Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 232 of 313
Found at i:71486867 original size:20 final size:20
Alignment explanation
Indices: 71486844--71486890 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
71486834 GACACTCGCA
*
71486844 TCCTCAGGCTCCCACTAGCC
1 TCCTCAAGCTCCCACTAGCC
71486864 TCCTCAAGCTCCCACTAGCC
1 TCCTCAAGCTCCCACTAGCC
71486884 TCCTCAA
1 TCCTCAA
71486891 CGTTATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.49, G:0.11, T:0.21
Consensus pattern (20 bp):
TCCTCAAGCTCCCACTAGCC
Found at i:71491499 original size:53 final size:52
Alignment explanation
Indices: 71491441--71491547 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 52
71491431 CAACAGTAGT
* * *
71491441 AGAAATTTAAAGTTTGTTATCGCGGATCACAGTCTTTATCAGTTTTCCCTAC
1 AGAAATTTAAAGTTAGTTATCGCGGATCACAGTCTCTATCAATTTTCCCTAC
*
71491493 NAGAAATTTAAAGTTAGTTATCGCGGATGACAGTCTCTATCAATTTTCCCTAC
1 -AGAAATTTAAAGTTAGTTATCGCGGATCACAGTCTCTATCAATTTTCCCTAC
71491546 AG
1 AG
71491548 TCTTAGAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
52 2 0.04
53 48 0.96
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (52 bp):
AGAAATTTAAAGTTAGTTATCGCGGATCACAGTCTCTATCAATTTTCCCTAC
Found at i:71492462 original size:23 final size:23
Alignment explanation
Indices: 71492436--71492480 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
71492426 CAGAATCCTA
71492436 CCCA-CCAGCCTCTACACACCATC
1 CCCATCCAG-CTCTACACACCATC
71492459 CCCATCCAGCTCTACACACCAT
1 CCCATCCAGCTCTACACACCAT
71492481 GTGGGGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.27, C:0.53, G:0.04, T:0.16
Consensus pattern (23 bp):
CCCATCCAGCTCTACACACCATC
Found at i:71496755 original size:44 final size:43
Alignment explanation
Indices: 71496686--71496772 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
71496676 ATAAATATTA
* * * *
71496686 TTTGTATTTTACTAAATCAATTAGGATTCTCCTATCTTTCCCT
1 TTTGTATTCTACTAAATCAACTAGGATTATCCAATCTTTCCCT
*
71496729 NTTTGTATTCTACTAATTCAACTAGGATTATCCAATCTTTCCCT
1 -TTTGTATTCTACTAAATCAACTAGGATTATCCAATCTTTCCCT
71496773 ATAAATAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (43 bp):
TTTGTATTCTACTAAATCAACTAGGATTATCCAATCTTTCCCT
Found at i:71501335 original size:284 final size:284
Alignment explanation
Indices: 71500825--71501922 Score: 2016
Period size: 284 Copynumber: 3.9 Consensus size: 284
71500815 AATAGCATGC
* * *
71500825 AAGTTTTTAATGAACCCTAAGAAAATTATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
1 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
71500890 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
66 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
71500955 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
131 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
71501020 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
196 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
71501085 GTCCTTACCTTAAAACTTCGAAGG
261 GTCCTTACCTTAAAACTTCGAAGG
71501109 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
1 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
71501174 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
66 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
71501239 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
131 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
71501304 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
196 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
71501369 GTCCTTACCTTAAAACTTCGAAGG
261 GTCCTTACCTTAAAACTTCGAAGG
* * *
71501393 AAGTTTTTAATGAACCCTAAGAAAATTATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
1 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
71501458 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
66 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
71501523 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
131 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
71501588 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
196 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
71501653 GTCCTTACCTTAAAACTTCGAAGG
261 GTCCTTACCTTAAAACTTCGAAGG
71501677 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
1 AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
* * * *
71501742 CAATGATTGAAATCATTGTGGACAATTTAGTATGATTTAAGAGTGTTTAAAAGCATATTTTTTAG
66 CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
** * * * * *
71501807 GTCTATTTTCTTGGGTCTCGAGACATAAAAACTTCAAAGGTAAAATTCTACAGCAATAGGTACTT
131 GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
* * *
71501872 GTCTCAAGACATACATGGCTTTGTTTGAAGACAAAAGTTCCATTATCTCAA
196 GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAA
71501923 GACTTATACT
Statistics
Matches: 791, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
284 791 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (284 bp):
AAGTTTTTAATGAAACATAAGAAAATGATTGGTAATGGTTTTGACTTGATTTTAGGTGTTTTGGT
CAATGATTGAAGTCATTGTGGACAATTTAGTATGGTTTAAGAGTGTTTTAAAGCATATTTTTCAG
GTCTATTTTCCCGGGTCTCGAGACATAAAAACTTCGAAGCTAAAATTCTACATCAATAGATCCTT
GTCTCAATACATACATGACTTTGTTTGAAGACAAAACTTCCATTATCTCAATTCTACAGCAATAG
GTCCTTACCTTAAAACTTCGAAGG
Found at i:71511151 original size:40 final size:40
Alignment explanation
Indices: 71511055--71511238 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
71511045 TATTAGGATG
*
71511055 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
71511098 ATA-CACGGGCTAAGTCCCAAAGGCATTTGTGCTAG-CGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
71511138 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
71511178 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
71511218 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
71511239 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 14 0.11
40 78 0.63
41 3 0.02
42 1 0.01
43 28 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:71512008 original size:28 final size:28
Alignment explanation
Indices: 71511968--71512025 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
71511958 GCAGTGATGT
*
71511968 GAGTTTGAAAATTCACTAAAAATAGTAG
1 GAGTTTGAAAATTAACTAAAAATAGTAG
*
71511996 GAGTTTGAAAATTAACTAAAAATATTAG
1 GAGTTTGAAAATTAACTAAAAATAGTAG
71512024 GA
1 GA
71512026 ATGTAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (28 bp):
GAGTTTGAAAATTAACTAAAAATAGTAG
Found at i:71518155 original size:25 final size:25
Alignment explanation
Indices: 71518126--71518177 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
71518116 AAGTGTGCAT
71518126 AATCGTTATCAAGTAATAAAGTGAC
1 AATCGTTATCAAGTAATAAAGTGAC
71518151 AATCGTTATCAAGTAATAAAGTGAC
1 AATCGTTATCAAGTAATAAAGTGAC
71518176 AA
1 AA
71518178 GTAAATGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (25 bp):
AATCGTTATCAAGTAATAAAGTGAC
Found at i:71519616 original size:83 final size:83
Alignment explanation
Indices: 71519472--71519640 Score: 293
Period size: 83 Copynumber: 2.0 Consensus size: 83
71519462 ATTGGGTCAA
*
71519472 CTTGTTGGATGTTTTTGGGCTGCCAATTTGCTTGTTGGATCAATCTTCAATGCTTAACACACTGG
1 CTTGTTGGATGGTTTTGGGCTGCCAATTTGCTTGTTGGATCAATCTTCAATGCTTAACACACTGG
* *
71519537 GTCACTTTCTCTTTTAGG
66 GCCACTTTCTCTTTCAGG
* *
71519555 CTTGTTGGATGGTTTTGGGCTGCCAATTTGCTTGTTGGATCAGTCTTCAATGCTTAGCACACTGG
1 CTTGTTGGATGGTTTTGGGCTGCCAATTTGCTTGTTGGATCAATCTTCAATGCTTAACACACTGG
71519620 GCCACTTTCTCTTTCAGG
66 GCCACTTTCTCTTTCAGG
71519638 CTT
1 CTT
71519641 TATATTAATT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (83 bp):
CTTGTTGGATGGTTTTGGGCTGCCAATTTGCTTGTTGGATCAATCTTCAATGCTTAACACACTGG
GCCACTTTCTCTTTCAGG
Found at i:71521196 original size:24 final size:24
Alignment explanation
Indices: 71521169--71521217 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
71521159 CTATTTTGGA
71521169 TGAATTATTAACTAAGGTTATGCT
1 TGAATTATTAACTAAGGTTATGCT
71521193 TGAATTATTAACTAAGGTTATGCT
1 TGAATTATTAACTAAGGTTATGCT
71521217 T
1 T
71521218 TGTTTAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (24 bp):
TGAATTATTAACTAAGGTTATGCT
Found at i:71530930 original size:43 final size:42
Alignment explanation
Indices: 71530869--71530977 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
71530859 AATGCCAACA
** *
71530869 TCCCAGACGTGGTATTACATGTAATCAAATAACGATG-CCACTG
1 TCCCAGACAAGGTCTTACATGTAATCAAAT-ACGATGTCCA-TG
* * * *
71530912 TCTCAGACAAGGTCTTACATGAAATCATATACGATGTCGATG
1 TCCCAGACAAGGTCTTACATGTAATCAAATACGATGTCCATG
* *
71530954 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACAAGGTCTTACATGTAA
71530978 ATATCAAGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
TCCCAGACAAGGTCTTACATGTAATCAAATACGATGTCCATG
Found at i:71530961 original size:42 final size:43
Alignment explanation
Indices: 71530869--71531016 Score: 126
Period size: 44 Copynumber: 3.4 Consensus size: 43
71530859 AATGCCAACA
* * *
71530869 TCCCAGACGTGGTATTACATGTAATCAAATAACGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAATAACGATGCCACTG
* * * *
71530912 TCTCAGACAAGGTCTTACATGAAATCATAT-ACGATGTCGA-TG
1 TCCCAGACATGGTCTTACATGAAATCAAATAACGATG-CCACTG
* *
71530954 TCCCAGACATGGTCTTACACGTAAATATCAAGT--CGATGCCAAC-G
1 TCCCAGACATGGTCTTACA--TGAA-ATCAAATAACGATGCC-ACTG
*
71530998 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
71531017 CAATATCACA
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 25 0.29
43 27 0.32
44 28 0.33
45 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCAAATAACGATGCCACTG
Found at i:71532622 original size:31 final size:31
Alignment explanation
Indices: 71532586--71532648 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
71532576 TATGTTTGAA
71532586 TGGTGCCAAGCTTGTGTATGCCTTAATGTTT
1 TGGTGCCAAGCTTGTGTATGCCTTAATGTTT
71532617 TGGTGCCAAGCTTGTGTATGCCTTAATGTTT
1 TGGTGCCAAGCTTGTGTATGCCTTAATGTTT
71532648 T
1 T
71532649 TTTAATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (31 bp):
TGGTGCCAAGCTTGTGTATGCCTTAATGTTT
Found at i:71538178 original size:13 final size:13
Alignment explanation
Indices: 71538162--71538186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71538152 TTTTCATCCT
71538162 AATTTTATTTTAA
1 AATTTTATTTTAA
71538175 AATTTTATTTTA
1 AATTTTATTTTA
71538187 TAAAATTAAC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTATTTTAA
Found at i:71545829 original size:4 final size:4
Alignment explanation
Indices: 71545810--71545863 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
71545800 AATTAAAAGA
*
71545810 AATT AATT -ATT -TTT AATT AATT AATT AA-T AATT AA-T AATAT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AAT-T AATT
71545855 AATT AATT A
1 AATT AATT A
71545864 TCTTTTGCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 11 0.25
4 29 0.66
5 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:71578021 original size:14 final size:14
Alignment explanation
Indices: 71578002--71578036 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
71577992 AATCATGCAC
71578002 TTTGCAGTCCAAAT
1 TTTGCAGTCCAAAT
71578016 TTTGCAGTCCAAAT
1 TTTGCAGTCCAAAT
71578030 TTTGCAG
1 TTTGCAG
71578037 CTTACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (14 bp):
TTTGCAGTCCAAAT
Found at i:71579338 original size:26 final size:26
Alignment explanation
Indices: 71579308--71580143 Score: 1672
Period size: 26 Copynumber: 32.2 Consensus size: 26
71579298 TGAAATTCCC
71579308 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579334 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579360 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579386 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579412 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579438 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579464 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579490 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579516 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579542 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579568 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579594 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579620 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579646 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579672 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579698 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579724 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579776 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579828 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579880 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579906 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579932 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579958 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71579984 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580010 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580036 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580062 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580088 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71580140 ATCA
1 ATCA
71580144 ATTTATATCA
Statistics
Matches: 810, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 810 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71581370 original size:42 final size:42
Alignment explanation
Indices: 71581324--71581409 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
71581314 TGCTGCCCCG
* * * *
71581324 TTCTTCACCTGTAAGTATCTCTAAGGACCCTTTGTTGCTCCC
1 TTCTTCACCGGCAAGTATCTCTAAGGACCATGTGTTGCTCCC
71581366 TTCTTCACCGGCAAGTATCTCTAAGGACCATGTGTTGCTCCC
1 TTCTTCACCGGCAAGTATCTCTAAGGACCATGTGTTGCTCCC
71581408 TT
1 TT
71581410 TTTTCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.36
Consensus pattern (42 bp):
TTCTTCACCGGCAAGTATCTCTAAGGACCATGTGTTGCTCCC
Found at i:71581733 original size:41 final size:41
Alignment explanation
Indices: 71581628--71581929 Score: 376
Period size: 41 Copynumber: 7.4 Consensus size: 41
71581618 CGTTCTAAAA
* * ** *
71581628 AAAACACCGGTAAAAA-CAGAGCAACAGCGGCG-TTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * * * *
71581667 CAAAAATGCCGCT-AAAACCAAAGCATTAGTGGCACTTTCGGT
1 --AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
71581709 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
71581750 AAAACGCCGCCAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
71581791 AAAATGCCGCTAAAAACCAAAGCATTAGCGGCGGTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
71581832 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* **
71581873 AAAACGCCGCTAAAAACCAGAGCATTAACGGCGCTTTTTCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
71581914 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
71581930 TCCCGTAACC
Statistics
Matches: 231, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
40 14 0.06
41 212 0.92
42 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:71587839 original size:44 final size:43
Alignment explanation
Indices: 71587770--71587931 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
71587760 AACTGGGAAA
* * *
71587770 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTC
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTC
* * *
71587813 ATTAGCGGTGTTTTTTTATAAAAGCGCAGCTAAAAGTACAGGTC
1 ATTAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTC
*
71587857 -TATAGTGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTC
1 AT-TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTC
* * * * *
71587900 TTTAGTGGTG-TTTTTATAAGAGCGCCGCTAAA
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAA
71587932 GGTCCTAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
42 20 0.19
43 48 0.47
44 35 0.34
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTC
Found at i:71588088 original size:21 final size:21
Alignment explanation
Indices: 71588063--71588112 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
71588053 CACTGGTGAG
71588063 TGATAACAAACACTAACCACT
1 TGATAACAAACACTAACCACT
**
71588084 TGATAACAAATGCTAACCACT
1 TGATAACAAACACTAACCACT
71588105 TGACTAAC
1 TGA-TAAC
71588113 CATATACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.22
Consensus pattern (21 bp):
TGATAACAAACACTAACCACT
Found at i:71588793 original size:42 final size:42
Alignment explanation
Indices: 71588731--71588836 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
71588721 TTTACTTGAA
* * *
71588731 AAGGACCCTGCGCTACTCCCTTCTTCACCT-ACAAGTATCTCT
1 AAGGACCCTGTGCTACTCCCTTATTCACCTGA-AAGCATCTCT
*
71588773 AAGGACCCTGTGCTATTCCCTTATTCACCTGAAAGCATCTCT
1 AAGGACCCTGTGCTACTCCCTTATTCACCTGAAAGCATCTCT
* *
71588815 AAGGACCCTGTGTTGCTCCCTT
1 AAGGACCCTGTGCTACTCCCTT
71588837 CTTTCATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.30
Consensus pattern (42 bp):
AAGGACCCTGTGCTACTCCCTTATTCACCTGAAAGCATCTCT
Found at i:71589094 original size:3 final size:3
Alignment explanation
Indices: 71589088--71589131 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
71589078 ATTACATAAT
71589088 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
71589132 TAATAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:71590111 original size:39 final size:40
Alignment explanation
Indices: 71590023--71590113 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
71590013 TGGTATTGGA
* *
71590023 AAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGCTAG
1 AAAATATATCCGGACTTAAAGTCCGCAGGCTTAATGCTAG
*
71590063 -AAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGG
1 AAAATATATCCGGACTTAAAGTCCGCAGGCTTAA-TGCTAG
71590102 AAAAT-TATCCGG
1 AAAATATATCCGG
71590114 GCTAAGTCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.04
39 40 0.87
40 4 0.09
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAATATATCCGGACTTAAAGTCCGCAGGCTTAATGCTAG
Found at i:71590138 original size:39 final size:39
Alignment explanation
Indices: 71590107--71590382 Score: 426
Period size: 39 Copynumber: 7.1 Consensus size: 39
71590097 GCTGGAAAAT
*
71590107 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
* *
71590146 TATCCGGGCTAAGTCCTGAAGGCATTCATGCTGGTATTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
*
71590185 TATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
**
71590224 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
*
71590263 TATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
* **
71590302 TATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
* * * *
71590341 TATCTGGGCTAAGTCCCGAAAGCATTCATGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
71590380 TAT
1 TAT
71590383 TTTGTTTATG
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 220 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTA
Found at i:71590233 original size:117 final size:117
Alignment explanation
Indices: 71590107--71590382 Score: 471
Period size: 117 Copynumber: 2.4 Consensus size: 117
71590097 GCTGGAAAAT
71590107 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATT
* *
71590172 CATGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTA
66 CATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTACTA
*
71590224 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAGTCCTGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATT
* * *
71590289 CGTGCTGGTATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTA
66 CATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTACTA
* * *
71590341 TATCTGGGCTAAGTCCCGAAAGCATTCATGCTGGTGTTATAT
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATAT
71590383 TTTGTTTATG
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 149 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (117 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATT
CATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTACTA
Found at i:71591985 original size:22 final size:21
Alignment explanation
Indices: 71591950--71592025 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
71591940 AAAAGATATC
* *
71591950 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
71591971 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
71591994 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
71592013 TGC-AATCATATCT
1 TACAAATCATATCT
71592026 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:71592010 original size:19 final size:19
Alignment explanation
Indices: 71591986--71592042 Score: 93
Period size: 18 Copynumber: 3.2 Consensus size: 19
71591976 AATCATATCT
71591986 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
71592005 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
71592023 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
71592040 TCT
1 TCT
71592043 GTCGAAACCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.24
18 16 0.43
19 12 0.32
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:71593450 original size:22 final size:21
Alignment explanation
Indices: 71593415--71593458 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
71593405 AAAGGATATC
71593415 TACAAATTAAATC-TCTAAGAT
1 TACAAATTAAATCTTC-AAGAT
*
71593436 TACAAGATTATATCTTCAAGAT
1 TACAA-ATTAAATCTTCAAGAT
71593458 T
1 T
71593459 GCATATCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 13 0.65
23 2 0.10
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATTAAATCTTCAAGAT
Found at i:71593477 original size:19 final size:19
Alignment explanation
Indices: 71593453--71593520 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
71593443 TTATATCTTC
71593453 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
71593472 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
*
71593489 AATATTGCATATCATATCT
1 AAGATTGCATATCATATCT
71593508 AAGATTGCATATC
1 AAGATTGCATATC
71593521 CTTAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.36
19 29 0.64
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:71594545 original size:166 final size:164
Alignment explanation
Indices: 71594286--71594749 Score: 637
Period size: 166 Copynumber: 2.8 Consensus size: 164
71594276 AAGGTGCATT
* * * * * *
71594286 GTCTTCAATCTGCTCCGCTATTGCTT-AGG-GATAAGATCTGCAAATTTAACTTGTTACCTTACT
1 GTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGC--A--GAACCTGTTACCCTACT
* *
71594349 GCTTAGGGGATTAAAGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
62 GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
*
71594414 TTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGA
127 TTTAACCTGTTACCCTACCACTTAGGGGATTAAGGCGA
* * *
71594452 GTCGTCGTCGATTTGCTCCGCTACTGCTTAGGGAGATAAGATCTGC-GAACCTGTTACCCTACTG
1 GTC-T--TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTGTTACCCTACTG
*
71594516 CTTAGAGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
63 CTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
*
71594581 TTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGA
128 TTAACCTGTTACCCTACCACTTAGGGGATTAAGGCGA
* * *
71594618 GTCTTCGATCTGCTTCACTACTGCTTAAGGAGATAAGATTTGCAAATTTAACCTGTTACCCTACT
1 GTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGC--A--GAACCTGTTACCCTACT
* *
71594683 GCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAA
62 GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
71594748 TT
127 TT
71594750 CGATCTGCTC
Statistics
Matches: 267, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
163 34 0.13
165 1 0.00
166 118 0.44
167 1 0.00
168 80 0.30
169 19 0.07
170 2 0.01
171 12 0.04
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (164 bp):
GTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTGTTACCCTACTGCTT
AGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
ACCTGTTACCCTACCACTTAGGGGATTAAGGCGA
Found at i:71594759 original size:43 final size:43
Alignment explanation
Indices: 71594371--71594787 Score: 214
Period size: 43 Copynumber: 9.9 Consensus size: 43
71594361 AAAGCGGGTC
71594371 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
** * * * * * ***
71594414 TTTAACCTGTTACC-CTACTACTTAGGG-GATTAAG-GCGAGTCGTC
1 TTCGATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATC-TG-CAAA
* * * *
71594458 GTCGATTTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
* * * **
71594501 --C---CTGTTACC-CTACTGCTTAGAGGA-TTAAG-GC-G-AGTC
1 TTCGATCTGCT-CCACTACTGCTTAG-GGAGATAAGATCTGCA-AA
71594537 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
** * * * * **
71594580 TTTAACCTGTTACC-CTACCGCTTAGGG-GATTAAG-GC-G-AGTC
1 TTCGATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATCTGCA-AA
* * *
71594621 TTCGATCTGCTTCACTACTGCTTAAGGAGATAAGATTTGCAAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
** * * * **
71594664 TTTAACCTGTTACC-CTACTGCTTAGGG-GATTAAG--GTG-AGTC
1 TTCGATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATCTGCA-AA
*
71594705 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
71594748 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC
71594788 GAACCTATTA
Statistics
Matches: 268, Mismatches: 70, Indels: 72
0.65 0.17 0.18
Matches are distributed among these distances:
36 1 0.00
37 1 0.00
38 19 0.07
39 5 0.02
40 10 0.04
41 68 0.25
42 13 0.05
43 117 0.44
44 31 0.12
45 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (43 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
Found at i:71594774 original size:84 final size:84
Alignment explanation
Indices: 71594256--71594749 Score: 705
Period size: 84 Copynumber: 5.9 Consensus size: 84
71594246 ATCATCTTGG
* * * * *
71594256 ACCCTACTGCTTAGGGGGTTAAGGTGCATTGTCTTCAATCTGCTCCGCTATTGCTTA-GG-GATA
1 ACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
71594319 AGATCTGCAAATTTAACTTGTT
63 AGATCTGCAAATTTAACCTGTT
* * *
71594341 ACCTTACTGCTTAGGGGATTAAAGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
71594406 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * *
71594425 ACCCTACTACTTAGGGGATTAAGGCGAGTCGTCGTCGATTTGCTCCGCTACTGCTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATA
*
71594490 AGATCTGC-----GAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
*
71594507 ACCCTACTGCTTAGAGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
71594572 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * *
71594591 ACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTTCACTACTGCTTAAGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
71594656 TTTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* *
71594675 ACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
71594740 TCTGCAAATT
66 TCTGCAAATT
71594750 CGATCTGCTC
Statistics
Matches: 367, Mismatches: 32, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
79 37 0.10
81 1 0.00
82 60 0.16
83 2 0.01
84 207 0.56
85 23 0.06
87 37 0.10
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:71594831 original size:122 final size:123
Alignment explanation
Indices: 71594621--71594866 Score: 350
Period size: 122 Copynumber: 2.0 Consensus size: 123
71594611 AAGGCGAGTC
* * * * *
71594621 TTCGATCTGCTTCACTACTGCTTAAGGAGATAAGATTTGCAAATTTAACCTGTTACCCTACTGCT
1 TTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGC--A--GAACCTATTACCCTACTACT
* ** *
71594686 TAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAA
62 TAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAAA
*
71594748 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-GAACCTATTACCCTACTACTTAAG
1 TTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTATTACCCTACTACTTAAG
*
71594812 GGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGC
66 GGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGC
71594867 GAACCTATTA
Statistics
Matches: 108, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
122 71 0.66
127 37 0.34
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (123 bp):
TTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTATTACCCTACTACTTAAG
GGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAAA
Found at i:71594846 original size:79 final size:79
Alignment explanation
Indices: 71594748--71594945 Score: 387
Period size: 79 Copynumber: 2.5 Consensus size: 79
71594738 GATCTGCAAA
*
71594748 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTATTACCCTACTACTTAAGG
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTATTACCCTACTACTTAAGG
71594813 GATTAAGGCAAGTC
66 GATTAAGGCAAGTC
71594827 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTATTACCCTACTACTTAAGG
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTATTACCCTACTACTTAAGG
71594892 GATTAAGGCAAGTC
66 GATTAAGGCAAGTC
71594906 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGC
71594946 AAATTTAACC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 118 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (79 bp):
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTATTACCCTACTACTTAAGG
GATTAAGGCAAGTC
Found at i:71594924 original size:38 final size:38
Alignment explanation
Indices: 71594802--71594924 Score: 110
Period size: 38 Copynumber: 3.2 Consensus size: 38
71594792 CTATTACCCT
71594802 ACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCC
1 ACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCC
* * * * *
71594840 ACTACTGCTTAGGGAGATAA-G--A-TCTGCGAACCTATTACCC
1 ACTACT--TAAGGGA-TTAAGGCAAGTCTTCG-ATCTACT--CC
71594880 TACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCC
1 -ACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCC
71594919 ACTACT
1 ACTACT
71594925 GCTTAGGGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
37 5 0.08
38 21 0.33
39 9 0.14
40 9 0.14
41 15 0.23
42 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (38 bp):
ACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCC
Found at i:71594938 original size:201 final size:203
Alignment explanation
Indices: 71594537--71594950 Score: 580
Period size: 201 Copynumber: 2.0 Consensus size: 203
71594527 AAGGCGAGTC
* * *
71594537 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC--A--GAACCTATTACCCTACCACT
* * * * * *
71594602 TAGGGGATTAAGGCGAGTCTTCGATCTGCTTCACTACTGCTTAAGGAGATAAGATTTGCAAATTT
62 TAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGC--A--G
* * * ** *
71594667 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGG
123 AACCTATTACCCTACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGG
71594732 AGATAAGATCTGCAAA
188 AGATAAGATCTGCAAA
*
71594748 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-GAACCTATTACCCTACTACTTAAG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAGAACCTATTACCCTACCACTTAAG
*
71594812 GGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGC-GAACCTATT
66 GGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTATT
*
71594876 ACCCTACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA
131 ACCCTACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGA
71594941 TCTGCAAA
196 TCTGCAAA
71594949 TT
1 TT
71594951 TAACCTGTTA
Statistics
Matches: 185, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
201 76 0.41
206 69 0.37
211 40 0.22
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (203 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAGAACCTATTACCCTACCACTTAAG
GGATTAAGGCAAGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGCAGAACCTATT
ACCCTACTACTTAAGGGATTAAGGCAAGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGA
TCTGCAAA
Found at i:71595945 original size:7 final size:7
Alignment explanation
Indices: 71595933--71595993 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
71595923 GGCCTCTCCA
71595933 TTTTTTC
1 TTTTTTC
71595940 TTTTTTC
1 TTTTTTC
71595947 TTTTTTC
1 TTTTTTC
71595954 TCATTTTT-
1 T--TTTTTC
71595962 TTTTTAT-
1 TTTTT-TC
71595969 TTTTTTC
1 TTTTTTC
*
71595976 -TCTTT-
1 TTTTTTC
71595981 TTTTTTC
1 TTTTTTC
71595988 TTTTTT
1 TTTTTT
71595994 TCCCTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 13 0.28
7 27 0.59
8 1 0.02
9 5 0.11
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:71595962 original size:10 final size:11
Alignment explanation
Indices: 71595947--71596004 Score: 59
Period size: 10 Copynumber: 5.5 Consensus size: 11
71595937 TTCTTTTTTC
71595947 TTTTTTCTCAT
1 TTTTTTCTCAT
* *
71595958 TTTTTTTTTAT
1 TTTTTTCTCAT
71595969 TTTTTTCTC-T
1 TTTTTTCTCAT
*
71595979 TTTTTTTTC-T
1 TTTTTTCTCAT
*
71595989 TTTTTTC-CCT
1 TTTTTTCTCAT
71595999 TTTTTT
1 TTTTTT
71596005 TGAAATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
9 1 0.03
10 23 0.57
11 16 0.40
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTCAT
Found at i:71595965 original size:20 final size:20
Alignment explanation
Indices: 71595935--71596005 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 20
71595925 CCTCTCCATT
71595935 TTTTCTTTTTTCTTTTTTCTC
1 TTTT-TTTTTTCTTTTTTCTC
*
71595956 ATTTTTTTTTTATTTTTT-TC
1 -TTTTTTTTTTCTTTTTTCTC
*
71595976 TCTTTTTTTTTCTTTTTTTCCC
1 T-TTTTTTTTTC-TTTTTTCTC
71595998 TTTTTTTT
1 TTTTTTTT
71596006 GAAATAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.02
20 11 0.26
21 25 0.58
22 6 0.14
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTTCTTTTTTCTC
Found at i:71601545 original size:81 final size:83
Alignment explanation
Indices: 71601382--71601545 Score: 287
Period size: 81 Copynumber: 2.0 Consensus size: 83
71601372 TAAAATATAA
*
71601382 AAGAGAATTAAAAAATCTAGGAGATAGGGAGTAAAAAAAGGTGTTGAAAACAAAGATGAACAAAG
1 AAGAGAATTAAAAAATCAAGGAGATAGGGAGTAAAAAAAGGTGTTGAAAACAAAGATGAACAAAG
71601447 AATAAATAAGAACAAACC
66 AATAAATAAGAACAAACC
* *
71601465 AAGAGAATTAAAAAATCAAGGAGATAGGGATTAAAAAAA-G-GTTGAAAACGAAGATGAACAAAG
1 AAGAGAATTAAAAAATCAAGGAGATAGGGAGTAAAAAAAGGTGTTGAAAACAAAGATGAACAAAG
71601528 AATAAATAAGAACAAACC
66 AATAAATAAGAACAAACC
71601546 GTAGAAAATA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 40 0.51
82 1 0.01
83 37 0.47
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.14
Consensus pattern (83 bp):
AAGAGAATTAAAAAATCAAGGAGATAGGGAGTAAAAAAAGGTGTTGAAAACAAAGATGAACAAAG
AATAAATAAGAACAAACC
Found at i:71601776 original size:23 final size:22
Alignment explanation
Indices: 71601733--71601790 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
71601723 AAAAGATATC
* *
71601733 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
71601754 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
71601777 TGCATATCATATCT
1 TACAAATCATATCT
71601791 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:71601804 original size:22 final size:19
Alignment explanation
Indices: 71601760--71601807 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
71601750 AGATTACAAA
71601760 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
71601779 --CATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
71601798 TATCATATCT
1 -ATCATATCT
71601808 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:71601820 original size:14 final size:15
Alignment explanation
Indices: 71601783--71601820 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
71601773 AGATTGCATA
71601783 TCATATCTAAGATTG
1 TCATATCTAAGATTG
71601798 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
71601815 -CATATC
1 TCATATC
71601821 ACATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:71601848 original size:36 final size:36
Alignment explanation
Indices: 71601772--71601849 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
71601762 CATATCTTCT
* *
71601772 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCACATCTAAGATTGTATCATATCG
71601808 AAGATTGCATATCACATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCACATCTAAGATTG--TATCATATCG
71601844 AAGATT
1 AAGATT
71601850 ATATTTCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 31 0.82
37 1 0.03
38 6 0.16
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (36 bp):
AAGATTGCATATCACATCTAAGATTGTATCATATCG
Found at i:71601849 original size:17 final size:19
Alignment explanation
Indices: 71601769--71601841 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
71601759 AATCATATCT
71601769 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
71601788 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
71601805 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
71601824 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
71601842 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:71603884 original size:21 final size:21
Alignment explanation
Indices: 71603858--71603907 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
71603848 CACTAGTGAG
71603858 TGATAACAAACACTAACCACA
1 TGATAACAAACACTAACCACA
* * *
71603879 TGATAAAAAATACTAACCACT
1 TGATAACAAACACTAACCACA
71603900 TGAGTAAC
1 TGA-TAAC
71603908 CATATACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.20
Consensus pattern (21 bp):
TGATAACAAACACTAACCACA
Found at i:71604357 original size:3 final size:3
Alignment explanation
Indices: 71604349--71604373 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
71604339 CAGCGATTAC
71604349 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
71604374 CAACAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:71604605 original size:42 final size:42
Alignment explanation
Indices: 71604543--71604638 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
71604533 GACCCTGTGC
* *
71604543 TGCTCCCTTCTTCACTTGCAAGTATCTCTAAGAACCTTGTGT
1 TGCTCCCTTCTTCACCTGCAAGTATCTCTAAGAACCTTATGT
* *
71604585 TGTTCCCTTCTTCACCTGCAAGTATCTCTAAGGACCTTATGT
1 TGCTCCCTTCTTCACCTGCAAGTATCTCTAAGAACCTTATGT
71604627 TGCTCCCTTCTT
1 TGCTCCCTTCTT
71604639 TCCTTTTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.40
Consensus pattern (42 bp):
TGCTCCCTTCTTCACCTGCAAGTATCTCTAAGAACCTTATGT
Found at i:71604800 original size:21 final size:21
Alignment explanation
Indices: 71604775--71604824 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
71604765 CATTAGTGAG
71604775 TGATAACAAACACTAACCACT
1 TGATAACAAACACTAACCACT
* *
71604796 TGATAACAAATACTAACGACT
1 TGATAACAAACACTAACCACT
71604817 TGACTAAC
1 TGA-TAAC
71604825 CATATATCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (21 bp):
TGATAACAAACACTAACCACT
Found at i:71605382 original size:928 final size:931
Alignment explanation
Indices: 71603808--71606091 Score: 2781
Period size: 984 Copynumber: 2.4 Consensus size: 931
71603798 GGCTATTACA
*
71603808 ATTAGCTTTGGTGAGCCTGTATAGAAATGATACTTATATACACTAGTGAGTGATAACAAACACTA
1 ATTAGCTTTGGTGAGCCTGTACAGAAATGATACTTATATACACTAGTGAGTGATAACAAACACTA
* * * * *
71603873 ACCACATGATAAAAAATACTAACCACTTGAGTAACCATATACTAGATTTTAACTAACTGTGATTG
66 ACCACTTGATAACAAATACTAACCACTTGACTAACCATATAC-AGATTGTAACTGACTGTGATTG
* * *
71603938 CAGTGCAAAGGAATTAACGGAGATTAC------------ATAATAATAATTTCTACACCAAAACT
130 CAGTGCAAAGGAATCAACGGAGATTACATAATAATAATAATAATAATAATTTCCACACCAAAAAT
* * *
71603991 AATTTCGACAGAGGACTATGATACAATTTGGAAATCACATGAAATATCTACTTGAAAAGGTAAGT
195 AATTTC--CAGAGGACTATGATACAATTTGGAAATCGCATGAAATATTTACTTGAAAAGGCAAGT
* * *
71604056 ATCTCTAAGGACCTTGTTGAGCAGACAATTGTTGCTCCCATT-TTCACCTTTCTCCACCTATGCT
258 ATCTCTAAGGACCCTGTTGAGCAGACAATTGCTGCTCCC-TTCTTCACCTTTCTTCACCTATGCT
* * * * *
71604120 ACGTACCTTCTTCCTTTTTGTCTTTAATGCTCATTTTCTTTCATTTTCATTTTATATCATATATT
322 ACGTACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTTCATTTTATATAAGATATT
71604185 AGAGATTTTGAATCCTAGTGATAATTGTGTGTTTGGAATTTTTTATTTGTAAGAGGAGGAAGAAG
387 AGAGATTTTGAATCCTAGTGATAATTGTGTGTTTGGAATTTTTTATTTGTAAGAGGAGGAAGAAG
* * *
71604250 ATGAACAGTATGGCATGAGATCACAGATTGCTTGAGATGTCTAATATTGTAGGATTCTACCGACT
452 ATGAACAGTACGGCATGAGATCACAGATTGCTAGAGATGTCTAATATCGTAGGATTCTACCGACT
*
71604315 TTGATTGCAGTGCAAAGGAATCAACAGCGATTACATAATAATAATAATAATAATAATAACAACAA
517 TTGATTGCAGTGCAAAGGAATCAACAGAGATTAC-----------AATAATAATAAT----A-AA
*
71604380 CTTAATACATTTCACATAATAATAAAATAACGTATCATTATCAAAACAATTTTTTTTTACTTTCC
566 CTTAATACATTTCACATAATAATAAAATAACGTATCATCATCAAAACAATTTTTTTTTACTTTCC
71604445 C--AT---T-T-AT-T-AA-TA-T-C-T-TT-TA-AATTATTAATTCCATCAATTTAATTTAAAA
631 CTAATAAGTATCATATAAATTATTCCTTATTATATAATTATTAATTCCATCAATTTAATTTAAAA
* * *
71604494 GTCTTTACTTGAAA-T-C-G-C-ATGAAATATTTACTTGAAAAAGACCCTGTGCTGCTCCCTTCT
696 GTCTTTACTTGAAATTGCAGACGATGAAATATTTACTTGAAAAAGACCCCGTGCTACTCCATTCT
* * * *
71604554 TCACTTGCAAGTATCTCTAAGAACCTTGTGTTGTTCCCTTCTTCACCTGCAAGTATCTCTAAGGA
761 TCACCTGCAAGTATCTCTAAGAACCATGTGCTGTTCCCTTCTTCACCTACAAGTATCTCTAAGGA
* * * *
71604619 CCTTATGTTGCTCCCTTCTTTCCTTTTCGTCCTTGTTAGAACTATACTGAAGAAACGATAATGAA
826 CCTTATGCTGCTCCCTTCTTTCCTTTTCATCCTTGTTAGAACTATACTAAAAAAACGATAATGAA
71604684 CGAAATACAGAGAATAGTATTTGCTGAATATTCTTAGTATC
891 CGAAATACAGAGAATAGTATTTGCTGAATATTCTTAGTATC
* *
71604725 ATTAGCTTTGGTGAACCTGTACAGAAATGATACTTATATACATTAGTGAGTGATAACAAACACTA
1 ATTAGCTTTGGTGAGCCTGTACAGAAATGATACTTATATACACTAGTGAGTGATAACAAACACTA
*
71604790 ACCACTTGATAACAAATACTAACGACTTGACTAACCATATATCAGATTGTAACTGACTGTGATTG
66 ACCACTTGATAACAAATACTAACCACTTGACTAACCATATA-CAGATTGTAACTGACTGTGATTG
*
71604855 CAGTGCAAAGGAATCAAAGGAGATTACATAATAATAATAATAATAATAATTTCCACACCAAAAAT
130 CAGTGCAAAGGAATCAACGGAGATTACATAATAATAATAATAATAATAATTTCCACACCAAAAAT
*
71604920 AATTTCCTAGAGGACTATGATACAATTTGGAAATCGCATGAAATATTTACTTGAAGAGGCAAGTA
195 AATTTCC-AGAGGACTATGATACAATTTGGAAATCGCATGAAATATTTACTTGAAAAGGCAAGTA
* * * *
71604985 TCTCTAAGGACCCTGTTGAGCAGACAATTGCTACTCCCTTCTTCACATTTCTTCACATATGCTAT
259 TCTCTAAGGACCCTGTTGAGCAGACAATTGCTGCTCCCTTCTTCACCTTTCTTCACCTATGCTAC
*
71605050 GTACCTTCCTCCTTTTTGTCCTTAATGCTTC-TTTTCATTCTTTTTCATTTTATATAAGATATTA
324 GTACCTTCTTCCTTTTTGTCCTTAATGC-TCATTTTCATTCTTTTTCATTTTATATAAGATATTA
* * ** * *
71605114 GAGATTTTGAATCCTAGTTATAATTGTGCTTTTTGGCCTTTTTTGTTTGTAATAGGAGGAAGAAG
388 GAGATTTTGAATCCTAGTGATAATTGTG-TGTTTGGAATTTTTTATTTGTAAGAGGAGGAAGAAG
* * *
71605179 ATGAACAGTACGGCATGGGATCATAGATTGCTAGAGATGTCTAATATCGTAGGATTCTACTGACT
452 ATGAACAGTACGGCATGAGATCACAGATTGCTAGAGATGTCTAATATCGTAGGATTCTACCGACT
71605244 TTGATTGCAGTGCAAAGGAATCAACAGAGATTAC-ATAATAATAAT-AACTTAATACATTTCACA
517 TTGATTGCAGTGCAAAGGAATCAACAGAGATTACAATAATAATAATAAACTTAATACATTTCACA
71605307 TAATAATAAAATAACGTATCATCATCAAAACAA-TTTTTTTTACTTTCCTATTTATTAATATCTT
582 TAATAATAAAATAACGTATCATCATCAAAACAATTTTTTTTTACTTTCC-------------C--
71605371 TTAAATTATTAATAATGTATCATCATCAAAACAATTTTTTTACTTTCCCATTTATTAATATCTTT
632 ---------TAATAA-GTATCAT-AT----A-AA-----TTA--TT-CC--TTATT-ATA----T
*
71605436 TAAATTATTAATTCCATCAATTTGATTTAAAAGTCTTTACTTGAAATTGCATGAAATCGTATGAA
666 --AATTATTAATTCCATCAATTTAATTTAAAAGTCTTTACTTGAAATTGCA-G--A-CG-ATGAA
* * *
71605501 ATATTTACTTGAAAAGGACCCCGTGCTACTCCATTCTTCACCTGCAAGTATCTCTAAGGATCATG
724 ATATTTACTTGAAAAAGACCCCGTGCTACTCCATTCTTCACCTGCAAGTATCTCTAAGAACCATG
* *
71605566 TGCTGTTCCCTTCTTCACCTACAAGTATCTCTAAGGACCTTGTGCTGCTTCCTTCTTTCCTTTTC
789 TGCTGTTCCCTTCTTCACCTACAAGTATCTCTAAGGACCTTATGCTGCTCCCTTCTTTCCTTTTC
* * * *
71605631 ATCCTTTTTAGAACTATACTAAAAAAATGATAATGAATGAAATACAGATAATAGTATTTGCTGAA
854 ATCCTTGTTAGAACTATACTAAAAAAACGATAATGAACGAAATACAGAGAATAGTATTTGCTGAA
71605696 TATTCTTAGTATC
919 TATTCTTAGTATC
*
71605709 ATTAGCTTTGGTGAGCCTGTACAGAAATGATACTTATATACACTAGTGAGTAATAACAAACACTA
1 ATTAGCTTTGGTGAGCCTGTACAGAAATGATACTTATATACACTAGTGAGTGATAACAAACACTA
* * *
71605774 ACCACTTGATAACAAATATTAACCACTTGACTAATCGTATACCAGATTGTAACTGACTGTGATTG
66 ACCACTTGATAACAAATACTAACCACTTGACTAACCATATA-CAGATTGTAACTGACTGTGATTG
*
71605839 CAGTGCAAATGAATCAACGGAGATTACATAATAATAATAATAATAATAATAATAATAATAATTTC
130 CAGTGCAAAGGAATCAACGGAGATTAC------------ATAATAATAATAATAATAATAATTTC
*
71605904 CACACCAAAAATAATTTCCACAGAGGACTATGATACAATTTGGAAATCGCATGAAAGATTTACTT
183 CACACCAAAAATAATTT-C-CAGAGGACTATGATACAATTTGGAAATCGCATGAAATATTTACTT
* * * *
71605969 GAAAAGGCAAGTATCTCTAAGGACCGTATTGAGCAGACTATTGCTGCTCCCTTCTTCGCCTTTCT
246 GAAAAGGCAAGTATCTCTAAGGACCCTGTTGAGCAGACAATTGCTGCTCCCTTCTTCACCTTTCT
* *
71606034 TCACCTATGTTACGTACCTTCTTTCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
311 TCACCTATGCTACGTACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
71606092 TATATTTTAT
Statistics
Matches: 1173, Mismatches: 88, Indels: 132
0.84 0.06 0.09
Matches are distributed among these distances:
910 15 0.01
911 50 0.04
917 155 0.13
918 1 0.00
923 1 0.00
927 3 0.00
928 190 0.16
929 155 0.13
936 2 0.00
940 1 0.00
941 1 0.00
942 2 0.00
944 1 0.00
950 2 0.00
956 2 0.00
959 1 0.00
961 1 0.00
964 1 0.00
965 2 0.00
967 2 0.00
974 43 0.04
975 1 0.00
976 1 0.00
978 1 0.00
982 1 0.00
984 340 0.29
996 45 0.04
997 152 0.13
998 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (931 bp):
ATTAGCTTTGGTGAGCCTGTACAGAAATGATACTTATATACACTAGTGAGTGATAACAAACACTA
ACCACTTGATAACAAATACTAACCACTTGACTAACCATATACAGATTGTAACTGACTGTGATTGC
AGTGCAAAGGAATCAACGGAGATTACATAATAATAATAATAATAATAATTTCCACACCAAAAATA
ATTTCCAGAGGACTATGATACAATTTGGAAATCGCATGAAATATTTACTTGAAAAGGCAAGTATC
TCTAAGGACCCTGTTGAGCAGACAATTGCTGCTCCCTTCTTCACCTTTCTTCACCTATGCTACGT
ACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTTCATTTTATATAAGATATTAGAG
ATTTTGAATCCTAGTGATAATTGTGTGTTTGGAATTTTTTATTTGTAAGAGGAGGAAGAAGATGA
ACAGTACGGCATGAGATCACAGATTGCTAGAGATGTCTAATATCGTAGGATTCTACCGACTTTGA
TTGCAGTGCAAAGGAATCAACAGAGATTACAATAATAATAATAAACTTAATACATTTCACATAAT
AATAAAATAACGTATCATCATCAAAACAATTTTTTTTTACTTTCCCTAATAAGTATCATATAAAT
TATTCCTTATTATATAATTATTAATTCCATCAATTTAATTTAAAAGTCTTTACTTGAAATTGCAG
ACGATGAAATATTTACTTGAAAAAGACCCCGTGCTACTCCATTCTTCACCTGCAAGTATCTCTAA
GAACCATGTGCTGTTCCCTTCTTCACCTACAAGTATCTCTAAGGACCTTATGCTGCTCCCTTCTT
TCCTTTTCATCCTTGTTAGAACTATACTAAAAAAACGATAATGAACGAAATACAGAGAATAGTAT
TTGCTGAATATTCTTAGTATC
Found at i:71605435 original size:64 final size:65
Alignment explanation
Indices: 71605316--71605447 Score: 239
Period size: 64 Copynumber: 2.0 Consensus size: 65
71605306 ATAATAATAA
*
71605316 AATAACGTATCATCATCAAAACAATTTTTTTTACTTTCCTATTTATTAATATCTTTTAAATTATT
1 AATAACGTATCATCATCAAAACAATTTTTTTTACTTTCCCATTTATTAATATCTTTTAAATTATT
*
71605381 AATAATGTATCATCATCAAAACAA-TTTTTTTACTTTCCCATTTATTAATATCTTTTAAATTATT
1 AATAACGTATCATCATCAAAACAATTTTTTTTACTTTCCCATTTATTAATATCTTTTAAATTATT
71605445 AAT
1 AAT
71605448 TCCATCAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 42 0.65
65 23 0.35
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (65 bp):
AATAACGTATCATCATCAAAACAATTTTTTTTACTTTCCCATTTATTAATATCTTTTAAATTATT
Found at i:71605580 original size:42 final size:42
Alignment explanation
Indices: 71605534--71605622 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
71605524 TGCTACTCCA
* *
71605534 TTCTTCACCTGCAAGTATCTCTAAGGATCATGTGCTG-TTCCC
1 TTCTTCACCTACAAGTATCTCTAAGGACCATGTGCTGCTT-CC
*
71605576 TTCTTCACCTACAAGTATCTCTAAGGACCTTGTGCTGCTTCC
1 TTCTTCACCTACAAGTATCTCTAAGGACCATGTGCTGCTTCC
71605618 TTCTT
1 TTCTT
71605623 TCCTTTTCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (42 bp):
TTCTTCACCTACAAGTATCTCTAAGGACCATGTGCTGCTTCC
Found at i:71605787 original size:21 final size:21
Alignment explanation
Indices: 71605761--71605803 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
71605751 CTAGTGAGTA
71605761 ATAACAAACACTAACCACTTG
1 ATAACAAACACTAACCACTTG
* *
71605782 ATAACAAATATTAACCACTTG
1 ATAACAAACACTAACCACTTG
71605803 A
1 A
71605804 CTAATCGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAACAAACACTAACCACTTG
Found at i:71605874 original size:3 final size:3
Alignment explanation
Indices: 71605866--71605900 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
71605856 CGGAGATTAC
71605866 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
71605901 TTCCACACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:71606209 original size:135 final size:135
Alignment explanation
Indices: 71605962--71606226 Score: 458
Period size: 135 Copynumber: 2.0 Consensus size: 135
71605952 GCATGAAAGA
* * * *
71605962 TTTACTTGAAAAGGCAAGTATCTCTAAGGACCGTATTGAGCAGACTATTGCTGCTCCCTTCTTCG
1 TTTACTTGAAAAGGCAAGTATCTCTAAGGACCCTATTGAGCAAACAATTGCTGCTCCCTTCTTCA
* *
71606027 CCTTTCTTCACCTATGTTACGTACCTTCTTTCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
66 CCTTTCTTCACCTATGCTACGTACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
71606092 TATAT
131 TATAT
*
71606097 TTTATTTGAAAAGGCAAGTATCTCTAAGGACCCTATTGAGCAAACAATTGCTGCTCCCTTCTTCA
1 TTTACTTGAAAAGGCAAGTATCTCTAAGGACCCTATTGAGCAAACAATTGCTGCTCCCTTCTTCA
*
71606162 CCTTTCTTCACCTATGCTACGTACCTTCTTCCTTTTTGTCCTTAATGCTCTTTTTCATTCTTTTT
66 CCTTTCTTCACCTATGCTACGTACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
71606227 CATTTTATAT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 122 1.00
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.44
Consensus pattern (135 bp):
TTTACTTGAAAAGGCAAGTATCTCTAAGGACCCTATTGAGCAAACAATTGCTGCTCCCTTCTTCA
CCTTTCTTCACCTATGCTACGTACCTTCTTCCTTTTTGTCCTTAATGCTCATTTTCATTCTTTTT
TATAT
Found at i:71606417 original size:3 final size:3
Alignment explanation
Indices: 71606409--71606438 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
71606399 TGGAGATTAC
71606409 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
71606439 CTTAATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71606825 original size:21 final size:21
Alignment explanation
Indices: 71606800--71606849 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
71606790 CATTAGTGAG
71606800 TGATAACAAACACTAACCACT
1 TGATAACAAACACTAACCACT
*
71606821 TGATAACAAATACTAACCACT
1 TGATAACAAACACTAACCACT
71606842 TGACTAAC
1 TGA-TAAC
71606850 CATATACCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.22
Consensus pattern (21 bp):
TGATAACAAACACTAACCACT
Found at i:71606915 original size:3 final size:3
Alignment explanation
Indices: 71606907--71606944 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
71606897 CGGAGATTAC
* *
71606907 ATA ATA ATA ATA ATA ATA ACA ATA TTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
71606945 TTCCACGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:71607324 original size:3 final size:3
Alignment explanation
Indices: 71607316--71607358 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
71607306 CCGAGATTAC
*
71607316 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
71607359 CAACTTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71607569 original size:24 final size:24
Alignment explanation
Indices: 71607537--71607602 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
71607527 AAGATCTGGC
* *
71607537 TTAGGTTTGTCTTACTCGTTAGGT
1 TTAGGTTTGTCTTCCTCGTCAGGT
*
71607561 TTAGGTTTGTCTTCCTAGTCAGGT
1 TTAGGTTTGTCTTCCTCGTCAGGT
71607585 TTAGGTTTGTCTTCCTCG
1 TTAGGTTTGTCTTCCTCG
71607603 CCATTGTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.48
Consensus pattern (24 bp):
TTAGGTTTGTCTTCCTCGTCAGGT
Found at i:71609760 original size:26 final size:26
Alignment explanation
Indices: 71609729--71609836 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
71609719 TGAAATGCCC
71609729 ATCATGAAACATTTACCTAAACCATT
1 ATCATGAAACATTTACCTAAACCATT
*
71609755 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGAAACATTTACCTAAAC-CATT
* * *
71609781 ATCATGGAATATTTACCTAATCCATT
1 ATCATGAAACATTTACCTAAACCATT
*
71609807 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAAACCATT
71609833 ATCA
1 ATCA
71609837 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.04
26 69 0.93
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAAACCATT
Found at i:71609807 original size:52 final size:52
Alignment explanation
Indices: 71609729--71609836 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
71609719 TGAAATGCCC
* *
71609729 ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
* * *
71609781 ATCATGGAATATTTACCTAATCCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
71609833 ATCA
1 ATCA
71609837 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
Found at i:71616152 original size:51 final size:51
Alignment explanation
Indices: 71616076--71616259 Score: 359
Period size: 51 Copynumber: 3.6 Consensus size: 51
71616066 GCCGAACCAA
*
71616076 AGTTTCATGAAAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
1 AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
71616127 AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
1 AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
71616178 AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
1 AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
71616229 AGTTTCATGAGAGAGCAAACCTGAGGGCAGT
1 AGTTTCATGAGAGAGCAAACCTGAGGGCAGT
71616260 CTTCCGAGTT
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 132 1.00
ACGTcount: A:0.30, C:0.17, G:0.34, T:0.18
Consensus pattern (51 bp):
AGTTTCATGAGAGAGCAAACCTGAGGGCAGTGGCCAACATTGGGGAGGACT
Found at i:71618714 original size:18 final size:17
Alignment explanation
Indices: 71618691--71618727 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
71618681 GATAATGTTC
71618691 ATTTAACCGAATTAACTA
1 ATTTAACCGAATTAA-TA
71618709 ATTTAACCGAATTAATA
1 ATTTAACCGAATTAATA
71618726 AT
1 AT
71618728 AGCGTAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (17 bp):
ATTTAACCGAATTAATA
Found at i:71619829 original size:47 final size:47
Alignment explanation
Indices: 71619754--71619891 Score: 242
Period size: 47 Copynumber: 3.0 Consensus size: 47
71619744 GTTGAATTTA
71619754 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
71619800 AAGCTTGTTAAATTTACTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
71619847 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAG
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
71619892 GTAAAGAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.14
47 75 0.86
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:71621431 original size:40 final size:40
Alignment explanation
Indices: 71621380--71621539 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
71621370 ATTTTGCCGA
* * *
71621380 ATATAGCAACTCGCACAAATGCCTTCGGAACTTAGCTCGG
1 ATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGG
71621420 ATATAGTAACTCA-CACAAATGCCTTC-GAGACTTAGCCCGG
1 ATATAGTAACT-AGCACAAATGCCTTCGGA-ACTTAGCCCGG
* * * *
71621460 ATATAGTCACTAGCACAAATGCTTTCGGGACTTAGCCCAG
1 ATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGG
* * *
71621500 ATATAGTCACTAGCACAAATGCCTTCGGATCTTAGTCCGG
1 ATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGG
71621540 TTATCATCCG
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (40 bp):
ATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGG
Found at i:71629050 original size:40 final size:40
Alignment explanation
Indices: 71628878--71629055 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
71628868 AACCCAAGTA
* *
71628878 CCTTCGGGATTTAG-CCGGATATAGCAACTCGTACAAATG
1 CCTTCGGGACTTAGTCCGGATATAGCAACTCGCACAAATG
*
71628917 CCTTCGGGAGATTA-TCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGA-CTTAGTCCGGATATAGCAACTCGCACAAATG
* * *
71628957 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGTCCGGATATAGCAACTCGCACAAATG
* * *
71628997 CCTTCGAGACTTAGACCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGTCCGGATATAG-CAACTCGCACAAATG
71629037 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGA-CTTAGTCCGG
71629056 TTATCATCCG
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 14 0.12
40 107 0.88
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGTCCGGATATAGCAACTCGCACAAATG
Found at i:71630602 original size:45 final size:44
Alignment explanation
Indices: 71630537--71630708 Score: 206
Period size: 45 Copynumber: 3.9 Consensus size: 44
71630527 CGCATAGTAT
* *
71630537 TATTCAGGCCTTTGACCCTAGCAGGCTATAATGTCGGTGAGATAC
1 TATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
71630582 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
1 TATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
71630627 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA-
1 TATTCGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* * *
71630672 TA-TCGGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
71630709 ATGAATTCAG
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
42 10 0.09
43 14 0.12
44 14 0.12
45 76 0.66
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:71635022 original size:27 final size:27
Alignment explanation
Indices: 71634981--71635152 Score: 128
Period size: 27 Copynumber: 6.4 Consensus size: 27
71634971 TACTGAAATT
*
71634981 CCCTCGATTTGTAGAACTACCATTTAG
1 CCCTCGATTTGTAGAACTACCATTTAA
*
71635008 CCTTCGATTTGTAGAACTACCATTTAA
1 CCCTCGATTTGTAGAACTACCATTTAA
* * * * *
71635035 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTGTAGAACTACCATTTAA
** * * *
71635062 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTGTAGAACTACCATTTAA
** * * * *
71635089 CCCTTAATTTATAAAATTACCATTTTA
1 CCCTCGATTTGTAGAACTACCATTTAA
** * * *
71635116 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTGTAGAACTACCATTTAA
*
71635143 CCCTCAATTT
1 CCCTCGATTT
71635153 ACAAAATTAC
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTGTAGAACTACCATTTAA
Found at i:71635069 original size:54 final size:54
Alignment explanation
Indices: 71635025--71635175 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
71635015 TTTGTAGAAC
* * * * *
71635025 TACCATTTAACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
* *
71635079 TACCATTTTACCCTTAATTTATAAAATTACCATTTTACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
*
71635133 TACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCG
1 TACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCG
71635176 GTTGTGAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (54 bp):
TACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
Found at i:71635111 original size:81 final size:81
Alignment explanation
Indices: 71635025--71635173 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
71635015 TTTGTAGAAC
* * * * *
71635025 TACCATTTAACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTACAAAATTACCATTTTAC
1 TACCATTTAACCCTCGATTTACAAAATTACCATTTCACCCTCAATTTACAAAATTACCATTTTAC
71635090 CCTTAATTTATAAAAT
66 CCTTAATTTATAAAAT
* * *
71635106 TACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTAC
1 TACCATTTAACCCTCGATTTACAAAATTACCATTTCACCCTCAATTTACAAAATTACCATTTTAC
71635171 CCT
66 CCT
71635174 CGGTTGTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (81 bp):
TACCATTTAACCCTCGATTTACAAAATTACCATTTCACCCTCAATTTACAAAATTACCATTTTAC
CCTTAATTTATAAAAT
Found at i:71635153 original size:27 final size:27
Alignment explanation
Indices: 71635025--71635175 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
71635015 TTTGTAGAAC
* * *
71635025 TACCATTTAACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTACAAAAT
* * *
71635052 TATCGTTTCACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
** *
71635079 TACCATTTTACCCTTAATTTATAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
71635106 TACCATTTTACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
*
71635133 TACCATTTTACCCTCAATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
*
71635160 TACCGTTTTACCCTCG
1 TACCATTTTACCCTCG
71635176 GTTGTGAAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (27 bp):
TACCATTTTACCCTCGATTTACAAAAT
Found at i:71635200 original size:27 final size:26
Alignment explanation
Indices: 71635170--71635335 Score: 111
Period size: 27 Copynumber: 6.2 Consensus size: 26
71635160 TACCGTTTTA
*
71635170 CCCTCGGTTGTGAAATTACTGAAATAC
1 CCCT-GGTTGTGAAATTACCGAAATAC
* *
71635197 CCCT-GTAG-GATAGAATTACCAAAATAC
1 CCCTGGTTGTG--A-AATTACCGAAATAC
* * * *
71635224 CCTTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GGTTGTGAAATTACCGAAATAC
* *
71635251 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GGTTGTGAAATTACCGAAATAC
*
71635278 CACTGGTTTGTGAAATTACCGAAATAC
1 CCCTGG-TTGTGAAATTACCGAAATAC
*** * *
71635305 CCTCAATTTGTAAAATTACCAAAATAC
1 CC-CTGGTTGTGAAATTACCGAAATAC
71635332 CCCT
1 CCCT
71635336 AATTTACAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 3 0.03
27 101 0.90
28 2 0.02
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGGTTGTGAAATTACCGAAATAC
Found at i:71635251 original size:54 final size:52
Alignment explanation
Indices: 71635168--71635360 Score: 170
Period size: 54 Copynumber: 3.6 Consensus size: 52
71635158 ATTACCGTTT
* * * ** ** *
71635168 TACCCTCGGTTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAA
1 TACCCTAGTTTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAA
*
71635221 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 TACCC-TAGTTTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAA
* * * **
71635275 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTAGTTTGTAAAATTACCAAAATACCC-CTGTTTGTAAAATTACCAAAA
* ** *
71635329 TACCCCTAATTTACAAAATTACAAAAATACCC
1 TA-CCCTAGTTTGTAAAATTACCAAAATACCC
71635361 TTAACTTTCT
Statistics
Matches: 113, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
53 5 0.04
54 101 0.89
55 7 0.06
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (52 bp):
TACCCTAGTTTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAA
Found at i:71635446 original size:27 final size:27
Alignment explanation
Indices: 71635210--71635445 Score: 213
Period size: 27 Copynumber: 8.7 Consensus size: 27
71635200 TGTAGGATAG
71635210 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
71635237 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
71635264 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* * *
71635291 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * **
71635318 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
71635345 AATTACAAAAATACCCTTAACTTTCTAAA
1 AATTACCAAAATACCCTT-AGTTTGT-AA
** * * **
71635374 AATTATAAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
** *
71635401 AATTACTGAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
71635428 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
71635446 GTAAGATGAA
Statistics
Matches: 171, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 144 0.84
28 8 0.05
29 18 0.11
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:71635507 original size:27 final size:27
Alignment explanation
Indices: 71635464--71635537 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
71635454 AAATGACTAA
*
71635464 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
71635491 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
71635518 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
71635538 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:71635541 original size:27 final size:27
Alignment explanation
Indices: 71635477--71635541 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
71635467 ACCCCTAATA
*
71635477 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
71635504 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
71635531 GGTAAAATGAC
1 GGTAAAATGAC
71635542 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:71636389 original size:25 final size:24
Alignment explanation
Indices: 71636351--71636419 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
71636341 AGGAAGTGCT
*
71636351 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
71636375 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
71636400 AGAAAGGGCTTT-CCCTAGTT
1 A-AAAGGGCTTTGCCCCAGTT
71636420 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.20
25 32 0.80
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:71636697 original size:42 final size:42
Alignment explanation
Indices: 71636567--71636700 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
71636557 TAGTCTCCCC
*
71636567 AAATAGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
71636609 AAATTGGCTTGCATACATTCAATGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
71636651 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
71636693 AAATGGGC
1 AAATGGGC
71636701 CTAAGGGCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:71637364 original size:17 final size:17
Alignment explanation
Indices: 71637344--71637377 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71637334 GTTATTGAGT
71637344 TGTTGTGAAAATTGAAC
1 TGTTGTGAAAATTGAAC
*
71637361 TGTTGTGAATATTGAAC
1 TGTTGTGAAAATTGAAC
71637378 GAGTAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (17 bp):
TGTTGTGAAAATTGAAC
Found at i:71641846 original size:18 final size:17
Alignment explanation
Indices: 71641816--71641859 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
71641806 ATCCCGTTCG
*
71641816 TATTTTTAG-AAAACCTT
1 TATTTTTAGAAAAACC-A
71641833 TATTTTTAGTAAAAACCA
1 TATTTTTAG-AAAAACCA
71641851 TATTTTTAG
1 TATTTTTAG
71641860 CCAACCGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 9 0.38
19 6 0.25
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (17 bp):
TATTTTTAGAAAAACCA
Found at i:71649750 original size:17 final size:17
Alignment explanation
Indices: 71649718--71649751 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
71649708 GTGTTTTGTG
71649718 TTTAGTTTTTGATGATT
1 TTTAGTTTTTGATGATT
71649735 TTTACGTTTTTG-TGATT
1 TTTA-GTTTTTGATGATT
71649752 GTTGCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTAGTTTTTGATGATT
Found at i:71650489 original size:43 final size:43
Alignment explanation
Indices: 71650441--71650611 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 43
71650431 GTTATCGAGA
71650441 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
71650484 TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCAT-TAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * *
71650528 T-TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
71650569 ATGTGATCAAATGTAAGGCCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
71650612 GAGTTTATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 91 0.86
44 4 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:71650650 original size:19 final size:20
Alignment explanation
Indices: 71650622--71650665 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
71650612 GAGTTTATGT
*
71650622 GATTTCAAAGT-TCCTTAAC
1 GATTTAAAAGTATCCTTAAC
*
71650641 GATTTAAAAGTATCCTTAAT
1 GATTTAAAAGTATCCTTAAC
71650661 GATTT
1 GATTT
71650666 TGAATGGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (20 bp):
GATTTAAAAGTATCCTTAAC
Found at i:71655927 original size:17 final size:17
Alignment explanation
Indices: 71655905--71655940 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
71655895 CAGAAGCCAT
71655905 AGACAGGCCAACCAGTA
1 AGACAGGCCAACCAGTA
71655922 AGACAGGCCAACCAGTA
1 AGACAGGCCAACCAGTA
71655939 AG
1 AG
71655941 TTTTCAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.28, G:0.25, T:0.06
Consensus pattern (17 bp):
AGACAGGCCAACCAGTA
Found at i:71661073 original size:23 final size:22
Alignment explanation
Indices: 71661021--71661073 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
71661011 TCCACGTCTT
*
71661021 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
71661043 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
71661066 TTTCTTTT
1 TTTCTTTT
71661074 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:71663802 original size:16 final size:17
Alignment explanation
Indices: 71663767--71663825 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
71663757 GATGAGAATT
71663767 ATAAATTAAATAACTGAA
1 ATAAA-TAAATAACTGAA
71663785 ATAAATAAATAA-TGAA
1 ATAAATAAATAACTGAA
* *
71663801 ATAAACAAATGACT-AA
1 ATAAATAAATAACTGAA
*
71663817 ACAAATAAA
1 ATAAATAAA
71663826 ACCAATCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 23 0.64
17 8 0.22
18 5 0.14
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (17 bp):
ATAAATAAATAACTGAA
Found at i:71674548 original size:40 final size:40
Alignment explanation
Indices: 71674502--71674726 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
71674492 CTTGCACAAG
* * *
71674502 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
71674542 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
71674582 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
71674622 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
71674662 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
71674703 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
71674727 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:71674597 original size:80 final size:80
Alignment explanation
Indices: 71674466--71674726 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
71674456 CTCAAGAAAT
* * * * * * *
71674466 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
71674529 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
71674544 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
71674608 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
71674624 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
71674689 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
71674705 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71674727 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:71677475 original size:21 final size:21
Alignment explanation
Indices: 71677434--71677475 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71677424 AAGAAAGGAA
* **
71677434 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
71677455 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
71677476 GTTATTACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:71689721 original size:23 final size:22
Alignment explanation
Indices: 71689691--71689764 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
71689681 GGTTATGCTT
71689691 CACACGCCTGTGTGGAGGTAAAG
1 CACACGCCTGTGTGGA-GTAAAG
* * ****
71689714 CACACGCCCGTGT-TA-TGCCT
1 CACACGCCTGTGTGGAGTAAAG
71689734 CACACGCCTGTGTGGAGATAAAG
1 CACACGCCTGTGTGGAG-TAAAG
71689757 CACACGCC
1 CACACGCC
71689765 CATGTCCCTC
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 1 0.03
23 21 0.58
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (22 bp):
CACACGCCTGTGTGGAGTAAAG
Found at i:71689743 original size:43 final size:43
Alignment explanation
Indices: 71689682--71689765 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
71689672 AATTTCTAGG
* *
71689682 GTTATGCTTCACACGCCTGTGTGGAGGTAAAGCACACGCCCGT
1 GTTATGCCTCACACGCCTGTGTGGAGATAAAGCACACGCCCGT
71689725 GTTATGCCTCACACGCCTGTGTGGAGATAAAGCACACGCCC
1 GTTATGCCTCACACGCCTGTGTGGAGATAAAGCACACGCCC
71689766 ATGTCCCTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (43 bp):
GTTATGCCTCACACGCCTGTGTGGAGATAAAGCACACGCCCGT
Found at i:71701023 original size:40 final size:39
Alignment explanation
Indices: 71700992--71701201 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
71700982 GGACTAAGAT
* *
71700992 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
71701032 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
71701072 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
71701112 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
71701152 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
71701191 CCGAAGGCATT
1 CCGAAGGCATT
71701202 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:71701155 original size:120 final size:120
Alignment explanation
Indices: 71700939--71701201 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
71700929 TTGAATGCTG
* *
71700939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
71701003 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
71701059 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
71701122 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
71701178 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71701202 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:71701221 original size:79 final size:80
Alignment explanation
Indices: 71700940--71701236 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
71700930 TGAATGCTGT
* ** * * * **
71700940 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
71701003 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
71701020 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
71701084 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
71701100 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
71701164 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
71701179 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
71701237 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:71708969 original size:40 final size:39
Alignment explanation
Indices: 71708938--71709147 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
71708928 GGACTAAGAT
* *
71708938 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
71708978 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
71709018 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
71709058 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
71709098 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
71709137 CCGAAGGCATT
1 CCGAAGGCATT
71709148 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:71709101 original size:120 final size:120
Alignment explanation
Indices: 71708885--71709147 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
71708875 TTGAATGCTG
* *
71708885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
71708949 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
71709005 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
71709068 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
71709124 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71709148 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:71709167 original size:79 final size:80
Alignment explanation
Indices: 71708886--71709182 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
71708876 TGAATGCTGT
* ** * * * **
71708886 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
71708949 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
71708966 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
71709030 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
71709046 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
71709110 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
71709125 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
71709183 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:71733319 original size:54 final size:54
Alignment explanation
Indices: 71733252--71733358 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
71733242 AAAATCATAT
*
71733252 CATTAATGCATAAAGCCGAACCTTTAGACATTCAAACATCCTTTTCTCAAATCC
1 CATTAATGCATAAAGCCGAACCTTTAAACATTCAAACATCCTTTTCTCAAATCC
**
71733306 CATTAATGCATAAAGTTGAACCTTTAAACATTCAAACATCCTTTTCTCAAATC
1 CATTAATGCATAAAGCCGAACCTTTAAACATTCAAACATCCTTTTCTCAAATC
71733359 ACTTAAACAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (54 bp):
CATTAATGCATAAAGCCGAACCTTTAAACATTCAAACATCCTTTTCTCAAATCC
Found at i:71741974 original size:46 final size:46
Alignment explanation
Indices: 71741920--71742092 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
71741910 TGGTTGAGCA
71741920 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
71741966 TCCAAACTCATTGAGTTGAGTCCGACTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71742011 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71742059 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71742093 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71750655 original size:25 final size:25
Alignment explanation
Indices: 71750627--71750675 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
71750617 CTATTTTTGA
*
71750627 TAGTATATCTTAAAACTACTATAGG
1 TAGTATATATTAAAACTACTATAGG
* *
71750652 TAGTATATATTGAGACTACTATAG
1 TAGTATATATTAAAACTACTATAG
71750676 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (25 bp):
TAGTATATATTAAAACTACTATAGG
Found at i:71752257 original size:41 final size:41
Alignment explanation
Indices: 71752135--71752260 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 41
71752125 CAGTGATATA
* * *
71752135 ATATCAGGC-TATTGCCTAGCAGGCTTTGATGTCGGTGTATG
1 ATATCAAGCTTATTGCCTAGCAGGCTTTG-TGCCGGTGTATT
* * * * *
71752176 ATATCAGGCTTAATGCCTAGTAGGCTTTATGCTGGTGTATT
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
* *
71752217 A-ACTCAAGTTTATTACCTAGCAGGCTTTGTGCCGGTGTATT
1 ATA-TCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
71752258 ATA
1 ATA
71752261 CTAGGCTTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.01
41 51 0.74
42 17 0.25
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (41 bp):
ATATCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
Found at i:71758996 original size:28 final size:28
Alignment explanation
Indices: 71758962--71759018 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
71758952 GAAATTAAGG
71758962 TATGTAACTAGCTC-GATTTTTGTTAATT
1 TATGTAACTAGCTCAG-TTTTTGTTAATT
71758990 TATGTAACTAGCTCAGTTTTTGTTAATT
1 TATGTAACTAGCTCAGTTTTTGTTAATT
71759018 T
1 T
71759019 TTACGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.51
Consensus pattern (28 bp):
TATGTAACTAGCTCAGTTTTTGTTAATT
Found at i:71759859 original size:41 final size:44
Alignment explanation
Indices: 71759729--71759911 Score: 208
Period size: 42 Copynumber: 4.4 Consensus size: 44
71759719 TTGATATAAT
*
71759729 CTCAGGCTTATTCCCTAGCAGGCTTTGATG-CTGGTGTATGATA
1 CTCAGGCTTATTGCCTAGCAGGCTTTGATGTCTGGTGTATGATA
* *
71759772 -TCAGGCTTATTGCCCAGCAGGCTTTGATG-CCGGTGTATGATA
1 CTCAGGCTTATTGCCTAGCAGGCTTTGATGTCTGGTGTATGATA
* *
71759814 -TCAGGCTTAATGCCTAGCAGGCTTT-ATGTC-GGTGTATTA-A
1 CTCAGGCTTATTGCCTAGCAGGCTTTGATGTCTGGTGTATGATA
* * *
71759854 CTCAGGTTTATTGCCTAGCAGGCTATG-TG-CTGGTGTATTATA
1 CTCAGGCTTATTGCCTAGCAGGCTTTGATGTCTGGTGTATGATA
71759896 CT-AGGCTT-TATGCCTA
1 CTCAGGCTTAT-TGCCTA
71759912 ATAAATTTTA
Statistics
Matches: 124, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
40 3 0.02
41 55 0.44
42 66 0.53
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (44 bp):
CTCAGGCTTATTGCCTAGCAGGCTTTGATGTCTGGTGTATGATA
Found at i:71759876 original size:83 final size:83
Alignment explanation
Indices: 71759730--71759911 Score: 219
Period size: 83 Copynumber: 2.2 Consensus size: 83
71759720 TGATATAATC
* *
71759730 TCAGGCTTATTCCCTAGCAGGCTTTGATGCTGGTGTATGATATCAGGCTTATTGCCCAGCAGGCT
1 TCAGGCTTAATGCCTAGCAGGCTTTGATGCTGGTGTATGATATCAGGCTTATTGCCCAGCAGGCT
*
71759795 TTGATGCCGGTGTATGATA
66 ATG-TGCCGGTGTATGATA
* * *
71759814 TCAGGCTTAATGCCTAGCAGGCTTT-ATG-TCGGTGTATTA-ACTCAGGTTTATTGCCTAGCAGG
1 TCAGGCTTAATGCCTAGCAGGCTTTGATGCT-GGTGTATGATA-TCAGGCTTATTGCCCAGCAGG
* *
71759876 CTATGTGCTGGTGTATTATA
64 CTATGTGCCGGTGTATGATA
*
71759896 -CTAGGCTTTATGCCTA
1 TC-AGGCTTAATGCCTA
71759912 ATAAATTTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
81 1 0.01
82 28 0.33
83 34 0.40
84 23 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (83 bp):
TCAGGCTTAATGCCTAGCAGGCTTTGATGCTGGTGTATGATATCAGGCTTATTGCCCAGCAGGCT
ATGTGCCGGTGTATGATA
Found at i:71764322 original size:28 final size:28
Alignment explanation
Indices: 71764282--71764351 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
71764272 ATAGTAAGTC
*
71764282 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
71764310 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
71764338 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71764352 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:71769025 original size:22 final size:21
Alignment explanation
Indices: 71769000--71769063 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
71768990 TGCTACCAAA
71769000 TTTAAGGATGTATAATGCTCCC
1 TTTAAGGATG-ATAATGCTCCC
* *
71769022 TTTAATGGATGATAACAGCTCCT
1 TTTAA-GGATGATAA-TGCTCCC
* *
71769045 TTTAATGAAGAATAATGCT
1 TTTAAGGATG-ATAATGCT
71769064 TCCCCTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (21 bp):
TTTAAGGATGATAATGCTCCC
Found at i:71769032 original size:23 final size:23
Alignment explanation
Indices: 71769000--71769051 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
71768990 TGCTACCAAA
*
71769000 TTTAA-GGATGTATAA-TGCTCCC
1 TTTAATGGATG-ATAACAGCTCCC
*
71769022 TTTAATGGATGATAACAGCTCCT
1 TTTAATGGATGATAACAGCTCCC
71769045 TTTAATG
1 TTTAATG
71769052 AAGAATAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
TTTAATGGATGATAACAGCTCCC
Found at i:71769199 original size:10 final size:10
Alignment explanation
Indices: 71769164--71769216 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
71769154 ACCTGCAATT
71769164 AACACATTAA
1 AACACATTAA
*
71769174 AACAGACATATTA
1 AAC--ACAT-TAA
*
71769187 AACACATTTA
1 AACACATTAA
71769197 AACACA-TAA
1 AACACATTAA
71769206 AACACATTAA
1 AACACATTAA
71769216 A
1 A
71769217 TACTTAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 8 0.22
10 16 0.43
11 4 0.11
12 4 0.11
13 5 0.14
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (10 bp):
AACACATTAA
Found at i:71770347 original size:44 final size:44
Alignment explanation
Indices: 71770260--71770382 Score: 171
Period size: 44 Copynumber: 2.8 Consensus size: 44
71770250 CGAATTCATC
* * *
71770260 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCACGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGATATCATTT
*
71770302 CATCGGCATTATAGCCTGCTAGGCTC-AATGGCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAT-GCCCGATATCATTT
*
71770346 CACCGGCCTTATAGCCTGCTAGGCTCAAATGCCCGAT
1 CACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGAT
71770383 TAGTACCGTA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 44 0.61
45 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (44 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGATATCATTT
Found at i:71772925 original size:16 final size:17
Alignment explanation
Indices: 71772900--71772940 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
71772890 ATTTAGTTAA
71772900 TTTCTCTTTGAGTATAT
1 TTTCTCTTTGAGTATAT
71772917 TTTCT-TTTGAGTATAT
1 TTTCTCTTTGAGTATAT
71772933 TTTC-CTTT
1 TTTCTCTTT
71772941 AATATGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (17 bp):
TTTCTCTTTGAGTATAT
Found at i:71775501 original size:24 final size:26
Alignment explanation
Indices: 71775465--71775518 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
71775455 AATCAAAACC
71775465 TAAAAAAACTAAAAAAAAAAACT-AT
1 TAAAAAAACTAAAAAAAAAAACTAAT
* *
71775490 TAAAAAAA-TAAAACAAAAAATTAAT
1 TAAAAAAACTAAAAAAAAAAACTAAT
71775515 TAAA
1 TAAA
71775519 GGAGAGATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (26 bp):
TAAAAAAACTAAAAAAAAAAACTAAT
Found at i:71786133 original size:13 final size:14
Alignment explanation
Indices: 71786115--71786147 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
71786105 ATTTTTTAAA
*
71786115 TTTAAAACAAT-AT
1 TTTAAAAAAATAAT
71786128 TTTAAAAAAATAAT
1 TTTAAAAAAATAAT
71786142 TTTAAA
1 TTTAAA
71786148 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTAAAAAAATAAT
Found at i:71787577 original size:30 final size:30
Alignment explanation
Indices: 71787543--71787602 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71787533 TATTTTATTA
*
71787543 TTAATTTTGTTATTGTTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
71787573 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
71787603 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.17, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:71793637 original size:18 final size:18
Alignment explanation
Indices: 71793614--71793654 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
71793604 GACGAAAAAT
71793614 AGGGTTGTCGACGGCTTA
1 AGGGTTGTCGACGGCTTA
71793632 AGGGTTGTCGACGGCTTA
1 AGGGTTGTCGACGGCTTA
*
71793650 CGGGT
1 AGGGT
71793655 ATGTGGCCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.41, T:0.27
Consensus pattern (18 bp):
AGGGTTGTCGACGGCTTA
Found at i:71800843 original size:39 final size:42
Alignment explanation
Indices: 71800767--71800845 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 42
71800757 ATTATAAAAT
*
71800767 AAAATTATAAATATAATAAAAAAATAAAAAGTATTTTTAATA
1 AAAATTATAAATATAATAAAAAAATAAAAAATATTTTTAATA
*
71800809 AAAATTA-AAA-A-AATAAAATAATAAACAAAT-TTTTTAA
1 AAAATTATAAATATAATAAAAAAATAAA-AAATATTTTTAA
71800846 ACATCTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 20 0.59
40 4 0.12
41 3 0.09
42 7 0.21
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (42 bp):
AAAATTATAAATATAATAAAAAAATAAAAAATATTTTTAATA
Found at i:71802907 original size:55 final size:55
Alignment explanation
Indices: 71802820--71802935 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
71802810 TATGTAGGCC
* *
71802820 CACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTGC-TAGACACGGGCGTGTCG
1 CACGCCCGTGCTAATTTAACAGGTTCGACCAC-GGTGCTTACACACGGGCGTGTCG
* * * *
71802875 CACGCCCGTGCTATTTTAATAGGTTC-ACCCACGGTTCTTTCACACGGGCGTGTCG
1 CACGCCCGTGCTAATTTAACAGGTTCGA-CCACGGTGCTTACACACGGGCGTGTCG
*
71802930 AACGCC
1 CACGCC
71802936 TATGTTGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 5 0.10
55 47 0.90
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (55 bp):
CACGCCCGTGCTAATTTAACAGGTTCGACCACGGTGCTTACACACGGGCGTGTCG
Found at i:71803339 original size:56 final size:56
Alignment explanation
Indices: 71803272--71803381 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
71803262 ATCAAAATAA
** *
71803272 GTTTTAGACAGGTGTTGTTTACCTTAAAAGTGCTGAACTTGGGATGACTTACCTAG
1 GTTTTAGACAGGTGTTGTTTACCTTAAAAGTGCCAAACTGGGGATGACTTACCTAG
*
71803328 GTTTTAGACAGGTGTTTTTTACCTTAAAAGTGCCAAACTGGGGATGACTTACCT
1 GTTTTAGACAGGTGTTGTTTACCTTAAAAGTGCCAAACTGGGGATGACTTACCT
71803382 CGTCTGTACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (56 bp):
GTTTTAGACAGGTGTTGTTTACCTTAAAAGTGCCAAACTGGGGATGACTTACCTAG
Found at i:71818390 original size:12 final size:12
Alignment explanation
Indices: 71818375--71818467 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 12
71818365 CGCTGATAAG
71818375 GGAGATGATTTA
1 GGAGATGATTTA
* *
71818387 GGAGCTGA-TAA
1 GGAGATGATTTA
*
71818398 GGGAGAGGATTTA
1 -GGAGATGATTTA
* *
71818411 GGAGTTGA-TAA
1 GGAGATGATTTA
*
71818422 GGGAGAGGATTTA
1 -GGAGATGATTTA
* **
71818435 GGAGCTGATAAA
1 GGAGATGATTTA
*
71818447 GGAGACGATTTA
1 GGAGATGATTTA
*
71818459 GGAGCTGAT
1 GGAGATGAT
71818468 CAAGGATCAG
Statistics
Matches: 56, Mismatches: 21, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 4 0.07
12 48 0.86
13 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (12 bp):
GGAGATGATTTA
Done.