Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 15 of 185
Found at i:4117621 original size:39 final size:40
Alignment explanation
Indices: 4117426--4117622 Score: 167
Period size: 39 Copynumber: 5.0 Consensus size: 40
4117416 AACATGTTTT
* *
4117426 TGAGTATTGTAATATATGC-TTGAA-TGATATGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTGA-ATGTGATTATA
* * *
4117465 TGAGTATTATGATATATGC-TTGAA-TGCTATGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTG-AATGTGATTATA
* * **
4117504 TGAGTATTGTGATATATGCTTGAATGT-TTTGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
** * * *
4117543 TTTGTATTGTGATATATACTTGAATGTTG--TGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAG-TGAATGTGATTATA
* *
4117582 TGTGTAATGTGATATATGCTTTAAAGTGAATGTGA-TATA
1 TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
4117621 TG
1 TG
4117623 CTTAAAAGTG
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 124 0.92
40 8 0.06
41 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (40 bp):
TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
Found at i:4117621 original size:78 final size:79
Alignment explanation
Indices: 4117426--4117622 Score: 222
Period size: 78 Copynumber: 2.5 Consensus size: 79
4117416 AACATGTTTT
* * * *
4117426 TGAGTATTGTAATATATGC-TTGAA-TGATATGTGATTATATGAGTATTATGATATATGCTTGAA
1 TGAGTAATGTGATATATGCTTTAAAGTGA-ATGTGATTATATGAGTATTATGATATATACTTGAA
4117489 TGCTATGTGATTATA
65 TGCTATGTGATTATA
* * * ** ** *
4117504 TGAGTATTGTGATATATGCTTGAATGT-TTTGTGATTATATTTGTATTGTGATATATACTTGAAT
1 TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATGAGTATTATGATATATACTTGAAT
* *
4117568 GTTGTGTGATTATA
66 GCTATGTGATTATA
*
4117582 TGTGTAATGTGATATATGCTTTAAAGTGAATGTGA-TATATG
1 TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATG
4117623 CTTAAAAGTG
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
78 89 0.92
79 7 0.07
80 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (79 bp):
TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATGAGTATTATGATATATACTTGAAT
GCTATGTGATTATA
Found at i:4119800 original size:3 final size:3
Alignment explanation
Indices: 4119792--4119818 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4119782 TGAGCTATAG
4119792 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4119819 CATCACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4121065 original size:18 final size:18
Alignment explanation
Indices: 4121042--4121080 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4121032 CTATTTTTAG
4121042 AAATTG-AATATACTATTT
1 AAATTGAAATATA-TATTT
4121060 AAATTGAAATATATATTT
1 AAATTGAAATATATATTT
4121078 AAA
1 AAA
4121081 AATGAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
AAATTGAAATATATATTT
Found at i:4121086 original size:19 final size:18
Alignment explanation
Indices: 4121048--4121096 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
4121038 TTAGAAATTG
*
4121048 AATATACTATTTAAATTGA
1 AATATA-TATTTAAAATGA
4121067 AATATATATTTAAAAATGA
1 AATATATATTT-AAAATGA
4121086 AA-ATAATATTT
1 AATAT-ATATTT
4121097 GAGTGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (18 bp):
AATATATATTTAAAATGA
Found at i:4122777 original size:2 final size:2
Alignment explanation
Indices: 4122770--4122799 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4122760 GGTTAGGTAG
4122770 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4122800 CAGGGGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4126082 original size:93 final size:93
Alignment explanation
Indices: 4125935--4126108 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
4125925 GCTTCTTGTG
* ** * *
4125935 TGAATGTTGATGATGAGAAGACTCCTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAAGTTA
1 TGAATCTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
4126000 ACTCCTGTAGCTGGTGGTTCATCATGTA
66 ACTCCTGTAGCTGGTGGTTCATCATGTA
4126028 TGAATCTTGATGATG-GAATGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
1 TGAATCTTGATGATGAGAA-GAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
4126092 AACTCCTGTAGCTGGTG
65 AACTCCTGTAGCTGGTG
4126109 AGGTTTTGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 3 0.04
93 72 0.96
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (93 bp):
TGAATCTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
ACTCCTGTAGCTGGTGGTTCATCATGTA
Found at i:4142628 original size:28 final size:28
Alignment explanation
Indices: 4142597--4142655 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
4142587 TACTTAAGAG
*
4142597 TATCTTACGTGGAAAGTCCGCTAAGGAC
1 TATCGTACGTGGAAAGTCCGCTAAGGAC
* *
4142625 TATCGTATGTGGAATGTCCGCTAAGGAC
1 TATCGTACGTGGAAAGTCCGCTAAGGAC
4142653 TAT
1 TAT
4142656 TTGTTCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (28 bp):
TATCGTACGTGGAAAGTCCGCTAAGGAC
Found at i:4142671 original size:28 final size:28
Alignment explanation
Indices: 4142606--4142673 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
4142596 GTATCTTACG
*
4142606 TGGAAAGTCCGCTAAGGACTATCGTATG
1 TGGAAAGTCCGCTAAGGACTATCGTATC
* *
4142634 TGGAATGTCCGCTAAGGACTATTTGT-TC
1 TGGAAAGTCCGCTAAGGACTA-TCGTATC
*
4142662 TGTAAAGTCCGC
1 TGGAAAGTCCGC
4142674 CAGGAGCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (28 bp):
TGGAAAGTCCGCTAAGGACTATCGTATC
Found at i:4142860 original size:15 final size:15
Alignment explanation
Indices: 4142840--4142870 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4142830 GTTATGTAAG
4142840 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
4142855 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
4142870 T
1 T
4142871 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:4144774 original size:21 final size:21
Alignment explanation
Indices: 4144750--4144790 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4144740 AAATCCCCCC
4144750 AAGAAAAAAACAAGAAAAATG
1 AAGAAAAAAACAAGAAAAATG
* **
4144771 AAGAAGAAAGGAAGAAAAAT
1 AAGAAAAAAACAAGAAAAAT
4144791 CCCAACAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAAAACAAGAAAAATG
Found at i:4147664 original size:16 final size:16
Alignment explanation
Indices: 4147643--4147675 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4147633 TTCTAAATTT
4147643 ATAAAAATATATAAAA
1 ATAAAAATATATAAAA
4147659 ATAAAAATATATAAAA
1 ATAAAAATATATAAAA
4147675 A
1 A
4147676 AACCTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAATATATAAAA
Found at i:4147748 original size:36 final size:36
Alignment explanation
Indices: 4147702--4147800 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
4147692 GATAGCATAT
* *
4147702 AAAAATTTAT-AATATTATACTAAAT-TAACAAAAATA-
1 AAAAAATTATAAAT-TTATA-TAAATAT-ACAAAAAAAC
*
4147738 AAAAACTTATAAATTTATATAAATATACAAAAAAAC
1 AAAAAATTATAAATTTATATAAATATACAAAAAAAC
* *
4147774 AAAAAATTATAAATTCATAAAAATATA
1 AAAAAATTATAAATTTATATAAATATA
4147801 AGTATATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
35 13 0.24
36 39 0.71
37 3 0.05
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (36 bp):
AAAAAATTATAAATTTATATAAATATACAAAAAAAC
Found at i:4150931 original size:16 final size:16
Alignment explanation
Indices: 4150910--4150943 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4150900 AAAAAGATAG
4150910 TATCTTTAATAAAATT
1 TATCTTTAATAAAATT
4150926 TATCTTTAATAAAATT
1 TATCTTTAATAAAATT
4150942 TA
1 TA
4150944 CAAATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TATCTTTAATAAAATT
Found at i:4151155 original size:19 final size:19
Alignment explanation
Indices: 4151131--4151169 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4151121 GCCTTTATGG
4151131 TTGTTATAAATAAA-AAAAA
1 TTGTTATAAA-AAATAAAAA
4151150 TTGTTATAAAAAATAAAAA
1 TTGTTATAAAAAATAAAAA
4151169 T
1 T
4151170 AAAATGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TTGTTATAAAAAATAAAAA
Found at i:4153773 original size:3 final size:3
Alignment explanation
Indices: 4153765--4153850 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
4153755 CAAAGTGCAA
4153765 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
4153813 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4153851 AATTAACAGT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4157123 original size:16 final size:18
Alignment explanation
Indices: 4157086--4157123 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4157076 AATGACTTAG
4157086 AAATGAAATTATGTATTTC
1 AAATGAAATTA-GTATTTC
4157105 AAATGAAATTA-TA-TTC
1 AAATGAAATTAGTATTTC
4157121 AAA
1 AAA
4157124 AATAGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
19 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AAATGAAATTAGTATTTC
Found at i:4160305 original size:27 final size:27
Alignment explanation
Indices: 4160249--4160305 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4160239 GTCTCGACGA
* *
4160249 ACTACCCCATGTTTACCGTTTCGGTAG
1 ACTACCCCATGTTTACCATTTCGATAG
** *
4160276 ACTACCCTGTGTTTACCATTTCGATCG
1 ACTACCCCATGTTTACCATTTCGATAG
4160303 ACT
1 ACT
4160306 TTATTGGTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (27 bp):
ACTACCCCATGTTTACCATTTCGATAG
Found at i:4163831 original size:15 final size:16
Alignment explanation
Indices: 4163800--4163830 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4163790 AAATTACATT
4163800 TTAAAAAAAATTAAAA
1 TTAAAAAAAATTAAAA
*
4163816 TTAAAAAATATTAAA
1 TTAAAAAAAATTAAA
4163831 TCCTGACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAAAAATTAAAA
Found at i:4163946 original size:22 final size:22
Alignment explanation
Indices: 4163920--4163977 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4163910 ATGATTTAAC
*
4163920 AAAAAATATAAATTCAAAGATT
1 AAAAAATATAAATTCAAAGACT
* *
4163942 AAAAAAAATTAAA-TGAAAGACT
1 AAAAAATA-TAAATTCAAAGACT
*
4163964 AAAATATATAAATT
1 AAAAAATATAAATT
4163978 TGGAAGACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAATATAAATTCAAAGACT
Found at i:4166177 original size:994 final size:994
Alignment explanation
Indices: 4164250--4166241 Score: 3984
Period size: 994 Copynumber: 2.0 Consensus size: 994
4164240 GTAGGATGCG
4164250 TTTTCACATTGTTGAAACTTATTTTTTTTCTTTTTTTTTCTTGCGATTGACAATTAAAGTTTATA
1 TTTTCACATTGTTGAAACTTATTTTTTTTCTTTTTTTTTCTTGCGATTGACAATTAAAGTTTATA
4164315 GATTTATTTTGTTTGTGTTTAAGATAGAAATTATTATAGTTTTAAGGTATGTTTGCATTTACGAC
66 GATTTATTTTGTTTGTGTTTAAGATAGAAATTATTATAGTTTTAAGGTATGTTTGCATTTACGAC
4164380 GATGTTGTGGAGCTCAGCGACCTACAATTTTCATCTGTCATGTGAATATGGAGTCATCACCTTGA
131 GATGTTGTGGAGCTCAGCGACCTACAATTTTCATCTGTCATGTGAATATGGAGTCATCACCTTGA
4164445 GAAGTCGGATCGCATTGCAACTCAAGGTCTTAGTTGACAGTGATTATATGGTCCCGTGTTGAAGT
196 GAAGTCGGATCGCATTGCAACTCAAGGTCTTAGTTGACAGTGATTATATGGTCCCGTGTTGAAGT
4164510 TTTACTAGAGTTTCAAATTTACAAAGGTTATGCTGTCAAGTGATGAAGCATATATGGACCCTAGT
261 TTTACTAGAGTTTCAAATTTACAAAGGTTATGCTGTCAAGTGATGAAGCATATATGGACCCTAGT
4164575 TGGCAGTGGTTATGTGGCCATGACAACGAGTTTCACCTCATCAAAGGAGAATGCTTTATAAAACC
326 TGGCAGTGGTTATGTGGCCATGACAACGAGTTTCACCTCATCAAAGGAGAATGCTTTATAAAACC
4164640 CATACAGAAGTTAAAGACGAAAAATATAGGGGACTTTGAGTATAATCAAGTAATTAATTTTATTC
391 CATACAGAAGTTAAAGACGAAAAATATAGGGGACTTTGAGTATAATCAAGTAATTAATTTTATTC
4164705 ATCATCACTAAAGGCGAGGAGCCCATTATTATAATTTGTGACAGAGTTGGGGGCAACAAGATCTC
456 ATCATCACTAAAGGCGAGGAGCCCATTATTATAATTTGTGACAGAGTTGGGGGCAACAAGATCTC
4164770 CGGCAGGGACGAGTTATTGTGCGGTGTAGAAAAGATGAATAATTAACTAATTAAAATTAAATAAT
521 CGGCAGGGACGAGTTATTGTGCGGTGTAGAAAAGATGAATAATTAACTAATTAAAATTAAATAAT
4164835 TTCATAATATCTTCTTACCATTTGTAAATTAAACACCGGAGATGTGTTTGTCATCCAAACGAATA
586 TTCATAATATCTTCTTACCATTTGTAAATTAAACACCGGAGATGTGTTTGTCATCCAAACGAATA
4164900 AACTGATTTGTCATTTTACAAATGATAATGAATCAAATAAAAGCGAAGAGAATAGGATTCAGAGA
651 AACTGATTTGTCATTTTACAAATGATAATGAATCAAATAAAAGCGAAGAGAATAGGATTCAGAGA
4164965 AAGACTTAAAACAAAATTATTGAGAGAATTGAAAATTAAAAAAAAAATAAAGTTTTGAGGAGTTT
716 AAGACTTAAAACAAAATTATTGAGAGAATTGAAAATTAAAAAAAAAATAAAGTTTTGAGGAGTTT
4165030 ATATCAAAAAATATATGGTTGTTGGGATATTGTAGCTGTTGGAATTGTGACCGTTGGGGAAAAAG
781 ATATCAAAAAATATATGGTTGTTGGGATATTGTAGCTGTTGGAATTGTGACCGTTGGGGAAAAAG
4165095 TTACTGTTGGCCTAAAAATGTGTCTGTAAGATGTATTTTGTTTCTCTCTTCAAAAATAATATATC
846 TTACTGTTGGCCTAAAAATGTGTCTGTAAGATGTATTTTGTTTCTCTCTTCAAAAATAATATATC
4165160 TCAACAAATATAAAAAAAAATACATAAATCCTTAAATATGTTAAAATTCAGCATATTTCTTTAAG
911 TCAACAAATATAAAAAAAAATACATAAATCCTTAAATATGTTAAAATTCAGCATATTTCTTTAAG
4165225 TCGGCTAGAAGTAATGTTA
976 TCGGCTAGAAGTAATGTTA
4165244 TTTTCACATTGTTGAAACTTATTTTTTTTCTTTTTTTTTCTTGCGATTGACAATTAAAGTTTATA
1 TTTTCACATTGTTGAAACTTATTTTTTTTCTTTTTTTTTCTTGCGATTGACAATTAAAGTTTATA
4165309 GATTTATTTTGTTTGTGTTTAAGATAGAAATTATTATAGTTTTAAGGTATGTTTGCATTTACGAC
66 GATTTATTTTGTTTGTGTTTAAGATAGAAATTATTATAGTTTTAAGGTATGTTTGCATTTACGAC
4165374 GATGTTGTGGAGCTCAGCGACCTACAATTTTCATCTGTCATGTGAATATGGAGTCATCACCTTGA
131 GATGTTGTGGAGCTCAGCGACCTACAATTTTCATCTGTCATGTGAATATGGAGTCATCACCTTGA
4165439 GAAGTCGGATCGCATTGCAACTCAAGGTCTTAGTTGACAGTGATTATATGGTCCCGTGTTGAAGT
196 GAAGTCGGATCGCATTGCAACTCAAGGTCTTAGTTGACAGTGATTATATGGTCCCGTGTTGAAGT
4165504 TTTACTAGAGTTTCAAATTTACAAAGGTTATGCTGTCAAGTGATGAAGCATATATGGACCCTAGT
261 TTTACTAGAGTTTCAAATTTACAAAGGTTATGCTGTCAAGTGATGAAGCATATATGGACCCTAGT
4165569 TGGCAGTGGTTATGTGGCCATGACAACGAGTTTCACCTCATCAAAGGAGAATGCTTTATAAAACC
326 TGGCAGTGGTTATGTGGCCATGACAACGAGTTTCACCTCATCAAAGGAGAATGCTTTATAAAACC
4165634 CATACAGAAGTTAAAGACGAAAAATATAGGGGACTTTGAGTATAATCAAGTAATTAATTTTATTC
391 CATACAGAAGTTAAAGACGAAAAATATAGGGGACTTTGAGTATAATCAAGTAATTAATTTTATTC
4165699 ATCATCACTAAAGGCGAGGAGCCCATTATTATAATTTGTGACAGAGTTGGGGGCAACAAGATCTC
456 ATCATCACTAAAGGCGAGGAGCCCATTATTATAATTTGTGACAGAGTTGGGGGCAACAAGATCTC
4165764 CGGCAGGGACGAGTTATTGTGCGGTGTAGAAAAGATGAATAATTAACTAATTAAAATTAAATAAT
521 CGGCAGGGACGAGTTATTGTGCGGTGTAGAAAAGATGAATAATTAACTAATTAAAATTAAATAAT
4165829 TTCATAATATCTTCTTACCATTTGTAAATTAAACACCGGAGATGTGTTTGTCATCCAAACGAATA
586 TTCATAATATCTTCTTACCATTTGTAAATTAAACACCGGAGATGTGTTTGTCATCCAAACGAATA
4165894 AACTGATTTGTCATTTTACAAATGATAATGAATCAAATAAAAGCGAAGAGAATAGGATTCAGAGA
651 AACTGATTTGTCATTTTACAAATGATAATGAATCAAATAAAAGCGAAGAGAATAGGATTCAGAGA
4165959 AAGACTTAAAACAAAATTATTGAGAGAATTGAAAATTAAAAAAAAAATAAAGTTTTGAGGAGTTT
716 AAGACTTAAAACAAAATTATTGAGAGAATTGAAAATTAAAAAAAAAATAAAGTTTTGAGGAGTTT
4166024 ATATCAAAAAATATATGGTTGTTGGGATATTGTAGCTGTTGGAATTGTGACCGTTGGGGAAAAAG
781 ATATCAAAAAATATATGGTTGTTGGGATATTGTAGCTGTTGGAATTGTGACCGTTGGGGAAAAAG
4166089 TTACTGTTGGCCTAAAAATGTGTCTGTAAGATGTATTTTGTTTCTCTCTTCAAAAATAATATATC
846 TTACTGTTGGCCTAAAAATGTGTCTGTAAGATGTATTTTGTTTCTCTCTTCAAAAATAATATATC
4166154 TCAACAAATATAAAAAAAAATACATAAATCCTTAAATATGTTAAAATTCAGCATATTTCTTTAAG
911 TCAACAAATATAAAAAAAAATACATAAATCCTTAAATATGTTAAAATTCAGCATATTTCTTTAAG
4166219 TCGGCTAGAAGTAATGTTA
976 TCGGCTAGAAGTAATGTTA
4166238 TTTT
1 TTTT
4166242 TTTAGATGGT
Statistics
Matches: 998, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
994 998 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (994 bp):
TTTTCACATTGTTGAAACTTATTTTTTTTCTTTTTTTTTCTTGCGATTGACAATTAAAGTTTATA
GATTTATTTTGTTTGTGTTTAAGATAGAAATTATTATAGTTTTAAGGTATGTTTGCATTTACGAC
GATGTTGTGGAGCTCAGCGACCTACAATTTTCATCTGTCATGTGAATATGGAGTCATCACCTTGA
GAAGTCGGATCGCATTGCAACTCAAGGTCTTAGTTGACAGTGATTATATGGTCCCGTGTTGAAGT
TTTACTAGAGTTTCAAATTTACAAAGGTTATGCTGTCAAGTGATGAAGCATATATGGACCCTAGT
TGGCAGTGGTTATGTGGCCATGACAACGAGTTTCACCTCATCAAAGGAGAATGCTTTATAAAACC
CATACAGAAGTTAAAGACGAAAAATATAGGGGACTTTGAGTATAATCAAGTAATTAATTTTATTC
ATCATCACTAAAGGCGAGGAGCCCATTATTATAATTTGTGACAGAGTTGGGGGCAACAAGATCTC
CGGCAGGGACGAGTTATTGTGCGGTGTAGAAAAGATGAATAATTAACTAATTAAAATTAAATAAT
TTCATAATATCTTCTTACCATTTGTAAATTAAACACCGGAGATGTGTTTGTCATCCAAACGAATA
AACTGATTTGTCATTTTACAAATGATAATGAATCAAATAAAAGCGAAGAGAATAGGATTCAGAGA
AAGACTTAAAACAAAATTATTGAGAGAATTGAAAATTAAAAAAAAAATAAAGTTTTGAGGAGTTT
ATATCAAAAAATATATGGTTGTTGGGATATTGTAGCTGTTGGAATTGTGACCGTTGGGGAAAAAG
TTACTGTTGGCCTAAAAATGTGTCTGTAAGATGTATTTTGTTTCTCTCTTCAAAAATAATATATC
TCAACAAATATAAAAAAAAATACATAAATCCTTAAATATGTTAAAATTCAGCATATTTCTTTAAG
TCGGCTAGAAGTAATGTTA
Found at i:4167283 original size:18 final size:18
Alignment explanation
Indices: 4167260--4167294 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4167250 TATTTGATTT
*
4167260 TTTAAAATTTAATTTTTA
1 TTTAAAATTAAATTTTTA
*
4167278 TTTAAAGTTAAATTTTT
1 TTTAAAATTAAATTTTT
4167295 TAACAATGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTAAAATTAAATTTTTA
Found at i:4167371 original size:16 final size:16
Alignment explanation
Indices: 4167350--4167380 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4167340 ATTTTTTAAC
4167350 ATATTAAAAAATATTT
1 ATATTAAAAAATATTT
4167366 ATATTAAAAAATATT
1 ATATTAAAAAATATT
4167381 ACCATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTAAAAAATATTT
Found at i:4170662 original size:15 final size:14
Alignment explanation
Indices: 4170642--4170674 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
4170632 TGTTTTGATC
4170642 AAAAGAAATGAAATG
1 AAAAGAAATGAAA-G
4170657 AAAAGAAATGAAAG
1 AAAAGAAATGAAAG
4170671 AAAA
1 AAAA
4170675 AAGAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAGAAATGAAAG
Found at i:4170675 original size:15 final size:16
Alignment explanation
Indices: 4170642--4170680 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
4170632 TGTTTTGATC
4170642 AAAAGAAATGAAATG-
1 AAAAGAAATGAAATGA
4170657 AAAAGAAATGAAA-GAA
1 AAAAGAAATGAAATG-A
4170673 AAAAGAAA
1 AAAAGAAA
4170681 AAGAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGAAATGAAATGA
Found at i:4176440 original size:89 final size:89
Alignment explanation
Indices: 4176256--4176708 Score: 493
Period size: 89 Copynumber: 5.1 Consensus size: 89
4176246 AAGACTTATA
** * * *
4176256 TCTTCGATCTACTTCACCACCCGTATGGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACCA
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCT-ATTATCTTTGATCTACTTCA-CG
* * *
4176320 CCAGT--ATGGAAAGATAAGATCT-GTA
64 CCAATACAT-G-AAGATAAGATCTATTT
* * * * * * * * * ** *
4176345 TATTCGATCCACTTCGCTACCGATATAGGAAGGCAGGACCTATTATCTTTGATCTTTTTCACGCA
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
**
4176410 AATACATGAAGACGAGATCTATTT
66 AATACATGAAGATAAGATCTATTT
* * * * *
4176434 CCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTT-TCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
* * *
4176498 AGTACATGAAGATAAGATTTGTTT
66 AATACATGAAGATAAGATCTATTT
* *
4176522 TCTTCGATCAACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCT
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
*
4176587 AATACATGAAGATAAGATCTTTTT
66 AATACATGAAGATAAGATCTATTT
*
4176611 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
* * **
4176676 AGTACATGAAGAAAAGATCTGCTT
66 AATACATGAAGATAAGATCTATTT
4176700 TCTTCGATC
1 TCTTCGATC
4176709 GATTCCACTA
Statistics
Matches: 299, Mismatches: 60, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
88 90 0.30
89 207 0.69
90 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
AATACATGAAGATAAGATCTATTT
Found at i:4176524 original size:44 final size:44
Alignment explanation
Indices: 4176402--4176708 Score: 265
Period size: 44 Copynumber: 6.9 Consensus size: 44
4176392 TTTGATCTTT
* * * *
4176402 TTCACGCAAATACATGAAGACGAGATCTATTTCCTTCGATCTAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * * *** * *
4176446 TCCACCACCAGTATGGGGAGACAAGATCTG-TTTCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * * *
4176490 TTCACGCCAGTACATGAAGATAAGATTTGTTTTCTTCGATCAAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* *** * * *
4176534 TTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * *
4176579 TTCACGCTAATACATGAAGATAAGATCTTTTTTCTTCGATCTAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* *** * *
4176623 TTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * *
4176668 TTCACGCCAGTACATGAAGAAAAGATCTGCTTTCTTCGATC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATC
4176709 GATTCCACTA
Statistics
Matches: 199, Mismatches: 60, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
43 18 0.09
44 97 0.49
45 84 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
Found at i:4176585 original size:177 final size:176
Alignment explanation
Indices: 4176257--4176708 Score: 602
Period size: 177 Copynumber: 2.5 Consensus size: 176
4176247 AGACTTATAT
* * *
4176257 CTTCGATCTACTTCACCACCCGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACC
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TTTCTTTGATCTACTTCA-CGCC
* * * * * * * *
4176322 AGT--ATGGAAAGATAAGATCTGTATATTCGATCCACTTCGCTACCGATATAGGAAGGCAGGACC
64 AGTACAT-G-AAGATAAGATCTGTTTCTTCGATCAACTTCACCACCAATATAGGAAGACAAGACC
** *
4176385 TATTATCTTTGATCTTTTTCACGCAAATACATGAAGACGAGATCTATTTC
127 TATTATCTTTGATCTACTTCACGCAAATACATGAAGACAAGATCTATTTC
* *
4176435 CTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
* * *
4176500 TACATGAAGATAAGATTTGTTTTCTTCGATCAACTTCACCACCAATATGGGAAGACAAGATCTAT
66 TACATGAAGATAAGATCTG-TTTCTTCGATCAACTTCACCACCAATATAGGAAGACAAGACCTAT
* * * *
4176565 TATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTTTTTT
130 TATCTTTGATCTACTTCACGCAAATACATGAAGACAAGATCTATTTC
*
4176612 CTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT-TCTTTGATCTACTTCACGCCA
*
4176677 GTACATGAAGAAAAGATCTGCTTTCTTCGATC
65 GTACATGAAGATAAGATCTG-TTTCTTCGATC
4176709 GATTCCACTA
Statistics
Matches: 241, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
176 18 0.07
177 133 0.55
178 90 0.37
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (176 bp):
CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
TACATGAAGATAAGATCTGTTTCTTCGATCAACTTCACCACCAATATAGGAAGACAAGACCTATT
ATCTTTGATCTACTTCACGCAAATACATGAAGACAAGATCTATTTC
Found at i:4176796 original size:177 final size:177
Alignment explanation
Indices: 4176435--4176804 Score: 381
Period size: 177 Copynumber: 2.1 Consensus size: 177
4176425 GATCTATTTC
* *
4176435 CTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
1 CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
* * * * *
4176500 TACATGAAGATAAGATTTGTTTTCTTCGATCAACTTCACCACCAATATGGGAAGACAAGATCTAT
66 TACATGAAGAAAAGATCTGCTTTCTTCGATCAACTTCACCACCAATACGGGAAGACAAGATCTAC
* ** * * * * *****
4176565 TATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTTTTTT
131 TAGCTTCAATATACTCCACGCTAATACAGGAAGATAAAATCCGCCAT
*
4176612 CTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
1 CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTT-TCTTTGATCTACTTCACGCCA
* * * * * *
4176677 GTACATGAAGAAAAGATCTGCTTTCTTCGATCGA-TTCCACTACCGA-CCGGGGAGA-TAGAAT-
65 GTACATGAAGAAAAGATCTGCTTTCTTCGATCAACTT-CACCACCAATACGGGAAGACAAG-ATC
* * * *
4176738 TACTGGCTTCAATATACTCCACTGC-AACTTCAGGGAGGTAAAATCCGCCAT
128 TACTAGCTTCAATATACTCCAC-GCTAA-TACAGGAAGATAAAATCCGCCAT
*
4176789 CTTCGATCTGCTCCAC
1 CTTCGATCTACTCCAC
4176805 TACTGCTTGG
Statistics
Matches: 156, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
176 19 0.12
177 79 0.51
178 58 0.37
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (177 bp):
CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
TACATGAAGAAAAGATCTGCTTTCTTCGATCAACTTCACCACCAATACGGGAAGACAAGATCTAC
TAGCTTCAATATACTCCACGCTAATACAGGAAGATAAAATCCGCCAT
Found at i:4176862 original size:44 final size:44
Alignment explanation
Indices: 4176814--4176994 Score: 118
Period size: 44 Copynumber: 4.1 Consensus size: 44
4176804 CTACTGCTTG
*
4176814 GGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCCCA
1 GGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTGTTTCCCA
* * * **
4176858 GGGA-G-ATAGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCA
1 GGGAGGCA-AGATCTGTAAT--CTTCAATCTACTCCACTGTTTCC-CA
* * * ** * * ** * ***
4176902 GGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTG
1 GGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTGTTTCCCA
*
4176946 GGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCCCA
1 GGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTGTTTCCCA
4176990 GGGAG
1 GGGAG
4176995 ATAGAATTAC
Statistics
Matches: 93, Mismatches: 36, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 23 0.25
44 45 0.48
45 18 0.19
46 1 0.01
47 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
GGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTGTTTCCCA
Found at i:4176892 original size:132 final size:132
Alignment explanation
Indices: 4176726--4177991 Score: 1797
Period size: 132 Copynumber: 9.6 Consensus size: 132
4176716 CTACCGACCG
* * *
4176726 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
4176791 TCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
4176856 CA
131 CA
4176858 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
4176923 TCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
4176988 CA
131 CA
4176990 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
4177055 TCGATCTGCTTCGCTGTCGATGC--AGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCT
66 TCGATCTGCTCCACT-AC--TGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCT
* *
4177118 ACCTA
128 GCCCA
* * * *
4177123 GGGA-AGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCATC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* *
4177187 TTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
4177252 CCA
130 CCA
* * *
4177255 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * **
4177320 TCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTTC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
4177385 CA
131 CA
*
4177387 GAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * * *
4177452 TCGATCTGCTTCGCTA-TCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
66 TCGATCTGCTCCACTACT-GCT-TAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
4177516 CCCA
129 CCCA
4177520 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * * *
4177585 TCGATCTGCTTCGCTA-TCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
66 TCGATCTGCTCCACTACT-GCT-TAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
4177649 CCCA
129 CCCA
* * * ** *
4177653 GGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATCTTCTATC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* * *
4177717 TTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
4177782 CCA
130 CCA
* * * * * *
4177785 GGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
4177850 TTGATCTGCTCCACTACTACTTAGGGAGACAAAATCTGAAATCTTCAATCTATTCCACTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
4177915 CA
131 CA
* * * * * *
4177917 GGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
*
4177982 TTGATCTGCT
66 TCGATCTGCT
4177992 TCGCTGTCTA
Statistics
Matches: 1048, Mismatches: 74, Indels: 24
0.91 0.06 0.02
Matches are distributed among these distances:
130 3 0.00
131 1 0.00
132 684 0.65
133 356 0.34
134 1 0.00
135 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
CA
Found at i:4177245 original size:44 final size:44
Alignment explanation
Indices: 4177191--4177378 Score: 150
Period size: 44 Copynumber: 4.3 Consensus size: 44
4177181 GCCATCTTTG
*
4177191 ATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCA
* * ** * *
4177235 ATCTATTCCACTGCTGCCCAGGGA-G-ATAGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGGCA-AGATCTGTAAT--CTTCA
* * ** * * * ** *
4177278 ATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTACTGCTT-AGGGAGGCAAGATCTGTAATCTTCA
4177323 ATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCA
*
4177367 ATCTATTCCACT
1 ATCTACTCCACT
4177379 GTTTTCCAGA
Statistics
Matches: 105, Mismatches: 31, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 22 0.21
44 54 0.51
45 22 0.21
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCA
Found at i:4177288 original size:397 final size:395
Alignment explanation
Indices: 4176726--4177991 Score: 1890
Period size: 397 Copynumber: 3.2 Consensus size: 395
4176716 CTACCGACCG
* **
4176726 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * *
4176791 TCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
4176856 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
*
4176921 CTTCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTT
196 CTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTT
4176986 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
261 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
4177051 ATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
326 ATCTTCGATCTGCTTCGCT-TCGAT-CAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
* *
4177116 CTACCTA
389 CTGCCCA
* * * *
4177123 GGGA-AGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCATC
1 GGGAGA-TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
*
4177187 TTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
* * *
4177252 CCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCA
130 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCA
*
4177317 TCTTCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTT
195 TCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTT
* *
4177382 TTCCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGC
260 TCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGC
4177447 CATCTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACT
325 CATCTTCGATCTGCTTCGCT-TCGAT-CAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACT
4177512 GCTGCCCA
388 GCTGCCCA
* *
4177520 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * * * * *
4177585 TCGATCTGCTTCGCTA-TCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
66 TCGATCTGCTCCACTACT-GCT-TAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTG
* * * **
4177649 CCCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATCTTC
129 CCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGC
* * * * *
4177713 TATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTG
193 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTG
* * * * * * * *
4177778 CTGCCCAGGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCT
258 TTTCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
* * * * * * * * *
4177843 GCCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAAATCTGAAATCTTCAATCTATTCCAC
323 GCCATCTTCGATCTGCTTCGCTTCGA-TCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCAC
4177908 TGCTGCCCA
387 TGCTGCCCA
* * * *
4177917 GGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
*
4177982 TTGATCTGCT
66 TCGATCTGCT
4177992 TCGCTGTCTA
Statistics
Matches: 790, Mismatches: 73, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
396 2 0.00
397 560 0.71
398 228 0.29
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (395 bp):
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTT
CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
ATCTTCGATCTGCTTCGCTTCGATCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCT
GCCCA
Found at i:4177788 original size:44 final size:44
Alignment explanation
Indices: 4177721--4177922 Score: 115
Period size: 44 Copynumber: 4.6 Consensus size: 44
4177711 TCTATCTTTG
* * ** *
4177721 ATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCA
1 ATCTACTCCACTGCTACCCAGGGAGACAAAATCTGAAATCTTCA
* * * ** * *
4177765 ATCTATTCCACTGCTGCCCAGGGAGATGGAATTTCTG---GCTTTA
1 ATCTACTCCACTGCTACCCAGGGAGA--CAAAATCTGAAATCTTCA
* ** ** **
4177808 ATATACTCCACTG-TAACCACAGGGAGGTAAAATCTGCCATCTTTG
1 ATCTACTCCACTGCT-ACC-CAGGGAGACAAAATCTGAAATCTTCA
* * **
4177853 ATCTGCTCCACTACTACTTAGGGAGACAAAATCTGAAATCTTCA
1 ATCTACTCCACTGCTACCCAGGGAGACAAAATCTGAAATCTTCA
* *
4177897 ATCTATTCCACTGCTGCCCAGGGAGA
1 ATCTACTCCACTGCTACCCAGGGAGA
4177923 TGGAATTTCT
Statistics
Matches: 113, Mismatches: 37, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
42 7 0.06
43 17 0.15
44 66 0.58
45 16 0.14
46 7 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTGCTACCCAGGGAGACAAAATCTGAAATCTTCA
Found at i:4178036 original size:45 final size:45
Alignment explanation
Indices: 4177959--4178045 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
4177949 ACTGTAACCA
* ** * * *
4177959 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGTCTATG
1 CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCTATG
* *
4178004 CAGGAAGGTAAGATCTGCTATCTTCAACCTGCTCCACTGTCT
1 CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCT
4178046 CCGAGGGAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (45 bp):
CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCTATG
Found at i:4178042 original size:530 final size:529
Alignment explanation
Indices: 4176726--4178030 Score: 2130
Period size: 530 Copynumber: 2.5 Consensus size: 529
4176716 CTACCGACCG
4176726 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
*
4176791 TCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
4176856 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
* * *
4176921 CTTCGATCTGCTCCACTACTGCT-TG--GGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTG
196 CTTCGATCTGCTTCGCTA-T-CTATGCAGGAAGGCAAGATCTGT-ATCTTCAATCTATTCCACTG
* *
4176983 TTTCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
258 CTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
* *
4177048 GCCATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCA
323 GCCATCTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCA
* *
4177113 CTGCTACCTAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACAAGGAGGTAAAA
388 CTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAA
* * *
4177178 TCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTC
453 TCTGCCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTC
4177243 CACTGCTGCCCA
518 CACTGCTGCCCA
4177255 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
* *
4177320 TCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTTC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
*
4177385 CAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
* * *
4177450 CTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCT
196 CTTCGATCTGCTTCGCTATCTATGCAGGAAGGCAAGATCTG-TATCTTCAATCTATTCCACTGCT
4177515 GCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGC
260 GCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGC
4177580 CATCTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACT
325 CATCTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACT
* *
4177645 GCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATC
390 GCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATC
* *
4177710 TTCTATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCA
455 TGCCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCA
4177775 CTGCTGCCCA
520 CTGCTGCCCA
* * * * ** *
4177785 GGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
* * * * * * *
4177850 TTGATCTGCTCCACTACTACTTAGGGAGACAAAATCTGAAATCTTCAATCTATTCCACTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
* * * * * *
4177915 CAGGGAGATGGAATTTCTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
* * *
4177980 CTTTGATCTGCTTCGCTGTCTATGCAGGAAGGTAAGATCTGCTATCTTCAA
196 CTTCGATCTGCTTCGCTATCTATGCAGGAAGGCAAGATCTG-TATCTTCAA
4178031 CCTGCTCCAC
Statistics
Matches: 719, Mismatches: 53, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
527 1 0.00
528 2 0.00
529 207 0.29
530 509 0.71
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (529 bp):
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
CTTCGATCTGCTTCGCTATCTATGCAGGAAGGCAAGATCTGTATCTTCAATCTATTCCACTGCTG
CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
ATCTTCGATCTGCTTCGCTATCGATACAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
CTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCT
GCCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCAC
TGCTGCCCA
Found at i:4179352 original size:8 final size:7
Alignment explanation
Indices: 4179315--4179349 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
4179305 TTAGCCTCTC
4179315 CATTTTT
1 CATTTTT
4179322 CATTTTT
1 CATTTTT
4179329 CA-TTTT
1 CATTTTT
4179335 CATCTTTT
1 CAT-TTTT
4179343 CATTTTT
1 CATTTTT
4179350 TCACATCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:4180286 original size:18 final size:17
Alignment explanation
Indices: 4180263--4180302 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
4180253 TAATTTGGCA
4180263 GAAAAAATCTGAAAGAAT
1 GAAAAAATCTG-AAGAAT
*
4180281 GAAAAAAATGTGAAGAAT
1 G-AAAAAATCTGAAGAAT
4180299 GAAA
1 GAAA
4180303 GAACATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 9 0.45
ACGTcount: A:0.62, C:0.03, G:0.20, T:0.15
Consensus pattern (17 bp):
GAAAAAATCTGAAGAAT
Found at i:4180288 original size:19 final size:18
Alignment explanation
Indices: 4180264--4180302 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4180254 AATTTGGCAG
4180264 AAAAAATCTGAAAGAATGA
1 AAAAAATCTG-AAGAATGA
*
4180283 AAAAAATGTGAAGAATGA
1 AAAAAATCTGAAGAATGA
4180301 AA
1 AA
4180303 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAATCTGAAGAATGA
Found at i:4182219 original size:19 final size:19
Alignment explanation
Indices: 4182195--4182240 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4182185 AATGGTGTCT
* *
4182195 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
4182213 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
4182233 AATGCAAA
1 AATGCAAA
4182241 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:4183073 original size:14 final size:13
Alignment explanation
Indices: 4183054--4183083 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
4183044 CTTAAAGGGT
4183054 AAAATGCAAAATGC
1 AAAATGC-AAATGC
4183068 AAAATGCAAATGC
1 AAAATGCAAATGC
4183081 AAA
1 AAA
4183084 GTTGCCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGCAAATGC
Found at i:4183080 original size:6 final size:7
Alignment explanation
Indices: 4183054--4183083 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4183044 CTTAAAGGGT
4183054 AAAATGC
1 AAAATGC
4183061 AAAATGC
1 AAAATGC
4183068 AAAATGC
1 AAAATGC
4183075 -AAATGC
1 AAAATGC
4183081 AAA
1 AAA
4183084 GTTGCCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAATGC
Found at i:4184395 original size:20 final size:21
Alignment explanation
Indices: 4184343--4184397 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
4184333 AATATTAATA
* *
4184343 ATAATAATAAATAATAATGAT
1 ATAACAATAAATAATAATCAT
**
4184364 A-AACAAGCAATAAT-ATCAT
1 ATAACAATAAATAATAATCAT
4184383 ATAACAATAAATAAT
1 ATAACAATAAATAAT
4184398 TAAATAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAACAATAAATAATAATCAT
Found at i:4188615 original size:24 final size:25
Alignment explanation
Indices: 4188512--4188651 Score: 71
Period size: 24 Copynumber: 5.7 Consensus size: 25
4188502 GCTGTATAAT
*
4188512 GGAAAGCTCTTGAGAGCC-AATTATC
1 GGAAAGCTCATGAGAGCCTAA-TATC
*
4188537 -GAGAAGCTCAT-ACGAGTCATAA-A-C
1 GGA-AAGCTCATGA-GAG-CCTAATATC
* * * *
4188561 GGGAAGCTCAAGAGGGCCAAAT-TC
1 GGAAAGCTCATGAGAGCCTAATATC
*
4188585 -GATAAGCTCATGCGAGCC-AATATC
1 GGA-AAGCTCATGAGAGCCTAATATC
* *
4188609 GGAAAGCTCGTGAGAGCCTATTATC
1 GGAAAGCTCATGAGAGCCTAATATC
* * *
4188634 GGGACGCTCATAAGAGCC
1 GGAAAGCTCATGAGAGCC
4188652 ATGGTGTGTC
Statistics
Matches: 85, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
23 7 0.08
24 41 0.48
25 34 0.40
26 1 0.01
27 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
GGAAAGCTCATGAGAGCCTAATATC
Found at i:4189938 original size:16 final size:15
Alignment explanation
Indices: 4189912--4189941 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4189902 AGTGATAGAT
4189912 GACAAAAAGTAAAAG
1 GACAAAAAGTAAAAG
4189927 GACAATAAAGTAAAA
1 GACAA-AAAGTAAAA
4189942 ATTAGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (15 bp):
GACAAAAAGTAAAAG
Found at i:4190624 original size:47 final size:47
Alignment explanation
Indices: 4190549--4190731 Score: 260
Period size: 47 Copynumber: 3.9 Consensus size: 47
4190539 GGGGTGTGAC
* * * * *
4190549 AATTAAATAATTTAATCAT-GAACGTGATAAATGGCAAAATAAAAATA
1 AATTAAATGATATAATCATCG-ACATGATAAGTGGCATAATAAAAATA
4190596 AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAAAAATA
1 AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAAAAATA
* ** *
4190643 AATTAAACGATATAATCATCGATGTGATAAGTGGCATGATAAAAATA
1 AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAAAAATA
*
4190690 AATTAAATGATATAATCATAGACATGATAAGTGGCATAATAA
1 AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAA
4190732 CTACTAGAAG
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
47 120 0.99
48 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (47 bp):
AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAAAAATA
Found at i:4192063 original size:18 final size:18
Alignment explanation
Indices: 4192040--4192079 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4192030 TTATTTTTCG
4192040 TTATATCTTTGTACTATT
1 TTATATCTTTGTACTATT
4192058 TTATATCTTTGTACTATT
1 TTATATCTTTGTACTATT
4192076 TTAT
1 TTAT
4192080 GTCACTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATATCTTTGTACTATT
Found at i:4192783 original size:32 final size:32
Alignment explanation
Indices: 4192727--4192798 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
4192717 CTGTGTGTTA
* *
4192727 GGCCATGTGGGATACACATGCTGGACCTTTTG
1 GGCCATGTGGGACACACAGGCTGGACCTTTTG
* *
4192759 GGTCATGTGGGACACAC-GGACTGGACTTTTTG
1 GGCCATGTGGGACACACAGG-CTGGACCTTTTG
4192791 GGCCATGT
1 GGCCATGT
4192799 AGGCCACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.03
32 33 0.97
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (32 bp):
GGCCATGTGGGACACACAGGCTGGACCTTTTG
Found at i:4200616 original size:32 final size:32
Alignment explanation
Indices: 4200580--4200653 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
4200570 AATAAATACC
4200580 AAAAATTTATTTTAAAAATTAAAATAAAAATTA
1 AAAAATTTATTTTAAAAA-TAAAATAAAAATTA
** ** *
4200613 AAAAAAGTATTTTAAAAATAATTTAAAATTTA
1 AAAAATTTATTTTAAAAATAAAATAAAAATTA
*
4200645 AAAATTTTA
1 AAAAATTTA
4200654 AAAAAAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
AAAAATTTATTTTAAAAATAAAATAAAAATTA
Found at i:4200658 original size:11 final size:11
Alignment explanation
Indices: 4200644--4200733 Score: 73
Period size: 11 Copynumber: 8.2 Consensus size: 11
4200634 TTTAAAATTT
4200644 AAAAATTTTAAA
1 AAAAATTTT-AA
4200656 AAAAGTATTTTAA
1 AAAA--ATTTTAA
4200669 AAAAATTTTAA
1 AAAAATTTTAA
4200680 AAAAATTTT--
1 AAAAATTTTAA
4200689 -AAAA--TTAA
1 AAAAATTTTAA
*
4200697 AAAAATTTAAA
1 AAAAATTTTAA
4200708 AAAAGTATTTTAA
1 AAAA--ATTTTAA
**
4200721 AAGTATTTTAA
1 AAAAATTTTAA
4200732 AA
1 AA
4200734 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 4 0.06
11 32 0.49
12 4 0.06
13 14 0.22
14 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:4200691 original size:52 final size:52
Alignment explanation
Indices: 4200621--4200733 Score: 174
Period size: 52 Copynumber: 2.2 Consensus size: 52
4200611 TAAAAAAAGT
* *
4200621 ATTTTAAAAATAATTTAAAATTTAAAAATTTTAAAAAAAGTATTTTAAAAAA
1 ATTTTAAAAATAATTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAAA
**
4200673 ATTTTAAAAA-AATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGT
1 ATTTTAAAAATAA-TTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAAA
4200725 ATTTTAAAA
1 ATTTTAAAA
4200734 TTAAAAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (52 bp):
ATTTTAAAAATAATTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAAA
Found at i:4200699 original size:41 final size:42
Alignment explanation
Indices: 4200606--4200742 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 42
4200596 AATTAAAATA
*
4200606 AAAATTAAAAAAAGTATTTTAAAAATAA-TTT---AAAATTTA
1 AAAATTAAAAAAAGTATTTTAAAAA-AATTTTAAAAAAATTTT
4200645 AAAATTTTAAAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTT
1 AAAA--TTAAAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTT
* **
4200689 AAAATT-AAAAAA--ATTTAAAAAAAGTATTTTAAAAGTATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAA--ATTTTAAAAAAATTTT
4200730 AAAATTAAAAAAA
1 AAAATTAAAAAAA
4200743 TTAAAATATT
Statistics
Matches: 85, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
39 14 0.16
40 2 0.02
41 50 0.59
42 8 0.09
44 11 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (42 bp):
AAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTT
Found at i:4200709 original size:17 final size:17
Alignment explanation
Indices: 4200676--4200709 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4200666 TAAAAAAATT
*
4200676 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTAAAAA
4200693 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
4200710 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:4202752 original size:59 final size:61
Alignment explanation
Indices: 4202686--4202802 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
4202676 ATCACTTTAA
* * * *
4202686 TATTAAATTAATATAATATTTA-T-CAAGATAAGTATTAGATTAAAATTCATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAAATTAATATTAAATCT
*
4202745 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAATATTAAATTAAAATTAATATTAA
4202803 GATAAGATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAAATTAATATTAAATCT
Found at i:4207796 original size:22 final size:21
Alignment explanation
Indices: 4207782--4207823 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
4207772 TAAACTTAAT
4207782 ATTAGTATAATTTAAATTATAA
1 ATTA-TATAATTTAAATTATAA
*
4207804 ATTATATTATTTAAAGTTAT
1 ATTATATAATTTAAA-TTAT
4207824 CATACATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTATATAATTTAAATTATAA
Found at i:4210367 original size:126 final size:125
Alignment explanation
Indices: 4210142--4210525 Score: 601
Period size: 126 Copynumber: 3.1 Consensus size: 125
4210132 GTTTCTGGTT
** ** * * *
4210142 AAATAGTATAAAATCACTTCTACCAGGATGCTATCA-GAGAAGAAATTGTGAACTCGTGCCCTCG
1 AAATAGTATAAAATTGCTGATACGAGGATGCTAT-ATGAGAAGAAATTGTGAA-TCGCGCCCTCA
4210206 TGGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
64 TGGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
4210268 AAATAGTATAAAATTGCTGATACGAGGATGCTATATGAGAAGAAATTGTGAGATCGCGCCCTCAT
1 AAATAGTATAAAATTGCTGATACGAGGATGCTATATGAGAAGAAATTGTGA-ATCGCGCCCTCAT
4210333 GGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
65 GGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
4210394 AAATAGTATAAAATTGCTGATACGAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCAT
1 AAATAGTATAAAATTGCTGATACGAGGATGCTATATGAGAAGAAATTGTG-AATCGCGCCCTCAT
* * * * * *
4210459 GGACGCGATTTCGCTACAGTGGGTCATGTAGGAAATAATTATTTTTTGATG-TTTCTGAGC
65 GGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
4210519 AAATAGT
1 AAATAGT
4210526 GTCAAATCGC
Statistics
Matches: 242, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
125 16 0.07
126 224 0.93
127 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (125 bp):
AAATAGTATAAAATTGCTGATACGAGGATGCTATATGAGAAGAAATTGTGAATCGCGCCCTCATG
GACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTATGAGC
Found at i:4212716 original size:14 final size:15
Alignment explanation
Indices: 4212699--4212731 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4212689 AATAATTATC
4212699 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
4212713 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
4212728 TAAA
1 TAAA
4212732 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:4212869 original size:29 final size:29
Alignment explanation
Indices: 4212830--4212888 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
4212820 TTGAAAATAT
4212830 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
4212858 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAAAA
4212888 T
1 T
4212889 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:4212947 original size:22 final size:21
Alignment explanation
Indices: 4212922--4212972 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
4212912 TAATATGGAT
*
4212922 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
4212944 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
4212966 TTGAGAG
1 TTGAGAG
4212973 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:4212995 original size:52 final size:52
Alignment explanation
Indices: 4212925--4213024 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
4212915 TATGGATTTG
* * * *
4212925 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
4212977 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
4213025 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:4213041 original size:24 final size:22
Alignment explanation
Indices: 4212977--4213032 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
4212967 TGAGAGTTTA
4212977 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
4212999 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
4213021 AGAGAATATTTG
1 AGAGAAT-TTTG
4213033 TTCGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:4214889 original size:13 final size:13
Alignment explanation
Indices: 4214860--4214923 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
4214850 TTTAACATTG
*
4214860 CTTTTAATAAA-TG
1 CTTTTAA-AAAGTA
4214873 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
**
4214886 CTTTGGAAAAGTGA
1 CTTTTAAAAAGT-A
**
4214900 -TTTTGGAAAGTA
1 CTTTTAAAAAGTA
4214912 CTTTTAAAAAGT
1 CTTTTAAAAAGT
4214924 TTGGTTTAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.10
13 36 0.88
14 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:4215135 original size:43 final size:44
Alignment explanation
Indices: 4215055--4215137 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
4215045 TAATATTATG
*
4215055 ATATTTTAATAATACAAAAAATAATTTATTATAATTTTTTGTTA
1 ATATTTTAATAATACAAAAAATAATTTATAATAATTTTTTGTTA
4215099 ATATTTTAATATATGA-AAAATAA-AATTTA-AAT-ATTTTTT
1 ATATTTTAATA-AT-ACAAAA-AATAATTTATAATAATTTTTT
4215138 AAGCAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
43 7 0.20
44 13 0.37
45 12 0.34
46 3 0.09
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (44 bp):
ATATTTTAATAATACAAAAAATAATTTATAATAATTTTTTGTTA
Found at i:4216634 original size:21 final size:21
Alignment explanation
Indices: 4216608--4216649 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4216598 ATTTTCCCTT
*
4216608 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTCTCTCTTCTAAGCAA
4216629 TCTCCTCTCTCTTCTAAGCAA
1 TCTCCTCTCTCTTCTAAGCAA
4216650 ATTTTCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCCTCTCTCTTCTAAGCAA
Found at i:4216887 original size:15 final size:15
Alignment explanation
Indices: 4216867--4216896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4216857 TCCAAATTGT
*
4216867 TTGTTGAAGCTTCCA
1 TTGTTGAAGATTCCA
4216882 TTGTTGAAGATTCCA
1 TTGTTGAAGATTCCA
4216897 GAAAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (15 bp):
TTGTTGAAGATTCCA
Found at i:4217209 original size:15 final size:13
Alignment explanation
Indices: 4217182--4217208 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4217172 TTCAGGTTAG
4217182 AAGTGAGAGATAT
1 AAGTGAGAGATAT
4217195 AAGTGAGAGATAT
1 AAGTGAGAGATAT
4217208 A
1 A
4217209 TGAATAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (13 bp):
AAGTGAGAGATAT
Found at i:4219780 original size:22 final size:20
Alignment explanation
Indices: 4219740--4219788 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4219730 CAATTTAAAA
4219740 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
4219760 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
4219780 TGTAAAAAT
1 TATAAAAAT
4219789 AACTTTTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:4219901 original size:20 final size:20
Alignment explanation
Indices: 4219876--4219915 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4219866 AAATATTTTC
4219876 AGTAAATCATTTTTCAGAAA
1 AGTAAATCATTTTTCAGAAA
*
4219896 AGTAAATCATTTTTTAGAAA
1 AGTAAATCATTTTTCAGAAA
4219916 TCATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
AGTAAATCATTTTTCAGAAA
Found at i:4220041 original size:18 final size:20
Alignment explanation
Indices: 4220020--4220056 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
4220010 ATTATTTTTC
4220020 TTTAAAA-AATTAA-CTGTG
1 TTTAAAACAATTAAGCTGTG
4220038 TTTAAAACAATTAAGCTGT
1 TTTAAAACAATTAAGCTGT
4220057 ACACCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTAAAACAATTAAGCTGTG
Found at i:4220320 original size:14 final size:14
Alignment explanation
Indices: 4220301--4220353 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
4220291 TTGGAAAGAT
4220301 TTATAAAAATAAAA
1 TTATAAAAATAAAA
* *
4220315 TTAT-AATATATAGA
1 TTATAAAAATA-AAA
*
4220329 TTATATAAAATAATA
1 TTATA-AAAATAAAA
4220344 TTATAAAAAT
1 TTATAAAAAT
4220354 TCTGTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.16
14 15 0.47
15 7 0.22
16 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TTATAAAAATAAAA
Found at i:4227016 original size:50 final size:50
Alignment explanation
Indices: 4226901--4227149 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
4226891 GATAATAACA
* * ** *
4226901 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
4226952 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4227002 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4227052 TGCCCATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4227107 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4227150 TTACCCGAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 94 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4227090 original size:100 final size:104
Alignment explanation
Indices: 4226900--4227149 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
4226890 TGATAATAAC
** *
4226900 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* * *
4226965 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGAGGACCTCTCAATCTTAAGG
* *
4227002 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
4227066 CCCAGACATGGTCTTACAGAGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGAGGACCTCTCA--ATCTTAAGG
* *
4227107 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4227150 TTACCCGAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGAGGACCTCTCAATCTTAAGG
Found at i:4227265 original size:13 final size:13
Alignment explanation
Indices: 4227244--4227275 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4227234 GCTTGGATCA
*
4227244 TCATCAAATAAAT
1 TCATAAAATAAAT
4227257 TCATAAAATAAAT
1 TCATAAAATAAAT
4227270 TCATAA
1 TCATAA
4227276 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4234866 original size:8 final size:8
Alignment explanation
Indices: 4234842--4234882 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
4234832 ATGCAATGCT
4234842 TATGCATG
1 TATGCATG
*
4234850 CATGCATG
1 TATGCATG
4234858 TATGCATG
1 TATGCATG
*
4234866 TATGTATG
1 TATGCATG
*
4234874 TATGTATG
1 TATGCATG
4234882 T
1 T
4234883 GTACAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (8 bp):
TATGCATG
Found at i:4234878 original size:12 final size:12
Alignment explanation
Indices: 4234842--4234882 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
4234832 ATGCAATGCT
*
4234842 TATGCATGCATG
1 TATGTATGCATG
*
4234854 CATGTATGCATG
1 TATGTATGCATG
*
4234866 TATGTATGTATG
1 TATGTATGCATG
4234878 TATGT
1 TATGT
4234883 GTACAAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:4242273 original size:107 final size:108
Alignment explanation
Indices: 4242086--4242301 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 108
4242076 TGTTCCCTCG
*
4242086 CCATGAAACTGTTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
1 CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
*
4242151 CCTGAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
66 CCTAAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
4242194 CCATGAAACTATTCAATTAAATGAGAGTAATTTTA-TTTTTTGGAAGCATCAAATAAATTTGATT
1 CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
4242258 CCTAAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
66 CCTAAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
4242301 C
1 C
4242302 TATTCCAGCA
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 72 0.68
108 34 0.32
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (108 bp):
CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
CCTAAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
Found at i:4256730 original size:23 final size:23
Alignment explanation
Indices: 4256704--4256801 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4256694 ATAAGTGCCA
4256704 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4256727 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4256750 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4256772 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4256795 CACTGAT
1 CACTGAT
4256802 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4256769 original size:45 final size:45
Alignment explanation
Indices: 4256711--4256799 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4256701 CCACACTGAT
* *
4256711 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
4256756 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
4256800 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:4264103 original size:23 final size:23
Alignment explanation
Indices: 4264077--4264174 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4264067 ATAAGTGCCA
4264077 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4264100 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4264123 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4264145 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4264168 CACTGAT
1 CACTGAT
4264175 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4264142 original size:45 final size:45
Alignment explanation
Indices: 4264084--4264172 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4264074 CCACACTGAT
* *
4264084 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
4264129 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
4264173 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:4266006 original size:14 final size:14
Alignment explanation
Indices: 4265987--4266013 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4265977 AGGTGGTGGC
4265987 AGAGGCAAGTGGGG
1 AGAGGCAAGTGGGG
4266001 AGAGGCAAGTGGG
1 AGAGGCAAGTGGG
4266014 AAGCTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.56, T:0.07
Consensus pattern (14 bp):
AGAGGCAAGTGGGG
Found at i:4266308 original size:3 final size:3
Alignment explanation
Indices: 4266300--4266325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4266290 AACCTTTACC
4266300 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4266326 TTGATCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4271348 original size:15 final size:15
Alignment explanation
Indices: 4271328--4271356 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4271318 TTGCCAGACA
4271328 TGGATAATGAAAAAT
1 TGGATAATGAAAAAT
4271343 TGGATAATGAAAAA
1 TGGATAATGAAAAA
4271357 CAAGTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (15 bp):
TGGATAATGAAAAAT
Found at i:4274128 original size:39 final size:39
Alignment explanation
Indices: 4274074--4274151 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
4274064 AGGTCATGAT
4274074 TGTCATGGTGTCATCTCAAGTCTTAAAGGCTCAGTATAC
1 TGTCATGGTGTCATCTCAAGTCTTAAAGGCTCAGTATAC
4274113 TGTCATGGTGTCATCTCAAGTCTTAAAGGCTCAGTATAC
1 TGTCATGGTGTCATCTCAAGTCTTAAAGGCTCAGTATAC
4274152 CCTCTGTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (39 bp):
TGTCATGGTGTCATCTCAAGTCTTAAAGGCTCAGTATAC
Found at i:4275772 original size:17 final size:17
Alignment explanation
Indices: 4275750--4275784 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4275740 CAAAGTAAAA
4275750 AACAGATATGAAGATAT
1 AACAGATATGAAGATAT
4275767 AACAGATATGAAGATAT
1 AACAGATATGAAGATAT
4275784 A
1 A
4275785 TGCACTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (17 bp):
AACAGATATGAAGATAT
Found at i:4280121 original size:50 final size:50
Alignment explanation
Indices: 4280062--4280176 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
4280052 CTACTTATTT
* * *
4280062 GGCCGAATATGCAAGAT-CAAGAATAATATCACATATGTACATATCTATAA
1 GGCCGAATATGCAAGATCCAA-AATAACATCACATAAGTACATACCTATAA
* * **
4280112 GGCCGAATATGCAAGTTCCAATATAACATCACATAAGTACATACCTATGT
1 GGCCGAATATGCAAGATCCAAAATAACATCACATAAGTACATACCTATAA
4280162 GGCCGAATATGCAAG
1 GGCCGAATATGCAAG
4280177 GTCATTTAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 54 0.95
51 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (50 bp):
GGCCGAATATGCAAGATCCAAAATAACATCACATAAGTACATACCTATAA
Found at i:4281845 original size:19 final size:18
Alignment explanation
Indices: 4281814--4281858 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
4281804 CAAGCTTAAT
4281814 ATTAAATTAATTAAGATTTA
1 ATTAAA-TAATTAAG-TTTA
*
4281834 GTTAAATAATTAAGTTTA
1 ATTAAATAATTAAGTTTA
4281852 ATTAAAT
1 ATTAAAT
4281859 GTTAAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
ATTAAATAATTAAGTTTA
Found at i:4292787 original size:11 final size:11
Alignment explanation
Indices: 4292771--4292806 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4292761 ACCAGTGGAG
4292771 AAAATTAAATT
1 AAAATTAAATT
4292782 AAAATTAAATT
1 AAAATTAAATT
*
4292793 AAAAATAAGATT
1 AAAATTAA-ATT
4292805 AA
1 AA
4292807 GAGTTGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:4292993 original size:38 final size:37
Alignment explanation
Indices: 4292939--4293018 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 37
4292929 CCTCCGGTGA
* *
4292939 CCCCACTCCCCCATCAGTGCTCCAACCATAACACCCC
1 CCCCACCCCCCCATCAGTGCCCCAACCATAACACCCC
*
4292976 CCCCANCCCCCCCATCAGTGCCCCAACCATAACCCCCC
1 CCCCA-CCCCCCCATCAGTGCCCCAACCATAACACCCC
4293014 CCCCA
1 CCCCA
4293019 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.23, C:0.61, G:0.05, T:0.10
Consensus pattern (37 bp):
CCCCACCCCCCCATCAGTGCCCCAACCATAACACCCC
Found at i:4297559 original size:17 final size:17
Alignment explanation
Indices: 4297487--4297581 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
4297477 TTTAAGAATG
*
4297487 TTTTGAACTTAAAG-AAA
1 TTTTAAACTT-AAGTAAA
**
4297504 TTTTAGGCTTAAGTGAAA
1 TTTTAAACTTAAGT-AAA
* * * **
4297522 ATTTGAACTTAAGCATG
1 TTTTAAACTTAAGTAAA
4297539 TTTTAAACTTAAGTAAA
1 TTTTAAACTTAAGTAAA
* * *
4297556 TTTTGAATTTGAGTAAA
1 TTTTAAACTTAAGTAAA
*
4297573 TTTCAAACT
1 TTTTAAACT
4297582 GCTTTATCTA
Statistics
Matches: 55, Mismatches: 21, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
16 3 0.05
17 40 0.73
18 12 0.22
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (17 bp):
TTTTAAACTTAAGTAAA
Found at i:4299293 original size:30 final size:30
Alignment explanation
Indices: 4299257--4299325 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
4299247 TGCAGGACAC
4299257 AATAAATTGTTTTAATCTATCATGTAATTG
1 AATAAATTGTTTTAATCTATCATGTAATTG
* **
4299287 AATAAATTATTTTAATCTATTGTGTAATTG
1 AATAAATTGTTTTAATCTATCATGTAATTG
4299317 AATAAATTG
1 AATAAATTG
4299326 ACAAATATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (30 bp):
AATAAATTGTTTTAATCTATCATGTAATTG
Found at i:4303096 original size:50 final size:50
Alignment explanation
Indices: 4303021--4303197 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
4303011 CCATGGCAAC
*
4303021 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATAAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
4303071 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
4303121 AAGTGATAAGTGATAACTTCGGCTACATTTATCTGATCAAGGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
4303171 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
4303198 CTAATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:4303290 original size:31 final size:31
Alignment explanation
Indices: 4303173--4303282 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
4303163 ACAAATAACA
* * *
4303173 AGTGAAAAGTGGTAGCTTCTGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
4303204 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
*
4303235 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
*
4303266 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
4303283 TCGGCTACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
Found at i:4303418 original size:49 final size:47
Alignment explanation
Indices: 4303312--4303441 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 47
4303302 GATTTCCGTA
* * * *
4303312 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCATG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCATG
*
4303358 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CATG
4303407 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
4303442 AGATGTGTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 24 0.32
47 1 0.01
48 14 0.19
49 36 0.48
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCATG
Found at i:4304812 original size:17 final size:17
Alignment explanation
Indices: 4304790--4304823 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4304780 TTACTGCTTC
4304790 CACCACCTGCGAAGCTA
1 CACCACCTGCGAAGCTA
4304807 CACCACCTGCGAAGCTA
1 CACCACCTGCGAAGCTA
4304824 ACTTCCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.41, G:0.18, T:0.12
Consensus pattern (17 bp):
CACCACCTGCGAAGCTA
Found at i:4325829 original size:39 final size:40
Alignment explanation
Indices: 4325784--4325955 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
4325774 GCTCCTCGTT
* * *
4325784 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
4325824 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
4325863 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
4325903 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
4325943 CAAATGCCTTCGG
1 CAAATGCCTTCGG
4325956 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:4325884 original size:40 final size:39
Alignment explanation
Indices: 4325786--4326008 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
4325776 TCCTCGTTCA
* * * *
4325786 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
4325825 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
4325864 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
4325904 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
4325944 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
4325985 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
4326009 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:4325968 original size:80 final size:79
Alignment explanation
Indices: 4325784--4326008 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
4325774 GCTCCTCGTT
* * * * *
4325784 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
4325848 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
4325863 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
4325928 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
4325943 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
4326007 GA
63 GA
4326009 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:4326017 original size:41 final size:41
Alignment explanation
Indices: 4325940--4326017 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
4325930 TTTGTATCTC
* * *
4325940 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
4325981 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
4326018 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:4336559 original size:196 final size:196
Alignment explanation
Indices: 4336224--4336605 Score: 523
Period size: 196 Copynumber: 1.9 Consensus size: 196
4336214 TTGGCTTTTT
* * *
4336224 CCACAAGCTCATTAAACAACTCTGTATTTTAGGCCGCTAAATAAACTCAAATCTCACGATTGAGC
1 CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
* * * * * ** *
4336289 CTAAAGCGAAACCTCTTATAGCGATACTTATCAGTCAAAACCATCTTAGGAGTATACTGACAAAG
66 CCAAAGCGAAACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGACAAAG
*
4336354 GCACACAAACTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCCAAAAATTCCC
131 GCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCAAAAATTCCC
4336419 A
196 A
* * *
4336420 CCACAAGCTCATCAAACAACTTTGTATTTTGGGCCACTAAATAAACCCTAATCTCACGATTGAGC
1 CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
* * * * *
4336485 CCAAAGC-AGAACTTCTTACAACGATCCTTCTAAGTCAAAACTATCTCAAAAGCATACTGACTAA
66 CCAAAGCGA-AACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGACAAA
* * * * *
4336549 GGCGCACAAACTTTGTCTCATAGTCAGCCACAAACGAGCTACCTTGCGCAAGATCCA
130 GGCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCA
4336606 TAAACTTCTT
Statistics
Matches: 160, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
195 1 0.01
196 159 0.99
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (196 bp):
CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
CCAAAGCGAAACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGACAAAG
GCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCAAAAATTCCC
A
Found at i:4338435 original size:10 final size:10
Alignment explanation
Indices: 4338403--4338445 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
4338393 ATTCTGACAC
4338403 ACAT-CAATT
1 ACATACAATT
**
4338412 ACATACAAGC
1 ACATACAATT
*
4338422 ACATATAATT
1 ACATACAATT
4338432 ACATACAATT
1 ACATACAATT
4338442 ACAT
1 ACAT
4338446 TTAATCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (10 bp):
ACATACAATT
Found at i:4346432 original size:18 final size:17
Alignment explanation
Indices: 4346379--4346428 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
4346369 TGGATTATAA
4346379 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAT
*
4346397 TATTACTTATTAAAATAT
1 TATTA-TTAATAAAATAT
4346415 TATTATTAATAAAA
1 TATTATTAATAAAA
4346429 ATATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATTAATAAAATAT
Found at i:4346991 original size:20 final size:20
Alignment explanation
Indices: 4346968--4347005 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4346958 ATGAAAATAA
4346968 TTAG-AATTAAATATTAAGGT
1 TTAGAAATTAAA-ATTAAGGT
4346988 TTAGAAATTAAAATTAAG
1 TTAGAAATTAAAATTAAG
4347006 TACCTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
TTAGAAATTAAAATTAAGGT
Found at i:4350094 original size:27 final size:27
Alignment explanation
Indices: 4350046--4350204 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
4350036 GCGAGGCTGC
* *
4350046 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
4350073 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
4350099 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
4350126 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
4350153 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
4350180 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
4350205 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:4350205 original size:54 final size:54
Alignment explanation
Indices: 4350064--4350207 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
4350054 GTGACGAAGT
* *
4350064 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
4350118 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
4350172 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
4350208 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:4351829 original size:26 final size:26
Alignment explanation
Indices: 4351799--4351906 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
4351789 TGAAATTCCC
4351799 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4351825 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4351851 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4351877 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4351903 ATCA
1 ATCA
4351907 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4355770 original size:47 final size:46
Alignment explanation
Indices: 4355650--4355827 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
4355640 ATAATTTCAC
* *
4355650 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCACAT
* *
4355696 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATG-TTCACAT
*
4355742 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGAT-TCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGT--TCA-CAT
* * * *
4355791 TC-TCACGAACTCGGAACGCAACTCAATGAGTTCGGAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
4355828 CTCAATTTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 45 0.39
47 64 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCACAT
Found at i:4355823 original size:94 final size:92
Alignment explanation
Indices: 4355650--4355827 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 92
4355640 ATAATTTCAC
* * *
4355650 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCACATCCATAATGAACTCGGAACA
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCAAATCCATAACGAACTCGGAACA
4355715 CAACTCAACGAGTTCGGATGCTTGCAT
66 CAACTCAACGAGTTCGGATGCTTGCAT
* * *
4355742 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGAT-TCCTCATAATTC-TCACGAACTCGG
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGATGT--TCA-AATCCATAACGAACTCGG
* *
4355805 AACGCAACTCAATGAGTTCGGAT
62 AACACAACTCAACGAGTTCGGAT
4355828 CTCAATTTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 7 0.09
93 30 0.41
94 34 0.46
95 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (92 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCAAATCCATAACGAACTCGGAACA
CAACTCAACGAGTTCGGATGCTTGCAT
Found at i:4360202 original size:39 final size:39
Alignment explanation
Indices: 4360159--4360249 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
4360149 TGCTTTTGAG
*
4360159 TATTGTGATATATGATTGAATGTTATGTGATTATATGAC
1 TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
* * *
4360198 TATTGTGATATATGCTTAAATTTTATGTGATTATATGCC
1 TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
* *
4360237 AAATGTGATATAT
1 TATTGTGATATAT
4360250 CCTTAAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
Found at i:4364566 original size:28 final size:28
Alignment explanation
Indices: 4364534--4364660 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
4364524 CCATGGCATA
* ** *
4364534 TTCAAGTAAGAGTTTGCATGGACTACCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
* *
4364562 TTCAAGTAAGAGTCTGCATGGACTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
* *
4364590 ATCAAGCAAGAGTCCGCATGGGCTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
* * *
4364618 TTCAAGAAAGAGTTCGCAAGGACTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
4364646 TTCAAGCAAGAGTCC
1 TTCAAGCAAGAGTCC
4364661 ACAAGGATTG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (28 bp):
TTCAAGCAAGAGTCCGCATGGACTATCT
Found at i:4364678 original size:56 final size:57
Alignment explanation
Indices: 4364553--4364698 Score: 156
Period size: 56 Copynumber: 2.6 Consensus size: 57
4364543 GAGTTTGCAT
* * * * *
4364553 GGACTACCTTTCAAGTAAGAG-TCTGCATGGACTATCTATCAAGCAAGAGTCCGCAT
1 GGACTATCTTTCAAGAAAGAGTTCTGCAAGGACTATCTATCAAGCAAGAGTCCACAA
* *
4364609 GGGCTATCTTTCAAGAAAGAGTTC-GCAAGGACTATCTTTCAAGCAAGAGTCCACAA
1 GGACTATCTTTCAAGAAAGAGTTCTGCAAGGACTATCTATCAAGCAAGAGTCCACAA
* * * *
4364665 GGATTGT-TCTTCAAGAAGGAG-TCTGCAAAGACTA
1 GGACTATCT-TTCAAGAAAGAGTTCTGCAAGGACTA
4364699 ACTAATGGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
55 3 0.04
56 70 0.93
57 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (57 bp):
GGACTATCTTTCAAGAAAGAGTTCTGCAAGGACTATCTATCAAGCAAGAGTCCACAA
Found at i:4364679 original size:84 final size:84
Alignment explanation
Indices: 4364534--4364687 Score: 186
Period size: 84 Copynumber: 1.8 Consensus size: 84
4364524 CCATGGCATA
* * * * ** *
4364534 TTCAAGTAAGAGTTTGCATGGACTACCTTTCAAGTAAGAGTCTGCATGGACTATCTATCAAGCAA
1 TTCAAGAAAGAGTTCGCAAGGACTACCTTTCAAGCAAGAGTCCACAAGGACTATCTATCAAG-AA
4364599 -GAGTCCGCATGGGCTATCT
65 GGAGTCCGCATGGGCTATCT
* * *
4364618 TTCAAGAAAGAGTTCGCAAGGACTATCTTTCAAGCAAGAGTCCACAAGGATTGTTCT-TCAAGAA
1 TTCAAGAAAGAGTTCGCAAGGACTACCTTTCAAGCAAGAGTCCACAAGGACT-ATCTATCAAGAA
4364682 GGAGTC
65 GGAGTC
4364688 TGCAAAGACT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
83 2 0.03
84 53 0.91
85 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (84 bp):
TTCAAGAAAGAGTTCGCAAGGACTACCTTTCAAGCAAGAGTCCACAAGGACTATCTATCAAGAAG
GAGTCCGCATGGGCTATCT
Found at i:4367170 original size:33 final size:33
Alignment explanation
Indices: 4367123--4367191 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
4367113 TGTATTACTT
*
4367123 TTTTTTGTATATCATACATTATTTAATTATTAC
1 TTTTTTGTACATCATACATTATTTAATTATTAC
*
4367156 TTTTTTGTACATCATGCATTATTTAATTATTAC
1 TTTTTTGTACATCATACATTATTTAATTATTAC
4367189 TTT
1 TTT
4367192 GTATGTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.04, T:0.58
Consensus pattern (33 bp):
TTTTTTGTACATCATACATTATTTAATTATTAC
Found at i:4375019 original size:29 final size:30
Alignment explanation
Indices: 4374981--4375095 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
4374971 TAAAAAATAA
* *
4374981 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
4375011 -AATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
4375040 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
4375070 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
4375096 TAAAAATTAC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.06
29 33 0.46
30 35 0.49
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:4375047 original size:30 final size:30
Alignment explanation
Indices: 4374981--4375096 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 30
4374971 TAAAAAATAA
* *
4374981 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-TT
*
4375011 -AATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * *
4375040 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* *
4375070 AAATTTCATTTT-AACCCTAAATTTTCT
1 AAATTTCATTTTGACCCCTAAACTTTCT
4375097 AAAAATTACA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
29 36 0.50
30 36 0.50
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:4375102 original size:29 final size:29
Alignment explanation
Indices: 4374978--4375109 Score: 90
Period size: 29 Copynumber: 4.5 Consensus size: 29
4374968 ATTTAAAAAA
* *
4374978 TAAAAATTGCATTTTGACCCCTAAACTTT-
1 TAAAAATTTCATTTT-AACCCTAAACTTTC
*** *
4375007 TCCTAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCC-TAAACTTTC
** *
4375037 TTTAAATTTCA-CTTAGACCCCTAAACTTTC
1 TAAAAATTTCATTTTA-A-CCCTAAACTTTC
* *
4375067 -ATTAAATTTCATTTTAACCCTAAATTTTC
1 TA-AAAATTTCATTTTAACCCTAAACTTTC
*
4375096 TAAAAATTACATTT
1 TAAAAATTTCATTT
4375110 AGCCCCAGAA
Statistics
Matches: 80, Mismatches: 16, Indels: 14
0.73 0.15 0.13
Matches are distributed among these distances:
28 3 0.04
29 42 0.52
30 29 0.36
31 6 0.08
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAAAATTTCATTTTAACCCTAAACTTTC
Found at i:4375103 original size:59 final size:59
Alignment explanation
Indices: 4374978--4375103 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 59
4374968 ATTTAAAAAA
* * *
4374978 TAAAAATTGCATTTTGACCCCTAAACTTTTCCTAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTGCACTTAGACCCCTAAACTTTTCCTAATTTCATTTTAACCCTTAAACTTTC
** * * *
4375037 TTTAAATTTCACTTAGACCCCTAAAC-TTTCATTAAATTTCATTTTAACCC-TAAATTTTC
1 TAAAAATTGCACTTAGACCCCTAAACTTTTC-CT-AATTTCATTTTAACCCTTAAACTTTC
4375096 TAAAAATT
1 TAAAAATT
4375104 ACATTTAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 4 0.07
59 36 0.65
60 15 0.27
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (59 bp):
TAAAAATTGCACTTAGACCCCTAAACTTTTCCTAATTTCATTTTAACCCTTAAACTTTC
Found at i:4375622 original size:14 final size:14
Alignment explanation
Indices: 4375601--4375644 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
4375591 CAGGCCAGCC
*
4375601 CAAAAAAAAACAAAG
1 CAAAAAAAAA-GAAG
*
4375616 CAAAAAAAAAGCAG
1 CAAAAAAAAAGAAG
4375630 CAAAAAAAGAAGAAG
1 CAAAAAAA-AAGAAG
4375645 AAAGAAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAGAAG
Found at i:4375634 original size:24 final size:25
Alignment explanation
Indices: 4375624--4375679 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
4375614 AGCAAAAAAA
4375624 AAGCAGCAAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAAGAAGAAGAAAG
4375649 AAGCAG-AAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAAGAAGAAGAAAG
4375673 AAGCAGC
1 AAGCAGC
4375680 CCACTTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.66, C:0.09, G:0.25, T:0.00
Consensus pattern (25 bp):
AAGCAGCAAAAAAAGAAGAAGAAAG
Found at i:4376341 original size:16 final size:17
Alignment explanation
Indices: 4376266--4376332 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 17
4376256 AGAAAAAAAT
*
4376266 CGTGTTTCAAAAATTTT
1 CGTGTTTCAAAAATTTC
*
4376283 CATGTCTTC-AAAATTTC
1 CGTGT-TTCAAAAATTTC
*
4376300 ACGTGCTTCAAAAATTTC
1 -CGTGTTTCAAAAATTTC
4376318 CGTGTTTCAAAAATT
1 CGTGTTTCAAAAATT
4376333 CGTGTTTTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 28 0.67
18 14 0.33
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Done.