 GAAAGTTAGA
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
159 27 0.19
160 65 0.45
161 53 0.37
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (160 bp):
TATATGCATTAATGATTAAACATTATAATATCATGTAACACTATATAATTTATTATCATCTATAA
AATAATAATAGCAGTACATTATATATATTACATATGATTATATATTATTTACTAGTTGAAATATG
CTCTAAATACCTATACTTTTCAGACATTTC
Found at i:44556739 original size:120 final size:121
Alignment explanation
Indices: 44556562--44556778 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 121
44556552 GTACATTATA
44556562 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCAG-
1 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTC-GT
44556626 ACATTTGAAAGTTAGACCTCCTA-TATAATATATATAGTAGTACATTATATATCACT
65 ACATTTGAAAGTTAGACCTCCTATTATAATATATATAGTAGTACATTATATATCACT
* * * * * * *
44556682 TATTATATATTATTGTTTATTGTTATACTAGTTGAAATTTGCTCTAAGTCTCTATACTTTTCGTA
1 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCGTA
* *
44556747 CATTTGAAAGTTAGCCCTCCTATTATATTATA
66 CATTTGAAAGTTAGACCTCCTATTATAATATA
44556779 CAATGCTATA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.01
120 77 0.90
121 8 0.09
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (121 bp):
TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCGTA
CATTTGAAAGTTAGACCTCCTATTATAATATATATAGTAGTACATTATATATCACT
Found at i:44568976 original size:43 final size:41
Alignment explanation
Indices: 44568875--44568985 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
44568865 TGATATTTTG
*
44568875 TGTAAGACCATGTCTGGGAC-ATGGCATCGATATGAGAATCA
1 TGTAAGACCATATCTGGG-CTATGGCATCGATATGAGAATCA
* * *
44568916 TGTAAGACTATAGCTGGGCTATTGGCATCGATATTAG-ATCCCA
1 TGTAAGACCATATCTGGGCTA-TGGCATCGATATGAGAAT--CA
*
44568959 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGCTATGGCAT
44568986 TGGTATGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.02
41 18 0.31
42 20 0.34
43 20 0.34
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGCTATGGCATCGATATGAGAATCA
Found at i:44573568 original size:15 final size:16
Alignment explanation
Indices: 44573539--44573568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44573529 CAAACATGCT
44573539 TTAACACATTATCAAA
1 TTAACACATTATCAAA
44573555 TTAACACA-TATCAA
1 TTAACACATTATCAA
44573569 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:44575897 original size:40 final size:39
Alignment explanation
Indices: 44575853--44576046 Score: 237
Period size: 40 Copynumber: 4.9 Consensus size: 39
44575843 GGATATAGCT
* * *
44575853 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT-TAGTA
* * *
44575893 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-TTTAGTA
* *
44575933 ACTCGCACAAATGCCTTCGGAAG-TTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGG-GGCTTAGCCCGG-TTTAGTA
* *
44575973 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCC-GGTTTAGTA
*
44576013 GCTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT
44576047 ATCATTCGAA
Statistics
Matches: 135, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTTTAGTA
Found at i:44596878 original size:46 final size:47
Alignment explanation
Indices: 44596820--44596972 Score: 153
Period size: 46 Copynumber: 3.4 Consensus size: 47
44596810 GGGTTAATGT
*
44596820 GAGCTAGTGTAAGA-CATGTCTGAGACATACATCGACCACATTATGA
1 GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
* *** * *
44596866 GAGCCAGTGTAAGAGCATGTCTGGGACACGGTATTG--GA-A-T-T--
1 GAGCCAGTGTAAGAGCATGTCTGAGACA-TACATCGACCACATTATGA
* *
44596907 GAGCTAGTGTAAGA-CATGTCTGAGACATACATCAACCACATTATGA
1 GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
44596953 GAGCCAGTGTAAGAGCATGT
1 GAGCCAGTGTAAGAGCATGT
44596973 TTGGGACACG
Statistics
Matches: 81, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
39 2 0.02
40 12 0.15
41 14 0.17
42 1 0.01
43 2 0.02
44 2 0.02
45 1 0.01
46 27 0.33
47 17 0.21
48 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
Found at i:44597059 original size:93 final size:87
Alignment explanation
Indices: 44596819--44597036 Score: 328
Period size: 87 Copynumber: 2.4 Consensus size: 87
44596809 TGGGTTAATG
44596819 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
1 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
*
44596884 GTCTGGGACACGGTATTGGAAT
66 GTCTGGGACACGGTATCGGAAT
*
44596906 TGAGCTAGTGTAAGACATGTCTGAGACATACATCAACCACATTATGAGAGCCAGTGTAAGAGCAT
1 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
* *
44596971 GTTTGGGACACGGTATCGGCAT
66 GTCTGGGACACGGTATCGGAAT
* *
44596993 TAAGCTAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACC
1 T--G--A--GCTAGTGTAAGACATGTCTGAGACATACATCGACC
44597037 TCGAGACGTA
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
87 84 0.71
89 1 0.01
91 1 0.01
93 32 0.27
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (87 bp):
TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
GTCTGGGACACGGTATCGGAAT
Found at i:44597134 original size:44 final size:44
Alignment explanation
Indices: 44597004--44597136 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 44
44596994 AAGCTAGTGC
* * *
44597004 TAGTGTAAGACATGTCTGGGACATGCATCGAC-CTCGAGACGTAAGT
1 TAGTGTAAGACATGTCTGGGACAGGCATCGACTATC-AGA--TATGT
* * * *
44597050 CAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATATGT
1 TAGTGTAAGACATGTCTGGGACAGGCATCGACTATCAGATATGT
*
44597094 TAGTGTAAGACCATGTCTGGTACACGGCATCGAC-A-CAGATATG
1 TAGTGTAAGA-CATGTCTGGGACA-GGCATCGACTATCAGATATG
44597137 CTAGAGCCTG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 20 0.27
45 13 0.18
46 40 0.54
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACAGGCATCGACTATCAGATATGT
Found at i:44604857 original size:20 final size:20
Alignment explanation
Indices: 44604817--44604864 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
44604807 TAACAACAAC
**
44604817 AACGAAAATTTTTACTTGTA
1 AACGAAAATTTTTACAAGTA
44604837 AACGAAAATTTTTACAAGTA
1 AACGAAAATTTTTACAAGTA
*
44604857 AATGAAAA
1 AACGAAAA
44604865 GCAGACATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (20 bp):
AACGAAAATTTTTACAAGTA
Found at i:44629148 original size:46 final size:44
Alignment explanation
Indices: 44628980--44629164 Score: 146
Period size: 47 Copynumber: 4.1 Consensus size: 44
44628970 ATTTGTGTGC
** * * * *
44628980 CAGTGTAAGACATGTCTAAGACATGCATCGGCCAC-ATTATGAAAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT--ATGT
* *
44629026 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGA-GACGAGAGGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-GATATGT
44629075 -AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
* *
44629118 CAGTGTAAGACCATCTCTGGGACATAGCATCAGC-ACGA-ATATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATATGT
44629162 CAG
1 CAG
44629165 AGCTAGTGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
43 6 0.05
44 21 0.18
45 17 0.15
46 25 0.21
47 26 0.22
48 17 0.15
49 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
Found at i:44629160 original size:44 final size:44
Alignment explanation
Indices: 44629075--44629164 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 44
44629065 GACGAGAGGT
* *
44629075 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGTC
1 AGTGTAAGACATCTCTGGGACATGCATCAGCTACGAGATATGTC
44629119 AGTGTAAGACCATCTCTGGGACATAGCATCAGC-ACGA-ATATGTC
1 AGTGTAAGA-CATCTCTGGGACAT-GCATCAGCTACGAGATATGTC
44629163 AG
1 AG
44629165 AGCTAGTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 18 0.43
45 17 0.40
46 7 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATCTCTGGGACATGCATCAGCTACGAGATATGTC
Found at i:44639106 original size:15 final size:15
Alignment explanation
Indices: 44639086--44639154 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44639076 ATATCTTGGG
44639086 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44639101 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44639116 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44639131 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44639146 TTTCTTTAT
1 TTTCTTTAT
44639155 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44639155 original size:30 final size:30
Alignment explanation
Indices: 44639077--44639164 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44639067 AATAGTATCA
* * * *
44639077 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44639107 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44639137 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44639165 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44647283 original size:10 final size:10
Alignment explanation
Indices: 44647268--44647297 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44647258 ACACATTCAG
44647268 CAAAACATTT
1 CAAAACATTT
44647278 CAAAACATTT
1 CAAAACATTT
*
44647288 CAAATCATTT
1 CAAAACATTT
44647298 GAAAGCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (10 bp):
CAAAACATTT
Found at i:44654663 original size:12 final size:12
Alignment explanation
Indices: 44654646--44654671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44654636 CTGACATCAT
44654646 ATTTTCAGAAAA
1 ATTTTCAGAAAA
44654658 ATTTTCAGAAAA
1 ATTTTCAGAAAA
44654670 AT
1 AT
44654672 CTGATATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTTTCAGAAAA
Found at i:44666323 original size:29 final size:29
Alignment explanation
Indices: 44666256--44666323 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
44666246 GAGTTATATC
* * *
44666256 GATTTGGCTTTGGTCCATGCATATCGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
* *
44666285 GATATGGCTTCGGGCCATGTATATAGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
*
44666314 GATTTAGCTT
1 GATTTGGCTT
44666324 TAGGCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGCATATAGGAT
Found at i:44666329 original size:29 final size:28
Alignment explanation
Indices: 44666256--44666331 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
44666246 GAGTTATATC
*
44666256 GATTTGGCTTTGGTCCATGCATATCGGAT
1 GATTTGGCTTTGG-CCATGCATATAGGAT
* * *
44666285 GATATGGCTTCGGGCCATGTATATAGGAT
1 GATTTGGCTT-TGGCCATGCATATAGGAT
*
44666314 GATTTAGCTTTAGGCCAT
1 GATTTGGCTTT-GGCCAT
44666332 AATAATAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTTGGCCATGCATATAGGAT
Found at i:44669762 original size:58 final size:58
Alignment explanation
Indices: 44669689--44669812 Score: 232
Period size: 58 Copynumber: 2.2 Consensus size: 58
44669679 GGCTTATATA
*
44669689 CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAATTC
1 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
44669747 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
1 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
44669805 CAA-AACAT
1 CAACAACAT
44669813 AATAGCACCA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 5 0.08
58 60 0.92
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (58 bp):
CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
Found at i:44673458 original size:19 final size:19
Alignment explanation
Indices: 44673430--44673466 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44673420 TCGCTTCTTG
*
44673430 TCTGAAAAAAATCTTAAGC
1 TCTGAAAAAAACCTTAAGC
*
44673449 TCTGACAAAAACCTTAAG
1 TCTGAAAAAAACCTTAAG
44673467 GATGTCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (19 bp):
TCTGAAAAAAACCTTAAGC
Found at i:44686843 original size:39 final size:40
Alignment explanation
Indices: 44686727--44686911 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
44686717 GCTACTCGTT
*
44686727 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44686767 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44686807 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
44686846 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44686887 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44686912 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44686871 original size:79 final size:81
Alignment explanation
Indices: 44686729--44686911 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
44686719 TACTCGTTCA
* *
44686729 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* * *
44686793 TTTAGTGAC-TCGCACC
66 TATAGTCACTTAGCA-C
* **
44686809 AATGCCTTTGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
44686871 ATATAGTCACTTAGCAC
65 ATATAGTCACTTAGCAC
*
44686888 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44686912 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:44697557 original size:42 final size:42
Alignment explanation
Indices: 44697498--44697657 Score: 216
Period size: 42 Copynumber: 3.8 Consensus size: 42
44697488 TTAGGGTTAC
* *
44697498 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATA
1 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
*
44697540 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATTGATA
1 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
*
44697582 TGAGACTTCGTGTAAGACCATAGT-TGGGTTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATA-TATGGGATA-TGGCATCGATA
* * *
44697625 CGAGA-TTACATGTAAGACCATATCTGGGATATG
1 TGAGACTT-CGTGTAAGACCATATATGGGATATG
44697658 ACATTGGTAC
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
42 72 0.68
43 34 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
Found at i:44697653 original size:85 final size:84
Alignment explanation
Indices: 44697498--44697663 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 84
44697488 TTAGGGTTAC
* *
44697498 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATATGAGACTTCGTGTAAGACCATAT
1 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
*
44697563 ATGGGATATGGCATTGATA
66 ATGGGATATGACATTGATA
* * *
44697582 TGAGACTTCGTGTAAGACCATAGT-TGGGTTATTGGCATCGATACGAGA-TTACATGTAAGACCA
1 TGAGACTACGTGTAAGACCATA-TATGGGATA-TGGCATCAATACGAGACTT-CATGTAAGACCA
*
44697645 TATCTGGGATATGACATTG
63 TATATGGGATATGACATTG
44697664 GTACGGTACC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
84 29 0.40
85 43 0.60
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (84 bp):
TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
ATGGGATATGACATTGATA
Found at i:44704091 original size:30 final size:30
Alignment explanation
Indices: 44704033--44704093 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44704023 TTCCCGAACC
*
44704033 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGGAAAAGTT
* * * *
44704063 TAGGGGCAAAATTGTAATTTTGGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGGAAAAGTT
44704093 T
1 T
44704094 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGGAAAAGTT
Found at i:44704679 original size:68 final size:64
Alignment explanation
Indices: 44704557--44704707 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 64
44704547 ATACAGATGG
* * * * *
44704557 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAACAGAGCTACGAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACG-G-CA-
44704622 TA
63 TA
* * * * *
44704624 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAACAGAGCTACGGCAT
44704688 A
64 A
44704689 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
44704708 CGTGGTTCCA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 1 0.01
67 2 0.03
68 47 0.65
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACGGCATA
Found at i:44704706 original size:64 final size:64
Alignment explanation
Indices: 44704626--44704808 Score: 174
Period size: 67 Copynumber: 2.8 Consensus size: 64
44704616 AGACATTATG
* ** *
44704626 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * * * *
44704690 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCACGTAGACAAGAGAGCTACAAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGAT
44704755 AA
63 AA
** * *
44704757 ACTG--GCTAGGTCATATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
44704809 TCAAAATTAT
Statistics
Matches: 94, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.27
66 20 0.21
67 29 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:44711551 original size:19 final size:17
Alignment explanation
Indices: 44711501--44711545 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
44711491 AGTTGGGCCA
*
44711501 TGTGGG-CCTCACAGGCT
1 TGTGGGCCCT-ACGGGCT
44711518 TGTGGGCCCTACGGGCT
1 TGTGGGCCCTACGGGCT
44711535 TGTGGGCCCTA
1 TGTGGGCCCTA
44711546 TACGGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (17 bp):
TGTGGGCCCTACGGGCT
Found at i:44715017 original size:219 final size:220
Alignment explanation
Indices: 44714636--44715039 Score: 596
Period size: 219 Copynumber: 1.8 Consensus size: 220
44714626 CAGACAGGTG
** *
44714636 TGTAAACACTACCTAAACTGTGGAAATCGGTAAAAAGCCGAAAGGTGCGATTAGATGACACCACA
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGATGACACCACA
* *
44714701 CGGGCATACGGCTACCCATGTGGTAACCCGTGTGACCAAACATGGGCGGATGGTAGACGAGGCCC
66 CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCC
* * * *
44714766 TCATGAGCGAATTCGTGGGCTGAGGCCGTATTGGCT-ATTTTGGGCTAAGTTGGGCTATGTGGGC
131 TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
44714830 CCCACACGGTTAAACCACATAGACA
196 CCCACACGGTTAAACCACATAGACA
* *
44714855 TGTAAACACTATCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAG-TCGGCACCAC
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGAT-GACACCAC
* * * * * * *
44714919 ACGGGCATGCGGTTACCCATGTGGTAGCCTGTGTAACTAAACATGAGTGGATGGTCGACGAGGCC
65 ACGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCC
* * *
44714984 GTCATGAGAGAATTCATGGGCCGAGGTCGTATTGGGTAATTTTGGGCCAAGTTGGG
130 CTCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGG
44715040 TCGTGTAGTA
Statistics
Matches: 162, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
218 1 0.01
219 144 0.89
220 17 0.10
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (220 bp):
TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGATGACACCACA
CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCC
TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
CCCACACGGTTAAACCACATAGACA
Found at i:44725681 original size:40 final size:40
Alignment explanation
Indices: 44725524--44725690 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
44725514 GGATTAATAA
* *
44725524 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
44725564 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44725603 CTGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44725643 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
44725683 CC-GGCTAA
1 CCGGGCTAA
44725691 ACTCCGAAGG
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 41 0.36
40 73 0.64
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44725689 original size:79 final size:79
Alignment explanation
Indices: 44725527--44725690 Score: 217
Period size: 79 Copynumber: 2.1 Consensus size: 79
44725517 TTAATAACCG
* * *
44725527 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGAGCG
*
44725592 AGTTACTATATCTG
66 AGTTACTATATCTC
* *
44725606 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTGAG
*
44725670 CTAG-TAGCTATATC-C
64 CGAGTTA-CTATATCTC
44725685 GGCTAA
1 GGCTAA
44725691 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGAGCG
AGTTACTATATCTC
Found at i:44726022 original size:227 final size:227
Alignment explanation
Indices: 44725627--44726073 Score: 876
Period size: 227 Copynumber: 2.0 Consensus size: 227
44725617 GAAGGCATTT
*
44725627 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCCGGCTAAA
1 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCCGGCTAAA
44725692 CTCCGAAGGTACTTGGTTTGGGAATGAGCAATCTTGCTGTAAATTTCAAATTAATACGCTCATAA
66 CTCCGAAGGTACTTGGTTTGGGAATGAGCAATCTTGCTGTAAATTTCAAATTAATACGCTCATAA
44725757 AATCCAAACGATGAGGTATGTTTCGTATATGCATCGGAAAAGTCGATTCGTTTTAAATAGTATTC
131 AATCCAAACGATGAGGTATGTTTCGTATATGCATCGGAAAAGTCGATTCGTTTTAAATAGTATTC
44725822 GTTCAATTGATTAACGAATTTTTGGTGCCTTC
196 GTTCAATTGATTAACGAATTTTTGGTGCCTTC
*
44725854 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGTATTTGAGCTAGTAGCTATATCCGGCTAAA
1 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCCGGCTAAA
44725919 CTCCGAAGGTACTTGGTTTGGGAATGAGCAATCTTGCTGTAAATTTCAAATTAATACGCTCATAA
66 CTCCGAAGGTACTTGGTTTGGGAATGAGCAATCTTGCTGTAAATTTCAAATTAATACGCTCATAA
44725984 AATCCAAACGATGAGGTATGTTTCGTATATGCATCGGAAAAGTCGATTCGTTTTAAATAGTATTC
131 AATCCAAACGATGAGGTATGTTTCGTATATGCATCGGAAAAGTCGATTCGTTTTAAATAGTATTC
44726049 GTTCAATTGATTAACGAATTTTTGG
196 GTTCAATTGATTAACGAATTTTTGG
44726074 CCTTTAGTTA
Statistics
Matches: 218, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 218 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (227 bp):
GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCCGGCTAAA
CTCCGAAGGTACTTGGTTTGGGAATGAGCAATCTTGCTGTAAATTTCAAATTAATACGCTCATAA
AATCCAAACGATGAGGTATGTTTCGTATATGCATCGGAAAAGTCGATTCGTTTTAAATAGTATTC
GTTCAATTGATTAACGAATTTTTGGTGCCTTC
Found at i:44729236 original size:79 final size:81
Alignment explanation
Indices: 44729094--44729276 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
44729084 TACTCGTTCA
* * *
44729094 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
44729158 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
44729174 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-ATATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
44729236 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
44729253 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44729277 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:44729276 original size:40 final size:40
Alignment explanation
Indices: 44729092--44729276 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
44729082 GCTACTCGTT
* *
44729092 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44729132 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44729172 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
** * * * *
44729211 CAAATGCCTTC-ATATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
44729252 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44729277 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 32 0.26
40 80 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44731732 original size:30 final size:30
Alignment explanation
Indices: 44731698--44731794 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
44731688 AGCTCACTCC
44731698 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
44731728 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
44731758 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
44731788 TAGCTCA
1 TAGCTCA
44731795 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:44739109 original size:40 final size:40
Alignment explanation
Indices: 44738717--44739118 Score: 526
Period size: 40 Copynumber: 10.2 Consensus size: 40
44738707 ATTGATAACT
* *
44738717 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
44738757 GGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
* *
44738796 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
44738836 GGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
* *
44738875 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
44738915 GGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
* *
44738954 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
44738994 GGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
*
44739033 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* *
44739073 AGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCC
44739113 -GGCTAA
1 GGGCTAA
44739119 ACTCCGAAGG
Statistics
Matches: 324, Mismatches: 18, Indels: 41
0.85 0.05 0.11
Matches are distributed among these distances:
38 4 0.01
39 143 0.44
40 174 0.54
41 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
Found at i:44739128 original size:79 final size:79
Alignment explanation
Indices: 44738717--44739095 Score: 697
Period size: 79 Copynumber: 4.8 Consensus size: 79
44738707 ATTGATAACT
44738717 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
44738782 GAGTTACTATATCC
66 GAGTTACTATATCC
44738796 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
44738861 GAGTTACTATATCC
66 GAGTTACTATATCC
44738875 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
44738940 GAGTTACTATATCC
66 GAGTTACTATATCC
44738954 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
44739019 GAGTTACTATATCC
66 GAGTTACTATATCC
* * * *
44739033 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TTCGGGCTAAG-CCCGAAGGCATTTG
44739096 AGCTAGTAGC
Statistics
Matches: 294, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
78 2 0.01
79 278 0.95
80 14 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
GAGTTACTATATCC
Found at i:44750985 original size:39 final size:40
Alignment explanation
Indices: 44750869--44751053 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
44750859 GCTACTCGTT
* *
44750869 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
44750909 CAAATGCCTTCGGGACTTAACCCAGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44750949 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44750988 CAAATGCCTTC-AGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44751029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44751054 CATCATTCGA
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.26
40 74 0.63
41 12 0.10
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44757915 original size:47 final size:47
Alignment explanation
Indices: 44757861--44758124 Score: 413
Period size: 47 Copynumber: 5.6 Consensus size: 47
44757851 TATTTGAATA
44757861 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44757908 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGAT-ATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATG-TGATG
* *
44757957 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
44758004 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
44758051 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44758098 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44758125 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 158 0.78
49 43 0.21
50 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:44770645 original size:48 final size:48
Alignment explanation
Indices: 44770543--44770656 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
44770533 CATGTCCCGA
*
44770543 ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATGTCCCAG
1 ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATATCCCAG
** * *
44770591 ACATGGTCTTACAT-GGTATCACATGTCACTGCCG-AAGCCATATCCTAG
1 ACATGGTCTTACATAGG-ATCACATAACAATG-CGAAAGCCATATCCCAG
* * *
44770639 ATATGGTATTATATAGGA
1 ACATGGTCTTACATAGGA
44770657 GCTCATCCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
47 2 0.04
48 49 0.89
49 4 0.07
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (48 bp):
ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATATCCCAG
Found at i:44777910 original size:20 final size:21
Alignment explanation
Indices: 44777885--44777925 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
44777875 AGATCTTTTG
44777885 GGTATAGTTAGTC-CTTTATT
1 GGTATAGTTAGTCTCTTTATT
44777905 GGTATAGTTAGTCTCTTTATT
1 GGTATAGTTAGTCTCTTTATT
44777926 TTAAGTATGG
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:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (21 bp):
GGTATAGTTAGTCTCTTTATT
Found at i:44780659 original size:33 final size:33
Alignment explanation
Indices: 44780617--44780685 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
44780607 TGACAAAGTA
44780617 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
44780650 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
44780683 TGT
1 TGT
44780686 TTTTCGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (33 bp):
TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
Found at i:44784681 original size:22 final size:22
Alignment explanation
Indices: 44784641--44784682 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44784631 TTATGAATTA
*
44784641 TATGTTTGGTATGACTTTGGCT
1 TATGTTTGGCATGACTTTGGCT
44784663 TATGATTTGGCATGA-TTTGG
1 TATG-TTTGGCATGACTTTGG
44784683 TATGGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.17, C:0.07, G:0.29, T:0.48
Consensus pattern (22 bp):
TATGTTTGGCATGACTTTGGCT
Found at i:44787814 original size:85 final size:85
Alignment explanation
Indices: 44787671--44787839 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 85
44787661 TACATTTTTT
44787671 CCCCCTAACTTTTACAAAATTACGATTTTTCCCCAAGGCTCGGAAATTTAATTTCAGCCCTTATT
1 CCCCCTAACTTTTACAAAATTACGATTTTTCCCCAAGGCTCGGAAATTTAATTTCAGCCCTTATT
44787736 CTTATGTTTAATGACCTACG
66 CTTATGTTTAATGACCTACG
*
44787756 CCCCCTAACTTTTACAAAATTATGATTTTTCCCCAAGGCTCGGAAATTTAATTTCAGCCCTTATT
1 CCCCCTAACTTTTACAAAATTACGATTTTTCCCCAAGGCTCGGAAATTTAATTTCAGCCCTTATT
44787821 CTTATGTTTAATGACCTAC
66 CTTATGTTTAATGACCTAC
44787840 TGATCATTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.37
Consensus pattern (85 bp):
CCCCCTAACTTTTACAAAATTACGATTTTTCCCCAAGGCTCGGAAATTTAATTTCAGCCCTTATT
CTTATGTTTAATGACCTACG
Found at i:44796340 original size:54 final size:54
Alignment explanation
Indices: 44796259--44796389 Score: 262
Period size: 54 Copynumber: 2.4 Consensus size: 54
44796249 ACTAGGGAAA
44796259 CATTTCATTCAGCATCAAAGAAAAGAGAGGTGCGAAAAGGATCATCGCGCAAGT
1 CATTTCATTCAGCATCAAAGAAAAGAGAGGTGCGAAAAGGATCATCGCGCAAGT
44796313 CATTTCATTCAGCATCAAAGAAAAGAGAGGTGCGAAAAGGATCATCGCGCAAGT
1 CATTTCATTCAGCATCAAAGAAAAGAGAGGTGCGAAAAGGATCATCGCGCAAGT
44796367 CATTTCATTCAGCATCAAAGAAA
1 CATTTCATTCAGCATCAAAGAAA
44796390 TTCCAAGTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
CATTTCATTCAGCATCAAAGAAAAGAGAGGTGCGAAAAGGATCATCGCGCAAGT
Found at i:44800354 original size:92 final size:92
Alignment explanation
Indices: 44800197--44800382 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
44800187 ACAGCAAGAT
44800197 CATTCATTCCCAAATCACGTACCTTCAGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTC
1 CATTCATTCCCAAATCACGTACCTTCAGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTC
44800262 GGGACATAGCCCGGTTATAGTAACTCA
66 GGGACATAGCCCGGTTATAGTAACTCA
*
44800289 CATTCATTCCCGAATCACGTACCTTCAGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTC
1 CATTCATTCCCAAATCACGTACCTTCAGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTC
44800354 GGGACATAGCCCGGTTATAGTAACTCA
66 GGGACATAGCCCGGTTATAGTAACTCA
44800381 CA
1 CA
44800383 CAAATGCCTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (92 bp):
CATTCATTCCCAAATCACGTACCTTCAGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTC
GGGACATAGCCCGGTTATAGTAACTCA
Found at i:44800442 original size:40 final size:40
Alignment explanation
Indices: 44800343--44800444 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
44800333 GCTACTCGTT
* *
44800343 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* * * *
44800383 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCA-CA
44800424 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
44800445 TGGACATCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.06
40 40 0.77
41 9 0.17
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:44812231 original size:46 final size:46
Alignment explanation
Indices: 44812164--44812384 Score: 399
Period size: 46 Copynumber: 4.8 Consensus size: 46
44812154 TGTAACCTGC
* * *
44812164 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
44812210 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
44812256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
44812302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
44812348 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44812385 TGCTCAACCA
Statistics
Matches: 171, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
46 169 0.99
47 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44814402 original size:48 final size:48
Alignment explanation
Indices: 44814269--44814403 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
44814259 GTGGATGAGC
* * * *
44814269 TCCCATATAAGACCATATCTGGGATATGGCTTTGGCAGTGACATGTGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
**
44814317 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
* * *
44814365 TCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATT
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATT
44814404 AGAATGAGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
Found at i:44814544 original size:48 final size:48
Alignment explanation
Indices: 44814269--44814543 Score: 170
Period size: 48 Copynumber: 5.8 Consensus size: 48
44814259 GTGGATGAGC
* * * * ** *
44814269 TCCCATATAAGACCATATCTGGGATATGGCTTTGGCAGTGACATGTGA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
* * * *
44814317 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
** * * * *
44814365 TCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATTAG-AATG-AG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACT-GTTATGTGG
* * * * * ** * *
44814412 ACATCGTGTAAGATCACAGT-TGGG-C-TAACA---GCTCTGGTATGTGAG
1 TC-CCATGTAAGACCATA-TCTGGGACATGGCATTGGCACTGTTATGTG-G
* * * *
44814457 ATCCCAAGTAAGACCATGTCTAGGACATGGCATTGGCACCGTTATGTGG
1 -TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
*
44814506 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAC
44814544 CCTACCTTGT
Statistics
Matches: 171, Mismatches: 43, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 1 0.01
45 13 0.08
46 5 0.03
47 5 0.03
48 128 0.75
49 2 0.01
50 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (48 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
Found at i:44817298 original size:21 final size:22
Alignment explanation
Indices: 44817272--44817312 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
44817262 ACACTTGACA
44817272 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCGACACGCCCGTGTGGG
44817293 AGGGGCGACACGCCCGTGTG
1 AGGGGCGACACGCCCGTGTG
44817313 ACCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.15, C:0.29, G:0.46, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGG
Found at i:44818508 original size:47 final size:48
Alignment explanation
Indices: 44818434--44818659 Score: 182
Period size: 47 Copynumber: 4.8 Consensus size: 48
44818424 GTGGGTAAGG
* *
44818434 TGCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTC-A
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
* * *
44818481 TGTCGATGCCATGTCCCAAACATGGTCTTACACT-GATTATCATCTCG-
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCAT-ATCTCGA
* * * *
44818528 TAGCCGATG-CATGTCTCAGACAT-GTCTTACAC-AGGT-TTACGTCTCGA
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATA--TCTCGA
* * * **
44818575 GGCCGATG-CATGTCCCATACAT-GTCTTACACTAGCACCCATCTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
* * * * *
44818621 TGCTGATTCCATGTACCAAGCATGGTCTTACACTGGCTC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC
44818660 TCCTAATGTA
Statistics
Matches: 143, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 59 0.41
47 62 0.43
48 20 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
Found at i:44818619 original size:46 final size:45
Alignment explanation
Indices: 44818435--44818654 Score: 137
Period size: 46 Copynumber: 4.7 Consensus size: 45
44818425 TGGGTAAGGT
* * *
44818435 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTC-A
1 GCCGATGCCATGTCCC-AACA-TGTCTTACACTAGCACACATCTCGA
* *
44818481 TGTCGATGCCATGTCCCAAACATGGTCTTACACT-G-ATTATCATCTCGTA
1 -GCCGATGCCATGTCCC-AACAT-GTCTTACACTAGCA-CA-CATCTCG-A
* *** *
44818530 GCCGATG-CATGTCTCAGACATGTCTTACAC-AGGTTTACGTCTCGA
1 GCCGATGCCATGTCCCA-ACATGTCTTACACTA-GCACACATCTCGA
*
44818575 GGCCGATG-CATGTCCCATACATGTCTTACACTAGCACCCATCTCGA
1 -GCCGATGCCATGTCCCA-ACATGTCTTACACTAGCACACATCTCGA
* * *
44818621 TGCTGATTCCATGTACCAAGCATGGTCTTACACT
1 -GCCGATGCCATGTCCCAA-CAT-GTCTTACACT
44818655 GGCTCTCCTA
Statistics
Matches: 138, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 60 0.43
48 16 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAACATGTCTTACACTAGCACACATCTCGA
Found at i:44818695 original size:140 final size:141
Alignment explanation
Indices: 44818435--44818697 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 141
44818425 TGGGTAAGGT
* * *
44818435 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTACCAA
* * *
44818500 ACATGGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCTCAGACATGTCTTACACAGGTT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
44818565 TACGTCTCGAG
131 TACGTCTCGAG
* * *
44818576 GCCGATG-CATGTCCC-ATACA-TGTCTTACACTAGCACCCATCTCGATG-CTGATTCCATGTAC
1 GCCGATGCCATGTCCCGA-ACACGGTCTTACACTAGCACACATCTC-ATGTC-GATGCCATGTAC
* * * * *
44818637 CAAGCATGGTCTTACACTGGCTCTCCTAAT-GTAGCTGATGCATGTCCCAGACATGTCTTAC
63 CAAACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTAC
44818698 TCTAGCCCAT
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
139 21 0.20
140 75 0.72
141 8 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTACCAA
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
TACGTCTCGAG
Done.