Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 48 of 91
Found at i:16877774 original size:22 final size:22
Alignment explanation
Indices: 16877748--16877805 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
16877738 TATTTGTTGA
16877748 GCATTGCGTGACTTGTTTGTAG
1 GCATTGCGTGACTTGTTTGTAG
* *
16877770 GCATTACGTGACTTGTTTGTGG
1 GCATTGCGTGACTTGTTTGTAG
* *
16877792 GTATTGCGTAACTT
1 GCATTGCGTGACTT
16877806 TATCTACCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.14, G:0.29, T:0.41
Consensus pattern (22 bp):
GCATTGCGTGACTTGTTTGTAG
Found at i:16878958 original size:206 final size:206
Alignment explanation
Indices: 16878537--16879009 Score: 682
Period size: 206 Copynumber: 2.3 Consensus size: 206
16878527 TATGTATATG
* * * * *
16878537 GTGACTTGTTGTTATGTATTGCATGACGTT-GGCCAGTATGTGATTGGTTATGTTGGTATAACGT
1 GTGACCTGTTGTTATGTATTGCGTGACATTGGGCCAATATGTGATTGGTTATGTTGGCATAACGT
* * *
16878601 GAGTGGATATTAGGCATCGAGTGGCTTATTATTAGGTATTGCAAGACTGGTGGTGCGTGACTGAC
66 GAGTGGATATAAGGCATCGAGTGACTTATTATTAGGTATTGCAAGACTGGCGGTGCGTGACTGAC
*
16878666 TTGTGCAATTCACCTATTGTTTTGAGGCTTTGGTTCACTAGTTTTTAGGCATTGCATGACTATTT
131 TTGTGCAATTCACCTATTGTTTTGAGGCTTTGGTTCACTAGTTTTTAGGCATTGCATAACTATTT
16878731 TTATATATTGC
196 TTATATATTGC
* *
16878742 GTGACCTGTTGTTATGTGTTGCGTGACATTGGGCCAATATGTGATTGGTTATGTTGGCATAATGT
1 GTGACCTGTTGTTATGTATTGCGTGACATTGGGCCAATATGTGATTGGTTATGTTGGCATAACGT
* * * *
16878807 GAGTGGGTATAAGGCATTGAGTGACTTATTCTTAGGTATTG-AGAGACTGGCGGTGCGTGACTTA
66 GAGTGGATATAAGGCATCGAGTGACTTATTATTAGGTATTGCA-AGACTGGCGGTGCGTGACTGA
* * * * ** *
16878871 CTTGTGCAATTCATCTCTTGTTTTGAGGTTTTTGTTCACTAGTTTTTAGGCATTGTGTAACTGGT
130 CTTGTGCAATTCACCTATTGTTTTGAGGCTTTGGTTCACTAGTTTTTAGGCATTGCATAACT-AT
*
16878936 TTTTATATATTGT
194 TTTTATATATTGC
* *
16878949 GTG-CCTGTTGTTATGTATTGCGTGACATTGGGCCATTACGTGATTGGTTATGTTGGCATAA
1 GTGACCTGTTGTTATGTATTGCGTGACATTGGGCCAATATGTGATTGGTTATGTTGGCATAA
16879010 GAGGCATAAT
Statistics
Matches: 239, Mismatches: 26, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
205 27 0.11
206 196 0.82
207 16 0.07
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (206 bp):
GTGACCTGTTGTTATGTATTGCGTGACATTGGGCCAATATGTGATTGGTTATGTTGGCATAACGT
GAGTGGATATAAGGCATCGAGTGACTTATTATTAGGTATTGCAAGACTGGCGGTGCGTGACTGAC
TTGTGCAATTCACCTATTGTTTTGAGGCTTTGGTTCACTAGTTTTTAGGCATTGCATAACTATTT
TTATATATTGC
Found at i:16883218 original size:23 final size:23
Alignment explanation
Indices: 16883192--16883253 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
16883182 TAGTAACGGC
16883192 ACTCCATATTTACTACTCACGCG
1 ACTCCATATTTACTACTCACGCG
* * ** * *
16883215 ACTCAAGATCAAATAGTCACGCG
1 ACTCCATATTTACTACTCACGCG
16883238 ACTCCATATTTACTAC
1 ACTCCATATTTACTAC
16883254 CTCGACTGAC
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.27
Consensus pattern (23 bp):
ACTCCATATTTACTACTCACGCG
Found at i:16884332 original size:15 final size:15
Alignment explanation
Indices: 16884308--16884342 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16884298 TTTGCTTTGA
* *
16884308 ACTTGTTTTTAGGGT
1 ACTTGCTTTTACGGT
16884323 ACTTGCTTTTACGGT
1 ACTTGCTTTTACGGT
16884338 ACTTG
1 ACTTG
16884343 TTCTTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (15 bp):
ACTTGCTTTTACGGT
Found at i:16886111 original size:61 final size:61
Alignment explanation
Indices: 16886036--16886341 Score: 400
Period size: 61 Copynumber: 5.0 Consensus size: 61
16886026 AGCGAAATAT
* * *
16886036 CTATCGATAGATTTTAAATATAACGATAGATGCCGTTTCATCTTCCACCATATGCCTACAA
1 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATACGCCTACAA
* * *** * *
16886097 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTTTTCTAGCATAC-AAAATAT
1 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATC---TTCCAGCATACGCCTACAA
* *
16886160 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCTAGCATATGCCTACAA
1 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATACGCCTACAA
* * ** * *
16886221 CTACCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACG-AAATAT
1 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATACGCCTACAA
*
16886281 CTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCCTACAA
1 CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATACGCCTACAA
16886342 TTACTGATAA
Statistics
Matches: 208, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
60 63 0.30
61 94 0.45
63 43 0.21
64 8 0.04
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (61 bp):
CTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATACGCCTACAA
Found at i:16886331 original size:121 final size:122
Alignment explanation
Indices: 16886028--16886356 Score: 534
Period size: 124 Copynumber: 2.7 Consensus size: 122
16886018 AGTCTATGAG
* *
16886028 CGAAATATCTATCGATAGATTTTAAATATAACGATAGATGCCGTTTCATCTTCCACCATATGCCT
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATATGCCT
* *
16886093 ACAACTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTTTTCTAGCATA
66 ACAACTACCGATAGATTTTAAATATATCGATAGATGCCCTTTCATC--TTTCCAGCATA
* *
16886152 CAAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCTAGCATATGCCT
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATATGCCT
16886217 ACAACTACCGATAGATTTTAAATATATCGATAGATGCCCTTTCATC-TTCCAGCATA
66 ACAACTACCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTTCCAGCATA
* *
16886273 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCCT
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATATGCCT
* * *
16886338 ACAATTACTGATAAATTTT
66 ACAACTACCGATAGATTTT
16886357 TTTCTGGATT
Statistics
Matches: 192, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
121 86 0.45
124 106 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (122 bp):
CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCGTTTCATCTTCCAGCATATGCCT
ACAACTACCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTTCCAGCATA
Found at i:16888545 original size:23 final size:23
Alignment explanation
Indices: 16888507--16888569 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
16888497 AAAATAAGTG
16888507 AGTCACGC-ATTCCCATATCAACT
1 AGTCACGCGATT-CCATATCAACT
*
16888530 AGTCATGCGATTCCATATCAACT
1 AGTCACGCGATTCCATATCAACT
16888553 AGTCACGCGATTCCATA
1 AGTCACGCGATTCCATA
16888570 ATAAGTGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 34 0.92
24 3 0.08
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (23 bp):
AGTCACGCGATTCCATATCAACT
Found at i:16888631 original size:69 final size:69
Alignment explanation
Indices: 16888557--16888790 Score: 209
Period size: 69 Copynumber: 3.4 Consensus size: 69
16888547 TCAACTAGTC
* * *
16888557 ACGCGATTCCATAATAAGTGGTAACGCCACTCCATAGATACTACTCACGTGACTCAATATAAACT
1 ACGCGATTCCATAATAAGTAGTAACGCCACTCCATAGATACTACTCACGCGACTTAATATAAACT
16888622 AATA
66 AATA
** * * * * ** * * * *
16888626 ACGCGATTCCATAATAACCAGTCACTCGACACCATATTTGCTACTCATGCGATTTTATAATAAA-
1 ACGCGATTCCATAATAAGTAGTAACGCCACTCCATAGATACTACTCACGCGACTTAAT-ATAAAC
* *
16888690 TACTC
65 TAATA
*** * * * *
16888695 ACTTTATTCCATAATAAGTAGTAACGCCACTTCATGGAAACTACTCACGCGACTTAATATCAACT
1 ACGCGATTCCATAATAAGTAGTAACGCCACTCCATAGATACTACTCACGCGACTTAATATAAACT
*
16888760 AGTA
66 AATA
* *
16888764 ACGCGATTCCATAATAACTAGTCACGC
1 ACGCGATTCCATAATAAGTAGTAACGC
16888791 GATTCTATAA
Statistics
Matches: 120, Mismatches: 43, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
68 4 0.03
69 111 0.93
70 5 0.04
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (69 bp):
ACGCGATTCCATAATAAGTAGTAACGCCACTCCATAGATACTACTCACGCGACTTAATATAAACT
AATA
Found at i:16888782 original size:23 final size:23
Alignment explanation
Indices: 16888756--16888806 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16888746 ACTTAATATC
16888756 AACTAGTAACGCGATTCCATAAT
1 AACTAGTAACGCGATTCCATAAT
* *
16888779 AACTAGTCACGCGATTCTATAAT
1 AACTAGTAACGCGATTCCATAAT
16888802 AACTA
1 AACTA
16888807 CTGACGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (23 bp):
AACTAGTAACGCGATTCCATAAT
Found at i:16888806 original size:69 final size:69
Alignment explanation
Indices: 16888544--16888808 Score: 203
Period size: 69 Copynumber: 3.8 Consensus size: 69
16888534 ATGCGATTCC
* * * *
16888544 ATATCAACTAGTCACGCGATTCCATAATAAGTGGTAACGCCACTCCATAGAT-ACTACTCACGTG
1 ATATCAACTAGTAACGCGATTCCATAATAACTAGTAACGCCACTCCATA-ATAACTACTCACGCG
*
16888608 ACTCA
65 ACTTA
* * * * * * * * ** *
16888613 ATATAAACTAATAACGCGATTCCATAATAACCAGTCACTCGACACCATATTTGCTACTCATGCGA
1 ATATCAACTAGTAACGCGATTCCATAATAACTAGTAACGCCACTCCATAATAACTACTCACGCGA
* *
16888678 TTTT
66 CTTA
* * * *** * * *
16888682 ATAAT-AAATACTCACTTTATTCCATAATAAGTAGTAACGCCACTTCATGGA-AACTACTCACGC
1 AT-ATCAACTAGTAACGCGATTCCATAATAACTAGTAACGCCACTCCAT-AATAACTACTCACGC
16888745 GACTTA
64 GACTTA
* * * *
16888751 ATATCAACTAGTAACGCGATTCCATAATAACTAGTCACGCGATTCTATAATAACTACT
1 ATATCAACTAGTAACGCGATTCCATAATAACTAGTAACGCCACTCCATAATAACTACT
16888809 GACGTTACTC
Statistics
Matches: 141, Mismatches: 50, Indels: 10
0.70 0.25 0.05
Matches are distributed among these distances:
68 4 0.03
69 135 0.96
70 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (69 bp):
ATATCAACTAGTAACGCGATTCCATAATAACTAGTAACGCCACTCCATAATAACTACTCACGCGA
CTTA
Found at i:16888911 original size:23 final size:23
Alignment explanation
Indices: 16888854--16888928 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
16888844 TATCAAATAC
* * *
16888854 TCACGCGATTCTAAATCTTAATCG
1 TCACGCGATTCCAAATC-TATTAG
*
16888878 TTCACGTGATTCCAAATCTATTAG
1 -TCACGCGATTCCAAATCTATTAG
*
16888902 TCACGCGATTCCAAATCGATTAG
1 TCACGCGATTCCAAATCTATTAG
16888925 TCAC
1 TCAC
16888929 ATAATTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 25 0.57
24 4 0.09
25 15 0.34
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (23 bp):
TCACGCGATTCCAAATCTATTAG
Found at i:16888935 original size:23 final size:23
Alignment explanation
Indices: 16888886--16888937 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
16888876 CGTTCACGTG
* * *
16888886 ATTCCAAATCTATTAGTCACGCG
1 ATTCCAAATCGATTAGTCACACA
*
16888909 ATTCCAAATCGATTAGTCACATA
1 ATTCCAAATCGATTAGTCACACA
16888932 ATTCCA
1 ATTCCA
16888938 TATTAACTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.31
Consensus pattern (23 bp):
ATTCCAAATCGATTAGTCACACA
Found at i:16889349 original size:26 final size:26
Alignment explanation
Indices: 16889293--16889353 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
16889283 TTTTTTGTTG
*
16889293 AATGATACAAAAATGAAAAAAATGTA
1 AATGATACAAAAATGAAAAAAATGGA
* *
16889319 AATGATACAACAAA-GAATAATATGGA
1 AATGATACAA-AAATGAAAAAAATGGA
*
16889345 CATGATACA
1 AATGATACA
16889354 GAACAATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.20
Consensus pattern (26 bp):
AATGATACAAAAATGAAAAAAATGGA
Found at i:16899312 original size:58 final size:57
Alignment explanation
Indices: 16899240--16899359 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 57
16899230 CATAATCATC
*
16899240 CAAAGTAGTTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGC-ATG
16899298 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
16899355 CAAAG
1 CAAAG
16899360 ATGAGACCCT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 8 0.13
58 53 0.87
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (57 bp):
CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
Found at i:16906809 original size:42 final size:41
Alignment explanation
Indices: 16906726--16906857 Score: 201
Period size: 42 Copynumber: 3.1 Consensus size: 41
16906716 TTATGAGATA
**
16906726 ATGATGACCTAGCTATGTGTTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGGGAGTGCACATGAGCTG
16906767 ATGATGACCTAGCTATGTGCGGTGTGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTG-GGAGTGCACATGAGCTG
* *
16906809 ATGATGACCCAGTTATGTGCGAGTGGGAAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCG-GTGGG-AGTGCACATGAGCTG
16906852 ATGATG
1 ATGATG
16906858 GTGGGATGGT
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
41 22 0.26
42 38 0.45
43 24 0.29
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (41 bp):
ATGATGACCTAGCTATGTGCGGTGGGAGTGCACATGAGCTG
Found at i:16909152 original size:4 final size:4
Alignment explanation
Indices: 16909129--16909198 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
16909119 TGCCTTTCCT
* * *
16909129 TTTC TCTC TTTT TTTT TTTC TTTCC TTTCC TTTTC TTTC TTT- TTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTT-C -TTTC TTTC TTTC TTTC TTTC
16909178 TTTC TTTC TTCTCC TTTC TTT
1 TTTC TTTC TT-T-C TTTC TTT
16909199 TTCTTTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
3 6 0.11
4 35 0.62
5 9 0.16
6 6 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:16909172 original size:10 final size:10
Alignment explanation
Indices: 16909122--16909204 Score: 57
Period size: 10 Copynumber: 8.4 Consensus size: 10
16909112 CAAACCATGC
*
16909122 CTTTCCTTTT
1 CTTTCTTTTT
*
16909132 CTCTCTTTTT
1 CTTTCTTTTT
*
16909142 -TTTTTTCTTT
1 CTTTCTT-TTT
*
16909152 CCTTTCCTTTT
1 -CTTTCTTTTT
16909163 CTTTC--TTT
1 CTTTCTTTTT
16909171 -TTTCTTCTTT
1 CTTTCTT-TTT
* *
16909181 CTTTCTTCTC
1 CTTTCTTTTT
16909191 CTTTCTTTTT
1 CTTTCTTTTT
16909201 CTTT
1 CTTT
16909205 TTTGGCTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 4 0.07
10 32 0.57
11 9 0.16
12 4 0.07
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:16909193 original size:33 final size:31
Alignment explanation
Indices: 16909121--16909207 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
16909111 GCAAACCATG
*
16909121 CCTTTCCTTTTCTCTCTTTTTTTTTTTCTTT
1 CCTTTCCTTTTCTTTCTTTTTTTTTTTCTTT
16909152 CCTTTCCTTTTCTTTCTTTTTTCTTCTTTCTTT
1 CCTTTCCTTTTCTTTCTTTTTT-TT-TTTCTTT
*
16909185 -CTTCTCCTTTCTTTTTCTTTTTT
1 CCTT-TCCTTT-TCTTTCTTTTTT
16909208 GGCTATGGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
31 21 0.42
32 5 0.10
33 13 0.26
34 11 0.22
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (31 bp):
CCTTTCCTTTTCTTTCTTTTTTTTTTTCTTT
Found at i:16919464 original size:44 final size:44
Alignment explanation
Indices: 16919414--16919540 Score: 175
Period size: 44 Copynumber: 2.9 Consensus size: 44
16919404 AATGTTTGTG
** *
16919414 ATACCACCCATTGGGAGATTACTCTGAGTGATGACTATGCTTTA
1 ATACCACCCATCAGGAGATTACTCTGGGTGATGACTATGCTTTA
* * *
16919458 ATACCACCCATCAAGAGATTACT-TCGGGTGACGACTATGCTTTG
1 ATACCACCCATCAGGAGATTACTCT-GGGTGATGACTATGCTTTA
*
16919502 ATGCCACCCATCAGGAGATTACTCTGGGTGATGACTATG
1 ATACCACCCATCAGGAGATTACTCTGGGTGATGACTATG
16919541 TTATGATACC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 70 0.97
45 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (44 bp):
ATACCACCCATCAGGAGATTACTCTGGGTGATGACTATGCTTTA
Found at i:16919565 original size:44 final size:44
Alignment explanation
Indices: 16919429--16919625 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 44
16919419 ACCCATTGGG
* *
16919429 AGATTACTCTGAGTGATGACTATGCTTTAATACCACCCATCAAG
1 AGATTACTCTGGGTGATGACTATGCTTTAATACCACCCATCAAA
* * * **
16919473 AGATTACT-TCGGGTGACGACTATGCTTTGATGCCACCCATCAGG
1 AGATTACTCT-GGGTGATGACTATGCTTTAATACCACCCATCAAA
* ** *
16919517 AGATTACTCTGGGTGATGACTATG-TTATGATACCATTCGTCAAA
1 AGATTACTCTGGGTGATGACTATGCTT-TAATACCACCCATCAAA
* * * * * * * * * *
16919561 AGATTACTCCGAGTGATGACCATCACTGTAACACAATCCGTCGAA
1 AGATTACTCTGGGTGATGACTAT-GCTTTAATACCACCCATCAAA
16919606 AGATTACTCTGGGTGATGAC
1 AGATTACTCTGGGTGATGAC
16919626 CATCATTGTC
Statistics
Matches: 124, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.02
44 89 0.72
45 31 0.25
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
AGATTACTCTGGGTGATGACTATGCTTTAATACCACCCATCAAA
Found at i:16919613 original size:45 final size:45
Alignment explanation
Indices: 16919554--16919649 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
16919544 TGATACCATT
16919554 CGTCAAAAGATTACTCCGAGTGATGACCATCACTGTAACACAATC
1 CGTCAAAAGATTACTCCGAGTGATGACCATCACTGTAACACAATC
* * * * * *
16919599 CGTCGAAAGATTACTCTGGGTGATGACCATCATTGTCACACCATC
1 CGTCAAAAGATTACTCCGAGTGATGACCATCACTGTAACACAATC
*
16919644 CATCAA
1 CGTCAA
16919650 GTGATTACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (45 bp):
CGTCAAAAGATTACTCCGAGTGATGACCATCACTGTAACACAATC
Found at i:16919656 original size:45 final size:45
Alignment explanation
Indices: 16919428--16919657 Score: 141
Period size: 44 Copynumber: 5.2 Consensus size: 45
16919418 CACCCATTGG
* * * *
16919428 GAGATTACTCTGAGTGATGACTATGC-TT-TAATACCACCCATCAA
1 GAGATTACTCTGGGTGATGACCAT-CATTGTAACACCATCCATCAA
* * * ** * *
16919472 GAGATTACT-TCGGGTGACGACTATGC-TT-TGATGCCACCCATCAG
1 GAGATTACTCT-GGGTGATGACCAT-CATTGTAACACCATCCATCAA
* * * * * * *
16919516 GAGATTACTCTGGGTGATGACTAT-GTTATGATACCATTCGTCAA
1 GAGATTACTCTGGGTGATGACCATCATTGTAACACCATCCATCAA
* * * * * *
16919560 AAGATTACTCCGAGTGATGACCATCACTGTAACACAATCCGTCGAA
1 GAGATTACTCTGGGTGATGACCATCATTGTAACACCATCCATC-AA
*
16919606 -AGATTACTCTGGGTGATGACCATCATTGTCACACCATCCATCAA
1 GAGATTACTCTGGGTGATGACCATCATTGTAACACCATCCATCAA
*
16919650 GTGATTAC
1 GAGATTAC
16919658 CTTGGATGAG
Statistics
Matches: 150, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.02
44 91 0.61
45 54 0.36
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
GAGATTACTCTGGGTGATGACCATCATTGTAACACCATCCATCAA
Found at i:16923449 original size:22 final size:22
Alignment explanation
Indices: 16923415--16923472 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
16923405 TTAATCACTG
*
16923415 CGTGACTGATTTTTAGGCATTA
1 CGTGATTGATTTTTAGGCATTA
* *
16923437 CGTGATTG-GTTTTAGGCATTG
1 CGTGATTGATTTTTAGGCATTA
16923458 CGTGATTGATTTTTA
1 CGTGATTGATTTTTA
16923473 AGTAATGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (22 bp):
CGTGATTGATTTTTAGGCATTA
Found at i:16923510 original size:23 final size:23
Alignment explanation
Indices: 16923484--16923542 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
16923474 GTAATGCCTA
*
16923484 AGTCATACAATGCTTTACTAACT
1 AGTCACACAATGCTTTACTAACT
* * * *
16923507 AGTCACGCAATACCTTACTAACA
1 AGTCACACAATGCTTTACTAACT
*
16923530 AGTCACGCAATGC
1 AGTCACACAATGC
16923543 CTTATCAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (23 bp):
AGTCACACAATGCTTTACTAACT
Found at i:16923545 original size:23 final size:23
Alignment explanation
Indices: 16923491--16923546 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
16923481 CTAAGTCATA
* *
16923491 CAATGCTTTACTAACTAGTCACG
1 CAATGCCTTACTAACAAGTCACG
*
16923514 CAATACCTTACTAACAAGTCACG
1 CAATGCCTTACTAACAAGTCACG
16923537 CAATGCCTTA
1 CAATGCCTTA
16923547 TCAGAAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (23 bp):
CAATGCCTTACTAACAAGTCACG
Found at i:16923566 original size:26 final size:25
Alignment explanation
Indices: 16923503--16923786 Score: 199
Period size: 26 Copynumber: 11.8 Consensus size: 25
16923493 ATGCTTTACT
* *
16923503 AACTAGTCACGCAATACCTTA-C-T
1 AACTAGTCACGCAATGCCTTATCAA
*
16923526 AACAAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCA-A
** *
16923552 AACTAGTCATACAATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
*
16923578 AACTAATCACGCAATGCC----C-A
1 AACTAGTCACGCAATGCCTTATCAA
* *
16923598 AAGTCAGTCTCGCAATGCC-TATC--
1 AACT-AGTCACGCAATGCCTTATCAA
*
16923621 AACTAGTCATGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
* * *
16923647 AACTAGTTACGCAATACTTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
*
16923673 AACTAGTCACGTAATGCC----C-A
1 AACTAGTCACGCAATGCCTTATCAA
* *
16923693 AAGTCAGTCACACAATGCC-TATC--
1 AACT-AGTCACGCAATGCCTTATCAA
* *
16923716 AACTAGTCACACAATGTCTTATCATA
1 AACTAGTCACGCAATGCCTTATCA-A
*
16923742 AACTAGTCACACAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
16923768 AACTAGTCACGCAATGCCT
1 AACTAGTCACGCAATGCCT
16923787 AAAGTCAGTC
Statistics
Matches: 208, Mismatches: 32, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.04
21 24 0.12
22 27 0.13
23 33 0.16
24 3 0.01
26 111 0.53
27 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (25 bp):
AACTAGTCACGCAATGCCTTATCAA
Found at i:16923693 original size:95 final size:95
Alignment explanation
Indices: 16923507--16923804 Score: 418
Period size: 95 Copynumber: 3.1 Consensus size: 95
16923497 TTTACTAACT
* * * *
16923507 AGTCACGCAATACCT-TACTAACAAGTCACGCAATGCCTTATCAGAAACTAGTCATACAATACCT
1 AGTCACGCAATGCCTAT-C-AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACACAATACCT
*
16923571 TATCAAAAACTAATCACGCAATGCCCAAAGTC
64 TATCAAAAACTAGTCACGCAATGCCCAAAGTC
* * * * *
16923603 AGTCTCGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAAAAACTAGTTACGCAATACTTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACACAATACCTTA
*
16923668 TCAAAAACTAGTCACGTAATGCCCAAAGTC
66 TCAAAAACTAGTCACGCAATGCCCAAAGTC
* * * * *
16923698 AGTCACACAATGCCTATCAACTAGTCACACAATGTCTTATCATAAACTAGTCACACAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACACAATACCTTA
*
16923763 TCAAAAACTAGTCACGCAATGCCTAAAGTC
66 TCAAAAACTAGTCACGCAATGCCCAAAGTC
16923793 AGTCACGCAATG
1 AGTCACGCAATG
16923805 TCCAAAGTCA
Statistics
Matches: 177, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
95 162 0.92
96 14 0.08
97 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.24
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACACAATACCTTA
TCAAAAACTAGTCACGCAATGCCCAAAGTC
Found at i:16923798 original size:21 final size:21
Alignment explanation
Indices: 16923772--16923831 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
16923762 ATCAAAAACT
16923772 AGTCACGCAATGCCTAAAGTC
1 AGTCACGCAATGCCTAAAGTC
16923793 AGTCACGCAATGTCC-AAAGTC
1 AGTCACGCAATG-CCTAAAGTC
*
16923814 AGTCAAGCAATGCCTAAA
1 AGTCACGCAATGCCTAAA
16923832 AACTAGTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (21 bp):
AGTCACGCAATGCCTAAAGTC
Found at i:16929487 original size:38 final size:37
Alignment explanation
Indices: 16929434--16929506 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
16929424 AGCAAAAGTG
*
16929434 TTTGAATAAAACAATACCTTTTCTTGAAA-CATGTATT
1 TTTGAATAAAACAATACCTTTACTT-AAATCATGTATT
* *
16929471 TTTGAGATAAATCAATATCTTTACTTAAATCATGTA
1 TTTGA-ATAAAACAATACCTTTACTTAAATCATGTA
16929507 ATAAAGATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 8 0.26
38 23 0.74
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.41
Consensus pattern (37 bp):
TTTGAATAAAACAATACCTTTACTTAAATCATGTATT
Found at i:16931563 original size:30 final size:31
Alignment explanation
Indices: 16931527--16931600 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 31
16931517 TTTTGTCATT
*
16931527 TTTTATTATTTAATTAT-TATTTTC-ATTTTA
1 TTTTATTATTT-ATCATATATTTTCTATTTTA
*
16931557 TTTTATTCTTTATCATCATATTTTCTATTTTA
1 TTTTATTATTTATCAT-ATATTTTCTATTTTA
16931589 TTTCTAATTATT
1 TTT-T-ATTATT
16931601 ATTTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 4 0.11
30 10 0.28
31 7 0.19
32 9 0.25
33 1 0.03
34 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTATTATTTATCATATATTTTCTATTTTA
Found at i:16931607 original size:27 final size:27
Alignment explanation
Indices: 16931527--16931607 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
16931517 TTTTGTCATT
* *
16931527 TTTTATTATTTAATTATTATTTTCATTTTA
1 TTTTATT-TCTAATTATTATTTT--TTCTA
* * * *
16931557 TTTTA-TTCTTTATCATCATATTTTCTA
1 TTTTATTTC-TAATTATTATTTTTTCTA
16931584 TTTTATTTCTAATTATTATTTTTT
1 TTTTATTTCTAATTATTATTTTTT
16931608 TATACCTTAC
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
27 20 0.51
28 4 0.10
29 10 0.26
30 5 0.13
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTATTTCTAATTATTATTTTTTCTA
Found at i:16933106 original size:30 final size:31
Alignment explanation
Indices: 16933070--16933143 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 31
16933060 TTTTGTCATT
*
16933070 TTTTATTATTTAATTAT-TATTTTC-ATTTTA
1 TTTTATTATTT-ATCATATATTTTCTATTTTA
*
16933100 TTTTATTCTTTATCATCATATTTTCTATTTTA
1 TTTTATTATTTATCAT-ATATTTTCTATTTTA
16933132 TTTCTAATTATT
1 TTT-T-ATTATT
16933144 ATTTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 4 0.11
30 10 0.28
31 7 0.19
32 9 0.25
33 1 0.03
34 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTATTATTTATCATATATTTTCTATTTTA
Found at i:16933150 original size:27 final size:27
Alignment explanation
Indices: 16933070--16933150 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
16933060 TTTTGTCATT
* *
16933070 TTTTATTATTTAATTATTATTTTCATTTTA
1 TTTTATT-TCTAATTATTATTTT--TTCTA
* * * *
16933100 TTTTA-TTCTTTATCATCATATTTTCTA
1 TTTTATTTC-TAATTATTATTTTTTCTA
16933127 TTTTATTTCTAATTATTATTTTTT
1 TTTTATTTCTAATTATTATTTTTT
16933151 TATACCTTAC
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
27 20 0.51
28 4 0.10
29 10 0.26
30 5 0.13
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTATTTCTAATTATTATTTTTTCTA
Found at i:16935734 original size:13 final size:13
Alignment explanation
Indices: 16935716--16935741 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16935706 AAGAGAAATT
16935716 ATGATTTTATAAA
1 ATGATTTTATAAA
16935729 ATGATTTTATAAA
1 ATGATTTTATAAA
16935742 TTTTCTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:16943556 original size:19 final size:18
Alignment explanation
Indices: 16943341--16943566 Score: 56
Period size: 19 Copynumber: 11.7 Consensus size: 18
16943331 ATAATAACAT
16943341 TTAAATTATAAATAAAATA
1 TTAAATTATAAAT-AAATA
* * *
16943360 TTATTATTTTATAATGTTAATGA
1 TTA--A-ATTATAA-ATAAAT-A
16943383 TTAAATTATAAATAATATA
1 TTAAATTATAAATAA-ATA
16943402 TTAATATT-TAAATTATCAACTA
1 TTAA-ATTATAAA-TA--AA-TA
* *
16943424 TTAATATTTTAAATATAT-
1 TTAA-ATTATAAATAAATA
*
16943442 TATAAATTATGAAT--AT-
1 T-TAAATTATAAATAAATA
**
16943458 TTAAAAAATAAAATAAA-A
1 TTAAATTAT-AAATAAATA
* *
16943476 ATAAATAATCATAATAACAT-
1 TTAAATTAT-A-AATAA-ATA
*
16943496 TAAAATTAT-AATAAAATA
1 TTAAATTATAAAT-AAATA
* *
16943514 TTAAATTTTGAAAATGAATGA
1 TTAAATTAT--AAATAAAT-A
16943535 TTAAATTATAAATAAACTA
1 TTAAATTATAAATAAA-TA
16943554 TTAATATT-TAAAT
1 TTAA-ATTATAAAT
16943567 TATCAGTTAT
Statistics
Matches: 156, Mismatches: 23, Indels: 56
0.66 0.10 0.24
Matches are distributed among these distances:
15 6 0.04
16 6 0.04
17 5 0.03
18 26 0.17
19 39 0.25
20 28 0.18
21 15 0.10
22 22 0.14
23 9 0.06
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (18 bp):
TTAAATTATAAATAAATA
Found at i:16943599 original size:152 final size:152
Alignment explanation
Indices: 16943315--16943678 Score: 547
Period size: 152 Copynumber: 2.4 Consensus size: 152
16943305 NNNNNNNNNN
* *
16943315 ATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTATTATTTTATAATGTTAA
1 ATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTA-AATTTTAAAATG-TAA
* *
16943380 TGATTAAATTATAAATAATATATTAATATTTAAATTATCAACTATTAATATTTTAAATATATTAT
64 TGATTAAATTATAAATAATATATTAATATTTAAATTATCAACTATTAATATTTTAAATAAATCAT
16943445 AAATTATGAATATTTAAAAAATAAA
129 AAATTATGAATATTT-AAAAATAAA
*
16943470 ATAAAAATAAATAATCATAATAACATTAAAATTAT-AATAAAATATTAAATTTTGAAAATG-AAT
1 ATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAAATTTT-AAAATGTAAT
**
16943533 GATTAAATTATAAATAA-ACTATTAATATTTAAATTATCAGTTATTAATATTTTAAATAAATCAT
65 GATTAAATTATAAATAATA-TATTAATATTTAAATTATCAACTATTAATATTTTAAATAAATCAT
*
16943597 AAATTATTAATATTTAAAAATAAA
129 AAATTATGAATATTTAAAAATAAA
* *
16943621 ATATAAATAAATAATCATAGTAACATTTTAAATTATAAATAAAATATT-AATTATTAAA
1 ATAAAAATAAATAATCATAATAACA-TTTAAATTATAAATAAAATATTAAATT-TTAAA
16943679 TTATAAATAA
Statistics
Matches: 193, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
151 33 0.17
152 91 0.47
153 18 0.09
154 17 0.09
155 34 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (152 bp):
ATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAAATTTTAAAATGTAATG
ATTAAATTATAAATAATATATTAATATTTAAATTATCAACTATTAATATTTTAAATAAATCATAA
ATTATGAATATTTAAAAATAAA
Found at i:16943603 original size:27 final size:28
Alignment explanation
Indices: 16943573--16943628 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
16943563 AAATTATCAG
*
16943573 TTATTAATATTT-TAAAT-AAATCATAAA
1 TTATTAATATTTAAAAATAAAAT-ATAAA
16943600 TTATTAATATTTAAAAATAAAATATAAA
1 TTATTAATATTTAAAAATAAAATATAAA
16943628 T
1 T
16943629 AAATAATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.46
28 10 0.38
29 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TTATTAATATTTAAAAATAAAATATAAA
Found at i:16943635 original size:28 final size:27
Alignment explanation
Indices: 16943577--16943635 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
16943567 TATCAGTTAT
* * *
16943577 TAATATTTTAAATAAATCATAAATTAT
1 TAATATTTAAAATAAATCATAAATAAA
16943604 TAATATTTAAAAATAAAAT-ATAAATAAA
1 TAATATTT-AAAAT-AAATCATAAATAAA
16943632 TAAT
1 TAAT
16943636 CATAGTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 15 0.56
29 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TAATATTTAAAATAAATCATAAATAAA
Found at i:16943681 original size:26 final size:26
Alignment explanation
Indices: 16943648--16943723 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
16943638 TAGTAACATT
16943648 TTAAATTATAAATAAAATATTAATTA
1 TTAAATTATAAATAAAATATTAATTA
** *
16943674 TTAAATTATAAATAAGGTATTAATTT
1 TTAAATTATAAATAAAATATTAATTA
* *
16943700 TTAAA-AATAAAATAAAATAATAAT
1 TTAAATTAT-AAATAAAATATTAAT
16943724 AAATAATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
TTAAATTATAAATAAAATATTAATTA
Found at i:16943718 original size:10 final size:11
Alignment explanation
Indices: 16943703--16943734 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
16943693 TTAATTTTTA
16943703 AAAATAA-AAT
1 AAAATAATAAT
16943713 AAAATAATAAT
1 AAAATAATAAT
16943724 -AAATAATAAT
1 AAAATAATAAT
16943734 A
1 A
16943735 TACATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 17 0.85
11 3 0.15
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:16947476 original size:13 final size:13
Alignment explanation
Indices: 16947458--16947482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16947448 AGAGAAATTG
16947458 TGATTTTATAAAA
1 TGATTTTATAAAA
16947471 TGATTTTATAAA
1 TGATTTTATAAA
16947483 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:16953168 original size:16 final size:16
Alignment explanation
Indices: 16953122--16953169 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
16953112 GAGAAATTTT
* *
16953122 TAAATAAATATTATAA
1 TAAATAATTATTTTAA
* * *
16953138 TAAAGATTTAGTTTAA
1 TAAATAATTATTTTAA
16953154 TAAATAATTATTTTAA
1 TAAATAATTATTTTAA
16953170 CTATAAATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
TAAATAATTATTTTAA
Found at i:16953720 original size:250 final size:250
Alignment explanation
Indices: 16953163--16953850 Score: 751
Period size: 250 Copynumber: 2.7 Consensus size: 250
16953153 ATAAATAATT
* * * * *
16953163 ATTTTAACTATAAATATTTTTA-TCTTTATTATTGTTCATTTATAAATTAAAATTTATAAACCAT
1 ATTTTCACTATAATTATTTTTATTC-TTATTATTATTTATTTATAAATTAAAATTTATAAACCGT
* * * * * * * * *
16953227 TAAATATTTTTAGATCGATAACAAAAATTTAATTGTTTAA-TTTTCAAAAAAATTATATCTATTT
65 TAAATA-ATTTAAATCAAGAA-TAAAATTTAACTATTTAATTTTTTAAAAAAATTATATTTA-TT
* * * * * *
16953291 TGGCTTAATTAACTTGTTACATTAAATCTTACACATTTACATCAATATTTTGATAATACTTGGTC
127 TGACTTAATTGACTTGTTACATTAAATCTCACACATTTACATCAATATTTTGACAAT-GTTGCTC
* * * * * *
16953356 CACTTTTATAATTTCTTATGCTGATTTTTACAGGTTTTCGTCAATGTTTTTCAACTACTA
191 CACCTTTATAATTTCTTATGCTCATTTTTACAGGTTTACATCAATGCTTTTCAACTACCA
** * ** * *
16953416 ATTTTCACTATAATTATTTCAATCCTTCCTATCATTTATCTATAAATTAAAATTTATAAACCGTT
1 ATTTTCACTATAATTATTTTTATTCTTATTATTATTTATTTATAAATTAAAATTTATAAACCGTT
* *
16953481 AAATAATTTAAACTCAAGAATAAAATTTTAA-TCTTTAATTTTTTAAAAAAATTATGTTTATTTG
66 AAATAATTTAAA-TCAAGAATAAAA-TTTAACTATTTAATTTTTTAAAAAAATTATATTTATTTG
* * * *
16953545 ACTTAATTGACTTATT-CGTTAAATCTCACATATTTACATCAATATTTTGACAATGTGTGCTCGA
129 ACTTAATTGACTTGTTACATTAAATCTCACACATTTACATCAATATTTTGACAATGT-TGCTCCA
* * *
16953609 CCTTTATAATTTTTTACT-TTCATTTTTATAGGTTTACATCAA-GCTTTTCAACTACCA
193 CCTTTATAATTTCTTA-TGCTCATTTTTACAGGTTTACATCAATGCTTTTCAACTACCA
** *
16953666 ATTTTCGTTATAATTATTTTTATTCTTATTATTATTTATTTATAAATTAAAATTTATAAACTGTT
1 ATTTTCACTATAATTATTTTTATTCTTATTATTATTTATTTATAAATTAAAATTTATAAACCGTT
* * *
16953731 AAATACTTTAAATTTAAGAATATAAATTTAACTATTTAATTTTTT-TAAAAATTATATTTATTTG
66 AAATAATTTAAA-TCAAGAATA-AAATTTAACTATTTAATTTTTTAAAAAAATTATATTTATTTG
* * ** *
16953795 ACTTAATTGACTTGTTATATTAAATCTCACACATGTATGTTAATATTTTGACAATG
129 ACTTAATTGACTTGTTACATTAAATCTCACACATTTACATCAATATTTTGACAATG
16953851 ATTATTTCAC
Statistics
Matches: 362, Mismatches: 64, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
250 125 0.35
251 119 0.33
252 33 0.09
253 84 0.23
254 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (250 bp):
ATTTTCACTATAATTATTTTTATTCTTATTATTATTTATTTATAAATTAAAATTTATAAACCGTT
AAATAATTTAAATCAAGAATAAAATTTAACTATTTAATTTTTTAAAAAAATTATATTTATTTGAC
TTAATTGACTTGTTACATTAAATCTCACACATTTACATCAATATTTTGACAATGTTGCTCCACCT
TTATAATTTCTTATGCTCATTTTTACAGGTTTACATCAATGCTTTTCAACTACCA
Found at i:16955222 original size:252 final size:251
Alignment explanation
Indices: 16954478--16955444 Score: 1135
Period size: 251 Copynumber: 3.9 Consensus size: 251
16954468 TTCTCACCCC
* * * * * * *
16954478 TAATACTAAGAATAAAAATAATTATAGTAAAAATTAGTAGTTGAAAAGCCCTAACATAAA-CTTA
1 TAATAGTAAGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAAA-CCTTGACATAAACCTGA
* * * * * *
16954542 TAAGAATTAACGTAAACATTAT-AAAGATAGAACAAGCATTGTCATAATATTGAAGTAAACGTGG
65 TAAGAATTAACATAAAAATTATAAAAG-TAGAACAAGCATAGTCAAAATATTGACGTAAACGTGT
* * * *
16954606 GAGATTTAACATAACAAGTAAATTATGTCAAATAAACAGAATTTTTTAAAAAATTAAACATTTAA
129 GAAATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAATTAAACATTTAA
* * * ** *
16954671 ATTTATATTCTCAAGTATAAAGTATTTAACTGTGCATAAATTTTAATCTATAAAAGAA
194 ATTTATATTCTCGAGTTTAAAGTATTTAACAGTTTATAAATTTTAATCTATAAATGAA
* *
16954729 TAATAGTAAGGATACAAATAATTATAGT-AGAAATTAGTAGTTGAAAAACCTTGACATAAACCT-
1 TAATAGTAAGGATAAAAATAATTATAATGA-AAATTAGTAGTTG-AAAACCTTGACATAAACCTG
* * * * * * * *
16954792 ATAAGAATTAACATAAAAAGTATAAAGGTAAAATAAGTATTGTCAAAATATTGACGTAAGCGTAT
64 ATAAGAATTAACATAAAAATTATAAAAGTAGAACAAGCATAGTCAAAATATTGACGTAAACGTGT
* * * *
16954857 GAAATTTAATATAATAAGCCAATTATATCAAATAAACATAATTTATTAAAAAATTAAACATTTAA
129 GAAATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAATTAAACATTTAA
* * **
16954922 ATTTATATTCTCGAATTTAAAGTATTTAATAGTTTATAAAAGTTAATCTATAAATGAA
194 ATTTATATTCTCGAGTTTAAAGTATTTAACAGTTTATAAATTTTAATCTATAAATGAA
* *
16954980 TAATAGTAAGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAAGACCTTGACCTAAATCTGA
1 TAATAGTAAGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAA-ACCTTGACATAAACCTGA
* * *
16955045 -AAGAATTAATATAAAAAATTATAAAAGTGGAACAAGCATAGTCAAAATATTGATGTAAACGTGT
65 TAAGAATTAACAT-AAAAATTATAAAAGTAGAACAAGCATAGTCAAAATATTGACGTAAACGTGT
* * * * **
16955109 GAGATTTAACATAATATGTCAATTATGTGAAATAAATATAATTTTTTGTAAAATTAAACATTTAA
129 GAAATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAATTAAACATTTAA
* * * *
16955174 ATTTATATTCTTGAGTTTAAAGCATTTAACAGTTTATCAATTTTAATCTATAAATAAA
194 ATTTATATTCTCGAGTTTAAAGTATTTAACAGTTTATAAATTTTAATCTATAAATGAA
* * * *
16955232 TAATAGTAAGGATAAAAATAATTATAATGAATATTAATAGTTGAAAACC-TGACGTAAACCTG-C
1 TAATAGTAAGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAAACCTTGACATAAACCTGAT
* * * *
16955295 AAGAATTAAGATAAAAAAATTATAAAAATAGAACAAACATTA-TTAAAATATTGACGTAAACGTG
66 AAGAATTAACAT--AAAAATTATAAAAGTAGAACAAGCA-TAGTCAAAATATTGACGTAAACGTG
* * * * * *
16955359 TAAAATTCAACATAATAAGTCAA-TCTGTCAAATAAATATAA-CTTTTGAAAAATTAAACATTTA
128 TGAAATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAATTAAACATTTA
*
16955422 AATTTATATTCTCAAGTTATAAA
193 AATTTATATTCTCGAGTT-TAAA
16955445 TTGTCAACCT
Statistics
Matches: 616, Mismatches: 88, Indels: 25
0.84 0.12 0.03
Matches are distributed among these distances:
249 36 0.06
250 46 0.07
251 331 0.54
252 203 0.33
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.33
Consensus pattern (251 bp):
TAATAGTAAGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAAACCTTGACATAAACCTGAT
AAGAATTAACATAAAAATTATAAAAGTAGAACAAGCATAGTCAAAATATTGACGTAAACGTGTGA
AATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAATTAAACATTTAAAT
TTATATTCTCGAGTTTAAAGTATTTAACAGTTTATAAATTTTAATCTATAAATGAA
Found at i:16958865 original size:17 final size:17
Alignment explanation
Indices: 16958843--16958886 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16958833 AATTAATTAT
16958843 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
*
16958860 ATTAAAAAAATATAAAA
1 ATTAAAAATATATAAAA
* *
16958877 GTAAAAAATA
1 ATTAAAAATA
16958887 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:16975990 original size:20 final size:19
Alignment explanation
Indices: 16975956--16975993 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16975946 ACTAAAAATA
*
16975956 TTAATTAAAATAATATATT
1 TTAATTAAAACAATATATT
16975975 TTAATATAAAACAATATAT
1 TTAAT-TAAAACAATATAT
16975994 ATATTATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATTAAAACAATATATT
Found at i:16977978 original size:28 final size:29
Alignment explanation
Indices: 16977920--16977983 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
16977910 GTAAATTTTT
**
16977920 AAAAATTACACTTTTGCCCCCGTAAAGTG
1 AAAAATTACACTTTTGCCCCCAAAAAGTG
* * *
16977949 AAAAATTACATTTTTG-CCCTAAAAATTG
1 AAAAATTACACTTTTGCCCCCAAAAAGTG
16977977 AAAAATT
1 AAAAATT
16977984 GCTCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCCCCAAAAAGTG
Found at i:16985133 original size:17 final size:19
Alignment explanation
Indices: 16985100--16985134 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16985090 GATAAAGTAA
16985100 ACATATAGAAAACATATAT
1 ACATATAGAAAACATATAT
16985119 ACATATA-AAAA-ATATA
1 ACATATAGAAAACATATA
16985135 AAAATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (19 bp):
ACATATAGAAAACATATAT
Found at i:16993008 original size:24 final size:24
Alignment explanation
Indices: 16992959--16993009 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
16992949 AACATGGACA
* * *
16992959 ATAAAACAACGTGGAATATTTTTT
1 ATAAAACAACATGCAATATTTCTT
16992983 ATAAAACAACATGCAAT-TATTCTT
1 ATAAAACAACATGCAATAT-TTCTT
16993007 ATA
1 ATA
16993010 TGCATGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (24 bp):
ATAAAACAACATGCAATATTTCTT
Found at i:16999338 original size:42 final size:41
Alignment explanation
Indices: 16999292--16999445 Score: 209
Period size: 42 Copynumber: 3.7 Consensus size: 41
16999282 AAGCTCATAT
* * * *
16999292 GCACTCCCACTAGCACATGGTTGGGTCATCATGAGCTTATGC
1 GCACTCCCACTCGCACATAGTCGGGTCAGCATG-GCTTATGC
* * *
16999334 GCACTCCTACTCGCACACAGTCGGGTTAGCATTGGCTTATGC
1 GCACTCCCACTCGCACATAGTCGGGTCAGCA-TGGCTTATGC
16999376 GCACTCCCACTCGCACATAGTCGGGTCAGCATCGGCTTATGC
1 GCACTCCCACTCGCACATAGTCGGGTCAGCAT-GGCTTATGC
*
16999418 GCACTCCCACTCGCACATAGCCGGGTCA
1 GCACTCCCACTCGCACATAGTCGGGTCA
16999446 ATATCATTAC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 96 0.97
43 2 0.02
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (41 bp):
GCACTCCCACTCGCACATAGTCGGGTCAGCATGGCTTATGC
Found at i:17000257 original size:17 final size:18
Alignment explanation
Indices: 17000235--17000278 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17000225 AGAGGAAGAA
*
17000235 GAAGAAAAAAAGCTGTTG
1 GAAGAAAAAAAGCTGCTG
17000253 G-AGAATGAAAAAGCTGCTG
1 GAAGAA--AAAAAGCTGCTG
17000272 GAAGAAA
1 GAAGAAA
17000279 GAGATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.18
18 2 0.09
19 12 0.55
20 4 0.18
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.14
Consensus pattern (18 bp):
GAAGAAAAAAAGCTGCTG
Found at i:17001432 original size:19 final size:19
Alignment explanation
Indices: 17001405--17001444 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17001395 CAAGAGAAAT
* *
17001405 TTTTTTTAATTAAATAATA
1 TTTTATTAATAAAATAATA
17001424 TTTTATTAATAAAATAATA
1 TTTTATTAATAAAATAATA
17001443 TT
1 TT
17001445 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTATTAATAAAATAATA
Found at i:17003096 original size:2 final size:2
Alignment explanation
Indices: 17003089--17003115 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17003079 TATAATATTG
17003089 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17003116 CACTATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17003348 original size:19 final size:19
Alignment explanation
Indices: 17003324--17003361 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17003314 CTGGCTATGT
17003324 GCACGATGTGGGGGGATGC
1 GCACGATGTGGGGGGATGC
17003343 GCACGATGTGGGGGGATGC
1 GCACGATGTGGGGGGATGC
17003362 ACATGAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.53, T:0.16
Consensus pattern (19 bp):
GCACGATGTGGGGGGATGC
Found at i:17003356 original size:73 final size:73
Alignment explanation
Indices: 17003270--17003415 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 73
17003260 CATTAGCTAT
* * * *
17003270 GCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCTGGCTATGTGCACGATGTGG
1 GCACGATGTGGGGGGATGCACATGAGCTGGGTAAGACAGGGTGTCCGACTATGTGCACGATGTGG
17003335 GGGGATGC
66 GGGGATGC
*
17003343 GCACGATGTGGGGGGATGCACATGAGCTGGGTAAGACGGGGTGTCCGACTATGTGCACGATGTGG
1 GCACGATGTGGGGGGATGCACATGAGCTGGGTAAGACAGGGTGTCCGACTATGTGCACGATGTGG
17003408 GGGGATGC
66 GGGGATGC
17003416 ACATGAGCTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.18, C:0.15, G:0.46, T:0.21
Consensus pattern (73 bp):
GCACGATGTGGGGGGATGCACATGAGCTGGGTAAGACAGGGTGTCCGACTATGTGCACGATGTGG
GGGGATGC
Found at i:17009474 original size:7 final size:7
Alignment explanation
Indices: 17009462--17009503 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
17009452 GCTGAAAAGG
17009462 AAGAAGA
1 AAGAAGA
17009469 AAGAAGA
1 AAGAAGA
*
17009476 AAAAAGA
1 AAGAAGA
17009483 AA-AAG-
1 AAGAAGA
17009488 AAGAAGA
1 AAGAAGA
17009495 AAG-AGA
1 AAGAAGA
17009501 AAG
1 AAG
17009504 GGAGCGGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
5 2 0.06
6 12 0.38
7 18 0.56
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:17009489 original size:16 final size:16
Alignment explanation
Indices: 17009462--17009503 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17009452 GCTGAAAAGG
17009462 AAGAAGAAAGAAGAAAA
1 AAGAA-AAAGAAGAAAA
*
17009479 AAGAAAAAGAAGAAGA
1 AAGAAAAAGAAGAAAA
*
17009495 AAGAGAAAG
1 AAGAAAAAG
17009504 GGAGCGGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAGAAAA
Found at i:17009565 original size:18 final size:18
Alignment explanation
Indices: 17009543--17009580 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17009533 GAAAAGGGAA
17009543 AAAAATAATATATATATAT
1 AAAAA-AATATATATATAT
17009562 AAAAAAATATATATATAT
1 AAAAAAATATATATATAT
17009580 A
1 A
17009581 TATATTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAAATATATATATAT
Found at i:17009565 original size:20 final size:22
Alignment explanation
Indices: 17009541--17009584 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17009531 AAGAAAAGGG
17009541 AAAAAAATA-ATATATATATAT
1 AAAAAAATATATATATATATAT
17009562 AAAAAAATATATATATATATAT
1 AAAAAAATATATATATATATAT
17009584 A
1 A
17009585 TTAAGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAAATATATATATATATAT
Found at i:17009866 original size:2 final size:2
Alignment explanation
Indices: 17009854--17009891 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
17009844 CCGTTTTCTC
*
17009854 TA TA GTA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17009892 CTAATGACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17010297 original size:60 final size:60
Alignment explanation
Indices: 17010204--17010497 Score: 453
Period size: 60 Copynumber: 4.9 Consensus size: 60
17010194 TTTTATTATA
*
17010204 AAAAGGGGACCTGAAACCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
* * * *
17010264 AAAAGAGGACCTAAAGCCCCGATTTATATATGGTGGCATGGGTAATTCTCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
* *
17010324 AAAGGGGGACCTGAAGCCCTGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
* *
17010384 AAAAGGGGGACTTGAAGCCCCGATTTATATATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAA-GGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
* ** *
17010445 AAAAGAGGGACCTGAAGCCTCGATTTATATATGGTGGTGTGGGAAGTTCCCAC
1 AAAAG-GGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCAC
17010498 AATAGGTGAT
Statistics
Matches: 213, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
60 113 0.53
61 100 0.47
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (60 bp):
AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
Found at i:17010419 original size:61 final size:61
Alignment explanation
Indices: 17010202--17010497 Score: 452
Period size: 61 Copynumber: 4.9 Consensus size: 61
17010192 CTTTTTATTA
* *
17010202 TAAAAAGGGGACCTGAAACCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
1 TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
* * * *
17010263 TAAAA-GAGGACCTAAAGCCCCGATTTATATATGGTGGCATGGGTAATTCTCACGAGTAGG
1 TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
*
17010323 T-AAAGGGGGACCTGAAGCCCTGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
1 TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
* *
17010383 TAAAAGGGGGACTTGAAGCCCCGATTTATATATGGTGGCGTGGGTAGTTCCCACGAGTAGG
1 TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
* * ** *
17010444 TAAAAGAGGGACCTGAAGCCTCGATTTATATATGGTGGTGTGGGAAGTTCCCAC
1 TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCAC
17010498 AATAGGTGAT
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
59 3 0.01
60 102 0.47
61 110 0.51
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (61 bp):
TAAAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGG
Found at i:17011385 original size:2 final size:2
Alignment explanation
Indices: 17011378--17011435 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
17011368 NNNNNNNNNN
17011378 AT AT AT AT AT A- AT A- AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17011417 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
17011436 CATACATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.06
2 50 0.94
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17014534 original size:21 final size:22
Alignment explanation
Indices: 17014505--17014566 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
17014495 TAAAACTAAT
* *
17014505 TACCAAGAGGTTTTAGGA-ATG
1 TACCCAGAGGTTTTAGAAGATG
17014526 TACCCAGAGGTTTT-GAAGATG
1 TACCCAGAGGTTTTAGAAGATG
*
17014547 TACCC-GAAGGTTTTAAAAGA
1 TACCCAG-AGGTTTTAGAAGA
17014567 AAAAGTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 28 0.80
22 4 0.11
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (22 bp):
TACCCAGAGGTTTTAGAAGATG
Found at i:17014651 original size:21 final size:20
Alignment explanation
Indices: 17014627--17014724 Score: 106
Period size: 21 Copynumber: 4.8 Consensus size: 20
17014617 TGAAACTAAT
*
17014627 TACCAAGAGGTTTTAAGAATG
1 TACCCAGAGGTTTTAAG-ATG
* *
17014648 TACCCGGAGGTTTGAAGATG
1 TACCCAGAGGTTTTAAGATG
**
17014668 TACCTGGAGGTTTTGAAGATG
1 TACCCAGAGGTTTT-AAGATG
* *
17014689 GACCCAGAGGTTTTAAATATG
1 TACCCAGAGGTTTT-AAGATG
17014710 TACCCAGAGGTTTTA
1 TACCCAGAGGTTTTA
17014725 GAAGAAAAGG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.25
21 49 0.75
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (20 bp):
TACCCAGAGGTTTTAAGATG
Found at i:17014781 original size:163 final size:163
Alignment explanation
Indices: 17014527--17014823 Score: 402
Period size: 163 Copynumber: 1.8 Consensus size: 163
17014517 TTAGGAATGT
* *
17014527 ACCCAGAGGTTTTGAAGATGTACCCGAAGGTTTTAAAAGAAAAAGTCATTCCTCATCTTAGAATG
1 ACCCAGAGGTTTTAAAGATGTACCCGAAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAGAATG
* * * *
17014592 AGGCTACGCAACTTTGAAGAAATCTTGAAACTAATTA-CCAAGAGGTTTTAA-GAATGTACCCGG
66 AAGCTACGCAACTTTGAAAAAATCTTGAAACAAATTATCC-AGAGG-TTTAAGGAATGCACCCGG
17014655 AGGTTTGAAGATGTACCTGGAGGTTTTGAAGATGG
129 AGGTTTGAAGATGTACCTGGAGGTTTTGAAGATGG
* * * * *
17014690 ACCCAGAGGTTTTAAATATGTACCC-AGAGGTTTTAGAAGAAAAGGTTATTCCTTATCTCAGAAT
1 ACCCAGAGGTTTTAAAGATGTACCCGA-AGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAGAAT
* * * * *
17014754 GAAGCTATGTAGCTTTGAAAAAATCTTGAAACAAATTATTCGGAGGTTTAAGGAATGCACCCGGA
65 GAAGCTACGCAACTTTGAAAAAATCTTGAAACAAATTATCCAGAGGTTTAAGGAATGCACCCGGA
17014819 GGTTT
130 GGTTT
17014824 TAAAAGAAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
162 6 0.05
163 108 0.94
164 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (163 bp):
ACCCAGAGGTTTTAAAGATGTACCCGAAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAGAATG
AAGCTACGCAACTTTGAAAAAATCTTGAAACAAATTATCCAGAGGTTTAAGGAATGCACCCGGAG
GTTTGAAGATGTACCTGGAGGTTTTGAAGATGG
Found at i:17014879 original size:101 final size:101
Alignment explanation
Indices: 17014690--17014917 Score: 248
Period size: 101 Copynumber: 2.3 Consensus size: 101
17014680 TTGAAGATGG
* * * * * * * *
17014690 ACCCAGAGGTTTTAA-ATATGTACCCAGAGGTTTTAGAAGAAAAGGTTATTCCTTATCTCAGAAT
1 ACCCGGAGGTTTTAAGA-ATGCACCCGGAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAAAAT
* * *
17014754 GAAGCTATGTAGCTTTGAAAAAATCTTGAAACAAATT
65 GAAGCTACGTAACTTTGAAAAAATCTTAAAACAAATT
** *
17014791 ATTCGGAGG-TTTAAGGAATGCACCCGGAGGTTTTAAAAGAAAAAGTCGTTCCTCATCTCAAAAT
1 ACCCGGAGGTTTTAA-GAATGCACCCGGAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAAAAT
*
17014855 G-AGACTACGTAACTTT-AAAGAAATCTTAAAACTAATT
65 GAAG-CTACGTAACTTTGAAA-AAATCTTAAAACAAATT
*
17014892 ACCCGGAGGTTTTAAGAATGTACCCG
1 ACCCGGAGGTTTTAAGAATGCACCCG
17014918 AAGCTTTGAA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
100 10 0.10
101 88 0.85
102 6 0.06
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (101 bp):
ACCCGGAGGTTTTAAGAATGCACCCGGAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAAAATG
AAGCTACGTAACTTTGAAAAAATCTTAAAACAAATT
Found at i:17014915 original size:21 final size:20
Alignment explanation
Indices: 17014891--17014965 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
17014881 TAAAACTAAT
* *
17014891 TACCCGGAGGTTTTAAGAATG
1 TACCCGAAGGTTTGAAG-ATG
*
17014912 TACCCGAAGCTTTGAAGATG
1 TACCCGAAGGTTTGAAGATG
* *
17014932 TACTCAAAGGTTTCGAAGATG
1 TACCCGAAGGTTT-GAAGATG
*
17014953 TACCCGGAGGTTT
1 TACCCGAAGGTTT
17014966 TAAAAGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 13 0.30
21 31 0.70
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (20 bp):
TACCCGAAGGTTTGAAGATG
Found at i:17014934 original size:20 final size:21
Alignment explanation
Indices: 17014909--17014958 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
17014899 GGTTTTAAGA
17014909 ATGTACCCGAAGCTTT-GAAG
1 ATGTACCCGAAGCTTTCGAAG
* * *
17014929 ATGTACTCAAAGGTTTCGAAG
1 ATGTACCCGAAGCTTTCGAAG
17014950 ATGTACCCG
1 ATGTACCCG
17014959 GAGGTTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (21 bp):
ATGTACCCGAAGCTTTCGAAG
Found at i:17015039 original size:144 final size:143
Alignment explanation
Indices: 17014812--17015089 Score: 407
Period size: 144 Copynumber: 1.9 Consensus size: 143
17014802 TAAGGAATGC
*
17014812 ACCCGGAGGTTTTAAAAGAAAAAGTCGTTCCTCATCTCAAAATGAGACTACGTAACTTTAAAGAA
1 ACCCGGAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAAAATGAGACTACGTAACTTTAAAGAA
* * *
17014877 ATCTTAAAACTAATTACCCGGAGGTTTTAAGAATGTACCC-GAAGCTTTGAAGATGTACTCAAAG
66 ATCTTAAAACTAATTACCCGGAGGTTTTAAGAATGCACCCAAAAGCTTTGAAGATGTACCCAAAG
17014941 GTTTCGAAGATGT
131 GTTTCGAAGATGT
* * * *
17014954 ACCCGGAGGTTTTAAAAGAAAAAAGGTTATTCCTCATCTCAGAATGAGGCTATGTAACTTTGAAA
1 ACCCGGAGGTTTTAAAAG-AAAAA-GTCATTCCTCATCTCAAAATGAGACTACGTAACTTT-AAA
* * * *
17015019 -AAATCTTGAAACTAATTACCCGGAGGTTTTAGGAATGCACCCAAAAGTTTTGAAGATGTACCCG
63 GAAATCTTAAAACTAATTACCCGGAGGTTTTAAGAATGCACCCAAAAGCTTTGAAGATGTACCCA
17015083 AAGGTTT
128 AAGGTTT
17015090 TAAAAGAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
142 18 0.15
143 5 0.04
144 70 0.58
145 27 0.22
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (143 bp):
ACCCGGAGGTTTTAAAAGAAAAAGTCATTCCTCATCTCAAAATGAGACTACGTAACTTTAAAGAA
ATCTTAAAACTAATTACCCGGAGGTTTTAAGAATGCACCCAAAAGCTTTGAAGATGTACCCAAAG
GTTTCGAAGATGT
Found at i:17015167 original size:122 final size:123
Alignment explanation
Indices: 17014936--17015211 Score: 360
Period size: 122 Copynumber: 2.3 Consensus size: 123
17014926 AAGATGTACT
* * * *
17014936 CAAAGGTTTCGAAGATGTACCCGGAGGTTTTAAAAGAAAAAAGGTTATTCCTCATCTCAGAATGA
1 CAAAAGTTTTGAAGATGTACCCGGAGGTTTTAAAAG-AAAAAGGTCATTCCTCATCTCAAAATGA
* * ** *
17015001 GGCTATGTAACTTTGAAAAAATCTTGAAACTAATTACCCGGAGGTTTTAGGAATGCACC
65 GACTACGTAACTTTGAAAAAATCTTGAAACTAATTACCAAGAGGTTTTAAGAATGCACC
* * *
17015060 CAAAAGTTTTGAAGATGTACCCGAAGGTTTTAAAAG-AAATGGTCGTTCCTCATCTCAAAATGAG
1 CAAAAGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAAGGTCATTCCTCATCTCAAAATGAG
*
17015124 ACTACGTAACTTT-AAAGAAATCTTGAAACTAATTACCAAGAGGTTTTAAGAATGTACC
66 ACTACGTAACTTTGAAA-AAATCTTGAAACTAATTACCAAGAGGTTTTAAGAATGCACC
** * *
17015182 C-GGAGGTATGAAGATGTACCCGGAGGTTTT
1 CAAAAGTTTTGAAGATGTACCCGGAGGTTTT
17015212 GATGATGTAC
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
121 27 0.20
122 73 0.55
124 33 0.25
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (123 bp):
CAAAAGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAAGGTCATTCCTCATCTCAAAATGAG
ACTACGTAACTTTGAAAAAATCTTGAAACTAATTACCAAGAGGTTTTAAGAATGCACC
Found at i:17015200 original size:20 final size:21
Alignment explanation
Indices: 17015163--17015259 Score: 126
Period size: 21 Copynumber: 4.6 Consensus size: 21
17015153 TAATTACCAA
17015163 GAGGTTTT-AAGAATGTACCCG
1 GAGGTTTTGAAG-ATGTACCCG
*
17015184 GAGG-TATGAAGATGTACCCG
1 GAGGTTTTGAAGATGTACCCG
*
17015204 GAGGTTTTGATGATGTACCCG
1 GAGGTTTTGAAGATGTACCCG
* *
17015225 AAGGTTTTAAAGATGTACCCG
1 GAGGTTTTGAAGATGTACCCG
17015246 GAGGTTTTAGAAGA
1 GAGGTTTT-GAAGA
17015260 AAAGGTTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
20 15 0.23
21 46 0.71
22 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (21 bp):
GAGGTTTTGAAGATGTACCCG
Found at i:17015244 original size:163 final size:164
Alignment explanation
Indices: 17015035--17015363 Score: 432
Period size: 163 Copynumber: 2.0 Consensus size: 164
17015025 TGAAACTAAT
* *
17015035 TACCCGGAGGTTTTAGGAATGCACCCAAAAGTTTTGAAGATGTACCCGAAGGTTTTAAAAGAAAT
1 TACCCGGAGGTTTTAGGAATGCACCCAAAAGTTTTAAAGATGTACCCGAAGGTTTTAAAAGAAAA
* *
17015100 GGTCGTTCCTCATCTCAAAATGAGACTACGTAACTTTAAAGAAATCTTGAAACTAATTA-CC-AA
66 GGTCATTCCTCATATCAAAATGAGACTACGTAACTTTAAAGAAATCTTGAAACTAATTACCCGAA
17015163 GAGGTTTTAAGAATGTACCCGGAGG-TATGAAGATG
131 GA--TTTTAAGAATGTACCCGGAGGTTATGAAGATG
* * * * * *
17015198 TACCCGGAGGTTTTGATG-ATGTACCCGAAGGTTTTAAAGATGTACCCGGAGGTTTTAGAAGAAA
1 TACCCGGAGGTTTT-AGGAATGCACCCAAAAGTTTTAAAGATGTACCCGAAGGTTTTAAAAGAAA
* * * * *
17015262 AGGTTATTCCTCATATCAGAATGAGGCTATGTAACTTTGAAGAAATCTTGAAACTAATTACCCGA
65 AGGTCATTCCTCATATCAAAATGAGACTACGTAACTTTAAAGAAATCTTGAAACTAATTACCCGA
** * *
17015327 AGATTTTGGGAATGTACTCGGAGGTTTTGAAGATG
130 AGATTTTAAGAATGTACCCGGAGGTTATGAAGATG
17015362 TA
1 TA
17015364 GGTTGTTCCC
Statistics
Matches: 143, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
163 124 0.87
164 15 0.10
165 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (164 bp):
TACCCGGAGGTTTTAGGAATGCACCCAAAAGTTTTAAAGATGTACCCGAAGGTTTTAAAAGAAAA
GGTCATTCCTCATATCAAAATGAGACTACGTAACTTTAAAGAAATCTTGAAACTAATTACCCGAA
GATTTTAAGAATGTACCCGGAGGTTATGAAGATG
Found at i:17015500 original size:61 final size:60
Alignment explanation
Indices: 17015412--17016815 Score: 688
Period size: 61 Copynumber: 22.9 Consensus size: 60
17015402 AAGAAATCTC
* * * * **
17015412 TTTGTGCCAACGTAGCTAGGCTGAAACATCTTGGATGCTTGCTAAATTGGGCTTAAACTT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTT
* * ** *
17015472 TTTCGTGCCAACGTAACTGGACTTAAACATCTTAAATACCAGCTAAATTGGGCTTAAACTCCT
1 TTT-GTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * *
17015535 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCGTC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * * * * *
17015596 TTTATGCCAATATAATTGGGCTTAATCATCTCGGATGCCAGTTAAATTGGGCTTAAGCTCAT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * * * * * *
17015658 TTTGTGCTAACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTAGGCTTAATCGTC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * ** * * *
17015719 TTTATGCCAATATAACTGGGCTTAATCATCTTGGATGCCATTTAAATTGAGCTTAATCATC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * * * * ** * *
17015780 TTTATGCCAATATAACTGGGCTTAAGC-TCCCTTTG-TGCCAACGT-AACTGAACTTATACATC
1 TTTGTGCCAACATAACTGGGCTTAAACAT--CTTGGATGCCAGC-TAAATTGGGCTTAAAC-TT
* * * * * * * * * *
17015841 TTGGATGCCAGC-TAAATTAGGCTTAAACATCTTTG-TGCCA-ATATAACTAGGCTTAATCATC
1 TTTG-TGCCAACAT-AACTGGGCTTAAACATCTTGGATGCCAGCTA-AATTGGGCTTAAAC-TT
* * * *** * * * * * *
17015902 TTGGATGCCAGCGA-AATTGGGCTTAATTGTCTT-TATGTCA-ATATAACTGGGCTTAATCATC
1 TTTG-TGCCAAC-ATAACTGGGCTTAAACATCTTGGATGCCAGCTA-AATTGGGCTTAAAC-TT
* * ** * * * ** * * * * *
17015963 TTGGATG-CTAGTTAAATTGGGTTTAAGC-TCCTTTTATGCCAACGT-AACTGGACTTATACATC
1 TTTG-TGCCAACAT-AACTGGGCTTAAACAT-CTTGGATGCCAGC-TAAATTGGGCTTAAAC-TT
* * * * * * * * * *
17016025 TTGGATGCCAGCGTAATTGGGCTTAATCATCTT-TATGCCA-ATATAACTGGGCTTAAGCTCCC
1 TTTG-TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTA-AATTGGGCTTAAACT--T
* * * * * *
17016087 TTTGTGCCAACGTAACTGGACTTATACATCTTGAATGCTAGCTAAATTAGGCTT-AACTCCT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * * * *
17016148 TCTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCTT-AATTGT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT-T
* * * ** * * * *
17016208 CTTTATGTCAATATAACTGGGCTTATTCATCTTGGATGCTAGTTAAATTGGGTTTAAGCTCCT
1 -TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * * * *
17016271 TTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGT-AATTGGGCTTAATCATC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGC-TAAATTGGGCTTAAAC-TT
* * * * * * *
17016332 TTTATGCCAATATAACTGGGCTTAATCATCTTGGATGACGGTTAAATTGGGCTTAAGCTCAT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * * * * *
17016394 TTTGTACCAACATAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAATCATC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * * * ** * *
17016455 TTTATGCCAATATAACTGGACTTAATCATCTCGGATGCCATTTAAATTGGGCTTAATCATC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * * * *
17016516 TTTATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCCC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* ** * *
17016578 TTTGTGCCAACGTAACTGAACTTATACATCTTGGATGCCAACTAAATTGGGCTT-AACTCCT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACT--T
* * * * * *
17016639 TCTGTGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGCAAAATTGGGCTTAATCGTC
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TT
* * * * * * *
17016700 TTTATGCCAATATAATTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGCTTAAGCTCTT
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAA--ACTT
* * * *
17016762 TTTGTGCCAACATAACTGGACTTATACATATTGGATGCTAG--AAATTGGGCTTAA
1 TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAA
17016816 GACTCAAATA
Statistics
Matches: 1075, Mismatches: 222, Indels: 94
0.77 0.16 0.07
Matches are distributed among these distances:
59 2 0.00
60 25 0.02
61 676 0.63
62 352 0.33
63 19 0.02
64 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (60 bp):
TTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTT
Found at i:17015642 original size:123 final size:123
Alignment explanation
Indices: 17015412--17016815 Score: 947
Period size: 123 Copynumber: 11.5 Consensus size: 123
17015402 AAGAAATCTC
* * * * * ** * * *
17015412 TTTGTGCCAACGTAGCTAGGCTGAAACATCTTGGATGCTTGCTAAATTGGGCTTAAAC-TTTTTC
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTT-
* ** * * ** * * *
17015476 GTGCCAACGTAACTGGACTTAAACATCTTAAATACCAGCTAAATTGGGCTTAAACTCCT
65 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
*
17015535 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCGTCTTTA
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTTA
* * *
17015600 TGCCAATATAATTGGGCTTAATCATCTCGGATGCCAGTTAAATTGGGCTTAAGCTCAT
66 TGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * * * * *
17015658 TTTGTGCTAACGTAACTGGACTTATACATCTTGGATGCCAG-GTAAATTAGGCTTAATCGTCTTT
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCG-AAATTGGGCTTAATCATCTTT
* *
17015722 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCATTTAAATTGAGCTT-AA-TCAT
65 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * ** * * * * **
17015779 CTTTATGCCAATATAACTGGGCTTAAGCTCCCTTTG-TGCCAACGTAACTGAACTT-ATACATCT
1 -TTTGTGCCAACATAACTGGGCTTAA-ATATCTTGGATGCCAGCGAAATTGGGCTTAAT-CATCT
* * * * * * * * *
17015842 TGGATGCCAGCTA-AATTAGGCTTAAACATCTTTG-TGCCA-ATATAACTAGGCTT-AA-TCAT
63 T-TATGCCA-ATATAACTGGGCTTAATCATCTTGGATGCCAGTTA-AATTGGGCTTAAACTCAT
* * * * * * * ** *
17015901 CTTGGATGCCAGCGA-AATTGGGCTTAATTGTCTT-TATGTCA-ATATAACTGGGCTTAATCATC
1 -TTTG-TGCCAAC-ATAACTGGGCTTAAATATCTTGGATGCCAGCGA-AATTGGGCTTAATCATC
* * * * * * ** * * *
17015963 TTGGATGCTAGT-TAAATTGGGTTTAAGC-TCCTTTTATGCCAACG-T-AACTGGACTTATA--C
62 TT-TATGCCAATAT-AACTGGGCTTAATCAT-CTTGGATGCC-A-GTTAAATTGGGCTTAAACTC
17016022 AT
122 AT
* * * * * ** *
17016024 CTTGGATGCCAGCGTAATTGGGCTT-AATCATCTT-TATGCCA-ATATAACTGGGCTTAAGCTC-
1 -TTTG-TGCCAACATAACTGGGCTTAAAT-ATCTTGGATGCCAGCGA-AATTGGGCTTAA--TCA
* * ** * * * * * *
17016085 CCTTTGTGCCAACGTAACTGGACTT-ATACATCTTGAATGCTAGCTAAATTAGGCTT-AACTCCT
60 TCTTTATGCCAATATAACTGGGCTTAAT-CATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * **
17016148 TCTGTGCCAATATAACTAGGCTT-AATCATCTTGGATGCCAGCGAAATTGGGCTTAATTGTCTTT
1 TTTGTGCCAACATAACTGGGCTTAAAT-ATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTT
* * * * * *
17016212 ATGTCAATATAACTGGGCTTATTCATCTTGGATGCTAGTTAAATTGGGTTTAAGCTCCT
65 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * * * *
17016271 TTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCATCTTTA
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTTA
* * *
17016336 TGCCAATATAACTGGGCTTAATCATCTTGGATGACGGTTAAATTGGGCTTAAGCTCAT
66 TGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * * *
17016394 TTTGTACCAACATAACTGGACTTATACATCTTGGATGCTAG-GTAAATTGGGCTTAATCATCTTT
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCG-AAATTGGGCTTAATCATCTTT
* * *
17016458 ATGCCAATATAACTGGACTTAATCATCTCGGATGCCATTTAAATTGGGCTT-AA-TCAT
65 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * ** *
17016515 CTTTATGCCAATATAACTGGGCTT-AATCATCTTGGATGCCAGTTAAATTGGGCTTAAGCTC-CC
1 -TTTGTGCCAACATAACTGGGCTTAAAT-ATCTTGGATGCCAGCGAAATTGGGCTTAA--TCATC
* ** ** ** *
17016578 TTTGTGCCAACGTAACTGAACTT-ATACATCTTGGATGCCAACTAAATTGGGCTT-AACTCCT
62 TTTATGCCAATATAACTGGGCTTAAT-CATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * *
17016639 TCTGTGCCAATATAACTGGGCTT-AATCATCTTGGATGCCAGCAAAATTGGGCTTAATCGTCTTT
1 TTTGTGCCAACATAACTGGGCTTAAAT-ATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTT
* * * *
17016703 ATGCCAATATAATTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGCTTAAGCTCTT
65 ATGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
* * * * *
17016762 TTTGTGCCAACATAACTGGACTTATACATATTGGATGCTA--GAAATTGGGCTTAA
1 TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAA
17016816 GACTCAAATA
Statistics
Matches: 1028, Mismatches: 202, Indels: 104
0.77 0.15 0.08
Matches are distributed among these distances:
121 32 0.03
122 266 0.26
123 703 0.68
124 24 0.02
125 3 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (123 bp):
TTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGGGCTTAATCATCTTTA
TGCCAATATAACTGGGCTTAATCATCTTGGATGCCAGTTAAATTGGGCTTAAACTCAT
Found at i:17015775 original size:184 final size:183
Alignment explanation
Indices: 17015438--17016815 Score: 1133
Period size: 184 Copynumber: 7.5 Consensus size: 183
17015428 TAGGCTGAAA
** * * *
17015438 CATCTTGGATGCTTGCTAAATTGGGCTTAAACT--TTTTCGTGCCAACGTAACTGGACTTAAACA
1 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTT-GTGCCAACGTAACTGGACTTATACA
** * * * *
17015501 TCTTAAATACCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCAACATAACTGGGCTTAAAT-ATC
65 TCTTGGATGCCAGGTAAATTGGGCTTAATCT-C-TTTATGCCAACATAACTGGGCTT-AATCATC
* * *
17015565 TTGGATGCCAGCGAAATTGGGCTTAATCGTCTTTATGCCAATATAATTGGGCTTAAT
127 TTGGATGCCAGCTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
* *
17015622 CATCTCGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCTAACGTAACTGGACTTATACAT
1 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCCAACGTAACTGGACTTATACAT
* *
17015687 CTTGGATGCCAGGTAAATTAGGCTTAATCGTCTTTATGCCAATATAACTGGGCTTAATCATCTTG
66 CTTGGATGCCAGGTAAATTGGGCTTAATC-TCTTTATGCCAACATAACTGGGCTTAATCATCTTG
** *
17015752 GATGCCATTTAAATTGAGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAGCT
130 GATGCCAGCTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAA--T
* * * ** * * *
17015808 C-CCTTTG-TGCCAACG-T-AACTGAACTT-A--TACATCTTGGATGCCAGC-TAAATTAGG-CT
1 CATCTTGGATGCC-A-GTTAAATTGGGCTTAAGCT-CAT-TTTG-TGCCAACGT-AACT-GGACT
* * * * * * * *
17015864 TAAACATCTTTG-TGCCA-ATATAACTAGGCTTAATCATCTTGGATGCCAGCGA-AATTGGGCTT
59 TATACATCTTGGATGCCAGGTA-AATTGGGCTTAATC-TCTT-TATGCCAAC-ATAACTGGGCTT
** * * * * * * * * *
17015926 AATTGTCTT-TATGTCA-ATATAACTGGGCTTAATCATCTTGGATGCTAGT-TAAATTGGGTTTA
120 AATCATCTTGGATGCCAGCTA-AATTGGGCTTAATCATCTT-TATGCCAATAT-AACTGGGCTTA
*
17015988 AG
182 AT
** * * * * * *
17015990 C-TCCTTTTATGCCAACG-T-AACTGGACTT-A--TACATCTTGGATGCCAGCGTAATTGGGCTT
1 CAT-CTTGGATGCC-A-GTTAAATTGGGCTTAAGCT-CAT-TTTG-TGCCAACGTAACTGGACTT
* * * * * * *
17016049 A-ATCATCTT-TATGCCA-ATATAACTGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTT-
60 ATA-CATCTTGGATGCCAGGTA-AATTGGGCTTAA--TCTCTTTATGCCAACATAACTGGGCTTA
* * * * *
17016110 ATACATCTTGAATGCTAGCTAAATTAGGCTTAA-C-TCCTTCTGTGCCAATATAACTAGGCTTAA
121 AT-CATCTTGGATGCCAGCTAAATTGGGCTTAATCAT-CTT-TATGCCAATATAACTGGGCTTAA
17016173 T
183 T
** ** * *
17016174 CATCTTGGATGCCAGCGAAATTGGGCTTAATTG-TC-TTTATGT--CAATATAACTGGGCTTATT
1 CATCTTGGATGCCAGTTAAATTGGGCTTAA--GCTCATTT-TGTGCCAACGTAACTGGACTTATA
* * * * * *
17016235 CATCTTGGATGCTAGTTAAATTGGGTTTAAGCTCCTTTTATGCCAACGTAACTGGACTT-ATACA
63 CATCTTGGATGCCAGGTAAATTGGGCTTAATCT-C-TTTATGCCAACATAACTGGGCTTAAT-CA
17016299 TCTTGGATGCCAGCGT-AATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
125 TCTTGGATGCCAGC-TAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
* * * *
17016358 CATCTTGGATGACGGTTAAATTGGGCTTAAGCTCATTTTGTACCAACATAACTGGACTTATACAT
1 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCCAACGTAACTGGACTTATACAT
* * * *
17016423 CTTGGATGCTAGGTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGACTTAATCATCTCG
66 CTTGGATGCCAGGTAAATTGGGCTTAATC-TCTTTATGCCAACATAACTGGGCTTAATCATCTTG
**
17016488 GATGCCATTTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
130 GATGCCAGCTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
** *
17016542 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGAACTTATACAT
1 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCCAACGTAACTGGACTTATACAT
** * *
17016607 CTTGGATGCCAACTAAATTGGGCTTAA-CTCCTTCTGTGCCAATATAACTGGGCTTAATCATCTT
66 CTTGGATGCCAGGTAAATTGGGCTTAATCT-CTT-TATGCCAACATAACTGGGCTTAATCATCTT
* * *
17016671 GGATGCCAGCAAAATTGGGCTTAATCGTCTTTATGCCAATATAATTGGGCTTAAT
129 GGATGCCAGCTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
* * *
17016726 CATCTTGGATGCTAGTTAAATTGGGCTTAAGCTCTTTTTGTGCCAACATAACTGGACTTATACAT
1 CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCCAACGTAACTGGACTTATACAT
* *
17016791 ATTGGATGCTA-G-AAATTGGGCTTAA
66 CTTGGATGCCAGGTAAATTGGGCTTAA
17016816 GACTCAAATA
Statistics
Matches: 989, Mismatches: 147, Indels: 118
0.79 0.12 0.09
Matches are distributed among these distances:
181 1 0.00
182 25 0.03
183 94 0.10
184 716 0.72
185 135 0.14
186 16 0.02
187 1 0.00
188 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (183 bp):
CATCTTGGATGCCAGTTAAATTGGGCTTAAGCTCATTTTGTGCCAACGTAACTGGACTTATACAT
CTTGGATGCCAGGTAAATTGGGCTTAATCTCTTTATGCCAACATAACTGGGCTTAATCATCTTGG
ATGCCAGCTAAATTGGGCTTAATCATCTTTATGCCAATATAACTGGGCTTAAT
Found at i:17016001 original size:276 final size:275
Alignment explanation
Indices: 17015520--17016356 Score: 1206
Period size: 276 Copynumber: 3.0 Consensus size: 275
17015510 CCAGCTAAAT
* * * * * * * *
17015520 TGGGCTTAAACTCCTTTTGTGCCAACATAACTGGGCTTAAATATCTTGGATGCCAGCGAAATTGG
1 TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCTAAATTAG
* * * * * **
17015585 GCTTAATCGTCTTTATGCCAATATAATTGGGCTTAATCATCTCGGATGCCAGTTAAATTGGGCTT
66 GCTTAAAC-TCTTTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCTT
** * * * * *
17015650 AA--GCTCATTT-TGTGCTAACGTAACTGGACTT-ATACATCTTGGATGCCAGGTAAATTAGGCT
130 AATTG-TC-TTTATGT-C-AATATAACTGGGCTTAAT-CATCTTGGATGCTAGTTAAATTGGGTT
* ** * ** *
17015711 TAA--TCGTCTTTATGCCAATATAACTGGGCTTA-ATCATCTTGGATGCCA-TTTAAATTGAGCT
190 TAAGCTCCT-TTTATGCCAACGTAACTGGACTTATA-CATCTTGGATGCCAGCGT-AATTGGGCT
17015772 TAATCATCTTTATGCCAATATAAC
252 TAATCATCTTTATGCCAATATAAC
*
17015796 TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGAACTTATACATCTTGGATGCCAGCTAAATTAG
1 TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCTAAATTAG
17015861 GCTTAAACATCTTTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCTT
66 GCTTAAAC-TCTTTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCTT
17015926 AATTGTCTTTATGTCAATATAACTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGTTTAAGC
130 AATTGTCTTTATGTCAATATAACTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGTTTAAGC
17015991 TCCTTTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCATC
195 TCCTTTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCATC
17016056 TTTATGCCAATATAAC
260 TTTATGCCAATATAAC
* *
17016072 TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTTATACATCTTGAATGCTAGCTAAATTAG
1 TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCTAAATTAG
17016137 GCTT-AACTCCTTCTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCT
66 GCTTAAACT-CTT-TGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCT
*
17016201 TAATTGTCTTTATGTCAATATAACTGGGCTTATTCATCTTGGATGCTAGTTAAATTGGGTTTAAG
129 TAATTGTCTTTATGTCAATATAACTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGTTTAAG
17016266 CTCCTTTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCAT
194 CTCCTTTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCAT
17016331 CTTTATGCCAATATAAC
259 CTTTATGCCAATATAAC
17016348 TGGGCTTAA
1 TGGGCTTAA
17016357 TCATCTTGGA
Statistics
Matches: 516, Mismatches: 35, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
274 1 0.00
275 44 0.09
276 460 0.89
277 10 0.02
278 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (275 bp):
TGGGCTTAAGCTCCCTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCTAAATTAG
GCTTAAACTCTTTGTGCCAATATAACTAGGCTTAATCATCTTGGATGCCAGCGAAATTGGGCTTA
ATTGTCTTTATGTCAATATAACTGGGCTTAATCATCTTGGATGCTAGTTAAATTGGGTTTAAGCT
CCTTTTATGCCAACGTAACTGGACTTATACATCTTGGATGCCAGCGTAATTGGGCTTAATCATCT
TTATGCCAATATAAC
Found at i:17017959 original size:12 final size:12
Alignment explanation
Indices: 17017930--17017958 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
17017920 TTTTCACTCA
17017930 CTTTTTCTTTCT
1 CTTTTTCTTTCT
17017942 CTTTTTC-TTCT
1 CTTTTTCTTTCT
17017953 CTTTTT
1 CTTTTT
17017959 TTTTTCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTCTTTCT
Found at i:17023175 original size:17 final size:16
Alignment explanation
Indices: 17023123--17023182 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
17023113 CTTGTGAAGC
17023123 TTATTT-TTA-TTTTT
1 TTATTTATTATTTTTT
*
17023137 TTA-TTATATATATTTT
1 TTATTTAT-TATTTTTT
*
17023153 TCATTTATTATTTTTT
1 TTATTTATTATTTTTT
17023169 GTTATTTATT-TTTT
1 -TTATTTATTATTTT
17023183 ATCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.05
14 4 0.11
15 2 0.05
16 17 0.46
17 12 0.32
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
TTATTTATTATTTTTT
Found at i:17023184 original size:21 final size:22
Alignment explanation
Indices: 17023155--17023196 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17023145 TATATTTTTC
17023155 ATTTATTAT-TTTTTGTTATTT
1 ATTTATTATCTTTTTGTTATTT
* *
17023176 ATTTTTTATCTTTTTTTTATT
1 ATTTATTATCTTTTTGTTATT
17023197 CTAAGTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
ATTTATTATCTTTTTGTTATTT
Found at i:17039678 original size:20 final size:20
Alignment explanation
Indices: 17039634--17039679 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17039624 AATATTATTT
*
17039634 AATTAATTTAATAAAAGATT
1 AATTAATTTAATAAAAGATA
*
17039654 AATTAATTTAA-AAAATATA
1 AATTAATTTAATAAAAGATA
17039673 ATATTAA
1 A-ATTAA
17039680 GTTATGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTAATTTAATAAAAGATA
Found at i:17046992 original size:20 final size:20
Alignment explanation
Indices: 17046967--17047004 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17046957 TGAAGAAAAG
17046967 AGAAAAACCAAAGGAAAACT
1 AGAAAAACCAAAGGAAAACT
**
17046987 AGAAAATTCAAAGGAAAA
1 AGAAAAACCAAAGGAAAA
17047005 ATCGCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.16, T:0.08
Consensus pattern (20 bp):
AGAAAAACCAAAGGAAAACT
Found at i:17050612 original size:20 final size:20
Alignment explanation
Indices: 17050587--17050628 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17050577 GTTTAATTAT
*
17050587 TTAATTAATTTAA-TAAAACC
1 TTAATTAATATAACT-AAACC
17050607 TTAATTAATATAACTAAACC
1 TTAATTAATATAACTAAACC
17050627 TT
1 TT
17050629 TATTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATTAATATAACTAAACC
Found at i:17052465 original size:28 final size:27
Alignment explanation
Indices: 17052434--17052486 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17052424 TTTTGAGTAA
*
17052434 AAGGGTAAAATGGTAATTTTGCCACCCT
1 AAGGGCAAAATGGTAATTTT-CCACCCT
*
17052462 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
17052487 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCCT
Found at i:17062952 original size:20 final size:20
Alignment explanation
Indices: 17062907--17062944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17062897 TTTTGGCCCC
17062907 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
17062927 ATTTGACTTATTTGAGTA
1 ATTTGACTTATTGGAGTA
17062945 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:17063034 original size:28 final size:27
Alignment explanation
Indices: 17062997--17063049 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17062987 TTTGGAGTAA
*
17062997 AAGGGTAAAATGGTAATTTTACCACCCC
1 AAGGGCAAAATGGTAATTTT-CCACCCC
*
17063025 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
17063050 ACCAGGCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCCC
Found at i:17074473 original size:12 final size:12
Alignment explanation
Indices: 17074451--17074491 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
17074441 ATGGTCGGCC
17074451 ATAAG-GAGAAA
1 ATAAGAGAGAAA
17074462 ATAAGAGAGAAA
1 ATAAGAGAGAAA
*
17074474 AT-AGAGAGGAA
1 ATAAGAGAGAAA
17074485 ATGAAGA
1 AT-AAGA
17074492 AAAGAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.58
12 8 0.31
13 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.10
Consensus pattern (12 bp):
ATAAGAGAGAAA
Found at i:17080558 original size:19 final size:19
Alignment explanation
Indices: 17080534--17080571 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17080524 TCATTTGACT
17080534 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
17080553 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
17080572 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:17080672 original size:28 final size:28
Alignment explanation
Indices: 17080614--17080673 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
17080604 ATTTAGAGTA
* *
17080614 TAGGGGTAAAATGGTAATTTTATCACCC
1 TAGGGGCAAAATGGTAATTTTACCACCC
*
17080642 TAGGGGCAAAATTGTAATTTT-CCACCAC
1 TAGGGGCAAAATGGTAATTTTACCACC-C
17080670 TAGG
1 TAGG
17080674 ACATTTGTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (28 bp):
TAGGGGCAAAATGGTAATTTTACCACCC
Found at i:17085149 original size:20 final size:20
Alignment explanation
Indices: 17085124--17085169 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
17085114 ATTTGGCCCC
17085124 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
* *
17085144 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTAGAGTATA
17085164 ATTTGA
1 ATTTGA
17085170 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:17085245 original size:28 final size:28
Alignment explanation
Indices: 17085214--17085272 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
17085204 TTTGAAGTAT
*
17085214 AGGGGTAAAACGGTAATTTTACCACC-CC
1 AGGGGCAAAACGGTAATTTT-CCACCACC
**
17085242 AGGGGCAAAATTGTAATTTTCCACCACC
1 AGGGGCAAAACGGTAATTTTCCACCACC
17085270 AGG
1 AGG
17085273 ATATTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (28 bp):
AGGGGCAAAACGGTAATTTTCCACCACC
Found at i:17088781 original size:18 final size:20
Alignment explanation
Indices: 17088760--17088802 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17088750 AAAAATAGAA
17088760 TATTTTATT-AAA-TATTAT
1 TATTTTATTCAAACTATTAT
17088778 TATTTTATTCAAACTATTAT
1 TATTTTATTCAAACTATTAT
*
17088798 AATTT
1 TATTT
17088803 CGTTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTATTCAAACTATTAT
Found at i:17094883 original size:2 final size:2
Alignment explanation
Indices: 17094876--17094909 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17094866 TTCTTGAATA
17094876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17094910 TATTTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17106289 original size:61 final size:61
Alignment explanation
Indices: 17106177--17106403 Score: 244
Period size: 61 Copynumber: 3.8 Consensus size: 61
17106167 AGGGCTTGAA
* * * * ** *
17106177 CATTCTGTTGGAAATGTATCAATACATTTG-CTAATGTATTGATACTTTTGAGGCAGTAAG
1 CATTCTATTGAAAATGTATCGATATATTTGAGAAATGTATCGATACTTTTGAGGCAGTAAG
* * *
17106237 TATTCTATTAAAAATGTATCGATATATTTGAGAAATGTATCGATACTTTTGAGACAGTAAG
1 CATTCTATTGAAAATGTATCGATATATTTGAGAAATGTATCGATACTTTTGAGGCAGTAAG
* * *
17106298 CATTCTGTTGAAAATGTA-CTGATACATTTGAGAAATGTATCGATACTTTTAAGGCAGTAAG
1 CATTCTATTGAAAATGTATC-GATATATTTGAGAAATGTATCGATACTTTTGAGGCAGTAAG
* * ** * * *
17106359 CATTTTATTGCATTTCTATTGATATATTTGAG-AATATATCGATAC
1 CATTCTATTGAAAATGTATCGATATATTTGAGAAATGTATCGATAC
17106404 ATTGAGTTTA
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
60 37 0.27
61 102 0.73
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (61 bp):
CATTCTATTGAAAATGTATCGATATATTTGAGAAATGTATCGATACTTTTGAGGCAGTAAG
Found at i:17106343 original size:21 final size:21
Alignment explanation
Indices: 17106248--17106343 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
17106238 ATTCTATTAA
*
17106248 AAATGTATCGATATATTTGAG
1 AAATGTATCGATACATTTGAG
*
17106269 AAATGTATCGATACTTTTGAG
1 AAATGTATCGATACATTTGAG
* * *
17106290 ACA-GTA-AGCATTC-TGTTGA-
1 AAATGTATCG-ATACAT-TTGAG
17106309 AAATGTA-CTGATACATTTGAG
1 AAATGTATC-GATACATTTGAG
17106330 AAATGTATCGATAC
1 AAATGTATCGATAC
17106344 TTTTAAGGCA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
19 4 0.07
20 20 0.33
21 35 0.58
22 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTTGAG
Found at i:17107098 original size:61 final size:61
Alignment explanation
Indices: 17107018--17107212 Score: 257
Period size: 61 Copynumber: 3.2 Consensus size: 61
17107008 TACATTTGCT
* * * *
17107018 AATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGA
1 AATGTATCGATACTTTTGAGGCAGTAAGCATTCTATTGAAAATGTATTGATATATTTGAGA
* * *
17107079 AATGTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTATTGATACATTTGAGA
1 AATGTATCGATACTTTTGAGGCAGTAAGCATTCTATTGAAAATGTATTGATATATTTGAGA
* * * ** *
17107140 AATGTATCGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAG-
1 AATGTATCGATACTTTTGAGGCAGTAAGCATTCTATTGAAAATGTATTGATATATTTGAGA
*
17107200 AATATATCGATAC
1 AATGTATCGATAC
17107213 ATTGAGTTTA
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
60 12 0.10
61 105 0.90
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (61 bp):
AATGTATCGATACTTTTGAGGCAGTAAGCATTCTATTGAAAATGTATTGATATATTTGAGA
Found at i:17107152 original size:21 final size:21
Alignment explanation
Indices: 17107057--17107152 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
17107047 ATTCTATTAA
*
17107057 AAATGTATCGATATATTTGAG
1 AAATGTATCGATACATTTGAG
*
17107078 AAATGTATCGATACTTTTGAG
1 AAATGTATCGATACATTTGAG
* * *
17107099 ACA-GTA-AGCATTC-TGTTGA-
1 AAATGTATCG-ATACAT-TTGAG
*
17107118 AAATGTATTGATACATTTGAG
1 AAATGTATCGATACATTTGAG
17107139 AAATGTATCGATAC
1 AAATGTATCGATAC
17107153 TTTTAAGGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 4 0.07
20 20 0.33
21 36 0.60
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTTGAG
Found at i:17107180 original size:809 final size:809
Alignment explanation
Indices: 17105623--17107244 Score: 3199
Period size: 809 Copynumber: 2.0 Consensus size: 809
17105613 AAACACAACC
17105623 TTTCAATACAATACCTTTTTATGGTTAAAGCATAACCACTTTTCCTTTTATCTTGGTTAAGGTAT
1 TTTCAATACAATACCTTTTTATGGTTAAAGCATAACCACTTTTCCTTTTATCTTGGTTAAGGTAT
17105688 AACTACTTAATTTTTACCTTTTCAATTGGCTAAGGTATAATCACTTAAGTGAATACAATAAGAAA
66 AACTACTTAATTTTTACCTTTTCAATTGGCTAAGGTATAATCACTTAAGTGAATACAATAAGAAA
17105753 TAAAAATCCAGTTAGGATGCCTTTTAAAGGCTAAATAGTAAGTTAAGTACAATATTTGGTGAGAA
131 TAAAAATCCAGTTAGGATGCCTTTTAAAGGCTAAATAGTAAGTTAAGTACAATATTTGGTGAGAA
17105818 GAAAGATAAGTAATAAAGTCTTTGTAAATAGTACAATAGAAGACTTAAACACAAGAAGAGAGGTA
196 GAAAGATAAGTAATAAAGTCTTTGTAAATAGTACAATAGAAGACTTAAACACAAGAAGAGAGGTA
17105883 TAAAGAGTATTGAGATGAATTCTTTTCTTAGAGTTGTGTTTCAAGTCTTGCAACCTTCATAAATG
261 TAAAGAGTATTGAGATGAATTCTTTTCTTAGAGTTGTGTTTCAAGTCTTGCAACCTTCATAAATG
17105948 TTATGGGAGCTTGTAATTATAGTTGTTGAAGCTTTAAGGATAGTTAGGAGTGCATTAAATGTGAA
326 TTATGGGAGCTTGTAATTATAGTTGTTGAAGCTTTAAGGATAGTTAGGAGTGCATTAAATGTGAA
17106013 AATAATCGTTTTTCTTTTCATTTTAGGTTTCAATGGTCACATTGTATCGATACACGTGTGCATGT
391 AATAATCGTTTTTCTTTTCATTTTAGGTTTCAATGGTCACATTGTATCGATACACGTGTGCATGT
*
17106078 ATCGATATATTGCCTCTTTTATTTTTTAATTCCCATTATAATGTATCGACACATTCTGGCATGTA
456 ATAGATATATTGCCTCTTTTATTTTTTAATTCCCATTATAATGTATCGACACATTCTGGCATGTA
17106143 TCGATAGTTTTGAACTTGGCTACTAGGGCTTGAACATTCTGTTGGAAATGTATCAATACATTTGC
521 TCGATAGTTTTGAACTTGGCTACTAGGGCTTGAACATTCTGTTGGAAATGTATCAATACATTTGC
17106208 TAATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGAAAT
586 TAATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGAAAT
17106273 GTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTACTGATACATTTGAGAAATGTAT
651 GTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTACTGATACATTTGAGAAATGTAT
17106338 CGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAGAATATATCGATA
716 CGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAGAATATATCGATA
17106403 CATTGAGTTTAGCTTTGCAAATTCTGACT
781 CATTGAGTTTAGCTTTGCAAATTCTGACT
17106432 TTTCAATACAATACCTTTTTATGGTTAAAGCATAACCACTTTTCCTTTTATCTTGGTTAAGGTAT
1 TTTCAATACAATACCTTTTTATGGTTAAAGCATAACCACTTTTCCTTTTATCTTGGTTAAGGTAT
17106497 AACTACTTAATTTTTACCTTTTCAATTGGCTAAGGTATAATCACTTAAGTGAATACAATAAGAAA
66 AACTACTTAATTTTTACCTTTTCAATTGGCTAAGGTATAATCACTTAAGTGAATACAATAAGAAA
17106562 TAAAAATCCAGTTAGGATGCCTTTTAAAGGCTAAATAGTAAGTTAAGTACAATATTTGGTGAGAA
131 TAAAAATCCAGTTAGGATGCCTTTTAAAGGCTAAATAGTAAGTTAAGTACAATATTTGGTGAGAA
17106627 GAAAGATAAGTAATAAAGTCTTTGTAAATAGTACAATAGAAGACTTAAACACAAGAAGAGAGGTA
196 GAAAGATAAGTAATAAAGTCTTTGTAAATAGTACAATAGAAGACTTAAACACAAGAAGAGAGGTA
17106692 TAAAGAGTATTGAGATGAATTCTTTTCTTAGAGTTGTGTTTCAAGTCTTGCAACCTTCATAAATG
261 TAAAGAGTATTGAGATGAATTCTTTTCTTAGAGTTGTGTTTCAAGTCTTGCAACCTTCATAAATG
17106757 TTATGGGAGCTTGTAATTATAGTTGTTGAAGCTTTAAGGATAGTTAGGAGTGCATTAAATGTGAA
326 TTATGGGAGCTTGTAATTATAGTTGTTGAAGCTTTAAGGATAGTTAGGAGTGCATTAAATGTGAA
17106822 AATAATCGTTTTTCTTTTCATTTTAGGTTTCAATGGTCACATTGTATCGATACACGTGTGCATGT
391 AATAATCGTTTTTCTTTTCATTTTAGGTTTCAATGGTCACATTGTATCGATACACGTGTGCATGT
*
17106887 ATAGATATATTGCCTCTTTTATTTTTTAATTCCCATTATAATGTATCGATACATTCTGGCATGTA
456 ATAGATATATTGCCTCTTTTATTTTTTAATTCCCATTATAATGTATCGACACATTCTGGCATGTA
* *
17106952 TCGATAGTTTTGAACTTGGCTGCTAGGGCTTGAACATTCTGTTGGAAATGTATCAGTACATTTGC
521 TCGATAGTTTTGAACTTGGCTACTAGGGCTTGAACATTCTGTTGGAAATGTATCAATACATTTGC
17107017 TAATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGAAAT
586 TAATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGAAAT
*
17107082 GTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTATTGATACATTTGAGAAATGTAT
651 GTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTACTGATACATTTGAGAAATGTAT
17107147 CGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAGAATATATCGATA
716 CGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAGAATATATCGATA
17107212 CATTGAGTTTAGCTTTGCAAATTCTGACT
781 CATTGAGTTTAGCTTTGCAAATTCTGACT
17107241 TTTC
1 TTTC
17107245 TCAAGAACAT
Statistics
Matches: 808, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
809 808 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (809 bp):
TTTCAATACAATACCTTTTTATGGTTAAAGCATAACCACTTTTCCTTTTATCTTGGTTAAGGTAT
AACTACTTAATTTTTACCTTTTCAATTGGCTAAGGTATAATCACTTAAGTGAATACAATAAGAAA
TAAAAATCCAGTTAGGATGCCTTTTAAAGGCTAAATAGTAAGTTAAGTACAATATTTGGTGAGAA
GAAAGATAAGTAATAAAGTCTTTGTAAATAGTACAATAGAAGACTTAAACACAAGAAGAGAGGTA
TAAAGAGTATTGAGATGAATTCTTTTCTTAGAGTTGTGTTTCAAGTCTTGCAACCTTCATAAATG
TTATGGGAGCTTGTAATTATAGTTGTTGAAGCTTTAAGGATAGTTAGGAGTGCATTAAATGTGAA
AATAATCGTTTTTCTTTTCATTTTAGGTTTCAATGGTCACATTGTATCGATACACGTGTGCATGT
ATAGATATATTGCCTCTTTTATTTTTTAATTCCCATTATAATGTATCGACACATTCTGGCATGTA
TCGATAGTTTTGAACTTGGCTACTAGGGCTTGAACATTCTGTTGGAAATGTATCAATACATTTGC
TAATGTATTGATACTTTTGAGGCAGTAAGTATTCTATTAAAAATGTATCGATATATTTGAGAAAT
GTATCGATACTTTTGAGACAGTAAGCATTCTGTTGAAAATGTACTGATACATTTGAGAAATGTAT
CGATACTTTTAAGGCAGTAAGCATTTTATTGCATTTCTATTGATATATTTGAGAATATATCGATA
CATTGAGTTTAGCTTTGCAAATTCTGACT
Found at i:17110867 original size:3 final size:3
Alignment explanation
Indices: 17110859--17110893 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
17110849 TAAATATAGT
* *
17110859 TAC TAC TAC TAC TAC TAC TAC TAT TAC TAC CAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
17110894 GTAGTAGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:17112308 original size:12 final size:11
Alignment explanation
Indices: 17112290--17112329 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
17112280 GAGATCAATG
17112290 AAAATAAATAA
1 AAAATAAATAA
17112301 ATAAATAAAT-A
1 A-AAATAAATAA
*
17112312 AAAATAACTAA
1 AAAATAAATAA
17112323 AAAATAA
1 AAAATAA
17112330 GAGTTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 7 0.27
11 11 0.42
12 8 0.31
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:17112318 original size:18 final size:17
Alignment explanation
Indices: 17112295--17112329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17112285 CAATGAAAAT
17112295 AAATAAATAAATAAATAA
1 AAATAAATAAA-AAATAA
*
17112313 AAATAACTAAAAAATAA
1 AAATAAATAAAAAATAA
17112330 GAGTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAATAAAAAATAA
Found at i:17112826 original size:20 final size:21
Alignment explanation
Indices: 17112803--17112855 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
17112793 TTCTGCTTGA
*
17112803 CTTTG-AATGATGGCATTAGT
1 CTTTGTAATGAAGGCATTAGT
*
17112823 CTTTGTCATGAAGGCATTAGT
1 CTTTGTAATGAAGGCATTAGT
*
17112844 CTTTGTCATGAA
1 CTTTGTAATGAA
17112856 TTGCATGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (21 bp):
CTTTGTAATGAAGGCATTAGT
Found at i:17112838 original size:21 final size:21
Alignment explanation
Indices: 17112809--17112855 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
17112799 TTGACTTTGA
*
17112809 ATGATGGCATTAGTCTTTGTC
1 ATGAAGGCATTAGTCTTTGTC
17112830 ATGAAGGCATTAGTCTTTGTC
1 ATGAAGGCATTAGTCTTTGTC
17112851 ATGAA
1 ATGAA
17112856 TTGCATGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
ATGAAGGCATTAGTCTTTGTC
Found at i:17116903 original size:2 final size:2
Alignment explanation
Indices: 17116896--17116920 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17116886 CAAAAGGCAC
17116896 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17116921 AAAGAGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17129498 original size:24 final size:24
Alignment explanation
Indices: 17129456--17129506 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17129446 TCAACAAATC
*
17129456 TTTGACAGTTATACCAAGATCGTT
1 TTTGACAGTTATACCAAGATCATT
***
17129480 TTTGACAGTTATGTGAAGATCATT
1 TTTGACAGTTATACCAAGATCATT
17129504 TTT
1 TTT
17129507 AAGGAGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (24 bp):
TTTGACAGTTATACCAAGATCATT
Found at i:17134665 original size:18 final size:18
Alignment explanation
Indices: 17134642--17134679 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17134632 TATTTGTAAA
17134642 TATT-AATAATTAATAATT
1 TATTAAATAA-TAATAATT
*
17134660 TATTAAATAATATTAATT
1 TATTAAATAATAATAATT
17134678 TA
1 TA
17134680 AATATGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAAATAATAATAATT
Found at i:17134702 original size:26 final size:24
Alignment explanation
Indices: 17134672--17134734 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 24
17134662 TTAAATAATA
17134672 TTAATTTAAATATGAATATTTTATT
1 TTAATTTAAATATGAATATTTTA-T
*
17134697 TATAATTT-AATCATTAATATTTTAT
1 T-TAATTTAAAT-ATGAATATTTTAT
17134722 TTAATTTAAATAT
1 TTAATTTAAATAT
17134735 TATCATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 9 0.26
26 17 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAATTTAAATATGAATATTTTAT
Found at i:17134749 original size:26 final size:24
Alignment explanation
Indices: 17134667--17134749 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 24
17134657 ATTTATTAAA
*
17134667 TAATATTAATTTAAATATGAATATTT
1 TAAT-TTAATTTAAATAT-TATATTT
*
17134693 TATTTATAATTT-AATCATTAATATTT
1 TAATT-TAATTTAAAT-ATT-ATATTT
17134719 T-ATTTAATTTAAATATTATCATTAT
1 TAATTTAATTTAAATATTAT-ATT-T
17134744 TAATTT
1 TAATTT
17134750 TTTATTTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
23 2 0.04
24 12 0.26
25 11 0.23
26 22 0.47
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (24 bp):
TAATTTAATTTAAATATTATATTT
Found at i:17134817 original size:26 final size:26
Alignment explanation
Indices: 17134763--17134828 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
17134753 ATTTTATTTT
*
17134763 ATTT-TTTAAATATTAATAATTGATC
1 ATTTATTTAAATATTAATAATTGATA
17134788 ATTTATTTAAAATATTAATAA-T-ATA
1 ATTTATTT-AAATATTAATAATTGATA
17134813 A---ATTTAAATATTAATA
1 ATTTATTTAAATATTAATA
17134829 TTTTATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 11 0.29
22 4 0.11
25 7 0.18
26 4 0.11
27 12 0.32
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTTATTTAAATATTAATAATTGATA
Found at i:17134876 original size:21 final size:20
Alignment explanation
Indices: 17134789--17135033 Score: 85
Period size: 22 Copynumber: 12.4 Consensus size: 20
17134779 TAATTGATCA
17134789 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAAT-AT
**
17134810 ATAAATTT-AAATATTAATAT
1 -TTTATTTAAAATATTAATAT
* *
17134830 TTTATTTATAAT-TTAACCAT
1 TTTATTTAAAATATTAA-TAT
17134850 TATTATTTTAAAATATTAATAT
1 T-TTA-TTTAAAATATTAATAT
17134872 TTTA-TT-AAAT-TTAA-A-
1 TTTATTTAAAATATTAATAT
**
17134887 --TA-TTACTATGATTAAT-T
1 TTTATTTAAAAT-ATTAATAT
* * *
17134904 TTTATTT--TAT-TTTATTT
1 TTTATTTAAAATATTAATAT
** * *
17134921 TTTAACTATAAATAATTGATAA
1 TTTATTTA-AAAT-ATTAATAT
17134943 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAAT-AT
*
17134964 TGATAATTT-AAATATTAATAT
1 T--TTATTTAAAATATTAATAT
*
17134985 TTTATTT--AAT-TTAGTCAT
1 TTTATTTAAAATATTAAT-AT
* *
17135003 TAATATTTTAAAATACTAATAT
1 T-TTA-TTTAAAATATTAATAT
17135025 TTTATTTAA
1 TTTATTTAA
17135034 TTTAAATATT
Statistics
Matches: 167, Mismatches: 28, Indels: 58
0.66 0.11 0.23
Matches are distributed among these distances:
13 4 0.02
14 2 0.01
16 9 0.05
17 14 0.08
18 13 0.08
19 20 0.12
20 25 0.15
21 27 0.16
22 41 0.25
23 12 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTATTTAAAATATTAATAT
Found at i:17134887 original size:155 final size:154
Alignment explanation
Indices: 17134709--17135090 Score: 567
Period size: 154 Copynumber: 2.5 Consensus size: 154
17134699 TAATTTAATC
*
17134709 ATTAATATTTTATTTAATTTAAATATTATCATTATTAATTTTTTATTTTATTTTATTTTTTAAAT
1 ATTAATATTTTATTTAATTTAAATATTATCATGATTAATTTTTTATTTTATTTTATTTTTTAAAT
*
17134774 ATTAATAATTGATCATTTATTTAAAATATTAATAA-T-ATAAATTTAAATATTAATATTTTATTT
66 ATTAATAATTGATAATTTATTTAAAATATTAATAATTGAT-AATTTAAATATTAATATTTTA-TT
*
17134837 ATAATTTAACCATTATTATTTTAAAAT
129 -TAATTTAACCATTAATATTTTAAAAT
* *
17134864 ATTAATATTTTATTAAATTTAAATATTA-CTATGATTAA-TTTTTATTTTATTTTATTTTTTAAC
1 ATTAATATTTTATTTAATTTAAATATTATC-ATGATTAATTTTTTATTTTATTTTATTTTTTAAA
*
17134927 TATAAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTT
65 TATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTT
**
17134992 AATTTAGTCATTAATATTTTAAAAT
130 AATTTAACCATTAATATTTTAAAAT
* * * *
17135017 ACTAATATTTTATTTAATTTAAATATTATTATGATCAATTTCTTTATTTTATTTTA-TTTTCAAA
1 ATTAATATTTTATTTAATTTAAATATTATCATGATTAATTT-TTTATTTTATTTTATTTTTTAAA
*
17135081 TTTTAATAAT
65 TATTAATAAT
17135091 AGTTAAGTAA
Statistics
Matches: 205, Mismatches: 16, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
153 56 0.27
154 77 0.38
155 70 0.34
156 2 0.01
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (154 bp):
ATTAATATTTTATTTAATTTAAATATTATCATGATTAATTTTTTATTTTATTTTATTTTTTAAAT
ATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTTA
ATTTAACCATTAATATTTTAAAAT
Found at i:17134981 original size:80 final size:78
Alignment explanation
Indices: 17134741--17134996 Score: 215
Period size: 80 Copynumber: 3.3 Consensus size: 78
17134731 ATATTATCAT
* *
17134741 TATTAATTTTTTATTTTATTTTATTTTTTAAATATTAATAATTGATCATTTATTTAAAATATTAA
1 TATTAA-TTTTTATTTTATTTTATTTTTTAACTA-TAATAATTGATAATTTATTTAAAATATTAA
17134806 TAA-TATAAATTTAAA
64 TAATTAT-AATTTAAA
** * * * * ** * * *
17134821 TATTAA----TATTTTA-TTTATAATTTAACCATTATTATT-TTAAAATA-TTAATATTTTATTA
1 TATTAATTTTTATTTTATTTTATTTTTTAACTATAATAATTGATAATTTATTTAAAATATTAAT-
*
17134879 AATT-TAAATATTACTA
65 AATTAT-AAT-TTA-AA
17134895 TGATTAATTTTTATTTTATTTTATTTTTTAACTATAAATAATTGATAATTTATTTAAAATATTAA
1 T-ATTAATTTTTATTTTATTTTATTTTTTAACTAT-AATAATTGATAATTTATTTAAAATATTAA
17134960 TAATTGATAATTTAAA
64 TAATT-ATAATTTAAA
*
17134976 TATTAATATTTTATTTAATTT
1 TATTAAT-TTTTATTTTATTT
17134997 AGTCATTAAT
Statistics
Matches: 133, Mismatches: 27, Indels: 31
0.70 0.14 0.16
Matches are distributed among these distances:
71 10 0.08
72 11 0.08
73 10 0.08
74 13 0.10
75 12 0.09
79 7 0.05
80 25 0.19
81 19 0.14
82 12 0.09
83 13 0.10
84 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (78 bp):
TATTAATTTTTATTTTATTTTATTTTTTAACTATAATAATTGATAATTTATTTAAAATATTAATA
ATTATAATTTAAA
Found at i:17135050 original size:153 final size:155
Alignment explanation
Indices: 17134711--17135076 Score: 569
Period size: 155 Copynumber: 2.4 Consensus size: 155
17134701 ATTTAATCAT
* *
17134711 TAATATTTTATTTAATTTAAATATTATCATTATTAATTTTTTATTTTATTTTATTTTTTAAATAT
1 TAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTTTAAATAT
* *
17134776 TAATAATTGATCATTTATTTAAAATATTAATAATATAAATTTAAATATTAATATTTTATTTATAA
66 AAATAATTGATAATTTATTTAAAATATTAATAATATAAATTTAAATATTAATATTTTATTTATAA
* *
17134841 TTTAACCATTATTATTTTAAAATAT
131 TTTAACCATTAATATTTTAAAATAC
* * *
17134866 TAATATTTTATTAAATTTAAATATTACTATGATTAA-TTTTTATTTTATTTTATTTTTTAACTAT
1 TAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTTTAAATAT
17134930 AAATAATTGATAATTTATTTAAAATATTAATAAT-TGATAATTTAAATATTAATATTTTA-TT-T
66 AAATAATTGATAATTTATTTAAAATATTAATAATAT-A-AATTTAAATATTAATATTTTATTTAT
**
17134992 AATTTAGTCATTAATATTTTAAAATAC
129 AATTTAACCATTAATATTTTAAAATAC
*
17135019 TAATATTTTATTTAATTTAAATATTATTATGATCAATTTCTTTATTTTATTTTATTTT
1 TAATATTTTATTTAATTTAAATATTATTATGATTAATTT-TTTATTTTATTTTATTTT
17135077 CAAATTTTAA
Statistics
Matches: 193, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
153 58 0.30
154 64 0.33
155 71 0.37
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (155 bp):
TAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTTTAAATAT
AAATAATTGATAATTTATTTAAAATATTAATAATATAAATTTAAATATTAATATTTTATTTATAA
TTTAACCATTAATATTTTAAAATAC
Found at i:17135129 original size:24 final size:23
Alignment explanation
Indices: 17135100--17135241 Score: 77
Period size: 24 Copynumber: 6.3 Consensus size: 23
17135090 TAGTTAAGTA
17135100 AAATATTAATATTTTATTTAGTTT
1 AAATATTAATATTTTATTTA-TTT
* * *
17135124 AAATATTATTATGATTAATTATTT
1 AAATATTAATAT-TTTATTTATTT
* *
17135148 ---TATT-ATATTTT-TTAAATACT
1 AAATATTAATATTTTATT-TAT-TT
* * *
17135168 AATTATTGATAATTTATTTA---
1 AAATATTAATATTTTATTTATTT
* * *
17135188 AAATATTAATAATTGA-TCATTT
1 AAATATTAATATTTTATTTATTT
17135210 AAATATTAATATTTTATTTAATTT
1 AAATATTAATATTTTATTT-ATTT
17135234 AAATATTA
1 AAATATTA
17135242 TTATGATAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 17 0.19
21 4 0.05
22 14 0.16
23 5 0.06
24 33 0.38
25 8 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
AAATATTAATATTTTATTTATTT
Found at i:17135197 original size:27 final size:25
Alignment explanation
Indices: 17135147--17135210 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
17135137 ATTAATTATT
17135147 TTATT-ATATTT-TTTAAATACTAA
1 TTATTGATATTTATTTAAATACTAA
*
17135170 TTATTGATAATTTATTTAAAATATTAA
1 TTATTGAT-ATTTATTT-AAATACTAA
*
17135197 TAATTGATCATTTA
1 TTATTGAT-ATTTA
17135211 AATATTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.15
24 2 0.06
25 4 0.12
26 3 0.09
27 20 0.59
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (25 bp):
TTATTGATATTTATTTAAATACTAA
Found at i:17135216 original size:22 final size:22
Alignment explanation
Indices: 17135183--17135304 Score: 87
Period size: 22 Copynumber: 5.7 Consensus size: 22
17135173 TTGATAATTT
*
17135183 ATTTAAAATATTAATAATTGATC
1 ATTT-AAATATTAATAATTGATA
* *
17135206 ATTTAAATATTAATATTTTATTTA
1 ATTTAAATATTAATAATTGA--TA
*
17135230 ATTTAAATATT-ATTA-TGATA
1 ATTTAAATATTAATAATTGATA
* * *
17135250 ATTT--TTATT--TTATT-TTA
1 ATTTAAATATTAATAATTGATA
*
17135267 TTTTAAAATATTAATAATTGATA
1 ATTT-AAATATTAATAATTGATA
17135290 ATTTAAATATTAATA
1 ATTTAAATATTAATA
17135305 TTTTGTTTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
17 8 0.10
18 5 0.06
20 10 0.13
22 31 0.40
23 11 0.14
24 12 0.16
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTAAATATTAATAATTGATA
Found at i:17135227 original size:42 final size:42
Alignment explanation
Indices: 17135171--17135337 Score: 148
Period size: 42 Copynumber: 4.0 Consensus size: 42
17135161 AAATACTAAT
* * *
17135171 TATTGATAATTTATTTAAAATATTAATAATTGATCATTTAAA
1 TATTAATATTTTATTTAAAATATTAATAATTGATAATTTAAA
* *
17135213 TATTAATATTTTATTTAATTTAAATATT-ATTA-TGATAATTT--T
1 TATTAATATTTTATTT-A---AAATATTAATAATTGATAATTTAAA
*
17135255 TATT-TTATTTTATTTTAAAATATTAATAATTGATAATTTAAA
1 TATTAATATTTTA-TTTAAAATATTAATAATTGATAATTTAAA
* * * * *
17135297 TATTAATATTTTGTTTATAAT-TTAATCATTAATATTTTAAA
1 TATTAATATTTTATTTAAAATATTAATAATTGATAATTTAAA
17135338 ATANNNNNNN
Statistics
Matches: 101, Mismatches: 14, Indels: 21
0.74 0.10 0.15
Matches are distributed among these distances:
38 7 0.07
39 3 0.03
40 9 0.09
41 25 0.25
42 32 0.32
43 7 0.07
44 8 0.08
45 3 0.03
46 7 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (42 bp):
TATTAATATTTTATTTAAAATATTAATAATTGATAATTTAAA
Found at i:17135259 original size:36 final size:40
Alignment explanation
Indices: 17135219--17135293 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
17135209 TAAATATTAA
*
17135219 TATTTTA-TTTAATTT-AAATATT-ATTA-TGATAATTTT
1 TATTTTATTTTAATTTAAAATATTAATAATTGATAATTTT
*
17135255 TATTTTATTTTATTTTAAAATATTAATAATTGATAATTT
1 TATTTTATTTTAATTTAAAATATTAATAATTGATAATTT
17135294 AAATATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 7 0.21
37 7 0.21
38 7 0.21
39 3 0.09
40 9 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (40 bp):
TATTTTATTTTAATTTAAAATATTAATAATTGATAATTTT
Found at i:17135320 original size:110 final size:109
Alignment explanation
Indices: 17135100--17135335 Score: 282
Period size: 110 Copynumber: 2.1 Consensus size: 109
17135090 TAGTTAAGTA
* *
17135100 AAATATTAATATTTTATTTAGTTTAAATATTATTATGATTAATTATTTTATTATATTTTTTAAAT
1 AAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTTATTATATTTTTAAAAT
* ** *
17135165 ACTAATTATTGATAATTTATTTAAAATATTAATAATTGATCATTT
66 ACTAATAATTGATAATTTAAATAAAATATT-ATAATTGATAATTT
*
17135210 AAATATTAATATTTTATTTAATTTAAATATTATTATGA-TAATTTTTATTTTATTTTA-TTTTAA
1 AAATATTAATATTTTATTTAATTTAAATATTATTATGATTAA---TTATTTTATTATATTTTTAA
* * ** *
17135273 AATATTAATAATTGATAATTTAAATATTAATATT-TTGTTTATAATTT
63 AATACTAATAATTGATAATTTAAATA-AAATATTATAATTGATAATTT
17135320 -AATCATTAATATTTTA
1 AAAT-ATTAATATTTTA
17135336 AAATANNNNN
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
109 6 0.06
110 58 0.53
111 27 0.25
112 18 0.17
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (109 bp):
AAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTTATTATATTTTTAAAAT
ACTAATAATTGATAATTTAAATAAAATATTATAATTGATAATTT
Found at i:17135552 original size:26 final size:26
Alignment explanation
Indices: 17135516--17135568 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17135506 AACATTAATA
* **
17135516 ATTGATCATTTAAATATTAATATTTT
1 ATTGATAATTTAATCATTAATATTTT
17135542 ATTGATAATTTAATCATTAATATTTT
1 ATTGATAATTTAATCATTAATATTTT
17135568 A
1 A
17135569 AAATATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTGATAATTTAATCATTAATATTTT
Done.