Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 25 of 182
Found at i:8310469 original size:39 final size:39
Alignment explanation
Indices: 8310416--8310496 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
8310406 AAATATGGTT
8310416 TTAATTAATAATAAAACAAAGT-GACATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAG-CATGGGGGAGTGGGA
8310455 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
8310494 TTA
1 TTA
8310497 GCTTTTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
Found at i:8314143 original size:12 final size:12
Alignment explanation
Indices: 8314126--8314151 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8314116 TATTCGTGCC
8314126 TTTCTTTCTCTT
1 TTTCTTTCTCTT
8314138 TTTCTTTCTCTT
1 TTTCTTTCTCTT
8314150 TT
1 TT
8314152 ATTTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTCTCTT
Found at i:8314423 original size:20 final size:21
Alignment explanation
Indices: 8314398--8314447 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
8314388 GTCTTTTCTC
*
8314398 CTAATTAATCTTAATTAAA-A
1 CTAATTAATCTAAATTAAACA
* *
8314418 CTAATTTA-CTAAATTAAACT
1 CTAATTAATCTAAATTAAACA
8314438 CTAATTAATC
1 CTAATTAATC
8314448 ACTCAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.38
20 14 0.58
21 1 0.04
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
CTAATTAATCTAAATTAAACA
Found at i:8321730 original size:5 final size:5
Alignment explanation
Indices: 8321720--8321764 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
8321710 ATGTATTATA
* * *
8321720 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT TTACTT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAA
8321765 GCAAATACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 30 0.91
6 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:8325720 original size:31 final size:31
Alignment explanation
Indices: 8325684--8325747 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
8325674 CCCTATGTCT
8325684 GTTTCCACAATATTCACATTCTAGAATTTTA
1 GTTTCCACAATATTCACATTCTAGAATTTTA
8325715 GTTTCCACAATATTCACATTCTAGAATTTTA
1 GTTTCCACAATATTCACATTCTAGAATTTTA
8325746 GT
1 GT
8325748 GTTCGGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (31 bp):
GTTTCCACAATATTCACATTCTAGAATTTTA
Found at i:8329381 original size:5 final size:5
Alignment explanation
Indices: 8329371--8329415 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
8329361 ATGTATTATA
* * *
8329371 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT TTACTT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAA
8329416 GCAAATACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 30 0.91
6 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:8335102 original size:46 final size:46
Alignment explanation
Indices: 8335050--8335145 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
8335040 ACAAGTCAGT
8335050 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
*
8335096 ACATTTTATACAAAGCAATAATACAAAGCAAGAAATAATAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
8335142 ACAT
1 ACAT
8335146 CTATTTGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (46 bp):
ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
Found at i:8336266 original size:58 final size:58
Alignment explanation
Indices: 8336196--8336313 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
8336186 AAAAAGAGAG
8336196 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
1 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
8336254 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
1 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
8336312 AA
1 AA
8336314 TTTCTCAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (58 bp):
AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
Found at i:8338416 original size:21 final size:21
Alignment explanation
Indices: 8338390--8338432 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8338380 TTTGGGTGGA
8338390 TCAGCTCTCACGAGATTCTGT
1 TCAGCTCTCACGAGATTCTGT
* * *
8338411 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTCACGAGATTCTGT
8338432 T
1 T
8338433 GGTGTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTCACGAGATTCTGT
Found at i:8339131 original size:41 final size:39
Alignment explanation
Indices: 8339037--8339143 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 39
8339027 CGACTTCAAG
* *
8339037 TCGATGAGGCATTGAGTGTCAATTTAC--TTCGGTATAA
1 TCGATGAGACATTGGGTGTCAATTTACTATTCGGTATAA
* * *
8339074 TCGATCAGACATTGGGTGTCAATTTACTATTTCGGATTTAT
1 TCGATGAGACATTGGGTGTCAATTTACTA-TTCGG-TATAA
*
8339115 TCGATGAGACACTGGGTGTCAATTTACTA
1 TCGATGAGACATTGGGTGTCAATTTACTA
8339144 CTTTGAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 24 0.41
40 5 0.08
41 30 0.51
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (39 bp):
TCGATGAGACATTGGGTGTCAATTTACTATTCGGTATAA
Found at i:8344043 original size:38 final size:38
Alignment explanation
Indices: 8343982--8344176 Score: 318
Period size: 38 Copynumber: 5.1 Consensus size: 38
8343972 ATTTGATGTG
*
8343982 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
8344022 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
8344060 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
8344098 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
8344136 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
8344174 TAT
1 TAT
8344177 TCAGGCCTTG
Statistics
Matches: 150, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 137 0.91
39 5 0.03
40 8 0.05
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:8344239 original size:45 final size:44
Alignment explanation
Indices: 8344173--8344303 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 44
8344163 TACTGGTATT
* * *
8344173 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
8344216 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
8344262 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
8344303 A
1 A
8344304 ATAAAAGTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 16 0.20
44 15 0.19
45 32 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:8351345 original size:66 final size:66
Alignment explanation
Indices: 8351239--8351371 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
8351229 CCTCGTTAGG
* *
8351239 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCTTTTGGAGGGTTGTCGATGTTG
1 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
8351304 C
66 C
8351305 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
1 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
8351370 C
66 C
8351371 A
1 A
8351372 CCCTAAGTCG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (66 bp):
AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
C
Found at i:8353705 original size:30 final size:30
Alignment explanation
Indices: 8353659--8353752 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
8353649 TTTTATTATG
*
8353659 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
8353690 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
8353720 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8353750 CCA
1 CCA
8353753 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:8353714 original size:15 final size:15
Alignment explanation
Indices: 8353669--8353746 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
8353659 CCAATATCTC
8353669 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8353684 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8353699 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8353714 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
8353729 GATACCCATATCTTT
1 GATACCCATATCTTT
8353744 GAT
1 GAT
8353747 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:8358377 original size:15 final size:15
Alignment explanation
Indices: 8358332--8358439 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
8358322 CCAATATCTC
8358332 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8358347 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8358362 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8358377 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8358392 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8358407 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
8358422 GATACCCATATCTTT
1 GATACCCATATCTTT
8358437 GAT
1 GAT
8358440 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:8358446 original size:30 final size:30
Alignment explanation
Indices: 8358322--8358445 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
8358312 TTTTATTATG
*
8358322 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
8358353 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8358383 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
8358413 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8358443 CCA
1 CCA
8358446 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:8363070 original size:15 final size:15
Alignment explanation
Indices: 8363025--8363132 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
8363015 CCAATATCTC
8363025 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8363040 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8363055 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8363070 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8363085 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8363100 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
8363115 GATACCCATATCTTT
1 GATACCCATATCTTT
8363130 GAT
1 GAT
8363133 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:8363139 original size:30 final size:30
Alignment explanation
Indices: 8363015--8363138 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
8363005 TTTTATTATG
*
8363015 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
8363046 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8363076 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
8363106 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8363136 CCA
1 CCA
8363139 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:8367751 original size:30 final size:30
Alignment explanation
Indices: 8367717--8367828 Score: 197
Period size: 30 Copynumber: 3.7 Consensus size: 30
8367707 CCAATATCTC
8367717 GATACCCATATCTTTGACTTTCTAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
8367747 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
8367777 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
8367807 GATACCCATATCTTTGATTTTC
1 GATACCCATATCTTTGACTTTC
8367829 CATAAATATG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCTAATATTT
Found at i:8367762 original size:15 final size:15
Alignment explanation
Indices: 8367717--8367824 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
8367707 CCAATATCTC
8367717 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
8367732 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
8367747 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8367762 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8367777 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
8367792 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
8367807 GATACCCATATCTTT
1 GATACCCATATCTTT
8367822 GAT
1 GAT
8367825 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:8369269 original size:18 final size:18
Alignment explanation
Indices: 8369248--8369287 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8369238 TTAAAATGCA
8369248 TGCAGGCTATT-TGCATGT
1 TGCA-GCTATTGTGCATGT
*
8369266 TGCAGCTCTTGTGCATGT
1 TGCAGCTATTGTGCATGT
8369284 TGCA
1 TGCA
8369288 CTAACAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (18 bp):
TGCAGCTATTGTGCATGT
Found at i:8372112 original size:28 final size:28
Alignment explanation
Indices: 8372080--8372157 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
8372070 TTTCTATATA
8372080 ATTTTTATAATGTTTACAAAA-TTTTAAT
1 ATTTTTATAAT-TTTACAAAATTTTTAAT
*
8372108 ATTTTTATATATTTTATAAAATTTTTAAT
1 ATTTTTATA-ATTTTACAAAATTTTTAAT
* *
8372137 TTTTTTATAA-TTTAAAAAATT
1 ATTTTTATAATTTTACAAAATT
8372158 ACATCTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.22
28 18 0.40
29 17 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (28 bp):
ATTTTTATAATTTTACAAAATTTTTAAT
Found at i:8372672 original size:14 final size:15
Alignment explanation
Indices: 8372653--8372693 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
8372643 TAAGACCAAC
8372653 AAAAATTAAATTT-T
1 AAAAATTAAATTTAT
*
8372667 AAAAATTAGATTTGAT
1 AAAAATTAAATTT-AT
8372683 AAAAA-TAAATT
1 AAAAATTAAATT
8372694 ACGGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATTAAATTTAT
Found at i:8376943 original size:106 final size:106
Alignment explanation
Indices: 8376745--8376957 Score: 320
Period size: 106 Copynumber: 2.0 Consensus size: 106
8376735 AAATATCGCT
*
8376745 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAT
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
** **
8376810 CGTAAGTTAGGGCATGATGTTTCAAATCTTTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGTTTCAAATCCCTGAAAATAAGA
* * * * *
8376851 AATTAAATCAAATTTTATGAAGAATGTCTTTGTATTTCGAGTTAATTGGGAAGAGAATCATGCAC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
8376916 CGTAAGTTAGGGCACAATGTCTT-AAATCCCTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGT-TTCAAATCCCTGAAAATAAGA
8376957 A
1 A
8376958 TGCTCATTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 94 0.98
107 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
CGTAAGTTAGGGCACAATGTTTCAAATCCCTGAAAATAAGA
Found at i:8380165 original size:20 final size:20
Alignment explanation
Indices: 8380140--8380178 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8380130 AAAGTGAGCT
8380140 GAAGGATAGTGTGATTTTAC
1 GAAGGATAGTGTGATTTTAC
8380160 GAAGGATAGTGTGATTTTA
1 GAAGGATAGTGTGATTTTA
8380179 ATCCGACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (20 bp):
GAAGGATAGTGTGATTTTAC
Found at i:8380835 original size:26 final size:26
Alignment explanation
Indices: 8380796--8380865 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
8380786 ACAATATCGA
*
8380796 GAAGCTC-CAAAGAGCCATTAATTAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* *
8380821 GAAGCTCACAAAGAGCCTTTAGTCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
*
8380847 GAAGCTCACGAAGAGCCAT
1 GAAGCTCACAAAGAGCCAT
8380866 GTAACGGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAATCAG
Found at i:8395436 original size:55 final size:54
Alignment explanation
Indices: 8395369--8395489 Score: 156
Period size: 55 Copynumber: 2.2 Consensus size: 54
8395359 AAAAAAATGT
*
8395369 TTTGGGGGTTTGAGAGGAAATAAAAGTTTT-AG-GGGAAAGCAAAAGGAAAAAAAA
1 TTTGGGGGTTTGA-AGGAAATAAAAGTTTTGAGAGGGAAA-CAAAAGAAAAAAAAA
* *
8395423 TTTGAGGGGTTTGAAGGAAGTAAAAGTTTTGGGAGGGAAACAAAAGAAAAAAAAA
1 TTTG-GGGGTTTGAAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
* *
8395478 TGTGGAGGTTTG
1 TTTGGGGGTTTG
8395490 GGGAATGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 26 0.44
55 27 0.46
56 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.22
Consensus pattern (54 bp):
TTTGGGGGTTTGAAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
Found at i:8401701 original size:21 final size:21
Alignment explanation
Indices: 8401669--8401709 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8401659 GAACATCTGG
8401669 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
8401690 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
8401710 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:8410941 original size:17 final size:17
Alignment explanation
Indices: 8410915--8410964 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
8410905 TTTTCATACT
*
8410915 TTAAATAAATAATATAA
1 TTAAAAAAATAATATAA
*
8410932 TTAAAAAAAT--TATGAT
1 TTAAAAAAATAATAT-AA
*
8410948 TTAAAAAAATAAAATAA
1 TTAAAAAAATAATATAA
8410965 AAACTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
17 10 0.38
18 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATAATATAA
Found at i:8411689 original size:15 final size:15
Alignment explanation
Indices: 8411669--8411698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8411659 CATTTTATTT
*
8411669 ATATTAGGATAATTA
1 ATATTAAGATAATTA
8411684 ATATTAAGATAATTA
1 ATATTAAGATAATTA
8411699 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:8411740 original size:10 final size:10
Alignment explanation
Indices: 8411723--8411754 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8411713 TTATAGGATT
8411723 TTAT-TTTAA
1 TTATCTTTAA
8411732 TTATCTTTAA
1 TTATCTTTAA
8411742 TTATCTTTAA
1 TTATCTTTAA
8411752 TTA
1 TTA
8411755 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:8418186 original size:5 final size:5
Alignment explanation
Indices: 8418136--8418215 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
8418126 AATCTTTAAT
*
8418136 TTTTAA TTTTAA TTTTA -TTTA -TTTA -TTTA -TTTA TTATT- TCTTA
1 TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA
* *
8418179 TTTTA TTTTA TTTTG TTTTA TTTT- TAATTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TT
8418216 ATAATAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
4 19 0.30
5 31 0.49
6 13 0.21
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:8421036 original size:96 final size:95
Alignment explanation
Indices: 8420855--8421038 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 95
8420845 ATTTCTAAGA
*
8420855 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
8420920 AATATGTTCTTAGGAAAAATAAAAATTAGGG
66 AATATGTTCCTA-GAAAAATAAAAATTAGGG
* *
8420951 ATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
8421016 AATATTTATCCT-GAATAAATAAA
66 AATATGT-TCCTAGAA-AAATAAA
8421039 TAAAGTTGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 3 0.04
96 75 0.93
97 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (95 bp):
ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
AATATGTTCCTAGAAAAATAAAAATTAGGG
Found at i:8421658 original size:15 final size:15
Alignment explanation
Indices: 8421638--8421667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8421628 CATTTTATTT
*
8421638 ATATTAGGATAATTA
1 ATATTAAGATAATTA
8421653 ATATTAAGATAATTA
1 ATATTAAGATAATTA
8421668 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:8421695 original size:27 final size:26
Alignment explanation
Indices: 8421634--8421696 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
8421624 ACTCCATTTT
8421634 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
8421661 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
8421689 ATTTTATT
1 ATTTTATT
8421697 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:8424096 original size:96 final size:95
Alignment explanation
Indices: 8423915--8424098 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 95
8423905 ATTTCTAAGA
*
8423915 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
8423980 AATATGTTCTTAGGAAAAATAAAAATTAGGG
66 AATATGTTCCTA-GAAAAATAAAAATTAGGG
* *
8424011 ATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
8424076 AATATTTATCCT-GAATAAATAAA
66 AATATGT-TCCTAGAA-AAATAAA
8424099 TAAAGTTGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 3 0.04
96 75 0.93
97 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (95 bp):
ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
AATATGTTCCTAGAAAAATAAAAATTAGGG
Found at i:8424718 original size:15 final size:15
Alignment explanation
Indices: 8424698--8424727 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8424688 CATTTTATTT
*
8424698 ATATTAGGATAATTA
1 ATATTAAGATAATTA
8424713 ATATTAAGATAATTA
1 ATATTAAGATAATTA
8424728 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:8424755 original size:27 final size:26
Alignment explanation
Indices: 8424694--8424756 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
8424684 ACTCCATTTT
8424694 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
8424721 ATAATTATTAGGATTATTAAATTTTAGG
1 AT-TTTATTAGGATAATT-AATATTAAG
8424749 ATTTTATT
1 ATTTTATT
8424757 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:8427263 original size:23 final size:22
Alignment explanation
Indices: 8427205--8427264 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
8427195 TCAATTAAAA
8427205 TATATTAAATT-ATTTTATAAT
1 TATATTAAATTAATTTTATAAT
*
8427226 TTTATATAAATTTAATTTTATAAT
1 TATAT-TAAA-TTAATTTTATAAT
*
8427250 TGATATTATATTAAT
1 T-ATATTAAATTAAT
8427265 CAGTTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 7 0.22
24 14 0.44
25 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTAAATTAATTTTATAAT
Found at i:8437708 original size:53 final size:53
Alignment explanation
Indices: 8437446--8437706 Score: 429
Period size: 53 Copynumber: 4.9 Consensus size: 53
8437436 GACGAAAAAT
*
8437446 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
8437498 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
8437551 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
**
8437604 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * *
8437657 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGT
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGT
8437707 ATGATATGTG
Statistics
Matches: 200, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
51 4 0.02
52 11 0.05
53 185 0.93
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:8439000 original size:23 final size:23
Alignment explanation
Indices: 8438973--8439020 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8438963 TAAAGAAAGA
* *
8438973 AAATAACTTGTTCGATTGAGTTC
1 AAATAACTTGCTCAATTGAGTTC
8438996 AAATAACTTGCTCAATTGAGTTC
1 AAATAACTTGCTCAATTGAGTTC
8439019 AA
1 AA
8439021 GAAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (23 bp):
AAATAACTTGCTCAATTGAGTTC
Found at i:8446249 original size:18 final size:16
Alignment explanation
Indices: 8446226--8446260 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8446216 AATTTAACTT
8446226 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
8446244 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
8446260 T
1 T
8446261 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:8451656 original size:9 final size:9
Alignment explanation
Indices: 8451644--8451674 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8451634 GAAGATTGAA
*
8451644 GAAGCTAAG
1 GAAGCCAAG
8451653 GAAGCCAAG
1 GAAGCCAAG
8451662 GAAGCCAAG
1 GAAGCCAAG
8451671 GAAG
1 GAAG
8451675 AGAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.35, T:0.03
Consensus pattern (9 bp):
GAAGCCAAG
Found at i:8453712 original size:26 final size:26
Alignment explanation
Indices: 8453683--8453740 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
8453673 GTATAAACAG
*
8453683 ACTAAAAACTAATACAATCTAGGTTA
1 ACTAAAAACTAATACAATCTAGGCTA
* * *
8453709 ACTAAAAATTGATATAATCTAGGCTA
1 ACTAAAAACTAATACAATCTAGGCTA
8453735 ACTAAA
1 ACTAAA
8453741 CTAAAACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.28
Consensus pattern (26 bp):
ACTAAAAACTAATACAATCTAGGCTA
Found at i:8469579 original size:22 final size:22
Alignment explanation
Indices: 8469554--8469595 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8469544 ACAAACTGTT
*
8469554 AAACTATAATAAAAAAAACATA
1 AAACTACAATAAAAAAAACATA
* *
8469576 AAACTGCAATAAAACAAACA
1 AAACTACAATAAAAAAAACA
8469596 AGAAGCAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.14, G:0.02, T:0.14
Consensus pattern (22 bp):
AAACTACAATAAAAAAAACATA
Found at i:8470833 original size:39 final size:39
Alignment explanation
Indices: 8470786--8470865 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
8470776 ATTCAATTTT
8470786 AAGCATATATCA-AATTACACATATAATCACATAACATTC
1 AAGCATATATCACAA-TACACATATAATCACATAACATTC
* *
8470825 AAGCATATATCACAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
8470864 AA
1 AA
8470866 ACGTTTATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:8470875 original size:39 final size:39
Alignment explanation
Indices: 8470789--8470884 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
8470779 CAATTTTAAG
* *
8470789 CATATATCA-AATTACACATATAATCACATAACATTCAAG
1 CATATATCACAA-TACTCATATAATCACATAACATTCAAA
*
8470828 CATATATCACAATACTCATATAATTACATAACATTCAAA
1 CATATATCACAATACTCATATAATCACATAACATTCAAA
* * *
8470867 CGTTTATCACCATACTCA
1 CATATATCACAATACTCA
8470885 AAAACATCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 48 0.96
40 2 0.04
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (39 bp):
CATATATCACAATACTCATATAATCACATAACATTCAAA
Found at i:8477196 original size:17 final size:17
Alignment explanation
Indices: 8477132--8477214 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
8477122 TTGGTTAAAA
* *
8477132 ATTAACCGAATTAAACG
1 ATTACCCGAATTAACCG
* *
8477149 AATTACTCGAATTAACCAA
1 -ATTACCCGAATTAACC-G
* *
8477168 ATTAACCAAATTAACCG
1 ATTACCCGAATTAACCG
8477185 ATTACCCGAATTAACCG
1 ATTACCCGAATTAACCG
8477202 ATTACCCGAATTA
1 ATTACCCGAATTA
8477215 CTCGAATTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.25
Consensus pattern (17 bp):
ATTACCCGAATTAACCG
Found at i:8477222 original size:9 final size:9
Alignment explanation
Indices: 8477131--8477214 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
8477121 TTTGGTTAAA
8477131 AATTAACCG
1 AATTAACCG
*
8477140 AATTAAACG
1 AATTAACCG
8477149 AATT-ACTCG
1 AATTAAC-CG
*
8477158 AATTAACCA
1 AATTAACCG
*
8477167 AATTAACCA
1 AATTAACCG
8477176 AATTAACCG
1 AATTAACCG
*
8477185 -ATTACCCG
1 AATTAACCG
8477193 AATTAACCG
1 AATTAACCG
*
8477202 -ATTACCCG
1 AATTAACCG
8477210 AATTA
1 AATTA
8477215 CTCGAATTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
8 15 0.23
9 47 0.73
10 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:8479704 original size:21 final size:21
Alignment explanation
Indices: 8479675--8479733 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
8479665 GCAAGAAAAA
8479675 AATTATATAATAAATTAAAATAC
1 AATT-TATAAT-AATTAAAATAC
8479698 -ATTTATAAT-ATTAAAATAC
1 AATTTATAATAATTAAAATAC
8479717 ATATTTATAAT-ATTAAA
1 A-ATTTATAATAATTAAA
8479734 CAATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATAATAATTAAAATAC
Found at i:8479710 original size:19 final size:20
Alignment explanation
Indices: 8479684--8479733 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
8479674 AAATTATATA
8479684 ATAA-ATTAAAATAC-ATTT
1 ATAATATTAAAATACAATTT
8479702 ATAATATTAAAATACATATTT
1 ATAATATTAAAATACA-ATTT
8479723 ATAATATTAAA
1 ATAATATTAAA
8479734 CAATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
21 15 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTAAAATACAATTT
Found at i:8479801 original size:12 final size:11
Alignment explanation
Indices: 8479781--8479814 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8479771 AGAATACTTG
8479781 TTAAATAAAAT
1 TTAAATAAAAT
*
8479792 TTACAATAAAAA
1 TTA-AATAAAAT
8479804 TTAAATAAAAT
1 TTAAATAAAAT
8479815 ATTGGTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAATAAAAT
Found at i:8480346 original size:6 final size:6
Alignment explanation
Indices: 8480335--8480379 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
8480325 CTGACTGTCT
*
8480335 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGTGA GTG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
8480380 ATTAGGGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
GTGGGA
Found at i:8486247 original size:30 final size:29
Alignment explanation
Indices: 8486210--8486270 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
8486200 TCATCAAAAT
*
8486210 AAGGTTTTAGGCGGGTATTGTTTACCTTA
1 AAGGTTTTAGGCGGATATTGTTTACCTTA
*
8486239 ANAGGTTTTAGGTGGATATTGTTTACCTTA
1 A-AGGTTTTAGGCGGATATTGTTTACCTTA
8486269 AA
1 AA
8486271 AGTGCCGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (29 bp):
AAGGTTTTAGGCGGATATTGTTTACCTTA
Found at i:8496075 original size:21 final size:22
Alignment explanation
Indices: 8496041--8496082 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8496031 TACCGATCAA
8496041 TCACAGAATAAATCATTCATTT
1 TCACAGAATAAATCATTCATTT
*
8496063 TCACATAA-AAATCATTCATT
1 TCACAGAATAAATCATTCATT
8496083 ACCGATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TCACAGAATAAATCATTCATTT
Found at i:8496104 original size:51 final size:51
Alignment explanation
Indices: 8496028--8496127 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
8496018 GGTTACGAGG
8496028 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
8496079 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
8496128 ATTATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (51 bp):
CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
Found at i:8503840 original size:23 final size:23
Alignment explanation
Indices: 8503813--8503857 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8503803 CTTTTCTTTT
*
8503813 TTTTTAAAATTTTAAATTTTATGG
1 TTTTCAAAA-TTTAAATTTTATGG
* *
8503837 TTTTCATAATTTAATTTTTAT
1 TTTTCAAAATTTAAATTTTAT
8503858 TTCATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTCAAAATTTAAATTTTATGG
Found at i:8512546 original size:11 final size:11
Alignment explanation
Indices: 8512532--8512575 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
8512522 TAAAAAAATA
8512532 TGTTATTTTCT
1 TGTTATTTTCT
* **
8512543 TGTTGTTTTAA
1 TGTTATTTTCT
8512554 TGTTATTTTCT
1 TGTTATTTTCT
*
8512565 TATTATTTTCT
1 TGTTATTTTCT
8512576 CCTTATTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (11 bp):
TGTTATTTTCT
Found at i:8512573 original size:22 final size:22
Alignment explanation
Indices: 8512531--8512573 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8512521 ATAAAAAAAT
* *
8512531 ATGTTATTTTCTTGTTGTTTTA
1 ATGTTATTTTCTTATTATTTTA
8512553 ATGTTATTTTCTTATTATTTT
1 ATGTTATTTTCTTATTATTTT
8512574 CTCCTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
ATGTTATTTTCTTATTATTTTA
Found at i:8512677 original size:11 final size:11
Alignment explanation
Indices: 8512556--8512677 Score: 57
Period size: 11 Copynumber: 10.7 Consensus size: 11
8512546 TGTTTTAATG
*
8512556 TTATTTTCTTA
1 TTATTTTATTA
* **
8512567 TTATTTTCTCC
1 TTATTTTATTA
8512578 TTATTTTATTA
1 TTATTTTATTA
**
8512589 CCATTTTATTA
1 TTATTTTATTA
* **
8512600 TTATATTACCA
1 TTATTTTATTA
*
8512611 TTATTTTGTTA
1 TTATTTTATTA
*
8512622 TTATTGT-TTA
1 TTATTTTATTA
* **
8512632 GATATTGTATAACA
1 -TTATT-T-TATTA
*
8512646 CTTATTTTATTG
1 -TTATTTTATTA
8512658 TTAATTTTATTA
1 TT-ATTTTATTA
8512670 TTATTTTA
1 TTATTTTA
8512678 GAGACATTTA
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
10 3 0.04
11 57 0.72
12 12 0.15
13 2 0.03
14 5 0.06
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:8517043 original size:11 final size:11
Alignment explanation
Indices: 8516922--8517043 Score: 57
Period size: 11 Copynumber: 10.7 Consensus size: 11
8516912 TGTTTTAATG
*
8516922 TTATTTTCTTA
1 TTATTTTATTA
* **
8516933 TTATTTTCTCC
1 TTATTTTATTA
8516944 TTATTTTATTA
1 TTATTTTATTA
**
8516955 CCATTTTATTA
1 TTATTTTATTA
* **
8516966 TTATATTACCA
1 TTATTTTATTA
*
8516977 TTATTTTGTTA
1 TTATTTTATTA
*
8516988 TTATTGT-TTA
1 TTATTTTATTA
* **
8516998 GATATTGTATAACA
1 -TTATT-T-TATTA
*
8517012 CTTATTTTATTG
1 -TTATTTTATTA
8517024 TTAATTTTATTA
1 TT-ATTTTATTA
8517036 TTATTTTA
1 TTATTTTA
8517044 GAGACATTTA
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
10 3 0.04
11 57 0.72
12 12 0.15
13 2 0.03
14 5 0.06
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:8528754 original size:20 final size:19
Alignment explanation
Indices: 8528692--8528756 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
8528682 CATATTTTAT
*
8528692 TTTTTATAAT-ATTTTAGAA
1 TTTTT-TAATAATTTTAAAA
* *
8528711 TCTTTTAATAATTATTAATA
1 TTTTTTAATAATT-TTAAAA
8528731 TTTTTTAATAATTTTAAAA
1 TTTTTTAATAATTTTAAAA
8528750 GTTTTTT
1 -TTTTTT
8528757 TCACTCATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 22 0.58
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTTAATAATTTTAAAA
Found at i:8534389 original size:40 final size:40
Alignment explanation
Indices: 8534324--8534400 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
8534314 ACTATGTTTG
* *
8534324 GCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGATTCGAGATAGCTCCGGCTATATAAA
*
8534364 GCACTTAGTGTGCGAATTGGA-ATAGCTCCGGCTATAT
1 GCACTTAGTGTGCG-ATTCGAGATAGCTCCGGCTATAT
8534401 GTGGCACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTCCGGCTATATAAA
Found at i:8534408 original size:40 final size:41
Alignment explanation
Indices: 8534322--8534418 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
8534312 TGACTATGTT
* *
8534322 TGGCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
** * *
8534362 AAGCACTTAGTGTGCGAATTGGA-ATAGCTCCGGCTATATG
1 TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
* *
8534402 TGGCACTAAGTCTGCGA
1 TGGCACTTAGTGTGCGA
8534419 TACTAGGATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
Found at i:8548170 original size:60 final size:58
Alignment explanation
Indices: 8548043--8548171 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
8548033 CACGTGACAT
** * * *
8548043 CCCCAAACTATGATTTTCATTCTAAAGTAGTTCCAAACTTCAAATATTTTAATTACAT
1 CCCCAAACTATGATACTCATTCTAAACTAGTTCCAAACTTCAAATATTCTAATTACAA
* * * *
8548101 CCCCGAACTATGATACTCATTCTAAACTGGTATCTAAGCTTCAAAATATTCTAATTACAA
1 CCCCAAACTATGATACTCATTCTAAACTAGT-TCCAAACTTC-AAATATTCTAATTACAA
**
8548161 CTTCAAACTAT
1 CCCCAAACTAT
8548172 CAATGTTTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 26 0.46
59 8 0.14
60 23 0.40
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (58 bp):
CCCCAAACTATGATACTCATTCTAAACTAGTTCCAAACTTCAAATATTCTAATTACAA
Found at i:8552571 original size:28 final size:28
Alignment explanation
Indices: 8552540--8552603 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
8552530 TTATTTTTTA
*
8552540 AAATTATTAAATAATA-TAAT-TTCATTTC
1 AAATTATTAAATAAGACTAATATT-A-TTC
* *
8552568 AAATCATTAATTAAGACTAATATTATTC
1 AAATTATTAAATAAGACTAATATTATTC
8552596 AAATTATT
1 AAATTATT
8552604 GAACTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 23 0.77
29 5 0.17
30 2 0.07
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATTAAATAAGACTAATATTATTC
Found at i:8553082 original size:62 final size:62
Alignment explanation
Indices: 8552985--8553108 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
8552975 ATTATTCGTC
*
8552985 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCGGAAAAAAATCACA
1 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
8553047 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
1 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
8553109 GGTAAAACAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (62 bp):
AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
Found at i:8557481 original size:18 final size:18
Alignment explanation
Indices: 8557458--8557494 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8557448 CACTAAATCC
8557458 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
8557476 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
8557494 A
1 A
8557495 GTATTTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ACATTTGCCAAGTACTGA
Found at i:8558285 original size:28 final size:28
Alignment explanation
Indices: 8558254--8558320 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
8558244 AGTTTTTGGC
* *
8558254 TTTAGGGTTTAGTC-TTTAATATTTTAAG
1 TTTAGGGTTTAG-CATTTAAGATTTAAAG
* *
8558282 TTTAGGGTGTAGCATTTAAGGTTTAAAG
1 TTTAGGGTTTAGCATTTAAGATTTAAAG
8558310 TTTAGGGTTTA
1 TTTAGGGTTTA
8558321 TGTATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTAGCATTTAAGATTTAAAG
Found at i:8560665 original size:14 final size:15
Alignment explanation
Indices: 8560629--8560666 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8560619 AGGGTCAAGA
8560629 TTTATGGTTTCATGT
1 TTTATGGTTTCATGT
*
8560644 TTT-GGGTTT-ATGT
1 TTTATGGTTTCATGT
8560657 TTTATGGTTT
1 TTTATGGTTT
8560667 GAGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.24, T:0.63
Consensus pattern (15 bp):
TTTATGGTTTCATGT
Found at i:8560667 original size:20 final size:21
Alignment explanation
Indices: 8560629--8560673 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
8560619 AGGGTCAAGA
* *
8560629 TTTATGGTTTCATGTTTTGGG
1 TTTATGGTTTCATGGTTTGAG
*
8560650 TTTAT-GTTTTATGGTTTGAG
1 TTTATGGTTTCATGGTTTGAG
8560670 TTTA
1 TTTA
8560674 AAGTTTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.13, C:0.02, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTATGGTTTCATGGTTTGAG
Found at i:8577069 original size:13 final size:13
Alignment explanation
Indices: 8577053--8577086 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
8577043 AATAAAATAA
8577053 TAAAATATCTTAT
1 TAAAATATCTTAT
8577066 TAAAATATCTTAT
1 TAAAATATCTTAT
8577079 TAAAATAT
1 TAAAATAT
8577087 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:8592316 original size:15 final size:15
Alignment explanation
Indices: 8592296--8592325 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8592286 TAGAACAATT
8592296 AATATGAAAAGTTTA
1 AATATGAAAAGTTTA
*
8592311 AATATGAAAATTTTA
1 AATATGAAAAGTTTA
8592326 TTTCAAAATC
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:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AATATGAAAAGTTTA
Found at i:8596090 original size:202 final size:202
Alignment explanation
Indices: 8595744--8596149 Score: 803
Period size: 202 Copynumber: 2.0 Consensus size: 202
8595734 GTGAAGATAT
8595744 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
*
8595809 CTTTATTAAACCCTTGATTCTTTTTTTTTTCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
8595874 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
8595939 TCGACAA
196 TCGACAA
8595946 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
8596011 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
8596076 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
8596141 TCGACAA
196 TCGACAA
8596148 TC
1 TC
8596150 TGTTCTGAGT
Statistics
Matches: 203, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 203 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (202 bp):
TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
TCGACAA
Found at i:8603495 original size:31 final size:31
Alignment explanation
Indices: 8603457--8603516 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
8603447 TTTTTGTTTA
8603457 AATTTTGATTAATTGAATCTGTTTATGTGGG
1 AATTTTGATTAATTGAATCTGTTTATGTGGG
*
8603488 AATTTTGATTAATTGAATCTGTTTCTGTG
1 AATTTTGATTAATTGAATCTGTTTATGTG
8603517 AGTGAGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (31 bp):
AATTTTGATTAATTGAATCTGTTTATGTGGG
Found at i:8605454 original size:31 final size:31
Alignment explanation
Indices: 8605378--8605460 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
8605368 TGAGAATTTG
8605378 ATTAAATCAAAATTTCATGTATAAAATTACAC
1 ATTAAATCAAAA-TTCATGTATAAAATTACAC
* *
8605410 A--AAATCAAAATTCATGTATACAAA-TGCAT
1 ATTAAATCAAAATTCATGTATA-AAATTACAC
* *
8605439 ATTAAATGAAAATTCATATATA
1 ATTAAATCAAAATTCATGTATA
8605461 GTTTTGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.32
30 12 0.27
31 17 0.39
32 1 0.02
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (31 bp):
ATTAAATCAAAATTCATGTATAAAATTACAC
Found at i:8609650 original size:24 final size:24
Alignment explanation
Indices: 8609615--8609668 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
8609605 TATTTTAATA
*
8609615 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
8609639 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
8609663 TATAAA
1 TATAAA
8609669 ATTTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:8611042 original size:34 final size:34
Alignment explanation
Indices: 8611004--8611068 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
8610994 ATAAATTCCA
*
8611004 ATTTAATCTAAACAAGTTTAGTTATTTTATTAGT
1 ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
*
8611038 ATTTAATCTGAACAAATTTAGTTATTTTATT
1 ATTTAATCTAAACAAATTTAGTTATTTTATT
8611069 TTTGTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (34 bp):
ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
Found at i:8613676 original size:22 final size:23
Alignment explanation
Indices: 8613651--8613696 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8613641 CAACCAAACC
8613651 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
8613673 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
8613696 A
1 A
8613697 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:8623741 original size:66 final size:64
Alignment explanation
Indices: 8623666--8623864 Score: 154
Period size: 61 Copynumber: 3.2 Consensus size: 64
8623656 AATTATATTT
*
8623666 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTAT-TTAATTTATATTTTATAGTATCATATATTATGATTT-AGTAAATTAATATAA
8623731 G
64 G
* * * * * *
8623732 AATATTAATTA-TTAA--GA-ATTTTATTA-AATTATATATT-TTAATTA--AAA-TATATTTAA
1 AATATTAATTATTTAATTTATATTTTA-TAGTATCATATATTATGATTTAGTAAATTA-ATATAA
8623788 -
64 G
* * *
8623788 TATT--AATTATTTCAAATTT-TCTTTTATAGTATCATATATTATGATTTTAGTAAATTAATATA
1 AATATTAATTATTT--AATTTATATTTTATAGTATCATATATTATGA-TTTAGTAAATTAATATA
8623850 AG
63 AG
8623852 AATATTAATTATT
1 AATATTAATTATT
8623865 AAGAATTTTA
Statistics
Matches: 98, Mismatches: 18, Indels: 34
0.65 0.12 0.23
Matches are distributed among these distances:
54 5 0.05
55 2 0.02
56 4 0.04
57 10 0.10
58 2 0.02
59 15 0.15
60 6 0.06
61 18 0.18
62 3 0.03
63 8 0.08
64 8 0.08
66 17 0.17
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAATTTATATTTTATAGTATCATATATTATGATTTAGTAAATTAATATAAG
Found at i:8623748 original size:120 final size:120
Alignment explanation
Indices: 8623539--8624040 Score: 821
Period size: 120 Copynumber: 4.2 Consensus size: 120
8623529 NNNNNNAAAT
* * * * *
8623539 TATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATT
1 TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
* * * *
8623604 CATATAAGAATATTTAA-TATTAAGAATTTTACTAAATTATATATTTTTATTAAAT
66 AATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
8623659 TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
8623724 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
* * *
8623779 TATATTTAATATTAATTAT-TTCAAATTT-TCTTTTATAGTATCATATATTATGATTTTAGTAAA
1 TATATTTAATAATAATTATGTT--AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAA
*
8623842 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAA
64 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
*
8623899 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
*
8623964 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
66 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
8624019 TATATTTAATAATAATTATGTT
1 TATATTTAATAATAATTATGTT
8624041 TAAATATGAT
Statistics
Matches: 358, Mismatches: 19, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
119 11 0.03
120 340 0.95
121 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
Found at i:8623777 original size:18 final size:17
Alignment explanation
Indices: 8623749--8623783 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8623739 ATTATTAAGA
*
8623749 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8623766 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8623784 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8623873 original size:38 final size:39
Alignment explanation
Indices: 8623821--8624007 Score: 109
Period size: 38 Copynumber: 4.7 Consensus size: 39
8623811 TTATAGTATC
*
8623821 ATATATTATG-ATTTTAGTAAATTAATATAAGAATATTA
1 ATATATTAAGAATTTTAGTAAATTAATATAAGAATATTA
* **
8623859 AT-TATTAAGAATTTTATTAAATT-ATAT-AGTTTAATTAAA
1 ATATATTAAGAATTTTAGTAAATTAATATAAGAAT-ATT--A
* * * * * * * *
8623898 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA-TC
1 ATATA-TTAAGAAT-TTTA-G-TAAATTA-ATATAAGAATATTA
* *
8623941 ATATATTATG-ATTTGAGTAAATTAATATAAGAATATTA
1 ATATATTAAGAATTTTAGTAAATTAATATAAGAATATTA
*
8623979 AT-TATTAAGAATTTTATTAAATTATATAT
1 ATATATTAAGAATTTTAGTAAATTA-ATAT
8624008 TTTAATTATA
Statistics
Matches: 108, Mismatches: 26, Indels: 29
0.66 0.16 0.18
Matches are distributed among these distances:
36 3 0.03
37 26 0.24
38 35 0.32
39 8 0.07
40 4 0.04
41 9 0.08
42 6 0.06
43 5 0.05
44 5 0.05
45 1 0.01
46 4 0.04
47 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (39 bp):
ATATATTAAGAATTTTAGTAAATTAATATAAGAATATTA
Found at i:8624023 original size:16 final size:16
Alignment explanation
Indices: 8624002--8624043 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8623992 TTATTAAATT
*
8624002 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8624018 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8624033 AT-TATGTTTAA
1 ATATAT-TTTAA
8624044 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8624028 original size:15 final size:15
Alignment explanation
Indices: 8623993--8624034 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8623983 TTAAGAATTT
*
8623993 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8624007 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8624021 TATTTAATAATAAT
1 TATTTAATTATAAT
8624035 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8624280 original size:16 final size:16
Alignment explanation
Indices: 8624259--8624326 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
8624249 GATTTGCTAT
8624259 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8624275 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
8624291 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
8624307 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
8624323 TACA
1 TACA
8624327 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8627915 original size:33 final size:30
Alignment explanation
Indices: 8627853--8627915 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
8627843 ATTTAAATAT
**
8627853 TTTTTAAAATTTTATATATTTTATTTTTAA
1 TTTTTAAAATTTTATATAAATTATTTTTAA
8627883 TTTTTAAAATTTATATAAATAAATTATTTTTAA
1 TTTTTAAAATTT-TAT--ATAAATTATTTTTAA
8627916 AATTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
33 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATTTTATATAAATTATTTTTAA
Found at i:8628608 original size:45 final size:45
Alignment explanation
Indices: 8628557--8628644 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
8628547 GTACTGTAAT
8628557 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
8628602 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
8628645 TTAATATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (45 bp):
GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
Found at i:8633663 original size:21 final size:21
Alignment explanation
Indices: 8633637--8633677 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8633627 ATCTGCTCAA
* *
8633637 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8633658 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8633678 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8638444 original size:21 final size:21
Alignment explanation
Indices: 8638418--8638458 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8638408 ATCTGCTCAA
* *
8638418 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8638439 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8638459 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8641496 original size:48 final size:48
Alignment explanation
Indices: 8641420--8641516 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
8641410 TAGAAAGCAA
* * *
8641420 TCAGTCAGTTGAAGCGAAAGCAATAACTCTGGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
*
8641468 TCAGTTAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
8641516 T
1 T
8641517 TTATGAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (48 bp):
TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
Found at i:8643103 original size:24 final size:24
Alignment explanation
Indices: 8643070--8643119 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
8643060 GATTAAAGTT
*
8643070 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACGTCTTGTTTCTTCATCCTG
*
8643094 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACGTCTTGTTTCTTCATCCTG
8643118 TC
1 TC
8643120 TATTGCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.10, T:0.50
Consensus pattern (24 bp):
TCAACGTCTTGTTTCTTCATCCTG
Found at i:8643132 original size:24 final size:24
Alignment explanation
Indices: 8643070--8643132 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
8643060 GATTAAAGTT
* * *
8643070 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
8643094 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
8643118 TCTA-TTGCTTATTTC
1 TCAACTT-CTTATTTC
8643133 ATCACATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.13, C:0.25, G:0.10, T:0.52
Consensus pattern (24 bp):
TCAACTTCTTATTTCTTCATCCTG
Found at i:8646024 original size:23 final size:23
Alignment explanation
Indices: 8645997--8646041 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8645987 ACATATGATA
8645997 TTTATCATACACTTGTATTTATT
1 TTTATCATACACTTGTATTTATT
*
8646020 TTTATCATACACTTGTCTTTAT
1 TTTATCATACACTTGTATTTAT
8646042 ATGCACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTATCATACACTTGTATTTATT
Found at i:8658755 original size:12 final size:11
Alignment explanation
Indices: 8658691--8658800 Score: 62
Period size: 12 Copynumber: 10.4 Consensus size: 11
8658681 AATAATAATT
8658691 TTATATTAAAA
1 TTATATTAAAA
8658702 TTATTATT-AAA
1 TTA-TATTAAAA
8658713 -TATTATTAATAA
1 TTA-TATTAA-AA
8658725 TTATATTAATAA
1 TTATATTAA-AA
8658737 TGT-TATTAAAA
1 T-TATATTAAAA
8658748 TATATATT---A
1 T-TATATTAAAA
*
8658757 TTTTATT-AAA
1 TTATATTAAAA
*
8658767 TTATATT--TA
1 TTATATTAAAA
8658776 TTATATTAAAA
1 TTATATTAAAA
8658787 -TATAATT-AAA
1 TTAT-ATTAAAA
8658797 TTAT
1 TTAT
8658801 TTATTTTTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
8 5 0.06
9 10 0.12
10 20 0.24
11 18 0.22
12 26 0.32
13 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:8658776 original size:19 final size:20
Alignment explanation
Indices: 8658739--8658794 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
8658729 ATTAATAATG
8658739 TTATTAAAATATATATTATT
1 TTATTAAAATATATATTATT
*
8658759 TTATTAAATTATAT-TTATT
1 TTATTAAAATATATATTATT
*
8658778 ATATTAAAATATA-ATTA
1 TTATTAAAATATATATTA
8658795 AATTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTAAAATATATATTATT
Found at i:8658801 original size:19 final size:19
Alignment explanation
Indices: 8658734--8658801 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
8658724 ATTATATTAA
8658734 TAATGTTATTAAAATATATAT
1 TAAT-TTATTAAAATATA-AT
* *
8658755 TATTTTATTAAATTAT-AT
1 TAATTTATTAAAATATAAT
*
8658773 TTATTATATTAAAATATAAT
1 TAATT-TATTAAAATATAAT
*
8658793 TAAATTATT
1 TAATTTATT
8658802 TATTTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 5 0.13
19 14 0.37
20 16 0.42
21 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (19 bp):
TAATTTATTAAAATATAAT
Found at i:8659004 original size:44 final size:46
Alignment explanation
Indices: 8658934--8659027 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
8658924 ATTACAACAT
8658934 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
8658978 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
8659024 CATT
1 CATT
8659028 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:8659030 original size:16 final size:16
Alignment explanation
Indices: 8659009--8659060 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
8658999 TGAATTACTG
8659009 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
8659025 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
8659041 ATTACAAC-CTTATTCC
1 ATTACAGCTC-TATTCC
8659057 ATTA
1 ATTA
8659061 AGGTGAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:8660397 original size:14 final size:14
Alignment explanation
Indices: 8660373--8660406 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8660363 TACTTTTTAA
8660373 TGGACCTATAGAATG
1 TGGA-CTATAGAATG
8660388 TGGACTATAGAATG
1 TGGACTATAGAATG
8660402 TGGAC
1 TGGAC
8660407 GGCGTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (14 bp):
TGGACTATAGAATG
Found at i:8661156 original size:22 final size:23
Alignment explanation
Indices: 8661113--8661159 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8661103 CAATTATGAA
*
8661113 TTTTGTTCTTGTACTTGGAAATT
1 TTTTGTTCTTGTACTTAGAAATT
* *
8661136 TTTTGTT-TTGTATTTATAAATT
1 TTTTGTTCTTGTACTTAGAAATT
8661158 TT
1 TT
8661160 AAAATTACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64
Consensus pattern (23 bp):
TTTTGTTCTTGTACTTAGAAATT
Found at i:8662150 original size:31 final size:30
Alignment explanation
Indices: 8662112--8662179 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
8662102 ATTTTTTTTG
* *
8662112 TATTTTTAAAATTTTTAAAATTTTCGGATTT
1 TATTTTTAAAA-ATATAAAATTTTCGGATTT
** *
8662143 TATTTTTAAAAATATACTATTTTCGTATTT
1 TATTTTTAAAAATATAAAATTTTCGGATTT
8662173 TATTTTT
1 TATTTTT
8662180 TTATATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTTTTAAAAATATAAAATTTTCGGATTT
Found at i:8662284 original size:152 final size:152
Alignment explanation
Indices: 8662122--8662699 Score: 942
Period size: 152 Copynumber: 3.7 Consensus size: 152
8662112 TATTTTTAAA
8662122 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
8662187 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
8662252 CTGATTTTGGCTCTTTGTTTGTATTTTT
131 CTGATTTTGGCTCTTTGTTTG------T
8662280 AAAATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTAT
1 ---ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTAT
8662345 ATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATA
63 ATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATA
8662410 ACCCTGATTTTGGCTCTTTGTTTGT
128 ACCCTGATTTTGGCTCTTTGTTTGT
*
8662435 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
8662500 ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTGTTTTTTATATTAATTTAATAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
* * *
8662565 CTAATTTTGGCCCTTTCTTTGT
131 CTGATTTTGGCTCTTTGTTTGT
* * *
8662587 ATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
8662651 ATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTTATAT
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-ATTTTTTATAT
8662700 AAAAAACCGA
Statistics
Matches: 401, Mismatches: 15, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
151 45 0.11
152 204 0.51
155 1 0.00
161 151 0.38
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (152 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
CTGATTTTGGCTCTTTGTTTGT
Found at i:8662308 original size:31 final size:30
Alignment explanation
Indices: 8662273--8662340 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
8662263 TCTTTGTTTG
* *
8662273 TATTTTTAAAATTTTTAAAATTTTCGGATTT
1 TATTTTTAAAA-ATATAAAATTTTCGGATTT
** *
8662304 TATTTTTAAAAATATACTATTTTCGTATTT
1 TATTTTTAAAAATATAAAATTTTCGGATTT
8662334 TATTTTT
1 TATTTTT
8662341 TTATATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTTTTAAAAATATAAAATTTTCGGATTT
Found at i:8662460 original size:313 final size:304
Alignment explanation
Indices: 8662122--8662699 Score: 951
Period size: 313 Copynumber: 1.9 Consensus size: 304
8662112 TATTTTTAAA
8662122 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* *
8662187 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTATTTTTTATATTAATTTAATAAATAACC
* * *
8662252 CTGATTTTGGCTCTTTGTTTGTATTTTTAAAATTTTTAAAATTTTCGGATTTTATTTTTAAAAAT
131 CTAATTTTGGCCCTTTCTTTGTATTTTT--AA----T---ATTTTCGGATTTTATTTTTAAAAAT
8662317 ATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTT
187 ATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTT
8662382 AGT-ATTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCTCTTTGTTTGT
251 AGTGATTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCTCTTTGTTTGT
*
8662435 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
*
8662500 ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTGTTTTTTATATTAATTTAATAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTATTTTTTATATTAATTTAATAAATAACC
* *
8662565 CTAATTTTGGCCCTTTCTTTGTATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTT
131 CTAATTTTGGCCCTTTCTTTGTATTTTTAATATTTTCGGATTTTATTTTTAAAAATATACTATTT
* * *
8662630 TCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTT
196 TCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGATTTTT
8662695 TATAT
261 TATAT
8662700 AAAAAACCGA
Statistics
Matches: 252, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
303 46 0.18
304 52 0.21
307 1 0.00
311 2 0.01
313 151 0.60
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (304 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTATTTTTTATATTAATTTAATAAATAACC
CTAATTTTGGCCCTTTCTTTGTATTTTTAATATTTTCGGATTTTATTTTTAAAAATATACTATTT
TCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGATTTTT
TATATTAATTTAGTAAATAACCCTGATTTTGGCTCTTTGTTTGT
Found at i:8690659 original size:26 final size:27
Alignment explanation
Indices: 8690627--8690696 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
8690617 ACCTATGCTC
8690627 TTATTAAAAATTAGAAAAATTATT-AAA
1 TTATTAAAAATTAGAAAAATT-TTAAAA
* *
8690654 TT-TTAATAAA-AATAAAAATTTTAAAA
1 TTATTAA-AAATTAGAAAAATTTTAAAA
*
8690680 TTATTAGAAATTAGAAA
1 TTATTAAAAATTAGAAA
8690697 TTAGATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
25 2 0.06
26 20 0.59
27 12 0.35
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
TTATTAAAAATTAGAAAAATTTTAAAA
Found at i:8691015 original size:9 final size:10
Alignment explanation
Indices: 8690990--8691038 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
8690980 ATATTCCTAT
8690990 ATATTTTATA
1 ATATTTTATA
*
8691000 ATATTTTATG
1 ATATTTTATA
8691010 AT-TTTTATA
1 ATATTTTATA
* *
8691019 AAATTTTACA
1 ATATTTTATA
8691029 ATATTTTATA
1 ATATTTTATA
8691039 TTTCTTTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
ATATTTTATA
Found at i:8691055 original size:29 final size:29
Alignment explanation
Indices: 8690957--8691041 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
8690947 TTCTTATGAC
* *
8690957 TTTATAAAATTTTACATTTTTTTAT-ATT
1 TTTATAAAATTTTACAATATTTTATGATT
** * *
8690985 CCTAT-ATATTTTATAATATTTTATGATT
1 TTTATAAAATTTTACAATATTTTATGATT
8691013 TTTATAAAATTTTACAATATTTTAT-ATT
1 TTTATAAAATTTTACAATATTTTATGATT
8691041 T
1 T
8691042 CTTTTACGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 15 0.33
28 13 0.29
29 17 0.38
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTATAAAATTTTACAATATTTTATGATT
Found at i:8691366 original size:85 final size:85
Alignment explanation
Indices: 8691163--8691375 Score: 250
Period size: 86 Copynumber: 2.5 Consensus size: 85
8691153 TAATAAAAGT
* * * * *
8691163 AAGGGCTTAATTTCTTTTTTTGAAAAAAATTG-AGGATCTTTTTAATGGATTTTGAAAGTTTAAG
1 AAGGGCTTAATTACTTTTTTTGAAAAAATTTGAAGGCT-TTTTTAATGCATTTTGAAAGTTCAAG
** *
8691227 TATTTAATTAAGTGTAAAAAA
65 TATCAAATGAAGTGTAAAAAA
* ** *
8691248 AAGGGGTTTAATTGTTTTTTTTGAAAAAATTTGAAGGCTTTTTTTATGCATTTTGAAAGTTCAAG
1 AA-GGGCTTAATTACTTTTTTTGAAAAAATTTGAAGGCTTTTTTAATGCATTTTGAAAGTTCAAG
8691313 TATCCAAATGAA-TGTAAAAAA
65 TAT-CAAATGAAGTGTAAAAAA
* * *
8691334 AAGGACTTAATTACTTTTTTTGAAAAAGTTTGAAGACTTTTT
1 AAGGGCTTAATTACTTTTTTTGAAAAAATTTGAAGGCTTTTT
8691376 GCATCATTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
85 36 0.33
86 63 0.58
87 9 0.08
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (85 bp):
AAGGGCTTAATTACTTTTTTTGAAAAAATTTGAAGGCTTTTTTAATGCATTTTGAAAGTTCAAGT
ATCAAATGAAGTGTAAAAAA
Found at i:8695574 original size:19 final size:20
Alignment explanation
Indices: 8695550--8695594 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
8695540 ATTCAAACAC
8695550 CAGAAAAGTAAATCA-TTTT
1 CAGAAAAGTAAATCATTTTT
8695569 CAGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTTT
8695589 CAGAAA
1 CAGAAA
8695595 TTATTTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTTT
Found at i:8699517 original size:10 final size:9
Alignment explanation
Indices: 8699473--8699602 Score: 72
Period size: 10 Copynumber: 14.0 Consensus size: 9
8699463 TTCAAATATA
8699473 TATAATTTT
1 TATAATTTT
*
8699482 TTTACATTTTT
1 TATA-A-TTTT
*
8699493 TATAAGTTAT
1 TATAA-TTTT
8699503 TATAATTTT
1 TATAATTTT
*
8699512 TCATAATTTC
1 T-ATAATTTT
8699522 TAT-ATATTT
1 TATAAT-TTT
8699531 TAT-A-TTT
1 TATAATTTT
* *
8699538 CATATTTTTT
1 TATA-ATTTT
*
8699548 TATGATTTT
1 TATAATTTT
8699557 TATAATTTTT
1 TATAA-TTTT
8699567 TATAATTTT
1 TATAATTTT
*
8699576 CA-ATATTTT
1 TATA-ATTTT
*
8699585 TAT-ATTTG
1 TATAATTTT
8699593 TAGTAATTTT
1 TA-TAATTTT
8699603 AATTGAAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
7 5 0.05
8 9 0.10
9 35 0.38
10 36 0.39
11 7 0.08
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:8699558 original size:9 final size:9
Alignment explanation
Indices: 8699544--8699602 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
8699534 ATTTCATATT
*
8699544 TTTTTATGA
1 TTTTTATAA
8699553 TTTTTATAA
1 TTTTTATAA
8699562 TTTTTTATAA
1 -TTTTTATAA
*
8699572 TTTTCA-ATA
1 TTTTTATA-A
8699581 TTTTTAT-A
1 TTTTTATAA
*
8699589 TTTGTAGTAA
1 TTTTTA-TAA
8699599 TTTT
1 TTTT
8699603 AATTGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 7 0.17
9 20 0.50
10 13 0.32
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8699562 original size:54 final size:55
Alignment explanation
Indices: 8699488--8699591 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 55
8699478 TTTTTTTACA
*
8699488 TTTTTTATAAGTTATTATAATTTTTCATAA-TTTCTATATATTTTATATTTCATAT
1 TTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATAT-TTTTATATTTCATAT
* * *
8699543 TTTTTTATGA-TTTTTATAATTTTTTATAATTTTCAATATTTTTATATTT
1 TTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATATTTTTATATTT
8699592 GTAGTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
54 27 0.61
55 17 0.39
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (55 bp):
TTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATATTTTTATATTTCATAT
Found at i:8699583 original size:19 final size:18
Alignment explanation
Indices: 8699487--8699585 Score: 78
Period size: 19 Copynumber: 5.3 Consensus size: 18
8699477 ATTTTTTTAC
8699487 ATTTTTTATAAGTTAT-TAT
1 ATTTTTTATAA-TT-TCTAT
*
8699506 AATTTTTCATAATTTCTAT
1 -ATTTTTTATAATTTCTAT
*
8699525 ATATTTTAT-ATTTC-AT
1 ATTTTTTATAATTTCTAT
* *
8699541 ATTTTTTTATGATTTTTAT
1 A-TTTTTTATAATTTCTAT
*
8699560 AATTTTTTATAATTTTCAAT
1 -ATTTTTTATAA-TTTCTAT
8699580 ATTTTT
1 ATTTTT
8699586 ATATTTGTAG
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.05
17 12 0.18
18 12 0.18
19 22 0.34
20 16 0.25
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTATAATTTCTAT
Found at i:8701926 original size:24 final size:23
Alignment explanation
Indices: 8701876--8701927 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
8701866 TTTTTTCTCA
8701876 TTTTAATTTGTATAGTTCATTATT
1 TTTTAATTTGTATAG-TCATTATT
* *
8701900 TTTTAATTTGTTTAG-CATTCATC
1 TTTTAATTTGTATAGTCATT-ATT
8701923 TTTTA
1 TTTTA
8701928 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTAATTTGTATAGTCATTATT
Found at i:8707144 original size:35 final size:32
Alignment explanation
Indices: 8707071--8707146 Score: 80
Period size: 35 Copynumber: 2.3 Consensus size: 32
8707061 TATATGTTAT
* * *
8707071 AATATGCGAGCTATGTAATGCGACCCCTAAGT
1 AATATGCGAGCTATGTAATACGAACCCTAAGG
* *
8707103 ACTATGCGAGCCTATAGATATTACGAACCCTAAGG
1 AATATGCGAG-CTAT-G-TAATACGAACCCTAAGG
8707138 AATATGCGA
1 AATATGCGA
8707147 ACCTTGTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 9 0.26
33 4 0.11
34 1 0.03
35 21 0.60
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (32 bp):
AATATGCGAGCTATGTAATACGAACCCTAAGG
Found at i:8707198 original size:14 final size:16
Alignment explanation
Indices: 8707166--8707202 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
8707156 TAATAGTATA
8707166 CGAACCC-ATAACATG
1 CGAACCCTATAACATG
8707181 CGAACCCTA-AAC-TG
1 CGAACCCTATAACATG
8707195 CGAACCCT
1 CGAACCCT
8707203 TACTTGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 10 0.48
16 1 0.05
ACGTcount: A:0.35, C:0.38, G:0.14, T:0.14
Consensus pattern (16 bp):
CGAACCCTATAACATG
Found at i:8709317 original size:47 final size:45
Alignment explanation
Indices: 8709212--8709533 Score: 239
Period size: 45 Copynumber: 6.8 Consensus size: 45
8709202 GATGGTTAAG
*
8709212 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAA
* *** * *
8709257 GATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTAGTAAGACAAA
* * * * * *
8709304 GATATCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCA-T--T-AG----TAAGACAAA
* * *
8709357 GATACCACGTAAGACTATGTCAAGACATGGCATTAGTAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAA
* * * * *
8709402 GATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCA-T--T-AG----TAAGACAAA
* * *
8709455 GATACCACGTAAGACTATGTCAAGACATGGCATTAGTAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAA
* * *
8709500 GATACCATGTAAGACCATGCCAAGGCATGACATT
1 GATACCATGTAAGACCATGTCAAGACATGGCATT
8709534 GGTGAGTTTA
Statistics
Matches: 217, Mismatches: 43, Indels: 34
0.74 0.15 0.12
Matches are distributed among these distances:
45 92 0.42
46 17 0.08
47 28 0.13
48 2 0.01
49 7 0.03
50 2 0.01
52 2 0.01
53 67 0.31
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (45 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAA
Found at i:8709461 original size:53 final size:53
Alignment explanation
Indices: 8709393--8709581 Score: 223
Period size: 53 Copynumber: 3.7 Consensus size: 53
8709383 ATGGCATTAG
* *
8709393 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGACATTGGTGAGTTTA
* * * *
8709446 TAAGGCAAGGATACCACGTAAGACTATGTCAAGACATGGCA-T--T-AG----
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGACATTGGTGAGTTTA
* *
8709491 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGACATTGGTGAGTTTA
* * *
8709544 TAAGGCAAGGATACCACGTAAGACTATGTCAAGACATG
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATG
8709582 GCAATGGTAA
Statistics
Matches: 111, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
45 35 0.32
46 1 0.01
48 1 0.01
49 4 0.04
50 1 0.01
52 1 0.01
53 68 0.61
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGACATTGGTGAGTTTA
Done.