Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 5 of 410
Found at i:1235553 original size:136 final size:137
Alignment explanation
Indices: 1235309--1235594 Score: 547
Period size: 136 Copynumber: 2.1 Consensus size: 137
1235299 GAGTAGTCTC
1235309 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1235374 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1235438 ACTGTTA
131 ACTGTTA
1235445 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1235510 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1235575 ACTGTTA
131 ACTGTTA
**
1235582 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1235595 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 121 0.82
137 26 0.18
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1236660 original size:137 final size:137
Alignment explanation
Indices: 1236414--1236700 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
1236404 GAGTAGTCTC
1236414 CCCAAATGGGCTTGCATATGTTTACAGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACAGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1236479 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1236544 ACTGTTA
131 ACTGTTA
* *
1236551 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCGTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACAGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1236616 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1236681 ACTGTTA
131 ACTGTTA
**
1236688 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1236701 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACAGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1238892 original size:26 final size:26
Alignment explanation
Indices: 1238856--1238964 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
1238846 ATGAAATGCC
*
1238856 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
1238882 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
1238908 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
1238934 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
1238960 TATCA
1 TATCA
1238965 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:1239705 original size:31 final size:31
Alignment explanation
Indices: 1239667--1239728 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1239657 ATCCCATCTT
* * *
1239667 TAATTAATCAAAGTAATACATTAGTTGTTGA
1 TAATTAATAAAAGTAATAAATTAATTGTTGA
1239698 TAATTAATAAAAGTAATAAATTAATTGTTGA
1 TAATTAATAAAAGTAATAAATTAATTGTTGA
1239729 AGTTTATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (31 bp):
TAATTAATAAAAGTAATAAATTAATTGTTGA
Found at i:1240168 original size:21 final size:21
Alignment explanation
Indices: 1240119--1240168 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1240109 TATATGTCTT
* *
1240119 CTTCTAACTGCCTCCTTTTTG
1 CTTCTAATTGCCTCATTTTTG
*
1240140 CTTCTAATTGCTTCATTTTTG
1 CTTCTAATTGCCTCATTTTTG
1240161 CTTCTAAT
1 CTTCTAAT
1240169 ACCCGTTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.26, G:0.08, T:0.52
Consensus pattern (21 bp):
CTTCTAATTGCCTCATTTTTG
Found at i:1241594 original size:16 final size:16
Alignment explanation
Indices: 1241550--1241597 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
1241540 AACTATAATT
1241550 TATTAAATAAAA-ATTA
1 TATT-AATAAAATATTA
1241566 TATTAATTAAAATATTA
1 TATTAA-TAAAATATTA
*
1241583 TTTTAATAAAATATT
1 TATTAATAAAATATT
1241598 TAATTTTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 18 0.62
17 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAATAAAATATTA
Found at i:1243967 original size:30 final size:30
Alignment explanation
Indices: 1243931--1243990 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1243921 ATCCAGTAAG
1243931 TTAGGATACGACATCTTAAATTTTCGAGAA
1 TTAGGATACGACATCTTAAATTTTCGAGAA
1243961 TTAGGATACGACATCTTAAATTTTCGAGAA
1 TTAGGATACGACATCTTAAATTTTCGAGAA
1243991 CGAGCTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (30 bp):
TTAGGATACGACATCTTAAATTTTCGAGAA
Found at i:1244625 original size:3 final size:3
Alignment explanation
Indices: 1244617--1244668 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
1244607 ATGTTATGTC
* * *
1244617 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1244665 TAA T
1 TAA T
1244669 GTAAATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1244802 original size:23 final size:23
Alignment explanation
Indices: 1244776--1244829 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1244766 TAAAGTAAAA
*
1244776 AATAATAGTAAT-TCATTAATAAG
1 AATAATAGTAATAT-ATTAATAAC
* *
1244799 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATATATTAATAAC
1244822 AATAATAG
1 AATAATAG
1244830 AAAATAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AATAATAGTAATATATTAATAAC
Found at i:1246357 original size:44 final size:44
Alignment explanation
Indices: 1246293--1246619 Score: 205
Period size: 44 Copynumber: 7.4 Consensus size: 44
1246283 TGAGTTCTTA
* *
1246293 ATCTGCT-TCTTCAATCTGTTCCCCATAAACACAGGGATGCCAT
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAT
* * * * *
1246336 ATCTGCTGTTTTCAA-CTTGTTCCCTATAAGTATAGGGATGTCAT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAT
* ** * * * * * *
1246380 -GCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAT
* * *
1246424 ATCTGCTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAT
* * *
1246468 ATCTACTGTTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCCAT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAT
* ** * * * * * *
1246512 -GCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAT
* * ** * * * *
1246556 ATCTGCTACCTTCGATCTGTTTTACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAT
* *
1246601 ACCTGCTATCTTCAGTCTG
1 ATCTGCTATCTTCAATCTG
1246620 CTTCTCTGCA
Statistics
Matches: 220, Mismatches: 55, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
43 28 0.13
44 125 0.57
45 67 0.30
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAT
Found at i:1246436 original size:45 final size:45
Alignment explanation
Indices: 1246386--1246623 Score: 227
Period size: 44 Copynumber: 5.4 Consensus size: 45
1246376 TCATGCTGAA
1246386 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
* * * * * * *
1246431 ATCTTCGATCT-ATTCCCTATAAGCACAGGGATGCCAAATCTACT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
* * * * * * * **
1246475 GTTTTC-AACTTG-TTCCCTATAAGCACAGGGATG-C-CATGCTGAA
1 ATCTTCGATC-TGCTTCACTGTAAGCACAGGAATGTCAGAT-CTGCT
1246518 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
* * * *
1246563 ACCTTCGATCTGTTTTACTGTAAGCACAGGAATGTCAGACCTGCT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
1246608 ATCTTC-AGTCTGCTTC
1 ATCTTCGA-TCTGCTTC
1246624 TCTGCAACTT
Statistics
Matches: 155, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.01
43 11 0.07
44 73 0.47
45 67 0.43
46 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
Found at i:1246537 original size:132 final size:132
Alignment explanation
Indices: 1246293--1246573 Score: 465
Period size: 132 Copynumber: 2.1 Consensus size: 132
1246283 TGAGTTCTTA
* * * *
1246293 ATCTGCT-TCTTCAATCTGTTCCCCATAAACACAGGGATGCCATATCTGCTGTTTTCAACTTGTT
1 ATCTGCTATCTTCGATCTATTCCCCATAAACACAGGGATGCCAAATCTACTGTTTTCAACTTGTT
* * *
1246357 CCCTATAAGTATAGGGATGTCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
66 CCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
1246422 AG
131 AG
* *
1246424 ATCTGCTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAAATCTACTGTTTTCAACTTGTT
1 ATCTGCTATCTTCGATCTATTCCCCATAAACACAGGGATGCCAAATCTACTGTTTTCAACTTGTT
1246489 CCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
66 CCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
1246554 AG
131 AG
*
1246556 ATCTGCTACCTTCGATCT
1 ATCTGCTATCTTCGATCT
1246574 GTTTTACTGT
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 7 0.05
132 132 0.95
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (132 bp):
ATCTGCTATCTTCGATCTATTCCCCATAAACACAGGGATGCCAAATCTACTGTTTTCAACTTGTT
CCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
AG
Found at i:1246749 original size:68 final size:68
Alignment explanation
Indices: 1246665--1246912 Score: 363
Period size: 68 Copynumber: 3.6 Consensus size: 68
1246655 GATCTTCTTC
* * * ** * * *
1246665 CGCTGAAACTTTAAGGAAATCTGATGTAACTTTTAGTCGTTCCAACGCCATTTCAGGGAGAAGA-
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAG
*
1246729 GAT
66 GTT
* *
1246732 CTACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACACCATTTCAGGAAGAAGA
1 C-GCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGA
1246797 GGTT
65 GGTT
* *
1246801 CGCTGAAACTTCAAGGAGATCTGCTGTGGGTTTTAACCGCTCCAACGCCATTTCAGGAAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAG
1246866 GTT
66 GTT
1246869 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCA
1246913 CTGCTGTTTA
Statistics
Matches: 162, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
67 1 0.01
68 158 0.98
69 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (68 bp):
CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAG
GTT
Found at i:1247049 original size:42 final size:44
Alignment explanation
Indices: 1246954--1247713 Score: 315
Period size: 43 Copynumber: 17.5 Consensus size: 44
1246944 CGATCTATTT
*
1246954 CCCTACTGCTTAGGAGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
1246999 CCCTACTGCTTGGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTA
1 CCCTACTGCTTGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
* * ** * ** *
1247041 CCCTACTGCTTAGGGGTTAA-AGC-CCATCATCTTCAATCTGTTT
1 CCCTACTGCTTGGGGGTTAAGATCTGTA-AATCTTCAGCCTGTTA
* *
1247084 CCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGATCTCT-TT-
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTTA
* * * * *
1247127 CCCTACTGCTTAGGGAGATAAGATCTG-CAA--TTCGGTCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * * ** * *
1247169 CCCTACTGATTAGGGGTTTAAGACCCT-T-CGTCTTC-GATCTGTTT
1 CCCTACTGCTT-GGGGGTTAAGA-TCTGTAAATCTTCAG-CCTGTTA
* *
1247213 CTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
1247258 CCCTACTGCTTGGGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
* ** * * *
1247301 CCCTACTGCTTAGGGGGTTAA-AGC-CCATCATCTTC-GATCTGTTT
1 CCCTACTGCTT-GGGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTA
* * *
1247345 CCCTACTGCTTAGGGGTTAAGATCT-T-CATCTTCGATCTCT-TT-
1 CCCTACTGCTTGGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTTA
* * * *
1247387 CCCTACTGCTTAGGGAGATAAGATCTG-CAA--TTC-GTTCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTA
* * * * ** * *
1247429 CCCTACCGATTAGGGGTTTAAGACCCT-T-CGTCTTC-GATCTGTTT
1 CCCTACTGCTT-GGGGGTTAAGA-TCTGTAAATCTTCAG-CCTGTTA
1247473 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
1247518 CCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
* ** * * * *
1247561 CCCTACTGCTTAGGGGGTTAA-AGC-CCATCATCTT-TGATCTGTTT
1 CCCTACTGCTT-GGGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTA
*
1247605 TCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * * * *
1247650 CCCTACTGCTTAGAGGTTTAAG-GCTTGTAAA--TTCGGCTTGTTA
1 CCCTACTGCTT-GGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
*
1247693 CCCTACTACTTAGGGGGTTAA
1 CCCTACTGCTT-GGGGGTTAA
1247714 AGCCCATTAT
Statistics
Matches: 550, Mismatches: 110, Indels: 112
0.71 0.14 0.15
Matches are distributed among these distances:
40 5 0.01
41 8 0.01
42 95 0.17
43 172 0.31
44 139 0.25
45 127 0.23
46 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
CCCTACTGCTTGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
Found at i:1247133 original size:86 final size:86
Alignment explanation
Indices: 1246934--1247923 Score: 512
Period size: 86 Copynumber: 11.4 Consensus size: 86
1246924 GGTTTTAGGT
* * * ** * *
1246934 TCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGAGGTTAAGATCTGTAAATCTTC-AGCCTGTT
1 TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG-GGTTAAG-CCCATACATCTTCGA-TCTGTT
1246998 ACCCTACTGCTT-GGGGGTTAAG-
63 ACCCTACTGCTTAGGGGGTTAAGA
* * * * * *
1247020 GCTTGTAAAT-TTGGCT-TGTTACCCTACTGCTTAGGGGTTAAAGCCCAT-CATCTTCAATCTGT
1 TC-T-T-CATCTTCGATCTGTTTCCCTACTGCTTAGGGGTT-AAGCCCATACATCTTCGATCTGT
*
1247082 TTCCCTACTGCTTAGGGGGTTAAGA
62 TACCCTACTGCTTAGGGGGTTAAGA
* * ** * * *
1247107 TCTTCATCTTCGATCTCTTTCCCTACTGCTTAGGGAGATAAGATC-TGCA-ATTCGGTCTGTTAC
1 TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG-GTTAAGCCCATACATCTTCGATCTGTTAC
* *
1247170 CCTACTGATTAGGGGTTTAAGA
65 CCTACTGCTTAGGGGGTTAAGA
* * * * ** * *
1247192 CCCTTCGTCTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTC-AGCCTGT
1 -TCTTCATCTTCGATCTGTTTCCCTACTGCTT-AGGGGTTAAG-CCCATACATCTTCGA-TCTGT
*
1247256 TACCCTACTGCTTGGGGGGTTAAG-
62 TACCCTACTGCTTAGGGGGTTAAGA
* * * * *
1247280 GCTTGTAAAT-TTGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTG
1 TC-T-T-CATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTT-AAGCCCATACATCTTCGATCTG
*
1247342 TTTCCCTACTGCTTA-GGGGTTAAGA
61 TTACCCTACTGCTTAGGGGGTTAAGA
* * ** * * *
1247367 TCTTCATCTTCGATCTCTTTCCCTACTGCTTAGGGAGATAAGATC-TGCA-ATTCGTTCTGTTAC
1 TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG-GTTAAGCCCATACATCTTCGATCTGTTAC
* * *
1247430 CCTACCGATTAGGGGTTTAAGA
65 CCTACTGCTTAGGGGGTTAAGA
* * * ** * *
1247452 CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGT
1 -TCTTCATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAG-CCCATACATCTTCGA-TCTGT
1247516 TACCCTACTGCTTAGGGGGTTAAG-
62 TACCCTACTGCTTAGGGGGTTAAGA
* * * * * *
1247540 GCTTGTAAAT-TTGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTTGATCTG
1 TC-T-T-CATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTT-AAGCCCATACATCTTCGATCTG
**
1247602 TTTTCCTACTGCTTAGGGGGTTAAGA
61 TTACCCTACTGCTTAGGGGGTTAAGA
* * * * *** * *
1247628 TCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAGAGGTTTAAGGCTTGTA-A-ATTCG-GCTT
1 TCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTTAG-GGGTTAA-GCCCATACATCTTCGATC-T
* *
1247689 GTTACCCTACTACTTAGGGGGTTAAAGC
60 GTTACCCTACTGCTTAGGGGGTT-AAGA
* * ** * *
1247717 CCATT-ATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATC-TGCAAT-TT-GGTCTGTT
1 TC-TTCATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGCCCATAC-ATCTTCGATCTGTT
* * *
1247778 ACCCTACCGATTAGGGGTTTAAGA
63 ACCCTACTGCTTAGGGGGTTAAGA
* * * * ** * *
1247802 CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGAGATAAGATC-TGCA-ATTCGATCTGTTA
1 -TCTTCATCTTCGATCTGTTTCCCTACTGCTTAG-GGGTTAAGCCCATACATCTTCGATCTGTTA
* * * * *
1247865 CTCTACCGATTAGAGGTTTAAGA
64 CCCTACTGCTTAGGGGGTTAAGA
* * *
1247888 CCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGG
1 -TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1247924 TGATGAGATA
Statistics
Matches: 705, Mismatches: 138, Indels: 123
0.73 0.14 0.13
Matches are distributed among these distances:
84 25 0.04
85 92 0.13
86 262 0.37
87 128 0.18
88 92 0.13
89 103 0.15
90 3 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGCCCATACATCTTCGATCTGTTACC
CTACTGCTTAGGGGGTTAAGA
Found at i:1247342 original size:132 final size:131
Alignment explanation
Indices: 1246940--1247763 Score: 1077
Period size: 132 Copynumber: 6.3 Consensus size: 131
1246930 AGGTTCTTCG
* *
1246940 TCTTCGATCTATTTCCCTACTGCTTAGGAGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1247005 TGCTT-GGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATC
66 TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATC
1247069 A
131 A
* * *
1247070 TCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGATCTCT-TT-CCCT
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTTACCCT
* * * * * * *
1247131 ACTGCTTAGGGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACTGATTAGGGGTTTAAGAC
64 ACTGCTTAGGGGGTTAAGGCT-TGTAAATTTGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-C
* *
1247193 CCTTCG
126 CCATCA
* *
1247199 TCTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
*
1247264 TGCTTGGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT
66 TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCAT
1247329 CA
130 CA
* *
1247331 TCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCT-T-CATCTTCGATCTCT-TT-CCCT
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTTACCCT
* * * * * * * * *
1247391 ACTGCTTAGGGAGATAA-GATCTG-CAA-TTCGTTCTGTTACCCTACCGATTAGGGGTTTAAGAC
64 ACTGCTTAGGGGGTTAAGGCT-TGTAAATTTGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-C
* *
1247453 CCTTCG
126 CCATCA
1247459 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1247524 TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT
66 TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCAT
1247589 CA
130 CA
* *
1247591 TCTTTGATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
* * * *
1247656 TGCTTAGAGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCAT
66 TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCAT
*
1247721 TA
130 CA
*
1247723 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTG
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTG
1247764 CAATTTGGTC
Statistics
Matches: 599, Mismatches: 67, Indels: 54
0.83 0.09 0.08
Matches are distributed among these distances:
127 14 0.02
128 100 0.17
129 99 0.17
130 54 0.09
131 68 0.11
132 241 0.40
133 23 0.04
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (131 bp):
TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
TGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATC
A
Found at i:1247395 original size:260 final size:260
Alignment explanation
Indices: 1246935--1247763 Score: 1293
Period size: 260 Copynumber: 3.2 Consensus size: 260
1246925 GTTTTAGGTT
*
1246935 CTTCGTCTTCGATCTATTTCCCTACTGCTT-AGGAGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGG-GGTTAAGATCTGTAAATCTTCAGCCTGTTA
1246999 CCCTACTGCTTGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTA-GGGGTTAAAG
65 CCCTACTGCTTGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
*
1247063 CCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTCTTTC
130 CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTCTTTC
1247128 CCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGAC
195 CCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGAC
1247193 C
260 C
*
1247194 CTTCGTCTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTAC
1 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTAC
1247259 CCTACTGCTTGGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
66 CCTACTGCTT-GGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
1247324 CCCATCATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTTCATCTTCGATCTCTTTC
130 CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTCTTTC
* *
1247388 CCTACTGCTTAGGGAGATAAGATCTGCAATTCGTTCTGTTACCCTACCGATTAGGGGTTTAAGAC
195 CCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGAC
1247453 C
260 C
*
1247454 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTAC
1 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTAC
1247519 CCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
66 CCTACTGCTT-GGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
* * * *
1247584 CCCATCATCTTTGATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC-CTG
130 CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGATCTCT-
** * *
1247647 TTACCCTACTGCTTAGAGG-TTTAAG-GCTTGTAAATTCGG-CTTGTTACCCTACT-ACTTAGGG
192 TT-CCCTACTGCTTAG-GGAGATAAGATC-TG-CAATTCGGTC-TGTTACCCTACTGA-TTAGGG
*
1247708 GGTTAA-AGCC
251 GTTTAAGA-CC
* * *
1247718 CATT-ATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTG
1 C-TTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTG
1247764 CAATTTGGTC
Statistics
Matches: 534, Mismatches: 21, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
259 69 0.13
260 299 0.56
261 57 0.11
262 6 0.01
263 28 0.05
264 73 0.14
265 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (260 bp):
CTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTAC
CCTACTGCTTGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGC
CCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTCTTTCC
CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGACC
Found at i:1247673 original size:392 final size:390
Alignment explanation
Indices: 1246940--1247763 Score: 1089
Period size: 392 Copynumber: 2.1 Consensus size: 390
1246930 AGGTTCTTCG
*
1246940 TCTTCGATCTATTTCCCTACTGCTTAGGAGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGTTTCCCTACTGCTTAGG-GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
* * * * *
1247005 TGCTTGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCA
65 TGCTTGGGAGATAAGGCTTGTAAATTCGGCTTGTTACCCTACCGATTAGGGGTTAAAGCCCATCA
* *
1247070 TCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTCTTTCCCTACTG
130 TCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTAATCTTCGAGCTCTTTCCCTACTG
* * * *
1247135 CTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGACCCTTCGT
195 CTTAGGGAGATAAGATCTGAAATTCGGTCTGTTACCCTACTGATTAGGGGTTAAAGACCCATCAT
1247200 CTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACT
260 CTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACT
* * * *
1247265 GCTTGGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATC
325 GCTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCATC
1247330 A
390 A
* *
1247331 TCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCT-T-CATCTTCGATCTCT-TT-CCCTA
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTTACCCTA
* * * *
1247392 CTGCTTAGGGAGATAA-GATCTG-CAATTC-GTTCTGTTACCCTACCGATTAGGGGTTTAAGACC
64 CTGCTT-GGGAGATAAGGCT-TGTAAATTCGGCT-TGTTACCCTACCGATTAGGGGTTAAAG-CC
* * *
1247454 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC-CTGTT
125 CATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-AATCTTCGAGCTCT-TT
* * * * *
1247517 ACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGG-CTTGTTACCCTACTGCTTAGGGGGTT
187 -CCCTACTGCTTAGGGAGATAAGATC-TG-AAATTCGGTC-TGTTACCCTACTGATTA-GGGGTT
* *
1247580 AAAG-CCCATCATCTTTGATCTGTTT-TCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG
247 AAAGACCCATCATCTTCGATCTGTTTCT-CTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAG
*
1247643 CCTGTTACCCTACTGCTTAGAGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGG
311 CCTGTTACCCTACTGCTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGG
*
1247708 GGTTAAAGCCCATTA
376 GGTTAAAGCCCATCA
*
1247723 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTG
1 TCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTG
1247764 CAATTTGGTC
Statistics
Matches: 381, Mismatches: 35, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
387 2 0.01
388 47 0.12
389 60 0.16
390 19 0.05
391 57 0.15
392 175 0.46
393 21 0.06
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (390 bp):
TCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACT
GCTTGGGAGATAAGGCTTGTAAATTCGGCTTGTTACCCTACCGATTAGGGGTTAAAGCCCATCAT
CTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTAATCTTCGAGCTCTTTCCCTACTGC
TTAGGGAGATAAGATCTGAAATTCGGTCTGTTACCCTACTGATTAGGGGTTAAAGACCCATCATC
TTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTG
CTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCA
Found at i:1247828 original size:44 final size:44
Alignment explanation
Indices: 1247772--1247923 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
1247762 TGCAATTTGG
1247772 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
1 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
* * * * * * * **
1247816 TCTGTTTCCCTACTGCTTAGAGAG-ATAAGA-TCTGC-AATTCGA
1 TCTGTTACCCTACCGATTAG-GGGTTTAAGACCCTTCGTCTTCGA
* *
1247858 TCTGTTACTCTACCGATTAGAGGTTTAAGACCCTTCGTCTTCGA
1 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
* * * *
1247902 TCTATTTCCCTACTGCTTAGGG
1 TCTGTTACCCTACCGATTAGGG
1247924 TGATGAGATA
Statistics
Matches: 78, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.33
43 6 0.08
44 43 0.55
45 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (44 bp):
TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
Found at i:1247831 original size:436 final size:441
Alignment explanation
Indices: 1247338--1248215 Score: 1245
Period size: 436 Copynumber: 2.0 Consensus size: 441
1247328 TCATCTTCGA
* * * * *
1247338 TCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTCTTTCCCTACTGCTTAGGGA
1 TCTGTTACCCTACCGATTAGGGGTTAAGACCTTCATCTTCGATCTCTTTCCCTACTGCTTAGAGA
* *
1247403 GATAAGATCTGCAATTCGTTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATC
66 GATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGAGGTTTAAGACCCTTCGTCTTCGATC
* * *
1247468 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
131 TATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
* * *
1247533 GGTTAAGG-CTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
196 GGTTAAGGTC-TGTAAATTTGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATATTCG
* * * *
1247597 ATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA
260 ATCTATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTTA
*
1247662 -G-A-GG-T-TTA-A-GGCTT-GTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCC
325 GGAATGGCTGTTACACGGCTTAGGAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCC
1247719 ATTA-TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTTGG
390 ATTACT-TTCGATCTGTTTCCCTACTGCTTAGGGGG-TAAGATCTGCAATTTGG
* *
1247772 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGA
1 TCTGTTACCCTACCGATTAGGGG-TTAAGA-CCTTCATCTTCGATCTCTTTCCCTACTGCTTAGA
*
1247837 GAGATAAGATCTGCAATTCGATCTGTTACTCTACCGATTAGAGGTTTAAGACCCTTCGTCTTCGA
64 GAGATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGAGGTTTAAGACCCTTCGTCTTCGA
* * * * *
1247902 TCTATTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTTAGCCTGTTTCCCTACTGCTTAG
129 TCTATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTTAG
*
1247967 GGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCTCATCATATTC
194 GGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATATTC
* * * *
1248032 GATCTATTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTGTTTCCCTACTGCTT
259 GATCTATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTT
* *
1248097 AGGGAAATTCGGCTTGTTACCCTACTGCTTAGGGAAATTCGGCTTGTTACCCTACTGCTTAGGGG
324 A-GG-AA-T-GGC-TGTTA--C-ACGGCTTA-GGAAATTCGGCTTGTTACCCTACTACTTAGGGG
* *
1248162 GTTGAAGCCCATTACTTTTGATCTGTTTCCCTACTGCTTAGGGGGTAAGATCTG
380 GTTAAAGCCCATTACTTTCGATCTGTTTCCCTACTGCTTAGGGGGTAAGATCTG
1248216 TAATCTTCAG
Statistics
Matches: 388, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
434 20 0.05
435 6 0.02
436 266 0.69
437 1 0.00
438 1 0.00
440 1 0.00
443 2 0.01
445 1 0.00
446 3 0.01
450 1 0.00
451 4 0.01
452 9 0.02
453 72 0.19
454 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (441 bp):
TCTGTTACCCTACCGATTAGGGGTTAAGACCTTCATCTTCGATCTCTTTCCCTACTGCTTAGAGA
GATAAGATCTGCAATTCGATCTGTTACCCTACCGATTAGAGGTTTAAGACCCTTCGTCTTCGATC
TATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATATTCGA
TCTATTTCCCTACTGCTTAGGGGGATAAGATATGTAAATCTTCAGCCTGTTACCCTACTGCTTAG
GAATGGCTGTTACACGGCTTAGGAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTAAAGCCCA
TTACTTTCGATCTGTTTCCCTACTGCTTAGGGGGTAAGATCTGCAATTTGG
Found at i:1247878 original size:42 final size:42
Alignment explanation
Indices: 1247725--1247880 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 42
1247715 GCCCATTATC
* * * *
1247725 TTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAA
1 TTCGATCTGTTACCCTACCGATTAGAGGGATAAGATCTGCAA
* * * * * **
1247767 TTTGGTCTGTTACCCTACCGATTAG-GGGTTTAAGACCCTTCGTC
1 TTCGATCTGTTACCCTACCGATTAGAGGG-ATAAGA-TCTGC-AA
* * * *
1247811 TTCGATCTGTTTCCCTACTGCTTAGAGAGATAAGATCTGCAA
1 TTCGATCTGTTACCCTACCGATTAGAGGGATAAGATCTGCAA
*
1247853 TTCGATCTGTTACTCTACCGATTAGAGG
1 TTCGATCTGTTACCCTACCGATTAGAGG
1247881 TTTAAGACCC
Statistics
Matches: 84, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
41 3 0.04
42 48 0.57
43 6 0.07
44 25 0.30
45 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
TTCGATCTGTTACCCTACCGATTAGAGGGATAAGATCTGCAA
Found at i:1248011 original size:392 final size:392
Alignment explanation
Indices: 1247127--1248017 Score: 903
Period size: 392 Copynumber: 2.3 Consensus size: 392
1247117 CGATCTCTTT
* * ** * * *
1247127 CCCTACTGCTTAGGGAGATAA-GATCTG-CAATTCGGTCTGTTACCCTACTGATTA-GGGGTTTA
1 CCCTACTGCTTAGGGGGATAAGGAT-TGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* ** * * * *
1247189 AGACCCTTCGTCTTCGATCTGTTTCTCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCT
65 AG-CCCATAATCTTGGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCT
* * * *
1247254 GTTACCCTACTGCTTGGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGT
129 GTTACCCTACTGCTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGT
* *
1247319 TAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTC
194 TAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGATAAGATCTGCATCTTCGATCTC
* * * * * * *
1247384 TTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTCGTTCTGTTACCCTACCGATTAGGGGTTTA
259 TTACCCTACCGATTAGGGAGATAAGACCTGCAATTCGATCTGTTACCCTACCGATTAGGAGTATA
* ** * * * * *
1247449 AGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCT
324 AGACCCTGCGAATTCGATCTGTTACCCTACCGATTAGAGGGTTAAGACCTGTAAATCTTCAGCCT
*
1247514 GTTA
389 ATTA
* * * *
1247518 CCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTGCTTAGGGGGATAAGGATTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAA
* * **
1247583 GCCCATCATCTTTGATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGT
66 GCCCATAATCTTGGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGT
*
1247648 TACCCTACTGCTTAGAGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTA
131 TACCCTACTGCTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTA
* * *
1247713 AAGCCCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAAT-TT-GGTCTG
196 AAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA-GGGGATAAGATCTGC-ATCTTCGATCTC
* * ** * * *
1247776 TTACCCTACCGATTAGGG-GTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGAG
259 TTACCCTACCGATTAGGGAG-ATAAGA-CCTGC-AATTCGATCTGTTACCCTACCGATTAG-GAG
* * * **
1247840 -ATAAGA-TCTGC-AATTCGATCTGTTACTCTACCGATTAGAGGTTTAAGACCCT-T-CGTCTTC
320 TATAAGACCCTGCGAATTCGATCTGTTACCCTACCGATTAGAGGGTTAAGA-CCTGTAAATCTTC
* *
1247900 -GATCTATTT
384 AG-CCTATTA
* * * *
1247909 CCCTACTGCTTAGGGTGATGA-GATATGTAGATCTTTAGCCTGTTTCCCTACTGCTTAGGGGGTT
1 CCCTACTGCTTAGGGGGATAAGGAT-TGTA-A-ATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * *
1247973 AAGGTCTGTAAAT-TTGGCT-TGTTACCCTACTACTTAGGGGGTTAA
63 AAAGCCCAT-AATCTTGGATCTGTTACCCTACTGCTTAGGGGGTTAA
1248018 AGCTCATCAT
Statistics
Matches: 412, Mismatches: 73, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
390 3 0.01
391 53 0.13
392 255 0.62
393 69 0.17
394 30 0.07
395 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (392 bp):
CCCTACTGCTTAGGGGGATAAGGATTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAA
GCCCATAATCTTGGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGT
TACCCTACTGCTTAGAGGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTACTTAGGGGGTTA
AAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGATAAGATCTGCATCTTCGATCTCTT
ACCCTACCGATTAGGGAGATAAGACCTGCAATTCGATCTGTTACCCTACCGATTAGGAGTATAAG
ACCCTGCGAATTCGATCTGTTACCCTACCGATTAGAGGGTTAAGACCTGTAAATCTTCAGCCTAT
TA
Found at i:1248091 original size:45 final size:45
Alignment explanation
Indices: 1247906--1248100 Score: 152
Period size: 45 Copynumber: 4.4 Consensus size: 45
1247896 CTTCGATCTA
*
1247906 TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTTAGCCTG
1 TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTG
* * * * * * * *
1247951 TTTCCCTACTGCTTAGGGGGTTAAGGTCTGTAAAT-TT-GGCTTG
1 TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTG
* * * * * * * *
1247994 TTACCCTACTACTTAGGG-GGTTA-A-A-GCTCATCATATTC-GATCTA
1 TTTCCCTACTGCTTAGGGTGATGAGATATG-T-A-GATCTTCAG-CCTG
1248038 TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTG
1 TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTG
1248083 TTTCCCTACTGCTTAGGG
1 TTTCCCTACTGCTTAGGG
1248101 AAATTCGGCT
Statistics
Matches: 113, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 1 0.01
42 5 0.04
43 23 0.20
44 19 0.17
45 57 0.50
46 3 0.03
47 2 0.02
48 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (45 bp):
TTTCCCTACTGCTTAGGGTGATGAGATATGTAGATCTTCAGCCTG
Found at i:1248122 original size:30 final size:30
Alignment explanation
Indices: 1248081--1248160 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
1248071 ATCTTCAGCC
*
1248081 TGTTTCCCTACTGCTTAGGGAAATTCGGCT
1 TGTTACCCTACTGCTTAGGGAAATTCGGCT
1248111 TGTTACCCTACTGCTTAGGGAAATTCGGCT
1 TGTTACCCTACTGCTTAGGGAAATTCGGCT
1248141 TGTTACCCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
1248161 GGTTGAAGCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (30 bp):
TGTTACCCTACTGCTTAGGGAAATTCGGCT
Found at i:1248394 original size:45 final size:44
Alignment explanation
Indices: 1248207--1248750 Score: 367
Period size: 44 Copynumber: 11.9 Consensus size: 44
1248197 GCTTAGGGGG
* *
1248207 TAAGATCTGTAATCTTCAGTCTGCTCCACTGCGACTTCAGGGAGA
1 TAAGATTTGT-ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
** * * * * *
1248252 CGAGACTTGTAACTTC-GACCTGCTCTACTGCAACTTCAGAGAGA
1 TAAGATTTGTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
1248296 TAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
1 TAAGATTTGT-A---T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * *
1248346 TAAGATTTGCTATCTTCAGTCTACTCTATTGCAACTTCAGGGAGA
1 TAAGATTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * * *
1248391 TAAGACTTGTAACTTC-GACCTGCTCTATTGCAACTTCAGAGAGA
1 TAAGATTTGTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
1248435 TAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAA
1 TAAGATTTGT-A--T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
1248484 TAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
1 TAAGATTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
1248529 TAAGACTTGTAACTTC-GACCTGCTCTACTGCAACTTCAGAGAGA
1 TAAGATTTGTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
1248573 TAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
1 TAAGATTTGT-A---T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
*
1248623 TAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 TAAGATTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * * * *
1248668 TAAGACTTGTAACTTC-GACCTGCTCTACTACAACTTTAGAGAGA
1 TAAGATTTGTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
1248712 TAAGATCTGTAATTTTCAATCTACTCCACTGAAACTTCA
1 TAAGATTTGT-ATCTTCAGTCTGCTCCACTGCAACTTCA
1248751 AGGAAATCTG
Statistics
Matches: 382, Mismatches: 88, Indels: 58
0.72 0.17 0.11
Matches are distributed among these distances:
43 4 0.01
44 141 0.37
45 133 0.35
47 3 0.01
49 32 0.08
50 67 0.18
51 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
TAAGATTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
Found at i:1248662 original size:139 final size:139
Alignment explanation
Indices: 1248218--1248727 Score: 905
Period size: 139 Copynumber: 3.7 Consensus size: 139
1248208 AAGATCTGTA
* **
1248218 ATCTTCAGTCTGCTCCACTGCGACTTCAGGGAGACGAGACTTGTAACTTCGACCTGCTCTACTGC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
1248283 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
66 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
1248348 AGATTTGCT
131 AGATTTGCT
* * * *
1248357 ATCTTCAGTCTACTCTATTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTATTGC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
* *
1248422 AACTTCAGAGAGATAAGATCTGTAA-TTTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATA
66 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
1248486 AGATTTGCT
131 AGATTTGCT
1248495 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
1248560 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
66 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
1248625 AGATTTGCT
131 AGATTTGCT
* *
1248634 ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTAC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
*
1248699 AACTTTAGAGAGATAAGATCTGTAATTTT
66 AACTTCAGAGAGATAAGATCTGTAATTTT
1248728 CAATCTACTC
Statistics
Matches: 352, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
138 132 0.38
139 220 0.62
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (139 bp):
ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
AGATTTGCT
Found at i:1248712 original size:277 final size:277
Alignment explanation
Indices: 1248218--1248726 Score: 928
Period size: 277 Copynumber: 1.8 Consensus size: 277
1248208 AAGATCTGTA
* *
1248218 ATCTTCAGTCTGCTCCACTGCGACTTCAGGGAGACGAGACTTGTAACTTCGACCTGCTCTACTGC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGTAACTTCGACCTGCTCTACTGC
1248283 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
66 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
* *
1248348 AGATTTGCTATCTTCAGTCTACTCTATTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTG
131 AGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTG
* *
1248413 CTCTATTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGTAACTTCA
196 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGTAACTTCA
1248478 GGGAAATAAGATTTGCT
261 GGGAAATAAGATTTGCT
*
1248495 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGC
1 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGTAACTTCGACCTGCTCTACTGC
1248560 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
66 AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
* *
1248625 AGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTG
131 AGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTG
*
1248690 CTCTACTACAACTTTAGAGAGATAAGATCTGTAATTT
196 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTT
1248727 TCAATCTACT
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
277 222 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (277 bp):
ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGTAACTTCGACCTGCTCTACTGC
AACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
AGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTG
CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGTAACTTCA
GGGAAATAAGATTTGCT
Found at i:1248943 original size:86 final size:86
Alignment explanation
Indices: 1248817--1248979 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
1248807 GATTTCCAGC
* *
1248817 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACGACTTAGGGGGTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1248882 AGATAAGATCTGCAATTCGGT
66 AGATAAGATCTGCAATTCGGT
* * *
1248903 CTGTTACCCTACCGA-TTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 CTGTTACCCTA-CGACTTAGGGGGTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
1248967 GGGTTAAGATCTG
65 GAGATAAGATCTG
1248980 TAAATCTTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 67 0.97
87 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (86 bp):
CTGTTACCCTACGACTTAGGGGGTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
AGATAAGATCTGCAATTCGGT
Found at i:1248975 original size:44 final size:43
Alignment explanation
Indices: 1248817--1248975 Score: 158
Period size: 44 Copynumber: 3.7 Consensus size: 43
1248807 GATTTCCAGC
* * *
1248817 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTC-TCTTCGAT
* * * * * ** *
1248861 CTGTTTCCCTACTGCTTAGGGAGATAAGA-TCTGCAATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCTCTTCGAT
* * *
1248903 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTC-TCTTCGAT
*
1248947 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA
1248976 TCTGTAAATC
Statistics
Matches: 87, Mismatches: 26, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
42 28 0.32
43 5 0.06
44 54 0.62
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCTCTTCGAT
Found at i:1253726 original size:25 final size:25
Alignment explanation
Indices: 1253692--1253743 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
1253682 GGGAAAGTCT
1253692 AATGCAAATG-ATGCAATGCAATGCA
1 AATGCAAATGCATGCAATG-AATGCA
*
1253717 AATGCAAATGCATGGAATGAATGCA
1 AATGCAAATGCATGCAATGAATGCA
1253742 AA
1 AA
1253744 AGAAAGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (25 bp):
AATGCAAATGCATGCAATGAATGCA
Found at i:1256190 original size:138 final size:138
Alignment explanation
Indices: 1255918--1256191 Score: 313
Period size: 137 Copynumber: 2.0 Consensus size: 138
1255908 TTGCCTTGCC
* * * * * * *
1255918 TTAGAAAACACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAGATTTGCAA
1 TTAGAAAACACGAATGAAACTCTAAAGAGACATTCGATTAGTTTGAACAAACGAGAGAATTGCAA
** * * * * *
1255983 CCCAGCACGATAGGGCACTTTTCCCTAAATTGCTAAATATCGAACATTTCCTTTGTTTTTATAAG
66 CCCAGCACGATAGGGCACGATTCCATAAATTGCCAAATATCGAACATATCCTTTATTTTAATAAG
1256048 TTTTTTTT
131 TTTTTTTT
* * *
1256056 TTAGAAAATATGAATGAAACTCTAAAGAGACATTCGATTAGTTTGAGCAAACGAGA-AATTGCAA
1 TTAGAAAACACGAATGAAACTCTAAAGAGACATTCGATTAGTTTGAACAAACGAGAGAATTGCAA
* **
1256120 CCCAGCACGTTAGGGCACGATTCCATGGATTGCCAAATATC-AA-ATATCTCTTTCATTTTAATG
66 CCCAGCACGATAGGGCACGATTCCATAAATTGCCAAATATCGAACATATC-CTTT-ATTTTAAT-
1256183 AA-TTTTTTT
128 AAGTTTTTTT
1256192 AAAAAAAAAG
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
135 4 0.04
136 6 0.05
137 54 0.48
138 49 0.43
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (138 bp):
TTAGAAAACACGAATGAAACTCTAAAGAGACATTCGATTAGTTTGAACAAACGAGAGAATTGCAA
CCCAGCACGATAGGGCACGATTCCATAAATTGCCAAATATCGAACATATCCTTTATTTTAATAAG
TTTTTTTT
Found at i:1256419 original size:3 final size:3
Alignment explanation
Indices: 1256411--1256471 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
1256401 ATGTTATGTC
*
1256411 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1256459 TAG CAA TAA TAA T
1 TAA TAA TAA TAA T
1256472 GTAAATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1256605 original size:23 final size:23
Alignment explanation
Indices: 1256579--1256632 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1256569 TAAAGTAAAA
*
1256579 AATAATAGTAAT-TCATTAATAAG
1 AATAATAGTAATAT-ATTAATAAC
* *
1256602 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATATATTAATAAC
1256625 AATAATAG
1 AATAATAG
1256633 AAAATAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AATAATAGTAATATATTAATAAC
Found at i:1256801 original size:13 final size:12
Alignment explanation
Indices: 1256724--1256823 Score: 51
Period size: 12 Copynumber: 7.9 Consensus size: 12
1256714 CAACAAGAGA
*
1256724 AATAATAACAATA
1 AATAATAA-AATT
*
1256737 ACATAATAAAAAT
1 A-ATAATAAAATT
*
1256750 AATGATAATAA-T
1 AATAATAA-AATT
** *
1256762 AATAATAGCAGT
1 AATAATAAAATT
1256774 AATAATAAAATT
1 AATAATAAAATT
1256786 AATAA-ATAAATAT
1 AATAATA-AAAT-T
* *
1256799 AATTAATCAATTT
1 AA-TAATAAAATT
1256812 CAATAATAAAAT
1 -AATAATAAAAT
1256824 GGCAAATTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
11 2 0.03
12 32 0.48
13 17 0.26
14 15 0.23
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (12 bp):
AATAATAAAATT
Found at i:1264256 original size:15 final size:15
Alignment explanation
Indices: 1264228--1264258 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1264218 ATAAAAATTA
*
1264228 TATTTATTAAAATAT
1 TATTTAATAAAATAT
1264243 TATTTAATAAAATAT
1 TATTTAATAAAATAT
1264258 T
1 T
1264259 TAATTTCACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATAAAATAT
Found at i:1264411 original size:35 final size:35
Alignment explanation
Indices: 1264368--1264436 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
1264358 AATATATCAA
1264368 CCAATTAACTATTAATAAATTATAACTTTTTTGTC
1 CCAATTAACTATTAATAAATTATAACTTTTTTGTC
1264403 CCAATTAACTATTAATAAATTATAACTTTTTTGT
1 CCAATTAACTATTAATAAATTATAACTTTTTTGT
1264437 GTCTTAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (35 bp):
CCAATTAACTATTAATAAATTATAACTTTTTTGTC
Found at i:1268658 original size:28 final size:28
Alignment explanation
Indices: 1268627--1268682 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1268617 GCACAATAAG
1268627 ACGCTTGGAAGGAATATGTGGAAACTAA
1 ACGCTTGGAAGGAATATGTGGAAACTAA
1268655 ACGCTTGGAAGGAATATGTGGAAACTAA
1 ACGCTTGGAAGGAATATGTGGAAACTAA
1268683 GTGGAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (28 bp):
ACGCTTGGAAGGAATATGTGGAAACTAA
Found at i:1269179 original size:24 final size:24
Alignment explanation
Indices: 1269150--1269203 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1269140 TTGATGAAAG
* *
1269150 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
1269174 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
1269198 A-GAACT
1 ATGAACT
1269204 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:1273811 original size:21 final size:22
Alignment explanation
Indices: 1273785--1273843 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
1273775 GTTTTAAGAA
*
1273785 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
1273806 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
1273828 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
1273844 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:1273858 original size:26 final size:24
Alignment explanation
Indices: 1273814--1273863 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
1273804 ATTTGTTTTA
*
1273814 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
1273838 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
1273864 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:1275485 original size:13 final size:15
Alignment explanation
Indices: 1275457--1275488 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1275447 TATTCATCGA
1275457 TAAAATAATGAATTT
1 TAAAATAATGAATTT
1275472 TAAAAT-AT-AATTT
1 TAAAATAATGAATTT
1275485 TAAA
1 TAAA
1275489 GCTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAATAATGAATTT
Found at i:1275660 original size:20 final size:20
Alignment explanation
Indices: 1275631--1275669 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1275621 TGTGAAACTT
*
1275631 ATTGAAGAGTGTTTTGTATA
1 ATTGAAGAGTATTTTGTATA
*
1275651 ATTGATGAGTATTTTGTAT
1 ATTGAAGAGTATTTTGTAT
1275670 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (20 bp):
ATTGAAGAGTATTTTGTATA
Found at i:1284045 original size:21 final size:21
Alignment explanation
Indices: 1284021--1284060 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1284011 GCTTCTTTCT
1284021 GACTTTTAAGTT-GACATTTAA
1 GACTTTTAA-TTAGACATTTAA
1284042 GACTTTTAATTAGACATTT
1 GACTTTTAATTAGACATTT
1284061 GAGATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (21 bp):
GACTTTTAATTAGACATTTAA
Found at i:1291656 original size:21 final size:22
Alignment explanation
Indices: 1291620--1291661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1291610 ATAATTAAAC
1291620 TTAAATTTAAAATTTTAAAAAA
1 TTAAATTTAAAATTTTAAAAAA
* *
1291642 TTAAA-TTAAATTTTTGAAAA
1 TTAAATTTAAAATTTTAAAAA
1291662 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAATTTAAAATTTTAAAAAA
Found at i:1302046 original size:13 final size:13
Alignment explanation
Indices: 1302028--1302052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1302018 TAGAGGGGTT
1302028 TTAAAATTAAAAA
1 TTAAAATTAAAAA
1302041 TTAAAATTAAAA
1 TTAAAATTAAAA
1302053 CCATATAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:1305687 original size:18 final size:18
Alignment explanation
Indices: 1305666--1305720 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
1305656 CCATACTCAT
1305666 TAAAATATATTTAAAAAG
1 TAAAATATATTTAAAAAG
*
1305684 TAAAA-ACAATTTAATAAA-
1 TAAAATA-TATTTAA-AAAG
1305702 TAAAACTATA-TTAAAAAG
1 TAAAA-TATATTTAAAAAG
1305720 T
1 T
1305721 TTTAACAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 4 0.13
20 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAATATATTTAAAAAG
Found at i:1310395 original size:71 final size:72
Alignment explanation
Indices: 1310316--1310460 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
1310306 AAATTCTGTC
*
1310316 AACCACACCAGTTTTTAATAGTAC-AAATAGATGAAATTTTTAATAAAAAAGATTAATTTGCTCT
1 AACCACACCAGTTTTTAATAGTACAAAATAGATGAAATTTTTAATAAAAAAGATCAATTTGCTCT
1310380 TTAATCT
66 TTAATCT
*
1310387 AACCACACCAGTTTTTAATAGTACAAAATGGATGAAATTTTTAATAAAAAAGATCAATTTGCTCT
1 AACCACACCAGTTTTTAATAGTACAAAATAGATGAAATTTTTAATAAAAAAGATCAATTTGCTCT
1310452 TTAATCT
66 TTAATCT
1310459 AA
1 AA
1310461 TGTACCGGAA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 24 0.34
72 47 0.66
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (72 bp):
AACCACACCAGTTTTTAATAGTACAAAATAGATGAAATTTTTAATAAAAAAGATCAATTTGCTCT
TTAATCT
Found at i:1314470 original size:7 final size:7
Alignment explanation
Indices: 1314458--1314482 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1314448 TTATAGGGAC
1314458 TAAATTT
1 TAAATTT
1314465 TAAATTT
1 TAAATTT
1314472 TAAATTT
1 TAAATTT
1314479 TAAA
1 TAAA
1314483 AGAGTATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:1315006 original size:31 final size:31
Alignment explanation
Indices: 1314971--1315041 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
1314961 TTAATATATC
*
1314971 ATTTGGTACATGCA-TTTGACTTTAATGTTT-A
1 ATTTGGTACATG-AGTTTAACTTTAAT-TTTAA
*
1315002 ATTTGGTACTTGAGTTTAACTTTAATTTTAA
1 ATTTGGTACATGAGTTTAACTTTAATTTTAA
*
1315033 ATTCGGTAC
1 ATTTGGTAC
1315042 CGAAAAAGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTTGGTACATGAGTTTAACTTTAATTTTAA
Found at i:1325964 original size:22 final size:22
Alignment explanation
Indices: 1325939--1326000 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
1325929 ACATACATAC
*
1325939 TTATATTTAATAATATAATAAA
1 TTATATTTAATAAAATAATAAA
* *
1325961 TTATTAATATAATTAAAATAATTAA
1 TTA-T-ATTTAA-TAAAATAATAAA
*
1325986 TTAT-TTTAATGAAAT
1 TTATATTTAATAAAAT
1326001 TATTGAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.16
22 7 0.22
23 1 0.03
24 6 0.19
25 13 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTATATTTAATAAAATAATAAA
Found at i:1330091 original size:21 final size:21
Alignment explanation
Indices: 1330065--1330105 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1330055 AGACGAGCGA
* *
1330065 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1330086 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1330106 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1335849 original size:16 final size:17
Alignment explanation
Indices: 1335828--1335869 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
1335818 TAAAATAAAA
*
1335828 ATTTTAATAATTAC-AT
1 ATTTTAATAATAACTAT
1335844 ATTTTAA-AATAACTAT
1 ATTTTAATAATAACTAT
*
1335860 AATTTAATAA
1 ATTTTAATAA
1335870 AAATTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 15 0.68
17 2 0.09
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTAATAATAACTAT
Found at i:1342881 original size:2 final size:2
Alignment explanation
Indices: 1342874--1342969 Score: 72
Period size: 2 Copynumber: 48.5 Consensus size: 2
1342864 AATGCCATTA
*
1342874 AT AT AT AT AT AT ACT -T A- AT AT AT AT AT AT AT AT ACT -T AC AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
** * * * * * *
1342915 GC AT AC AT AT AT AT AT AC AT AC AT AC AT AC AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1342957 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1342970 AAAGAAAAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
1 3 0.04
2 66 0.93
3 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:1342893 original size:17 final size:17
Alignment explanation
Indices: 1342871--1342903 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1342861 GCAAATGCCA
1342871 TTAATATATATATATAC
1 TTAATATATATATATAC
1342888 TTAATATATATATATA
1 TTAATATATATATATA
1342904 TATACTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATATATATATATAC
Found at i:1342926 original size:20 final size:20
Alignment explanation
Indices: 1342876--1342969 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
1342866 TGCCATTAAT
* *
1342876 ATATATATATACTTAATATATAT
1 ATATATATATAC---ATACATAC
*
1342899 ATATATATACTTACATGCATAC
1 ATATATATA--TACATACATAC
1342921 ATATATATATACATACATAC
1 ATATATATATACATACATAC
* * *
1342941 ATACATATATACATATATAT
1 ATATATATATACATACATAC
1342961 ATATATATA
1 ATATATATA
1342970 AAAGAAAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 35 0.57
22 14 0.23
23 9 0.15
25 3 0.05
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (20 bp):
ATATATATATACATACATAC
Found at i:1355191 original size:26 final size:25
Alignment explanation
Indices: 1355129--1355191 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
1355119 GATTCGGCCA
* *
1355129 TATTATTTTTTAAAATTTATTTATTT
1 TATTA-TTTTTAAAATTTAATAATTT
* *
1355155 TATTCTATTTTAATATTTAATAATTT
1 TATTAT-TTTTAAAATTTAATAATTT
1355181 TATATATTTTT
1 TAT-TATTTTT
1355192 TATTTATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.03
26 27 0.90
27 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTATTTTTAAAATTTAATAATTT
Found at i:1360948 original size:3 final size:3
Alignment explanation
Indices: 1360940--1360970 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1360930 CTCTTCTCTT
1360940 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1360971 ACAACTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1374059 original size:20 final size:20
Alignment explanation
Indices: 1374034--1374074 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1374024 AGTTTTAAAA
1374034 AGAAATTTTTGAAAAACTTT
1 AGAAATTTTTGAAAAACTTT
1374054 AGAAATTTTTGAAAAACTTT
1 AGAAATTTTTGAAAAACTTT
1374074 A
1 A
1374075 CCACTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (20 bp):
AGAAATTTTTGAAAAACTTT
Found at i:1379613 original size:29 final size:26
Alignment explanation
Indices: 1379573--1379641 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 26
1379563 ACGTTCAATG
*
1379573 ATTTTAAAATTTAGTCTTTGTACTTTT
1 ATTTTAAAATTTAGTC-TTATACTTTT
1379600 ATTTTCAAGAATTTAGTCTTATACTTTT
1 ATTTT-AA-AATTTAGTCTTATACTTTT
1379628 CAGATTTTAAAATT
1 ---ATTTTAAAATT
1379642 CAAGGTATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 13 0.36
30 2 0.06
31 5 0.14
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (26 bp):
ATTTTAAAATTTAGTCTTATACTTTT
Found at i:1383371 original size:36 final size:36
Alignment explanation
Indices: 1383330--1383403 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
1383320 ATTTTTGTCT
1383330 TATTTACTTTTCCCCTAAAAGTACGATACCAGCTAA
1 TATTTACTTTTCCCCTAAAAGTACGATACCAGCTAA
1383366 TATTTACTTTTCCCCTAAAAGTACGATACCAGCTAA
1 TATTTACTTTTCCCCTAAAAGTACGATACCAGCTAA
1383402 TA
1 TA
1383404 AGAATATGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (36 bp):
TATTTACTTTTCCCCTAAAAGTACGATACCAGCTAA
Found at i:1390830 original size:40 final size:40
Alignment explanation
Indices: 1390785--1390990 Score: 198
Period size: 40 Copynumber: 5.2 Consensus size: 40
1390775 CGGAATACAA
*
1390785 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
1390825 CCGGATGTAACGACTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
1390865 CCGGATTTAACAACTTGCACGAATGCCTTCGGATCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
** ** * *
1390905 CCGGACGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * * ** * *
1390945 CCGGATATAATTACTAGTATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
1390985 CCGGAT
1 CCGGAT
1390991 GCACACATAC
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:1390925 original size:80 final size:80
Alignment explanation
Indices: 1390785--1390954 Score: 234
Period size: 80 Copynumber: 2.1 Consensus size: 80
1390775 CGGAATACAA
* * * *
1390785 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTAACGACTAGCACAAATG
* *
1390850 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * * *
1390865 CCGGATTTAACAACTTGCACGAATGCCTTCGGATCTTAGCCCGGACGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTA-ACGACTAGCACAAAT
1390929 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
1390945 CCGGATATAA
1 CCGGATATAA
1390955 TTACTAGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 77 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:1391351 original size:106 final size:106
Alignment explanation
Indices: 1390969--1391307 Score: 660
Period size: 106 Copynumber: 3.2 Consensus size: 106
1390959 TAGTATAAAT
1390969 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1391034 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
1391075 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1391140 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
1391181 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1391246 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
*
1391287 GTCTTCAGGAACTTAGCCCGG
1 GTCTTC-GGGACTTAGCCCGG
1391308 GTATCATTCA
Statistics
Matches: 231, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
106 218 0.94
107 13 0.06
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (106 bp):
GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
Found at i:1398962 original size:40 final size:40
Alignment explanation
Indices: 1398917--1399122 Score: 198
Period size: 40 Copynumber: 5.2 Consensus size: 40
1398907 CGGAATACAA
*
1398917 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
1398957 CCGGATGTAACGACTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
1398997 CCGGATTTAACAACTTGCACGAATGCCTTCGGATCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
** ** * *
1399037 CCGGACGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * * ** * *
1399077 CCGGATATAATTACTAGTATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
1399117 CCGGAT
1 CCGGAT
1399123 GCACACATAC
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:1399057 original size:80 final size:80
Alignment explanation
Indices: 1398917--1399086 Score: 234
Period size: 80 Copynumber: 2.1 Consensus size: 80
1398907 CGGAATACAA
* * * *
1398917 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTAACGACTAGCACAAATG
* *
1398982 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * * *
1398997 CCGGATTTAACAACTTGCACGAATGCCTTCGGATCTTAGCCCGGACGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTA-ACGACTAGCACAAAT
1399061 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
1399077 CCGGATATAA
1 CCGGATATAA
1399087 TTACTAGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 77 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGATCTTAGCCCGGACGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:1399482 original size:106 final size:106
Alignment explanation
Indices: 1399101--1399439 Score: 651
Period size: 106 Copynumber: 3.2 Consensus size: 106
1399091 TAGTATAAAT
1399101 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
*
1399166 CGTTACTAATGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
1399207 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1399272 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
1399313 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1 GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
1399378 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
66 CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
*
1399419 GTCTTCAGGAACTTAGCCCGG
1 GTCTTC-GGGACTTAGCCCGG
1399440 GTATCATTCA
Statistics
Matches: 230, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
106 217 0.94
107 13 0.06
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (106 bp):
GTCTTCGGGACTTAGCCCGGATGCACACATACATCAATAATCATTACACATCCATATTCCATTTT
CGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATC
Found at i:1400925 original size:19 final size:18
Alignment explanation
Indices: 1400903--1400966 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
1400893 CAAAATTATA
1400903 AAAATATTATTTTGTATTT
1 AAAATATTATTTT-TATTT
*
1400922 AAAATAAGTTA-TATTATTT
1 AAAAT-A-TTATTTTTATTT
1400941 AAGAATATTATTTTTATTT
1 AA-AATATTATTTTTATTT
*
1400960 AATATAT
1 AAAATAT
1400967 ATGCACAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.18
19 22 0.58
20 6 0.16
21 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
AAAATATTATTTTTATTT
Found at i:1402485 original size:10 final size:10
Alignment explanation
Indices: 1402470--1402553 Score: 57
Period size: 10 Copynumber: 8.3 Consensus size: 10
1402460 TATTTTAGAA
1402470 TTTTTAAAAT
1 TTTTTAAAAT
*
1402480 TTTTT-AACT
1 TTTTTAAAAT
* *
1402489 CTCTTTATATAT
1 -TTTTTA-AAAT
*
1402501 TTTTTAGAAT
1 TTTTTAAAAT
1402511 TTTTTATAAA-
1 TTTTTA-AAAT
*
1402521 -TTTTAGAAT
1 TTTTTAAAAT
*
1402530 TTTTAAAAAT
1 TTTTTAAAAT
1402540 ATTTTTAAAAT
1 -TTTTTAAAAT
1402551 TTT
1 TTT
1402554 AAATTATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
8 2 0.04
9 8 0.15
10 27 0.49
11 16 0.29
12 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:1402518 original size:19 final size:19
Alignment explanation
Indices: 1402456--1402533 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
1402446 GATCTCACAA
*
1402456 ATATTATTTTAGAATTTTTA
1 ATATT-TTTTAGAATTTTTT
* *
1402476 AAATTTTTTA-ACTCTCTTTAT
1 ATATTTTTTAGAAT-T-TTT-T
1402497 ATATTTTTTAGAATTTTTT
1 ATATTTTTTAGAATTTTTT
**
1402516 ATAAATTTTAGAATTTTT
1 ATATTTTTTAGAATTTTT
1402534 AAAAATATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.04
19 23 0.49
20 10 0.21
21 10 0.21
22 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
ATATTTTTTAGAATTTTTT
Found at i:1402564 original size:10 final size:9
Alignment explanation
Indices: 1402462--1402570 Score: 53
Period size: 10 Copynumber: 11.3 Consensus size: 9
1402452 ACAAATATTA
1402462 TTTTAGAATT
1 TTTTA-AATT
*
1402472 TTTAAAATT
1 TTTTAAATT
*
1402481 TTTTAACTCT
1 TTTTAAAT-T
*
1402491 CTTTATATATT
1 -TTT-TAAATT
1402502 TTTTAGAATT
1 TTTTA-AATT
*
1402512 TTTTATAA-A
1 TTTTA-AATT
1402521 TTTTAGAATT
1 TTTTA-AATT
*
1402531 TTTAAAAATAT
1 TTT-TAAAT-T
*
1402542 TTTTAAA-A
1 TTTTAAATT
1402550 TTTTAAATT
1 TTTTAAATT
1402559 ATTTT-AATT
1 -TTTTAAATT
1402568 TTT
1 TTT
1402571 GTTGAGAGAG
Statistics
Matches: 76, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.13
9 23 0.30
10 31 0.41
11 9 0.12
12 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTAAATT
Found at i:1412390 original size:28 final size:28
Alignment explanation
Indices: 1412337--1412390 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1412327 TAATTATTTT
**
1412337 ATATTATTTTTTTGTTTTTTTAAATAAA
1 ATATTATTTTTTTGCATTTTTAAATAAA
1412365 ATATTATTTTTTT-CATTTTTAGAATA
1 ATATTATTTTTTTGCATTTTTA-AATA
1412391 GTAATTGCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (28 bp):
ATATTATTTTTTTGCATTTTTAAATAAA
Found at i:1413503 original size:24 final size:26
Alignment explanation
Indices: 1413462--1413512 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
1413452 TACTGTTTCG
* *
1413462 AAAATAAAAAATATATTTTATTTAAA
1 AAAATAAAAAATATATTTAATATAAA
1413488 AAAATAAAAAA-A-ATTTAATATAAA
1 AAAATAAAAAATATATTTAATATAAA
1413512 A
1 A
1413513 TAATCATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATAAAAAATATATTTAATATAAA
Found at i:1416774 original size:143 final size:141
Alignment explanation
Indices: 1416455--1417158 Score: 1003
Period size: 143 Copynumber: 5.0 Consensus size: 141
1416445 CAAAAGTCTC
* *
1416455 GAAGAACGTGAATTTGAATTCAAATCTAGAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
1 GAAGAACG-CAATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* * *
1416520 AATTCAAATTTCAACGTAAATTTGAAGAACTTTG-ATGAAAAATGAGGTAAAGAACTCAATTACA
65 AATTCAAATTTCCACGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAACTCAATTACA
1416584 CACAGATCAAAA
130 CACAGATCAAAA
* * * *
1416596 GAATAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAATCGGACTCATG
1 GAAGAACGCAA-TTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
*
1416661 AATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAAATGAGGTAAAGAACTCAATTAC
65 AATTCAAATTTCCACGTAATTTTGAAGAACTTGGAATG-AAAAATGAGGTAAAGAACTCAATTAC
1416726 ACACAGATCAAAA
129 ACACAGATCAAAA
* *
1416739 GAAGAACGCAATTTCGAATTCAAATCTAAAATTACAAAAGCGTTCGCATTGGAACCGGACTCATG
1 GAAGAACGCAATTT-GAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* * * * *
1416804 AATTCAAATTTCCACGTAAATTTGAAGAATTTTG-ATGAAAACTGAGGTAAAGCACTCAATTACA
65 AATTCAAATTTCCACGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAACTCAATTACA
1416868 CACAGATC--AA
130 CACAGATCAAAA
* * * *
1416878 -AAGAACGTAATTTTGAATTCAAATCTAAACTTACAAAAGCATTCGCATTGAAATCAGACTCATG
1 GAAGAACGCAA-TTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* *
1416942 AATTCAAATTTCGACGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAACTCAAATTAC
65 AATTCAAATTTCCACGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAACTC-AATTAC
1417007 ACACAGATCAAAA
129 ACACAGATCAAAA
* * * * * * *
1417020 CAAGAACGCGACTTTAAATTCAAATCTAAAGTTACAAATGCATTCGCATGGGAATCCGACTCATG
1 GAAGAACGC-AATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
1417085 AATTCAAATTTCCACGTAATTTTGAAGAACTAT--AATGAAAAATGAGGTAAAGAACTCAATT--
65 AATTCAAATTTCCACGTAATTTTGAAGAACT-TGGAATGAAAAATGAGGTAAAGAACTCAATTAC
1417146 ACACAGATCAAAA
129 ACACAGATCAAAA
1417159 AGGAGAGCAG
Statistics
Matches: 507, Mismatches: 44, Indels: 26
0.88 0.08 0.05
Matches are distributed among these distances:
138 84 0.17
139 38 0.07
140 17 0.03
141 124 0.24
142 34 0.07
143 208 0.41
144 2 0.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (141 bp):
GAAGAACGCAATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATGA
ATTCAAATTTCCACGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAACTCAATTACAC
ACAGATCAAAA
Found at i:1417042 original size:281 final size:282
Alignment explanation
Indices: 1416456--1417158 Score: 1114
Period size: 281 Copynumber: 2.5 Consensus size: 282
1416446 AAAAGTCTCG
* * *
1416456 AAGAACGTGAATTTGAATTCAAATCTAGAATTACAAAAGCATTCGCATTGGAATCGGACTCATGA
1 AAGAACGCGAATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAACCGGACTCATGA
*
1416521 ATTCAAATTTCAACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
66 ATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
1416586 CAGATCAAAAGAATAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAAT
131 CAGATCAAAAG-A-AACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAAT
* *
1416651 CGGACTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAAATGAGGTAAAGA
194 CAGACTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAAATGAGCTAAAGA
*
1416716 ACTCAATTACACACAGATCAAAAG
259 ACTCAATTACACACAGATCAAAAC
*
1416740 AAGAACGC-AATTTCGAATTCAAATCTAAAATTACAAAAGCGTTCGCATTGGAACCGGACTCATG
1 AAGAACGCGAATTT-GAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAACCGGACTCATG
* * *
1416804 AATTCAAATTTCCACGTAAATTTGAAGAATTTTGATGAAAACTGAGGTAAAGCACTCAATTACAC
65 AATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACAC
* *
1416869 ACAGATCAAAAG-AACGTAATTTTGAATTCAAATCTAAACTTACAAAAGCATTCGCATTGAAATC
130 ACAGATCAAAAGAAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAATC
1416933 AGACTCATGAATTCAAATTT-CGACGTAATTTTGAAGAACTTGGAATG-AAAAATGAGCTAAAGA
195 AGACTCATGAATTCAAATTTCCG-CGTAATTTTGAAGAACTTGGAATGAAAAAATGAGCTAAAGA
1416996 ACTCAAATTACACACAGATCAAAAC
259 ACTC-AATTACACACAGATCAAAAC
* * * * *
1417021 AAGAACGCGACTTTAAATTCAAATCTAAAGTTACAAATGCATTCGCATGGGAATCC-GACTCATG
1 AAGAACGCGAATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAA-CCGGACTCATG
* * *
1417085 AATTCAAATTTCCACGTAATTTTGAAGAACTATAATGAAAAATGAGGTAAAGAACTCAATT--AC
65 AATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACAC
1417148 ACAGATCAAAA
130 ACAGATCAAAA
1417159 AGGAGAGCAG
Statistics
Matches: 389, Mismatches: 25, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
279 13 0.03
280 21 0.05
281 217 0.56
282 6 0.02
283 5 0.01
284 127 0.33
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (282 bp):
AAGAACGCGAATTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAACCGGACTCATGA
ATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
CAGATCAAAAGAAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAATCA
GACTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAAATGAGCTAAAGAAC
TCAATTACACACAGATCAAAAC
Found at i:1418726 original size:16 final size:16
Alignment explanation
Indices: 1418680--1418729 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1418670 TTTAGTATAA
1418680 TAATAAATTTAATTTTT
1 TAAT-AATTTAATTTTT
*
1418697 AAAT-ATTTATATTTTT
1 TAATAATTTA-ATTTTT
*
1418713 TATTAATTTAATTTTT
1 TAATAATTTAATTTTT
1418729 T
1 T
1418730 TGAGCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.18
16 15 0.54
17 8 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATAATTTAATTTTT
Found at i:1419885 original size:11 final size:11
Alignment explanation
Indices: 1419869--1419907 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1419859 TGAACTAATT
*
1419869 TTTTTTAAAAA
1 TTTTTTAATAA
*
1419880 TTTTTTTATAA
1 TTTTTTAATAA
*
1419891 CTTTTTAATAA
1 TTTTTTAATAA
1419902 TTTTTT
1 TTTTTT
1419908 TAATTATACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:1419885 original size:12 final size:12
Alignment explanation
Indices: 1419868--1419911 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
1419858 CTGAACTAAT
*
1419868 TTTTTTTAAAAA
1 TTTTTTTAATAA
1419880 TTTTTTT-ATAA
1 TTTTTTTAATAA
*
1419891 -CTTTTTAATAA
1 TTTTTTTAATAA
1419902 TTTTTTTAAT
1 TTTTTTTAAT
1419912 TATACTAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 5 0.19
11 7 0.26
12 15 0.56
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTTTAATAA
Found at i:1431090 original size:27 final size:27
Alignment explanation
Indices: 1431058--1431114 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
1431048 TAAAATATTA
* *
1431058 ATATAATAGGTGGACTAACTTTTAAAT
1 ATATAATAAGAGGACTAACTTTTAAAT
1431085 ATATAATAAGAGGACTAACTTTTAAAT
1 ATATAATAAGAGGACTAACTTTTAAAT
1431112 ATA
1 ATA
1431115 AAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (27 bp):
ATATAATAAGAGGACTAACTTTTAAAT
Found at i:1432335 original size:16 final size:18
Alignment explanation
Indices: 1432296--1432335 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
1432286 TGAGTTTATA
1432296 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
1432313 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
1432330 A-ATTTA
1 ATATTTA
1432336 GAATACATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:1433416 original size:13 final size:13
Alignment explanation
Indices: 1433398--1433422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1433388 TTTATTGATG
1433398 GTGCATGAAGTTT
1 GTGCATGAAGTTT
1433411 GTGCATGAAGTT
1 GTGCATGAAGTT
1433423 CGTGTACTAA
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (13 bp):
GTGCATGAAGTTT
Found at i:1434731 original size:29 final size:29
Alignment explanation
Indices: 1434698--1434761 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
1434688 ATTTAATTTT
*
1434698 AATTAAAGTT-AAATTGAGTTTTTAAAAAA
1 AATTAAAGTTCAAATT-AATTTTTAAAAAA
* * *
1434727 AATTAAATTTCTAATTAATTTTTATAAAA
1 AATTAAAGTTCAAATTAATTTTTAAAAAA
1434756 AATTAA
1 AATTAA
1434762 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (29 bp):
AATTAAAGTTCAAATTAATTTTTAAAAAA
Found at i:1436001 original size:21 final size:21
Alignment explanation
Indices: 1435975--1436018 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1435965 TCTCGAGGAA
* *
1435975 AATAGAAATCTAGAGGAAAAT
1 AATAGAAAACTAGAGAAAAAT
*
1435996 AATAGAAAACTATAGAAAAAT
1 AATAGAAAACTAGAGAAAAAT
1436017 AA
1 AA
1436019 AAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (21 bp):
AATAGAAAACTAGAGAAAAAT
Found at i:1436027 original size:11 final size:11
Alignment explanation
Indices: 1436013--1436038 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1436003 AACTATAGAA
1436013 AAATAAAAATT
1 AAATAAAAATT
1436024 AAATAAAAATT
1 AAATAAAAATT
1436035 AAAT
1 AAAT
1436039 TTAGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAAAATT
Found at i:1447420 original size:18 final size:17
Alignment explanation
Indices: 1447382--1447414 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1447372 CTAATATTTA
1447382 AAATTAATTACTTTAAAT
1 AAATTAATTA-TTTAAAT
1447400 AAATTAATT-TTTAAA
1 AAATTAATTATTTAAA
1447415 ATTAAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTAATTATTTAAAT
Found at i:1449135 original size:18 final size:19
Alignment explanation
Indices: 1449112--1449152 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1449102 AATACTTTAT
* *
1449112 ATTATGTTATTT-TTACAC
1 ATTATGTAATTTATAACAC
1449130 ATTATGTAATTTATAACAC
1 ATTATGTAATTTATAACAC
1449149 ATTA
1 ATTA
1449153 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTATGTAATTTATAACAC
Found at i:1451300 original size:36 final size:36
Alignment explanation
Indices: 1451253--1451325 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1451243 AGTTTCACAA
1451253 AGATACTCTTAATGATCTTGAAATATTATATCAATG
1 AGATACTCTTAATGATCTTGAAATATTATATCAATG
*
1451289 AGATACTCTTAATGATCTTGAAATATTGTATCAATG
1 AGATACTCTTAATGATCTTGAAATATTATATCAATG
1451325 A
1 A
1451326 CTATGACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (36 bp):
AGATACTCTTAATGATCTTGAAATATTATATCAATG
Found at i:1457338 original size:21 final size:21
Alignment explanation
Indices: 1457314--1457353 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1457304 GATTAGACAT
1457314 AGCAAAAAGCAGAAAGCAAAA
1 AGCAAAAAGCAGAAAGCAAAA
* *
1457335 AGCAAAATGTAGAAAGCAA
1 AGCAAAAAGCAGAAAGCAA
1457354 GGCCAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.20, T:0.05
Consensus pattern (21 bp):
AGCAAAAAGCAGAAAGCAAAA
Found at i:1460259 original size:20 final size:19
Alignment explanation
Indices: 1460236--1460277 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1460226 AAAACTCTTT
1460236 AAAA-TTTTAAAAATAAAATA
1 AAAAGTTTT-AAAATAAAA-A
1460256 AAAAGTTTTAAAATAAAAA
1 AAAAGTTTTAAAATAAAAA
1460275 AAA
1 AAA
1460278 TCTAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAGTTTTAAAATAAAAA
Found at i:1477136 original size:24 final size:26
Alignment explanation
Indices: 1477098--1477150 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
1477088 CATTTTCTTG
* * *
1477098 AGAAAAAACTAAAATTAATTTTAAAA
1 AGAAAAAACTAAAATAAAATTAAAAA
1477124 AGAAAAAA-T-AAATAAAATTAAAAA
1 AGAAAAAACTAAAATAAAATTAAAAA
1477148 AGA
1 AGA
1477151 TAAATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.62
25 1 0.04
26 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (26 bp):
AGAAAAAACTAAAATAAAATTAAAAA
Found at i:1480109 original size:50 final size:49
Alignment explanation
Indices: 1480055--1480167 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 49
1480045 TTTTTAAAAT
* *
1480055 TTAAAAGTTCAAAAAATTTATAAAA-ACTATTTTAAAAAATAAAAAAATCA
1 TTAAAAGTTCAAAAAA-ATATAAAACA-TATTTTAAAAAATAAAAAAATAA
* * * *
1480105 TTAAAATTATTAAAAAAATATAAAACATATTTTTAAAATTAAAAAAATAA
1 TTAAAAGT-TCAAAAAAATATAAAACATATTTTAAAAAATAAAAAAATAA
*
1480155 TTAAATG-TCAAAA
1 TTAAAAGTTCAAAA
1480168 TGTCATCTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
48 5 0.10
50 39 0.75
51 8 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (49 bp):
TTAAAAGTTCAAAAAAATATAAAACATATTTTAAAAAATAAAAAAATAA
Found at i:1480135 original size:20 final size:21
Alignment explanation
Indices: 1480086--1480135 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
1480076 AAAAACTATT
1480086 TTAAAAA-A-TAAAAAAATCA
1 TTAAAAATATTAAAAAAATCA
*
1480105 TTAAAATTATTAAAAAAAT-A
1 TTAAAAATATTAAAAAAATCA
1480125 -TAAAACATATT
1 TTAAAA-ATATT
1480136 TTTAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.42
20 6 0.23
21 9 0.35
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAAAAATATTAAAAAAATCA
Found at i:1484640 original size:21 final size:21
Alignment explanation
Indices: 1484616--1484657 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1484606 ACTGATTGAA
1484616 TAAGTTAAATCAAAATTCGAT
1 TAAGTTAAATCAAAATTCGAT
1484637 TAAGTTAAATCAAAATTCGAT
1 TAAGTTAAATCAAAATTCGAT
1484658 AATCTGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAGTTAAATCAAAATTCGAT
Found at i:1487599 original size:2 final size:2
Alignment explanation
Indices: 1487586--1487625 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1487576 TAAGATTTAG
* *
1487586 AT AT AT AA AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1487626 GCATGCATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1488215 original size:18 final size:19
Alignment explanation
Indices: 1488194--1488229 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1488184 TAAATTTTAC
*
1488194 ATTTTAA-AAAAATAATAT
1 ATTTTAATAAAAAGAATAT
1488212 ATTTTAATAAAAAGAATA
1 ATTTTAATAAAAAGAATA
1488230 GATAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
ATTTTAATAAAAAGAATAT
Found at i:1488224 original size:21 final size:22
Alignment explanation
Indices: 1488198--1488238 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1488188 TTTTACATTT
1488198 TAAAAA-AATA-ATATATTTTAA
1 TAAAAAGAATAGATA-ATTTTAA
1488219 TAAAAAGAATAGATAATTTT
1 TAAAAAGAATAGATAATTTT
1488239 CTAATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 9 0.50
23 3 0.17
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAAAAGAATAGATAATTTTAA
Found at i:1490479 original size:29 final size:29
Alignment explanation
Indices: 1490446--1490518 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 29
1490436 AAAATTAAAC
1490446 CATATAAGGAATAGGACCTAAAAGGAAAT
1 CATATAAGGAATAGGACCTAAAAGGAAAT
** * * *
1490475 CATATAAAATAATAGGATCTAAATGTAAAT
1 CATAT-AAGGAATAGGACCTAAAAGGAAAT
* *
1490505 TATACAAGGAATAG
1 CATATAAGGAATAG
1490519 TTTGGCCAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.23
Consensus pattern (29 bp):
CATATAAGGAATAGGACCTAAAAGGAAAT
Found at i:1492696 original size:51 final size:50
Alignment explanation
Indices: 1492578--1492713 Score: 114
Period size: 51 Copynumber: 2.7 Consensus size: 50
1492568 TATGTAAATG
* * * * * * *
1492578 TTGACAAAATGTGTAAATTTTGTGGGTTAATTTTGTTAAATCAGAATCAAA
1 TTGATAAAATGAGTAAA-TTTGTGAGCTAAATTTATTAAATCAGAATAAAA
* *
1492629 TTGGTAGAAT-ATGTAAATGTTGTGAGCTAAATTTATTAAATCA-AGATAAAA
1 TTGATAAAATGA-GTAAAT-TTGTGAGCTAAATTTATTAAATCAGA-ATAAAA
* *
1492680 TTGATAAAATGAGTAAACTTTGAGAACTAAATTT
1 TTGATAAAATGAGTAAA-TTTGTGAGCTAAATTT
1492714 GTTATTATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
50 2 0.03
51 63 0.94
52 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (50 bp):
TTGATAAAATGAGTAAATTTGTGAGCTAAATTTATTAAATCAGAATAAAA
Found at i:1493381 original size:2 final size:2
Alignment explanation
Indices: 1493374--1493404 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1493364 GATGAGTATT
*
1493374 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1493405 GAATTTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1493385 original size:10 final size:10
Alignment explanation
Indices: 1493370--1493402 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
1493360 ATAAGATGAG
1493370 TATTTATATA
1 TATTTATATA
1493380 TATTTATATA
1 TATTTATATA
*
1493390 TATATATATA
1 TATTTATATA
1493400 TAT
1 TAT
1493403 ATGAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:1495467 original size:13 final size:13
Alignment explanation
Indices: 1495449--1495473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1495439 CATGTTTCTG
1495449 AAGAAAATGTTAC
1 AAGAAAATGTTAC
1495462 AAGAAAATGTTA
1 AAGAAAATGTTA
1495474 AGACAAAACC
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:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (13 bp):
AAGAAAATGTTAC
Found at i:1499946 original size:42 final size:41
Alignment explanation
Indices: 1499899--1500042 Score: 171
Period size: 42 Copynumber: 3.3 Consensus size: 41
1499889 TATAGTTCAA
1499899 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATGATGCCATAGCCCAG
* * *
1499941 CTATGGTCTTACACATATTCAGATATCAGTGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATGA-TGCCATAGCCCAG
1499983 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATAT-GATGCCATAGCCCAG
1500032 CTATGGTCTTA
1 CTATGGTCTTA
1500043 TACAGTAGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 11
0.84 0.06 0.11
Matches are distributed among these distances:
41 3 0.03
42 49 0.56
45 2 0.02
48 1 0.01
49 31 0.36
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (41 bp):
CTATGGTCTTACACATCTTCACATATGATGCCATAGCCCAG
Found at i:1500025 original size:49 final size:49
Alignment explanation
Indices: 1499952--1500088 Score: 165
Period size: 49 Copynumber: 2.8 Consensus size: 49
1499942 TATGGTCTTA
* *
1499952 CACATATTCAGATATC-AGTGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
1 CACATA-TCACATATCGA-TGCCATAGCCCAGCTATGGTCTTACACAGT-AG
*
1500002 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGTAG
* * *
1500051 CATATATCAC--ATCGATGCCATATCCCAGATATGGTCTT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTT
1500089 GTACGTAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
47 26 0.33
49 44 0.56
50 9 0.11
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGTAG
Found at i:1500146 original size:31 final size:31
Alignment explanation
Indices: 1500111--1500197 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
1500101 CTTGTCACTT
*
1500111 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
1500142 GTAGCCGGTA-CTTCCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
1500173 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
1500198 TGTCATTTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.04
31 45 0.92
32 2 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:1500281 original size:50 final size:51
Alignment explanation
Indices: 1500173--1500301 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
1500163 CACTGATCAG
* * *
1500173 GTAGCCGGAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
1500224 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
1500274 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
1500302 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:1502965 original size:26 final size:25
Alignment explanation
Indices: 1502928--1503000 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 25
1502918 GGCGTTAGGA
*
1502928 ATATACGT-ACAATAGTATAAAAGAT
1 ATATACATAACAATA-TATAAAAGAT
1502953 ATATA-ACTAACAATAT-T-AAAG-T
1 ATATACA-TAACAATATATAAAAGAT
1502975 ATATACATAACAATATATAAAA-AT
1 ATATACATAACAATATATAAAAGAT
1502999 AT
1 AT
1503001 GATATTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
22 15 0.37
23 6 0.15
24 7 0.17
25 7 0.17
26 6 0.15
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.30
Consensus pattern (25 bp):
ATATACATAACAATATATAAAAGAT
Found at i:1504365 original size:12 final size:12
Alignment explanation
Indices: 1504348--1504373 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1504338 GGTTAATCAA
1504348 TTGGGTTTTGGG
1 TTGGGTTTTGGG
1504360 TTGGGTTTTGGG
1 TTGGGTTTTGGG
1504372 TT
1 TT
1504374 TAATTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (12 bp):
TTGGGTTTTGGG
Found at i:1504753 original size:25 final size:26
Alignment explanation
Indices: 1504725--1504773 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1504715 AGAAAAGTTT
1504725 ATTA-ATTTTATAGTGG-CAAAAATTA
1 ATTACATTTTATAG-GGACAAAAATTA
*
1504750 ATTACCTTTTATAGGGACAAAAAT
1 ATTACATTTTATAGGGACAAAAAT
1504774 CAATAATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (26 bp):
ATTACATTTTATAGGGACAAAAATTA
Found at i:1506212 original size:16 final size:16
Alignment explanation
Indices: 1506161--1506216 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
1506151 TGTCAACCTA
1506161 TAAAA-ATTTAATAAAT
1 TAAAATATTT-ATAAAT
* *
1506177 TATAACATTTA-AAAT
1 TAAAATATTTATAAAT
*
1506192 TAAAATATTTATAACT
1 TAAAATATTTATAAAT
1506208 TAAAATATT
1 TAAAATATT
1506217 CAAATTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.38
16 17 0.50
17 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAATATTTATAAAT
Found at i:1506221 original size:24 final size:24
Alignment explanation
Indices: 1506176--1506221 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1506166 ATTTAATAAA
*
1506176 TTATAACATTTAAAATTAAAATAT
1 TTATAACATTAAAAATTAAAATAT
*
1506200 TTATAAC-TTAAAATATTCAAAT
1 TTATAACATTAAAA-ATTAAAAT
1506222 TTATCTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATAACATTAAAAATTAAAATAT
Found at i:1508921 original size:108 final size:108
Alignment explanation
Indices: 1508732--1508940 Score: 321
Period size: 108 Copynumber: 1.9 Consensus size: 108
1508722 CTTTTTTTAC
* * * * * *
1508732 ATAAAGGCAATGTTCTGTTTTTTGGGATTCGAAAGATAGTGCCCTACTTGCTGGGTTTCGATTTT
1 ATAAAGGCAATATTCCGCTTTTTGGGATTCGAAAGATACTGCCCTACGTGCTGGGTTGCGATTTT
*
1508797 TCTCGTTTGACCCAAATAATCGAATAACCTTTTAAAGTTCTAA
66 TCTCGTTTGACCCAAATAACCGAATAACCTTTTAAAGTTCTAA
*
1508840 ATAAAGGCAATATTCCGCTTTTTGGGATTCGAAAGATTCTGCCCTACGTGCTGGGTTGCGATTTG
1 ATAAAGGCAATATTCCGCTTTTTGGGATTCGAAAGATACTGCCCTACGTGCTGGGTTGCGATTT-
*
1508905 TT-TCGTTTGACCCAAATAACCGAATAGCCTTTTAAA
65 TTCTCGTTTGACCCAAATAACCGAATAACCTTTTAAA
1508941 ATTTCAATGT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 89 0.98
109 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (108 bp):
ATAAAGGCAATATTCCGCTTTTTGGGATTCGAAAGATACTGCCCTACGTGCTGGGTTGCGATTTT
TCTCGTTTGACCCAAATAACCGAATAACCTTTTAAAGTTCTAA
Found at i:1513903 original size:18 final size:18
Alignment explanation
Indices: 1513880--1513972 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
1513870 TACGACCGTT
1513880 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1513898 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
1513916 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1513934 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1513952 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
1513970 TAC
1 TAC
1513973 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:1518884 original size:24 final size:25
Alignment explanation
Indices: 1518830--1518887 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
1518820 ATTGGTCCTT
1518830 ATTTTTTTTCATTTTGAGCAATTTA
1 ATTTTTTTTCATTTTGAGCAATTTA
1518855 ATTTTTTTTCATTTTGAGCAATTTA
1 ATTTTTTTTCATTTTGAGCAATTTA
1518880 ATTTTTTT
1 ATTTTTTT
1518888 ATTTTATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (25 bp):
ATTTTTTTTCATTTTGAGCAATTTA
Found at i:1521121 original size:26 final size:26
Alignment explanation
Indices: 1521091--1521143 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1521081 TTATGTCCTT
1521091 AAACCCAAAAATAACTCAAATTCGAA
1 AAACCCAAAAATAACTCAAATTCGAA
1521117 AAACCCAAAAATAACTCAAATTCGAA
1 AAACCCAAAAATAACTCAAATTCGAA
1521143 A
1 A
1521144 TAAACTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.23, G:0.04, T:0.15
Consensus pattern (26 bp):
AAACCCAAAAATAACTCAAATTCGAA
Found at i:1521494 original size:31 final size:31
Alignment explanation
Indices: 1521457--1521569 Score: 136
Period size: 31 Copynumber: 3.6 Consensus size: 31
1521447 TTTGAGTGAC
* * *
1521457 TGATTTGTTACTTTCCAAAAATGTTAGTAAT
1 TGATTTGTCACTTTTCAAAAACGTTAGTAAT
* **
1521488 TGATTTGTTACTTTTTGAAAACGTTAGTAAT
1 TGATTTGTCACTTTTCAAAAACGTTAGTAAT
* * *
1521519 TGATTTGTCACTTTTCATAAACGTTAATAAC
1 TGATTTGTCACTTTTCAAAAACGTTAGTAAT
*
1521550 TGATTTGTCACTTTTGAAAA
1 TGATTTGTCACTTTTCAAAA
1521570 TTTAGTGATT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (31 bp):
TGATTTGTCACTTTTCAAAAACGTTAGTAAT
Found at i:1534267 original size:97 final size:97
Alignment explanation
Indices: 1534084--1534323 Score: 354
Period size: 97 Copynumber: 2.5 Consensus size: 97
1534074 GTATCTCGAC
*
1534084 TTTTATAATATCATTGATTAACTCAAATACTTTATTTTGATTAAGACGTTGATGTAACTTTTAAG
1 TTTTATAATATCATTGATTAGCTCAAATACTTTATTTTGATTAA-ACGTTGATGTAACTTTTAAG
* * ***
1534149 AGTTGTATTTTTGACATAATTTGGTAATTTAAT
65 AGTAGTATTTTTGACAAAATTTGGTAACACAAT
* * *
1534182 TTTTACAATGTCATCGATTAGCTCAAATACTTTATTTTGATTAAACGTTGATGTAACTTTTAAGA
1 TTTTATAATATCATTGATTAGCTCAAATACTTTATTTTGATTAAACGTTGATGTAACTTTTAAGA
* *
1534247 GTAGTATTTTTGACAAAATTTGGTACCACGAT
66 GTAGTATTTTTGACAAAATTTGGTAACACAAT
* *
1534279 TTTTATAATATCATTGATTGGCCCAAATACTTTATTTTGATTAAA
1 TTTTATAATATCATTGATTAGCTCAAATACTTTATTTTGATTAAA
1534324 ATATTGATTT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
97 86 0.68
98 40 0.32
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (97 bp):
TTTTATAATATCATTGATTAGCTCAAATACTTTATTTTGATTAAACGTTGATGTAACTTTTAAGA
GTAGTATTTTTGACAAAATTTGGTAACACAAT
Found at i:1552338 original size:39 final size:39
Alignment explanation
Indices: 1552284--1552362 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
1552274 TGACTTTTGT
* *
1552284 TTTTCTCCGCCTTGAGCTGTGTGCTTCAATAAATATCAA
1 TTTTCTCCACCTTGAGCCGTGTGCTTCAATAAATATCAA
1552323 TTTTCTCCACCTTGAGCCGTGTGCTTCAATAAATATCAA
1 TTTTCTCCACCTTGAGCCGTGTGCTTCAATAAATATCAA
1552362 T
1 T
1552363 CTTTTATACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (39 bp):
TTTTCTCCACCTTGAGCCGTGTGCTTCAATAAATATCAA
Found at i:1553501 original size:3 final size:3
Alignment explanation
Indices: 1553481--1553538 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
1553471 GTCATTTTGC
1553481 TAT TA- TAT TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1553526 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
1553539 TATATAGTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1557252 original size:21 final size:21
Alignment explanation
Indices: 1557226--1557266 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1557216 AGACGAGCGA
* *
1557226 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1557247 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1557267 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1564344 original size:52 final size:49
Alignment explanation
Indices: 1564288--1564432 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 49
1564278 AATATCGGGT
* * * *
1564288 AGCTCCAGAGAGCTATTAATCAGGAAGCTCATGAGAGAGCCTTTTATCGGAA
1 AGCTCCAGAGAGCCATTAATCGGGAAGCTCAT-A-AGAGCC-TTAAACGGAA
* * *
1564340 AGCTCCAGAGAGCCAATCATCGGGAAGCTCATATGAGCCTTAAACGGAA
1 AGCTCCAGAGAGCCATTAATCGGGAAGCTCATAAGAGCCTTAAACGGAA
** * *
1564389 AGCTTAAAAGAGCCATTAATCGGGAAGCTCAAAAGAGCCCTTAA
1 AGCTCCAGAGAGCCATTAATCGGGAAGCTCATAAGAG-CCTTAA
1564433 TCTGGAAGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.49
50 11 0.14
51 1 0.01
52 28 0.36
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (49 bp):
AGCTCCAGAGAGCCATTAATCGGGAAGCTCATAAGAGCCTTAAACGGAA
Found at i:1564422 original size:25 final size:25
Alignment explanation
Indices: 1564199--1564443 Score: 144
Period size: 25 Copynumber: 9.8 Consensus size: 25
1564189 AAGCTCTTTC
* *
1564199 GAGCCATATAA-CGGGAAGCTCATGT
1 GAGCCAT-TAATCGGGAAGCTCAAGA
* *
1564224 GAGCCATGTAA-CGTGAAGCT-AATAA
1 GAGCCAT-TAATCGGGAAGCTCAA-GA
* * * *
1564249 GAGTCA-TAATCGGGAAACTCATGC
1 GAGCCATTAATCGGGAAGCTCAAGA
* * *
1564273 GAGCCAAT-ATCGGGTAGCTCCAGA
1 GAGCCATTAATCGGGAAGCTCAAGA
* *
1564297 GAGCTATTAATCAGGAAGCTCATGAGA
1 GAGCCATTAATCGGGAAGCTCA--AGA
* * * *
1564324 GAGCCTTTTATCGGAAAGCTCCAGA
1 GAGCCATTAATCGGGAAGCTCAAGA
* * *
1564349 GAGCCAATCATCGGGAAGCTCATA-T
1 GAGCCATTAATCGGGAAGCTCA-AGA
* * * *
1564374 GAGCC-TTAAACGGAAAGCTTAAAA
1 GAGCCATTAATCGGGAAGCTCAAGA
*
1564398 GAGCCATTAATCGGGAAGCTCAAAA
1 GAGCCATTAATCGGGAAGCTCAAGA
* *
1564423 GAGCCCTTAATCTGGAAGCTC
1 GAGCCATTAATCGGGAAGCTC
1564444 GTGTGAGCTA
Statistics
Matches: 165, Mismatches: 45, Indels: 20
0.72 0.20 0.09
Matches are distributed among these distances:
23 4 0.02
24 46 0.28
25 95 0.58
26 1 0.01
27 19 0.12
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCAAGA
Done.